Citrus Sinensis ID: 048126

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-------400-------410-------420-------430-------440-------450-------460-------470-------480-------490-------500-------510-------520-------530-------540-------550-------560-------570-------580-------590-------600-------610-------620-------630-------640-------650-------660-------670-------680-------690-------700-------710-------720-------730-------740-------750-------760-------770-------780-------790-------800-------810-------820-------830-------840-------850-------860---
Protein Sequence
YISQLEDNLPALQAQLQKLIESENDVMARVANAENQQMRQLNTVQGWLSRVEAVETEVGELMRDSSQEVDKLCPGGCCSKNCKSSFKFGKRVAKTLQLVNNLMGEGAFDAVAEKVRPPAVDQRPCEPTVGLESMFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGRRIGFLDESWKNGSLEDKASDILRILSKKKFLLLLDDIWERVDLTKVGVPFPDPENKSKIVFTTRFLEICGAMKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGLPLALITIGRAMTCKKTTQEWHHAIQILRRSSSEFPGMGKEVYPLLKFSYDSLPDDTIRSCFLYCGLFPEDYRIRKSELIDCWIGEGFLDQYDRSGAYNEGYYIIGILLHACLLEEEEGDIAEEKSGEHVVKMHDVIRDMVLWIACKIEKEKENFLVHAGLGLTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAITHLPIELQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRILKSNVLFGGHQFLVEELMGMKHLMALTITLKSWEALQELLISQELQRCTQSLFLRCFNDSKSLDIFCLACLHNLNKLYVAGRKHLEDFQMTVQRSSVNQLARGFHSLHTVKVGFCFKLKDLTWLVFAPSLKSIVVLSCCNMEQIIKAEKLSQLHHHPERKKSVFAKLQFLSLENLRNLCCINWEALAFPNLKEIRVEGCPKLFKLPLDSNSAKGCKVVIKGEENWWKKATVGGSRHSRCFSFLL
Secondary Structure (PSIPRED)
ccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccccccHHHHHHHHHHHccccccEEEEEEcccccHHHHHHHHHcccccccccccEEEEEEEcccccHHHHHHHHHHHHcccccccccccHHHHHHHHHHHHcccEEEEEEcccccccccccccccccccccccEEEEEcccHHHHHHcccccEEEcccccHHHHHHHHHHHHccccccccccHHHHHHHHHHHccccHHHHHHHHHHccccccHHHHHHHHHHHHHcccccccccccccHHHHHcccccccccHHHHHHHHccccccccccHHHHHHHHHHcccccccccccHHHHHHHHHHHHHHcccccEEccccccccccccEEEEcHHHHHHHHHHHHHHHccccccEEEccccccccccccccccEEEEEEEcccccccccccccccccEEEcccccccccHHHHHcccccccEEEcccccccccccHHHHccccccEEcccccccccccHHHHccccccEEccccccccccccHHHHcccccccEEEcccccccccccccccccccccccccEEEEEEccHHHHHHHHHcHHcccccEEEEEEEEccccccccccccccccccEEEEEccccccccccccccccccccccccccEEEEEEEccccccccccccccccccEEEEEccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEEEEccccccccccccccccccEEEEEEEcccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccHcHHHHHHHHHHHHHHHHHHcccccEEccccccccccccccccccccHHHHHHHHHHHHccccEEEEEEccccccHHHHHHHHHcccHHccccccEEEEEEEcccccHHHHHHHHHHHHcccccccccccHHHHHHHHHHHHccccEEEEEEccccHccHHHHcccccccccccEEEEEEccHHHHHHccccccEEEccccHHHHHHHHHHHHccccccccccHHHHHHHHHHHHcccHHHHHHHHHHHHccccHHHHHHHHHHHHHcHHHcccccccccHHHEEcHcccccHHHHHHEEEEEcccccccEcHHHHHHHHHHcccccccccccHHHHHHHHHHHHHHHHHHccccccccccccccEEEEEHHHHHHHHHHHHHHcccccccEEEEcccccEEcccccccHHEEEEEEcccccccccccccccccEEEEEcccccccccHHHHHcccccEEEEEcccccHHHccccccccccccEEEccccccccccHHHcccccccEEEEcccccHccccHHHHcccccccEEEEEccccccccccccHHHHHccccccEEEEcccccccHHHHccHcccccccEEEEEccccccccccHHcccccccccEEEEEccccHccccccccccHHHccccccccccEEEEEcccccccccccccccccEEEEEccccccccccccccccHHHHcccccccccccccEEEEcccHcHHHccccccccccccEEEEcccccHHcccccccccccEEEEEEccHHHHHHcccccccHHHcccccc
Coil and Loop (DISEMBL)
YISQLEDNLPALQAQLQKLIESENDVMARVANAENQQMRQLNTVQGWLSRVEAVETEVGElmrdssqevdklcpggccsknckssfkFGKRVAKTLQLVNNLMGegafdavaekvrppavdqrpceptvgleSMFDKVWRCLGEEQVGIIGlygmggvgkTTLLTKINNkllgapndfDVVIWVVVSKDLQLEKIQEKIGRRIgfldeswkngsledkASDILRILSKKKFLLLLDDIWErvdltkvgvpfpdpenkskiVFTTRFLEICGAMKAHEFlkveclgpeDAWRLFRENLRRdvldnhpdipeLARSVAKEYAGLPLALITIGRAMTCKKTTQEWHHAIQILRrsssefpgmgkevypllkfsydslpddtirscflycglfpedyrIRKSELidcwigegfldqydrsgaynegYYIIGILLHAClleeeegdiaeeksgehVVKMHDVIRDMVLWIACKIEKEKENFLVHaglglteapeiqnwRNVRRMSLMKNKienlsetptcphllslflsdnslkMIAGdffqfmpslrvfnmsnnhllwklpsgistlvslehldlsgtaitHLPIELQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRILKSNVLFGGHQFLVEELMGMKHLMALTITLKSWEALQELLISQELQRCTQSLFLrcfndskslDIFCLACLHNLNKLYVAGRKHLEDFQMTVQRSSVNQLARGFhslhtvkvgfcfklkdltwlvfapslKSIVVLSCCNMEQIIKAEKlsqlhhhperkkSVFAKLQFLSLENLRNLCCinwealafpnlkeirvegcpklfklpldsnsakgcKVVIKGEENWWkkatvggsrhsrcfsfll
Flexible Loop (DISEMBL)
yisqlednlPALQAQLQKLIESENDVMARVANAENQQMRQLNTVQGWLSRVEAVETEVGELMRDSSQEVDKLCPGGCCSKNCKSSFKFGKRVAKTLQLVNNLMGEGAFDAVAEKVRPPAVDQRPCEPTVGLESMFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQekigrrigfldeswkngsledKASDILRILSKKKFLLLLDDIWERVDLtkvgvpfpdpenkskiVFTTRFLEICGAMKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGLPLALITIGRAMTCKKTTQEWHHAIQIlrrsssefpgMGKEVYPLLKFSYDSLPDDTIRSCFLYCGLFPEDYRIRKSELIDCWIGEGFLDQYDRSGAYNEGYYIIGILLHACLLEEEEGDIAEEKSGEHVVKMHDVIRDMVLWIACKIEKEKENFLVHAglglteapeiqnwrNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAITHLPIELQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRILKSNVLFGGHQFLVEELMGMKHLMALTITLKSWEALQELLISQELQRCTQSLFLRCFNDSKSLDIFCLACLHNLNKLYVAGRKHLEDFQMTVQRSSVNQLARGFHSLHTVKVGFCFKLKDLTWLVFAPSLKSIVVLSCCNMEQIIKAEKLSQLHHHPERKKSVFAKLQFLSLENLRNLCCINWEALAFPNLKEIRVEGCPKlfklpldsnsakGCKVVIKGEEnwwkkatvggsrhsrcfsfll
Low Complexity Region (SEG)
YISQLEDNLPALQAQLQKLIESENDVMARVANAENQQMRQLNTVQGWLSRVEAVETEVGELMRDSSQEVDKLCPGGCCSKNCKSSFKFGKRVAKTLQLVNNLMGEGAFDAVAEKVRPPAVDQRPCEPTVGLESMFDKVWRCLGEEQvgiiglygmggvgkttlltkinnkllGAPNDFDVVIWVVVSKDLQLEKIQEKIGRRIGFLDESWKNGSLEDKASDilrilskkkfllllddiWERVDLTKVGVPFPDPENKSKIVFTTRFLEICGAMKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGLPLALITIGRAMTCKKTTQEWHHAIQILRRSSSEFPGMGKEVYPLLKFSYDSLPDDTIRSCFLYCGLFPEDYRIRKSELIDCWIGEGFLDQYDRSGAYNEGYYIIGILLHACLLeeeegdiaeeksgeHVVKMHDVIRDMVLWIACKIEKEKENFLVHAGLGLTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAITHLPIELQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRILKSNVLFGGHQFLVEELMGMKHLMALTITLKSWEALQELLISQELQRCTQSLFLRCFNDSKSLDIFCLACLHNLNKLYVAGRKHLEDFQMTVQRSSVNQLARGFHSLHTVKVGFCFKLKDLTWLVFAPSLKSIVVLSCCNMEQIIKAEKLSQLHHHPERKKSVFAKLQFLSLENLRNLCCINWEALAFPNLKEIRVEGCPKLFKLPLDSNSAKGCKVVIKGEENWWKKATVGGSRHSRCFSFLL
Disordered region (IsUnstruct)
****************************************LNTVQGWLSRVEAVETEVG*********VDKLCPGGCCSKNCKSSFKFGKRVAKTLQLVNNLMGEGAFDAVAEKVRPPAVDQRPCEPTVGLESMFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGRRIGFLDESWKNGSLEDKASDILRILSKKKFLLLLDDIWERVDLTKVGVPFPDPENKSKIVFTTRFLEICGAMKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGLPLALITIGRAMTCKKTTQEWHHAIQILRRSSSEFPGMGKEVYPLLKFSYDSLPDDTIRSCFLYCGLFPEDYRIRKSELIDCWIGEGFLDQYDRSGAYNEGYYIIGILLHACL****************VVKMHDVIRDMVLWIACKIEKEKENFLVHAGLGLTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAITHLPIELQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRILKSNVLFGGHQFLVEELMGMKHLMALTITLKSWEALQELLISQELQRCTQSLFLRCFNDSKSLDIFCLACLHNLNKLYVAGRKHLEDFQMTVQRSSVNQLARGFHSLHTVKVGFCFKLKDLTWLVFAPSLKSIVVLSCCNMEQIIKAEKLSQLHHHPERKKSVFAKLQFLSLENLRNLCCINWEALAFPNLKEIRVEGCPKLFKLPLDSNSAKGCKVVIKGEENWWKKATVGGSRHSRCFS***
Disordered Region (DISOPRED)
YISQLEDNLPALQAQLQKLIESENDVMARVANAENQQMRQLNTVQGWLSRVEAVETEVGELMRDSSQEVDKLCPGGCCSKNCKSSFKFGKRVAKTLQLV*****************************VGLESMFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGRRIGF*************ASDILRILSKKKFLLLLDDIWERVDLTKVGVPFPDPENKSKIVFTTRFLEICGAMKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGLPLALITIGRAMTCKKTTQEWHHAIQILRR******GMGKEVYPLLKFSYDSLPDDTIRSCFLYCGLFPEDYRIRKSELIDCWIGEGFLDQYDRSGAYNEGYYIIGILLHACLLEEEEGDIAEEKSGEHVVKMHDVIRDMVLWIACKIEKEKENFLVHAGLGLTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAITHLPIELQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRILKSNVLFG***FLVEELMGMKHLMALTITLKSWEALQELLISQELQRCTQSLFLRCFNDSKSLDIFCLACLHNLNKLYVAGRKHLEDFQMTVQRSSVNQLARGFHSLHTVKVGFCFKLKDLTWLVFAPSLKSIVVLSCCNMEQIIKAEKLS***********VFAKLQFLSLENLRNLCCINWEALAFPNLKEIRVEGCPKLFKLPL***********IKGEENWWKKATVGGSRHSRCFSFLL
Disordered Region (DISEMBL)
YISQLEDNLPALQAQLQKLIESENDVMARVANAENQQMRQLNTVQGWLSRVEAVETEVGELMRDSSQEVDKLCPGGCCSKNCKSSFKFGKRVAKTLQLVNNLMGEGAFDAVAEKVRPPAVDQRPCEPTVGLESMFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGRRIGFLDESWKNGSLEDKASDILRILSKKKFLLLLDDIWERVDLTKVGVPFPDPENKSKIVFTTRFLEICGAMKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGLPLALITIGRAMTCKKTTQEWHHAIQILRRSSSEFPGMGKEVYPLLKFSYDSLPDDTIRSCFLYCGLFPEDYRIRKSELIDCWIGEGFLDQYDRSGAYNEGYYIIGILLHACLLEEEEGDIAEEKSGEHVVKMHDVIRDMVLWIACKIEKEKENFLVHAGLGLTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAITHLPIELQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRILKSNVLFGGHQFLVEELMGMKHLMALTITLKSWEALQELLISQELQRCTQSLFLRCFNDSKSLDIFCLACLHNLNKLYVAGRKHLEDFQMTVQRSSVNQLARGFHSLHTVKVGFCFKLKDLTWLVFAPSLKSIVVLSCCNMEQIIKAEKLSQLHHHPERKKSVFAKLQFLSLENLRNLCCINWEALAFPNLKEIRVEGCPKLFKLPLDSNSAKGCKVVIKGEENWWKKATVGGSRHSRCFSFLL
Disordered Region (DISPRO)
YISQLEDNLPALQAQLQKLIESENDVMARVANAENQQMRQLNTVQGWLSRVEAVETEVGELMRDSSQEVDKLCPGGCCSKNCKSSFKFGKRVAKTLQLVNNLMGEGAFDAVAE*****AVDQRPCEPTVGLESMFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGRRIGFLDESWKNGSLEDKASDILRILSKKKFLLLLDDIWERVDLTKVGVPFPDPENKSKIVFTTRFLEICGAMKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGLPLALITIGRAMTCKKTTQEWHHAIQILRRSSSEFPGMGKEVYPLLKFSYDSLPDDTIRSCFLYCGLFPEDYRIRKSELIDCWIGEGFLDQYDRSGAYNEGYYIIGILLHACLLEEEEGDIAEEKSGEHVVKMHDVIRDMVLWIACKIEKEKENFLVHAGLGLTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAITHLPIELQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRILKSNVLFGGHQFLVEELMGMKHLMALTITLKSWEALQELLISQELQRCTQSLFLRCFNDSKSLDIFCLACLHNLNKLYVAGRKHLEDFQMTVQRSSVNQLARGFHSLHTVKVGFCFKLKDLTWLVFAPSLKSIVVLSCCNMEQIIKAEKLSQLHHHPERKKSVFAKLQFLSLENLRNLCCINWEALAFPNLKEIRVEGCPKLFKLPLDSNSAKGCKVVIKGEENWWKKATVGGSRHSRCFSFLL
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
YxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxQMRQLNTVQGWLSRVEAVETEVGELMRDSSQEVDKLCPGGCCSKNCKSSFKFGKRVAKTLQLVNNLMGEGAFDAVAEKVRPPAVDQRPCEPTVGLESMFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGRRIGFLDESWKNGSLEDKASDILRILSKKKFLLLLDDIWERVDLTKVGVPFPDPENKSKIVFTTRFLEICGAMKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGLPLALITIGRAMTCKKTTQEWHHAIQILRRSSSEFPGMGKEVYPLLKFSYDSLPDDTIRSCFLYCGLFPEDYRIRKSELIDCWIGEGFLDQYDRSGAYNEGYYIIGILLHACLLEEEEGDIAEEKSGEHVVKMHDVIRDMVLWIACKIEKEKENFLVHAGLGLTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAITHLPIELQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRILKSNVLFGGHQFLVEELMGMKHLMALTITLKSWEALQELLISQELQRCTQSLFLRCFNDSKSLDIFCLACLHNLNKLYVAGRKHLEDFQMTVQRSSVNQLARGFHSLHTVKVGFCFKLKDLTWLVFAPSLKSIVVLSCCNMEQIIKAEKLSQLHHHPERKKSVFAKLQFLSLENLRNLCCINWEALAFPNLKEIRVEGCPKLFKLPLDSNSAKGCKVVIKGEENWWKKATVGGSRHSRCFSFLL
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	863	2.2.26 [Sep-21-2011]
Q8RXS5	888	Probable disease resistan	yes	no	0.950	0.923	0.427	0.0
O82484	892	Putative disease resistan	no	no	0.960	0.929	0.426	1e-179
P60838	894	Probable disease resistan	no	no	0.958	0.925	0.441	1e-179
O64973	889	Disease resistance protei	no	no	0.960	0.932	0.419	1e-173
Q8L3R3	885	Disease resistance protei	no	no	0.957	0.933	0.419	1e-172
O64789	925	Probable disease resistan	no	no	0.944	0.881	0.415	1e-170
Q940K0	889	Probable disease resistan	no	no	0.935	0.907	0.415	1e-169
P60839	884	Probable disease resistan	no	no	0.954	0.932	0.421	1e-168
O22727	967	Probable disease resistan	no	no	0.938	0.837	0.415	1e-167
Q9FG91	848	Probable disease resistan	no	no	0.935	0.951	0.419	1e-163

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

 Score =  655 bits (1689), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 363/850 (42%), Positives = 531/850 (62%), Gaps = 30/850 (3%)

Query: 1   YISQLEDNLPALQAQLQKLIESENDVMARVANAENQQMRQLNTVQGWLSRVEAVETEVGE 60
           YI  LE+NL ALQ  L+++ +   D++ ++ + E + +++L+ VQGW+S+VEA+   V E
Sbjct: 28  YIHGLEENLTALQRALEQIEQRREDLLRKILSEERRGLQRLSVVQGWVSKVEAIVPRVNE 87

Query: 61  LMRDSSQEVDKLCPGGCCSKNCKSSFKFGKRVAKTLQLVNNLMGEGAFDAVAEKVRPPAV 120
           L+R  S +V +LC  G CSKN  SS+++GKRV K ++ V  L  +G F  VAE+V    V
Sbjct: 88  LVRMRSVQVQRLCLCGFCSKNLVSSYRYGKRVMKMIEEVEVLRYQGDFAVVAERVDAARV 147

Query: 121 DQRPCEPTVGLESMFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDV 180
           ++RP  P V ++ M +  W  L E+++GI+GL+GMGGVGKTTLL+ INN+      +FD+
Sbjct: 148 EERPTRPMVAMDPMLESAWNRLMEDEIGILGLHGMGGVGKTTLLSHINNRFSRVGGEFDI 207

Query: 181 VIWVVVSKDLQLEKIQEKIGRRIGFLDESWKNGSLEDKASDILRILSKKKFLLLLDDIWE 240
           VIW+VVSK+LQ+++IQ++I  ++   +E WK  + + KAS+I  +L  K+F+LLLDDIW 
Sbjct: 208 VIWIVVSKELQIQRIQDEIWEKLRSDNEKWKQKTEDIKASNIYNVLKHKRFVLLLDDIWS 267

Query: 241 RVDLTKVGVPFPDPENKSKIVFTTRFLEICGAMKAHEFLKVECLGPEDAWRLFRENLRRD 300
           +VDLT+VGVPFP  EN  KIVFTTR  EICG M     ++V CL P+DAW LF + +   
Sbjct: 268 KVDLTEVGVPFPSRENGCKIVFTTRLKEICGRMGVDSDMEVRCLAPDDAWDLFTKKVGEI 327

Query: 301 VLDNHPDIPELARSVAKEYAGLPLALITIGRAMTCKKTTQEWHHAIQILRRSSSEFPGMG 360
            L +HP+IP +AR+VAK+  GLPLAL  IG  M  K+T QEW  AI +L  S++EF GM 
Sbjct: 328 TLGSHPEIPTVARTVAKKCRGLPLALNVIGETMAYKRTVQEWRSAIDVLTSSAAEFSGME 387

Query: 361 KEVYPLLKFSYDSLPDDTIRSCFLYCGLFPEDYRIRKSELIDCWIGEGFLDQYDRSGAYN 420
            E+ P+LK+SYD+L  + ++ CF YC LFPED+ I K++L+D WIGEGF+D+ ++  A N
Sbjct: 388 DEILPILKYSYDNLKSEQLKLCFQYCALFPEDHNIEKNDLVDYWIGEGFIDR-NKGKAEN 446

Query: 421 EGYYIIGILLHACLLEEEEGDIAEEKSGEHVVKMHDVIRDMVLWIACKIEKEKENFLVHA 480
           +GY IIGIL+ +CLL EE          +  VKMHDV+R+M LWIA    K+KENF+V A
Sbjct: 447 QGYEIIGILVRSCLLMEE---------NQETVKMHDVVREMALWIASDFGKQKENFIVQA 497

Query: 481 GLGLTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFMP 540
           GL     PEI+ W+  RR+SLM N IE++ + P  P L++L L  N L  I+  FF+ MP
Sbjct: 498 GLQSRNIPEIEKWKVARRVSLMFNNIESIRDAPESPQLITLLLRKNFLGHISSSFFRLMP 557

Query: 541 SLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAITHLPIELQKLVNLKCLNLEYMYNL 600
            L V ++S N  L  LP+ IS  VSL++L LS T I   P  L +L  L  LNLEY   +
Sbjct: 558 MLVVLDLSMNRDLRHLPNEISECVSLQYLSLSRTRIRIWPAGLVELRKLLYLNLEYTRMV 617

Query: 601 NQFPRLVMSAFSKLQVLRILKSNVLFGGHQFLVEELMGMKHLMALTITLKSWEALQELLI 660
                  +S  + L+VLR+  S   F     ++ EL  +++L  LTITL     L++ L 
Sbjct: 618 ESI--CGISGLTSLKVLRLFVSG--FPEDPCVLNELQLLENLQTLTITLGLASILEQFLS 673

Query: 661 SQELQRCTQSLFLRCFNDSKSLDIFCLACLHNLNKLYVAGRKHLEDFQMTVQRSS----- 715
           +Q L  CT++L +   N   S+  F +A + +L +L+ A     + +++ V+R+      
Sbjct: 674 NQRLASCTRALRIENLNPQSSVISF-VATMDSLQELHFADS---DIWEIKVKRNETVLPL 729

Query: 716 -VNQLARGFHSLHTVKVGFCFKLKDLTWLVFAPSLKSIVVLSCCNMEQIIKAEKLSQLHH 774
            +      F +L  V + FC +L+DLTWL+FAP+L  + V+S  +++++I  EK  Q + 
Sbjct: 730 HIPTTTTFFPNLSQVSLEFCTRLRDLTWLIFAPNLTVLRVISASDLKEVINKEKAEQQNL 789

Query: 775 HPERKKSVFAKLQFLSLENLRNLCCINWEALAFPNLKEIRVEGCPKLFKLPLDSNSAKGC 834
            P      F +L+ L LEN++ L  I+   L FP L++I V GC +L KLPL+  S    
Sbjct: 790 IP------FQELKELRLENVQMLKHIHRGPLPFPCLQKILVNGCSELRKLPLNFTSVPRG 843

Query: 835 KVVIKGEENW 844
            +VI+  + W
Sbjct: 844 DLVIEAHKKW 853

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 =  630 bits (1626), Expect = e-179,   Method: Compositional matrix adjust.
 Identities = 365/855 (42%), Positives = 515/855 (60%), Gaps = 26/855 (3%)

Query: 1   YISQLEDNLPALQAQLQKLIESENDVMARVANAENQQMRQLNTVQGWLSRVEAVETEVGE 60
           YI +L+DN+ AL+  ++ L  + +DV+ RV   E + + +L  VQ WL RVE +  +  +
Sbjct: 28  YIHKLKDNIVALEKAIEDLTATRDDVLRRVQMEEGKGLERLQQVQVWLKRVEIIRNQFYD 87

Query: 61  LMRDSSQEVDKLCPGGCCSKNCKSSFKFGKRVAKTLQLVNNLMGEGAFDAVAEKVRPPAV 120
           L+   + E+ +LC    CS N  SS+ +G+RV   ++ V NL   G F+ VA     P +
Sbjct: 88  LLSARNIEIQRLCFYSNCSTNLSSSYTYGQRVFLMIKEVENLNSNGFFEIVAAPA--PKL 145

Query: 121 DQRPCEPTV-GLESMFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFD 179
           + RP +PT+ G E++F + W  L ++ VG +GLYGMGGVGKTTLLT+I+N L    N  D
Sbjct: 146 EMRPIQPTIMGRETIFQRAWNRLMDDGVGTMGLYGMGGVGKTTLLTQIHNTLHDTKNGVD 205

Query: 180 VVIWVVVSKDLQLEKIQEKIGRRIGFLDESWKNGSLEDKASDILRILSKKKFLLLLDDIW 239
           +VIWVVVS DLQ+ KIQE IG ++GF+ + W       KA DIL  LSKK+F+LLLDDIW
Sbjct: 206 IVIWVVVSSDLQIHKIQEDIGEKLGFIGKEWNKKQESQKAVDILNCLSKKRFVLLLDDIW 265

Query: 240 ERVDLTKVGVPFPDPENKSKIVFTTRFLEICGAMKAHEFLKVECLGPEDAWRLFRENLRR 299
           ++VDLTK+G+P    ENK K+VFTTR L++C  M  H+ ++V+CL   DAW LF+E + +
Sbjct: 266 KKVDLTKIGIPSQTRENKCKVVFTTRSLDVCARMGVHDPMEVQCLSTNDAWELFQEKVGQ 325

Query: 300 DVLDNHPDIPELARSVAKEYAGLPLALITIGRAMTCKKTTQEWHHAIQILRRSSSEFPGM 359
             L +HPDI ELA+ VA +  GLPLAL  IG  M  K+  QEWHHA+ +L   ++EF GM
Sbjct: 326 ISLGSHPDILELAKKVAGKCRGLPLALNVIGETMAGKRAVQEWHHAVDVLTSYAAEFSGM 385

Query: 360 GKEVYPLLKFSYDSLPDDTIRSCFLYCGLFPEDYRIRKSELIDCWIGEGFLD-QYDRSGA 418
              +  +LK+SYD+L D  +RSCF YC L+PEDY I+K  LID WI EGF+D    +  A
Sbjct: 386 DDHILLILKYSYDNLNDKHVRSCFQYCALYPEDYSIKKYRLIDYWICEGFIDGNIGKERA 445

Query: 419 YNEGYYIIGILLHACLLEEEEGDIAEEKSGEHVVKMHDVIRDMVLWIACKIEKEKENFLV 478
            N+GY I+G L+ ACLL EE  +  E       VKMHDV+R+M LW    + K KE  +V
Sbjct: 446 VNQGYEILGTLVRACLLSEEGKNKLE-------VKMHDVVREMALWTLSDLGKNKERCIV 498

Query: 479 HAGLGLTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDN-SLKMIAGDFFQ 537
            AG GL + P++++W  VRR+SLM N IE +S +P CP L +LFL +N SL  I+G+FF+
Sbjct: 499 QAGSGLRKVPKVEDWGAVRRLSLMNNGIEEISGSPECPELTTLFLQENKSLVHISGEFFR 558

Query: 538 FMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAITHLPIELQKLVNLKCLNLEYM 597
            M  L V ++S NH L  LP  IS LV+L +LDLS T I  LP  LQ L  L  LNLE M
Sbjct: 559 HMRKLVVLDLSENHQLDGLPEQISELVALRYLDLSHTNIEGLPACLQDLKTLIHLNLECM 618

Query: 598 YNLNQFPRLVMSAFSKLQVLRILKSNVLFGGHQFLVEELMGMKHLMALTITLKSWEALQE 657
             L     +  S  S L+ L +  SN++       V+EL  ++HL  LTI + S   L++
Sbjct: 619 RRLGSIAGI--SKLSSLRTLGLRNSNIMLDVMS--VKELHLLEHLEILTIDIVSTMVLEQ 674

Query: 658 LLISQELQRCTQSLFLRCFNDSKSLDI-FCLACLHNLNKLYVAGRKHLEDFQMTVQRSS- 715
           ++ +  L  C Q + +RC    +  D    L  + +L  L +    + E  ++ ++R + 
Sbjct: 675 MIDAGTLMNCMQEVSIRCLIYDQEQDTKLRLPTMDSLRSLTMW---NCEISEIEIERLTW 731

Query: 716 -VNQLARGFHSLHTVKVGFCFKLKDLTWLVFAPSLKSIVVLSCCNMEQII---KAEKLSQ 771
             N  +  F +L  V +  C  LKDLTWL+FAP++  +++     ++++I   KA  +++
Sbjct: 732 NTNPTSPCFFNLSQVIIHVCSSLKDLTWLLFAPNITYLMIEQLEQLQELISHAKATGVTE 791

Query: 772 LHHHPERKKSVFAKLQFLSLENLRNLCCINWEALAFPNLKEIRVEGCPKLFKLPLDSNSA 831
                  K   F KLQ L L +L  L  I W +L+FP L  I VE CPKL KLPLDS + 
Sbjct: 792 EEQQQLHKIIPFQKLQILHLSSLPELKSIYWISLSFPCLSGIYVERCPKLRKLPLDSKTG 851

Query: 832 K-GCKVVIKGEENWW 845
             G K V++ +E  W
Sbjct: 852 TVGKKFVLQYKETEW 866

Potential disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|P60838|DRL1_ARATH Probable disease resistance protein At1g12280 OS=Arabidopsis thaliana GN=At1g12280 PE=3 SV=1

 Score =  629 bits (1621), Expect = e-179,   Method: Compositional matrix adjust.
 Identities = 377/853 (44%), Positives = 525/853 (61%), Gaps = 26/853 (3%)

Query: 1   YISQLEDNLPALQAQLQKLIESENDVMARVANAENQQMRQ-LNTVQGWLSRVEAVETEVG 59
           YI +L  N+ A++  ++ L +  +DV  RV   E  + R+ L+ VQGWL+ V  VE +  
Sbjct: 28  YICELSKNVVAMKKDMEVLKKKRDDVKRRVDIEEFTRRRERLSQVQGWLTNVSTVENKFN 87

Query: 60  ELMRDSSQEVDKLCPGGCCSKNCKSSFKFGKRVAKTLQLVNNLMGEGAFDAVAEKVRPPA 119
           EL+  +  E+ +LC  G CSKN K S+ +GKRV   L+ + +L  +G FD V        
Sbjct: 88  ELLTTNDAELQRLCLFGFCSKNVKMSYLYGKRVVLMLKEIESLSSQGDFDTVTLATPIAR 147

Query: 120 VDQRPCEPT-VGLESMFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDF 178
           +++ P +PT VG E+M ++VW  L E+   I+GLYGMGGVGKTTLLT+INNK     + F
Sbjct: 148 IEEMPIQPTIVGQETMLERVWTRLTEDGDEIVGLYGMGGVGKTTLLTRINNKFSEKCSGF 207

Query: 179 DVVIWVVVSKDLQLEKIQEKIGRRIGFLDESWKNGSLEDKASDILRILSKKKFLLLLDDI 238
            VVIWVVVSK   + +IQ  IG+R+    E W N +   +A DI  +L K+KF+LLLDDI
Sbjct: 208 GVVIWVVVSKSPDIHRIQGDIGKRLDLGGEEWDNVNENQRALDIYNVLGKQKFVLLLDDI 267

Query: 239 WERVDLTKVGVPFPDPENKSKIVFTTRFLEICGAMKAHEFLKVECLGPEDAWRLFRENLR 298
           WE+V+L  +GVP+P  +N  K+VFTTR  ++CG M+  + ++V CL P +AW LF+  + 
Sbjct: 268 WEKVNLEVLGVPYPSRQNGCKVVFTTRSRDVCGRMRVDDPMEVSCLEPNEAWELFQMKVG 327

Query: 299 RDVLDNHPDIPELARSVAKEYAGLPLALITIGRAMTCKKTTQEWHHAIQILRRSSSEFPG 358
            + L  HPDIPELAR VA +  GLPLAL  IG  M CK+  QEW +AI +L   ++EFPG
Sbjct: 328 ENTLKGHPDIPELARKVAGKCCGLPLALNVIGETMACKRMVQEWRNAIDVLSSYAAEFPG 387

Query: 359 MGKEVYPLLKFSYDSLPDDTIRSCFLYCGLFPEDYRIRKSELIDCWIGEGFLDQYD-RSG 417
           M +++ P+LK+SYD+L  + ++ CFLYC LFPEDYR+ K  LID WI EGF+D+ + R  
Sbjct: 388 M-EQILPILKYSYDNLNKEQVKPCFLYCSLFPEDYRMEKERLIDYWICEGFIDENESRER 446

Query: 418 AYNEGYYIIGILLHACLLEEEEGDIAEEKSGEHVVKMHDVIRDMVLWIACKIEKEKENFL 477
           A ++GY IIGIL+ ACLL        EE   +  VKMHDV+R+M LWIA  + + KE  +
Sbjct: 447 ALSQGYEIIGILVRACLL-------LEEAINKEQVKMHDVVREMALWIASDLGEHKERCI 499

Query: 478 VHAGLGLTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDN-SLKMIAGDFF 536
           V  G+GL E P+++NW +VRRMSLM+N+IE LS +P C  L +LFL  N SL  I+ +FF
Sbjct: 500 VQVGVGLREVPKVKNWSSVRRMSLMENEIEILSGSPECLELTTLFLQKNDSLLHISDEFF 559

Query: 537 QFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAITHLPIELQKLVNLKCLNLEY 596
           + +P L V ++S N  L KLP+ IS LVSL +LDLS T I  LP+ LQ+L  L+ L L+Y
Sbjct: 560 RCIPMLVVLDLSGNSSLRKLPNQISKLVSLRYLDLSWTYIKRLPVGLQELKKLRYLRLDY 619

Query: 597 MYNLNQFPRLVMSAFSKLQVLRILKSNVLFGGHQFLVEELMGMKHLMALTITLKSWEALQ 656
           M  L       +S  S L+ L++L+S +        VEEL  ++HL  L I++KS   ++
Sbjct: 620 MKRLKSI--SGISNISSLRKLQLLQSKMSLDMSL--VEELQLLEHLEVLNISIKSSLVVE 675

Query: 657 ELLISQELQRCTQSLFLRCFNDSKSLDIFCLACLHNLNKLYV--AGRKHLEDFQMTVQRS 714
           +LL +  L +C Q L LR   +  S  +  L  + NLNK+ +   G   ++  + T+  S
Sbjct: 676 KLLNAPRLVKCLQILVLRGVQEESS-GVLTLPDMDNLNKVIIRKCGMCEIKIERKTLSLS 734

Query: 715 SVNQLARGF-HSLHTVKVGFCFKLKDLTWLVFAPSLKSIVVLSCCNMEQIIKAEKLSQLH 773
           S       F H+L TV +  C  LKDLTWL+FAP+L S+ VL    +E II  EK   + 
Sbjct: 735 SNRSPKTQFLHNLSTVHISSCDGLKDLTWLLFAPNLTSLEVLDSELVEGIINQEKAMTMS 794

Query: 774 HHPERKKSVFAKLQFLSLENLRNLCCINWEALAFPNLKEIRVEGCPKLFKLPLDSNSA-K 832
                    F KL+ L L NL  L  I W+ L+FP LK I +  CP+L KLPLDS  A +
Sbjct: 795 GIIP-----FQKLESLRLHNLAMLRSIYWQPLSFPCLKTIHITKCPELRKLPLDSEIAIR 849

Query: 833 GCKVVIKGEENWW 845
             ++VIK +E  W
Sbjct: 850 DEELVIKYQEEEW 862

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 =  610 bits (1573), Expect = e-173,   Method: Compositional matrix adjust.
 Identities = 360/859 (41%), Positives = 510/859 (59%), Gaps = 30/859 (3%)

Query: 1   YISQLEDNLPALQAQLQKLIESENDVMARVANAE-NQQMRQLNTVQGWLSRVEAVETEVG 59
           YI  L  NL +LQ  ++ L   + DV+ R+   E   + ++L+ VQ WL+ V  ++ +  
Sbjct: 28  YIHNLSKNLASLQKAMRMLKARQYDVIRRLETEEFTGRQQRLSQVQVWLTSVLIIQNQFN 87

Query: 60  ELMRDSSQEVDKLCPGGCCSKNCKSSFKFGKRVAKTLQLVNNLMGEGAFDAVAEKVRPPA 119
           +L+R +  E+ +LC  G CSK+ K S+++GKRV   L+ V +L  +G FD V+E      
Sbjct: 88  DLLRSNEVELQRLCLCGFCSKDLKLSYRYGKRVIMMLKEVESLSSQGFFDVVSEATPFAD 147

Query: 120 VDQRPCEPT-VGLESMFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDF 178
           VD+ P +PT VG E M +K W  L E+  GI+GLYGMGGVGKTTLLTKINNK     + F
Sbjct: 148 VDEIPFQPTIVGQEIMLEKAWNRLMEDGSGILGLYGMGGVGKTTLLTKINNKFSKIDDRF 207

Query: 179 DVVIWVVVSKDLQLEKIQEKIGRRIGFLDESWKNGSLEDKASDILRILSKKKFLLLLDDI 238
           DVVIWVVVS+   + KIQ  I  ++G     W   +    A DI  +L ++KF+LLLDDI
Sbjct: 208 DVVIWVVVSRSSTVRKIQRDIAEKVGLGGMEWSEKNDNQIAVDIHNVLRRRKFVLLLDDI 267

Query: 239 WERVDLTKVGVPFPDPENKSKIVFTTRFLEICGAMKAHEFLKVECLGPEDAWRLFRENLR 298
           WE+V+L  VGVP+P  +N  K+ FTTR  ++CG M   + ++V CL PE++W LF+  + 
Sbjct: 268 WEKVNLKAVGVPYPSKDNGCKVAFTTRSRDVCGRMGVDDPMEVSCLQPEESWDLFQMKVG 327

Query: 299 RDVLDNHPDIPELARSVAKEYAGLPLALITIGRAMTCKKTTQEWHHAIQILRRSSSEFPG 358
           ++ L +HPDIP LAR VA++  GLPLAL  IG AM CK+T  EW HAI +L  S+ +F G
Sbjct: 328 KNTLGSHPDIPGLARKVARKCRGLPLALNVIGEAMACKRTVHEWCHAIDVLTSSAIDFSG 387

Query: 359 MGKEVYPLLKFSYDSLPDDTIRSCFLYCGLFPEDYRIRKSELIDCWIGEGFLDQYD-RSG 417
           M  E+  +LK+SYD+L  + ++SCFLYC LFPEDY I K  L+D WI EGF+++ + R  
Sbjct: 388 MEDEILHVLKYSYDNLNGELMKSCFLYCSLFPEDYLIDKEGLVDYWISEGFINEKEGRER 447

Query: 418 AYNEGYYIIGILLHACLLEEEEGDIAEEKSGEHVVKMHDVIRDMVLWIACKIEKEKENFL 477
             N+GY IIG L+ ACLL EEE + +        VKMHDV+R+M LWI+  + K+KE  +
Sbjct: 448 NINQGYEIIGTLVRACLLLEEERNKSN-------VKMHDVVREMALWISSDLGKQKEKCI 500

Query: 478 VHAGLGLTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQ 537
           V AG+GL E P++++W  VR++SLM N+IE + ++  C  L +LFL  N +  I+ +FF+
Sbjct: 501 VRAGVGLREVPKVKDWNTVRKISLMNNEIEEIFDSHECAALTTLFLQKNDVVKISAEFFR 560

Query: 538 FMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAITHLPIELQKLVNLKCLNLEYM 597
            MP L V ++S N  L +LP  IS L SL + +LS T I  LP+ L  L  L  LNLE+M
Sbjct: 561 CMPHLVVLDLSENQSLNELPEEISELASLRYFNLSYTCIHQLPVGLWTLKKLIHLNLEHM 620

Query: 598 YNLNQFPRLVMSAFSKLQVLRILKSNVLFGGHQFLVEELMGMKHLMALTITLKSWEALQE 657
            +L     L +S    L+ L +  S +L      LV+EL  ++HL  +T+ + S    + 
Sbjct: 621 SSLGSI--LGISNLWNLRTLGLRDSRLLL--DMSLVKELQLLEHLEVITLDISSSLVAEP 676

Query: 658 LLISQELQRCTQSLFLRCFNDSKSLDIFCLACLHNLNKLYV--AGRKHLEDFQMTVQRSS 715
           LL SQ L  C + +  +   + +S+ +  L  + NL KL +   G + ++  + T   SS
Sbjct: 677 LLCSQRLVECIKEVDFKYLKE-ESVRVLTLPTMGNLRKLGIKRCGMREIK-IERTTSSSS 734

Query: 716 VNQLARG--FHSLHTVKVGFCFKLKDLTWLVFAPSLKSIVVLSCCNMEQIIKAEKLSQLH 773
            N+      F +L  V +  C  LKDLTWL+FAP+L  + V     +E II  EK     
Sbjct: 735 RNKSPTTPCFSNLSRVFIAKCHGLKDLTWLLFAPNLTFLEVGFSKEVEDIISEEKAE--- 791

Query: 774 HHPERKKSV--FAKLQFLSLENLRNLCCINWEALAFPNLKEIRVEGCPKLFKLPLDSNSA 831
              E   ++  F KL+ L L  LR L  I  +AL FP LK I VE C KL KLPLDS S 
Sbjct: 792 ---EHSATIVPFRKLETLHLFELRGLKRIYAKALHFPCLKVIHVEKCEKLRKLPLDSKSG 848

Query: 832 KGCK--VVIKGEENWWKKA 848
              +  V+  GE  W ++ 
Sbjct: 849 IAGEELVIYYGEREWIERV 867

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|Q8L3R3|RFL1_ARATH Disease resistance protein RFL1 OS=Arabidopsis thaliana GN=RFL1 PE=3 SV=2

 Score =  607 bits (1564), Expect = e-172,   Method: Compositional matrix adjust.
 Identities = 359/855 (41%), Positives = 513/855 (60%), Gaps = 29/855 (3%)

Query: 1   YISQLEDNLPALQAQLQKLIESENDVMARVANAE-NQQMRQLNTVQGWLSRVEAVETEVG 59
           YI  L +NL +LQ  +  L    +DV  R+   E     R+L  VQ WL+R++ +E +  
Sbjct: 28  YIQNLSENLASLQKAMGVLNAKRDDVQGRINREEFTGHRRRLAQVQVWLTRIQTIENQFN 87

Query: 60  ELMRDSSQEVDKLCPGGCCSKNCKSSFKFGKRVAKTLQLVNNLMGEGAFDAVAEKVRPPA 119
           +L+   + E+ +LC  G CSKN K S+ +GKRV   L+ V  L  +G FD V E      
Sbjct: 88  DLLSTCNAEIQRLCLCGFCSKNVKMSYLYGKRVIVLLREVEGLSSQGVFDIVTEAAPIAE 147

Query: 120 VDQRPCEPT-VGLESMFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDF 178
           V++ P + T VG +SM DKVW CL E++V I+GLYGMGGVGKTTLLT+INNK       F
Sbjct: 148 VEELPIQSTIVGQDSMLDKVWNCLMEDKVWIVGLYGMGGVGKTTLLTQINNKFSKLGGGF 207

Query: 179 DVVIWVVVSKDLQLEKIQEKIGRRIGFLDESWKNGSLEDKASDILRILSKKKFLLLLDDI 238
           DVVIWVVVSK+  + KIQ+ IG ++G + ++W   +   +A DI  +L +KKF+LLLDDI
Sbjct: 208 DVVIWVVVSKNATVHKIQKSIGEKLGLVGKNWDEKNKNQRALDIHNVLRRKKFVLLLDDI 267

Query: 239 WERVDLTKVGVPFPDPENKSKIVFTTRFLEICGAMKAHEFLKVECLGPEDAWRLFRENLR 298
           WE+V+L  +GVP+P  EN  K+ FTT   E+CG M     +++ CL   +AW L ++ + 
Sbjct: 268 WEKVELKVIGVPYPSGENGCKVAFTTHSKEVCGRMGVDNPMEISCLDTGNAWDLLKKKVG 327

Query: 299 RDVLDNHPDIPELARSVAKEYAGLPLALITIGRAMTCKKTTQEWHHAIQILRRSSSEFPG 358
            + L +HPDIP+LAR V+++  GLPLAL  IG  M+ K+T QEW HA ++L  S+++F G
Sbjct: 328 ENTLGSHPDIPQLARKVSEKCCGLPLALNVIGETMSFKRTIQEWRHATEVL-TSATDFSG 386

Query: 359 MGKEVYPLLKFSYDSLPDDTIRSCFLYCGLFPEDYRIRKSELIDCWIGEGFL-DQYDRSG 417
           M  E+ P+LK+SYDSL  +  +SCFLYC LFPED+ IRK  LI+ WI EGF+ ++  R  
Sbjct: 387 MEDEILPILKYSYDSLNGEDAKSCFLYCSLFPEDFEIRKEMLIEYWICEGFIKEKQGREK 446

Query: 418 AYNEGYYIIGILLHACLLEEEEGDIAEEKSGEHVVKMHDVIRDMVLWIACKIEKEKENFL 477
           A+N+GY I+G L+ + LL E   D       + VV MHD++R+M LWI   + K KE  +
Sbjct: 447 AFNQGYDILGTLVRSSLLLEGAKD-------KDVVSMHDMVREMALWIFSDLGKHKERCI 499

Query: 478 VHAGLGLTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDN-SLKMIAGDFF 536
           V AG+GL E PE++NWR V+RMSLM N  E +  +P C  L++LFL +N  L  I+ +FF
Sbjct: 500 VQAGIGLDELPEVENWRAVKRMSLMNNNFEKILGSPECVELITLFLQNNYKLVDISMEFF 559

Query: 537 QFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAITHLPIELQKLVNLKCLNLEY 596
           + MPSL V ++S NH L +LP  IS LVSL++LDLSGT I  LP  L +L  L  L LE 
Sbjct: 560 RCMPSLAVLDLSENHSLSELPEEISELVSLQYLDLSGTYIERLPHGLHELRKLVHLKLER 619

Query: 597 MYNLNQFPRLVMSAFSKLQVLRILKSNVLFGGHQFLVEELMGMKHLMALTITLKSWEALQ 656
              L     +  S  S L+ LR+  S         L++EL  ++HL  +T  + S   + 
Sbjct: 620 TRRLESISGI--SYLSSLRTLRLRDSKTTLDTG--LMKELQLLEHLELITTDISS-GLVG 674

Query: 657 ELLISQELQRCTQSLFLRCF--NDSKSLDIFCLACLHNLNKLYVAGRKHLEDFQMTVQRS 714
           EL     + RC Q +++R       +S+ +  L  +HNL  + +    +   +++ ++++
Sbjct: 675 ELFCYPRVGRCIQHIYIRDHWERPEESVGVLVLPAIHNLCYISIW---NCWMWEIMIEKT 731

Query: 715 --SVNQLARGFHSLHTVKVGFCFKLKDLTWLVFAPSLKSIVVLSCCNMEQIIKAEKLSQL 772
               N     F +L  V++  C  LKDLTWL+FAP+L ++ V  C ++E II  EK + +
Sbjct: 732 PWKKNLTNPNFSNLSNVRIEGCDGLKDLTWLLFAPNLINLRVWGCKHLEDIISKEKAASV 791

Query: 773 HHHPERKKSVFAKLQFLSLENLRNLCCINWEALAFPNLKEIRV-EGCPKLFKLPLDSNS- 830
               E++   F KL+ L+L  L  L  I W AL F  L+ + +   CPKL KLPLDS S 
Sbjct: 792 ---LEKEILPFQKLECLNLYQLSELKSIYWNALPFQRLRCLDILNNCPKLRKLPLDSKSV 848

Query: 831 AKGCKVVIKGEENWW 845
            K  + VIK +E  W
Sbjct: 849 VKVEEFVIKYKEKKW 863

Disease resistance (R) protein.

Arabidopsis thaliana (taxid: 3702)

>sp|O64789|DRL18_ARATH Probable disease resistance protein At1g61310 OS=Arabidopsis thaliana GN=At1g61310 PE=2 SV=1

 Score =  599 bits (1544), Expect = e-170,   Method: Compositional matrix adjust.
 Identities = 349/840 (41%), Positives = 498/840 (59%), Gaps = 25/840 (2%)

Query: 1   YISQLEDNLPALQAQLQKLIESENDVMARVANAENQQMRQLNTVQGWLSRVEAVETEVGE 60
           YI  LE NL ALQ +++ L  ++++V  +VA  E++  ++L  VQ WL RV +++ E  +
Sbjct: 28  YIRTLEKNLRALQREMEDLRATQHEVQNKVAREESRHQQRLEAVQVWLDRVNSIDIECKD 87

Query: 61  LMRDSSQEVDKLCPGGCCSKNCKSSFKFGKRVAKTLQLVNNLMGEGAFDAVAEKVRPPAV 120
           L+  S  E+ KLC  G C+K   SS+K+GK+V   L+ V  L  EG FD V++      V
Sbjct: 88  LLSVSPVELQKLCLCGLCTKYVCSSYKYGKKVFLLLEEVKILKSEGNFDEVSQPPPRSEV 147

Query: 121 DQRPCEPTVGLESMFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDV 180
           ++RP +PT+G E M +K W  L E+ VGI+GL+GMGGVGKTTL  KI+NK       FD+
Sbjct: 148 EERPTQPTIGQEEMLEKAWNRLMEDGVGIMGLHGMGGVGKTTLFKKIHNKFAEIGGTFDI 207

Query: 181 VIWVVVSKDLQLEKIQEKIGRRIGFLDESWKNGSLEDKASDILRILSKKKFLLLLDDIWE 240
           VIW+VVS+  +L K+QE I  ++   D+ WKN +  DKA+DI R+L  K+F+L+LDDIWE
Sbjct: 208 VIWIVVSQGAKLSKLQEDIAEKLHLCDDLWKNKNESDKATDIHRVLKGKRFVLMLDDIWE 267

Query: 241 RVDLTKVGVPFPDPENKSKIVFTTRFLEICGAMKAHEFLKVECLGPEDAWRLFRENLRRD 300
           +VDL  +G+P+P   NK K+ FTTR  E+CG M  H+ ++V CL PEDAW LF+  +  +
Sbjct: 268 KVDLEAIGIPYPSEVNKCKVAFTTRSREVCGEMGDHKPMQVNCLEPEDAWELFKNKVGDN 327

Query: 301 VLDNHPDIPELARSVAKEYAGLPLALITIGRAMTCKKTTQEWHHAIQILRRSSSEFPGMG 360
            L + P I  LAR VA++  GLPLAL  IG  M  K   QEW +AI +L RS++EF GM 
Sbjct: 328 TLSSDPVIVGLAREVAQKCRGLPLALNVIGETMASKTMVQEWEYAIDVLTRSAAEFSGME 387

Query: 361 KEVYPLLKFSYDSLPDDTIRSCFLYCGLFPEDYRIRKSELIDCWIGEGFL--DQYDRSGA 418
            ++ P+LK+SYDSL D+ I+SCFLYC LFPED +I    LID  I EGF+  DQ  +  A
Sbjct: 388 NKILPILKYSYDSLGDEHIKSCFLYCALFPEDGQIYTETLIDKLICEGFIGEDQVIKR-A 446

Query: 419 YNEGYYIIGILLHACLLEE---EEGDIAEEKSGEHVVKMHDVIRDMVLWIACKIEKEKEN 475
            N+GY ++G L  A LL +   E  ++  + S  H V MHDV+R+M LWIA    K+KEN
Sbjct: 447 RNKGYAMLGTLTRANLLTKVGTELANLLTKVSIYHCV-MHDVVREMALWIASDFGKQKEN 505

Query: 476 FLVHAGLGLTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDF 535
           F+V A  GL E PE+++W  VRRMSLM+N+IE ++    C  L +LFL  N LK ++G+F
Sbjct: 506 FVVQASAGLHEIPEVKDWGAVRRMSLMRNEIEEITCESKCSELTTLFLQSNQLKNLSGEF 565

Query: 536 FQFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAITHLPIELQKLVNLKCLNLE 595
            ++M  L V ++S+N    +LP  IS LVSL++LDLS T I  LP+ L++L  L  L+L 
Sbjct: 566 IRYMQKLVVLDLSDNRDFNELPEQISGLVSLQYLDLSFTRIEQLPVGLKELKKLTFLDLA 625

Query: 596 YMYNLNQFPRLVMSAFSKLQVLRILKSNVLFGGHQFLVEELMGMKHLMALTITLKSWEAL 655
           Y   L     +      ++  L   K +    G   +++EL  +++L  L ITL +    
Sbjct: 626 YTARLCSISGISRLLSLRVLSLLGSKVH----GDASVLKELQQLENLQDLAITLSA---- 677

Query: 656 QELLISQELQRCTQSLFLRCFNDSKSLDIFCLACLHNLNKLYVAGRKHLE----DFQMTV 711
           + + + Q L +    L +  F   K  D+  LA + NL+ L+V      E    + +   
Sbjct: 678 ELISLDQRLAKVISILGIEGFL-QKPFDLSFLASMENLSSLWVKNSYFSEIKCRESETDS 736

Query: 712 QRSSVNQLARGFHSLHTVKVGFCFKLKDLTWLVFAPSLKSIVVLSCCNMEQIIKAEKLSQ 771
               +N     F +L  + +  C  +KDLTW++FAP+L  + +     + +II  EK + 
Sbjct: 737 SYLHINPKIPCFTNLSRLDIVKCHSMKDLTWILFAPNLVVLFIEDSREVGEIINKEKATN 796

Query: 772 LHHHPERKKSVFAKLQFLSLENLRNLCCINWEALAFPNLKEIRVEGCPKLFKLPLDSNSA 831
           L        + F KL+ L L  L  L  I W  L FP L  I VE CPKL KLPL++ SA
Sbjct: 797 L-----TSITPFLKLERLILCYLPKLESIYWSPLPFPLLLNIDVEECPKLRKLPLNATSA 851

Probable 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 =  595 bits (1533), Expect = e-169,   Method: Compositional matrix adjust.
 Identities = 348/837 (41%), Positives = 491/837 (58%), Gaps = 30/837 (3%)

Query: 1   YISQLEDNLPALQAQLQKLIESENDVMARVANAENQQMRQLNTVQGWLSRVEAVETEVGE 60
           YI  LE NL ALQ +++ L   +++V  +VA  E +  R+L  VQ WL RV +V+ E  +
Sbjct: 26  YIRTLEKNLRALQREMEDLRAIQHEVQNKVARDEARHQRRLEAVQVWLDRVNSVDIECKD 85

Query: 61  LMRDSSQEVDKLCPGGCCSKNCKSSFKFGKRVAKTLQLVNNLMGEGAFDAVAEKVRPPAV 120
           L+  +  E+ KLC  G CSK   SS+K+GK+V   L+ V  L  EG FD V++      V
Sbjct: 86  LLSVTPVELQKLCLCGLCSKYVCSSYKYGKKVFLLLEEVKKLNSEGNFDEVSQPPPRSEV 145

Query: 121 DQRPCEPTVGLESMFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDV 180
           ++RP +PT+G E M +K W  L E+ VGI+GL+GMGGVGKTTL  KI+NK       FD+
Sbjct: 146 EERPTQPTIGQEDMLEKAWNRLMEDGVGIMGLHGMGGVGKTTLFKKIHNKFAEIGGTFDI 205

Query: 181 VIWVVVSKDLQLEKIQEKIGRRIGFLDESWKNGSLEDKASDILRILSKKKFLLLLDDIWE 240
           VIW+VVSK + + K+QE I  ++   D+ WKN +  DKA+DI R+L  K+F+L+LDDIWE
Sbjct: 206 VIWIVVSKGVMISKLQEDIAEKLHLCDDLWKNKNESDKATDIHRVLKGKRFVLMLDDIWE 265

Query: 241 RVDLTKVGVPFPDPENKSKIVFTTRFLEICGAMKAHEFLKVECLGPEDAWRLFRENLRRD 300
           +VDL  +G+P+P   NK K+ FTTR  E+CG M  H+ ++V CL PEDAW LF+  +  +
Sbjct: 266 KVDLEAIGIPYPSEVNKCKVAFTTRSREVCGEMGDHKPMQVNCLEPEDAWELFKNKVGDN 325

Query: 301 VLDNHPDIPELARSVAKEYAGLPLALITIGRAMTCKKTTQEWHHAIQILRRSSSEFPGMG 360
            L + P I ELAR VA++  GLPLAL  IG  M+ K   QEW HAI +   S++EF  M 
Sbjct: 326 TLSSDPVIVELAREVAQKCRGLPLALNVIGETMSSKTMVQEWEHAIHVFNTSAAEFSDMQ 385

Query: 361 KEVYPLLKFSYDSLPDDTIRSCFLYCGLFPEDYRIRKSELIDCWIGEGFL--DQYDRSGA 418
            ++ P+LK+SYDSL D+ I+SCFLYC LFPED  I   +LID WI EGF+  DQ  +  A
Sbjct: 386 NKILPILKYSYDSLGDEHIKSCFLYCALFPEDGEIYNEKLIDYWICEGFIGEDQVIKR-A 444

Query: 419 YNEGYYIIGILLHACLLEEEEGDIAEEKSGEHVVKMHDVIRDMVLWIACKIEKEKENFLV 478
            N+GY ++G L  A LL          K G +   MHDV+R+M LWIA    K+KENF+V
Sbjct: 445 RNKGYAMLGTLTRANLL---------TKVGTYYCVMHDVVREMALWIASDFGKQKENFVV 495

Query: 479 HAGLGLTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQF 538
            AG+GL E P++++W  VR+MSLM N IE ++    C  L +LFL  N LK + G F ++
Sbjct: 496 QAGVGLHEIPKVKDWGAVRKMSLMDNDIEEITCESKCSELTTLFLQSNKLKNLPGAFIRY 555

Query: 539 MPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAITHLPIELQKLVNLKCLNLEYMY 598
           M  L V ++S N    KLP  IS LVSL+ LDLS T+I H+PI L++L  L  L+L Y  
Sbjct: 556 MQKLVVLDLSYNRDFNKLPEQISGLVSLQFLDLSNTSIEHMPIGLKELKKLTFLDLTYTD 615

Query: 599 NLNQFPRLVMSAFSKLQVLRILKSNVLFGGHQFLVEELMGMKHLMALTITLKSWEALQEL 658
            L     +      +L  L   K +    G   +++EL  +++L  L IT+ +    + +
Sbjct: 616 RLCSISGISRLLSLRLLRLLGSKVH----GDASVLKELQQLQNLQELAITVSA----ELI 667

Query: 659 LISQELQRCTQSLFLRCFNDSKSLDIFCLACLHNLNKLYVAGRKHLE----DFQMTVQRS 714
            + Q L +   +L +  F   K  D+  LA + NL+ L V      E    + +      
Sbjct: 668 SLDQRLAKLISNLCIEGFL-QKPFDLSFLASMENLSSLRVENSYFSEIKCRESETESSYL 726

Query: 715 SVNQLARGFHSLHTVKVGFCFKLKDLTWLVFAPSLKSIVVLSCCNMEQIIKAEKLSQLHH 774
            +N     F +L  +++  C  +KDLTW++FAP+L  +++     + +II  EK + L  
Sbjct: 727 RINPKIPCFTNLSRLEIMKCHSMKDLTWILFAPNLVVLLIEDSREVGEIINKEKATNL-- 784

Query: 775 HPERKKSVFAKLQFLSLENLRNLCCINWEALAFPNLKEIRVEGCPKLFKLPLDSNSA 831
                 + F KL++L L NL  L  I W  L FP L  + V  CPKL KLPL++ S 
Sbjct: 785 ---TSITPFLKLEWLILYNLPKLESIYWSPLPFPVLLTMDVSNCPKLRKLPLNATSV 838

Probable 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 =  592 bits (1526), Expect = e-168,   Method: Compositional matrix adjust.
 Identities = 359/851 (42%), Positives = 525/851 (61%), Gaps = 27/851 (3%)

Query: 1   YISQLEDNLPALQAQLQKLIESENDVMARVANAENQQMRQLNTVQGWLSRVEAVETEVGE 60
           YI  +++NL +L+  ++ L    +D++ +V  AE   +++L+ ++ WL RV+ +E++  +
Sbjct: 28  YIQNIKENLTSLEEAMEDLKALRDDLLRKVQTAEEGGLQRLHQIKVWLKRVKTIESQFND 87

Query: 61  LMRDSSQEVDKLCPGGCCSKNCKSSFKFGKRVAKTLQLVNNLMGEGAFDAVAEKVRPPAV 120
           L    + E+ +LC  G  S+N + S+ +G+RV   L +V +L  +G F+ VA        
Sbjct: 88  LDSSRTVELQRLCCCGVGSRNLRLSYDYGRRVFLMLNIVEDLKSKGIFEEVAHPATRAVG 147

Query: 121 DQRPCEPT-VGLESMFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFD 179
           ++RP +PT VG E++ +K W  L ++   I+GLYGMGGVGKTTLLT+INN+     +  +
Sbjct: 148 EERPLQPTIVGQETILEKAWDHLMDDGTKIMGLYGMGGVGKTTLLTQINNRFCDTDDGVE 207

Query: 180 VVIWVVVSKDLQLEKIQEKIGRRIGFLDESWKNGSLEDKASDILRILSKKKFLLLLDDIW 239
           +VIWVVVS DLQ+ KIQ++IG +IGF+   W   S   KA DIL  LSKK+F+LLLDDIW
Sbjct: 208 IVIWVVVSGDLQIHKIQKEIGEKIGFIGVEWNQKSENQKAVDILNFLSKKRFVLLLDDIW 267

Query: 240 ERVDLTKVGVPFPDPENKSKIVFTTRFLEICGAMKAHEFLKVECLGPEDAWRLFRENLRR 299
           +RV+LT++G+P P  EN  KI FTTR   +C +M  H+ ++V CLG +DAW LF++ +  
Sbjct: 268 KRVELTEIGIPNPTSENGCKIAFTTRCQSVCASMGVHDPMEVRCLGADDAWDLFKKKVGD 327

Query: 300 DVLDNHPDIPELARSVAKEYAGLPLALITIGRAMTCKKTTQEWHHAIQILRRSSSEFPGM 359
             L +HPDIPE+AR VA+   GLPLAL  IG  M CKKTTQEW  A+ +    ++ F  +
Sbjct: 328 ITLSSHPDIPEIARKVAQACCGLPLALNVIGETMACKKTTQEWDRAVDVSTTYAANFGAV 387

Query: 360 GKEVYPLLKFSYDSLPDDTIRSCFLYCGLFPEDYRIRKSELIDCWIGEGFLD-QYDRSGA 418
            + + P+LK+SYD+L  +++++CFLYC LFPED  I K  LID WI EGF+D   ++ GA
Sbjct: 388 KERILPILKYSYDNLESESVKTCFLYCSLFPEDDLIEKERLIDYWICEGFIDGDENKKGA 447

Query: 419 YNEGYYIIGILLHACLLEEEEGDIAEEKSGEHVVKMHDVIRDMVLWIACKIEKEKENFLV 478
             EGY I+G L+ A LL   EG     KS    VKMHDV+R+M LWIA  + K K+N +V
Sbjct: 448 VGEGYEILGTLVCASLL--VEGGKFNNKS---YVKMHDVVREMALWIASDLRKHKDNCIV 502

Query: 479 HAGLGLTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNS-LKMIAGDFFQ 537
            AG  L E P++++W+ V RMSL+ N+I+ +  +P CP L +LFL DN  L  I+G+FF+
Sbjct: 503 RAGFRLNEIPKVKDWKVVSRMSLVNNRIKEIHGSPECPKLTTLFLQDNRHLVNISGEFFR 562

Query: 538 FMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAITHLPIELQKLVNLKCLNLEYM 597
            MP L V ++S N  L  LP  IS LVSL +LDLS ++I  LP+ L KL  L  LNLE M
Sbjct: 563 SMPRLVVLDLSWNVNLSGLPDQISELVSLRYLDLSYSSIGRLPVGLLKLKKLMHLNLESM 622

Query: 598 YNLNQFPRLVMSAFSKLQVLRILKSNVLFGGHQFLVEELMGMKHLMALTITLKSWEALQE 657
             L     +     S L+ +R+L  N+       L+EEL  +++L  LTI + S  AL++
Sbjct: 623 LCLESVSGI--DHLSNLKTVRLL--NLRMWLTISLLEELERLENLEVLTIEIISSSALEQ 678

Query: 658 LLISQELQRCTQSLFLRCFNDSKSLDIFCLACLHNLNKLYVAGRKHLEDFQMTVQRSSVN 717
           LL S  L RC Q + ++ + D +S+ I  L  + +L ++++ G    +   + ++R++ +
Sbjct: 679 LLCSHRLVRCLQKVSVK-YLDEESVRILTLPSIGDLREVFIGGCGMRD---IIIERNT-S 733

Query: 718 QLARGFHSLHTVKVGFCFKLKDLTWLVFAPSLKSIVVLSCCNMEQIIKAEKLSQLHHHPE 777
             +  F +L  V +  C  LKDLTWL+FAP+L  + V +   +E+II  EK S     P 
Sbjct: 734 LTSPCFPNLSKVLITGCNGLKDLTWLLFAPNLTHLNVWNSRQIEEIISQEKASTADIVP- 792

Query: 778 RKKSVFAKLQFLSLENLRNLCCINWEALAFPNLKEIRVEG-CPKLFKLPLDSNS--AKGC 834
                F KL++L L +L  L  I W  L FP L +I V+  C KL KLPLDS S    G 
Sbjct: 793 -----FRKLEYLHLWDLPELKSIYWNPLPFPCLNQINVQNKCRKLTKLPLDSQSCIVAGE 847

Query: 835 KVVIK-GEENW 844
           ++VI+ G+E W
Sbjct: 848 ELVIQYGDEEW 858

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|O22727|DRL16_ARATH Probable disease resistance protein At1g61190 OS=Arabidopsis thaliana GN=At1g61190 PE=3 SV=1

 Score =  590 bits (1522), Expect = e-167,   Method: Compositional matrix adjust.
 Identities = 349/840 (41%), Positives = 498/840 (59%), Gaps = 30/840 (3%)

Query: 1   YISQLEDNLPALQAQLQKLIESENDVMARVANAENQQMRQLNTVQGWLSRVEAVETEVGE 60
           YI  LE NL ALQ +++ L  ++++V  +VA  E++  ++L  VQ WL RV +++ E  +
Sbjct: 27  YIRNLEKNLRALQREMEDLRATQHEVQNKVAREESRHQQRLEAVQVWLDRVNSIDIECKD 86

Query: 61  LMRDSSQEVDKLCPGGCCSKNCKSSFKFGKRVAKTLQLVNNLMGEGAFDAVAEKVRPPAV 120
           L+  S  E+ KLC  G CSK   SS+K+GKRV   L+ V  L  EG FD V++      V
Sbjct: 87  LLSVSPVELQKLCLCGLCSKYVCSSYKYGKRVFLLLEEVTKLKSEGNFDEVSQPPPRSEV 146

Query: 121 DQRPCEPTVGLESMFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDV 180
           ++RP +PT+G E M  K W  L E+ VGI+GL+GMGGVGKTTL  KI+NK       FD+
Sbjct: 147 EERPTQPTIGQEEMLKKAWNRLMEDGVGIMGLHGMGGVGKTTLFKKIHNKFAETGGTFDI 206

Query: 181 VIWVVVSKDLQLEKIQEKIGRRIGFLDESWKNGSLEDKASDILRILSKKKFLLLLDDIWE 240
           VIW+VVS+  +L K+QE I  ++   D+ WKN +  DKA+DI R+L  K+F+L+LDDIWE
Sbjct: 207 VIWIVVSQGAKLSKLQEDIAEKLHLCDDLWKNKNESDKATDIHRVLKGKRFVLMLDDIWE 266

Query: 241 RVDLTKVGVPFPDPENKSKIVFTTRFLEICGAMKAHEFLKVECLGPEDAWRLFRENLRRD 300
           +VDL  +G+P+P   NK K+ FTTR  ++CG M  H+ ++V+CL PEDAW LF+  +  +
Sbjct: 267 KVDLEAIGIPYPSEVNKCKVAFTTRDQKVCGQMGDHKPMQVKCLEPEDAWELFKNKVGDN 326

Query: 301 VLDNHPDIPELARSVAKEYAGLPLALITIGRAMTCKKTTQEWHHAIQILRRSSSEFPGMG 360
            L + P I  LAR VA++  GLPLAL  IG  M  K   QEW HAI +L RS++EF  M 
Sbjct: 327 TLRSDPVIVGLAREVAQKCRGLPLALSCIGETMASKTMVQEWEHAIDVLTRSAAEFSDMQ 386

Query: 361 KEVYPLLKFSYDSLPDDTIRSCFLYCGLFPEDYRIRKSELIDCWIGEGFL--DQYDRSGA 418
            ++ P+LK+SYDSL D+ I+SCFLYC LFPED +I    LI+ WI EGF+  DQ  +  A
Sbjct: 387 NKILPILKYSYDSLEDEHIKSCFLYCALFPEDDKIDTKTLINKWICEGFIGEDQVIKR-A 445

Query: 419 YNEGYYIIGILLHACLLEEEEGDIAEEKSGEHVVKMHDVIRDMVLWIACKIEKEKENFLV 478
            N+GY ++G L+ A LL  + G +       HVV MHDV+R+M LWIA    K+KEN++V
Sbjct: 446 RNKGYEMLGTLIRANLLTNDRGFVK-----WHVV-MHDVVREMALWIASDFGKQKENYVV 499

Query: 479 HAGLGLTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQF 538
            A +GL E P++++W  VRRMSLM N+IE ++    C  L +LFL  N LK ++G+F ++
Sbjct: 500 RARVGLHEIPKVKDWGAVRRMSLMMNEIEEITCESKCSELTTLFLQSNQLKNLSGEFIRY 559

Query: 539 MPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAITHLPIELQKLVNLKCLNLEYMY 598
           M  L V ++S+N    +LP  IS LVSL++LDLS T I  LP+ L++L  L  LNL +  
Sbjct: 560 MQKLVVLDLSHNPDFNELPEQISGLVSLQYLDLSWTRIEQLPVGLKELKKLIFLNLCFTE 619

Query: 599 NLNQFPRLVMSAFSKLQVLRILKSNVLFGGHQFLVEELMGMKHLMALTITLKSWEALQEL 658
            L     +      +   LR  +SNV   G   +++EL  +++L  L IT    E+ + +
Sbjct: 620 RLCSISGISRLLSLRWLSLR--ESNV--HGDASVLKELQQLENLQDLRIT----ESAELI 671

Query: 659 LISQELQRCTQSLFLRCFNDSKSLDIFCLACLHNLNKLYVAGRKHLEDFQMTVQRSS--- 715
            + Q L +    L +  F   K  D+  LA + NL  L V    +  +  +  + S    
Sbjct: 672 SLDQRLAKLISVLRIEGFL-QKPFDLSFLASMENLYGLLVEN-SYFSEINIKCRESETES 729

Query: 716 ----VNQLARGFHSLHTVKVGFCFKLKDLTWLVFAPSLKSIVVLSCCNMEQIIKAEKLSQ 771
               +N     F +L  + +  C  +KDLTW++FAP+L ++ +     + +II  EK   
Sbjct: 730 SYLHINPKIPCFTNLTGLIIMKCHSMKDLTWILFAPNLVNLDIRDSREVGEIINKEKAIN 789

Query: 772 LHHHPERKKSVFAKLQFLSLENLRNLCCINWEALAFPNLKEIRVEGCPKLFKLPLDSNSA 831
           L        + F KL+ L L  L  L  I W  L FP L  I V+ CPKL KLPL++ S 
Sbjct: 790 L----TSIITPFQKLERLFLYGLPKLESIYWSPLPFPLLSNIVVKYCPKLRKLPLNATSV 845

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FG91|DRL32_ARATH Probable disease resistance protein At5g43730 OS=Arabidopsis thaliana GN=At5g43730 PE=2 SV=1

 Score =  577 bits (1488), Expect = e-163,   Method: Compositional matrix adjust.
 Identities = 347/828 (41%), Positives = 489/828 (59%), Gaps = 21/828 (2%)

Query: 1   YISQLEDNLPALQAQLQKLIESENDVMARVANAENQQMRQLNTVQGWLSRVEAVETEVGE 60
           YI  +E NL ALQ  +++L    +D++ARV+  E++ +++L  V GWLSRV+ VE+E  +
Sbjct: 27  YIHLMESNLDALQKTMEELKNGRDDLLARVSIEEDKGLQRLALVNGWLSRVQIVESEFKD 86

Query: 61  LMRDSSQEVDKLCPGGCCSKNCKSSFKFGKRVAKTLQLVNNLMGEGAFDAVAEKVRPPAV 120
           L+   S E  +LC  G CS++C SS+ +G +V K L+ V  L+ +  F+ VA+K+ P A 
Sbjct: 87  LLEAMSIETGRLCLFGYCSEDCISSYNYGGKVMKNLEEVKELLSKKNFEVVAQKIIPKA- 145

Query: 121 DQRPCEPTVGLESMFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDV 180
           +++  + TVGL++M    W  L ++++  +GLYGMGG+GKTTLL  +NNK +   ++FDV
Sbjct: 146 EKKHIQTTVGLDTMVGIAWESLIDDEIRTLGLYGMGGIGKTTLLESLNNKFVELESEFDV 205

Query: 181 VIWVVVSKDLQLEKIQEKIGRRIGFLDESWKNGSLEDKASDILRILSKKKFLLLLDDIWE 240
           VIWVVVSKD QLE IQ++I  R+   D+ W+  +   KAS I   L +KKF+LLLDD+W 
Sbjct: 206 VIWVVVSKDFQLEGIQDQILGRLR-PDKEWERETESKKASLINNNLKRKKFVLLLDDLWS 264

Query: 241 RVDLTKVGVPFPDPENKSKIVFTTRFLEICGAMKAHEFLKVECLGPEDAWRLFRENLRRD 300
            VDL K+GVP P  EN SKIVFTTR  E+C  MKA + +KV+CL P++AW LFR  +   
Sbjct: 265 EVDLIKIGVPPPSRENGSKIVFTTRSKEVCKHMKADKQIKVDCLSPDEAWELFRLTVGDI 324

Query: 301 VLDNHPDIPELARSVAKEYAGLPLALITIGRAMTCKKTTQEWHHAIQILRRSSSEFPGMG 360
           +L +H DIP LAR VA +  GLPLAL  IG+AM CK+T QEW HAI +L     +FPGM 
Sbjct: 325 ILRSHQDIPALARIVAAKCHGLPLALNVIGKAMVCKETVQEWRHAINVLNSPGHKFPGME 384

Query: 361 KEVYPLLKFSYDSLPDDTIRSCFLYCGLFPEDYRIRKSELIDCWIGEGFL--DQYDRSGA 418
           + + P+LKFSYDSL +  I+ CFLYC LFPED+ I K +LI+ WI EG++  ++Y+  G 
Sbjct: 385 ERILPILKFSYDSLKNGEIKLCFLYCSLFPEDFEIEKDKLIEYWICEGYINPNRYE-DGG 443

Query: 419 YNEGYYIIGILLHACLLEEEEGDIAEEKSGEHVVKMHDVIRDMVLWIACKIEKEKENFLV 478
            N+GY IIG+L+ A LL E E     +K     VKMHDVIR+M LWI      ++E   V
Sbjct: 444 TNQGYDIIGLLVRAHLLIECE---LTDK-----VKMHDVIREMALWINSDFGNQQETICV 495

Query: 479 HAGLGLTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQF 538
            +G  +   P   +W  VR+MSL+  ++E ++ +P CP+L +L L  N L  I+  FF F
Sbjct: 496 KSGAHVRLIPNDISWEIVRQMSLISTQVEKIACSPNCPNLSTLLLPYNKLVDISVGFFLF 555

Query: 539 MPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAITHLPIELQKLVNLKCLNLEYMY 598
           MP L V ++S N  L +LP  IS L SL++L+LS T I  LP+ L+KL  L  LNLE+  
Sbjct: 556 MPKLVVLDLSTNWSLIELPEEISNLGSLQYLNLSLTGIKSLPVGLKKLRKLIYLNLEFTN 615

Query: 599 NLNQFPRLVMSAFSKLQVLRILKSNVLFGGHQFLVEELMGMKHLMALTITLKSWEALQEL 658
            L      + +    LQVL++  S  LF     ++EEL  +KHL  LT T++    L+ +
Sbjct: 616 VLESLVG-IATTLPNLQVLKLFYS--LFCVDDIIMEELQRLKHLKILTATIEDAMILERV 672

Query: 659 LISQELQRCTQSLFLRCFNDSKSLDIFCLACLHNLNKLYVAGRKHLE---DFQMTVQRSS 715
                L    + L LR  N S    I     L  L +L +      E   D+    +R  
Sbjct: 673 QGVDRLASSIRGLCLR--NMSAPRVILNSVALGGLQQLGIVSCNISEIEIDWLSKERRDH 730

Query: 716 VNQLARGFHSLHTVKVGFCFKLKDLTWLVFAPSLKSIVVLSCCNMEQIIKAEKLSQLHHH 775
            +  + GF  L ++ V      +DL+WL+FA +LK I V     +E+II  +K   +   
Sbjct: 731 RSTSSPGFKQLASITVIGLVGPRDLSWLLFAQNLKDIQVQYSPTIEEIINKQKGMSITKV 790

Query: 776 PERKKSVFAKLQFLSLENLRNLCCINWEALAFPNLKEIRVEGCPKLFK 823
                  F KL+ L L  L  L  I W     PNL+E  V  CPKL +
Sbjct: 791 HRDIVVPFGKLESLHLYQLAELTEICWNYQTLPNLRESYVNYCPKLLE 838

Probable 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	863
24461866	890	NBS-LRR type disease resistance protein	0.961	0.932	0.568	0.0
24461861	890	NBS-LRR type disease resistance protein	0.952	0.923	0.552	0.0
24461865	892	NBS-LRR type disease resistance protein	0.959	0.928	0.567	0.0
24461864	899	NBS-LRR type disease resistance protein	0.958	0.919	0.522	0.0
225443158	903	PREDICTED: probable disease resistance p	0.962	0.920	0.515	0.0
24461863	889	NBS-LRR type disease resistance protein	0.950	0.922	0.524	0.0
224055915	880	cc-nbs-lrr resistance protein [Populus t	0.961	0.943	0.491	0.0
359482674	991	PREDICTED: probable disease resistance p	0.967	0.842	0.491	0.0
359482672	905	PREDICTED: probable disease resistance p	0.968	0.923	0.493	0.0
225442867	893	PREDICTED: probable disease resistance p	0.965	0.932	0.497	0.0

>gi|24461866|gb|AAN62353.1|AF506028_20 NBS-LRR type disease resistance protein [Citrus trifoliata]

 Score =  958 bits (2477), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 490/862 (56%), Positives = 628/862 (72%), Gaps = 32/862 (3%)

Query: 1   YISQLEDNLPALQAQLQKLIESENDVMARVANAENQQMRQLNTVQGWLSRVEAVETEVGE 60
           YISQLEDNL  LQ +L++LIE+++DVM RV  AE QQM +LN VQGW+SRVEAV+ E  +
Sbjct: 28  YISQLEDNLDDLQTKLEQLIEAKDDVMNRVEIAERQQMSRLNQVQGWVSRVEAVKAEADQ 87

Query: 61  LMRDSSQEVDKLCPGGCCSKNCKSSFKFGKRVAKTLQLVNNLMGEGAFDAVAEKVRPPAV 120
           L+R  SQE+++LC  G CSKNCKSS+ FGK+V K LQLV  LMGEG F+ VAEKV   A 
Sbjct: 88  LIRVGSQEIERLCLWGYCSKNCKSSYDFGKKVTKKLQLVETLMGEGIFEVVAEKVPGAAA 147

Query: 121 DQRPCEPTV-GLESMFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFD 179
            +RP EPTV GL+S  ++VWRCL EE  GI+GLYGMGGVGKTTLLT INNK L +  +F+
Sbjct: 148 TERPTEPTVIGLQSQLEQVWRCLVEEPAGIVGLYGMGGVGKTTLLTHINNKFLESTTNFN 207

Query: 180 VVIWVVVSKDLQLEKIQEKIGRRIGFLDESWKNGSLEDKASDILRILSKKKFLLLLDDIW 239
            VIWVVVSKDL+LE IQE IG +IG L+++WKN  +E KA DI +IL +KKF+LLLDD+W
Sbjct: 208 YVIWVVVSKDLRLENIQETIGEKIGLLNDTWKNRRIEQKALDIFKILKEKKFVLLLDDLW 267

Query: 240 ERVDLTKVGVPFPDPENK-SKIVFTTRFLEICGAMKAHEFLKVECLGPEDAWRLFRENLR 298
           +RVDL +VGVP P P++  SK+VFT+R  E+CG M+AH+  KV CL   DAW LF++ + 
Sbjct: 268 QRVDLVEVGVPLPGPQSSTSKVVFTSRSEEVCGLMEAHKKFKVACLSDIDAWELFQQKVG 327

Query: 299 RDVLDNHPDIPELARSVAKEYAGLPLALITIGRAMTCKKTTQEWHHAIQILRRSSSEFPG 358
            + L + PDI +LA++ AKE  GLPLALITIGRAM CKKT +EW +AI++LR SSS+FPG
Sbjct: 328 EETLKS-PDIRQLAQTAAKECGGLPLALITIGRAMACKKTPEEWTYAIEVLRTSSSQFPG 386

Query: 359 MGKEVYPLLKFSYDSLPDDTIRSCFLYCGLFPEDYRIRKSELIDCWIGEGFLDQYDRSGA 418
           +G EVYPLLKFSYDSLP DTIRSC LYC L+PEDY I K  LIDCWIGEGFL + DR G 
Sbjct: 387 LGNEVYPLLKFSYDSLPSDTIRSCLLYCCLYPEDYCISKEILIDCWIGEGFLTERDRFGE 446

Query: 419 YNEGYYIIGILLHACLLEEEEGDIAEEKSGEHVVKMHDVIRDMVLWIACKIEKEKENFLV 478
            N+GY+I+GILLHACLLEE          G+  VKMHDV+RDM LWIAC IEKEK+NFLV
Sbjct: 447 QNQGYHILGILLHACLLEE---------GGDGEVKMHDVVRDMALWIACAIEKEKDNFLV 497

Query: 479 HAGLGLTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQF 538
           +AG+GL EAP++  W   RR+SLM N+I NLSE  TCPHLL+LFL++N L+MI  DFF+F
Sbjct: 498 YAGVGLIEAPDVSGWEKARRLSLMHNQITNLSEVATCPHLLTLFLNENELQMIHNDFFRF 557

Query: 539 MPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAITHLPIELQKLVNLKCLNLEYMY 598
           MPSL+V N++++ L   LP GIS LVSL+HLDLS ++I  LP+EL+ LVNLKCLNLEY +
Sbjct: 558 MPSLKVLNLADSSLT-NLPEGISKLVSLQHLDLSKSSIEELPLELKALVNLKCLNLEYTW 616

Query: 599 NLNQFPRLVMSAFSKLQVLRILKS-----------NVLFGGHQFLVEELMGMKHLMALTI 647
           +L   PR ++S  S+L VLR+  +           ++LFGG + +VEEL+G+K+L  ++ 
Sbjct: 617 SLTTIPRQLISNLSRLHVLRMFAASHSAFDRASEDSILFGGGELIVEELLGLKYLEVISF 676

Query: 648 TLKSWEALQELLISQELQRCTQSLFLRCFNDSKSLDIFCLACLHNLNKLYVAGRKHLEDF 707
           TL+S   LQ  L S +L+ CT++L L+CFNDS SL++  LA L  LN+L++   K LE+ 
Sbjct: 677 TLRSSHGLQSFLSSHKLRSCTRALLLQCFNDSTSLEVSALADLKQLNRLWITECKKLEEL 736

Query: 708 QMTVQRSSVNQLARGFHSLHTVKVGFCFKLKDLTWLVFAPSLKSIVVLSCCNMEQIIKAE 767
           +M   R  V Q    FHSL  V++  C KLKDLT+LVFAP+L+SI ++ C  ME+++   
Sbjct: 737 KMDYTR-EVQQFV--FHSLKKVEILACSKLKDLTFLVFAPNLESIELMGCPAMEEMVSMG 793

Query: 768 KLSQLHHHPERKKSV--FAKLQFLSLENLRNLCCINWEALAFPNLKEIRVEGCPKLFKLP 825
           K +++   PE   ++  FAKLQ L L    NL  I W+ L FP+LK +    C KL KLP
Sbjct: 794 KFAEV---PEVVANLNPFAKLQNLKLFGATNLKSIYWKPLPFPHLKSMSFSHCYKLKKLP 850

Query: 826 LDSNSAKGCKVVIKGEENWWKK 847
           LDSNSA+   +VI G   WW++
Sbjct: 851 LDSNSARERNIVISGTRRWWEQ 872

Source: Citrus trifoliata

Species: Citrus trifoliata

Genus: Citrus

Family: Rutaceae

Order: Sapindales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|24461861|gb|AAN62348.1|AF506028_15 NBS-LRR type disease resistance protein [Citrus trifoliata]

 Score =  904 bits (2336), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 478/865 (55%), Positives = 609/865 (70%), Gaps = 43/865 (4%)

Query: 1   YISQLEDNLPALQAQLQKLIESENDVMARVANAENQQMRQLNTVQGWLSRVEAVETEVGE 60
           YIS L+DNL AL  +L+KLI ++ND+M RV +AE QQMR+L+ VQ W+SRVE VETE   
Sbjct: 29  YISNLQDNLVALDTELRKLIAAKNDLMRRVNDAERQQMRRLDQVQVWVSRVETVETEADA 88

Query: 61  LMRDSSQEVDKLCPGGCCSKNCKSSFKFGKRVAKTLQLVNNLMGEGAFDAVAEKVRPPAV 120
            + D +QE++KLC GG CSKNCKSS+KFGK+VA+ L+ +  LMGEG F+ VA+KV  PAV
Sbjct: 89  FIGDGTQEIEKLCLGGYCSKNCKSSYKFGKQVARKLRDIKTLMGEGVFEVVADKVPEPAV 148

Query: 121 DQRPCEPTV-GLESMFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFD 179
           D+RP EPTV GL+S  ++VWRCL EE VGI+GLYGMGGVGKTTLLT INNK LG+P +FD
Sbjct: 149 DERPTEPTVVGLQSQLEEVWRCLVEEPVGIVGLYGMGGVGKTTLLTHINNKFLGSPTNFD 208

Query: 180 VVIWVVVSKDLQLEKIQEKIGRRIGFLDESWKNGSLEDKASDILRILSKKKFLLLLDDIW 239
           +VI VVVSKDL+LE IQE IG +IG L+++WK+  +E KA DI RIL  K F++LLDDIW
Sbjct: 209 LVILVVVSKDLRLESIQEVIGEKIGLLNDAWKSRRIEQKALDIFRILRGKNFVVLLDDIW 268

Query: 240 ERVDLTKVGVPFPDPE-NKSKIVFTTRFLEICGAMKAHEFLKVECLGPEDAWRLFRENLR 298
           +RVDL KVG+P P+ + + SK+VFTTR  E+CG M+AH+  KVECL   DAW LFR+ + 
Sbjct: 269 QRVDLAKVGIPLPNSQTSASKVVFTTRSEEVCGLMEAHKKFKVECLSGNDAWELFRQKVG 328

Query: 299 RDVLDNHPDIPELARSVAKEYAGLPLALITIGRAMTCKKTTQEWHHAIQILRRSSSEFPG 358
            + L+ H DI ELA++V KE  GLPLALITIGRAM CKKT +EW +AIQ+LR SSS+FPG
Sbjct: 329 EETLNCHHDILELAQTVTKECGGLPLALITIGRAMACKKTPEEWSYAIQVLRTSSSQFPG 388

Query: 359 MGKEVYPLLKFSYDSLPDDTIRSCFLYCGLFPEDYRIRKSELIDCWIGEGFLDQYDRSGA 418
           +G EVYPLLKFSYD+LP+DTIRSC LYC L+PED  I K  L+DCWIGEG L+     G+
Sbjct: 389 LGNEVYPLLKFSYDNLPNDTIRSCLLYCCLYPEDCCISKENLVDCWIGEGLLNGSVTLGS 448

Query: 419 YNEGYYIIGILLHACLLEEEEGDIAEEKSGEHVVKMHDVIRDMVLWIACKIEKEKENFLV 478
           + +GY+++GIL+H+CLLEE +         E  VKMHDVIRDM LW+AC  EKEKEN+LV
Sbjct: 449 HEQGYHVVGILVHSCLLEEVD---------EDEVKMHDVIRDMALWLACDAEKEKENYLV 499

Query: 479 HAGLGLTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFL-SDNSLKMIAGDFFQ 537
           +AG GL EAP++  W  +RR+SLM+N+IENLSE PTCPHLL+LFL SD+ L  I  DF Q
Sbjct: 500 YAGAGLREAPDVIEWEKLRRLSLMENQIENLSEVPTCPHLLTLFLNSDDILWRINSDFLQ 559

Query: 538 FMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAITHLPIELQKLVNLKCLNLEYM 597
            M  L+V N+S    L  LP GIS LVSLE+LDLS + I+ +P EL+ LVNLKCLNLEY 
Sbjct: 560 SMLRLKVLNLSRYMGLLVLPLGISKLVSLEYLDLSTSLISEIPEELKALVNLKCLNLEYT 619

Query: 598 YNLNQFPRLVMSAFSKLQVLRILKSNVLFGGHQFLVEELM------------GMKHLMAL 645
             L + P  ++S FS+L VLR+   N  F    + +E ++            G+KHL  L
Sbjct: 620 GRLLKIPLQLISNFSRLHVLRMF-GNAYFSYGNYPIESVLFGGGELLVEELLGLKHLEVL 678

Query: 646 TITLKSWEALQELLISQELQRCTQSLFLRCFNDSKSLDIFCLACLHNLNKLYVAGRKHLE 705
           ++TL S  ALQ  L S  L+ CT+++ L+ F  S S+D+  LA L  L +L ++    L 
Sbjct: 679 SLTLGSSRALQSFLTSHMLRSCTRAMLLQDFQGSTSVDVSGLADLKRLKRLRISDCYELV 738

Query: 706 ----DFQMTVQRSSVNQLARGFHSLHTVKVGFCFKLKDLTWLVFAPSLKSIVVLSCCNME 761
               D+   VQR        GFHSL + +V +C KLKDLT LV  P+LKSI V  C  ME
Sbjct: 739 ELKIDYAGEVQR-------YGFHSLQSFEVNYCSKLKDLTLLVLIPNLKSIEVTDCEAME 791

Query: 762 QIIKAEKLSQLHHHPERKKSVFAKLQFLSLENLRNLCCINWEALAFPNLKEIRVEGCPKL 821
           +II    + +   +P    + FAKLQ+L + NL NL  I W+ L FP L+E+ V  C +L
Sbjct: 792 EII---SVGEFAGNP----NAFAKLQYLGIGNLPNLKSIYWKPLPFPCLEELTVSDCYEL 844

Query: 822 FKLPLDSNSAKGCKVVIKGEENWWK 846
            KLPLDSNSAK  K+VI+G  NWW+
Sbjct: 845 KKLPLDSNSAKEHKIVIRGAANWWR 869

Source: Citrus trifoliata

Species: Citrus trifoliata

Genus: Citrus

Family: Rutaceae

Order: Sapindales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|24461865|gb|AAN62352.1|AF506028_19 NBS-LRR type disease resistance protein [Citrus trifoliata]

 Score =  876 bits (2263), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 488/860 (56%), Positives = 618/860 (71%), Gaps = 32/860 (3%)

Query: 1   YISQLEDNLPALQAQLQKLIESENDVMARVANAENQ-QMRQLNTVQGWLSRVEAVETEVG 59
           YI  L+ NL  L+ +L KLI+++ DVM RV  AE    M++LN VQGWLSRVEA +++  
Sbjct: 27  YIKNLKQNLADLETELGKLIDAKEDVMRRVNTAERHPMMKRLNKVQGWLSRVEAAKSDGD 86

Query: 60  ELMRDSSQEVDKLCPGGCCSKNCKSSFKFGKRVAKTLQLVNNLMGEGAFDAVAEKVRPPA 119
           +L+   SQE+ KLC GG CSKNCKSS++FGK+VA+ L  V  LM E AF+AVAE+V  PA
Sbjct: 87  KLITCGSQEIKKLCLGGYCSKNCKSSYEFGKQVARKLGDVKTLMAEEAFEAVAEEVPQPA 146

Query: 120 VDQRPCEPTV-GLESMFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDF 178
           VD+RP EPTV GL+S F++V  CL EE   I+GLYGMGGVGKTTLLT I+NK + +P +F
Sbjct: 147 VDERPTEPTVVGLQSQFEQVCNCLEEESARIVGLYGMGGVGKTTLLTHIHNKFIQSPTNF 206

Query: 179 DVVIWVVVSKDLQLEKIQEKIGRRIGFLDESWKNGSLEDKASDILRILSKKKFLLLLDDI 238
           + VIWVV SKDL+LE IQE IG +IG L+++WKN  +E KA DI RIL +KKFLLLLDD+
Sbjct: 207 NYVIWVVASKDLRLENIQETIGEQIGLLNDTWKNKRIEQKAQDIFRILKQKKFLLLLDDL 266

Query: 239 WERVDLTKVGVPFPDPENK-SKIVFTTRFLEICGAMKAHEFLKVECLGPEDAWRLFRENL 297
           W+RVDLTKVGVP P P+N  SK+VFTTR  E+CG M AH   KV CL   DAW LFR+N+
Sbjct: 267 WQRVDLTKVGVPLPGPQNNASKVVFTTRSEEVCGLMGAHTRFKVACLSNIDAWELFRQNV 326

Query: 298 RRDVLDNHPDIPELARSVAKEYAGLPLALITIGRAMTCKKTTQEWHHAIQILRRSSSEFP 357
             + +++HPDI +LA++ A+E  GLPLALITIGRAM CKKT +EW +AI++LR SSS+FP
Sbjct: 327 GEETMNSHPDILQLAQTAARECGGLPLALITIGRAMACKKTPEEWSYAIEVLRTSSSQFP 386

Query: 358 GMGKEVYPLLKFSYDSLPDDTIRSCFLYCGLFPEDYRIRKSELIDCWIGEGFLDQYDRSG 417
           G+G EVYPLLKFSYDSLP DTIRSC LYC L+PEDY I K +LIDCWIGE  L + DR+G
Sbjct: 387 GLGNEVYPLLKFSYDSLPSDTIRSCHLYCSLYPEDYCISKEKLIDCWIGERLLTERDRTG 446

Query: 418 AYNEGYYIIGILLHACLLEEEEGDIAEEKSGEHVVKMHDVIRDMVLWIACKIEKEKENFL 477
              EGY+I+GILLHACLLEE          G+  VKMHDVIRDM LWIAC IE+EKENF 
Sbjct: 447 EQKEGYHILGILLHACLLEE---------GGDGEVKMHDVIRDMALWIACDIEREKENFF 497

Query: 478 VHAGLGLTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQ 537
           V+AG+GL EAP+++ W   RR+SLM+N+I NLSE PTCPHLL+L L++N+L+ I   FFQ
Sbjct: 498 VYAGVGLVEAPDVRGWEKARRLSLMQNQIRNLSEIPTCPHLLTLLLNENNLRKIQNYFFQ 557

Query: 538 FMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAITHLPIELQKLVNLKCLNLEYM 597
           FMPSL+V N+S+  L  KLP GIS LVSL+HLDLS + I   P EL+ LVNLKCL+LEY 
Sbjct: 558 FMPSLKVLNLSHCELT-KLPVGISELVSLQHLDLSESDIEEFPGELKALVNLKCLDLEYT 616

Query: 598 YNLNQFPRLVMSAFSKLQVLRIL-----------KSNVLFGGHQFLVEELMGMKHLMALT 646
            NL   PR ++S  S+L+VLR+            ++++LFGG + +VEEL+G+KHL  +T
Sbjct: 617 RNLITIPRQLISNLSRLRVLRMFGASHNAFDEASENSILFGGGELIVEELLGLKHLEVIT 676

Query: 647 ITLKSWEALQELLISQELQRCTQSLFLRCFNDSKSLDIFCLACLHNLNKLYVAGRKHLED 706
           +TL+S   LQ  L S +L+ CTQ+L L+ F DS SL++  LA L  LN+L +A    LE+
Sbjct: 677 LTLRSSYGLQSFLNSHKLRSCTQALLLQHFKDSTSLEVSALADLKQLNRLQIANSVILEE 736

Query: 707 FQMTVQRSSVNQLARGFHSLHTVKVGFCFKLKDLTWLVFAPSLKSIVVLSCCNMEQIIKA 766
            +M      V Q A  F SL+ V++  C +LKDLT+LVFAP+LKSI V  C  ME+I   
Sbjct: 737 LKMDYA-EEVQQFA--FRSLNMVEICNCIQLKDLTFLVFAPNLKSIKVGICHAMEEIASE 793

Query: 767 EKLSQLHHHPERKKSV--FAKLQFLSLENLRNLCCINWEALAFPNLKEIRVEGCPKLFKL 824
            K +++   PE   ++  F KLQ L +   RNL  I W++L FP+LK +    C KL KL
Sbjct: 794 GKFAEV---PEVMANLNPFEKLQNLEVAGARNLKSIYWKSLPFPHLKAMSFLHCKKLKKL 850

Query: 825 PLDSNSAKGCKVVIKGEENW 844
           PLDSNSAK  K+VI GE NW
Sbjct: 851 PLDSNSAKERKIVISGERNW 870

Source: Citrus trifoliata

Species: Citrus trifoliata

Genus: Citrus

Family: Rutaceae

Order: Sapindales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|24461864|gb|AAN62351.1|AF506028_18 NBS-LRR type disease resistance protein [Citrus trifoliata]

 Score =  838 bits (2165), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 455/871 (52%), Positives = 581/871 (66%), Gaps = 44/871 (5%)

Query: 1   YISQLEDNLPALQAQLQKLIESENDVMARVANAENQQM-RQLNTVQGWLSRVEAVETEVG 59
           Y+  L+ N+ AL+ +L KLI  ++DVMARV NAE QQM  +LN VQ WLSRV+AV     
Sbjct: 29  YVRNLQKNVEALKNELPKLIAKKDDVMARVVNAERQQMMTRLNEVQLWLSRVDAVTAGAD 88

Query: 60  ELMRDSSQEVDKLCPGGCCSKNCKSSFKFGKRVAKTLQLVNNLMGEGAFDAVAEKVRPPA 119
           EL+R  SQE++KLC GG CSKNCKSS KFGK+V K L  V  L+ EG+F  VA++     
Sbjct: 89  ELIRIGSQEIEKLCLGGYCSKNCKSSKKFGKQVDKKLSDVKILLAEGSFAVVAQRAPESV 148

Query: 120 VDQRPCEPTVGLESMFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPN-DF 178
            D+RP EP VG++S  ++VWRCL EE VGI+GLYGMGGVGKTTLLT +NNK LG  +  F
Sbjct: 149 ADERPIEPAVGIQSQLEQVWRCLVEEPVGIVGLYGMGGVGKTTLLTHLNNKFLGQRDFHF 208

Query: 179 DVVIWVVVSKDLQLEKIQEKIGRRIGFLDESWKNGSLEDKASDILRILSKKKFLLLLDDI 238
           D +IWVVVSKDLQ+EKIQE IG+++G  ++SW   +L ++A DI  +L +KKF+LLLDD+
Sbjct: 209 DFLIWVVVSKDLQIEKIQEIIGKKVGLFNDSWMKKNLAERAVDIYNVLKEKKFVLLLDDV 268

Query: 239 WERVDLTKVGVPFPDPENKS--KIVFTTRFLEICGAMKAHEFLKVECLGPEDAWRLFREN 296
           W+RVD   VGVP P P +KS  K+VFTTR  E+CG M AH+ ++VECL   DAW LFR+N
Sbjct: 269 WQRVDFATVGVPIP-PRDKSASKVVFTTRSTEVCGRMGAHKKIEVECLSANDAWELFRQN 327

Query: 297 LRRDVLDNHPDIPELARSVAKEYAGLPLALITIGRAMTCKKTTQEWHHAIQILRRSSSEF 356
           +  + L+  P I ELA  VAKE   LPLALI  GRAM CKKT  EW  AI++L+ S+SEF
Sbjct: 328 VGEETLNGQPKILELAERVAKECGCLPLALIVTGRAMACKKTPAEWRDAIKVLQTSASEF 387

Query: 357 PGMGKEVYPLLKFSYDSLPDDTIRSCFLYCGLFPEDYRIRKSELIDCWIGEGFLDQYDRS 416
           PG+   V  +LKFSYDSLPDDT RSC LYC LFPEDYRI K  LIDCWIGEGFL    + 
Sbjct: 388 PGLENNVLRVLKFSYDSLPDDTTRSCLLYCCLFPEDYRIYKENLIDCWIGEGFLKVTGKY 447

Query: 417 GAYNEGYYIIGILLHACLLEEEEGDIAEEKSGEHVVKMHDVIRDMVLWIAC------KIE 470
              + G+ I+G ++HACLLEEE         G+ VVKMHDVIRDM LWIAC        E
Sbjct: 448 ELQDRGHTILGNIVHACLLEEE---------GDDVVKMHDVIRDMTLWIACDTEKTEDTE 498

Query: 471 KEKENFLVHAGLGLTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDN-SLK 529
           K+KEN+LV+ G GLTEAP ++ W N +R+SLM+ +I NLSE PTC HLL+LFL  N  L+
Sbjct: 499 KKKENYLVYEGAGLTEAPNVREWENAKRLSLMETQIRNLSEVPTCLHLLTLFLVFNEELE 558

Query: 530 MIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAITHLPIELQKLVNL 589
           MI GDFF+ MP L+V N+S    +   P G+S LVSL+HLDLSGTAI  LP EL  L NL
Sbjct: 559 MITGDFFKSMPCLKVLNLSGARRMSSFPLGVSVLVSLQHLDLSGTAIQELPKELNALENL 618

Query: 590 KCLNLEYMYNLNQFPRLVMSAFSKLQVLRIL-----------KSNVLFGGHQFLVEELMG 638
           K LNL+  + L   PR ++S FS L VLR+              + LF G   LVE L G
Sbjct: 619 KSLNLDQTHYLITIPRQLISRFSCLVVLRMFGVGDWSPNGKRNDSDLFSGGDLLVEALRG 678

Query: 639 MKHLMALTITLKSWEALQELLISQELQRCTQSLFLRCFNDSKSLDIFCLACLHNLNKLYV 698
           +KHL  L++TL + + LQ +L S++L+ CTQ+L+L  F  S+ LD+  LA L +LN+L++
Sbjct: 679 LKHLEVLSLTLNNSQDLQCVLNSEKLRSCTQALYLHSFKRSEPLDVSALAGLEHLNRLWI 738

Query: 699 AGRKHLEDFQMTVQRSSVNQLARGFHSLHTVKVGFCFKLKDLTWLVFAPSLKSIVVLSCC 758
              + LE+ +M  Q          F SL  +++  C +LK+LT+L+FAP+LKSI V SC 
Sbjct: 739 HECEELEELKMARQPFV-------FQSLEKIQIYGCHRLKNLTFLLFAPNLKSIEVSSCF 791

Query: 759 NMEQIIKAEKLSQLHHHPERKKSV--FAKLQFLSLENLRNLCCINWEALAFPNLKEIRVE 816
            ME+II   K +     PE    +  FA+L  L L  L  L  I    L FP L+++ V 
Sbjct: 792 AMEEIISEVKFADF---PEVMPIIKPFAQLYSLRLGGLTVLKSIYKRPLPFPCLRDLTVN 848

Query: 817 GCPKLFKLPLDSNSAKGCKVVIKGEENWWKK 847
            C +L KLPLDSNSAK  K+VI+G   WW++
Sbjct: 849 SCDELRKLPLDSNSAKERKIVIRGYTKWWEQ 879

Source: Citrus trifoliata

Species: Citrus trifoliata

Genus: Citrus

Family: Rutaceae

Order: Sapindales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225443158|ref|XP_002263674.1| PREDICTED: probable disease resistance protein At5g63020-like [Vitis vinifera]

 Score =  830 bits (2145), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 447/867 (51%), Positives = 586/867 (67%), Gaps = 36/867 (4%)

Query: 1   YISQLEDNLPALQAQLQKLIESENDVMARVANAENQQMRQLNTVQGWLSRVEAVETEVGE 60
           YI + E+N+ AL+  L+ L +  ND+  +V   E Q M QL+ VQ W SR EA+E EV +
Sbjct: 28  YICEFEENIKALKEALEDLKDFRNDMKRKVEMGEGQPMEQLDQVQRWFSRAEAMELEVDQ 87

Query: 61  LMRDSSQEVDKLCPGGCCSKNCKSSFKFGKRVAKTLQLVNNLMGEGAFDAVAEKVRPPAV 120
           L+RD ++E  K C GGCCSKNC SS+K G+++ K    V  L     FD +A+++ PPAV
Sbjct: 88  LIRDGTRETQKFCLGGCCSKNCLSSYKLGRKLVKKADDVATLRSTRLFDGLADRLPPPAV 147

Query: 121 DQRPCEPTVGLESMFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDV 180
           D+RP EPTVG ES  D+VW CL EEQV IIGLYGMGGVGKTTL+T++NN+ L   + FD+
Sbjct: 148 DERPSEPTVGFESTIDEVWSCLREEQVQIIGLYGMGGVGKTTLMTQVNNEFLKTIHQFDI 207

Query: 181 VIWVVVSKDLQLEKIQEKIGRRIGFLDESWKNGSLEDKASDILRILSKKKFLLLLDDIWE 240
           VIWVVVS+D   EK+Q++I +++GF D+ WK+ S ++KA  I RIL KKKF+L LDD+WE
Sbjct: 208 VIWVVVSRDPNPEKVQDEIWKKVGFCDDKWKSKSQDEKAISIFRILGKKKFVLFLDDVWE 267

Query: 241 RVDLTKVGVPFPDPENKSKIVFTTRFLEICGAMKAHEFLKVECLGPEDAWRLFRENLRRD 300
           R DL KVG+P P+ +N SK+VFTTR  E+CG M AH  +KVECL  + AW LF+  +  D
Sbjct: 268 RFDLLKVGIPLPNQQNNSKLVFTTRSEEVCGRMGAHRRIKVECLAWKQAWDLFQNMVGED 327

Query: 301 VLDNHPDIPELARSVAKEYAGLPLALITIGRAMTCKKTTQEWHHAIQILRRSSSEFPGMG 360
            L++HP+IP+LA ++ KE  GLPLAL+T GR M CKK  QEW  AI++L+ SSS FPGM 
Sbjct: 328 TLNSHPEIPQLAETIVKECLGLPLALVTTGRTMACKKAPQEWKFAIKMLQSSSSSFPGMR 387

Query: 361 KEVYPLLKFSYDSLPDDTIRSCFLYCGLFPEDYRIRKSELIDCWIGEGFLDQY-DRSGAY 419
            EV+ LLKFSYD+LP DT RSCFLYC L+PED  I K +LIDCWI EGFLD++ DR GA 
Sbjct: 388 DEVFSLLKFSYDNLPSDTARSCFLYCSLYPEDNDIFKEDLIDCWICEGFLDEFDDRDGAR 447

Query: 420 NEGYYIIGILLHACLLEEEEGDIAEEKSGEHVVKMHDVIRDMVLWIACKIEKEKENFLVH 479
           N+G+ IIG L+ ACLLEE         S E+ VKMHDVIRDM LWIAC+  + K+ FLV 
Sbjct: 448 NQGFDIIGSLIRACLLEE---------SREYFVKMHDVIRDMALWIACECGRVKDKFLVQ 498

Query: 480 AGLGLTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFM 539
           AG GLTE PEI  W+ V RMSLM N IE L++ PTCP+LL+LFL++NSL++I   FFQ M
Sbjct: 499 AGAGLTELPEIGKWKGVERMSLMSNHIEKLTQVPTCPNLLTLFLNNNSLEVITDGFFQLM 558

Query: 540 PSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAITHLPIELQKLVNLKCLNLEYMYN 599
           P L+V N+S + +  +LP+ I  LVSL +LDLS T I+HLP E + LVNLK LNL+Y   
Sbjct: 559 PRLQVLNLSWSRVS-ELPTEIFRLVSLRYLDLSWTCISHLPNEFKNLVNLKYLNLDYTQQ 617

Query: 600 LNQFPRLVMSAFSKLQVLRIL--------KSNVLFGGHQFLVEELMGMKHLMALTITLKS 651
           L   PR V+S+ S+LQVL++         + NVL  G++ LV EL  + +L  L IT++S
Sbjct: 618 LGIIPRHVVSSMSRLQVLKMFHCGFYGVGEDNVLSDGNEALVNELECLNNLCDLNITIRS 677

Query: 652 WEALQELLISQELQRCTQSLFLRCFNDSKSLDIFCLACLHNLNKLYVAGRKHLEDFQMT- 710
             ALQ  L S++++ CTQ LFL+ FN   SLDI  L  +  L+ L+++    L D  +  
Sbjct: 678 ASALQRCLCSEKIEGCTQDLFLQFFNGLNSLDISFLENMKRLDTLHISDCATLADLNING 737

Query: 711 -------------VQRSSVNQLARGFHSLHTVKVGFCFKLKDLTWLVFAPSLKSIVVLSC 757
                        +  S +  L + FHSL +V++  C  LKDLTWLVFAP+L ++ ++ C
Sbjct: 738 TDEGQEILTSDNYLDNSKITSL-KNFHSLRSVRIERCLMLKDLTWLVFAPNLVNLWIVFC 796

Query: 758 CNMEQIIKAEKLSQLHHHPERKKSVFAKLQFLSLENLRNLCCINWEALAFPNLKEIRVEG 817
            N+EQ+I + K  +      R  S FAKL+ L L +L  L  I    LAFP LKE+RV  
Sbjct: 797 RNIEQVIDSGKWVEAAEG--RNMSPFAKLEDLILIDLPKLKSIYRNTLAFPCLKEVRVHC 854

Query: 818 CPKLFKLPLDSNSAKGCKVVIKGEENW 844
           CPKL KLPL+SNSAKG  +VI GE++W
Sbjct: 855 CPKLKKLPLNSNSAKGRGMVIYGEKDW 881

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|24461863|gb|AAN62350.1|AF506028_17 NBS-LRR type disease resistance protein [Citrus trifoliata]

 Score =  818 bits (2113), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 456/870 (52%), Positives = 592/870 (68%), Gaps = 50/870 (5%)

Query: 1   YISQLEDNLPALQAQLQKLIESENDVMARVANAENQ-QMRQLNTVQGWLSRVEAVETEVG 59
           YI  L++N+ AL+ +L KLIE++NDVMARV N E Q  M +LN VQGWLS V+AV+ E  
Sbjct: 27  YIRNLQENVVALETELGKLIEAKNDVMARVVNTERQPMMTRLNKVQGWLSGVDAVKAEAD 86

Query: 60  ELMRDSSQEVDKLCPGGCCSKNCKSSFKFGKRVAKTLQLVNNLMGEGAFDAVAEKVRPPA 119
           EL+R  SQE++KLC GG CSKN KSS+KFGK+VAK L+    LM EG F+ VAE+     
Sbjct: 87  ELIRHGSQEIEKLCLGGYCSKNWKSSYKFGKQVAKKLRDAGTLMAEGVFEVVAERA---- 142

Query: 120 VDQRPCEPTVGLESMFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPN-DF 178
               P    VG++S  + VWRCL EE VGI+GLYGMGGVGKTTLLT +NNK LG  +  F
Sbjct: 143 ----PESAAVGMQSRLEPVWRCLVEEPVGIVGLYGMGGVGKTTLLTHLNNKFLGQRDFHF 198

Query: 179 DVVIWVVVSKDLQLEKIQEKIGRRIGFLDESWKNGSLEDKASDILRILSKKKFLLLLDDI 238
           D +IWVVVSKDLQ+EKIQE IG+++GF ++SW   +L ++A DI  +L +KKF+LLLDD+
Sbjct: 199 DFLIWVVVSKDLQIEKIQEIIGKKVGFFNDSWMKKNLAERAVDIYNVLKEKKFVLLLDDV 258

Query: 239 WERVDLTKVGVPFPDPENKS--KIVFTTRFLEICGAMKAHEFLKVECLGPEDAWRLFREN 296
           W+RVD   VGVP P P +KS  K+VFTTR  E+C  M AH+   V CL   DAW LFR+N
Sbjct: 259 WQRVDFATVGVPIP-PRDKSASKVVFTTRSAEVCVWMGAHKKFGVGCLSANDAWELFRQN 317

Query: 297 LRRDVLDNHPDIPELARSVAKEYAGLPLALITIGRAMTCKKTTQEWHHAIQILRRSSSEF 356
           +  + L +  DI ELA+ VA+E  GLPLALITIG+AM  KKT +EW HAI++LRRS+SEF
Sbjct: 318 VGEETLTSDHDIAELAQIVAEECGGLPLALITIGQAMAYKKTVEEWRHAIEVLRRSASEF 377

Query: 357 PGMGKEVYPLLKFSYDSLPDDTIRSCFLYCGLFPEDYRIRKSELIDCWIGEGFLDQYDRS 416
           PG    V  + KFSYDSLPDDT RSCFLYC L+P+DY I K +LIDCWIGEGFL++  R 
Sbjct: 378 PGF-DNVLRVFKFSYDSLPDDTTRSCFLYCCLYPKDYGILKWDLIDCWIGEGFLEESARF 436

Query: 417 GAYNEGYYIIGILLHACLLEEEEGDIAEEKSGEHVVKMHDVIRDMVLWIACKIEKEKENF 476
            A N+GY I+G L+ ACLLEE E D          VKMHDV+R M LWI C+IE+EK NF
Sbjct: 437 VAENQGYCIVGTLVDACLLEEIEDD---------KVKMHDVVRYMALWIVCEIEEEKRNF 487

Query: 477 LVHAGLGLTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFL-SDNSLKMIAGDF 535
           LV AG GL +AP ++ W NVRR+SLM+N I+ LSE PTCP L +LFL S+N+L+ I   F
Sbjct: 488 LVRAGAGLEQAPAVKEWENVRRLSLMQNDIKILSEVPTCPDLHTLFLASNNNLQRITDGF 547

Query: 536 FQFMPSLRVFNMSN--NHLLWKLPSGISTLVSLEHLDLSGTAITHLPIELQKLVNLKCLN 593
           F+FMPSL+V  MS+  +  + KLP G+S L SLE LD+S T+I  LP EL+ LVNLKCLN
Sbjct: 548 FKFMPSLKVLKMSHCGDLKVLKLPLGMSMLGSLELLDISQTSIGELPEELKLLVNLKCLN 607

Query: 594 LEYMYNLNQFPRLVMSAFSKLQVLRILKS----------NVLFGGHQFLVEELMGMKHLM 643
           L +   L++ PR ++S  S+L VLR+  +          +VLFGG + L++EL+G+K+L 
Sbjct: 608 LRWATWLSKIPRQLISNSSRLHVLRMFATGCSHSEASEDSVLFGGGEVLIQELLGLKYLE 667

Query: 644 ALTITLKSWEALQELLISQELQRCTQSLFLRCFNDSKS-LDIFCLACLHNLNKLYVAGRK 702
            L +TL+S  ALQ    S +L+ C +SL L     +KS +D    A L++LN+L +    
Sbjct: 668 VLELTLRSSHALQLFFSSNKLKSCIRSLLLDEVRGTKSIIDATAFADLNHLNELRIDSVA 727

Query: 703 HLEDFQMTVQRSSVNQLARG---FHSLHTVKVGFCFKLKDLTWLVFAPSLKSIVVLSCCN 759
            +E  ++ +  + + +  R    F SLH V +G C KLKDLT+LVFAP+LKS+ +L+C  
Sbjct: 728 EVE--ELKIDYTEIVRKRREPFVFGSLHRVTLGQCLKLKDLTFLVFAPNLKSLQLLNCRA 785

Query: 760 MEQIIKAEKLSQLHHHPERKKSV--FAKLQFLSLENLRNLCCINWEALAFPNLKEIRVEG 817
           ME+II   K +++   PE    +  F  LQ L L +L  L  I W+ L F +LKE+RV G
Sbjct: 786 MEEIISVGKFAEV---PEVMGHISPFENLQRLHLFDLPRLKSIYWKPLPFTHLKEMRVHG 842

Query: 818 CPKLFKLPLDSNSAKGCKVVIKGEENWWKK 847
           C +L KLPLDSNSA   K VI+GE   W +
Sbjct: 843 CNQLKKLPLDSNSA---KFVIRGEAEGWNR 869

Source: Citrus trifoliata

Species: Citrus trifoliata

Genus: Citrus

Family: Rutaceae

Order: Sapindales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224055915|ref|XP_002298700.1| cc-nbs-lrr resistance protein [Populus trichocarpa] gi|222845958|gb|EEE83505.1| cc-nbs-lrr resistance protein [Populus trichocarpa]

 Score =  787 bits (2032), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 426/867 (49%), Positives = 573/867 (66%), Gaps = 37/867 (4%)

Query: 1   YISQLEDNLPALQAQLQKLIESENDVMARVANAENQQMRQLNTVQGWLSRVEAVETEVGE 60
           YIS+L++N+  L+  +++L +  NDV  RV   E QQ++QL+ VQ W+SR +A   +  E
Sbjct: 28  YISKLKENVDGLKIAVEELTDLHNDVTRRVKVDEEQQLKQLDQVQRWISRAKAAIDKANE 87

Query: 61  LMRDSSQEVDKLCPGGCCSKNCKSSFKFGKRVAKTLQLVNNLMGEGAFDAVAEKVRPPAV 120
           L+R+ SQE+++LC  G CSKN KSS++F K V K L+ V +L   G F  VAEKV   + 
Sbjct: 88  LLREDSQEIERLCLRGYCSKNYKSSYRFAKEVDKRLRDVADLKANGDFKVVAEKVPAASG 147

Query: 121 DQRPCEPTVGLESMFDKVWRCLGEE-QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFD 179
             RP EPTVGLES F++VW CL EE QVGI+GLYGMGGVGKTTLLT+INN+ L  P+DFD
Sbjct: 148 VPRPSEPTVGLESTFNQVWTCLREEKQVGIVGLYGMGGVGKTTLLTQINNESLKTPDDFD 207

Query: 180 VVIWVVVSKDLQLEKIQEKIGRRIGFLDESWKNGSLEDKASDILRILSKKKFLLLLDDIW 239
           +VIWVVVSKDL+L  +QE IGR IG  D+ WKN SL++KA DI   L  K+F++LLDDIW
Sbjct: 208 IVIWVVVSKDLKLNTVQESIGRNIGCSDDLWKNKSLDEKAVDIFNALRHKRFVMLLDDIW 267

Query: 240 ERVDLTKVGVPFPDPENKSKIVFTTRFLEICGAMKAHEFLKVECLGPEDAWRLFRENLRR 299
           ERVDL K+GVP PD  N SK+VFTTR  EICG M AH+ +KV+CL  +DAW LF++ +  
Sbjct: 268 ERVDLKKLGVPLPDMNNGSKVVFTTRSEEICGLMDAHKTMKVDCLAWDDAWDLFQKKVGD 327

Query: 300 DVLDNHPDIPELARSVAKEYAGLPLALITIGRAMTCKKTTQEWHHAIQILRRSSSEFPGM 359
             L  H DIP+LAR+VAKE  GLPLALITIGRAM CKKT QEW HAI++LR+S+SEF GM
Sbjct: 328 QTLCVHTDIPKLARNVAKECGGLPLALITIGRAMACKKTPQEWRHAIEVLRKSASEFSGM 387

Query: 360 GKEVYPLLKFSYDSLPDDTIRSCFLYCGLFPEDYRIRKSELIDCWIGEGFLDQYD-RSGA 418
           G EV+PLLKFSYD+L    IR+CFLYC LFPED+ I K++LID WIGEG  D  D R   
Sbjct: 388 GDEVFPLLKFSYDNLSKQKIRTCFLYCSLFPEDFLINKNDLIDYWIGEGIFDGSDGREVV 447

Query: 419 YNEGYYIIGILLHACLLEEEEGDIAEEKSGEHVVKMHDVIRDMVLWIACKIEKEKENFLV 478
            N GY++IG LLHACLLE++          +  V+MHDVIRDM LWIA  IE++++NF V
Sbjct: 448 ENWGYHVIGCLLHACLLEDK----------DDCVRMHDVIRDMALWIASDIERDQQNFFV 497

Query: 479 HAGLGLTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQF 538
             G   ++A E+  W  VR++SLM N I +LS TP C +L +LFL    L  I+  FFQF
Sbjct: 498 QTGAQSSKALEVGKWEGVRKVSLMANHIVHLSGTPNCSNLRTLFLGSIHLNKISRGFFQF 557

Query: 539 MPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAITHLPIELQKLVNLKCLNLEYMY 598
           MP+L V ++SNN+ L  LP  +  LVSL++L+LS T I  LP EL +LV L+ LNLEY +
Sbjct: 558 MPNLTVLDLSNNNSLLGLPRDVWKLVSLQYLNLSRTGIKELPTELNELVKLRYLNLEYTH 617

Query: 599 NLNQFPRLVMSAFSKLQVLRILK--------SNVLFGGHQFLVEELMGMKHLMALTITLK 650
           +L   P  V+S F  +++LR+ +         + +    + LVEEL  ++ L  LT+T++
Sbjct: 618 SLYLLPHGVISGFPMMRILRMFRCGSSEQAAEDCILSRDESLVEELQCLEELNMLTVTIR 677

Query: 651 SWEALQELLISQELQRCTQSLFLRCFNDSKSLDIFCLACLHNLNKLYVAGRKHLEDFQMT 710
           S  AL+ L   Q +Q  T+ L+L  F+DSK ++   LA + NL+ L++     LE+ Q+ 
Sbjct: 678 SAAALERLSSFQGMQSSTRVLYLELFHDSKLVNFSSLANMKNLDTLHICHCGSLEELQID 737

Query: 711 -----VQRSSVNQLA------RGFHSLHTVKVGFCFKLKDLTWLVFAPSLKSIVVLSCCN 759
                 +  ++N LA      R F SL +V V  C KL +LTWL+ A +L  + V +C  
Sbjct: 738 WEGELQKMQAINNLAQVATTERPFRSLSSVYVENCLKLSNLTWLILAQNLTFLRVSNCPK 797

Query: 760 MEQIIKAEKLSQLHHHPERKKSV--FAKLQFLSLENLRNLCCINWEALAFPNLKEIRVEG 817
           + ++   EKL ++   PE  +++  FAKL+ + L +L NL    W AL  P++K++RV  
Sbjct: 798 LVEVASDEKLPEV---PELVENLNPFAKLKAVELLSLPNLKSFYWNALPLPSVKDVRVVD 854

Query: 818 CPKLFKLPLDSNSAKGCKVVIKGEENW 844
           CP L K PL+++SA      I G +NW
Sbjct: 855 CPFLDKRPLNTSSANHQNDCI-GRQNW 880

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359482674|ref|XP_002281708.2| PREDICTED: probable disease resistance protein At1g12280-like [Vitis vinifera]

 Score =  779 bits (2012), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 423/860 (49%), Positives = 578/860 (67%), Gaps = 25/860 (2%)

Query: 1   YISQLEDNLPALQAQLQKLIESENDVMARVANAENQQMRQLNTVQGWLSRVEAVETEVGE 60
           Y+ +L +NL AL    ++L E  NDVM RV  AE +QM++L+ VQGWLSRVE +ET+V  
Sbjct: 28  YLCKLPENLVALGTACKRLGEFRNDVMRRVDIAEREQMQRLDQVQGWLSRVENLETQVSR 87

Query: 61  LMRDSSQEVDKLCPGGCCSKNCKSSFKFGKRVAKTLQLVNNLMGEGAFDAVAEKVRPPAV 120
           L+ D ++E++K C GGCC + C + +K GKRVA+ L+ V+NLM +G+FD VAE++  P V
Sbjct: 88  LIEDGTEEIEKKCLGGCCPRRCSTRYKLGKRVARKLKEVDNLMSQGSFDLVAERLPSPRV 147

Query: 121 DQRPCEPTVGLESMFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDV 180
            +RP E TVG++S  DKV   + EE+VGIIGLYG+GGVGKTTLLT+INN      +DFD 
Sbjct: 148 GERPSEATVGMDSRLDKVRSSMDEERVGIIGLYGLGGVGKTTLLTQINNAFTKRTHDFDF 207

Query: 181 VIWVVVSKDLQLEKIQEKIGRRIGFLDESWKNGSLEDKASDILRILSKKKFLLLLDDIWE 240
           VIW  VSK++ L KIQ+ I ++IG  D+ WK+   ++KA+ I  +L+ K+F+LLLDD+WE
Sbjct: 208 VIWSTVSKNVNLGKIQDDIWKKIGCCDDRWKSKDRDEKATSIWNVLTGKRFVLLLDDVWE 267

Query: 241 RVDLTKVGVPFPDPENKSKIVFTTRFLEICGAMKAHEFLKVECLGPEDAWRLFRENLRRD 300
           R+ L  VGVP  + +N  KIVFTTR  E+C  M+A + +KV+CL   ++W LFR+NL  D
Sbjct: 268 RLTLLDVGVPLQNKKN--KIVFTTRSEEVCAQMEADKRIKVDCLTRTESWDLFRKNLGED 325

Query: 301 VLDNHPDIPELARSVAKEYAGLPLALITIGRAMTCKKTTQEWHHAIQILRRSSSEFPGMG 360
            L  HP+IP+LA+ VA+E  GLPL L T+G+AM CKKT QEW HAI++ + S+S+ PG+G
Sbjct: 326 ALKFHPEIPKLAQVVAQECCGLPLVLTTMGKAMACKKTPQEWKHAIRVFQSSASKLPGIG 385

Query: 361 KEVYPLLKFSYDSLPDDTIRSCFLYCGLFPEDYRIRKSELIDCWIGEGFLDQYDR-SGAY 419
             V+PLLK+SYDSLP +  RSCFLYC L+PED  + KS LI+ WI EGFLD++D   GA 
Sbjct: 386 DRVFPLLKYSYDSLPTEVARSCFLYCSLYPEDDEMSKSSLINRWICEGFLDEFDDWEGAE 445

Query: 420 NEGYYIIGILLHACLLEEEEGDIAEEKSGEHVVKMHDVIRDMVLWIACKIEKEKENFLVH 479
           N+GY IIG L+HACLL  EEGD+      ++ VK+HDVIRDM LWIA +  KE++ FLV 
Sbjct: 446 NQGYNIIGTLIHACLL--EEGDV------DYQVKLHDVIRDMALWIARETGKEQDKFLVK 497

Query: 480 AGLGLTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFM 539
           AG  LTEAPE+  W   +R+SLM N+IE L+ +P CP+L +LFL +NSLKMI   FFQFM
Sbjct: 498 AGSTLTEAPEVAEWMGPKRISLMNNQIEKLTGSPICPNLSTLFLRENSLKMITDSFFQFM 557

Query: 540 PSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAITHLPIELQKLVNLKCLNLEYMYN 599
           P+LRV ++S+N +  +LP GIS LVSL +LDLS T I  LPIEL+ L NLKCL L  M  
Sbjct: 558 PNLRVLDLSDNSIT-ELPQGISNLVSLRYLDLSLTEIKELPIELKNLGNLKCLLLSDMPQ 616

Query: 600 LNQFPRLVMSAFSKLQVLRILKSNVLFGGHQFLVEELMGMKHLMALTITLKSWEALQELL 659
           L+  P  ++S+   LQV+ +    +   G + LVEEL  +K+L  L +T+ S  A + LL
Sbjct: 617 LSSIPEQLISSLLMLQVIDMSNCGIC-DGDEALVEELESLKYLHDLGVTITSTSAFKRLL 675

Query: 660 ISQELQRCTQSLFLRCFNDSKSLDIFCLACLHNLNKLYVAGRKHLEDF--------QMTV 711
            S +L+ C  S+ LR FN S SL++  L  + NL +L ++    LE+         + T 
Sbjct: 676 SSDKLRSCISSVCLRNFNGSSSLNLTSLCNVKNLCELSISNCGSLENLVIDWAWEGKKTT 735

Query: 712 QRSSVNQLA---RGFHSLHTVKVGFCFKLKDLTWLVFAPSLKSIVVLSCCNMEQIIKAEK 768
           + + +N        FHSL  V +  C +LKDLTW+ FAP+LK++ ++ C  M+++I   K
Sbjct: 736 ESNYLNSKVSSHNSFHSLEVVVIESCSRLKDLTWVAFAPNLKALTIIDCDQMQEVIGTGK 795

Query: 769 LSQLHHHPERKKSVFAKLQFLSLENLRNLCCINWEALAFPNLKEIRVEGCPKLFKLPLDS 828
             +   + E   S F KLQ L L++L  L  I W+AL F  L  I V+ CP L KLPL++
Sbjct: 796 CGESAENGE-NLSPFVKLQVLELDDLPQLKSIFWKALPFIYLNTIYVDSCPLLKKLPLNA 854

Query: 829 NSAKGCKVVIKGEENWWKKA 848
           NSAKG ++VI G+  WW K 
Sbjct: 855 NSAKGHRIVISGQTEWWNKV 874

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359482672|ref|XP_003632805.1| PREDICTED: probable disease resistance protein At1g12280-like [Vitis vinifera]

 Score =  778 bits (2008), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 429/870 (49%), Positives = 583/870 (67%), Gaps = 34/870 (3%)

Query: 1   YISQLEDNLPALQAQLQKLIESENDVMARVANAENQQMRQLNTVQGWLSRVEAVETEVGE 60
           Y+ +L +NL  L    ++L E  NDV   V  AE +QM+ L+ VQGWLSRVE +ET+V +
Sbjct: 28  YLRKLPENLVELGTACERLRELRNDVKRMVDIAEREQMQPLDQVQGWLSRVETLETQVTQ 87

Query: 61  LMRDSSQEVDKLCPGGCCSKNCKSSFKFGKRVAKTLQLVNNLMGEGAFDAVAEKVRPPAV 120
           L+ D ++EV+K C GGCC + C++ +K GKRVA+ L+ V+ LM +   D +AE++  P +
Sbjct: 88  LIGDGTEEVEKKCLGGCCPRRCRTRYKLGKRVARKLKEVDILMSQRPSDVMAERLPSPRL 147

Query: 121 DQRPCEPTVGLESMFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDV 180
            +RP + TVG+ S   KVW  L +EQVGIIGLYG+GGVGKTTLLT+INN      +DFD 
Sbjct: 148 SERPSQATVGMNSRIGKVWSSLHQEQVGIIGLYGLGGVGKTTLLTQINNAFTKRTHDFDF 207

Query: 181 VIWVVVSKDLQLEKIQEKIGRRIGFLDESWKNGSLEDKASDILRILSKKKFLLLLDDIWE 240
           VIW  VSK++ LE IQ+ I ++IGF D+ WKN S ++KA+ I R+LS+K+F+LLLDD+WE
Sbjct: 208 VIWATVSKNVNLENIQDDIWKKIGFCDDKWKNKSRDEKATSIWRVLSEKRFVLLLDDLWE 267

Query: 241 RVDLTKVGVPFPDPENKSKIVFTTRFLEICGAMKAHEFLKVECLGPEDAWRLFRENLRRD 300
           R+DL+ VGVPF + +N  KIVFTTR  E+C  M+A + +KVECL   ++W LFR  L  D
Sbjct: 268 RLDLSDVGVPFQNKKN--KIVFTTRSEEVCAQMEADKKIKVECLTWTESWELFRMKLGED 325

Query: 301 VLDNHPDIPELARSVAKEYAGLPLALITIGRAMTCKKTTQEWHHAIQILRRSSSEFPGMG 360
            LD HP+IPELA++VA+E  GLPL L T+GRAM CKKT +EW +AI++LR S+S+FPGMG
Sbjct: 326 TLDFHPEIPELAQAVAQECCGLPLVLTTMGRAMACKKTPEEWKYAIKVLRSSASKFPGMG 385

Query: 361 KEVYPLLKFSYDSLPDDTIRSCFLYCGLFPEDYRIRKSELIDCWIGEGFLDQYDR-SGAY 419
             V+PLLK+SYD LP +  RSCFLYC L+PEDY++ K  LI+ WI EGFLD++D   GA 
Sbjct: 386 DRVFPLLKYSYDCLPTEVSRSCFLYCSLYPEDYQMPKLSLINRWICEGFLDEFDDMEGAK 445

Query: 420 NEGYYIIGILLHACLLEEEEGDIAEEKSGEHVVKMHDVIRDMVLWIACKIEKEKENFLVH 479
           N+GY IIG L+HACLL  EEGD+      ++ VK+HDVIRDM LWI C+  KE++ FLV 
Sbjct: 446 NQGYNIIGTLIHACLL--EEGDV------DYKVKLHDVIRDMALWIGCETGKEQDKFLVK 497

Query: 480 AGLGLTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFM 539
           AG  LTEAPE+  W   +R+SLM N+IE L+ +P CP+L +LFL+DNSLKMI+  FFQFM
Sbjct: 498 AGSTLTEAPEVAEWMGPKRISLMDNQIEELTGSPKCPNLSTLFLADNSLKMISDTFFQFM 557

Query: 540 PSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAITHLPIELQKLVNLKCLNLEYMYN 599
           PSLRV ++S N +  +LP GIS LVSL++L+LS T I  LPIEL+ L  LKCL L  M  
Sbjct: 558 PSLRVLDLSKNSIT-ELPRGISNLVSLQYLNLSQTNIKELPIELKNLDKLKCLVLVDMPQ 616

Query: 600 LNQFPRLVMSAFSKLQVL----------RILKSNVLFGGHQFLVEELMGMKHLMALTITL 649
           L+  P  ++S+ S LQV+           +LK  +L   ++ LV+EL  +K+L  L +++
Sbjct: 617 LSSIPEQLISSLSMLQVIDMFNSGISERTVLKDGILSDDNEALVQELESLKYLHGLGVSV 676

Query: 650 KSWEALQELLISQELQRCTQSLFLRCFNDSKSLDIFCLACLHNLNKLYVAGRKHLEDFQM 709
           KS  A + LL S +L+ C   L L+ FN S SL++  L+    L+ LY++    LED ++
Sbjct: 677 KSASAFKRLLSSYKLRICISGLCLKNFNGSSSLNLTSLSNAKCLSSLYISKCGSLEDLEI 736

Query: 710 --------TVQRSSVNQLA---RGFHSLHTVKVGFCFKLKDLTWLVFAPSLKSIVVLSCC 758
                   TV+ + +N        FHSL  + +  C +LKDLTWLVF P+LK + ++ C 
Sbjct: 737 DWAGEGKETVESNYLNSKVSSHNSFHSLVWLGIERCSRLKDLTWLVFVPNLKVLTIIDCD 796

Query: 759 NMEQIIKAEKLSQLHHHPERKKSVFAKLQFLSLENLRNLCCINWEALAFPNLKEIRVEGC 818
            M+++I   K  +   + E   S F KLQ L L++L  L  I W+AL F  L  I V  C
Sbjct: 797 QMQEVIGTGKCGESAENGE-NLSPFVKLQVLELDDLPQLKSIFWKALPFIYLNTIHVRNC 855

Query: 819 PKLFKLPLDSNSAKGCKVVIKGEENWWKKA 848
           P L KLPL +NSAKG ++VI G   WW + 
Sbjct: 856 PLLKKLPLSANSAKGNRIVIAGHNKWWNEV 885

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225442867|ref|XP_002281592.1| PREDICTED: probable disease resistance protein At5g63020-like [Vitis vinifera]

 Score =  754 bits (1947), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 427/859 (49%), Positives = 578/859 (67%), Gaps = 26/859 (3%)

Query: 1   YISQLEDNLPALQAQLQKLIESENDVMARVANAENQQMRQLNTVQGWLSRVEAVETEVGE 60
           Y+ +L +NL AL    ++L E  NDVM RV  AE +QM++L+ VQGWLSRVE +ET+V +
Sbjct: 28  YLCKLPENLVALGTACERLREFRNDVMRRVDIAEREQMQRLDQVQGWLSRVETLETQVTQ 87

Query: 61  LMRDSSQEVDKLCPGGCCSKNCKSSFKFGKRVAKTLQLVNNLMGEGAFDAVAEKVRPPAV 120
           L+ D ++EV+K C GGCC +NC++ +K GKRVA+ L+ V+ LM +   DAVAE++  P +
Sbjct: 88  LIGDGTEEVEKKCMGGCCPRNCRTRYKLGKRVARKLKEVDILMSQRPSDAVAERLPSPRL 147

Query: 121 DQRPCEPTVGLESMFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDV 180
            +RP + TVG+     KVW  L +EQVGIIGLYG+GGVGKTTLLT+INN      +DFD 
Sbjct: 148 GERPNQATVGMNFRIGKVWSSLHQEQVGIIGLYGLGGVGKTTLLTQINNAFTKRTDDFDF 207

Query: 181 VIWVVVSKDLQLEKIQEKIGRRIGFLDESWKNGSLEDKASDILRILSKKKFLLLLDDIWE 240
           VIW  VSK++ LE IQ+ I + IGF D+ WK+ S ++KA  I R+LS+K+F+LLLDD+WE
Sbjct: 208 VIWSTVSKNVNLENIQDDIWKTIGFCDDKWKSKSRDEKAKSIWRVLSEKRFVLLLDDLWE 267

Query: 241 RVDLTKVGVPFPDPENKSKIVFTTRFLEICGAMKAHEFLKVECLGPEDAWRLFRENLRRD 300
            +DL+ VGVPF + +N  KIVFTTR  E+C  M+A + +KVECL   ++W LFR  L  D
Sbjct: 268 WLDLSDVGVPFQNKKN--KIVFTTRSEEVCAQMEADKKIKVECLTWTESWELFRMKLGED 325

Query: 301 VLDNHPDIPELARSVAKEYAGLPLALITIGRAMTCKKTTQEWHHAIQILRRSSSEFPGMG 360
            LD HP+IPELA++VA+E  GLPL L TIGRAM CKKT QEW +A ++L+ S+S+FPGM 
Sbjct: 326 TLDFHPEIPELAQAVAQECCGLPLVLTTIGRAMACKKTPQEWKYAFKVLQSSASKFPGMS 385

Query: 361 KEVYPLLKFSYDSLPDDTIRSCFLYCGLFPEDYRIRKSELIDCWIGEGFLDQYDR-SGAY 419
             V+PLLK+SYD LP + +RSCFLYC LFPEDY+I K  +I  W  EG LD++D   GA 
Sbjct: 386 DRVFPLLKYSYDCLPTEVVRSCFLYCSLFPEDYQIPKIAMIKRWFCEGLLDEFDDMKGAE 445

Query: 420 NEGYYIIGILLHACLLEEEEGDIAEEKSGEHVVKMHDVIRDMVLWIACKIEKEKENFLVH 479
           N+GY IIG L+HACLL  EEGD+      ++VVK+HDVIRDM LWIAC+  KE++ FLV 
Sbjct: 446 NQGYNIIGTLIHACLL--EEGDV------DYVVKLHDVIRDMALWIACETGKEQDKFLVQ 497

Query: 480 AGLGLTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFM 539
           A  GLTEAPE+  W   +R+SL+ N+IE L+ +P CP+L +LFL DNSLKMI   FFQFM
Sbjct: 498 ASSGLTEAPEVARWMGPKRISLIGNQIEKLTGSPNCPNLSTLFLQDNSLKMITDSFFQFM 557

Query: 540 PSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAITHLPIELQKLVNLKCLNLEYMYN 599
           P+LRV ++S N +  +LP GIS LVSL++L+LS T I  LPIEL+ L  LK L L  M  
Sbjct: 558 PNLRVLDLSRNAMT-ELPQGISNLVSLQYLNLSQTNIKELPIELKNLGKLKFLLLHRM-R 615

Query: 600 LNQFPRLVMSAFSKLQVLRILKSNVLFGGHQFLVEELMGMKHLMALTITLKSWEALQELL 659
           L+  P  ++S+ S LQV+ +    +   G + LVEEL  +K+L  L +T+ S  A + LL
Sbjct: 616 LSSIPEQLISSLSMLQVIDMFNCGIC-DGDEALVEELESLKYLHDLGVTITSASAFKRLL 674

Query: 660 ISQELQRCTQSLFLRCFNDSKSLDIFCLACLHNLNKLYVAGRKHLEDFQM--------TV 711
            S +L+ C   + L  FN S SL++  L  +  L  L+++     ED ++        T 
Sbjct: 675 SSDKLKSCISGVCLENFNGSSSLNLTSLCNVKRLRNLFISNCGSSEDLEIDWAWEGKETT 734

Query: 712 QRSSVNQLA---RGFHSLHTVKVGFCFKLKDLTWLVFAPSLKSIVVLSCCNMEQIIKAEK 768
           + + +N        FH+L  ++V  C +LKDLTWLVFAP+LK +++ SC  M++II   K
Sbjct: 735 ESNYLNSKVSSHSSFHNLSWLRVKRCSRLKDLTWLVFAPNLKVLLITSCDQMQEIIGTGK 794

Query: 769 LSQLHHHPERKKSVFAKLQFLSLENLRNLCCINWEALAFPNLKEIRVEGCPKLFKLPLDS 828
             +   + E   S F KLQ L+LE+L  L  I W+AL F  L  I V+ CP L KLPLD+
Sbjct: 795 CGESTENGE-NLSPFVKLQVLTLEDLPQLKSIFWKALPFIYLNTIYVDSCPLLKKLPLDA 853

Query: 829 NSAKGCKVVIKGEENWWKK 847
           NSAK  ++VI G+  W+ +
Sbjct: 854 NSAKEHRIVISGQTEWFNE 872

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	863
TAIR|locus:2034770	894	SUMM2 "AT1G12280" [Arabidopsis	0.958	0.925	0.404	3.1e-154
TAIR|locus:2132741	892	AT4G10780 [Arabidopsis thalian	0.962	0.931	0.382	2.7e-148
TAIR|locus:2201986	885	RFL1 "AT1G12210" [Arabidopsis	0.957	0.933	0.381	3.2e-145
TAIR|locus:2166320	888	AT5G63020 [Arabidopsis thalian	0.896	0.871	0.394	1.1e-144
TAIR|locus:2036214	851	AT1G15890 [Arabidopsis thalian	0.932	0.945	0.399	1.7e-144
TAIR|locus:2201996	889	RPS5 "AT1G12220" [Arabidopsis	0.958	0.930	0.383	7e-141
TAIR|locus:2008510	967	AT1G61190 "AT1G61190" [Arabido	0.937	0.836	0.381	1.3e-137
TAIR|locus:2034765	884	AT1G12290 [Arabidopsis thalian	0.955	0.933	0.364	4.7e-135
TAIR|locus:2170892	848	AT5G43730 [Arabidopsis thalian	0.933	0.950	0.386	8.8e-134
TAIR|locus:2008440	899	AT1G61180 [Arabidopsis thalian	0.876	0.840	0.378	1.3e-130

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

 Score = 1504 (534.5 bits), Expect = 3.1e-154, P = 3.1e-154
 Identities = 345/853 (40%), Positives = 487/853 (57%)

Query:     1 YISQLEDNLPALQAQLQKLIESENDVMARVANAENQQMRQ-LNTVQGWLSRVEAVETEVG 59
             YI +L  N+ A++  ++ L +  +DV  RV   E  + R+ L+ VQGWL+ V  VE +  
Sbjct:    28 YICELSKNVVAMKKDMEVLKKKRDDVKRRVDIEEFTRRRERLSQVQGWLTNVSTVENKFN 87

Query:    60 ELMRDSSQEVDKLCPGGCCSKNCKSSFKFGKRVAKTLQLVNNLMGEGAFDAVAEKVRPPA 119
             EL+  +  E+ +LC  G CSKN K S+ +GKRV   L+ + +L  +G FD V        
Sbjct:    88 ELLTTNDAELQRLCLFGFCSKNVKMSYLYGKRVVLMLKEIESLSSQGDFDTVTLATPIAR 147

Query:   120 VDQRPCEPT-VGLESMFDKVWRCLGEEQXXXXXXXXXXXXXXXXXXXXXXXXXXGAPNDF 178
             +++ P +PT VG E+M ++VW  L E+                              + F
Sbjct:   148 IEEMPIQPTIVGQETMLERVWTRLTEDGDEIVGLYGMGGVGKTTLLTRINNKFSEKCSGF 207

Query:   179 DVVIWVVVSKDLQLEKIQEKIGRRIGFLDESWKNGSLEDKASDXXXXXXXXXXXXXXXXX 238
              VVIWVVVSK   + +IQ  IG+R+    E W N +   +A D                 
Sbjct:   208 GVVIWVVVSKSPDIHRIQGDIGKRLDLGGEEWDNVNENQRALDIYNVLGKQKFVLLLDDI 267

Query:   239 WERVDLTKVGVPFPDPENKSKIVFTTRFLEICGAMKAHEFLKVECLGPEDAWRLFRENLR 298
             WE+V+L  +GVP+P  +N  K+VFTTR  ++CG M+  + ++V CL P +AW LF+  + 
Sbjct:   268 WEKVNLEVLGVPYPSRQNGCKVVFTTRSRDVCGRMRVDDPMEVSCLEPNEAWELFQMKVG 327

Query:   299 RDVLDNHPDIPELARSVAKEYAGLPLALITIGRAMTCKKTTQEWHHAIQILRRSSSEFPG 358
              + L  HPDIPELAR VA +  GLPLAL  IG  M CK+  QEW +AI +L   ++EFPG
Sbjct:   328 ENTLKGHPDIPELARKVAGKCCGLPLALNVIGETMACKRMVQEWRNAIDVLSSYAAEFPG 387

Query:   359 MGKEVYPLLKFSYDSLPDDTIRSCFLYCGLFPEDYRIRKSELIDCWIGEGFLDQYD-RSG 417
             M +++ P+LK+SYD+L  + ++ CFLYC LFPEDYR+ K  LID WI EGF+D+ + R  
Sbjct:   388 M-EQILPILKYSYDNLNKEQVKPCFLYCSLFPEDYRMEKERLIDYWICEGFIDENESRER 446

Query:   418 AYNEGYYIIGILLHACLLXXXXXXXXXXXXXXHVVKMHDVIRDMVLWIACKIEKEKENFL 477
             A ++GY IIGIL+ ACLL                VKMHDV+R+M LWIA  + + KE  +
Sbjct:   447 ALSQGYEIIGILVRACLLLEEAINKEQ-------VKMHDVVREMALWIASDLGEHKERCI 499

Query:   478 VHAGLGLTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDN-SLKMIAGDFF 536
             V  G+GL E P+++NW +VRRMSLM+N+IE LS +P C  L +LFL  N SL  I+ +FF
Sbjct:   500 VQVGVGLREVPKVKNWSSVRRMSLMENEIEILSGSPECLELTTLFLQKNDSLLHISDEFF 559

Query:   537 QFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAITHLPIELQKLVNLKCLNLEY 596
             + +P L V ++S N  L KLP+ IS LVSL +LDLS T I  LP+ LQ+L  L+ L L+Y
Sbjct:   560 RCIPMLVVLDLSGNSSLRKLPNQISKLVSLRYLDLSWTYIKRLPVGLQELKKLRYLRLDY 619

Query:   597 MYNLNQFPRLVMSAFSKLQVLRILKSNVLFGGHQFLVEELMGMKHLMALTITLKSWEALQ 656
             M  L     +  S  S L+ L++L+S +       LVEEL  ++HL  L I++KS   ++
Sbjct:   620 MKRLKSISGI--SNISSLRKLQLLQSKMSLD--MSLVEELQLLEHLEVLNISIKSSLVVE 675

Query:   657 ELLISQELQRCTQSLFLRCFNDSKSLDIFCLACLHNLNKLYV--AGRKHLEDFQMTVQRS 714
             +LL +  L +C Q L LR   +  S  +  L  + NLNK+ +   G   ++  + T+  S
Sbjct:   676 KLLNAPRLVKCLQILVLRGVQEESS-GVLTLPDMDNLNKVIIRKCGMCEIKIERKTLSLS 734

Query:   715 SVNQLARGF-HSLHTVKVGFCFKLKDLTWLVFAPSLKSIVVLSCCNMEQIIKAEKLSQLH 773
             S       F H+L TV +  C  LKDLTWL+FAP+L S+ VL    +E II  EK   + 
Sbjct:   735 SNRSPKTQFLHNLSTVHISSCDGLKDLTWLLFAPNLTSLEVLDSELVEGIINQEKAMTMS 794

Query:   774 HHPERKKSVFAKLQFLSLENLRNLCCINWEALAFPNLKEIRVEGCPKLFKLPLDSNSA-K 832
                      F KL+ L L NL  L  I W+ L+FP LK I +  CP+L KLPLDS  A +
Sbjct:   795 GIIP-----FQKLESLRLHNLAMLRSIYWQPLSFPCLKTIHITKCPELRKLPLDSEIAIR 849

Query:   833 GCKVVIKGEENWW 845
               ++VIK +E  W
Sbjct:   850 DEELVIKYQEEEW 862

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

GO:0043531 "ADP binding" evidence=IEA

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

 Score = 1448 (514.8 bits), Expect = 2.7e-148, P = 2.7e-148
 Identities = 326/853 (38%), Positives = 473/853 (55%)

Query:     1 YISQLEDNLPALQAQLQKLIESENDVMARVANAENQQMRQLNTVQGWLSRVEAVETEVGE 60
             YI +L+DN+ AL+  ++ L  + +DV+ RV   E + + +L  VQ WL RVE +  +  +
Sbjct:    28 YIHKLKDNIVALEKAIEDLTATRDDVLRRVQMEEGKGLERLQQVQVWLKRVEIIRNQFYD 87

Query:    61 LMRDSSQEVDKLCPGGCCSKNCKSSFKFGKRVAKTLQLVNNLMGEGAFDAVAEKVRPPAV 120
             L+   + E+ +LC    CS N  SS+ +G+RV   ++ V NL   G F+ VA     P +
Sbjct:    88 LLSARNIEIQRLCFYSNCSTNLSSSYTYGQRVFLMIKEVENLNSNGFFEIVAAPA--PKL 145

Query:   121 DQRPCEPTV-GLESMFDKVWRCLGEEQXXXXXXXXXXXXXXXXXXXXXXXXXXGAPNDFD 179
             + RP +PT+ G E++F + W  L ++                              N  D
Sbjct:   146 EMRPIQPTIMGRETIFQRAWNRLMDDGVGTMGLYGMGGVGKTTLLTQIHNTLHDTKNGVD 205

Query:   180 VVIWVVVSKDLQLEKIQEKIGRRIGFLDESWKNGSLEDKASDXXXXXXXXXXXXXXXXXW 239
             +VIWVVVS DLQ+ KIQE IG ++GF+ + W       KA D                 W
Sbjct:   206 IVIWVVVSSDLQIHKIQEDIGEKLGFIGKEWNKKQESQKAVDILNCLSKKRFVLLLDDIW 265

Query:   240 ERVDLTKVGVPFPDPENKSKIVFTTRFLEICGAMKAHEFLKVECLGPEDAWRLFRENLRR 299
             ++VDLTK+G+P    ENK K+VFTTR L++C  M  H+ ++V+CL   DAW LF+E + +
Sbjct:   266 KKVDLTKIGIPSQTRENKCKVVFTTRSLDVCARMGVHDPMEVQCLSTNDAWELFQEKVGQ 325

Query:   300 DVLDNHPDIPELARSVAKEYAGLPLALITIGRAMTCKKTTQEWHHAIQILRRSSSEFPGM 359
               L +HPDI ELA+ VA +  GLPLAL  IG  M  K+  QEWHHA+ +L   ++EF GM
Sbjct:   326 ISLGSHPDILELAKKVAGKCRGLPLALNVIGETMAGKRAVQEWHHAVDVLTSYAAEFSGM 385

Query:   360 GKEVYPLLKFSYDSLPDDTIRSCFLYCGLFPEDYRIRKSELIDCWIGEGFLD-QYDRSGA 418
                +  +LK+SYD+L D  +RSCF YC L+PEDY I+K  LID WI EGF+D    +  A
Sbjct:   386 DDHILLILKYSYDNLNDKHVRSCFQYCALYPEDYSIKKYRLIDYWICEGFIDGNIGKERA 445

Query:   419 YNEGYYIIGILLHACLLXXXXXXXXXXXXXXHVVKMHDVIRDMVLWIACKIEKEKENFLV 478
              N+GY I+G L+ ACLL                VKMHDV+R+M LW    + K KE  +V
Sbjct:   446 VNQGYEILGTLVRACLLSEEGKNKLE-------VKMHDVVREMALWTLSDLGKNKERCIV 498

Query:   479 HAGLGLTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDN-SLKMIAGDFFQ 537
              AG GL + P++++W  VRR+SLM N IE +S +P CP L +LFL +N SL  I+G+FF+
Sbjct:   499 QAGSGLRKVPKVEDWGAVRRLSLMNNGIEEISGSPECPELTTLFLQENKSLVHISGEFFR 558

Query:   538 FMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAITHLPIELQKLVNLKCLNLEYM 597
              M  L V ++S NH L  LP  IS LV+L +LDLS T I  LP  LQ L  L  LNLE M
Sbjct:   559 HMRKLVVLDLSENHQLDGLPEQISELVALRYLDLSHTNIEGLPACLQDLKTLIHLNLECM 618

Query:   598 YNLNQFPRLVMSAFSKLQVLRILKSNVLFGGHQFLVEELMGMKHLMALTITLKSWEALQE 657
               L     +  S  S L+ L +  SN++       V+EL  ++HL  LTI + S   L++
Sbjct:   619 RRLGSIAGI--SKLSSLRTLGLRNSNIMLD--VMSVKELHLLEHLEILTIDIVSTMVLEQ 674

Query:   658 LLISQELQRCTQSLFLRCFNDSKSLDI-FCLACLHNLNKLYVAGRKHLEDFQMTVQRSSV 716
             ++ +  L  C Q + +RC    +  D    L  + +L  L +   + + + ++     + 
Sbjct:   675 MIDAGTLMNCMQEVSIRCLIYDQEQDTKLRLPTMDSLRSLTMWNCE-ISEIEIERLTWNT 733

Query:   717 NQLARGFHSLHTVKVGFCFKLKDLTWLVFAPSLKSIVVLSCCNMEQIIKAEKLSQLHHHP 776
             N  +  F +L  V +  C  LKDLTWL+FAP++  +++     ++++I   K + +    
Sbjct:   734 NPTSPCFFNLSQVIIHVCSSLKDLTWLLFAPNITYLMIEQLEQLQELISHAKATGVTEEE 793

Query:   777 ERK--KSV-FAKLQFLSLENLRNLCCINWEALAFPNLKEIRVEGCPKLFKLPLDSNSAK- 832
             +++  K + F KLQ L L +L  L  I W +L+FP L  I VE CPKL KLPLDS +   
Sbjct:   794 QQQLHKIIPFQKLQILHLSSLPELKSIYWISLSFPCLSGIYVERCPKLRKLPLDSKTGTV 853

Query:   833 GCKVVIKGEENWW 845
             G K V++ +E  W
Sbjct:   854 GKKFVLQYKETEW 866

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

 Score = 1419 (504.6 bits), Expect = 3.2e-145, P = 3.2e-145
 Identities = 326/855 (38%), Positives = 474/855 (55%)

Query:     1 YISQLEDNLPALQAQLQKLIESENDVMARVANAE-NQQMRQLNTVQGWLSRVEAVETEVG 59
             YI  L +NL +LQ  +  L    +DV  R+   E     R+L  VQ WL+R++ +E +  
Sbjct:    28 YIQNLSENLASLQKAMGVLNAKRDDVQGRINREEFTGHRRRLAQVQVWLTRIQTIENQFN 87

Query:    60 ELMRDSSQEVDKLCPGGCCSKNCKSSFKFGKRVAKTLQLVNNLMGEGAFDAVAEKVRPPA 119
             +L+   + E+ +LC  G CSKN K S+ +GKRV   L+ V  L  +G FD V E      
Sbjct:    88 DLLSTCNAEIQRLCLCGFCSKNVKMSYLYGKRVIVLLREVEGLSSQGVFDIVTEAAPIAE 147

Query:   120 VDQRPCEPT-VGLESMFDKVWRCLGEEQXXXXXXXXXXXXXXXXXXXXXXXXXXGAPNDF 178
             V++ P + T VG +SM DKVW CL E++                               F
Sbjct:   148 VEELPIQSTIVGQDSMLDKVWNCLMEDKVWIVGLYGMGGVGKTTLLTQINNKFSKLGGGF 207

Query:   179 DVVIWVVVSKDLQLEKIQEKIGRRIGFLDESWKNGSLEDKASDXXXXXXXXXXXXXXXXX 238
             DVVIWVVVSK+  + KIQ+ IG ++G + ++W   +   +A D                 
Sbjct:   208 DVVIWVVVSKNATVHKIQKSIGEKLGLVGKNWDEKNKNQRALDIHNVLRRKKFVLLLDDI 267

Query:   239 WERVDLTKVGVPFPDPENKSKIVFTTRFLEICGAMKAHEFLKVECLGPEDAWRLFRENLR 298
             WE+V+L  +GVP+P  EN  K+ FTT   E+CG M     +++ CL   +AW L ++ + 
Sbjct:   268 WEKVELKVIGVPYPSGENGCKVAFTTHSKEVCGRMGVDNPMEISCLDTGNAWDLLKKKVG 327

Query:   299 RDVLDNHPDIPELARSVAKEYAGLPLALITIGRAMTCKKTTQEWHHAIQILRRSSSEFPG 358
              + L +HPDIP+LAR V+++  GLPLAL  IG  M+ K+T QEW HA ++L  S+++F G
Sbjct:   328 ENTLGSHPDIPQLARKVSEKCCGLPLALNVIGETMSFKRTIQEWRHATEVLT-SATDFSG 386

Query:   359 MGKEVYPLLKFSYDSLPDDTIRSCFLYCGLFPEDYRIRKSELIDCWIGEGFL-DQYDRSG 417
             M  E+ P+LK+SYDSL  +  +SCFLYC LFPED+ IRK  LI+ WI EGF+ ++  R  
Sbjct:   387 MEDEILPILKYSYDSLNGEDAKSCFLYCSLFPEDFEIRKEMLIEYWICEGFIKEKQGREK 446

Query:   418 AYNEGYYIIGILLHACLLXXXXXXXXXXXXXXHVVKMHDVIRDMVLWIACKIEKEKENFL 477
             A+N+GY I+G L+ + LL               VV MHD++R+M LWI   + K KE  +
Sbjct:   447 AFNQGYDILGTLVRSSLLLEGAKDKD-------VVSMHDMVREMALWIFSDLGKHKERCI 499

Query:   478 VHAGLGLTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDN-SLKMIAGDFF 536
             V AG+GL E PE++NWR V+RMSLM N  E +  +P C  L++LFL +N  L  I+ +FF
Sbjct:   500 VQAGIGLDELPEVENWRAVKRMSLMNNNFEKILGSPECVELITLFLQNNYKLVDISMEFF 559

Query:   537 QFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAITHLPIELQKLVNLKCLNLEY 596
             + MPSL V ++S NH L +LP  IS LVSL++LDLSGT I  LP  L +L  L  L LE 
Sbjct:   560 RCMPSLAVLDLSENHSLSELPEEISELVSLQYLDLSGTYIERLPHGLHELRKLVHLKLER 619

Query:   597 MYNLNQFPRLVMSAFSKLQVLRILKSNVLFGGHQFLVEELMGMKHLMALTITLKSWEALQ 656
                L     +  S  S L+ LR+  S         L++EL  ++HL  +T  + S   + 
Sbjct:   620 TRRLESISGI--SYLSSLRTLRLRDSKTTLDTG--LMKELQLLEHLELITTDISSG-LVG 674

Query:   657 ELLISQELQRCTQSLFLRCF--NDSKSLDIFCLACLHNLNKLYVAGRKHLEDFQMTVQRS 714
             EL     + RC Q +++R       +S+ +  L  +HNL   Y++   +   +++ ++++
Sbjct:   675 ELFCYPRVGRCIQHIYIRDHWERPEESVGVLVLPAIHNL--CYIS-IWNCWMWEIMIEKT 731

Query:   715 --SVNQLARGFHSLHTVKVGFCFKLKDLTWLVFAPSLKSIVVLSCCNMEQIIKAEKLSQL 772
                 N     F +L  V++  C  LKDLTWL+FAP+L ++ V  C ++E II  EK + +
Sbjct:   732 PWKKNLTNPNFSNLSNVRIEGCDGLKDLTWLLFAPNLINLRVWGCKHLEDIISKEKAASV 791

Query:   773 HHHPERKKSVFAKLQFLSLENLRNLCCINWEALAFPNLKEIRV-EGCPKLFKLPLDSNSA 831
                 E++   F KL+ L+L  L  L  I W AL F  L+ + +   CPKL KLPLDS S 
Sbjct:   792 L---EKEILPFQKLECLNLYQLSELKSIYWNALPFQRLRCLDILNNCPKLRKLPLDSKSV 848

Query:   832 -KGCKVVIKGEENWW 845
              K  + VIK +E  W
Sbjct:   849 VKVEEFVIKYKEKKW 863

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:2166320 AT5G63020 [Arabidopsis thaliana (taxid:3702)]

 Score = 1414 (502.8 bits), Expect = 1.1e-144, P = 1.1e-144
 Identities = 313/794 (39%), Positives = 456/794 (57%)

Query:     1 YISQLEDNLPALQAQLQKLIESENDVMARVANAENQQMRQLNTVQGWLSRVEAVETEVGE 60
             YI  LE+NL ALQ  L+++ +   D++ ++ + E + +++L+ VQGW+S+VEA+   V E
Sbjct:    28 YIHGLEENLTALQRALEQIEQRREDLLRKILSEERRGLQRLSVVQGWVSKVEAIVPRVNE 87

Query:    61 LMRDSSQEVDKLCPGGCCSKNCKSSFKFGKRVAKTLQLVNNLMGEGAFDAVAEKVRPPAV 120
             L+R  S +V +LC  G CSKN  SS+++GKRV K ++ V  L  +G F  VAE+V    V
Sbjct:    88 LVRMRSVQVQRLCLCGFCSKNLVSSYRYGKRVMKMIEEVEVLRYQGDFAVVAERVDAARV 147

Query:   121 DQRPCEPTVGLESMFDKVWRCLGEEQXXXXXXXXXXXXXXXXXXXXXXXXXXGAPNDFDV 180
             ++RP  P V ++ M +  W  L E++                              +FD+
Sbjct:   148 EERPTRPMVAMDPMLESAWNRLMEDEIGILGLHGMGGVGKTTLLSHINNRFSRVGGEFDI 207

Query:   181 VIWVVVSKDLQLEKIQEKIGRRIGFLDESWKNGSLEDKASDXXXXXXXXXXXXXXXXXWE 240
             VIW+VVSK+LQ+++IQ++I  ++   +E WK  + + KAS+                 W 
Sbjct:   208 VIWIVVSKELQIQRIQDEIWEKLRSDNEKWKQKTEDIKASNIYNVLKHKRFVLLLDDIWS 267

Query:   241 RVDLTKVGVPFPDPENKSKIVFTTRFLEICGAMKAHEFLKVECLGPEDAWRLFRENLRRD 300
             +VDLT+VGVPFP  EN  KIVFTTR  EICG M     ++V CL P+DAW LF + +   
Sbjct:   268 KVDLTEVGVPFPSRENGCKIVFTTRLKEICGRMGVDSDMEVRCLAPDDAWDLFTKKVGEI 327

Query:   301 VLDNHPDIPELARSVAKEYAGLPLALITIGRAMTCKKTTQEWHHAIQILRRSSSEFPGMG 360
              L +HP+IP +AR+VAK+  GLPLAL  IG  M  K+T QEW  AI +L  S++EF GM 
Sbjct:   328 TLGSHPEIPTVARTVAKKCRGLPLALNVIGETMAYKRTVQEWRSAIDVLTSSAAEFSGME 387

Query:   361 KEVYPLLKFSYDSLPDDTIRSCFLYCGLFPEDYRIRKSELIDCWIGEGFLDQYDRSGAYN 420
              E+ P+LK+SYD+L  + ++ CF YC LFPED+ I K++L+D WIGEGF+D+ ++  A N
Sbjct:   388 DEILPILKYSYDNLKSEQLKLCFQYCALFPEDHNIEKNDLVDYWIGEGFIDR-NKGKAEN 446

Query:   421 EGYYIIGILLHACLLXXXXXXXXXXXXXXHVVKMHDVIRDMVLWIACKIEKEKENFLVHA 480
             +GY IIGIL+ +CLL                VKMHDV+R+M LWIA    K+KENF+V A
Sbjct:   447 QGYEIIGILVRSCLLMEENQ---------ETVKMHDVVREMALWIASDFGKQKENFIVQA 497

Query:   481 GLGLTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFMP 540
             GL     PEI+ W+  RR+SLM N IE++ + P  P L++L L  N L  I+  FF+ MP
Sbjct:   498 GLQSRNIPEIEKWKVARRVSLMFNNIESIRDAPESPQLITLLLRKNFLGHISSSFFRLMP 557

Query:   541 SLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAITHLPIELQKLVNLKCLNLEYMYNL 600
              L V ++S N  L  LP+ IS  VSL++L LS T I   P  L +L  L  LNLEY   +
Sbjct:   558 MLVVLDLSMNRDLRHLPNEISECVSLQYLSLSRTRIRIWPAGLVELRKLLYLNLEYTRMV 617

Query:   601 NQFPRLVMSAFSKLQVLRILKSNVLFGGHQFLVEELMGMKHLMALTITLKSWEALQELLI 660
                  +  S  + L+VLR+  S   F     ++ EL  +++L  LTITL     L++ L 
Sbjct:   618 ESICGI--SGLTSLKVLRLFVSG--FPEDPCVLNELQLLENLQTLTITLGLASILEQFLS 673

Query:   661 SQELQRCTQSLFLRCFNDSKSLDIFCLACLHNLNKLYVAGRKHLE---DFQMTVQRSSVN 717
             +Q L  CT++L +   N   S+  F +A + +L +L+ A     E       TV    + 
Sbjct:   674 NQRLASCTRALRIENLNPQSSVISF-VATMDSLQELHFADSDIWEIKVKRNETVLPLHIP 732

Query:   718 QLARGFHSLHTVKVGFCFKLKDLTWLVFAPSLKSIVVLSCCNMEQIIKAEKLSQLHHHP- 776
                  F +L  V + FC +L+DLTWL+FAP+L  + V+S  +++++I  EK  Q +  P 
Sbjct:   733 TTTTFFPNLSQVSLEFCTRLRDLTWLIFAPNLTVLRVISASDLKEVINKEKAEQQNLIPF 792

Query:   777 -ERKKSVFAKLQFL 789
              E K+     +Q L
Sbjct:   793 QELKELRLENVQML 806

GO:0005634 "nucleus" evidence=ISM

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

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2036214 AT1G15890 [Arabidopsis thaliana (taxid:3702)]

 Score = 1412 (502.1 bits), Expect = 1.7e-144, P = 1.7e-144
 Identities = 330/827 (39%), Positives = 465/827 (56%)

Query:     1 YISQLEDNLPALQAQLQKLIESENDVMARVANAENQQMRQLNTVQGWLSRVEAVETEVGE 60
             YI ++E NL ALQ  +Q+L E  +D++ RV   E++ +++L  VQGWLSRV+ V ++V +
Sbjct:    28 YILKMEANLEALQNTMQELEERRDDLLRRVVIEEDKGLQRLAQVQGWLSRVKDVCSQVND 87

Query:    61 LMRDSSQEVDKLCPGGCCSKNCKSSFKFGKRVAKTLQLVNNLMGEGAFDAVAEKVRPPAV 120
             L++  S + ++LC  G CSKN  S   +G  V K L+ V  L+ +G F+ VAEK+  P V
Sbjct:    88 LLKAKSIQTERLCLCGYCSKNFISGRNYGINVLKKLKHVEGLLAKGVFEVVAEKIPAPKV 147

Query:   121 DQRPCEPTVGLESMFDKVWRCLGEEQXXXXXXXXXXXXXXXXXXXXXXXXXXGAPNDFDV 180
             +++  + TVGL++M  + W  L +++                             N FD+
Sbjct:   148 EKKHIQTTVGLDAMVGRAWNSLMKDERRTLGLYGMGGVGKTTLLASINNKFLEGMNGFDL 207

Query:   181 VIWVVVSKDLQLEKIQEKIGRRIGFLDESWKNGSLEDKASDXXXXXXXXXXXXXXXXXWE 240
             VIWVVVSKDLQ E IQE+I  R+G L   WK  + ++KAS                  W 
Sbjct:   208 VIWVVVSKDLQNEGIQEQILGRLG-LHRGWKQVTEKEKASYICNILNVKKFVLLLDDLWS 266

Query:   241 RVDLTKVGVPFPDPENKSKIVFTTRFLEICGAMKAHEFLKVECLGPEDAWRLFRENLRRD 300
              VDL K+GVP    EN SKIVFTTR  ++C  M+    +KV+CL P++AW LF++ +   
Sbjct:   267 EVDLEKIGVPPLTRENGSKIVFTTRSKDVCRDMEVDGEMKVDCLPPDEAWELFQKKVGPI 326

Query:   301 VLDNHPDIPELARSVAKEYAGLPLALITIGRAMTCKKTTQEWHHAIQILRRSSSEFPGMG 360
              L +H DIP LAR VA++  GLPLAL  IG+AM  ++T QEW H I +L  SS EFP M 
Sbjct:   327 PLQSHEDIPTLARKVAEKCCGLPLALSVIGKAMASRETVQEWQHVIHVLNSSSHEFPSME 386

Query:   361 KEVYPLLKFSYDSLPDDTIRSCFLYCGLFPEDYRIRKSELIDCWIGEGFLD-QYDRSGAY 419
             +++ P+LKFSYD L D+ ++ CFLYC LFPEDY +RK ELI+ W+ EGF+D   D  GA 
Sbjct:   387 EKILPVLKFSYDDLKDEKVKLCFLYCSLFPEDYEVRKEELIEYWMCEGFIDGNEDEDGAN 446

Query:   420 NEGYYIIGILLHACLLXXXXXXXXXXXXXXHVVKMHDVIRDMVLWIACKIEKEKENFLVH 479
             N+G+ IIG L+ A LL                VKMHDVIR+M LWIA    K+KE   V 
Sbjct:   447 NKGHDIIGSLVRAHLLMDGELTTK--------VKMHDVIREMALWIASNFGKQKETLCVK 498

Query:   480 AGLGLTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFM 539
              G+ L   P+  NW ++RRMSLM N+I N+S +   P+L +L L +N L  I+ DFF+FM
Sbjct:   499 PGVQLCHIPKDINWESLRRMSLMCNQIANISSSSNSPNLSTLLLQNNKLVHISCDFFRFM 558

Query:   540 PSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAITHLPIELQKLVNLKCLNLEYMYN 599
             P+L V ++S N  L  LP  IS L SL++++LS T I  LP+  ++L  L  LNLE+   
Sbjct:   559 PALVVLDLSRNSSLSSLPEAISKLGSLQYINLSTTGIKWLPVSFKELKKLIHLNLEFTDE 618

Query:   600 LNQFPRLVMSAFSKLQVLRILKSNVLFGGHQFLVEELMGMKHLMALTITLKSWEALQELL 659
             L     +  S    LQVL++  S V   G   L+EEL+ ++HL  LT T+K    L+ + 
Sbjct:   619 LESIVGIATS-LPNLQVLKLFSSRVCIDGS--LMEELLLLEHLKVLTATIKDALILESIQ 675

Query:   660 ISQELQRCTQSLFLRCFNDSKSLDIFCLACLHNLNKLYVAGRKHLEDFQMTVQRSSVNQL 719
                 L    Q+L LR  N S  + I     L  L  L + G K + + ++  +R    +L
Sbjct:   676 GVDRLVSSIQALCLR--NMSAPVIILNTVALGGLQHLEIVGSK-ISEIKIDWERKGRGEL 732

Query:   720 ----ARGFHSLHTVKVGFCFKLKDLTWLVFAPSLKSIVVLSCCNMEQIIKAEK-LSQLHH 774
                 + GF  L  V++      +DLTWL+FA +L+ + V     +E+II  EK +S  + 
Sbjct:   733 KCTSSPGFKHLSVVEIFNLEGPRDLTWLLFAQNLRRLSVTLSLTIEEIINKEKGMSITNV 792

Query:   775 HPERKKSVFAKLQFLSLENLRNLCCINWEALAFPNLKEIRVEGCPKL 821
             HP      F KL+FL +  L  L  I W   A PNL++  V  C KL
Sbjct:   793 HPNIVVP-FGKLEFLEVRGLDELKRICWNPPALPNLRQFDVRSCLKL 838

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 = 1378 (490.1 bits), Expect = 7.0e-141, P = 7.0e-141
 Identities = 327/853 (38%), Positives = 467/853 (54%)

Query:     1 YISQLEDNLPALQAQLQKLIESENDVMARVANAE-NQQMRQLNTVQGWLSRVEAVETEVG 59
             YI  L  NL +LQ  ++ L   + DV+ R+   E   + ++L+ VQ WL+ V  ++ +  
Sbjct:    28 YIHNLSKNLASLQKAMRMLKARQYDVIRRLETEEFTGRQQRLSQVQVWLTSVLIIQNQFN 87

Query:    60 ELMRDSSQEVDKLCPGGCCSKNCKSSFKFGKRVAKTLQLVNNLMGEGAFDAVAEKVRPPA 119
             +L+R +  E+ +LC  G CSK+ K S+++GKRV   L+ V +L  +G FD V+E      
Sbjct:    88 DLLRSNEVELQRLCLCGFCSKDLKLSYRYGKRVIMMLKEVESLSSQGFFDVVSEATPFAD 147

Query:   120 VDQRPCEPT-VGLESMFDKVWRCLGEEQXXXXXXXXXXXXXXXXXXXXXXXXXXGAPNDF 178
             VD+ P +PT VG E M +K W  L E+                              + F
Sbjct:   148 VDEIPFQPTIVGQEIMLEKAWNRLMEDGSGILGLYGMGGVGKTTLLTKINNKFSKIDDRF 207

Query:   179 DVVIWVVVSKDLQLEKIQEKIGRRIGFLDESWKNGSLEDKASDXXXXXXXXXXXXXXXXX 238
             DVVIWVVVS+   + KIQ  I  ++G     W   +    A D                 
Sbjct:   208 DVVIWVVVSRSSTVRKIQRDIAEKVGLGGMEWSEKNDNQIAVDIHNVLRRRKFVLLLDDI 267

Query:   239 WERVDLTKVGVPFPDPENKSKIVFTTRFLEICGAMKAHEFLKVECLGPEDAWRLFRENLR 298
             WE+V+L  VGVP+P  +N  K+ FTTR  ++CG M   + ++V CL PE++W LF+  + 
Sbjct:   268 WEKVNLKAVGVPYPSKDNGCKVAFTTRSRDVCGRMGVDDPMEVSCLQPEESWDLFQMKVG 327

Query:   299 RDVLDNHPDIPELARSVAKEYAGLPLALITIGRAMTCKKTTQEWHHAIQILRRSSSEFPG 358
             ++ L +HPDIP LAR VA++  GLPLAL  IG AM CK+T  EW HAI +L  S+ +F G
Sbjct:   328 KNTLGSHPDIPGLARKVARKCRGLPLALNVIGEAMACKRTVHEWCHAIDVLTSSAIDFSG 387

Query:   359 MGKEVYPLLKFSYDSLPDDTIRSCFLYCGLFPEDYRIRKSELIDCWIGEGFLDQYD-RSG 417
             M  E+  +LK+SYD+L  + ++SCFLYC LFPEDY I K  L+D WI EGF+++ + R  
Sbjct:   388 MEDEILHVLKYSYDNLNGELMKSCFLYCSLFPEDYLIDKEGLVDYWISEGFINEKEGRER 447

Query:   418 AYNEGYYIIGILLHACLLXXXXXXXXXXXXXXHVVKMHDVIRDMVLWIACKIEKEKENFL 477
               N+GY IIG L+ ACLL                VKMHDV+R+M LWI+  + K+KE  +
Sbjct:   448 NINQGYEIIGTLVRACLLLEEERNKSN-------VKMHDVVREMALWISSDLGKQKEKCI 500

Query:   478 VHAGLGLTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQ 537
             V AG+GL E P++++W  VR++SLM N+IE + ++  C  L +LFL  N +  I+ +FF+
Sbjct:   501 VRAGVGLREVPKVKDWNTVRKISLMNNEIEEIFDSHECAALTTLFLQKNDVVKISAEFFR 560

Query:   538 FMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAITHLPIELQKLVNLKCLNLEYM 597
              MP L V ++S N  L +LP  IS L SL + +LS T I  LP+ L  L  L  LNLE+M
Sbjct:   561 CMPHLVVLDLSENQSLNELPEEISELASLRYFNLSYTCIHQLPVGLWTLKKLIHLNLEHM 620

Query:   598 YNLNQFPRLVMSAFSKLQVLRILKSNVLFGGHQFLVEELMGMKHLMALTITLKSWEALQE 657
              +L     L +S    L+ L +  S +L      LV+EL  ++HL  +T+ + S    + 
Sbjct:   621 SSLGSI--LGISNLWNLRTLGLRDSRLLLD--MSLVKELQLLEHLEVITLDISSSLVAEP 676

Query:   658 LLISQELQRCTQSLFLRCFNDSKSLDIFCLACLHNLNKLYV--AGRKHLEDFQMTVQRSS 715
             LL SQ L  C + +  +   + +S+ +  L  + NL KL +   G + ++  + T   SS
Sbjct:   677 LLCSQRLVECIKEVDFKYLKE-ESVRVLTLPTMGNLRKLGIKRCGMREIK-IERTTSSSS 734

Query:   716 VNQLARG--FHSLHTVKVGFCFKLKDLTWLVFAPSLKSIVVLSCCNMEQIIKAEKLSQLH 773
              N+      F +L  V +  C  LKDLTWL+FAP+L  + V     +E II  EK  +  
Sbjct:   735 RNKSPTTPCFSNLSRVFIAKCHGLKDLTWLLFAPNLTFLEVGFSKEVEDIISEEKAEE-- 792

Query:   774 HHPERKKSVFAKLQFLSLENLRNLCCINWEALAFPNLKEIRVEGCPKLFKLPLDSNSA-K 832
             H        F KL+ L L  LR L  I  +AL FP LK I VE C KL KLPLDS S   
Sbjct:   793 HSATIVP--FRKLETLHLFELRGLKRIYAKALHFPCLKVIHVEKCEKLRKLPLDSKSGIA 850

Query:   833 GCKVVIK-GEENW 844
             G ++VI  GE  W
Sbjct:   851 GEELVIYYGEREW 863

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:2008510 AT1G61190 "AT1G61190" [Arabidopsis thaliana (taxid:3702)]

 Score = 1347 (479.2 bits), Expect = 1.3e-137, P = 1.3e-137
 Identities = 320/839 (38%), Positives = 461/839 (54%)

Query:     1 YISQLEDNLPALQAQLQKLIESENDVMARVANAENQQMRQLNTVQGWLSRVEAVETEVGE 60
             YI  LE NL ALQ +++ L  ++++V  +VA  E++  ++L  VQ WL RV +++ E  +
Sbjct:    27 YIRNLEKNLRALQREMEDLRATQHEVQNKVAREESRHQQRLEAVQVWLDRVNSIDIECKD 86

Query:    61 LMRDSSQEVDKLCPGGCCSKNCKSSFKFGKRVAKTLQLVNNLMGEGAFDAVAEKVRPPAV 120
             L+  S  E+ KLC  G CSK   SS+K+GKRV   L+ V  L  EG FD V++      V
Sbjct:    87 LLSVSPVELQKLCLCGLCSKYVCSSYKYGKRVFLLLEEVTKLKSEGNFDEVSQPPPRSEV 146

Query:   121 DQRPCEPTVGLESMFDKVWRCLGEEQXXXXXXXXXXXXXXXXXXXXXXXXXXGAPNDFDV 180
             ++RP +PT+G E M  K W  L E+                                FD+
Sbjct:   147 EERPTQPTIGQEEMLKKAWNRLMEDGVGIMGLHGMGGVGKTTLFKKIHNKFAETGGTFDI 206

Query:   181 VIWVVVSKDLQLEKIQEKIGRRIGFLDESWKNGSLEDKASDXXXXXXXXXXXXXXXXXWE 240
             VIW+VVS+  +L K+QE I  ++   D+ WKN +  DKA+D                 WE
Sbjct:   207 VIWIVVSQGAKLSKLQEDIAEKLHLCDDLWKNKNESDKATDIHRVLKGKRFVLMLDDIWE 266

Query:   241 RVDLTKVGVPFPDPENKSKIVFTTRFLEICGAMKAHEFLKVECLGPEDAWRLFRENLRRD 300
             +VDL  +G+P+P   NK K+ FTTR  ++CG M  H+ ++V+CL PEDAW LF+  +  +
Sbjct:   267 KVDLEAIGIPYPSEVNKCKVAFTTRDQKVCGQMGDHKPMQVKCLEPEDAWELFKNKVGDN 326

Query:   301 VLDNHPDIPELARSVAKEYAGLPLALITIGRAMTCKKTTQEWHHAIQILRRSSSEFPGMG 360
              L + P I  LAR VA++  GLPLAL  IG  M  K   QEW HAI +L RS++EF  M 
Sbjct:   327 TLRSDPVIVGLAREVAQKCRGLPLALSCIGETMASKTMVQEWEHAIDVLTRSAAEFSDMQ 386

Query:   361 KEVYPLLKFSYDSLPDDTIRSCFLYCGLFPEDYRIRKSELIDCWIGEGFL--DQYDRSGA 418
              ++ P+LK+SYDSL D+ I+SCFLYC LFPED +I    LI+ WI EGF+  DQ  +  A
Sbjct:   387 NKILPILKYSYDSLEDEHIKSCFLYCALFPEDDKIDTKTLINKWICEGFIGEDQVIKR-A 445

Query:   419 YNEGYYIIGILLHACLLXXXXXXXXXXXXXXHVVKMHDVIRDMVLWIACKIEKEKENFLV 478
              N+GY ++G L+ A LL              HVV MHDV+R+M LWIA    K+KEN++V
Sbjct:   446 RNKGYEMLGTLIRANLLTNDRGFVKW-----HVV-MHDVVREMALWIASDFGKQKENYVV 499

Query:   479 HAGLGLTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQF 538
              A +GL E P++++W  VRRMSLM N+IE ++    C  L +LFL  N LK ++G+F ++
Sbjct:   500 RARVGLHEIPKVKDWGAVRRMSLMMNEIEEITCESKCSELTTLFLQSNQLKNLSGEFIRY 559

Query:   539 MPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAITHLPIELQKLVNLKCLNLEYMY 598
             M  L V ++S+N    +LP  IS LVSL++LDLS T I  LP+ L++L  L  LNL +  
Sbjct:   560 MQKLVVLDLSHNPDFNELPEQISGLVSLQYLDLSWTRIEQLPVGLKELKKLIFLNLCFTE 619

Query:   599 NLNQFPRLVMSAFSKLQVLRILKSNVLFGGHQFLVEELMGMKHLMALTITLKSWEALQEL 658
              L     +  S    L+ L + +SNV   G   +++EL  +++L  L IT    E+ + +
Sbjct:   620 RLCSISGI--SRLLSLRWLSLRESNV--HGDASVLKELQQLENLQDLRIT----ESAELI 671

Query:   659 LISQELQRCTQSLFLRCFNDSKSLDIFCLACLHNLNKLYVAGRKHLEDFQMTVQRSS--- 715
              + Q L +    L +  F   K  D+  LA + NL  L V    +  +  +  + S    
Sbjct:   672 SLDQRLAKLISVLRIEGFLQ-KPFDLSFLASMENLYGLLVEN-SYFSEINIKCRESETES 729

Query:   716 ----VNQLARGFHSLHTVKVGFCFKLKDLTWLVFAPSLKSIVVLSCCNMEQIIKAEKLSQ 771
                 +N     F +L  + +  C  +KDLTW++FAP+L ++ +     + +II  EK   
Sbjct:   730 SYLHINPKIPCFTNLTGLIIMKCHSMKDLTWILFAPNLVNLDIRDSREVGEIINKEKAIN 789

Query:   772 LHHHPERKKSVFAKLQFLSLENLRNLCCINWEALAFPNLKEIRVEGCPKLFKLPLDSNS 830
             L        + F KL+ L L  L  L  I W  L FP L  I V+ CPKL KLPL++ S
Sbjct:   790 L----TSIITPFQKLERLFLYGLPKLESIYWSPLPFPLLSNIVVKYCPKLRKLPLNATS 844

GO:0005575 "cellular_component" evidence=ND

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

GO:0043531 "ADP binding" evidence=IEA

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

 Score = 1323 (470.8 bits), Expect = 4.7e-135, P = 4.7e-135
 Identities = 310/850 (36%), Positives = 474/850 (55%)

Query:     1 YISQLEDNLPALQAQLQKLIESENDVMARVANAENQQMRQLNTVQGWLSRVEAVETEVGE 60
             YI  +++NL +L+  ++ L    +D++ +V  AE   +++L+ ++ WL RV+ +E++  +
Sbjct:    28 YIQNIKENLTSLEEAMEDLKALRDDLLRKVQTAEEGGLQRLHQIKVWLKRVKTIESQFND 87

Query:    61 LMRDSSQEVDKLCPGGCCSKNCKSSFKFGKRVAKTLQLVNNLMGEGAFDAVAEKVRPPAV 120
             L    + E+ +LC  G  S+N + S+ +G+RV   L +V +L  +G F+ VA        
Sbjct:    88 LDSSRTVELQRLCCCGVGSRNLRLSYDYGRRVFLMLNIVEDLKSKGIFEEVAHPATRAVG 147

Query:   121 DQRPCEPT-VGLESMFDKVWRCLGEEQXXXXXXXXXXXXXXXXXXXXXXXXXXGAPNDFD 179
             ++RP +PT VG E++ +K W  L ++                              +  +
Sbjct:   148 EERPLQPTIVGQETILEKAWDHLMDDGTKIMGLYGMGGVGKTTLLTQINNRFCDTDDGVE 207

Query:   180 VVIWVVVSKDLQLEKIQEKIGRRIGFLDESWKNGSLEDKASDXXXXXXXXXXXXXXXXXW 239
             +VIWVVVS DLQ+ KIQ++IG +IGF+   W   S   KA D                 W
Sbjct:   208 IVIWVVVSGDLQIHKIQKEIGEKIGFIGVEWNQKSENQKAVDILNFLSKKRFVLLLDDIW 267

Query:   240 ERVDLTKVGVPFPDPENKSKIVFTTRFLEICGAMKAHEFLKVECLGPEDAWRLFRENLRR 299
             +RV+LT++G+P P  EN  KI FTTR   +C +M  H+ ++V CLG +DAW LF++ +  
Sbjct:   268 KRVELTEIGIPNPTSENGCKIAFTTRCQSVCASMGVHDPMEVRCLGADDAWDLFKKKVGD 327

Query:   300 DVLDNHPDIPELARSVAKEYAGLPLALITIGRAMTCKKTTQEWHHAIQILRRSSSEFPGM 359
               L +HPDIPE+AR VA+   GLPLAL  IG  M CKKTTQEW  A+ +    ++ F  +
Sbjct:   328 ITLSSHPDIPEIARKVAQACCGLPLALNVIGETMACKKTTQEWDRAVDVSTTYAANFGAV 387

Query:   360 GKEVYPLLKFSYDSLPDDTIRSCFLYCGLFPEDYRIRKSELIDCWIGEGFLD-QYDRSGA 418
              + + P+LK+SYD+L  +++++CFLYC LFPED  I K  LID WI EGF+D   ++ GA
Sbjct:   388 KERILPILKYSYDNLESESVKTCFLYCSLFPEDDLIEKERLIDYWICEGFIDGDENKKGA 447

Query:   419 YNEGYYIIGILLHACLLXXXXXXXXXXXXXXHVVKMHDVIRDMVLWIACKIEKEKENFLV 478
               EGY I+G L+ A LL                VKMHDV+R+M LWIA  + K K+N +V
Sbjct:   448 VGEGYEILGTLVCASLLVEGGKFNNKSY-----VKMHDVVREMALWIASDLRKHKDNCIV 502

Query:   479 HAGLGLTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNS-LKMIAGDFFQ 537
              AG  L E P++++W+ V RMSL+ N+I+ +  +P CP L +LFL DN  L  I+G+FF+
Sbjct:   503 RAGFRLNEIPKVKDWKVVSRMSLVNNRIKEIHGSPECPKLTTLFLQDNRHLVNISGEFFR 562

Query:   538 FMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAITHLPIELQKLVNLKCLNLEYM 597
              MP L V ++S N  L  LP  IS LVSL +LDLS ++I  LP+ L KL  L  LNLE M
Sbjct:   563 SMPRLVVLDLSWNVNLSGLPDQISELVSLRYLDLSYSSIGRLPVGLLKLKKLMHLNLESM 622

Query:   598 YNLNQFPRLVMSAFSKLQVLRILKSNVLFGGHQFLVEELMGMKHLMALTITLKSWEALQE 657
               L     +     S L+ +R+L  N+       L+EEL  +++L  LTI + S  AL++
Sbjct:   623 LCLESVSGI--DHLSNLKTVRLL--NLRMWLTISLLEELERLENLEVLTIEIISSSALEQ 678

Query:   658 LLISQELQRCTQSLFLRCFNDSKSLDIFCLACLHNLNKLYVAGRKHLEDFQMTVQRSSVN 717
             LL S  L RC Q + ++ + D +S+ I  L  + +L ++++ G   + D  + ++R++ +
Sbjct:   679 LLCSHRLVRCLQKVSVK-YLDEESVRILTLPSIGDLREVFIGGCG-MRD--IIIERNT-S 733

Query:   718 QLARGFHSLHTVKVGFCFKLKDLTWLVFAPSLKSIVVLSCCNMEQIIKAEKLSQLHHHPE 777
               +  F +L  V +  C  LKDLTWL+FAP+L  + V +   +E+II  EK S     P 
Sbjct:   734 LTSPCFPNLSKVLITGCNGLKDLTWLLFAPNLTHLNVWNSRQIEEIISQEKASTADIVPF 793

Query:   778 RKKSVFAKLQFLSLENLRNLCC--INWEALAFPNLKEIRVEGCPKLFKLPLDSNSAKGCK 835
             RK      L    L  L+++    + +  L   N++  +     KL  L   S    G +
Sbjct:   794 RKLEY---LHLWDLPELKSIYWNPLPFPCLNQINVQN-KCRKLTKL-PLDSQSCIVAGEE 848

Query:   836 VVIK-GEENW 844
             +VI+ G+E W
Sbjct:   849 LVIQYGDEEW 858

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:2170892 AT5G43730 [Arabidopsis thaliana (taxid:3702)]

 Score = 1311 (466.6 bits), Expect = 8.8e-134, P = 8.8e-134
 Identities = 320/829 (38%), Positives = 454/829 (54%)

Query:     1 YISQLEDNLPALQAQLQKLIESENDVMARVANAENQQMRQLNTVQGWLSRVEAVETEVGE 60
             YI  +E NL ALQ  +++L    +D++ARV+  E++ +++L  V GWLSRV+ VE+E  +
Sbjct:    27 YIHLMESNLDALQKTMEELKNGRDDLLARVSIEEDKGLQRLALVNGWLSRVQIVESEFKD 86

Query:    61 LMRDSSQEVDKLCPGGCCSKNCKSSFKFGKRVAKTLQLVNNLMGEGAFDAVAEKVRPPAV 120
             L+   S E  +LC  G CS++C SS+ +G +V K L+ V  L+ +  F+ VA+K+ P A 
Sbjct:    87 LLEAMSIETGRLCLFGYCSEDCISSYNYGGKVMKNLEEVKELLSKKNFEVVAQKIIPKA- 145

Query:   121 DQRPCEPTVGLESMFDKVWRCLGEEQXXXXXXXXXXXXXXXXXXXXXXXXXXGAPNDFDV 180
             +++  + TVGL++M    W  L +++                             ++FDV
Sbjct:   146 EKKHIQTTVGLDTMVGIAWESLIDDEIRTLGLYGMGGIGKTTLLESLNNKFVELESEFDV 205

Query:   181 VIWVVVSKDLQLEKIQEKIGRRIGFLDESWKNGSLEDKASDXXXXXXXXXXXXXXXXXWE 240
             VIWVVVSKD QLE IQ++I  R+   D+ W+  +   KAS                  W 
Sbjct:   206 VIWVVVSKDFQLEGIQDQILGRLR-PDKEWERETESKKASLINNNLKRKKFVLLLDDLWS 264

Query:   241 RVDLTKVGVPFPDPENKSKIVFTTRFLEICGAMKAHEFLKVECLGPEDAWRLFRENLRRD 300
              VDL K+GVP P  EN SKIVFTTR  E+C  MKA + +KV+CL P++AW LFR  +   
Sbjct:   265 EVDLIKIGVPPPSRENGSKIVFTTRSKEVCKHMKADKQIKVDCLSPDEAWELFRLTVGDI 324

Query:   301 VLDNHPDIPELARSVAKEYAGLPLALITIGRAMTCKKTTQEWHHAIQILRRSSSEFPGMG 360
             +L +H DIP LAR VA +  GLPLAL  IG+AM CK+T QEW HAI +L     +FPGM 
Sbjct:   325 ILRSHQDIPALARIVAAKCHGLPLALNVIGKAMVCKETVQEWRHAINVLNSPGHKFPGME 384

Query:   361 KEVYPLLKFSYDSLPDDTIRSCFLYCGLFPEDYRIRKSELIDCWIGEGFLD--QYDRSGA 418
             + + P+LKFSYDSL +  I+ CFLYC LFPED+ I K +LI+ WI EG+++  +Y+  G 
Sbjct:   385 ERILPILKFSYDSLKNGEIKLCFLYCSLFPEDFEIEKDKLIEYWICEGYINPNRYEDGGT 444

Query:   419 YNEGYYIIGILLHACLLXXXXXXXXXXXXXXHVVKMHDVIRDMVLWIACKIEKEKENFLV 478
              N+GY IIG+L+ A LL                VKMHDVIR+M LWI      ++E   V
Sbjct:   445 -NQGYDIIGLLVRAHLLIECELTDK--------VKMHDVIREMALWINSDFGNQQETICV 495

Query:   479 HAGLGLTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQF 538
              +G  +   P   +W  VR+MSL+  ++E ++ +P CP+L +L L  N L  I+  FF F
Sbjct:   496 KSGAHVRLIPNDISWEIVRQMSLISTQVEKIACSPNCPNLSTLLLPYNKLVDISVGFFLF 555

Query:   539 MPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAITHLPIELQKLVNLKCLNLEYMY 598
             MP L V ++S N  L +LP  IS L SL++L+LS T I  LP+ L+KL  L  LNLE+  
Sbjct:   556 MPKLVVLDLSTNWSLIELPEEISNLGSLQYLNLSLTGIKSLPVGLKKLRKLIYLNLEFTN 615

Query:   599 NLNQFPRLVMSAFSKLQVLRILKSNVLFGGHQFLVEELMGMKHLMALTITLKSWEALQEL 658
              L     +  +    LQVL++  S  LF     ++EEL  +KHL  LT T++    L+ +
Sbjct:   616 VLESLVGIA-TTLPNLQVLKLFYS--LFCVDDIIMEELQRLKHLKILTATIEDAMILERV 672

Query:   659 LISQELQRCTQSLFLRCFNDSKSLDIFCLACLHNLNKLYVAGRKHLE---DFQMTVQRSS 715
                  L    + L LR  N S    I     L  L +L +      E   D+    +R  
Sbjct:   673 QGVDRLASSIRGLCLR--NMSAPRVILNSVALGGLQQLGIVSCNISEIEIDWLSKERRDH 730

Query:   716 VNQLARGFHSLHTVKVGFCFKLKDLTWLVFAPSLKSIVVLSCCNMEQIIKAEK-LSQLHH 774
              +  + GF  L ++ V      +DL+WL+FA +LK I V     +E+II  +K +S    
Sbjct:   731 RSTSSPGFKQLASITVIGLVGPRDLSWLLFAQNLKDIQVQYSPTIEEIINKQKGMSITKV 790

Query:   775 HPERKKSVFAKLQFLSLENLRNLCCINWEALAFPNLKEIRVEGCPKLFK 823
             H +     F KL+ L L  L  L  I W     PNL+E  V  CPKL +
Sbjct:   791 HRDIVVP-FGKLESLHLYQLAELTEICWNYQTLPNLRESYVNYCPKLLE 838

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

GO:0043531 "ADP binding" evidence=IEA

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

 Score = 1281 (456.0 bits), Expect = 1.3e-130, P = 1.3e-130
 Identities = 293/775 (37%), Positives = 425/775 (54%)

Query:     1 YISQLEDNLPALQAQLQKLIESENDVMARVANAENQQMRQLNTVQGWLSRVEAVETEVGE 60
             YI  LE NL ALQ +++ L   +++V  +VA  E +  R+L  VQ WL RV +V+ E  +
Sbjct:    26 YIRTLEKNLRALQREMEDLRAIQHEVQNKVARDEARHQRRLEAVQVWLDRVNSVDIECKD 85

Query:    61 LMRDSSQEVDKLCPGGCCSKNCKSSFKFGKRVAKTLQLVNNLMGEGAFDAVAEKVRPPAV 120
             L+  +  E+ KLC  G CSK   SS+K+GK+V   L+ V  L  EG FD V++      V
Sbjct:    86 LLSVTPVELQKLCLCGLCSKYVCSSYKYGKKVFLLLEEVKKLNSEGNFDEVSQPPPRSEV 145

Query:   121 DQRPCEPTVGLESMFDKVWRCLGEEQXXXXXXXXXXXXXXXXXXXXXXXXXXGAPNDFDV 180
             ++RP +PT+G E M +K W  L E+                                FD+
Sbjct:   146 EERPTQPTIGQEDMLEKAWNRLMEDGVGIMGLHGMGGVGKTTLFKKIHNKFAEIGGTFDI 205

Query:   181 VIWVVVSKDLQLEKIQEKIGRRIGFLDESWKNGSLEDKASDXXXXXXXXXXXXXXXXXWE 240
             VIW+VVSK + + K+QE I  ++   D+ WKN +  DKA+D                 WE
Sbjct:   206 VIWIVVSKGVMISKLQEDIAEKLHLCDDLWKNKNESDKATDIHRVLKGKRFVLMLDDIWE 265

Query:   241 RVDLTKVGVPFPDPENKSKIVFTTRFLEICGAMKAHEFLKVECLGPEDAWRLFRENLRRD 300
             +VDL  +G+P+P   NK K+ FTTR  E+CG M  H+ ++V CL PEDAW LF+  +  +
Sbjct:   266 KVDLEAIGIPYPSEVNKCKVAFTTRSREVCGEMGDHKPMQVNCLEPEDAWELFKNKVGDN 325

Query:   301 VLDNHPDIPELARSVAKEYAGLPLALITIGRAMTCKKTTQEWHHAIQILRRSSSEFPGMG 360
              L + P I ELAR VA++  GLPLAL  IG  M+ K   QEW HAI +   S++EF  M 
Sbjct:   326 TLSSDPVIVELAREVAQKCRGLPLALNVIGETMSSKTMVQEWEHAIHVFNTSAAEFSDMQ 385

Query:   361 KEVYPLLKFSYDSLPDDTIRSCFLYCGLFPEDYRIRKSELIDCWIGEGFL--DQYDRSGA 418
              ++ P+LK+SYDSL D+ I+SCFLYC LFPED  I   +LID WI EGF+  DQ  +  A
Sbjct:   386 NKILPILKYSYDSLGDEHIKSCFLYCALFPEDGEIYNEKLIDYWICEGFIGEDQVIKR-A 444

Query:   419 YNEGYYIIGILLHACLLXXXXXXXXXXXXXXHVVKMHDVIRDMVLWIACKIEKEKENFLV 478
              N+GY ++G L  A LL              +   MHDV+R+M LWIA    K+KENF+V
Sbjct:   445 RNKGYAMLGTLTRANLLTKVGT---------YYCVMHDVVREMALWIASDFGKQKENFVV 495

Query:   479 HAGLGLTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQF 538
              AG+GL E P++++W  VR+MSLM N IE ++    C  L +LFL  N LK + G F ++
Sbjct:   496 QAGVGLHEIPKVKDWGAVRKMSLMDNDIEEITCESKCSELTTLFLQSNKLKNLPGAFIRY 555

Query:   539 MPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAITHLPIELQKLVNLKCLNLEYMY 598
             M  L V ++S N    KLP  IS LVSL+ LDLS T+I H+PI L++L  L  L+L Y  
Sbjct:   556 MQKLVVLDLSYNRDFNKLPEQISGLVSLQFLDLSNTSIEHMPIGLKELKKLTFLDLTYTD 615

Query:   599 NLNQFPRLVMSAFSKLQVLRILKSNVLFGGHQFLVEELMGMKHLMALTITLKS-WEALQE 657
              L     +  S    L++LR+L S V   G   +++EL  +++L  L IT+ +   +L +
Sbjct:   616 RLCSISGI--SRLLSLRLLRLLGSKV--HGDASVLKELQQLQNLQELAITVSAELISLDQ 671

Query:   658 LLISQELQRCTQSLFLRCFNDSKSLDIFCLACLHNLNKLYVAGRKHLEDFQMTVQRSSVN 717
              L       C +    + F+ S    +  L+ L   N  +   +    + + +  R  +N
Sbjct:   672 RLAKLISNLCIEGFLQKPFDLSFLASMENLSSLRVENSYFSEIKCRESETESSYLR--IN 729

Query:   718 QLARGFHSLHTVKVGFCFKLKDLTWLVFAPSLKSIVVLSCCNMEQIIKAEKLSQL 772
                  F +L  +++  C  +KDLTW++FAP+L  +++     + +II  EK + L
Sbjct:   730 PKIPCFTNLSRLEIMKCHSMKDLTWILFAPNLVVLLIEDSREVGEIINKEKATNL 784

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

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

GO:0043531 "ADP binding" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q8RXS5	DRL40_ARATH	No assigned EC number	0.4270	0.9501	0.9234	yes	no

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: GSVIVG00037624001 SubName- Full=Chromosome chr9 scaffold_90, whole genome shotgun sequence; (894 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	863
pfam00931	285	pfam00931, NB-ARC, NB-ARC domain	4e-88
pfam13855	60	pfam13855, LRR_8, Leucine rich repeat	8e-08
pfam13855	60	pfam13855, LRR_8, Leucine rich repeat	2e-06
PLN00113	968	PLN00113, PLN00113, leucine-rich repeat receptor-l	2e-06
PLN00113	968	PLN00113, PLN00113, leucine-rich repeat receptor-l	1e-04
PLN00113	968	PLN00113, PLN00113, leucine-rich repeat receptor-l	0.001
PRK13695	174	PRK13695, PRK13695, putative NTPase; Provisional	0.001

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

 Score =  281 bits (720), Expect = 4e-88
 Identities = 114/282 (40%), Positives = 163/282 (57%), Gaps = 6/282 (2%)

Query: 132 ESMFDKVWRCL--GEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKD 189
           E M + +   L    + +G++G+ GMGGVGKTTL  +I N        FD V WVVVSK 
Sbjct: 2   EDMIEALIEKLLEMSDNLGVVGIVGMGGVGKTTLAKQIYNDDS-VGGHFDSVAWVVVSKT 60

Query: 190 LQLEKIQEKIGRRIGFLDESWKNGSLEDKASDILRILSKKKFLLLLDDIWERVDLTKVGV 249
               ++Q+ I + +G  D  W   +  + A  I   L +K+FLL+LDD+WE+ D  K+GV
Sbjct: 61  YTEFRLQKDILQELGLDDSDWVEKNESELAVKIKEALLRKRFLLVLDDVWEKNDWDKIGV 120

Query: 250 PFPDPENKSKIVFTTRFLEICGAMKA-HEFLKVECLGPEDAWRLFRENLRRDVLDNHPDI 308
           PFPD EN S+++ TTR   + G M    +  +VE L PE++W LF   +    L   P++
Sbjct: 121 PFPDGENGSRVIVTTRSESVAGRMGGTSKPHEVESLEPEESWELFSNKVFEKELPPCPEL 180

Query: 309 PELARSVAKEYAGLPLALITIGRAMTCKKTTQEWHHAIQILRRSSSEFPGMGKEVYPLLK 368
            E+A+ + ++  GLPLAL  +G  +  K T QEW H ++ L    +   G+  EV  +L 
Sbjct: 181 EEVAKEIVEKCKGLPLALKVLGGLLAFKSTVQEWEHVLEQLNNELAGRDGL-NEVLSILS 239

Query: 369 FSYDSLPDDTIRSCFLYCGLFPEDYRIRKSELIDCWIGEGFL 410
            SYD+LP   ++ CFLY  LFPEDY IRK +LI  WI EGF+
Sbjct: 240 LSYDNLPMH-LKRCFLYLALFPEDYNIRKEQLIKLWIAEGFV 280

Length = 285

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

 Score = 49.5 bits (119), Expect = 8e-08
 Identities = 25/60 (41%), Positives = 36/60 (60%)

Query: 517 HLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAI 576
           +L SL LS+N L +I    F+ +P+L+V ++S N+L    P   S L SL  LDLSG  +
Sbjct: 1   NLKSLDLSNNRLTVIPDGAFKGLPNLKVLDLSGNNLTSISPEAFSGLPSLRSLDLSGNNL 60

Length = 60

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

 Score = 45.2 bits (108), Expect = 2e-06
 Identities = 19/60 (31%), Positives = 34/60 (56%), Gaps = 2/60 (3%)

Query: 495 NVRRMSLMKNKIENLSETP--TCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHL 552
           N++ + L  N++  + +      P+L  L LS N+L  I+ + F  +PSLR  ++S N+L
Sbjct: 1   NLKSLDLSNNRLTVIPDGAFKGLPNLKVLDLSGNNLTSISPEAFSGLPSLRSLDLSGNNL 60

Length = 60

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

 Score = 51.4 bits (123), Expect = 2e-06
 Identities = 41/129 (31%), Positives = 66/129 (51%), Gaps = 9/129 (6%)

Query: 516 PHLLSLFLSDNSLK-MIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGT 574
           P++ ++ LS+N L   I  D F    SLR  N+SNN+    +P G  ++ +LE LDLS  
Sbjct: 93  PYIQTINLSNNQLSGPIPDDIFTTSSSLRYLNLSNNNFTGSIPRG--SIPNLETLDLSNN 150

Query: 575 AIT-HLPIELQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRILKSNVLFGGHQFLV 633
            ++  +P ++    +LK L+L     + + P   ++  + L+ L  L SN L G    + 
Sbjct: 151 MLSGEIPNDIGSFSSLKVLDLGGNVLVGKIP-NSLTNLTSLEFL-TLASNQLVGQ---IP 205

Query: 634 EELMGMKHL 642
            EL  MK L
Sbjct: 206 RELGQMKSL 214

Length = 968

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

 Score = 45.2 bits (107), Expect = 1e-04
 Identities = 37/134 (27%), Positives = 61/134 (45%), Gaps = 13/134 (9%)

Query: 514 TCPHLLSLFLSDNSLK--MIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDL 571
           T   L  L LS+N+    +  G     +P+L   ++SNN L  ++P+ I +  SL+ LDL
Sbjct: 116 TSSSLRYLNLSNNNFTGSIPRG----SIPNLETLDLSNNMLSGEIPNDIGSFSSLKVLDL 171

Query: 572 SGTAIT-HLPIELQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLR--ILKSNVLFGG 628
            G  +   +P  L  L +L+ L L      NQ    +     +++ L+   L  N L G 
Sbjct: 172 GGNVLVGKIPNSLTNLTSLEFLTLAS----NQLVGQIPRELGQMKSLKWIYLGYNNLSGE 227

Query: 629 HQFLVEELMGMKHL 642
             + +  L  + HL
Sbjct: 228 IPYEIGGLTSLNHL 241

Length = 968

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

 Score = 42.1 bits (99), Expect = 0.001
 Identities = 36/113 (31%), Positives = 56/113 (49%), Gaps = 6/113 (5%)

Query: 517 HLLSLFLSDNSLK-MIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLV-SLEHLDLSGT 574
            ++S+ LS  ++   I+   F+  P ++  N+SNN L   +P  I T   SL +L+LS  
Sbjct: 70  RVVSIDLSGKNISGKISSAIFRL-PYIQTINLSNNQLSGPIPDDIFTTSSSLRYLNLSNN 128

Query: 575 AITHLPIELQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRILKSNVLFG 627
             T   I    + NL+ L+L       + P   + +FS L+VL  L  NVL G
Sbjct: 129 NFTG-SIPRGSIPNLETLDLSNNMLSGEIP-NDIGSFSSLKVLD-LGGNVLVG 178

Length = 968

>gnl|CDD|237475 PRK13695, PRK13695, putative NTPase; Provisional

 Score = 40.3 bits (95), Expect = 0.001
 Identities = 26/100 (26%), Positives = 40/100 (40%), Gaps = 25/100 (25%)

Query: 150 IGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGRRIGFLDES 209
           IG+ G  GVGKTTL+ KI   L     +   V           E+++E  G+RIGF    
Sbjct: 3   IGITGPPGVGKTTLVLKIAELL---KEEGYKVGGFYT------EEVREG-GKRIGF---- 48

Query: 210 WKNGSLEDKASDILRILSKKKFLLLLDDIWERVDLTKVGV 249
                       I+ + + ++ +L       R  + K  V
Sbjct: 49  -----------KIIDLDTGEEGILARVGFPSRPRVGKYVV 77

Length = 174

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	863
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;	99.88
PLN00113	968	leucine-rich repeat receptor-like protein kinase;	99.86
PLN03210	1153	Resistant to P. syringae 6; Provisional	99.86
KOG0444	1255	consensus Cytoskeletal regulator Flightless-I (con	99.86
KOG0444	1255	consensus Cytoskeletal regulator Flightless-I (con	99.81
KOG4194	873	consensus Membrane glycoprotein LIG-1 [Signal tran	99.79
KOG4194	873	consensus Membrane glycoprotein LIG-1 [Signal tran	99.79
KOG0472	565	consensus Leucine-rich repeat protein [Function un	99.67
KOG0472	565	consensus Leucine-rich repeat protein [Function un	99.63
KOG0618	1081	consensus Serine/threonine phosphatase 2C containi	99.6
KOG0617	264	consensus Ras suppressor protein (contains leucine	99.51
PRK15387	788	E3 ubiquitin-protein ligase SspH2; Provisional	99.5
KOG4658	889	consensus Apoptotic ATPase [Signal transduction me	99.49
PRK15387	788	E3 ubiquitin-protein ligase SspH2; Provisional	99.46
KOG0618	1081	consensus Serine/threonine phosphatase 2C containi	99.43
PRK15370	754	E3 ubiquitin-protein ligase SlrP; Provisional	99.36
PRK15370	754	E3 ubiquitin-protein ligase SlrP; Provisional	99.36
PRK04841	903	transcriptional regulator MalT; Provisional	99.35
KOG0617	264	consensus Ras suppressor protein (contains leucine	99.34
PRK00411	394	cdc6 cell division control protein 6; Reviewed	99.27
TIGR03015	269	pepcterm_ATPase putative secretion ATPase, PEP-CTE	99.26
KOG4237	498	consensus Extracellular matrix protein slit, conta	99.22
PF01637	234	Arch_ATPase: Archaeal ATPase; InterPro: IPR011579	99.21
cd00116	319	LRR_RI Leucine-rich repeats (LRRs), ribonuclease i	99.15
TIGR02928	365	orc1/cdc6 family replication initiation protein. M	99.14
cd00116	319	LRR_RI Leucine-rich repeats (LRRs), ribonuclease i	99.13
KOG4341	483	consensus F-box protein containing LRR [General fu	99.09
KOG4237	498	consensus Extracellular matrix protein slit, conta	99.09
COG2909	894	MalT ATP-dependent transcriptional regulator [Tran	99.02
PF05729	166	NACHT: NACHT domain	99.01
TIGR00635	305	ruvB Holliday junction DNA helicase, RuvB subunit.	99.01
PRK00080	328	ruvB Holliday junction DNA helicase RuvB; Reviewed	98.97
PF14580	175	LRR_9: Leucine-rich repeat; PDB: 2JE1_D 2JE0_A 2JQ	98.95
KOG4341	483	consensus F-box protein containing LRR [General fu	98.93
PF14580	175	LRR_9: Leucine-rich repeat; PDB: 2JE1_D 2JE0_A 2JQ	98.91
PRK06893	229	DNA replication initiation factor; Validated	98.78
COG3899	849	Predicted ATPase [General function prediction only	98.76
KOG3207	505	consensus Beta-tubulin folding cofactor E [Posttra	98.73
COG2256	436	MGS1 ATPase related to the helicase subunit of the	98.73
KOG0532	722	consensus Leucine-rich repeat (LRR) protein, conta	98.71
KOG3207	505	consensus Beta-tubulin folding cofactor E [Posttra	98.68
PRK13342	413	recombination factor protein RarA; Reviewed	98.66
TIGR03420	226	DnaA_homol_Hda DnaA regulatory inactivator Hda. Me	98.64
PTZ00112	1164	origin recognition complex 1 protein; Provisional	98.62
PF13173	128	AAA_14: AAA domain	98.58
TIGR02903	615	spore_lon_C ATP-dependent protease, Lon family. Me	98.56
PRK04195	482	replication factor C large subunit; Provisional	98.56
PRK05564	313	DNA polymerase III subunit delta'; Validated	98.56
KOG0532	722	consensus Leucine-rich repeat (LRR) protein, conta	98.53
PF13855	61	LRR_8: Leucine rich repeat; PDB: 2O6S_A 3A79_B 3RF	98.5
PRK12402	337	replication factor C small subunit 2; Reviewed	98.48
cd00009	151	AAA The AAA+ (ATPases Associated with a wide varie	98.48
KOG2028	554	consensus ATPase related to the helicase subunit o	98.48
PRK07003	830	DNA polymerase III subunits gamma and tau; Validat	98.48
KOG2120	419	consensus SCF ubiquitin ligase, Skp2 component [Po	98.45
KOG2120	419	consensus SCF ubiquitin ligase, Skp2 component [Po	98.45
KOG1259	490	consensus Nischarin, modulator of integrin alpha5	98.45
KOG1259	490	consensus Nischarin, modulator of integrin alpha5	98.44
PRK14949	944	DNA polymerase III subunits gamma and tau; Provisi	98.44
cd01128	249	rho_factor Transcription termination factor rho is	98.42
COG1474	366	CDC6 Cdc6-related protein, AAA superfamily ATPase	98.42
PLN03150	623	hypothetical protein; Provisional	98.42
PRK14961	363	DNA polymerase III subunits gamma and tau; Provisi	98.42
PRK08727	233	hypothetical protein; Validated	98.41
KOG1909	382	consensus Ran GTPase-activating protein [RNA proce	98.4
PRK14960	702	DNA polymerase III subunits gamma and tau; Provisi	98.4
COG4886	394	Leucine-rich repeat (LRR) protein [Function unknow	98.4
PF13401	131	AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S	98.38
PRK00440	319	rfc replication factor C small subunit; Reviewed	98.38
PRK08084	235	DNA replication initiation factor; Provisional	98.34
PF13191	185	AAA_16: AAA ATPase domain; PDB: 2V1U_A.	98.33
PF05496	233	RuvB_N: Holliday junction DNA helicase ruvB N-term	98.33
PRK14963	504	DNA polymerase III subunits gamma and tau; Provisi	98.32
COG4886	394	Leucine-rich repeat (LRR) protein [Function unknow	98.32
PTZ00202	550	tuzin; Provisional	98.32
PLN03025	319	replication factor C subunit; Provisional	98.31
PRK12323	700	DNA polymerase III subunits gamma and tau; Provisi	98.29
PLN03150	623	hypothetical protein; Provisional	98.29
PRK14962	472	DNA polymerase III subunits gamma and tau; Provisi	98.29
PRK06645	507	DNA polymerase III subunits gamma and tau; Validat	98.27
KOG1909	382	consensus Ran GTPase-activating protein [RNA proce	98.26
PRK14957	546	DNA polymerase III subunits gamma and tau; Provisi	98.26
TIGR02397	355	dnaX_nterm DNA polymerase III, subunit gamma and t	98.25
PRK07471	365	DNA polymerase III subunit delta'; Validated	98.25
PRK09376	416	rho transcription termination factor Rho; Provisio	98.24
PRK14956	484	DNA polymerase III subunits gamma and tau; Provisi	98.24
PRK13341	725	recombination factor protein RarA/unknown domain f	98.22
KOG2982	418	consensus Uncharacterized conserved protein [Funct	98.21
TIGR00678	188	holB DNA polymerase III, delta' subunit. At positi	98.21
PRK14951	618	DNA polymerase III subunits gamma and tau; Provisi	98.2
PRK07940	394	DNA polymerase III subunit delta'; Validated	98.19
PRK05896	605	DNA polymerase III subunits gamma and tau; Validat	98.19
PRK09087	226	hypothetical protein; Validated	98.19
PRK08691	709	DNA polymerase III subunits gamma and tau; Validat	98.18
PRK14964	491	DNA polymerase III subunits gamma and tau; Provisi	98.18
PRK09112	351	DNA polymerase III subunit delta'; Validated	98.17
PRK07994	647	DNA polymerase III subunits gamma and tau; Validat	98.17
PRK14955	397	DNA polymerase III subunits gamma and tau; Provisi	98.15
PF13855	61	LRR_8: Leucine rich repeat; PDB: 2O6S_A 3A79_B 3RF	98.14
PRK14970	367	DNA polymerase III subunits gamma and tau; Provisi	98.13
PRK08903	227	DnaA regulatory inactivator Hda; Validated	98.13
PRK14958	509	DNA polymerase III subunits gamma and tau; Provisi	98.12
TIGR01242	364	26Sp45 26S proteasome subunit P45 family. Many pro	98.11
KOG1859	1096	consensus Leucine-rich repeat proteins [General fu	98.1
PRK05642	234	DNA replication initiation factor; Validated	98.1
PF00308	219	Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013	98.06
PRK14969	527	DNA polymerase III subunits gamma and tau; Provisi	98.03
PRK09111	598	DNA polymerase III subunits gamma and tau; Validat	98.03
COG2255	332	RuvB Holliday junction resolvasome, helicase subun	98.03
TIGR00767	415	rho transcription termination factor Rho. Members	98.01
PRK14959	624	DNA polymerase III subunits gamma and tau; Provisi	98.0
PRK14954	620	DNA polymerase III subunits gamma and tau; Provisi	97.97
PRK14952	584	DNA polymerase III subunits gamma and tau; Provisi	97.95
COG3903	414	Predicted ATPase [General function prediction only	97.94
PHA02544	316	44 clamp loader, small subunit; Provisional	97.94
TIGR02881	261	spore_V_K stage V sporulation protein K. Members o	97.94
KOG2227	529	consensus Pre-initiation complex, subunit CDC6, AA	97.94
TIGR02880	284	cbbX_cfxQ probable Rubsico expression protein CbbX	97.93
PF05621	302	TniB: Bacterial TniB protein; InterPro: IPR008868	97.93
PRK07764	824	DNA polymerase III subunits gamma and tau; Validat	97.93
PRK14087	450	dnaA chromosomal replication initiation protein; P	97.91
PRK03992	389	proteasome-activating nucleotidase; Provisional	97.91
PRK14950	585	DNA polymerase III subunits gamma and tau; Provisi	97.9
KOG2982	418	consensus Uncharacterized conserved protein [Funct	97.89
KOG0531	414	consensus Protein phosphatase 1, regulatory subuni	97.89
CHL00181	287	cbbX CbbX; Provisional	97.89
PRK08451	535	DNA polymerase III subunits gamma and tau; Validat	97.89
PRK15386	426	type III secretion protein GogB; Provisional	97.88
PRK14971	614	DNA polymerase III subunits gamma and tau; Provisi	97.88
PF14516	331	AAA_35: AAA-like domain	97.86
PRK11331	459	5-methylcytosine-specific restriction enzyme subun	97.86
PRK07133	725	DNA polymerase III subunits gamma and tau; Validat	97.86
PRK06305	451	DNA polymerase III subunits gamma and tau; Validat	97.86
PRK14953	486	DNA polymerase III subunits gamma and tau; Provisi	97.83
KOG0531	414	consensus Protein phosphatase 1, regulatory subuni	97.82
KOG2543	438	consensus Origin recognition complex, subunit 5 [R	97.8
PRK14948	620	DNA polymerase III subunits gamma and tau; Provisi	97.79
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	97.79
PF12799	44	LRR_4: Leucine Rich repeats (2 copies); PDB: 2OMT_	97.78
KOG0989	346	consensus Replication factor C, subunit RFC4 [Repl	97.78
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	97.76
PRK14088	440	dnaA chromosomal replication initiation protein; P	97.73
KOG1859	1096	consensus Leucine-rich repeat proteins [General fu	97.73
PF12799	44	LRR_4: Leucine Rich repeats (2 copies); PDB: 2OMT_	97.72
PRK06620	214	hypothetical protein; Validated	97.7
TIGR00362	405	DnaA chromosomal replication initiator protein Dna	97.7
PRK15386	426	type III secretion protein GogB; Provisional	97.69
KOG3665	699	consensus ZYG-1-like serine/threonine protein kina	97.68
PRK12422	445	chromosomal replication initiation protein; Provis	97.66
PTZ00361	438	26 proteosome regulatory subunit 4-like protein; P	97.66
PRK06647	563	DNA polymerase III subunits gamma and tau; Validat	97.65
PRK00149	450	dnaA chromosomal replication initiation protein; R	97.64
KOG1947	482	consensus Leucine rich repeat proteins, some prote	97.64
COG1373	398	Predicted ATPase (AAA+ superfamily) [General funct	97.63
KOG3665	699	consensus ZYG-1-like serine/threonine protein kina	97.63
PTZ00454	398	26S protease regulatory subunit 6B-like protein; P	97.63
KOG4579	177	consensus Leucine-rich repeat (LRR) protein associ	97.62
PRK14965	576	DNA polymerase III subunits gamma and tau; Provisi	97.6
PRK05563	559	DNA polymerase III subunits gamma and tau; Validat	97.56
PF05673	249	DUF815: Protein of unknown function (DUF815); Inte	97.54
PRK10865	857	protein disaggregation chaperone; Provisional	97.52
PRK05707	328	DNA polymerase III subunit delta'; Validated	97.51
CHL00095	821	clpC Clp protease ATP binding subunit	97.49
PRK14086	617	dnaA chromosomal replication initiation protein; P	97.47
COG3267	269	ExeA Type II secretory pathway, component ExeA (pr	97.47
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	97.45
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	97.44
smart00382	148	AAA ATPases associated with a variety of cellular	97.43
TIGR03689	512	pup_AAA proteasome ATPase. In the Actinobacteria,	97.43
TIGR00763	775	lon ATP-dependent protease La. This protein is ind	97.42
PRK07399	314	DNA polymerase III subunit delta'; Validated	97.41
TIGR01241	495	FtsH_fam ATP-dependent metalloprotease FtsH. HflB(	97.41
KOG1947	482	consensus Leucine rich repeat proteins, some prote	97.36
PRK08116	268	hypothetical protein; Validated	97.35
KOG1644	233	consensus U2-associated snRNP A' protein [RNA proc	97.34
PRK10536	262	hypothetical protein; Provisional	97.33
PRK08118	167	topology modulation protein; Reviewed	97.33
COG0593	408	DnaA ATPase involved in DNA replication initiation	97.32
PF10443	431	RNA12: RNA12 protein; InterPro: IPR018850 Mitochon	97.29
TIGR00602	637	rad24 checkpoint protein rad24. This family is bas	97.29
CHL00176	638	ftsH cell division protein; Validated	97.27
PRK08769	319	DNA polymerase III subunit delta'; Validated	97.18
PRK08058	329	DNA polymerase III subunit delta'; Validated	97.17
PRK06090	319	DNA polymerase III subunit delta'; Validated	97.15
PF00004	132	AAA: ATPase family associated with various cellula	97.12
COG1222	406	RPT1 ATP-dependent 26S proteasome regulatory subun	97.11
COG0466	782	Lon ATP-dependent Lon protease, bacterial type [Po	97.1
COG5238	388	RNA1 Ran GTPase-activating protein (RanGAP) involv	97.1
PRK06871	325	DNA polymerase III subunit delta'; Validated	97.09
KOG0741	744	consensus AAA+-type ATPase [Posttranslational modi	97.09
PRK12608	380	transcription termination factor Rho; Provisional	97.09
KOG1644	233	consensus U2-associated snRNP A' protein [RNA proc	97.08
KOG4579	177	consensus Leucine-rich repeat (LRR) protein associ	97.07
PF13177	162	DNA_pol3_delta2: DNA polymerase III, delta subunit	97.07
PF04665	241	Pox_A32: Poxvirus A32 protein; InterPro: IPR006758	97.05
KOG0733	802	consensus Nuclear AAA ATPase (VCP subfamily) [Post	97.03
PRK06835	329	DNA replication protein DnaC; Validated	97.01
PF00448	196	SRP54: SRP54-type protein, GTPase domain; InterPro	97.0
PRK07261	171	topology modulation protein; Provisional	96.96
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	96.95
PRK10865	857	protein disaggregation chaperone; Provisional	96.92
PRK10787	784	DNA-binding ATP-dependent protease La; Provisional	96.91
PRK08181	269	transposase; Validated	96.87
PRK12377	248	putative replication protein; Provisional	96.84
KOG2228	408	consensus Origin recognition complex, subunit 4 [R	96.83
PRK00771	437	signal recognition particle protein Srp54; Provisi	96.78
PRK09361	225	radB DNA repair and recombination protein RadB; Pr	96.75
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	96.74
TIGR02640	262	gas_vesic_GvpN gas vesicle protein GvpN. Members o	96.73
KOG0991	333	consensus Replication factor C, subunit RFC2 [Repl	96.72
PRK12727	559	flagellar biosynthesis regulator FlhF; Provisional	96.7
KOG0730	693	consensus AAA+-type ATPase [Posttranslational modi	96.7
PRK07993	334	DNA polymerase III subunit delta'; Validated	96.69
KOG2123	388	consensus Uncharacterized conserved protein [Funct	96.69
KOG1514	767	consensus Origin recognition complex, subunit 1, a	96.68
COG2812	515	DnaX DNA polymerase III, gamma/tau subunits [DNA r	96.67
KOG2739	260	consensus Leucine-rich acidic nuclear protein [Cel	96.67
PRK06964	342	DNA polymerase III subunit delta'; Validated	96.67
PF13207	121	AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6	96.66
PRK06526	254	transposase; Provisional	96.65
PRK04296	190	thymidine kinase; Provisional	96.62
CHL00195	489	ycf46 Ycf46; Provisional	96.62
PRK08939	306	primosomal protein DnaI; Reviewed	96.61
smart00763	361	AAA_PrkA PrkA AAA domain. This is a family of PrkA	96.6
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	96.6
cd01393	226	recA_like RecA is a bacterial enzyme which has rol	96.56
cd00983	325	recA RecA is a bacterial enzyme which has roles in	96.55
PF02562	205	PhoH: PhoH-like protein; InterPro: IPR003714 PhoH	96.52
PRK09183	259	transposase/IS protein; Provisional	96.51
TIGR02237	209	recomb_radB DNA repair and recombination protein R	96.51
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	96.49
PF07693	325	KAP_NTPase: KAP family P-loop domain; InterPro: IP	96.49
PRK07952	244	DNA replication protein DnaC; Validated	96.45
COG1223	368	Predicted ATPase (AAA+ superfamily) [General funct	96.45
cd01394	218	radB RadB. The archaeal protein radB shares simila	96.42
PF08423	256	Rad51: Rad51; InterPro: IPR013632 This domain is f	96.41
cd01133	274	F1-ATPase_beta F1 ATP synthase beta subunit, nucle	96.41
cd01123	235	Rad51_DMC1_radA Rad51_DMC1_radA,B. This group of r	96.41
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	96.39
PRK04132	846	replication factor C small subunit; Provisional	96.33
TIGR01425	429	SRP54_euk signal recognition particle protein SRP5	96.31
PRK05541	176	adenylylsulfate kinase; Provisional	96.3
COG5238	388	RNA1 Ran GTPase-activating protein (RanGAP) involv	96.3
KOG0735	952	consensus AAA+-type ATPase [Posttranslational modi	96.27
PRK06696	223	uridine kinase; Validated	96.25
PF07728	139	AAA_5: AAA domain (dynein-related subfamily); Inte	96.25
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	96.24
COG2884	223	FtsE Predicted ATPase involved in cell division [C	96.22
KOG0736	953	consensus Peroxisome assembly factor 2 containing	96.22
TIGR02012	321	tigrfam_recA protein RecA. This model describes or	96.21
COG0470	325	HolB ATPase involved in DNA replication [DNA repli	96.2
KOG0731	774	consensus AAA+-type ATPase containing the peptidas	96.18
CHL00095	821	clpC Clp protease ATP binding subunit	96.18
TIGR00959	428	ffh signal recognition particle protein. This mode	96.18
PRK15455	644	PrkA family serine protein kinase; Provisional	96.18
KOG1969	877	consensus DNA replication checkpoint protein CHL12	96.17
PRK14722	374	flhF flagellar biosynthesis regulator FlhF; Provis	96.16
PRK06921	266	hypothetical protein; Provisional	96.14
TIGR03877	237	thermo_KaiC_1 KaiC domain protein, Ph0284 family.	96.14
PRK10867	433	signal recognition particle protein; Provisional	96.13
COG1484	254	DnaC DNA replication protein [DNA replication, rec	96.12
PRK10463	290	hydrogenase nickel incorporation protein HypB; Pro	96.12
PF01695	178	IstB_IS21: IstB-like ATP binding protein; InterPro	96.12
TIGR03499	282	FlhF flagellar biosynthetic protein FlhF.	96.11
COG0572	218	Udk Uridine kinase [Nucleotide transport and metab	96.1
COG0541	451	Ffh Signal recognition particle GTPase [Intracellu	96.09
KOG0734	752	consensus AAA+-type ATPase containing the peptidas	96.07
TIGR02238	313	recomb_DMC1 meiotic recombinase Dmc1. This model d	96.05
COG1618	179	Predicted nucleotide kinase [Nucleotide transport	96.05
COG2607	287	Predicted ATPase (AAA+ superfamily) [General funct	96.04
cd03115	173	SRP The signal recognition particle (SRP) mediates	96.01
KOG0743	457	consensus AAA+-type ATPase [Posttranslational modi	96.01
PRK08699	325	DNA polymerase III subunit delta'; Validated	96.01
cd01120	165	RecA-like_NTPases RecA-like NTPases. This family i	96.0
PRK09354	349	recA recombinase A; Provisional	95.97
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	95.97
cd01121	372	Sms Sms (bacterial radA) DNA repair protein. This	95.95
PRK11889	436	flhF flagellar biosynthesis regulator FlhF; Provis	95.95
COG1102	179	Cmk Cytidylate kinase [Nucleotide transport and me	95.94
KOG2035	351	consensus Replication factor C, subunit RFC3 [Cell	95.94
cd00561	159	CobA_CobO_BtuR ATP:corrinoid adenosyltransferase B	95.92
COG1875	436	NYN ribonuclease and ATPase of PhoH family domains	95.91
PRK14723	767	flhF flagellar biosynthesis regulator FlhF; Provis	95.91
KOG2739	260	consensus Leucine-rich acidic nuclear protein [Cel	95.91
PRK06547	172	hypothetical protein; Provisional	95.91
PRK06067	234	flagellar accessory protein FlaH; Validated	95.89
KOG2004	906	consensus Mitochondrial ATP-dependent protease PIM	95.83
PLN00020	413	ribulose bisphosphate carboxylase/oxygenase activa	95.8
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	95.8
PRK10733	644	hflB ATP-dependent metalloprotease; Reviewed	95.79
PF00154	322	RecA: recA bacterial DNA recombination protein; In	95.78
PRK04301	317	radA DNA repair and recombination protein RadA; Va	95.77
PHA00729	226	NTP-binding motif containing protein	95.76
TIGR02239	316	recomb_RAD51 DNA repair protein RAD51. This eukary	95.75
KOG2123	388	consensus Uncharacterized conserved protein [Funct	95.73
KOG0744	423	consensus AAA+-type ATPase [Posttranslational modi	95.72
KOG0733	802	consensus Nuclear AAA ATPase (VCP subfamily) [Post	95.66
cd01131	198	PilT Pilus retraction ATPase PilT. PilT is a nucle	95.65
PRK04328	249	hypothetical protein; Provisional	95.64
COG1066	456	Sms Predicted ATP-dependent serine protease [Postt	95.6
PF13238	129	AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB	95.58
PRK14974	336	cell division protein FtsY; Provisional	95.56
TIGR00064	272	ftsY signal recognition particle-docking protein F	95.56
PF00485	194	PRK: Phosphoribulokinase / Uridine kinase family;	95.56
TIGR03881	229	KaiC_arch_4 KaiC domain protein, PAE1156 family. M	95.53
KOG0652	424	consensus 26S proteasome regulatory complex, ATPas	95.53
PRK13531	498	regulatory ATPase RavA; Provisional	95.5
PF00560	22	LRR_1: Leucine Rich Repeat; InterPro: IPR001611 Le	95.49
cd03247	178	ABCC_cytochrome_bd The CYD subfamily implicated in	95.49
PLN03186	342	DNA repair protein RAD51 homolog; Provisional	95.47
PLN03187	344	meiotic recombination protein DMC1 homolog; Provis	95.46
PRK12723	388	flagellar biosynthesis regulator FlhF; Provisional	95.46
PRK07667	193	uridine kinase; Provisional	95.45
PF13306	129	LRR_5: Leucine rich repeats (6 copies); PDB: 3ZYJ_	95.45
PF00006	215	ATP-synt_ab: ATP synthase alpha/beta family, nucle	95.43
PRK08972	444	fliI flagellum-specific ATP synthase; Validated	95.43
PF10236	309	DAP3: Mitochondrial ribosomal death-associated pro	95.4
TIGR02236	310	recomb_radA DNA repair and recombination protein R	95.37
PRK12726	407	flagellar biosynthesis regulator FlhF; Provisional	95.33
cd02019	69	NK Nucleoside/nucleotide kinase (NK) is a protein	95.32
PTZ00301	210	uridine kinase; Provisional	95.32
PRK12724	432	flagellar biosynthesis regulator FlhF; Provisional	95.32
cd03238	176	ABC_UvrA The excision repair protein UvrA; Nucleot	95.24
cd03223	166	ABCD_peroxisomal_ALDP Peroxisomal ATP-binding cass	95.24
KOG3864	221	consensus Uncharacterized conserved protein [Funct	95.22
KOG0728	404	consensus 26S proteasome regulatory complex, ATPas	95.21
COG4608	268	AppF ABC-type oligopeptide transport system, ATPas	95.18
TIGR00554	290	panK_bact pantothenate kinase, bacterial type. Sho	95.16
PRK08233	182	hypothetical protein; Provisional	95.16
PRK09270	229	nucleoside triphosphate hydrolase domain-containin	95.14
cd01135	276	V_A-ATPase_B V/A-type ATP synthase (non-catalytic)	95.13
COG0563	178	Adk Adenylate kinase and related kinases [Nucleoti	95.12
COG4088	261	Predicted nucleotide kinase [Nucleotide transport	95.11
PF13481	193	AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C.	95.11
PRK11823	446	DNA repair protein RadA; Provisional	95.11
COG0464	494	SpoVK ATPases of the AAA+ class [Posttranslational	95.07
TIGR02858	270	spore_III_AA stage III sporulation protein AA. Mem	95.07
KOG2170	344	consensus ATPase of the AAA+ superfamily [General	95.07
PRK05480	209	uridine/cytidine kinase; Provisional	95.05
PF13671	143	AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1	95.05
COG0468	279	RecA RecA/RadA recombinase [DNA replication, recom	95.04
PRK07132	299	DNA polymerase III subunit delta'; Validated	95.02
PTZ00035	337	Rad51 protein; Provisional	95.02
PF06745	226	KaiC: KaiC; InterPro: IPR014774 This entry represe	95.01
PRK06762	166	hypothetical protein; Provisional	94.96
TIGR01650	327	PD_CobS cobaltochelatase, CobS subunit. This model	94.96
PF01583	156	APS_kinase: Adenylylsulphate kinase; InterPro: IPR	94.95
KOG0729	435	consensus 26S proteasome regulatory complex, ATPas	94.94
PF00910	107	RNA_helicase: RNA helicase; InterPro: IPR000605 He	94.93
COG1428	216	Deoxynucleoside kinases [Nucleotide transport and	94.92
COG1419	407	FlhF Flagellar GTP-binding protein [Cell motility	94.9
) proteins. It has been suggested that torsins play a role in effectively managing protein folding and that possible breakdown in a neuroprotective mechanism that is, in part, mediated by torsins may be responsible for the neuronal dysfunction associated with dystonia [].; GO: 0005524 ATP binding, 0051085 chaperone mediated protein folding requiring cofactor" target="_blank" href="http://www.ncbi.nlm.nih.gov/Structure/cdd/cddsrv.cgi?uid=PF06309">PF06309	127	Torsin: Torsin; InterPro: IPR010448 This family co	94.89
PRK03839	180	putative kinase; Provisional	94.88
cd03228	171	ABCC_MRP_Like The MRP (Mutidrug Resistance Protein	94.86
PRK05703	424	flhF flagellar biosynthesis regulator FlhF; Valida	94.85
TIGR01360	188	aden_kin_iso1 adenylate kinase, isozyme 1 subfamil	94.84
TIGR00708	173	cobA cob(I)alamin adenosyltransferase. Alternate n	94.83
cd02025	220	PanK Pantothenate kinase (PanK) catalyzes the phos	94.83
PRK12597	461	F0F1 ATP synthase subunit beta; Provisional	94.82
TIGR00235	207	udk uridine kinase. Model contains a number of lon	94.81
TIGR00416	454	sms DNA repair protein RadA. The gene protuct code	94.8
cd03214	180	ABC_Iron-Siderophores_B12_Hemin ABC transporters,	94.8
PRK12678	672	transcription termination factor Rho; Provisional	94.8
cd03216	163	ABC_Carb_Monos_I This family represents the domain	94.8
PRK14721	420	flhF flagellar biosynthesis regulator FlhF; Provis	94.79
cd01124	187	KaiC KaiC is a circadian clock protein primarily f	94.78
COG1121	254	ZnuC ABC-type Mn/Zn transport systems, ATPase comp	94.74
TIGR00390	441	hslU ATP-dependent protease HslVU, ATPase subunit.	94.73
PF12775	272	AAA_7: P-loop containing dynein motor region D3; P	94.73
TIGR00150	133	HI0065_YjeE ATPase, YjeE family. Members of this f	94.73
TIGR03575	340	selen_PSTK_euk L-seryl-tRNA(Sec) kinase, eukaryoti	94.72
KOG3347	176	consensus Predicted nucleotide kinase/nuclear prot	94.72
KOG1532	366	consensus GTPase XAB1, interacts with DNA repair p	94.71
PRK13765	637	ATP-dependent protease Lon; Provisional	94.69
PRK06995	484	flhF flagellar biosynthesis regulator FlhF; Valida	94.68
PRK00625	173	shikimate kinase; Provisional	94.66
cd03246	173	ABCC_Protease_Secretion This family represents the	94.64
cd02027	149	APSK Adenosine 5'-phosphosulfate kinase (APSK) cat	94.64
PRK08533	230	flagellar accessory protein FlaH; Reviewed	94.62
PRK04040	188	adenylate kinase; Provisional	94.62
PRK08927	442	fliI flagellum-specific ATP synthase; Validated	94.56
PTZ00088	229	adenylate kinase 1; Provisional	94.55
PF07726	131	AAA_3: ATPase family associated with various cellu	94.53
PRK10416	318	signal recognition particle-docking protein FtsY;	94.52
PF03205	140	MobB: Molybdopterin guanine dinucleotide synthesis	94.52
PRK05922	434	type III secretion system ATPase; Validated	94.49
PRK06936	439	type III secretion system ATPase; Provisional	94.41
TIGR02030	337	BchI-ChlI magnesium chelatase ATPase subunit I. Th	94.41
PF00625	183	Guanylate_kin: Guanylate kinase; InterPro: IPR0081	94.41
PF03308	266	ArgK: ArgK protein; InterPro: IPR005129 Bacterial	94.39
TIGR00764	608	lon_rel lon-related putative ATP-dependent proteas	94.36
PRK08149	428	ATP synthase SpaL; Validated	94.35
TIGR03878	259	thermo_KaiC_2 KaiC domain protein, AF_0795 family.	94.3
PRK05973	237	replicative DNA helicase; Provisional	94.3
TIGR01359	183	UMP_CMP_kin_fam UMP-CMP kinase family. This subfam	94.3
KOG1051	898	consensus Chaperone HSP104 and related ATP-depende	94.29
PRK00131	175	aroK shikimate kinase; Reviewed	94.22
COG1936	180	Predicted nucleotide kinase (related to CMP and AM	94.22
cd03221	144	ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is	94.2
TIGR02902	531	spore_lonB ATP-dependent protease LonB. Members of	94.2
PRK05201	443	hslU ATP-dependent protease ATP-binding subunit Hs	94.2
TIGR03305	449	alt_F1F0_F1_bet alternate F1F0 ATPase, F1 subunit	94.17
PRK05342	412	clpX ATP-dependent protease ATP-binding subunit Cl	94.17
COG0467	260	RAD55 RecA-superfamily ATPases implicated in signa	94.16
COG1126	240	GlnQ ABC-type polar amino acid transport system, A	94.16
cd02024	187	NRK1 Nicotinamide riboside kinase (NRK) is an enzy	94.15
PRK06002	450	fliI flagellum-specific ATP synthase; Validated	94.14
KOG0739	439	consensus AAA+-type ATPase [Posttranslational modi	94.12
COG3640	255	CooC CO dehydrogenase maturation factor [Cell divi	94.12
TIGR02655	484	circ_KaiC circadian clock protein KaiC. Members of	94.11
PF08433	270	KTI12: Chromatin associated protein KTI12 ; InterP	94.09
cd02023	198	UMPK Uridine monophosphate kinase (UMPK, EC 2.7.1.	94.05
TIGR03498	418	FliI_clade3 flagellar protein export ATPase FliI.	94.05
PRK09280	463	F0F1 ATP synthase subunit beta; Validated	94.05
PRK06851	367	hypothetical protein; Provisional	94.04
cd01125	239	repA Hexameric Replicative Helicase RepA. RepA is	94.02
cd01129	264	PulE-GspE PulE/GspE The type II secretory pathway	94.01
COG0465	596	HflB ATP-dependent Zn proteases [Posttranslational	94.0
PRK15453	290	phosphoribulokinase; Provisional	93.98
PRK06217	183	hypothetical protein; Validated	93.97
PRK05688	451	fliI flagellum-specific ATP synthase; Validated	93.96
PF05970	364	PIF1: PIF1-like helicase; InterPro: IPR010285 This	93.95
CHL00081	350	chlI Mg-protoporyphyrin IX chelatase	93.95
COG1703	323	ArgK Putative periplasmic protein kinase ArgK and	93.95
PRK05439	311	pantothenate kinase; Provisional	93.94
PF13245	76	AAA_19: Part of AAA domain	93.93
PF00158	168	Sigma54_activat: Sigma-54 interaction domain; Inte	93.92
PTZ00494	664	tuzin-like protein; Provisional	93.91
PRK00279	215	adk adenylate kinase; Reviewed	93.89
cd02020	147	CMPK Cytidine monophosphate kinase (CMPK) catalyze	93.89
cd02021	150	GntK Gluconate kinase (GntK) catalyzes the phospho	93.88
KOG0735	952	consensus AAA+-type ATPase [Posttranslational modi	93.88
PTZ00185	574	ATPase alpha subunit; Provisional	93.87
PRK13407	334	bchI magnesium chelatase subunit I; Provisional	93.87
PRK13947	171	shikimate kinase; Provisional	93.87
cd03369	207	ABCC_NFT1 Domain 2 of NFT1 (New full-length MRP-ty	93.86
PRK00889	175	adenylylsulfate kinase; Provisional	93.85
PRK05986	191	cob(I)alamin adenolsyltransferase/cobinamide ATP-d	93.85
PRK13949	169	shikimate kinase; Provisional	93.83
TIGR02322	179	phosphon_PhnN phosphonate metabolism protein/1,5-b	93.82
cd02028	179	UMPK_like Uridine monophosphate kinase_like (UMPK_	93.82
TIGR01040	466	V-ATPase_V1_B V-type (H+)-ATPase V1, B subunit. Th	93.81
COG0396	251	sufC Cysteine desulfurase activator ATPase [Posttr	93.8
cd00071	137	GMPK Guanosine monophosphate kinase (GMPK, EC 2.7.	93.79
cd00227	175	CPT Chloramphenicol (Cm) phosphotransferase (CPT).	93.76
PRK09519	790	recA DNA recombination protein RecA; Reviewed	93.74
PRK15429	686	formate hydrogenlyase transcriptional activator Fh	93.73
PF03193	161	DUF258: Protein of unknown function, DUF258; Inter	93.67
TIGR01039	461	atpD ATP synthase, F1 beta subunit. The sequences	93.66
cd00267	157	ABC_ATPase ABC (ATP-binding cassette) transporter	93.65
PF08298	358	AAA_PrkA: PrkA AAA domain; InterPro: IPR013153 Thi	93.64
TIGR01041	458	ATP_syn_B_arch ATP synthase archaeal, B subunit. A	93.63
PRK14530	215	adenylate kinase; Provisional	93.62
TIGR00073	207	hypB hydrogenase accessory protein HypB. HypB is i	93.6
cd01136	326	ATPase_flagellum-secretory_path_III Flagellum-spec	93.59
COG0003	322	ArsA Predicted ATPase involved in chromosome parti	93.57
PF13086	236	AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV	93.57
cd03281	213	ABC_MSH5_euk MutS5 homolog in eukaryotes. The MutS	93.55
TIGR03263	180	guanyl_kin guanylate kinase. Members of this famil	93.54
cd00544	169	CobU Adenosylcobinamide kinase / adenosylcobinamid	93.52
PRK10751	173	molybdopterin-guanine dinucleotide biosynthesis pr	93.49
PRK12339	197	2-phosphoglycerate kinase; Provisional	93.46
COG3598	402	RepA RecA-family ATPase [DNA replication, recombin	93.43
KOG0737	386	consensus AAA+-type ATPase [Posttranslational modi	93.39
cd00464	154	SK Shikimate kinase (SK) is the fifth enzyme in th	93.39
PF08477	119	Miro: Miro-like protein; InterPro: IPR013684 Mitoc	93.37
KOG3864	221	consensus Uncharacterized conserved protein [Funct	93.34
cd01132	274	F1_ATPase_alpha F1 ATP synthase alpha, central dom	93.34
cd01122	271	GP4d_helicase GP4d_helicase is a homohexameric 5'-	93.33
PF13504	17	LRR_7: Leucine rich repeat; PDB: 3OJA_B 3G06_A 1OO	93.31
PRK05057	172	aroK shikimate kinase I; Reviewed	93.3
PRK13975	196	thymidylate kinase; Provisional	93.29
PF03215	519	Rad17: Rad17 cell cycle checkpoint protein	93.27
PF03266	168	NTPase_1: NTPase; InterPro: IPR004948 This entry r	93.24
cd01878	204	HflX HflX subfamily. A distinct conserved domain w	93.2
PF13306	129	LRR_5: Leucine rich repeats (6 copies); PDB: 3ZYJ_	93.19
cd02029	277	PRK_like Phosphoribulokinase-like (PRK-like) is a	93.19
PRK00300	205	gmk guanylate kinase; Provisional	93.18
TIGR01069	771	mutS2 MutS2 family protein. Function of MutS2 is u	93.17
PF10923	416	DUF2791: P-loop Domain of unknown function (DUF279	93.17
COG2019	189	AdkA Archaeal adenylate kinase [Nucleotide transpo	93.15
PRK05917	290	DNA polymerase III subunit delta'; Validated	93.15
COG0488	530	Uup ATPase components of ABC transporters with dup	93.15
PRK13948	182	shikimate kinase; Provisional	93.1
PRK14527	191	adenylate kinase; Provisional	93.1
COG1124	252	DppF ABC-type dipeptide/oligopeptide/nickel transp	93.09
PF02374	305	ArsA_ATPase: Anion-transporting ATPase; PDB: 2WOO_	93.06
PRK05800	170	cobU adenosylcobinamide kinase/adenosylcobinamide-	93.05
TIGR01313	163	therm_gnt_kin carbohydrate kinase, thermoresistant	93.04
TIGR00176	155	mobB molybdopterin-guanine dinucleotide biosynthes	93.04
PRK03846	198	adenylylsulfate kinase; Provisional	92.96
COG0529	197	CysC Adenylylsulfate kinase and related kinases [I	92.94
PRK13946	184	shikimate kinase; Provisional	92.93
cd01134	369	V_A-ATPase_A V/A-type ATP synthase catalytic subun	92.92
PRK07594	433	type III secretion system ATPase SsaN; Validated	92.92
PF13521	163	AAA_28: AAA domain; PDB: 1LW7_A.	92.89
PRK10078	186	ribose 1,5-bisphosphokinase; Provisional	92.89

>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]

Probab=100.00  E-value=3.4e-101  Score=896.82  Aligned_cols=833  Identities=42%  Similarity=0.678  Sum_probs=699.1

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhchhhHHHHHHHHHHHHHHHHHHHHhhhhhhc----------------C
Q 048126            8 NLPALQAQLQKLIESENDVMARVANAENQQMRQLNTVQGWLSRVEAVETEVGELMRDSSQEVD----------------K   71 (863)
Q Consensus         8 ~~~~l~~~l~~l~~~l~~i~~~~~~ae~~~~~~~~~v~~wl~~l~~~~y~~ed~~d~~~~~~~----------------~   71 (863)
                      .+...++.+..|+..+..++.++++|+.++.. ...+..|.+.+++++|+++|+++.+..+..                +
T Consensus        22 ~~~~~~~~i~~Lk~~L~~l~~~l~d~~a~~~~-~~~~~~~~e~~~~~~~~~e~~~~~~~v~~~~~~~~~~l~~~~~~~~~  100 (889)
T KOG4658|consen   22 CLDGKDNYILELKENLKALQSALEDLDAKRDD-LERRVNWEEDVGDLVYLAEDIIWLFLVEEIERKANDLLSTRSVERQR  100 (889)
T ss_pred             HHhchHHHHHHHHHHHHHHHHHHHHHHhhcch-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHhhhhHHHHHH
Confidence            34445567777888888888888888887654 367889999999999999999998875432                1


Q ss_pred             ccCCCccCCCchhhhhhHHHHHHHHHHHHHHHhcCCcccccc-cCCCCccccCCCCCc--cchhHHHHHHHHHhcCCCcc
Q 048126           72 LCPGGCCSKNCKSSFKFGKRVAKTLQLVNNLMGEGAFDAVAE-KVRPPAVDQRPCEPT--VGLESMFDKVWRCLGEEQVG  148 (863)
Q Consensus        72 ~~~~~~~~~~~~~~~~~~~~i~~~~~~i~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~--vGr~~~~~~l~~~L~~~~~~  148 (863)
                      .|..++|.......|.+++++.+..++++.+..++.|..++. ..+......+|....  ||.+..++++++.|.+++..
T Consensus       101 ~c~~~~~~~~~~~~~~~~~rv~~~l~~ve~l~~~~~~~~~~~~~~~~~~~e~~~~~~~~~VG~e~~~~kl~~~L~~d~~~  180 (889)
T KOG4658|consen  101 LCLCGFCSKNVSDSYKYGKRVSKVLREVESLGSKGVFEVVGESLDPREKVETRPIQSESDVGLETMLEKLWNRLMEDDVG  180 (889)
T ss_pred             HhhhhhHhHhhhhhHhHHHHHHHHHHHHHHhccccceecccccccchhhcccCCCCccccccHHHHHHHHHHHhccCCCC
Confidence            234456666777888899999999999999988777766654 223233333343333  99999999999999988889


Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHHHHhCCCCccccCCChhHHHHHHHHHhcc
Q 048126          149 IIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGRRIGFLDESWKNGSLEDKASDILRILSK  228 (863)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~  228 (863)
                      +++|+||||+||||||++++|+...++++||.++||+||++++...++++|++.++.....+.....++.+..|.+.|++
T Consensus       181 iv~i~GMGGvGKTTL~~qi~N~~~~v~~~Fd~~iWV~VSk~f~~~~iq~~Il~~l~~~~~~~~~~~~~~~~~~i~~~L~~  260 (889)
T KOG4658|consen  181 IVGIYGMGGVGKTTLARQIFNKFDEVGNHFDGVIWVVVSKEFTTRKIQQTILERLGLLDEEWEDKEEDELASKLLNLLEG  260 (889)
T ss_pred             EEEEECCCcccHHHHHHHHhcccchhcccCceEEEEEEcccccHHhHHHHHHHHhccCCcccchhhHHHHHHHHHHHhcc
Confidence            99999999999999999999999438999999999999999999999999999999876665666668899999999999


Q ss_pred             CcEEEEEeccCCccccccccCCCCCCCCCcEEEEecCchhhhhc-ccccceEeecCCChHHHHHHHHHHhcccccCCCCC
Q 048126          229 KKFLLLLDDIWERVDLTKVGVPFPDPENKSKIVFTTRFLEICGA-MKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPD  307 (863)
Q Consensus       229 kr~LlVlDdv~~~~~~~~~~~~l~~~~~gs~IivTtR~~~v~~~-~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~  307 (863)
                      |||+|||||||+..+|+.++.++|...+||||++|||++.||.. |++...++++.|+.+|||+||++.++......++.
T Consensus       261 krfllvLDDIW~~~dw~~I~~~~p~~~~g~KvvlTTRs~~V~~~~m~~~~~~~v~~L~~~eaW~LF~~~v~~~~~~~~~~  340 (889)
T KOG4658|consen  261 KRFLLVLDDIWEEVDWDKIGVPFPSRENGSKVVLTTRSEEVCGRAMGVDYPIEVECLTPEEAWDLFQKKVGPNTLGSHPD  340 (889)
T ss_pred             CceEEEEecccccccHHhcCCCCCCccCCeEEEEEeccHhhhhccccCCccccccccCccccHHHHHHhhcccccccccc
Confidence            99999999999999999999999999999999999999999998 88888999999999999999999999886667777


Q ss_pred             hHHHHHHHHHHhCCchhHHHHHHHHhcCCCChhHHHHHHHHHHhc-CCCCCCCcchhhhhhhhhcCCCCchhhHHHHhHh
Q 048126          308 IPELARSVAKEYAGLPLALITIGRAMTCKKTTQEWHHAIQILRRS-SSEFPGMGKEVYPLLKFSYDSLPDDTIRSCFLYC  386 (863)
Q Consensus       308 ~~~~~~~i~~~c~glPlai~~~~~~l~~~~~~~~w~~~l~~l~~~-~~~~~~~~~~~~~~l~~sy~~L~~~~~k~cfl~~  386 (863)
                      ++++|++++++|+|+|||++++|+.|+.+.+..+|+++++.+.+. ..+.+++.+.+++++++||++||+ ++|.||+||
T Consensus       341 i~~lak~v~~kC~GLPLAl~viG~~ma~K~t~~eW~~~~~~l~s~~~~~~~~~~~~i~~iLklSyd~L~~-~lK~CFLyc  419 (889)
T KOG4658|consen  341 IEELAKEVAEKCGGLPLALNVLGGLLACKKTVQEWRRALNVLKSSLAADFSGMEESILPILKLSYDNLPE-ELKSCFLYC  419 (889)
T ss_pred             HHHHHHHHHHHhCChHHHHHHHHHHhcCCCcHHHHHHHHccccccccCCCCchhhhhHHhhhccHhhhhH-HHHHHHHhh
Confidence            999999999999999999999999999999999999999999888 666677778999999999999995 999999999


Q ss_pred             ccCCCCccccHHhHHHHHHhcCCCCCcc-cchhhhhHHHHHHHHHHhccccccccccccccccceEEeehhHHHHHHHHH
Q 048126          387 GLFPEDYRIRKSELIDCWIGEGFLDQYD-RSGAYNEGYYIIGILLHACLLEEEEGDIAEEKSGEHVVKMHDVIRDMVLWI  465 (863)
Q Consensus       387 ~~fp~~~~i~~~~li~~w~a~g~i~~~~-~~~~~~~~~~~~~~L~~~sll~~~~~~~~~~~~~~~~~~mHdli~d~a~~~  465 (863)
                      |+||+||.|+++.|+.+||||||+++.+ ...+++.|+.|+.+|++++|++....    . ++..+|+|||+|||+|.++
T Consensus       420 alFPED~~I~~e~Li~yWiaEGfi~~~~~~~~~~d~G~~~i~~LV~~~Ll~~~~~----~-~~~~~~kmHDvvRe~al~i  494 (889)
T KOG4658|consen  420 ALFPEDYEIKKEKLIEYWIAEGFIDPLDGGETAEDVGYDYIEELVRASLLIEERD----E-GRKETVKMHDVVREMALWI  494 (889)
T ss_pred             ccCCcccccchHHHHHHHHhccCcCccccccchhcchHHHHHHHHHHHHHhhccc----c-cceeEEEeeHHHHHHHHHH
Confidence            9999999999999999999999999865 77889999999999999999998762    1 3468999999999999999


Q ss_pred             HhhhccccccEEEEcCCCcccCcccccccceEEEEeccccccccccCCCCCccceEEccCCc--cccccchhhhcCCCcc
Q 048126          466 ACKIEKEKENFLVHAGLGLTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNS--LKMIAGDFFQFMPSLR  543 (863)
Q Consensus       466 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lr~L~l~~~~~~~l~~~~~~~~L~~L~l~~~~--l~~~~~~~~~~l~~L~  543 (863)
                      |++.+++++++++..+.+....+....+...|++++++|.+..++....++.|++|.+.+|.  +..++..||..|+.|+
T Consensus       495 as~~~~~~e~~iv~~~~~~~~~~~~~~~~~~rr~s~~~~~~~~~~~~~~~~~L~tLll~~n~~~l~~is~~ff~~m~~Lr  574 (889)
T KOG4658|consen  495 ASDFGKQEENQIVSDGVGLSEIPQVKSWNSVRRMSLMNNKIEHIAGSSENPKLRTLLLQRNSDWLLEISGEFFRSLPLLR  574 (889)
T ss_pred             hccccccccceEEECCcCccccccccchhheeEEEEeccchhhccCCCCCCccceEEEeecchhhhhcCHHHHhhCcceE
Confidence            99888888888888777777788888899999999999999998888999999999999995  7888999999999999


Q ss_pred             EEEccCCCccccCCccccccCCCCeEEccCCCccccchhhhcCCCCCEEecCCccccCCCcHHHhhcCCCCcEEEeeccc
Q 048126          544 VFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAITHLPIELQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRILKSN  623 (863)
Q Consensus       544 ~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~~~l~~lp~~~~~l~~L~~L~l~~~~~l~~lp~~~~~~L~~L~~L~l~~~~  623 (863)
                      +|||++|...+++|++|++|.|||||+++++.++.+|.++++|.+|.+|++..+..+..+|. +...|++|++|.+....
T Consensus       575 VLDLs~~~~l~~LP~~I~~Li~LryL~L~~t~I~~LP~~l~~Lk~L~~Lnl~~~~~l~~~~~-i~~~L~~Lr~L~l~~s~  653 (889)
T KOG4658|consen  575 VLDLSGNSSLSKLPSSIGELVHLRYLDLSDTGISHLPSGLGNLKKLIYLNLEVTGRLESIPG-ILLELQSLRVLRLPRSA  653 (889)
T ss_pred             EEECCCCCccCcCChHHhhhhhhhcccccCCCccccchHHHHHHhhheeccccccccccccc-hhhhcccccEEEeeccc
Confidence            99999998889999999999999999999999999999999999999999999877777755 47779999999998776


Q ss_pred             cccCchhhHHHHHcCCccCceEEEEEcChHHHHHHhhhhhhhhcceeeeeccccCCCcccccchhhcCCCceEEEcCCcc
Q 048126          624 VLFGGHQFLVEELMGMKHLMALTITLKSWEALQELLISQELQRCTQSLFLRCFNDSKSLDIFCLACLHNLNKLYVAGRKH  703 (863)
Q Consensus       624 ~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~~~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~  703 (863)
                      ...+  .....++.+|++|+.+.+...+...+..+.....+.+..+.+.+.++..  .....++..+.+|+.|.|.+|..
T Consensus       654 ~~~~--~~~l~el~~Le~L~~ls~~~~s~~~~e~l~~~~~L~~~~~~l~~~~~~~--~~~~~~~~~l~~L~~L~i~~~~~  729 (889)
T KOG4658|consen  654 LSND--KLLLKELENLEHLENLSITISSVLLLEDLLGMTRLRSLLQSLSIEGCSK--RTLISSLGSLGNLEELSILDCGI  729 (889)
T ss_pred             cccc--hhhHHhhhcccchhhheeecchhHhHhhhhhhHHHHHHhHhhhhccccc--ceeecccccccCcceEEEEcCCC
Confidence            3322  5678889999999999987666544455555555555666666544221  22235677889999999999987


Q ss_pred             cccceecccccccccccc-ccCcccEEEEeccCCCCCCchhhccCCCcEEEEeccccchhhccccccccccCCCCCCCCc
Q 048126          704 LEDFQMTVQRSSVNQLAR-GFHSLHTVKVGFCFKLKDLTWLVFAPSLKSIVVLSCCNMEQIIKAEKLSQLHHHPERKKSV  782 (863)
Q Consensus       704 ~~~l~~~~~~~~~~~~~~-~l~~L~~L~L~~c~~l~~l~~l~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~~  782 (863)
                      .+.. ..+...   .... .|++|.++.+.+|.....+.|....|+|+.|.+..|..+++++.........   ......
T Consensus       730 ~e~~-~~~~~~---~~~~~~f~~l~~~~~~~~~~~r~l~~~~f~~~L~~l~l~~~~~~e~~i~~~k~~~~l---~~~i~~  802 (889)
T KOG4658|consen  730 SEIV-IEWEES---LIVLLCFPNLSKVSILNCHMLRDLTWLLFAPHLTSLSLVSCRLLEDIIPKLKALLEL---KELILP  802 (889)
T ss_pred             chhh-cccccc---cchhhhHHHHHHHHhhccccccccchhhccCcccEEEEecccccccCCCHHHHhhhc---ccEEec
Confidence            6532 223211   1111 3779999999999999999999889999999999999999886643221111   112456


Q ss_pred             CCcccee-ccCCCccccccccCCCCCCCcceEeecCCCCCCCCCCCCCC--CCC-CceEEEccccccccceecCCccccc
Q 048126          783 FAKLQFL-SLENLRNLCCINWEALAFPNLKEIRVEGCPKLFKLPLDSNS--AKG-CKVVIKGEENWWKKATVGGSRHSRC  858 (863)
Q Consensus       783 ~p~L~~L-~l~~~~~L~~i~~~~~~~p~L~~L~i~~C~~L~~lp~~~~~--~~L-~~l~i~~~~~~~~~l~w~~~~~~~~  858 (863)
                      |+++..+ .+.+.+.+..+......++.|+.+.+..||++..+|.....  ... ..+....+.+|.+.++|.++.++..
T Consensus       803 f~~~~~l~~~~~l~~l~~i~~~~l~~~~l~~~~ve~~p~l~~~P~~~~~~i~~~~~~~~~~~~~~~~~~v~~~~~~~~~~  882 (889)
T KOG4658|consen  803 FNKLEGLRMLCSLGGLPQLYWLPLSFLKLEELIVEECPKLGKLPLLSTLTIVGCEEKLKEYPDGEWLEGVYWEDELTKLR  882 (889)
T ss_pred             ccccccceeeecCCCCceeEecccCccchhheehhcCcccccCccccccceeccccceeecCCccceeeEEehhhhhhhh
Confidence            7888888 68888888888888888899999999999999999987654  222 2333335667899999999988765


Q ss_pred             c
Q 048126          859 F  859 (863)
Q Consensus       859 ~  859 (863)
                      +
T Consensus       883 ~  883 (889)
T KOG4658|consen  883 F  883 (889)
T ss_pred             c
Confidence            4

>PLN03210 Resistant to P

Probab=100.00  E-value=4.6e-65  Score=628.77  Aligned_cols=638  Identities=20%  Similarity=0.281  Sum_probs=429.2

Q ss_pred             CCccchhHHHHHHHHHhc--CCCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEe---CCc-----------
Q 048126          126 EPTVGLESMFDKVWRCLG--EEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVV---SKD-----------  189 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~--~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~---s~~-----------  189 (863)
                      +.+|||+..++++..+|.  .+++++|+||||||+||||||+++|++.   ..+|+..+|+..   +..           
T Consensus       184 ~~~vG~~~~l~~l~~lL~l~~~~~~vvgI~G~gGiGKTTLA~~l~~~l---~~~F~g~vfv~~~~v~~~~~~~~~~~~~~  260 (1153)
T PLN03210        184 EDFVGIEDHIAKMSSLLHLESEEVRMVGIWGSSGIGKTTIARALFSRL---SRQFQSSVFIDRAFISKSMEIYSSANPDD  260 (1153)
T ss_pred             ccccchHHHHHHHHHHHccccCceEEEEEEcCCCCchHHHHHHHHHHH---hhcCCeEEEeeccccccchhhcccccccc
Confidence            568999999999999885  3578999999999999999999999987   678998888742   111           


Q ss_pred             cC-HHHHHHHHHHHhCCCCccccCCChhHHHHHHHHHhccCcEEEEEeccCCccccccccCCCCCCCCCcEEEEecCchh
Q 048126          190 LQ-LEKIQEKIGRRIGFLDESWKNGSLEDKASDILRILSKKKFLLLLDDIWERVDLTKVGVPFPDPENKSKIVFTTRFLE  268 (863)
Q Consensus       190 ~~-~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~~~l~~~~~gs~IivTtR~~~  268 (863)
                      ++ ...++++++.++.....    .... ....+++.++++|+||||||||+...|+.+.....+.++||+||||||+..
T Consensus       261 ~~~~~~l~~~~l~~il~~~~----~~~~-~~~~~~~~L~~krvLLVLDdv~~~~~l~~L~~~~~~~~~GsrIIiTTrd~~  335 (1153)
T PLN03210        261 YNMKLHLQRAFLSEILDKKD----IKIY-HLGAMEERLKHRKVLIFIDDLDDQDVLDALAGQTQWFGSGSRIIVITKDKH  335 (1153)
T ss_pred             cchhHHHHHHHHHHHhCCCC----cccC-CHHHHHHHHhCCeEEEEEeCCCCHHHHHHHHhhCccCCCCcEEEEEeCcHH
Confidence            11 12344555544422110    0111 124677889999999999999999899988776666788999999999999


Q ss_pred             hhhcccccceEeecCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCCchhHHHHHHHHhcCCCChhHHHHHHHH
Q 048126          269 ICGAMKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGLPLALITIGRAMTCKKTTQEWHHAIQI  348 (863)
Q Consensus       269 v~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPlai~~~~~~l~~~~~~~~w~~~l~~  348 (863)
                      ++..++..++|+++.|++++||+||++.||... ..+.++.+++++|+++|+|+|||++++|+.|++ ++..+|+.++++
T Consensus       336 vl~~~~~~~~~~v~~l~~~ea~~LF~~~Af~~~-~~~~~~~~l~~~iv~~c~GLPLAl~vlgs~L~~-k~~~~W~~~l~~  413 (1153)
T PLN03210        336 FLRAHGIDHIYEVCLPSNELALEMFCRSAFKKN-SPPDGFMELASEVALRAGNLPLGLNVLGSYLRG-RDKEDWMDMLPR  413 (1153)
T ss_pred             HHHhcCCCeEEEecCCCHHHHHHHHHHHhcCCC-CCcHHHHHHHHHHHHHhCCCcHHHHHHHHHHcC-CCHHHHHHHHHH
Confidence            998887888999999999999999999999765 344568899999999999999999999999997 578999999999


Q ss_pred             HHhcCCCCCCCcchhhhhhhhhcCCCCchhhHHHHhHhccCCCCccccHHhHHHHHHhcCCCCCcccchhhhhHHHHHHH
Q 048126          349 LRRSSSEFPGMGKEVYPLLKFSYDSLPDDTIRSCFLYCGLFPEDYRIRKSELIDCWIGEGFLDQYDRSGAYNEGYYIIGI  428 (863)
Q Consensus       349 l~~~~~~~~~~~~~~~~~l~~sy~~L~~~~~k~cfl~~~~fp~~~~i~~~~li~~w~a~g~i~~~~~~~~~~~~~~~~~~  428 (863)
                      ++...      ...+..+|++||++|+++..|.||+++|+|+.+..++   .+..|++.+....          +..++.
T Consensus       414 L~~~~------~~~I~~~L~~SYd~L~~~~~k~~Fl~ia~ff~~~~~~---~v~~~l~~~~~~~----------~~~l~~  474 (1153)
T PLN03210        414 LRNGL------DGKIEKTLRVSYDGLNNKKDKAIFRHIACLFNGEKVN---DIKLLLANSDLDV----------NIGLKN  474 (1153)
T ss_pred             HHhCc------cHHHHHHHHHhhhccCccchhhhhheehhhcCCCCHH---HHHHHHHhcCCCc----------hhChHH
Confidence            87643      2479999999999998745899999999999887554   4677888765542          123889


Q ss_pred             HHHhccccccccccccccccceEEeehhHHHHHHHHHHhhhccc--cccEEEEcC---------CCccc-----------
Q 048126          429 LLHACLLEEEEGDIAEEKSGEHVVKMHDVIRDMVLWIACKIEKE--KENFLVHAG---------LGLTE-----------  486 (863)
Q Consensus       429 L~~~sll~~~~~~~~~~~~~~~~~~mHdli~d~a~~~~~~~~~~--~~~~~~~~~---------~~~~~-----------  486 (863)
                      |+++||++..          ...+.|||++|+||+++++++...  +..++....         .+...           
T Consensus       475 L~~ksLi~~~----------~~~~~MHdLl~~~~r~i~~~~~~~~~~r~~l~~~~di~~vl~~~~g~~~v~~i~l~~~~~  544 (1153)
T PLN03210        475 LVDKSLIHVR----------EDIVEMHSLLQEMGKEIVRAQSNEPGEREFLVDAKDICDVLEDNTGTKKVLGITLDIDEI  544 (1153)
T ss_pred             HHhcCCEEEc----------CCeEEhhhHHHHHHHHHHHhhcCCCCcceeEeCHHHHHHHHHhCcccceeeEEEeccCcc
Confidence            9999999875          346999999999999998764211  112222110         00000           


Q ss_pred             ------Ccccccccc-------------------------------eEEEEeccccccccccCCCCCccceEEccCCccc
Q 048126          487 ------APEIQNWRN-------------------------------VRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLK  529 (863)
Q Consensus       487 ------~~~~~~~~~-------------------------------lr~L~l~~~~~~~l~~~~~~~~L~~L~l~~~~l~  529 (863)
                            ...+..+.+                               +|.|.+.++.+..+|....+.+|+.|++.+|.+.
T Consensus       545 ~~~~i~~~aF~~m~~L~~L~~~~~~~~~~~~~~~~lp~~~~~lp~~Lr~L~~~~~~l~~lP~~f~~~~L~~L~L~~s~l~  624 (1153)
T PLN03210        545 DELHIHENAFKGMRNLLFLKFYTKKWDQKKEVRWHLPEGFDYLPPKLRLLRWDKYPLRCMPSNFRPENLVKLQMQGSKLE  624 (1153)
T ss_pred             ceeeecHHHHhcCccccEEEEecccccccccceeecCcchhhcCcccEEEEecCCCCCCCCCcCCccCCcEEECcCcccc
Confidence                  001222333                               4555555555555555445667777777777777


Q ss_pred             cccchhhhcCCCccEEEccCCCccccCCccccccCCCCeEEccCC-CccccchhhhcCCCCCEEecCCccccCCCcHHHh
Q 048126          530 MIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGT-AITHLPIELQKLVNLKCLNLEYMYNLNQFPRLVM  608 (863)
Q Consensus       530 ~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~~-~l~~lp~~~~~l~~L~~L~l~~~~~l~~lp~~~~  608 (863)
                      .++.. +..+++|++|+|+++..+..+| .++.+++|++|+|++| .+..+|..++++++|+.|++++|..+..+|.. +
T Consensus       625 ~L~~~-~~~l~~Lk~L~Ls~~~~l~~ip-~ls~l~~Le~L~L~~c~~L~~lp~si~~L~~L~~L~L~~c~~L~~Lp~~-i  701 (1153)
T PLN03210        625 KLWDG-VHSLTGLRNIDLRGSKNLKEIP-DLSMATNLETLKLSDCSSLVELPSSIQYLNKLEDLDMSRCENLEILPTG-I  701 (1153)
T ss_pred             ccccc-cccCCCCCEEECCCCCCcCcCC-ccccCCcccEEEecCCCCccccchhhhccCCCCEEeCCCCCCcCccCCc-C
Confidence            66655 5677778888887776666666 3677777888888776 56677777778888888888877777777764 2


Q ss_pred             hcCCCCcEEEeeccccccCchhhHHHHHcCCccCceEEEEEcChHHHHHHhhhhhhhhcceeeeeccccCCCc------c
Q 048126          609 SAFSKLQVLRILKSNVLFGGHQFLVEELMGMKHLMALTITLKSWEALQELLISQELQRCTQSLFLRCFNDSKS------L  682 (863)
Q Consensus       609 ~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~~~~~l~~~~~~~~~L~~L~l~~~~~~~~------~  682 (863)
                       ++++|+.|++.+|.....    .+.   ..++|+.|++..+....++...   . .++|+.|.+.++.....      .
T Consensus       702 -~l~sL~~L~Lsgc~~L~~----~p~---~~~nL~~L~L~~n~i~~lP~~~---~-l~~L~~L~l~~~~~~~l~~~~~~l  769 (1153)
T PLN03210        702 -NLKSLYRLNLSGCSRLKS----FPD---ISTNISWLDLDETAIEEFPSNL---R-LENLDELILCEMKSEKLWERVQPL  769 (1153)
T ss_pred             -CCCCCCEEeCCCCCCccc----ccc---ccCCcCeeecCCCccccccccc---c-ccccccccccccchhhcccccccc
Confidence             677777877777654321    111   1345666666655543333211   1 13455555544221100      0


Q ss_pred             cccchhhcCCCceEEEcCCcccccceeccccccccccccccCcccEEEEeccCCCCCCchhhccCCCcEEEEeccccchh
Q 048126          683 DIFCLACLHNLNKLYVAGRKHLEDFQMTVQRSSVNQLARGFHSLHTVKVGFCFKLKDLTWLVFAPSLKSIVVLSCCNMEQ  762 (863)
Q Consensus       683 ~~~~l~~~~~L~~L~l~~~~~~~~l~~~~~~~~~~~~~~~l~~L~~L~L~~c~~l~~l~~l~~l~~L~~L~l~~~~~l~~  762 (863)
                      .......+++|+.|++++|..+..++...         ..+++|+.|+|++|..++.+|....+++|+.|++++|..+..
T Consensus       770 ~~~~~~~~~sL~~L~Ls~n~~l~~lP~si---------~~L~~L~~L~Ls~C~~L~~LP~~~~L~sL~~L~Ls~c~~L~~  840 (1153)
T PLN03210        770 TPLMTMLSPSLTRLFLSDIPSLVELPSSI---------QNLHKLEHLEIENCINLETLPTGINLESLESLDLSGCSRLRT  840 (1153)
T ss_pred             chhhhhccccchheeCCCCCCccccChhh---------hCCCCCCEEECCCCCCcCeeCCCCCccccCEEECCCCCcccc
Confidence            00001123567777777666555443322         236677777777777676666555667777777777766554


Q ss_pred             hccccc-cccc------cCCCCCCCCcCCccceeccCCCccccccccCCCCCCCcceEeecCCCCCCCCCC
Q 048126          763 IIKAEK-LSQL------HHHPERKKSVFAKLQFLSLENLRNLCCINWEALAFPNLKEIRVEGCPKLFKLPL  826 (863)
Q Consensus       763 i~~~~~-~~~~------~~~~~~~~~~~p~L~~L~l~~~~~L~~i~~~~~~~p~L~~L~i~~C~~L~~lp~  826 (863)
                      +..... ...+      ....+..+..+++|+.|+|++|++|+.++.....+++|+.|.+++|++|+.++.
T Consensus       841 ~p~~~~nL~~L~Ls~n~i~~iP~si~~l~~L~~L~L~~C~~L~~l~~~~~~L~~L~~L~l~~C~~L~~~~l  911 (1153)
T PLN03210        841 FPDISTNISDLNLSRTGIEEVPWWIEKFSNLSFLDMNGCNNLQRVSLNISKLKHLETVDFSDCGALTEASW  911 (1153)
T ss_pred             ccccccccCEeECCCCCCccChHHHhcCCCCCEEECCCCCCcCccCcccccccCCCeeecCCCcccccccC
Confidence            321000 0000      000022344566666666666666666666555666666666666666666554

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=1e-45  Score=392.85  Aligned_cols=281  Identities=36%  Similarity=0.637  Sum_probs=233.3

Q ss_pred             hhHHHHHHHHHhcC--CCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHHHHhCCCCc
Q 048126          131 LESMFDKVWRCLGE--EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGRRIGFLDE  208 (863)
Q Consensus       131 r~~~~~~l~~~L~~--~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~  208 (863)
                      ||.++++|.+.|.+  ++.++|+|+||||+||||||++++++. .++.+|+.++||.++...+...++..|+.+++....
T Consensus         1 re~~~~~l~~~L~~~~~~~~~v~I~G~~G~GKT~LA~~~~~~~-~~~~~f~~v~wv~~~~~~~~~~~~~~i~~~l~~~~~   79 (287)
T PF00931_consen    1 REKEIEKLKDWLLDNSNEVRVVAIVGMGGIGKTTLARQVARDL-RIKNRFDGVIWVSLSKNPSLEQLLEQILRQLGEPDS   79 (287)
T ss_dssp             -HHHHHHHHHHHHTTTTSSEEEEEEESTTSSHHHHHHHHHCHH-HHCCCCTEEEEEEEES-SCCHHHHHHHHHHHTCC-S
T ss_pred             CHHHHHHHHHHhhCCCCCeEEEEEEcCCcCCcceeeeeccccc-cccccccccccccccccccccccccccccccccccc
Confidence            78999999999988  789999999999999999999999995 358999999999999999999999999999988754


Q ss_pred             cc-cCCChhHHHHHHHHHhccCcEEEEEeccCCccccccccCCCCCCCCCcEEEEecCchhhhhcccc-cceEeecCCCh
Q 048126          209 SW-KNGSLEDKASDILRILSKKKFLLLLDDIWERVDLTKVGVPFPDPENKSKIVFTTRFLEICGAMKA-HEFLKVECLGP  286 (863)
Q Consensus       209 ~~-~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~~~l~~~~~gs~IivTtR~~~v~~~~~~-~~~~~l~~L~~  286 (863)
                      .. ...+..+....+.+.++++++||||||||+...|+.+...++....|++||||||+..++..++. ...+++++|+.
T Consensus        80 ~~~~~~~~~~~~~~l~~~L~~~~~LlVlDdv~~~~~~~~l~~~~~~~~~~~kilvTTR~~~v~~~~~~~~~~~~l~~L~~  159 (287)
T PF00931_consen   80 SISDPKDIEELQDQLRELLKDKRCLLVLDDVWDEEDLEELREPLPSFSSGSKILVTTRDRSVAGSLGGTDKVIELEPLSE  159 (287)
T ss_dssp             TSSCCSSHHHHHHHHHHHHCCTSEEEEEEEE-SHHHH-------HCHHSS-EEEEEESCGGGGTTHHSCEEEEECSS--H
T ss_pred             ccccccccccccccchhhhccccceeeeeeeccccccccccccccccccccccccccccccccccccccccccccccccc
Confidence            33 45677789999999999999999999999999999998888877789999999999999877665 67899999999


Q ss_pred             HHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCCchhHHHHHHHHhcCCCChhHHHHHHHHHHhcCCCCCCCcchhhhh
Q 048126          287 EDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGLPLALITIGRAMTCKKTTQEWHHAIQILRRSSSEFPGMGKEVYPL  366 (863)
Q Consensus       287 ~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPlai~~~~~~l~~~~~~~~w~~~l~~l~~~~~~~~~~~~~~~~~  366 (863)
                      +||++||.+.++......++.+.+.+++|+++|+|+|||++++|++|+.+.+..+|+.+++.+.....+..+....+..+
T Consensus       160 ~ea~~L~~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLal~~~a~~l~~~~~~~~w~~~~~~l~~~~~~~~~~~~~~~~~  239 (287)
T PF00931_consen  160 EEALELFKKRAGRKESESPEDLEDLAKEIVEKCGGLPLALKLIASYLRSKSTVDEWEEALEELENSLRESRDYDRSVFSA  239 (287)
T ss_dssp             HHHHHHHHHHHTSHS----TTSCTHHHHHHHHTTT-HHHHHHHHHHHHHHHSSSSHHHHHHHHHHCHTCSSGSCHHHHHH
T ss_pred             cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc
Confidence            99999999998865423446677889999999999999999999999766688999999999888765544455689999


Q ss_pred             hhhhcCCCCchhhHHHHhHhccCCCCccccHHhHHHHHHhcCCCCCc
Q 048126          367 LKFSYDSLPDDTIRSCFLYCGLFPEDYRIRKSELIDCWIGEGFLDQY  413 (863)
Q Consensus       367 l~~sy~~L~~~~~k~cfl~~~~fp~~~~i~~~~li~~w~a~g~i~~~  413 (863)
                      +.+||+.||+ ++|.||+|||+||+++.|+++.|+++|+++|||.+.
T Consensus       240 l~~s~~~L~~-~~~~~f~~L~~f~~~~~i~~~~li~lW~~e~~i~~~  285 (287)
T PF00931_consen  240 LELSYDSLPD-ELRRCFLYLSIFPEGVPIPRERLIRLWVAEGFISSK  285 (287)
T ss_dssp             HHHHHHSSHT-CCHHHHHHGGGSGTTS-EEHHHHHHHHTT-HHTC--
T ss_pred             ceechhcCCc-cHHHHHhhCcCCCCCceECHHHHHHHHHHCCCCccc
Confidence            9999999999 899999999999999999999999999999999864

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=99.88  E-value=3.7e-22  Score=248.15  Aligned_cols=333  Identities=17%  Similarity=0.124  Sum_probs=226.4

Q ss_pred             cccceEEEEeccccccccccCCCCCccceEEccCCccccccchhhhcCCCccEEEccCCCccccCCccccccCCCCeEEc
Q 048126          492 NWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDL  571 (863)
Q Consensus       492 ~~~~lr~L~l~~~~~~~l~~~~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L  571 (863)
                      .+++|++|++++|.+.+......+++|++|++++|.+....+..++++++|++|+|++|.+.+.+|..++++++|++|++
T Consensus       116 ~l~~L~~L~Ls~n~l~~~~p~~~l~~L~~L~Ls~n~~~~~~p~~~~~l~~L~~L~L~~n~l~~~~p~~~~~l~~L~~L~L  195 (968)
T PLN00113        116 TSSSLRYLNLSNNNFTGSIPRGSIPNLETLDLSNNMLSGEIPNDIGSFSSLKVLDLGGNVLVGKIPNSLTNLTSLEFLTL  195 (968)
T ss_pred             cCCCCCEEECcCCccccccCccccCCCCEEECcCCcccccCChHHhcCCCCCEEECccCcccccCChhhhhCcCCCeeec
Confidence            56788888888887765444456788888888888877555555888889999999888777788888888999999999


Q ss_pred             cCCCcc-ccchhhhcCCCCCEEecCCccccCCCcHHHhhcCCCCcEEEeeccccccCchhhHHHHHcCCccCceEEEEEc
Q 048126          572 SGTAIT-HLPIELQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRILKSNVLFGGHQFLVEELMGMKHLMALTITLK  650 (863)
Q Consensus       572 ~~~~l~-~lp~~~~~l~~L~~L~l~~~~~l~~lp~~~~~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~  650 (863)
                      ++|.+. .+|..++++++|++|++++|.....+|.. ++++++|++|++.+|....    ..+..++++++|+.|+++.+
T Consensus       196 ~~n~l~~~~p~~l~~l~~L~~L~L~~n~l~~~~p~~-l~~l~~L~~L~L~~n~l~~----~~p~~l~~l~~L~~L~L~~n  270 (968)
T PLN00113        196 ASNQLVGQIPRELGQMKSLKWIYLGYNNLSGEIPYE-IGGLTSLNHLDLVYNNLTG----PIPSSLGNLKNLQYLFLYQN  270 (968)
T ss_pred             cCCCCcCcCChHHcCcCCccEEECcCCccCCcCChh-HhcCCCCCEEECcCceecc----ccChhHhCCCCCCEEECcCC
Confidence            888776 67888888899999999888555567775 7888899999988887653    35567788888888888766


Q ss_pred             ChHHHHHHhhhhhhhhcceeeeeccccCCCcccccchhhcCCCceEEEcCCcccccceeccccccccccccccCcccEEE
Q 048126          651 SWEALQELLISQELQRCTQSLFLRCFNDSKSLDIFCLACLHNLNKLYVAGRKHLEDFQMTVQRSSVNQLARGFHSLHTVK  730 (863)
Q Consensus       651 ~~~~~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~l~~~~~~~~~~~~~~~l~~L~~L~  730 (863)
                      .....  ++......++|+.|+++++.-....+ ..+..+++|+.|++++|.....+ +..+        ..+++|+.|+
T Consensus       271 ~l~~~--~p~~l~~l~~L~~L~Ls~n~l~~~~p-~~~~~l~~L~~L~l~~n~~~~~~-~~~~--------~~l~~L~~L~  338 (968)
T PLN00113        271 KLSGP--IPPSIFSLQKLISLDLSDNSLSGEIP-ELVIQLQNLEILHLFSNNFTGKI-PVAL--------TSLPRLQVLQ  338 (968)
T ss_pred             eeecc--CchhHhhccCcCEEECcCCeeccCCC-hhHcCCCCCcEEECCCCccCCcC-ChhH--------hcCCCCCEEE
Confidence            54321  11111223578888887765332222 34566788888888887654432 2222        3478888888


Q ss_pred             EeccCCCCCCc-hhhccCCCcEEEEeccccchhhccccccc-----c-------ccCCCCCCCCcCCccceeccCCCccc
Q 048126          731 VGFCFKLKDLT-WLVFAPSLKSIVVLSCCNMEQIIKAEKLS-----Q-------LHHHPERKKSVFAKLQFLSLENLRNL  797 (863)
Q Consensus       731 L~~c~~l~~l~-~l~~l~~L~~L~l~~~~~l~~i~~~~~~~-----~-------~~~~~~~~~~~~p~L~~L~l~~~~~L  797 (863)
                      |++|.....+| .++.+++|+.|+++++.....+ ......     .       .....+..+..+++|+.|.+++|.-.
T Consensus       339 L~~n~l~~~~p~~l~~~~~L~~L~Ls~n~l~~~~-p~~~~~~~~L~~L~l~~n~l~~~~p~~~~~~~~L~~L~L~~n~l~  417 (968)
T PLN00113        339 LWSNKFSGEIPKNLGKHNNLTVLDLSTNNLTGEI-PEGLCSSGNLFKLILFSNSLEGEIPKSLGACRSLRRVRLQDNSFS  417 (968)
T ss_pred             CcCCCCcCcCChHHhCCCCCcEEECCCCeeEeeC-ChhHhCcCCCCEEECcCCEecccCCHHHhCCCCCCEEECcCCEee
Confidence            88885444454 5677888888888875432211 110000     0       00001223456788888888887654


Q ss_pred             cccccCCCCCCCcceEeecCCCCCCCCCCCCCC-CCCCceEEEccc
Q 048126          798 CCINWEALAFPNLKEIRVEGCPKLFKLPLDSNS-AKGCKVVIKGEE  842 (863)
Q Consensus       798 ~~i~~~~~~~p~L~~L~i~~C~~L~~lp~~~~~-~~L~~l~i~~~~  842 (863)
                      ..++.....+|+|+.|++++|.--..+|..... ++|+.+.+.+|.
T Consensus       418 ~~~p~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~n~  463 (968)
T PLN00113        418 GELPSEFTKLPLVYFLDISNNNLQGRINSRKWDMPSLQMLSLARNK  463 (968)
T ss_pred             eECChhHhcCCCCCEEECcCCcccCccChhhccCCCCcEEECcCce
Confidence            455555566888888888876433334443333 888888888764

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

Probab=99.86  E-value=2.2e-21  Score=241.29  Aligned_cols=329  Identities=19%  Similarity=0.139  Sum_probs=158.9

Q ss_pred             cccccceEEEEeccccccc-cc-cCCCCCccceEEccCCccccccchhhhcCCCccEEEccCCCccccCCccccccCCCC
Q 048126          490 IQNWRNVRRMSLMKNKIEN-LS-ETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSLE  567 (863)
Q Consensus       490 ~~~~~~lr~L~l~~~~~~~-l~-~~~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~  567 (863)
                      +..+++++.|++++|.+.. +| .+.++++|++|++++|.+....+..++++++|++|+|++|.+.+.+|..++++++|+
T Consensus       160 ~~~l~~L~~L~L~~n~l~~~~p~~~~~l~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~L~~n~l~~~~p~~l~~l~~L~  239 (968)
T PLN00113        160 IGSFSSLKVLDLGGNVLVGKIPNSLTNLTSLEFLTLASNQLVGQIPRELGQMKSLKWIYLGYNNLSGEIPYEIGGLTSLN  239 (968)
T ss_pred             HhcCCCCCEEECccCcccccCChhhhhCcCCCeeeccCCCCcCcCChHHcCcCCccEEECcCCccCCcCChhHhcCCCCC
Confidence            3444556666665555432 22 234555566666665555443333455556666666665554455555556666666


Q ss_pred             eEEccCCCcc-ccchhhhcCCCCCEEecCCccccCCCcHHHhhcCCCCcEEEeeccccccCchhhHHHHHcCCccCceEE
Q 048126          568 HLDLSGTAIT-HLPIELQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRILKSNVLFGGHQFLVEELMGMKHLMALT  646 (863)
Q Consensus       568 ~L~L~~~~l~-~lp~~~~~l~~L~~L~l~~~~~l~~lp~~~~~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~~L~  646 (863)
                      +|++++|.+. .+|..++++++|++|++++|.....+|.. +.++++|++|++.+|....    ..+..+.++++|+.|+
T Consensus       240 ~L~L~~n~l~~~~p~~l~~l~~L~~L~L~~n~l~~~~p~~-l~~l~~L~~L~Ls~n~l~~----~~p~~~~~l~~L~~L~  314 (968)
T PLN00113        240 HLDLVYNNLTGPIPSSLGNLKNLQYLFLYQNKLSGPIPPS-IFSLQKLISLDLSDNSLSG----EIPELVIQLQNLEILH  314 (968)
T ss_pred             EEECcCceeccccChhHhCCCCCCEEECcCCeeeccCchh-HhhccCcCEEECcCCeecc----CCChhHcCCCCCcEEE
Confidence            6666655554 45555566666666666555333344443 4555566666655554432    1333445555555555


Q ss_pred             EEEcChHHHHHHhhhhhhhhcceeeeeccccCCCcccccchhhcCCCceEEEcCCcccccceecccccc-----------
Q 048126          647 ITLKSWEALQELLISQELQRCTQSLFLRCFNDSKSLDIFCLACLHNLNKLYVAGRKHLEDFQMTVQRSS-----------  715 (863)
Q Consensus       647 l~~~~~~~~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~l~~~~~~~~-----------  715 (863)
                      +..+.....  ........++|+.|.++++.-....+ ..+..+++|+.|++++|.....+ +.+....           
T Consensus       315 l~~n~~~~~--~~~~~~~l~~L~~L~L~~n~l~~~~p-~~l~~~~~L~~L~Ls~n~l~~~~-p~~~~~~~~L~~L~l~~n  390 (968)
T PLN00113        315 LFSNNFTGK--IPVALTSLPRLQVLQLWSNKFSGEIP-KNLGKHNNLTVLDLSTNNLTGEI-PEGLCSSGNLFKLILFSN  390 (968)
T ss_pred             CCCCccCCc--CChhHhcCCCCCEEECcCCCCcCcCC-hHHhCCCCCcEEECCCCeeEeeC-ChhHhCcCCCCEEECcCC
Confidence            554433211  01111112355555555543222211 23444555666666554332211 1111100           


Q ss_pred             -----ccccccccCcccEEEEeccCCCCCCc-hhhccCCCcEEEEeccccchhhccccccccccCCCCCCCCcCCcccee
Q 048126          716 -----VNQLARGFHSLHTVKVGFCFKLKDLT-WLVFAPSLKSIVVLSCCNMEQIIKAEKLSQLHHHPERKKSVFAKLQFL  789 (863)
Q Consensus       716 -----~~~~~~~l~~L~~L~L~~c~~l~~l~-~l~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~~~p~L~~L  789 (863)
                           .......+++|+.|++++|.....+| .+..+++|+.|+++++. +...+            +.....+|+|+.|
T Consensus       391 ~l~~~~p~~~~~~~~L~~L~L~~n~l~~~~p~~~~~l~~L~~L~Ls~N~-l~~~~------------~~~~~~l~~L~~L  457 (968)
T PLN00113        391 SLEGEIPKSLGACRSLRRVRLQDNSFSGELPSEFTKLPLVYFLDISNNN-LQGRI------------NSRKWDMPSLQML  457 (968)
T ss_pred             EecccCCHHHhCCCCCCEEECcCCEeeeECChhHhcCCCCCEEECcCCc-ccCcc------------ChhhccCCCCcEE
Confidence                 00000124445555554443222222 23444555555555432 21110            1233456777777


Q ss_pred             ccCCCccccccccCCCCCCCcceEeecCCCCCCCCCCCCCC-CCCCceEEEcc
Q 048126          790 SLENLRNLCCINWEALAFPNLKEIRVEGCPKLFKLPLDSNS-AKGCKVVIKGE  841 (863)
Q Consensus       790 ~l~~~~~L~~i~~~~~~~p~L~~L~i~~C~~L~~lp~~~~~-~~L~~l~i~~~  841 (863)
                      ++++|.-...++.. ...++|+.|++++|.--..+|..+.. ++|+.++++++
T Consensus       458 ~L~~n~~~~~~p~~-~~~~~L~~L~ls~n~l~~~~~~~~~~l~~L~~L~Ls~N  509 (968)
T PLN00113        458 SLARNKFFGGLPDS-FGSKRLENLDLSRNQFSGAVPRKLGSLSELMQLKLSEN  509 (968)
T ss_pred             ECcCceeeeecCcc-cccccceEEECcCCccCCccChhhhhhhccCEEECcCC
Confidence            77776554444432 23467777777776444455654444 67777777655

>PLN03210 Resistant to P

Probab=99.86  E-value=4.8e-21  Score=237.92  Aligned_cols=310  Identities=22%  Similarity=0.320  Sum_probs=217.5

Q ss_pred             cCCCcccCcccccccceEEEEecccccccccc-CCCCCccceEEccCC-ccccccchhhhcCCCccEEEccCCCccccCC
Q 048126          480 AGLGLTEAPEIQNWRNVRRMSLMKNKIENLSE-TPTCPHLLSLFLSDN-SLKMIAGDFFQFMPSLRVFNMSNNHLLWKLP  557 (863)
Q Consensus       480 ~~~~~~~~~~~~~~~~lr~L~l~~~~~~~l~~-~~~~~~L~~L~l~~~-~l~~~~~~~~~~l~~L~~L~L~~~~~~~~lp  557 (863)
                      .+......|......+++.|++.++.+..++. ...+++|+.|++++| .+..+|.  ++.+++|++|+|++|.....+|
T Consensus       597 ~~~~l~~lP~~f~~~~L~~L~L~~s~l~~L~~~~~~l~~Lk~L~Ls~~~~l~~ip~--ls~l~~Le~L~L~~c~~L~~lp  674 (1153)
T PLN03210        597 DKYPLRCMPSNFRPENLVKLQMQGSKLEKLWDGVHSLTGLRNIDLRGSKNLKEIPD--LSMATNLETLKLSDCSSLVELP  674 (1153)
T ss_pred             cCCCCCCCCCcCCccCCcEEECcCccccccccccccCCCCCEEECCCCCCcCcCCc--cccCCcccEEEecCCCCccccc
Confidence            33444455555566799999999999887754 478999999999987 4666764  7889999999999998888999


Q ss_pred             ccccccCCCCeEEccCC-CccccchhhhcCCCCCEEecCCccccCCCcHHHhhcCCCCcEEEeeccccccCchhhHHHHH
Q 048126          558 SGISTLVSLEHLDLSGT-AITHLPIELQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRILKSNVLFGGHQFLVEEL  636 (863)
Q Consensus       558 ~~i~~l~~L~~L~L~~~-~l~~lp~~~~~l~~L~~L~l~~~~~l~~lp~~~~~~L~~L~~L~l~~~~~~~~~~~~~~~~l  636 (863)
                      .+++++++|++|++++| .++.+|..+ ++++|++|++++|..+..+|..    .++|+.|++.++.+..     .+.. 
T Consensus       675 ~si~~L~~L~~L~L~~c~~L~~Lp~~i-~l~sL~~L~Lsgc~~L~~~p~~----~~nL~~L~L~~n~i~~-----lP~~-  743 (1153)
T PLN03210        675 SSIQYLNKLEDLDMSRCENLEILPTGI-NLKSLYRLNLSGCSRLKSFPDI----STNISWLDLDETAIEE-----FPSN-  743 (1153)
T ss_pred             hhhhccCCCCEEeCCCCCCcCccCCcC-CCCCCCEEeCCCCCCccccccc----cCCcCeeecCCCcccc-----cccc-
Confidence            99999999999999998 788999876 8999999999999888777752    4688999998876532     1111 


Q ss_pred             cCCccCceEEEEEcChHHHHH----Hh-hhhhhhhcceeeeeccccCCCcccccchhhcCCCceEEEcCCcccccceecc
Q 048126          637 MGMKHLMALTITLKSWEALQE----LL-ISQELQRCTQSLFLRCFNDSKSLDIFCLACLHNLNKLYVAGRKHLEDFQMTV  711 (863)
Q Consensus       637 ~~L~~L~~L~l~~~~~~~~~~----l~-~~~~~~~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~l~~~~  711 (863)
                      ..+++|+.|.+.......+..    +. .....+++|+.|.++++.....++ ..+..+++|+.|+|++|..++.++...
T Consensus       744 ~~l~~L~~L~l~~~~~~~l~~~~~~l~~~~~~~~~sL~~L~Ls~n~~l~~lP-~si~~L~~L~~L~Ls~C~~L~~LP~~~  822 (1153)
T PLN03210        744 LRLENLDELILCEMKSEKLWERVQPLTPLMTMLSPSLTRLFLSDIPSLVELP-SSIQNLHKLEHLEIENCINLETLPTGI  822 (1153)
T ss_pred             ccccccccccccccchhhccccccccchhhhhccccchheeCCCCCCccccC-hhhhCCCCCCEEECCCCCCcCeeCCCC
Confidence            245666666665322111100    00 001123467777777765544443 345667777777777776666443221


Q ss_pred             ccccccccccccCcccEEEEeccCCC--------------------CCCc-hhhccCCCcEEEEeccccchhhccccccc
Q 048126          712 QRSSVNQLARGFHSLHTVKVGFCFKL--------------------KDLT-WLVFAPSLKSIVVLSCCNMEQIIKAEKLS  770 (863)
Q Consensus       712 ~~~~~~~~~~~l~~L~~L~L~~c~~l--------------------~~l~-~l~~l~~L~~L~l~~~~~l~~i~~~~~~~  770 (863)
                                .+++|++|+|++|..+                    +.+| +++.+++|+.|++.+|+.++.+       
T Consensus       823 ----------~L~sL~~L~Ls~c~~L~~~p~~~~nL~~L~Ls~n~i~~iP~si~~l~~L~~L~L~~C~~L~~l-------  885 (1153)
T PLN03210        823 ----------NLESLESLDLSGCSRLRTFPDISTNISDLNLSRTGIEEVPWWIEKFSNLSFLDMNGCNNLQRV-------  885 (1153)
T ss_pred             ----------CccccCEEECCCCCccccccccccccCEeECCCCCCccChHHHhcCCCCCEEECCCCCCcCcc-------
Confidence                      1445555555554443                    3444 4567889999999999988876       


Q ss_pred             cccCCCCCCCCcCCccceeccCCCccccccccCC-------------CCCCCcceEeecCCCCCCCCCC
Q 048126          771 QLHHHPERKKSVFAKLQFLSLENLRNLCCINWEA-------------LAFPNLKEIRVEGCPKLFKLPL  826 (863)
Q Consensus       771 ~~~~~~~~~~~~~p~L~~L~l~~~~~L~~i~~~~-------------~~~p~L~~L~i~~C~~L~~lp~  826 (863)
                            +.....+++|+.|.+++|++|+.++...             ..+|+...+.+.+|.+|..-+.
T Consensus       886 ------~~~~~~L~~L~~L~l~~C~~L~~~~l~~~~~~~~~~~~n~~~~~p~~~~l~f~nC~~L~~~a~  948 (1153)
T PLN03210        886 ------SLNISKLKHLETVDFSDCGALTEASWNGSPSEVAMATDNIHSKLPSTVCINFINCFNLDQEAL  948 (1153)
T ss_pred             ------CcccccccCCCeeecCCCcccccccCCCCchhhhhhcccccccCCchhccccccccCCCchhh
Confidence                  3356678999999999999998765421             1255667778889988877554

syringae 6; Provisional

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

Probab=99.86  E-value=1.3e-23  Score=221.60  Aligned_cols=328  Identities=23%  Similarity=0.292  Sum_probs=227.7

Q ss_pred             ccEEEEcCCCcccCc-ccccccceEEEEecccccccc-ccCCCCCccceEEccCCccc--cccchhhhcCCCccEEEccC
Q 048126          474 ENFLVHAGLGLTEAP-EIQNWRNVRRMSLMKNKIENL-SETPTCPHLLSLFLSDNSLK--MIAGDFFQFMPSLRVFNMSN  549 (863)
Q Consensus       474 ~~~~~~~~~~~~~~~-~~~~~~~lr~L~l~~~~~~~l-~~~~~~~~L~~L~l~~~~l~--~~~~~~~~~l~~L~~L~L~~  549 (863)
                      -.|+..+..++..+| .+..+.++.+|++.+|.+..+ ..++.++.||++.+..|+++  ++|+++ -++.-|.+||||+
T Consensus        34 ~~WLkLnrt~L~~vPeEL~~lqkLEHLs~~HN~L~~vhGELs~Lp~LRsv~~R~N~LKnsGiP~di-F~l~dLt~lDLSh  112 (1255)
T KOG0444|consen   34 MTWLKLNRTKLEQVPEELSRLQKLEHLSMAHNQLISVHGELSDLPRLRSVIVRDNNLKNSGIPTDI-FRLKDLTILDLSH  112 (1255)
T ss_pred             eeEEEechhhhhhChHHHHHHhhhhhhhhhhhhhHhhhhhhccchhhHHHhhhccccccCCCCchh-cccccceeeecch
Confidence            356776666666665 567788999999999988765 34588999999999999665  788884 4699999999999


Q ss_pred             CCccccCCccccccCCCCeEEccCCCccccchh-hhcCCCCCEEecCCccccCCCcHHHhhcCCCCcEEEeeccccccCc
Q 048126          550 NHLLWKLPSGISTLVSLEHLDLSGTAITHLPIE-LQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRILKSNVLFGG  628 (863)
Q Consensus       550 ~~~~~~lp~~i~~l~~L~~L~L~~~~l~~lp~~-~~~l~~L~~L~l~~~~~l~~lp~~~~~~L~~L~~L~l~~~~~~~~~  628 (863)
                      | .+.+.|..+.+-+++-.|+||+|+|..+|.. +-+|+.|-+|+|++| .+..+|+. +..|.+|++|.+++|...   
T Consensus       113 N-qL~EvP~~LE~AKn~iVLNLS~N~IetIPn~lfinLtDLLfLDLS~N-rLe~LPPQ-~RRL~~LqtL~Ls~NPL~---  186 (1255)
T KOG0444|consen  113 N-QLREVPTNLEYAKNSIVLNLSYNNIETIPNSLFINLTDLLFLDLSNN-RLEMLPPQ-IRRLSMLQTLKLSNNPLN---  186 (1255)
T ss_pred             h-hhhhcchhhhhhcCcEEEEcccCccccCCchHHHhhHhHhhhccccc-hhhhcCHH-HHHHhhhhhhhcCCChhh---
Confidence            9 6778999999999999999999999999976 668999999999998 77889987 889999999999988764   


Q ss_pred             hhhHHHHHcCCccCceEEEEEcChHHHHHHhhhhhhhhcceeeeeccccCCCcccccchhhcCCCceEEEcCCcccccce
Q 048126          629 HQFLVEELMGMKHLMALTITLKSWEALQELLISQELQRCTQSLFLRCFNDSKSLDIFCLACLHNLNKLYVAGRKHLEDFQ  708 (863)
Q Consensus       629 ~~~~~~~l~~L~~L~~L~l~~~~~~~~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~l~  708 (863)
                       ..-+..|..++.|+.|.++.... .+..++.+..-..+|..++++.++ +..++ .++-.+++|+.|+++++...+ +.
T Consensus       187 -hfQLrQLPsmtsL~vLhms~TqR-Tl~N~Ptsld~l~NL~dvDlS~N~-Lp~vP-ecly~l~~LrrLNLS~N~ite-L~  261 (1255)
T KOG0444|consen  187 -HFQLRQLPSMTSLSVLHMSNTQR-TLDNIPTSLDDLHNLRDVDLSENN-LPIVP-ECLYKLRNLRRLNLSGNKITE-LN  261 (1255)
T ss_pred             -HHHHhcCccchhhhhhhcccccc-hhhcCCCchhhhhhhhhccccccC-CCcch-HHHhhhhhhheeccCcCceee-ee
Confidence             33455566666777777765443 234444444444577777877643 22222 467778999999999875443 32


Q ss_pred             eccccccccccccccCcccEEEEeccCCCCCCc-hhhccCCCcEEEEeccccchhhcccccccccc------------CC
Q 048126          709 MTVQRSSVNQLARGFHSLHTVKVGFCFKLKDLT-WLVFAPSLKSIVVLSCCNMEQIIKAEKLSQLH------------HH  775 (863)
Q Consensus       709 ~~~~~~~~~~~~~~l~~L~~L~L~~c~~l~~l~-~l~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~------------~~  775 (863)
                      ...         .-..+|++|+|+.+ +++.+| .+..|++|+.|.+.+ +.+..-+.....|.+.            -.
T Consensus       262 ~~~---------~~W~~lEtLNlSrN-QLt~LP~avcKL~kL~kLy~n~-NkL~FeGiPSGIGKL~~Levf~aanN~LEl  330 (1255)
T KOG0444|consen  262 MTE---------GEWENLETLNLSRN-QLTVLPDAVCKLTKLTKLYANN-NKLTFEGIPSGIGKLIQLEVFHAANNKLEL  330 (1255)
T ss_pred             ccH---------HHHhhhhhhccccc-hhccchHHHhhhHHHHHHHhcc-CcccccCCccchhhhhhhHHHHhhcccccc
Confidence            211         12467888888886 677777 456778888777666 3343322211111100            00


Q ss_pred             CCCCCCcCCccceeccCCCccccccccCCCCCCCcceEeecCCCCCCCCC
Q 048126          776 PERKKSVFAKLQFLSLENLRNLCCINWEALAFPNLKEIRVEGCPKLFKLP  825 (863)
Q Consensus       776 ~~~~~~~~p~L~~L~l~~~~~L~~i~~~~~~~p~L~~L~i~~C~~L~~lp  825 (863)
                      .+..+.-+++|+.|.|++ ..|-.+|....-+|.|+.|++...|+|..-|
T Consensus       331 VPEglcRC~kL~kL~L~~-NrLiTLPeaIHlL~~l~vLDlreNpnLVMPP  379 (1255)
T KOG0444|consen  331 VPEGLCRCVKLQKLKLDH-NRLITLPEAIHLLPDLKVLDLRENPNLVMPP  379 (1255)
T ss_pred             CchhhhhhHHHHHhcccc-cceeechhhhhhcCCcceeeccCCcCccCCC
Confidence            023455566666666653 4555566655566666777776666666544

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

Probab=99.81  E-value=9.3e-22  Score=207.74  Aligned_cols=294  Identities=19%  Similarity=0.212  Sum_probs=211.1

Q ss_pred             CcccccccceEEEEecccccccccc-CCCCCccceEEccCCccccccchhhhcCCCccEEEccCCCccccCCccccccCC
Q 048126          487 APEIQNWRNVRRMSLMKNKIENLSE-TPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVS  565 (863)
Q Consensus       487 ~~~~~~~~~lr~L~l~~~~~~~l~~-~~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~  565 (863)
                      ++++..+..+..|++++|.+.+.|. +...+++-+|+|++|+|..||...|-++.-|-+||||+| .+..+|..+..|.+
T Consensus        96 P~diF~l~dLt~lDLShNqL~EvP~~LE~AKn~iVLNLS~N~IetIPn~lfinLtDLLfLDLS~N-rLe~LPPQ~RRL~~  174 (1255)
T KOG0444|consen   96 PTDIFRLKDLTILDLSHNQLREVPTNLEYAKNSIVLNLSYNNIETIPNSLFINLTDLLFLDLSNN-RLEMLPPQIRRLSM  174 (1255)
T ss_pred             CchhcccccceeeecchhhhhhcchhhhhhcCcEEEEcccCccccCCchHHHhhHhHhhhccccc-hhhhcCHHHHHHhh
Confidence            4567778888888888888877764 467788888888888888888888888888888888888 56688888888888


Q ss_pred             CCeEEccCCCcccc-chhhhcCCCCCEEecCCccc-cCCCcHHHhhcCCCCcEEEeeccccccCchhhHHHHHcCCccCc
Q 048126          566 LEHLDLSGTAITHL-PIELQKLVNLKCLNLEYMYN-LNQFPRLVMSAFSKLQVLRILKSNVLFGGHQFLVEELMGMKHLM  643 (863)
Q Consensus       566 L~~L~L~~~~l~~l-p~~~~~l~~L~~L~l~~~~~-l~~lp~~~~~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~  643 (863)
                      |++|+|++|.+... -..+-.+++|+.|.++++.. +..+|.. +..|.||+.++++.|+..     ..++.+-++.+|+
T Consensus       175 LqtL~Ls~NPL~hfQLrQLPsmtsL~vLhms~TqRTl~N~Pts-ld~l~NL~dvDlS~N~Lp-----~vPecly~l~~Lr  248 (1255)
T KOG0444|consen  175 LQTLKLSNNPLNHFQLRQLPSMTSLSVLHMSNTQRTLDNIPTS-LDDLHNLRDVDLSENNLP-----IVPECLYKLRNLR  248 (1255)
T ss_pred             hhhhhcCCChhhHHHHhcCccchhhhhhhcccccchhhcCCCc-hhhhhhhhhccccccCCC-----cchHHHhhhhhhh
Confidence            88888888865411 11233567788888887642 4567776 778888998888887763     4677788888999


Q ss_pred             eEEEEEcChHHHHHHhhhhhhhhcceeeeeccccCCCcccccchhhcCCCceEEEcCCcccccceecccccccccccccc
Q 048126          644 ALTITLKSWEALQELLISQELQRCTQSLFLRCFNDSKSLDIFCLACLHNLNKLYVAGRKHLEDFQMTVQRSSVNQLARGF  723 (863)
Q Consensus       644 ~L~l~~~~~~~~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~l~~~~~~~~~~~~~~~l  723 (863)
                      .|+++.+.++.+..-   .....+|+.|.++.+. ++.++ .++.+++.|+.|++.++.-.-+-.|+.+        +.+
T Consensus       249 rLNLS~N~iteL~~~---~~~W~~lEtLNlSrNQ-Lt~LP-~avcKL~kL~kLy~n~NkL~FeGiPSGI--------GKL  315 (1255)
T KOG0444|consen  249 RLNLSGNKITELNMT---EGEWENLETLNLSRNQ-LTVLP-DAVCKLTKLTKLYANNNKLTFEGIPSGI--------GKL  315 (1255)
T ss_pred             eeccCcCceeeeecc---HHHHhhhhhhccccch-hccch-HHHhhhHHHHHHHhccCcccccCCccch--------hhh
Confidence            999988876554322   2223477888887643 34443 4678889999998876543221122333        357


Q ss_pred             CcccEEEEeccCCCCCCc-hhhccCCCcEEEEeccccchhhccccccccccCCCCCCCCcCCccceeccCCCcccccccc
Q 048126          724 HSLHTVKVGFCFKLKDLT-WLVFAPSLKSIVVLSCCNMEQIIKAEKLSQLHHHPERKKSVFAKLQFLSLENLRNLCCINW  802 (863)
Q Consensus       724 ~~L~~L~L~~c~~l~~l~-~l~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~~~p~L~~L~l~~~~~L~~i~~  802 (863)
                      .+|+.+...++ +++-.| .+..++.|+.|.|+... +-.+             +..+.-+|.|+.|++.+.|+|---|.
T Consensus       316 ~~Levf~aanN-~LElVPEglcRC~kL~kL~L~~Nr-LiTL-------------PeaIHlL~~l~vLDlreNpnLVMPPK  380 (1255)
T KOG0444|consen  316 IQLEVFHAANN-KLELVPEGLCRCVKLQKLKLDHNR-LITL-------------PEAIHLLPDLKVLDLRENPNLVMPPK  380 (1255)
T ss_pred             hhhHHHHhhcc-ccccCchhhhhhHHHHHhcccccc-eeec-------------hhhhhhcCCcceeeccCCcCccCCCC
Confidence            88888888886 677766 57789999999998754 4334             45788899999999999999876544


Q ss_pred             CCCCCCCcceEee
Q 048126          803 EALAFPNLKEIRV  815 (863)
Q Consensus       803 ~~~~~p~L~~L~i  815 (863)
                      ...+-.+|+.-+|
T Consensus       381 P~da~~~lefYNI  393 (1255)
T KOG0444|consen  381 PNDARKKLEFYNI  393 (1255)
T ss_pred             cchhhhcceeeec
Confidence            3333334544333

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

Probab=99.79  E-value=1.8e-20  Score=197.25  Aligned_cols=314  Identities=18%  Similarity=0.202  Sum_probs=158.7

Q ss_pred             eEEEEeccccccccc--cCCCCCccceEEccCCccccccchhhhcCCCccEEEccCCCccccCCccccccCCCCeEEccC
Q 048126          496 VRRMSLMKNKIENLS--ETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSG  573 (863)
Q Consensus       496 lr~L~l~~~~~~~l~--~~~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~  573 (863)
                      +..|++.+|.+..+.  .+..++.||+|+|+.|.+..++...|..-.++++|+|++|.+...-...|.+|.+|-+|.|+.
T Consensus       127 l~~L~L~~N~I~sv~se~L~~l~alrslDLSrN~is~i~~~sfp~~~ni~~L~La~N~It~l~~~~F~~lnsL~tlkLsr  206 (873)
T KOG4194|consen  127 LEKLDLRHNLISSVTSEELSALPALRSLDLSRNLISEIPKPSFPAKVNIKKLNLASNRITTLETGHFDSLNSLLTLKLSR  206 (873)
T ss_pred             eeEEeeeccccccccHHHHHhHhhhhhhhhhhchhhcccCCCCCCCCCceEEeeccccccccccccccccchheeeeccc
Confidence            555555555444432  123444555555555555555544444444555555555533332333444455555555555


Q ss_pred             CCccccchh-hhcCCCCCEEecCCccccCCCcHHHhhcCCCCcEEEeeccccccCchhhHHHHHcCCccCceEEEEEcCh
Q 048126          574 TAITHLPIE-LQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRILKSNVLFGGHQFLVEELMGMKHLMALTITLKSW  652 (863)
Q Consensus       574 ~~l~~lp~~-~~~l~~L~~L~l~~~~~l~~lp~~~~~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~  652 (863)
                      |+++.+|.. |.+|++|+.|+|..| .+..+....+.+|++|+.|.+..|.+..-    .-+.+-.|.+++.|++..|..
T Consensus       207 NrittLp~r~Fk~L~~L~~LdLnrN-~irive~ltFqgL~Sl~nlklqrN~I~kL----~DG~Fy~l~kme~l~L~~N~l  281 (873)
T KOG4194|consen  207 NRITTLPQRSFKRLPKLESLDLNRN-RIRIVEGLTFQGLPSLQNLKLQRNDISKL----DDGAFYGLEKMEHLNLETNRL  281 (873)
T ss_pred             CcccccCHHHhhhcchhhhhhcccc-ceeeehhhhhcCchhhhhhhhhhcCcccc----cCcceeeecccceeecccchh
Confidence            555555433 333555555555544 23333222344555555555554443311    111233445555555555544


Q ss_pred             HHHHHHhhhhhhhhcceeeeeccccCCCcccccchhhcCCCceEEEcCCcccccceeccccccccccccccCcccEEEEe
Q 048126          653 EALQELLISQELQRCTQSLFLRCFNDSKSLDIFCLACLHNLNKLYVAGRKHLEDFQMTVQRSSVNQLARGFHSLHTVKVG  732 (863)
Q Consensus       653 ~~~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~l~~~~~~~~~~~~~~~l~~L~~L~L~  732 (863)
                      ..+..  ...-..+.|+.|+++++ .+..+...+.+..+.|+.|+++.+. ++.+.+..+.        .+..|++|.|+
T Consensus       282 ~~vn~--g~lfgLt~L~~L~lS~N-aI~rih~d~WsftqkL~~LdLs~N~-i~~l~~~sf~--------~L~~Le~LnLs  349 (873)
T KOG4194|consen  282 QAVNE--GWLFGLTSLEQLDLSYN-AIQRIHIDSWSFTQKLKELDLSSNR-ITRLDEGSFR--------VLSQLEELNLS  349 (873)
T ss_pred             hhhhc--ccccccchhhhhccchh-hhheeecchhhhcccceeEeccccc-cccCChhHHH--------HHHHhhhhccc
Confidence            33321  00111235555555542 2333344444455666666666543 3334333332        35666666666


Q ss_pred             ccCCCCCCc--hhhccCCCcEEEEeccccchhhccccccccccCCCCCCCCcCCccceeccCCCccccccccC-CCCCCC
Q 048126          733 FCFKLKDLT--WLVFAPSLKSIVVLSCCNMEQIIKAEKLSQLHHHPERKKSVFAKLQFLSLENLRNLCCINWE-ALAFPN  809 (863)
Q Consensus       733 ~c~~l~~l~--~l~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~~~p~L~~L~l~~~~~L~~i~~~-~~~~p~  809 (863)
                      ++ ++..+.  .+..+.+|+.|+|++. .+.-.+.+  .       ...+.++|+|+.|.|.+ .+++.|+.. ...+++
T Consensus       350 ~N-si~~l~e~af~~lssL~~LdLr~N-~ls~~IED--a-------a~~f~gl~~LrkL~l~g-Nqlk~I~krAfsgl~~  417 (873)
T KOG4194|consen  350 HN-SIDHLAEGAFVGLSSLHKLDLRSN-ELSWCIED--A-------AVAFNGLPSLRKLRLTG-NQLKSIPKRAFSGLEA  417 (873)
T ss_pred             cc-chHHHHhhHHHHhhhhhhhcCcCC-eEEEEEec--c-------hhhhccchhhhheeecC-ceeeecchhhhccCcc
Confidence            65 444443  2345677777777663 23322221  0       23566789999999988 688888763 345888


Q ss_pred             cceEeecCCCCCCCCCCC-CCCCCCCceEEE
Q 048126          810 LKEIRVEGCPKLFKLPLD-SNSAKGCKVVIK  839 (863)
Q Consensus       810 L~~L~i~~C~~L~~lp~~-~~~~~L~~l~i~  839 (863)
                      |+.|++.+. -+.++... +....|++|.+.
T Consensus       418 LE~LdL~~N-aiaSIq~nAFe~m~Lk~Lv~n  447 (873)
T KOG4194|consen  418 LEHLDLGDN-AIASIQPNAFEPMELKELVMN  447 (873)
T ss_pred             cceecCCCC-cceeecccccccchhhhhhhc
Confidence            999998764 55554433 333566666654

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

Probab=99.79  E-value=1.1e-20  Score=198.85  Aligned_cols=294  Identities=21%  Similarity=0.276  Sum_probs=173.7

Q ss_pred             ccccccceEEEEeccccccccc--cCCCCCccceEEccCCccccccchhhhcCCCccEEEccCCCccccCC-ccccccCC
Q 048126          489 EIQNWRNVRRMSLMKNKIENLS--ETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLP-SGISTLVS  565 (863)
Q Consensus       489 ~~~~~~~lr~L~l~~~~~~~l~--~~~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~lp-~~i~~l~~  565 (863)
                      .+..++.+|.|+++.|.+..++  .++.-.+++.|+|++|.++.+..+.|.++.+|-+|.|++|++ ..+| ..|.+|++
T Consensus       144 ~L~~l~alrslDLSrN~is~i~~~sfp~~~ni~~L~La~N~It~l~~~~F~~lnsL~tlkLsrNri-ttLp~r~Fk~L~~  222 (873)
T KOG4194|consen  144 ELSALPALRSLDLSRNLISEIPKPSFPAKVNIKKLNLASNRITTLETGHFDSLNSLLTLKLSRNRI-TTLPQRSFKRLPK  222 (873)
T ss_pred             HHHhHhhhhhhhhhhchhhcccCCCCCCCCCceEEeeccccccccccccccccchheeeecccCcc-cccCHHHhhhcch
Confidence            3445566777777777776653  345556677777777777777666677777777777777743 3444 34555777


Q ss_pred             CCeEEccCCCcccc-chhhhcCCCCCEEecCCccccCCCcHHHhhcCCCCcEEEeeccccccCchhhHHHHHcCCccCce
Q 048126          566 LEHLDLSGTAITHL-PIELQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRILKSNVLFGGHQFLVEELMGMKHLMA  644 (863)
Q Consensus       566 L~~L~L~~~~l~~l-p~~~~~l~~L~~L~l~~~~~l~~lp~~~~~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~~  644 (863)
                      |+.|+|..|.|... -..|..|.+|+.|.+..| .+..+.++++-.|.++++|++..|.+...    .-+.+-+|+.|+.
T Consensus       223 L~~LdLnrN~irive~ltFqgL~Sl~nlklqrN-~I~kL~DG~Fy~l~kme~l~L~~N~l~~v----n~g~lfgLt~L~~  297 (873)
T KOG4194|consen  223 LESLDLNRNRIRIVEGLTFQGLPSLQNLKLQRN-DISKLDDGAFYGLEKMEHLNLETNRLQAV----NEGWLFGLTSLEQ  297 (873)
T ss_pred             hhhhhccccceeeehhhhhcCchhhhhhhhhhc-CcccccCcceeeecccceeecccchhhhh----hcccccccchhhh
Confidence            77777777766644 335667777777777666 55666666667777777777776665422    2233556677777


Q ss_pred             EEEEEcChHHHHHHhhhhhhhhcceeeeeccccCCCcccccchhhcCCCceEEEcCCcccccceeccccccccccccccC
Q 048126          645 LTITLKSWEALQELLISQELQRCTQSLFLRCFNDSKSLDIFCLACLHNLNKLYVAGRKHLEDFQMTVQRSSVNQLARGFH  724 (863)
Q Consensus       645 L~l~~~~~~~~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~l~~~~~~~~~~~~~~~l~  724 (863)
                      |+++.|.+..+.  ....++.+.|+.|+|+++ .++.++..++..++.|+.|.++.+. +..+....+        ..++
T Consensus       298 L~lS~NaI~rih--~d~WsftqkL~~LdLs~N-~i~~l~~~sf~~L~~Le~LnLs~Ns-i~~l~e~af--------~~ls  365 (873)
T KOG4194|consen  298 LDLSYNAIQRIH--IDSWSFTQKLKELDLSSN-RITRLDEGSFRVLSQLEELNLSHNS-IDHLAEGAF--------VGLS  365 (873)
T ss_pred             hccchhhhheee--cchhhhcccceeEecccc-ccccCChhHHHHHHHhhhhcccccc-hHHHHhhHH--------HHhh
Confidence            777766655443  233445567777777653 3455555666667777777777653 222222222        2366


Q ss_pred             cccEEEEeccCC---CCCC-chhhccCCCcEEEEeccccchhhccccccccccCCCCCCCCcCCccceeccCCCcccccc
Q 048126          725 SLHTVKVGFCFK---LKDL-TWLVFAPSLKSIVVLSCCNMEQIIKAEKLSQLHHHPERKKSVFAKLQFLSLENLRNLCCI  800 (863)
Q Consensus       725 ~L~~L~L~~c~~---l~~l-~~l~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~~~p~L~~L~l~~~~~L~~i  800 (863)
                      +|++|+|+.+.-   +++- ..+..+++|+.|.+.+ +.++.+.            ...+.+|++|+.|+|-+. -+.+|
T Consensus       366 sL~~LdLr~N~ls~~IEDaa~~f~gl~~LrkL~l~g-Nqlk~I~------------krAfsgl~~LE~LdL~~N-aiaSI  431 (873)
T KOG4194|consen  366 SLHKLDLRSNELSWCIEDAAVAFNGLPSLRKLRLTG-NQLKSIP------------KRAFSGLEALEHLDLGDN-AIASI  431 (873)
T ss_pred             hhhhhcCcCCeEEEEEecchhhhccchhhhheeecC-ceeeecc------------hhhhccCcccceecCCCC-cceee
Confidence            777777665421   1111 1233467777777776 4566552            235566777777777663 33333


Q ss_pred             ccCC-CCCCCcceEee
Q 048126          801 NWEA-LAFPNLKEIRV  815 (863)
Q Consensus       801 ~~~~-~~~p~L~~L~i  815 (863)
                      .... ..| .|++|.+
T Consensus       432 q~nAFe~m-~Lk~Lv~  446 (873)
T KOG4194|consen  432 QPNAFEPM-ELKELVM  446 (873)
T ss_pred             cccccccc-hhhhhhh
Confidence            3322 223 5555544

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

Probab=99.67  E-value=5.3e-18  Score=171.34  Aligned_cols=306  Identities=23%  Similarity=0.289  Sum_probs=192.1

Q ss_pred             cCcccccccceEEEEeccccccccccCCCCCccceEEccCCccccccchhhhcCCCccEEEccCCCccccCCccccccCC
Q 048126          486 EAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVS  565 (863)
Q Consensus       486 ~~~~~~~~~~lr~L~l~~~~~~~l~~~~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~  565 (863)
                      -++.+..+.++..|+++.|.+..+|+++.|+.|..|.+..|.+..+|....+++.+|.+|||++| .+.++|..++.|.+
T Consensus       198 lP~~lg~l~~L~~LyL~~Nki~~lPef~gcs~L~Elh~g~N~i~~lpae~~~~L~~l~vLDLRdN-klke~Pde~clLrs  276 (565)
T KOG0472|consen  198 LPPELGGLESLELLYLRRNKIRFLPEFPGCSLLKELHVGENQIEMLPAEHLKHLNSLLVLDLRDN-KLKEVPDEICLLRS  276 (565)
T ss_pred             CChhhcchhhhHHHHhhhcccccCCCCCccHHHHHHHhcccHHHhhHHHHhcccccceeeecccc-ccccCchHHHHhhh
Confidence            45677888899999999999999999999999999999999999999888889999999999999 67799999999999


Q ss_pred             CCeEEccCCCccccchhhhcCCCCCEEecCCccccCCCcHHHhhcCC--CCcEEEe----eccccccC-------chhhH
Q 048126          566 LEHLDLSGTAITHLPIELQKLVNLKCLNLEYMYNLNQFPRLVMSAFS--KLQVLRI----LKSNVLFG-------GHQFL  632 (863)
Q Consensus       566 L~~L~L~~~~l~~lp~~~~~l~~L~~L~l~~~~~l~~lp~~~~~~L~--~L~~L~l----~~~~~~~~-------~~~~~  632 (863)
                      |++||+++|.|+.+|.+++++ .|+.|-+.+|+ +..+-..++++-+  =|++|+-    .+-....+       .....
T Consensus       277 L~rLDlSNN~is~Lp~sLgnl-hL~~L~leGNP-lrTiRr~ii~~gT~~vLKyLrs~~~~dglS~se~~~e~~~t~~~~~  354 (565)
T KOG0472|consen  277 LERLDLSNNDISSLPYSLGNL-HLKFLALEGNP-LRTIRREIISKGTQEVLKYLRSKIKDDGLSQSEGGTETAMTLPSES  354 (565)
T ss_pred             hhhhcccCCccccCCcccccc-eeeehhhcCCc-hHHHHHHHHcccHHHHHHHHHHhhccCCCCCCcccccccCCCCCCc
Confidence            999999999999999999999 99999999983 3444443332211  1222211    00000000       00111


Q ss_pred             HHHHcCCccCceEEEEEcChHHHHHHhhhhhhhhcceeeeecc-----------------------ccCCCcccccchhh
Q 048126          633 VEELMGMKHLMALTITLKSWEALQELLISQELQRCTQSLFLRC-----------------------FNDSKSLDIFCLAC  689 (863)
Q Consensus       633 ~~~l~~L~~L~~L~l~~~~~~~~~~l~~~~~~~~~L~~L~l~~-----------------------~~~~~~~~~~~l~~  689 (863)
                      ......+.+.+.|+++....+.++.-.....-..-.+...++.                       .+....+ ...++.
T Consensus       355 ~~~~~~~i~tkiL~~s~~qlt~VPdEVfea~~~~~Vt~VnfskNqL~elPk~L~~lkelvT~l~lsnn~isfv-~~~l~~  433 (565)
T KOG0472|consen  355 FPDIYAIITTKILDVSDKQLTLVPDEVFEAAKSEIVTSVNFSKNQLCELPKRLVELKELVTDLVLSNNKISFV-PLELSQ  433 (565)
T ss_pred             ccchhhhhhhhhhcccccccccCCHHHHHHhhhcceEEEecccchHhhhhhhhHHHHHHHHHHHhhcCccccc-hHHHHh
Confidence            1122233344444444333222221111100000111112211                       1111111 133555


Q ss_pred             cCCCceEEEcCCcccccceeccccccccccccccCcccEEEEeccCCCCCCchhhccCCCcEEEEeccccchhhcccccc
Q 048126          690 LHNLNKLYVAGRKHLEDFQMTVQRSSVNQLARGFHSLHTVKVGFCFKLKDLTWLVFAPSLKSIVVLSCCNMEQIIKAEKL  769 (863)
Q Consensus       690 ~~~L~~L~l~~~~~~~~l~~~~~~~~~~~~~~~l~~L~~L~L~~c~~l~~l~~l~~l~~L~~L~l~~~~~l~~i~~~~~~  769 (863)
                      +++|..|+++++ .+.+++.+...         +..|+.|+|+.+ +...+|.+-+.+...++-+.+.+.+..+.     
T Consensus       434 l~kLt~L~L~NN-~Ln~LP~e~~~---------lv~Lq~LnlS~N-rFr~lP~~~y~lq~lEtllas~nqi~~vd-----  497 (565)
T KOG0472|consen  434 LQKLTFLDLSNN-LLNDLPEEMGS---------LVRLQTLNLSFN-RFRMLPECLYELQTLETLLASNNQIGSVD-----  497 (565)
T ss_pred             hhcceeeecccc-hhhhcchhhhh---------hhhhheeccccc-ccccchHHHhhHHHHHHHHhccccccccC-----
Confidence            677777777764 44445444432         566777777775 55555544333322222233324444431     


Q ss_pred             ccccCCCCCCCCcCCccceeccCCCccccccccCCCCCCCcceEeecCCC
Q 048126          770 SQLHHHPERKKSVFAKLQFLSLENLRNLCCINWEALAFPNLKEIRVEGCP  819 (863)
Q Consensus       770 ~~~~~~~~~~~~~~p~L~~L~l~~~~~L~~i~~~~~~~p~L~~L~i~~C~  819 (863)
                             +.....+.+|.+|++.+ ..+..+|...+.|.+|++|.+.|.|
T Consensus       498 -------~~~l~nm~nL~tLDL~n-Ndlq~IPp~LgnmtnL~hLeL~gNp  539 (565)
T KOG0472|consen  498 -------PSGLKNMRNLTTLDLQN-NDLQQIPPILGNMTNLRHLELDGNP  539 (565)
T ss_pred             -------hHHhhhhhhcceeccCC-CchhhCChhhccccceeEEEecCCc
Confidence                   23466788888888887 5778888888888999999998854

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

Probab=99.63  E-value=1.8e-18  Score=174.69  Aligned_cols=324  Identities=18%  Similarity=0.181  Sum_probs=168.7

Q ss_pred             cccccceEEEEecccccccccc-CCCCCccceEEccCCccccccchhhhcCCCccEEEccCCCccccCCccccccCCCCe
Q 048126          490 IQNWRNVRRMSLMKNKIENLSE-TPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSLEH  568 (863)
Q Consensus       490 ~~~~~~lr~L~l~~~~~~~l~~-~~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~  568 (863)
                      +..+.++..+.+.+|.+..++. ...++.|..|+...|.+..+|+. ++.|..|.-|+|..| .+..+| +|..+..|..
T Consensus       156 ~~~~~~l~~l~~~~n~l~~l~~~~i~m~~L~~ld~~~N~L~tlP~~-lg~l~~L~~LyL~~N-ki~~lP-ef~gcs~L~E  232 (565)
T KOG0472|consen  156 MVNLSKLSKLDLEGNKLKALPENHIAMKRLKHLDCNSNLLETLPPE-LGGLESLELLYLRRN-KIRFLP-EFPGCSLLKE  232 (565)
T ss_pred             HHHHHHHHHhhccccchhhCCHHHHHHHHHHhcccchhhhhcCChh-hcchhhhHHHHhhhc-ccccCC-CCCccHHHHH
Confidence            3334444444444444444322 12344444444444444444444 444444444444444 233444 4444444555


Q ss_pred             EEccCCCccccchhhh-cCCCCCEEecCCccccCCCcHHHhhcCCCCcEEEeeccccccCchhhHHHHHcCCccCceEEE
Q 048126          569 LDLSGTAITHLPIELQ-KLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRILKSNVLFGGHQFLVEELMGMKHLMALTI  647 (863)
Q Consensus       569 L~L~~~~l~~lp~~~~-~l~~L~~L~l~~~~~l~~lp~~~~~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~~L~l  647 (863)
                      |.++.|.|+.+|..++ +|.+|..||+++| .++++|.+ +..+.+|..|++++|.+.+     .+.++++| +|+.|.+
T Consensus       233 lh~g~N~i~~lpae~~~~L~~l~vLDLRdN-klke~Pde-~clLrsL~rLDlSNN~is~-----Lp~sLgnl-hL~~L~l  304 (565)
T KOG0472|consen  233 LHVGENQIEMLPAEHLKHLNSLLVLDLRDN-KLKEVPDE-ICLLRSLERLDLSNNDISS-----LPYSLGNL-HLKFLAL  304 (565)
T ss_pred             HHhcccHHHhhHHHHhcccccceeeecccc-ccccCchH-HHHhhhhhhhcccCCcccc-----CCcccccc-eeeehhh
Confidence            5555555555555555 7788888888888 77888887 7788888999988887753     56678888 8888888


Q ss_pred             EEcChHHHHHHhhh---hhhhhccee----eeeccccCC-------CcccccchhhcCCCceEEEcCCcccccceecccc
Q 048126          648 TLKSWEALQELLIS---QELQRCTQS----LFLRCFNDS-------KSLDIFCLACLHNLNKLYVAGRKHLEDFQMTVQR  713 (863)
Q Consensus       648 ~~~~~~~~~~l~~~---~~~~~~L~~----L~l~~~~~~-------~~~~~~~l~~~~~L~~L~l~~~~~~~~l~~~~~~  713 (863)
                      .++....+..-.-.   ....++|++    =.++...+.       .....+....+.+.+.|++++- .+++++.+.+.
T Consensus       305 eGNPlrTiRr~ii~~gT~~vLKyLrs~~~~dglS~se~~~e~~~t~~~~~~~~~~~~i~tkiL~~s~~-qlt~VPdEVfe  383 (565)
T KOG0472|consen  305 EGNPLRTIRREIISKGTQEVLKYLRSKIKDDGLSQSEGGTETAMTLPSESFPDIYAIITTKILDVSDK-QLTLVPDEVFE  383 (565)
T ss_pred             cCCchHHHHHHHHcccHHHHHHHHHHhhccCCCCCCcccccccCCCCCCcccchhhhhhhhhhccccc-ccccCCHHHHH
Confidence            88876655432211   111223332    111111110       0111122333456666766653 23323222111


Q ss_pred             ccc---------------------------------------c--ccccccCcccEEEEeccCCCCCCc-hhhccCCCcE
Q 048126          714 SSV---------------------------------------N--QLARGFHSLHTVKVGFCFKLKDLT-WLVFAPSLKS  751 (863)
Q Consensus       714 ~~~---------------------------------------~--~~~~~l~~L~~L~L~~c~~l~~l~-~l~~l~~L~~  751 (863)
                      .+.                                       +  .....+++|+.|+|+++ -+-++| ..+.+-.|+.
T Consensus       384 a~~~~~Vt~VnfskNqL~elPk~L~~lkelvT~l~lsnn~isfv~~~l~~l~kLt~L~L~NN-~Ln~LP~e~~~lv~Lq~  462 (565)
T KOG0472|consen  384 AAKSEIVTSVNFSKNQLCELPKRLVELKELVTDLVLSNNKISFVPLELSQLQKLTFLDLSNN-LLNDLPEEMGSLVRLQT  462 (565)
T ss_pred             HhhhcceEEEecccchHhhhhhhhHHHHHHHHHHHhhcCccccchHHHHhhhcceeeecccc-hhhhcchhhhhhhhhhe
Confidence            100                                       0  00123444445555443 233333 2334444555


Q ss_pred             EEEeccccchhhccccccccccCCCCCCCCcCCccceeccCCCccccccccC-CCCCCCcceEeecCCCCCCCCCCCCCC
Q 048126          752 IVVLSCCNMEQIIKAEKLSQLHHHPERKKSVFAKLQFLSLENLRNLCCINWE-ALAFPNLKEIRVEGCPKLFKLPLDSNS  830 (863)
Q Consensus       752 L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~~~p~L~~L~l~~~~~L~~i~~~-~~~~p~L~~L~i~~C~~L~~lp~~~~~  830 (863)
                      |+|+.. ....+             +........|+.+-.++ .++.+++.. ...|.+|..|++.+ ..+..+|.+...
T Consensus       463 LnlS~N-rFr~l-------------P~~~y~lq~lEtllas~-nqi~~vd~~~l~nm~nL~tLDL~n-Ndlq~IPp~Lgn  526 (565)
T KOG0472|consen  463 LNLSFN-RFRML-------------PECLYELQTLETLLASN-NQIGSVDPSGLKNMRNLTTLDLQN-NDLQQIPPILGN  526 (565)
T ss_pred             eccccc-ccccc-------------hHHHhhHHHHHHHHhcc-ccccccChHHhhhhhhcceeccCC-CchhhCChhhcc
Confidence            555442 22222             11111222233333332 455555543 55689999999976 689999988887


Q ss_pred             -CCCCceEEEccc
Q 048126          831 -AKGCKVVIKGEE  842 (863)
Q Consensus       831 -~~L~~l~i~~~~  842 (863)
                       .+++.++++|.+
T Consensus       527 mtnL~hLeL~gNp  539 (565)
T KOG0472|consen  527 MTNLRHLELDGNP  539 (565)
T ss_pred             ccceeEEEecCCc
Confidence             999999999864

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

Probab=99.60  E-value=3.4e-17  Score=182.17  Aligned_cols=87  Identities=30%  Similarity=0.433  Sum_probs=66.1

Q ss_pred             ceEEEEecccccccccc-CCCCCccceEEccCCccccccchhhhcCCCccEEEccCCCccccCCccccccCCCCeEEccC
Q 048126          495 NVRRMSLMKNKIENLSE-TPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSG  573 (863)
Q Consensus       495 ~lr~L~l~~~~~~~l~~-~~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~  573 (863)
                      ++.+|++++|.+..+|. +..+++|+.|+++.|.+..+|.+ .+++++|++|.|.+| ....+|.++..+.+|++|++++
T Consensus        46 ~L~~l~lsnn~~~~fp~~it~l~~L~~ln~s~n~i~~vp~s-~~~~~~l~~lnL~~n-~l~~lP~~~~~lknl~~LdlS~  123 (1081)
T KOG0618|consen   46 KLKSLDLSNNQISSFPIQITLLSHLRQLNLSRNYIRSVPSS-CSNMRNLQYLNLKNN-RLQSLPASISELKNLQYLDLSF  123 (1081)
T ss_pred             eeEEeeccccccccCCchhhhHHHHhhcccchhhHhhCchh-hhhhhcchhheeccc-hhhcCchhHHhhhcccccccch
Confidence            57788888887776653 36677888888888877777744 777888888888888 6667888888888888888888


Q ss_pred             CCccccchhh
Q 048126          574 TAITHLPIEL  583 (863)
Q Consensus       574 ~~l~~lp~~~  583 (863)
                      |.+..+|..+
T Consensus       124 N~f~~~Pl~i  133 (1081)
T KOG0618|consen  124 NHFGPIPLVI  133 (1081)
T ss_pred             hccCCCchhH
Confidence            8777666544

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

Probab=99.51  E-value=2.4e-16  Score=141.08  Aligned_cols=164  Identities=26%  Similarity=0.399  Sum_probs=141.2

Q ss_pred             ccCcccccccceEEEEecccccccc-ccCCCCCccceEEccCCccccccchhhhcCCCccEEEccCCCccccCCcccccc
Q 048126          485 TEAPEIQNWRNVRRMSLMKNKIENL-SETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTL  563 (863)
Q Consensus       485 ~~~~~~~~~~~lr~L~l~~~~~~~l-~~~~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l  563 (863)
                      .+.+.+..++.+.+|.+++|.+..+ |.+..+.+|++|++++|+++.+|.+ ++.++.||.|+++-| ....+|..+|.+
T Consensus        24 ~~~~gLf~~s~ITrLtLSHNKl~~vppnia~l~nlevln~~nnqie~lp~~-issl~klr~lnvgmn-rl~~lprgfgs~  101 (264)
T KOG0617|consen   24 EELPGLFNMSNITRLTLSHNKLTVVPPNIAELKNLEVLNLSNNQIEELPTS-ISSLPKLRILNVGMN-RLNILPRGFGSF  101 (264)
T ss_pred             hhcccccchhhhhhhhcccCceeecCCcHHHhhhhhhhhcccchhhhcChh-hhhchhhhheecchh-hhhcCccccCCC
Confidence            3456677778899999999998776 4568899999999999999999987 899999999999988 556899999999


Q ss_pred             CCCCeEEccCCCcc--ccchhhhcCCCCCEEecCCccccCCCcHHHhhcCCCCcEEEeeccccccCchhhHHHHHcCCcc
Q 048126          564 VSLEHLDLSGTAIT--HLPIELQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRILKSNVLFGGHQFLVEELMGMKH  641 (863)
Q Consensus       564 ~~L~~L~L~~~~l~--~lp~~~~~l~~L~~L~l~~~~~l~~lp~~~~~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~  641 (863)
                      +-|+.|||.+|++.  .+|..|-.++.|+.|++++| ...-+|.. +++|++||.|.+..+...     ..+.+++.|+.
T Consensus       102 p~levldltynnl~e~~lpgnff~m~tlralyl~dn-dfe~lp~d-vg~lt~lqil~lrdndll-----~lpkeig~lt~  174 (264)
T KOG0617|consen  102 PALEVLDLTYNNLNENSLPGNFFYMTTLRALYLGDN-DFEILPPD-VGKLTNLQILSLRDNDLL-----SLPKEIGDLTR  174 (264)
T ss_pred             chhhhhhccccccccccCCcchhHHHHHHHHHhcCC-CcccCChh-hhhhcceeEEeeccCchh-----hCcHHHHHHHH
Confidence            99999999999886  78999999999999999998 45888887 899999999999888774     46888999999


Q ss_pred             CceEEEEEcChHHHHH
Q 048126          642 LMALTITLKSWEALQE  657 (863)
Q Consensus       642 L~~L~l~~~~~~~~~~  657 (863)
                      |+.|+|..+....++.
T Consensus       175 lrelhiqgnrl~vlpp  190 (264)
T KOG0617|consen  175 LRELHIQGNRLTVLPP  190 (264)
T ss_pred             HHHHhcccceeeecCh
Confidence            9999998877655543

>PRK15387 E3 ubiquitin-protein ligase SspH2; Provisional

Probab=99.50  E-value=1.1e-13  Score=159.68  Aligned_cols=267  Identities=22%  Similarity=0.209  Sum_probs=160.7

Q ss_pred             HHHHHHhhhccccccEEEEcCCCcccCcccccccceEEEEeccccccccccCCCCCccceEEccCCccccccchhhhcCC
Q 048126          461 MVLWIACKIEKEKENFLVHAGLGLTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFMP  540 (863)
Q Consensus       461 ~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lr~L~l~~~~~~~l~~~~~~~~L~~L~l~~~~l~~~~~~~~~~l~  540 (863)
                      .|....+++.......+...+..++.+|... ..+++.|++.+|.+..+|..  .++|++|++++|.++.+|..    .+
T Consensus       190 ~a~~r~~~Cl~~~~~~LdLs~~~LtsLP~~l-~~~L~~L~L~~N~Lt~LP~l--p~~Lk~LdLs~N~LtsLP~l----p~  262 (788)
T PRK15387        190 AVVQKMRACLNNGNAVLNVGESGLTTLPDCL-PAHITTLVIPDNNLTSLPAL--PPELRTLEVSGNQLTSLPVL----PP  262 (788)
T ss_pred             HHHHHHHHHhcCCCcEEEcCCCCCCcCCcch-hcCCCEEEccCCcCCCCCCC--CCCCcEEEecCCccCcccCc----cc
Confidence            3333333333333445555555555555421 24788888888888877653  57888899988888887642    46


Q ss_pred             CccEEEccCCCccccCCccccccCCCCeEEccCCCccccchhhhcCCCCCEEecCCccccCCCcHHHhhcCCCCcEEEee
Q 048126          541 SLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAITHLPIELQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRIL  620 (863)
Q Consensus       541 ~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~~~l~~lp~~~~~l~~L~~L~l~~~~~l~~lp~~~~~~L~~L~~L~l~  620 (863)
                      +|+.|++++| .+..+|...   .+|+.|++++|+++.+|..   +++|+.|++++| .+..+|.. .   .+|+.|++.
T Consensus       263 sL~~L~Ls~N-~L~~Lp~lp---~~L~~L~Ls~N~Lt~LP~~---p~~L~~LdLS~N-~L~~Lp~l-p---~~L~~L~Ls  330 (788)
T PRK15387        263 GLLELSIFSN-PLTHLPALP---SGLCKLWIFGNQLTSLPVL---PPGLQELSVSDN-QLASLPAL-P---SELCKLWAY  330 (788)
T ss_pred             ccceeeccCC-chhhhhhch---hhcCEEECcCCcccccccc---ccccceeECCCC-ccccCCCC-c---ccccccccc
Confidence            7888888888 455666533   5677888888888888853   467888888887 66777652 2   356677777


Q ss_pred             ccccccCchhhHHHHHcCCccCceEEEEEcChHHHHHHhhhhhhhhcceeeeeccccCCCcccccchhhcCCCceEEEcC
Q 048126          621 KSNVLFGGHQFLVEELMGMKHLMALTITLKSWEALQELLISQELQRCTQSLFLRCFNDSKSLDIFCLACLHNLNKLYVAG  700 (863)
Q Consensus       621 ~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~~~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~  700 (863)
                      +|.+..-     + .+  ..+|+.|+++.|....++.      ...+|+.|.+.++. +..++  .+  +++|+.|++++
T Consensus       331 ~N~L~~L-----P-~l--p~~Lq~LdLS~N~Ls~LP~------lp~~L~~L~Ls~N~-L~~LP--~l--~~~L~~LdLs~  391 (788)
T PRK15387        331 NNQLTSL-----P-TL--PSGLQELSVSDNQLASLPT------LPSELYKLWAYNNR-LTSLP--AL--PSGLKELIVSG  391 (788)
T ss_pred             cCccccc-----c-cc--ccccceEecCCCccCCCCC------CCcccceehhhccc-cccCc--cc--ccccceEEecC
Confidence            7655421     1 01  1367777777766554432      12356666665532 22221  11  24677777776


Q ss_pred             CcccccceeccccccccccccccCcccEEEEeccCCCCCCchhhccCCCcEEEEeccccchhhccccccccccCCCCCCC
Q 048126          701 RKHLEDFQMTVQRSSVNQLARGFHSLHTVKVGFCFKLKDLTWLVFAPSLKSIVVLSCCNMEQIIKAEKLSQLHHHPERKK  780 (863)
Q Consensus       701 ~~~~~~l~~~~~~~~~~~~~~~l~~L~~L~L~~c~~l~~l~~l~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~  780 (863)
                      |. ++.++.            .+++|+.|+++++ .++.+|.+  +.+|+.|++++ +.++.+             +..+
T Consensus       392 N~-Lt~LP~------------l~s~L~~LdLS~N-~LssIP~l--~~~L~~L~Ls~-NqLt~L-------------P~sl  441 (788)
T PRK15387        392 NR-LTSLPV------------LPSELKELMVSGN-RLTSLPML--PSGLLSLSVYR-NQLTRL-------------PESL  441 (788)
T ss_pred             Cc-ccCCCC------------cccCCCEEEccCC-cCCCCCcc--hhhhhhhhhcc-Cccccc-------------ChHH
Confidence            53 332211            1356777777776 45656532  34666677766 335544             3345


Q ss_pred             CcCCccceeccCCCc
Q 048126          781 SVFAKLQFLSLENLR  795 (863)
Q Consensus       781 ~~~p~L~~L~l~~~~  795 (863)
                      ..+++|+.|+|++++
T Consensus       442 ~~L~~L~~LdLs~N~  456 (788)
T PRK15387        442 IHLSSETTVNLEGNP  456 (788)
T ss_pred             hhccCCCeEECCCCC
Confidence            566777777777643

>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]

Probab=99.49  E-value=2.5e-14  Score=168.91  Aligned_cols=322  Identities=23%  Similarity=0.248  Sum_probs=207.1

Q ss_pred             EEEEcCCCcccCcccccccceEEEEecccc--cccccc--CCCCCccceEEccCC-ccccccchhhhcCCCccEEEccCC
Q 048126          476 FLVHAGLGLTEAPEIQNWRNVRRMSLMKNK--IENLSE--TPTCPHLLSLFLSDN-SLKMIAGDFFQFMPSLRVFNMSNN  550 (863)
Q Consensus       476 ~~~~~~~~~~~~~~~~~~~~lr~L~l~~~~--~~~l~~--~~~~~~L~~L~l~~~-~l~~~~~~~~~~l~~L~~L~L~~~  550 (863)
                      .++.........+....+++++.|-+..|.  +..++.  +..++.|++|+|++| .+..+|.. ++++-+||||+|+++
T Consensus       527 r~s~~~~~~~~~~~~~~~~~L~tLll~~n~~~l~~is~~ff~~m~~LrVLDLs~~~~l~~LP~~-I~~Li~LryL~L~~t  605 (889)
T KOG4658|consen  527 RMSLMNNKIEHIAGSSENPKLRTLLLQRNSDWLLEISGEFFRSLPLLRVLDLSGNSSLSKLPSS-IGELVHLRYLDLSDT  605 (889)
T ss_pred             EEEEeccchhhccCCCCCCccceEEEeecchhhhhcCHHHHhhCcceEEEECCCCCccCcCChH-HhhhhhhhcccccCC
Confidence            344444444444444555689999999885  555555  678999999999998 66777766 899999999999999


Q ss_pred             CccccCCccccccCCCCeEEccCC-CccccchhhhcCCCCCEEecCCccccCCCcHHHhhcCCCCcEEEeeccccccCch
Q 048126          551 HLLWKLPSGISTLVSLEHLDLSGT-AITHLPIELQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRILKSNVLFGGH  629 (863)
Q Consensus       551 ~~~~~lp~~i~~l~~L~~L~L~~~-~l~~lp~~~~~l~~L~~L~l~~~~~l~~lp~~~~~~L~~L~~L~l~~~~~~~~~~  629 (863)
                       .+..+|.++++|..|.+||+..+ .+..+|.....|.+|++|.+....  .......++.+.+|++|....+....   
T Consensus       606 -~I~~LP~~l~~Lk~L~~Lnl~~~~~l~~~~~i~~~L~~Lr~L~l~~s~--~~~~~~~l~el~~Le~L~~ls~~~~s---  679 (889)
T KOG4658|consen  606 -GISHLPSGLGNLKKLIYLNLEVTGRLESIPGILLELQSLRVLRLPRSA--LSNDKLLLKELENLEHLENLSITISS---  679 (889)
T ss_pred             -CccccchHHHHHHhhheeccccccccccccchhhhcccccEEEeeccc--cccchhhHHhhhcccchhhheeecch---
Confidence             67799999999999999999998 455667777779999999997652  12222235555666666655443321   


Q ss_pred             hhHHHHHcCCccCceEEEEEc-ChHHHHHHhhhhhhhhcceeeeeccccCCCccc--c--cchh-hcCCCceEEEcCCcc
Q 048126          630 QFLVEELMGMKHLMALTITLK-SWEALQELLISQELQRCTQSLFLRCFNDSKSLD--I--FCLA-CLHNLNKLYVAGRKH  703 (863)
Q Consensus       630 ~~~~~~l~~L~~L~~L~l~~~-~~~~~~~l~~~~~~~~~L~~L~l~~~~~~~~~~--~--~~l~-~~~~L~~L~l~~~~~  703 (863)
                      ......+..++.|+++..... ................+|+.|.+.+|...+...  .  .... .++++..+.+.+|..
T Consensus       680 ~~~~e~l~~~~~L~~~~~~l~~~~~~~~~~~~~~~~l~~L~~L~i~~~~~~e~~~~~~~~~~~~~~f~~l~~~~~~~~~~  759 (889)
T KOG4658|consen  680 VLLLEDLLGMTRLRSLLQSLSIEGCSKRTLISSLGSLGNLEELSILDCGISEIVIEWEESLIVLLCFPNLSKVSILNCHM  759 (889)
T ss_pred             hHhHhhhhhhHHHHHHhHhhhhcccccceeecccccccCcceEEEEcCCCchhhcccccccchhhhHHHHHHHHhhcccc
Confidence            123445555555553332211 001112222233344689999999987643221  0  0111 245777777888877


Q ss_pred             cccceeccccccccccccccCcccEEEEeccCCCCCCc-hhhccCCCcEEEEeccccchhhccccccccccCCCCCCCCc
Q 048126          704 LEDFQMTVQRSSVNQLARGFHSLHTVKVGFCFKLKDLT-WLVFAPSLKSIVVLSCCNMEQIIKAEKLSQLHHHPERKKSV  782 (863)
Q Consensus       704 ~~~l~~~~~~~~~~~~~~~l~~L~~L~L~~c~~l~~l~-~l~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~~  782 (863)
                      ..+  +.|.        ...|+|+.|.+..|..++.+. ....+..++.+.+.. +.+.....           ....+.
T Consensus       760 ~r~--l~~~--------~f~~~L~~l~l~~~~~~e~~i~~~k~~~~l~~~i~~f-~~~~~l~~-----------~~~l~~  817 (889)
T KOG4658|consen  760 LRD--LTWL--------LFAPHLTSLSLVSCRLLEDIIPKLKALLELKELILPF-NKLEGLRM-----------LCSLGG  817 (889)
T ss_pred             ccc--cchh--------hccCcccEEEEecccccccCCCHHHHhhhcccEEecc-ccccccee-----------eecCCC
Confidence            774  3433        237999999999998887754 444555565543333 22222200           123445


Q ss_pred             CCccceeccCCCccccccccCC----CCCCCcceEeecCC-CCCCCCCCC
Q 048126          783 FAKLQFLSLENLRNLCCINWEA----LAFPNLKEIRVEGC-PKLFKLPLD  827 (863)
Q Consensus       783 ~p~L~~L~l~~~~~L~~i~~~~----~~~p~L~~L~i~~C-~~L~~lp~~  827 (863)
                      ||++..+.+... .|..+..+.    ..+|.+.++.+.+| +++..+|.+
T Consensus       818 l~~i~~~~l~~~-~l~~~~ve~~p~l~~~P~~~~~~i~~~~~~~~~~~~~  866 (889)
T KOG4658|consen  818 LPQLYWLPLSFL-KLEELIVEECPKLGKLPLLSTLTIVGCEEKLKEYPDG  866 (889)
T ss_pred             CceeEecccCcc-chhheehhcCcccccCccccccceeccccceeecCCc
Confidence            666666665552 355554444    56899999999997 899999976

>PRK15387 E3 ubiquitin-protein ligase SspH2; Provisional

Probab=99.46  E-value=4.3e-13  Score=154.96  Aligned_cols=255  Identities=22%  Similarity=0.208  Sum_probs=187.0

Q ss_pred             ceEEEEeccccccccccCCCCCccceEEccCCccccccchhhhcCCCccEEEccCCCccccCCccccccCCCCeEEccCC
Q 048126          495 NVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGT  574 (863)
Q Consensus       495 ~lr~L~l~~~~~~~l~~~~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~~  574 (863)
                      .-..|+++.+.+..+|... .++|+.|++.+|.++.+|..    +++|++|+|++| .+..+|..   .++|+.|++++|
T Consensus       202 ~~~~LdLs~~~LtsLP~~l-~~~L~~L~L~~N~Lt~LP~l----p~~Lk~LdLs~N-~LtsLP~l---p~sL~~L~Ls~N  272 (788)
T PRK15387        202 GNAVLNVGESGLTTLPDCL-PAHITTLVIPDNNLTSLPAL----PPELRTLEVSGN-QLTSLPVL---PPGLLELSIFSN  272 (788)
T ss_pred             CCcEEEcCCCCCCcCCcch-hcCCCEEEccCCcCCCCCCC----CCCCcEEEecCC-ccCcccCc---ccccceeeccCC
Confidence            4567889999888877632 35899999999999988752    689999999999 55577753   468899999999


Q ss_pred             CccccchhhhcCCCCCEEecCCccccCCCcHHHhhcCCCCcEEEeeccccccCchhhHHHHHcCCccCceEEEEEcChHH
Q 048126          575 AITHLPIELQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRILKSNVLFGGHQFLVEELMGMKHLMALTITLKSWEA  654 (863)
Q Consensus       575 ~l~~lp~~~~~l~~L~~L~l~~~~~l~~lp~~~~~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~~  654 (863)
                      .++.+|...   .+|+.|++++| .++.+|..    +++|+.|++++|.+..-     +.   -..+|+.|.+..|....
T Consensus       273 ~L~~Lp~lp---~~L~~L~Ls~N-~Lt~LP~~----p~~L~~LdLS~N~L~~L-----p~---lp~~L~~L~Ls~N~L~~  336 (788)
T PRK15387        273 PLTHLPALP---SGLCKLWIFGN-QLTSLPVL----PPGLQELSVSDNQLASL-----PA---LPSELCKLWAYNNQLTS  336 (788)
T ss_pred             chhhhhhch---hhcCEEECcCC-cccccccc----ccccceeECCCCccccC-----CC---CcccccccccccCcccc
Confidence            999888633   67889999998 67888862    47899999998876531     11   12356777787776655


Q ss_pred             HHHHhhhhhhhhcceeeeeccccCCCcccccchhhcCCCceEEEcCCcccccceeccccccccccccccCcccEEEEecc
Q 048126          655 LQELLISQELQRCTQSLFLRCFNDSKSLDIFCLACLHNLNKLYVAGRKHLEDFQMTVQRSSVNQLARGFHSLHTVKVGFC  734 (863)
Q Consensus       655 ~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~l~~~~~~~~~~~~~~~l~~L~~L~L~~c  734 (863)
                      ++.      ++.+|+.|+++++. +..++  .+  .++|+.|++++|. +..++ .           .+++|+.|+|++|
T Consensus       337 LP~------lp~~Lq~LdLS~N~-Ls~LP--~l--p~~L~~L~Ls~N~-L~~LP-~-----------l~~~L~~LdLs~N  392 (788)
T PRK15387        337 LPT------LPSGLQELSVSDNQ-LASLP--TL--PSELYKLWAYNNR-LTSLP-A-----------LPSGLKELIVSGN  392 (788)
T ss_pred             ccc------cccccceEecCCCc-cCCCC--CC--Ccccceehhhccc-cccCc-c-----------cccccceEEecCC
Confidence            443      23589999998754 33332  12  3688899988764 43332 1           2468999999997


Q ss_pred             CCCCCCchhhccCCCcEEEEeccccchhhccccccccccCCCCCCCCcCCccceeccCCCccccccccCCCCCCCcceEe
Q 048126          735 FKLKDLTWLVFAPSLKSIVVLSCCNMEQIIKAEKLSQLHHHPERKKSVFAKLQFLSLENLRNLCCINWEALAFPNLKEIR  814 (863)
Q Consensus       735 ~~l~~l~~l~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~~~p~L~~L~l~~~~~L~~i~~~~~~~p~L~~L~  814 (863)
                       .++.+|..  .++|+.|+++++. ++.+             +.   .+.+|+.|++++ .+++.+|.....+++|+.|+
T Consensus       393 -~Lt~LP~l--~s~L~~LdLS~N~-LssI-------------P~---l~~~L~~L~Ls~-NqLt~LP~sl~~L~~L~~Ld  451 (788)
T PRK15387        393 -RLTSLPVL--PSELKELMVSGNR-LTSL-------------PM---LPSGLLSLSVYR-NQLTRLPESLIHLSSETTVN  451 (788)
T ss_pred             -cccCCCCc--ccCCCEEEccCCc-CCCC-------------Cc---chhhhhhhhhcc-CcccccChHHhhccCCCeEE
Confidence             67777753  4789999999954 5544             11   245788999988 56888888777899999999


Q ss_pred             ecCCC
Q 048126          815 VEGCP  819 (863)
Q Consensus       815 i~~C~  819 (863)
                      +++++
T Consensus       452 Ls~N~  456 (788)
T PRK15387        452 LEGNP  456 (788)
T ss_pred             CCCCC
Confidence            98864

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

Probab=99.43  E-value=6.1e-15  Score=164.50  Aligned_cols=300  Identities=21%  Similarity=0.228  Sum_probs=174.2

Q ss_pred             cceEEEEeccccccccccCCCCCccceEEccCCccccccchhhhcCCCccEEEccCCCccccCCccccccCCCCeEEccC
Q 048126          494 RNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSG  573 (863)
Q Consensus       494 ~~lr~L~l~~~~~~~l~~~~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~  573 (863)
                      +++++|...+|.+..+...+--.+|.+++++.|.+..+| ++++.+.+|..|+..+| .+..+|..+..+.+|++|++..
T Consensus       219 ~~l~~L~a~~n~l~~~~~~p~p~nl~~~dis~n~l~~lp-~wi~~~~nle~l~~n~N-~l~~lp~ri~~~~~L~~l~~~~  296 (1081)
T KOG0618|consen  219 PSLTALYADHNPLTTLDVHPVPLNLQYLDISHNNLSNLP-EWIGACANLEALNANHN-RLVALPLRISRITSLVSLSAAY  296 (1081)
T ss_pred             cchheeeeccCcceeeccccccccceeeecchhhhhcch-HHHHhcccceEecccch-hHHhhHHHHhhhhhHHHHHhhh
Confidence            356677777776654444455567777888888777777 66777888888888777 4467777777777888888888


Q ss_pred             CCccccchhhhcCCCCCEEecCCccccCCCcHHHhhcCCC-CcEEEeeccccccCchhhHHHHHcCCccCceEEEEEcCh
Q 048126          574 TAITHLPIELQKLVNLKCLNLEYMYNLNQFPRLVMSAFSK-LQVLRILKSNVLFGGHQFLVEELMGMKHLMALTITLKSW  652 (863)
Q Consensus       574 ~~l~~lp~~~~~l~~L~~L~l~~~~~l~~lp~~~~~~L~~-L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~  652 (863)
                      |.++.+|+....++.|++|+|..| .+..+|+..+..+.. |+.|..+.+.+..-.   .. +=..+..|+.|.+..|..
T Consensus       297 nel~yip~~le~~~sL~tLdL~~N-~L~~lp~~~l~v~~~~l~~ln~s~n~l~~lp---~~-~e~~~~~Lq~LylanN~L  371 (1081)
T KOG0618|consen  297 NELEYIPPFLEGLKSLRTLDLQSN-NLPSLPDNFLAVLNASLNTLNVSSNKLSTLP---SY-EENNHAALQELYLANNHL  371 (1081)
T ss_pred             hhhhhCCCcccccceeeeeeehhc-cccccchHHHhhhhHHHHHHhhhhccccccc---cc-cchhhHHHHHHHHhcCcc
Confidence            888878777777788888888776 667777654443332 555554443332110   00 000112233333333322


Q ss_pred             H--HHHHHhhhhhhhhcceeeeeccccCCCcccccchhhcCCCceEEEcCCcccccceeccccccccccccccCcccEEE
Q 048126          653 E--ALQELLISQELQRCTQSLFLRCFNDSKSLDIFCLACLHNLNKLYVAGRKHLEDFQMTVQRSSVNQLARGFHSLHTVK  730 (863)
Q Consensus       653 ~--~~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~l~~~~~~~~~~~~~~~l~~L~~L~  730 (863)
                      +  .++.+    ....+|+.|+|+++ .+..++-..+.+++.|+.|+++||. ++.++...         ..++.|+.|.
T Consensus       372 td~c~p~l----~~~~hLKVLhLsyN-rL~~fpas~~~kle~LeeL~LSGNk-L~~Lp~tv---------a~~~~L~tL~  436 (1081)
T KOG0618|consen  372 TDSCFPVL----VNFKHLKVLHLSYN-RLNSFPASKLRKLEELEELNLSGNK-LTTLPDTV---------ANLGRLHTLR  436 (1081)
T ss_pred             cccchhhh----ccccceeeeeeccc-ccccCCHHHHhchHHhHHHhcccch-hhhhhHHH---------HhhhhhHHHh
Confidence            1  11211    11236666666653 2344444556677777777777753 44344332         2367777777


Q ss_pred             EeccCCCCCCchhhccCCCcEEEEeccccchhhccccccccccCCCCCCCCcCCccceeccCCCccccccccCCCCCCCc
Q 048126          731 VGFCFKLKDLTWLVFAPSLKSIVVLSCCNMEQIIKAEKLSQLHHHPERKKSVFAKLQFLSLENLRNLCCINWEALAFPNL  810 (863)
Q Consensus       731 L~~c~~l~~l~~l~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~~~p~L~~L~l~~~~~L~~i~~~~~~~p~L  810 (863)
                      ..++ .+..+|.+.++|.|+.++++. +.++.+..           +.... -|+|++|++++...+   ..+...|+.+
T Consensus       437 ahsN-~l~~fPe~~~l~qL~~lDlS~-N~L~~~~l-----------~~~~p-~p~LkyLdlSGN~~l---~~d~~~l~~l  499 (1081)
T KOG0618|consen  437 AHSN-QLLSFPELAQLPQLKVLDLSC-NNLSEVTL-----------PEALP-SPNLKYLDLSGNTRL---VFDHKTLKVL  499 (1081)
T ss_pred             hcCC-ceeechhhhhcCcceEEeccc-chhhhhhh-----------hhhCC-CcccceeeccCCccc---ccchhhhHHh
Confidence            7664 567777777888888888875 55666532           11111 278888888876542   1223335555


Q ss_pred             ceEeecCCCCCCCCCCCCCCCCC
Q 048126          811 KEIRVEGCPKLFKLPLDSNSAKG  833 (863)
Q Consensus       811 ~~L~i~~C~~L~~lp~~~~~~~L  833 (863)
                      +.+...+. .+...|.+.....+
T Consensus       500 ~~l~~~~i-~~~~~~d~~~n~~~  521 (1081)
T KOG0618|consen  500 KSLSQMDI-TLNNTPDGNVNAFL  521 (1081)
T ss_pred             hhhhheec-ccCCCCccccceeh
Confidence            55544332 22344444433333

>PRK15370 E3 ubiquitin-protein ligase SlrP; Provisional

Probab=99.36  E-value=2.1e-12  Score=150.34  Aligned_cols=117  Identities=21%  Similarity=0.369  Sum_probs=57.4

Q ss_pred             ceEEEEeccccccccccCCCCCccceEEccCCccccccchhhhcCCCccEEEccCCCccccCCccccccCCCCeEEccCC
Q 048126          495 NVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGT  574 (863)
Q Consensus       495 ~lr~L~l~~~~~~~l~~~~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~~  574 (863)
                      .++.|++.+|.+..+|.. .+++|+.|++++|.++.+|..+   ..+|+.|+|++| .+..+|..+.  .+|++|++++|
T Consensus       200 ~L~~L~Ls~N~LtsLP~~-l~~nL~~L~Ls~N~LtsLP~~l---~~~L~~L~Ls~N-~L~~LP~~l~--s~L~~L~Ls~N  272 (754)
T PRK15370        200 QITTLILDNNELKSLPEN-LQGNIKTLYANSNQLTSIPATL---PDTIQEMELSIN-RITELPERLP--SALQSLDLFHN  272 (754)
T ss_pred             CCcEEEecCCCCCcCChh-hccCCCEEECCCCccccCChhh---hccccEEECcCC-ccCcCChhHh--CCCCEEECcCC
Confidence            455555555555554432 1245555555555555555432   124555555555 2334554443  34555555555


Q ss_pred             CccccchhhhcCCCCCEEecCCccccCCCcHHHhhcCCCCcEEEeecccc
Q 048126          575 AITHLPIELQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRILKSNV  624 (863)
Q Consensus       575 ~l~~lp~~~~~l~~L~~L~l~~~~~l~~lp~~~~~~L~~L~~L~l~~~~~  624 (863)
                      +++.+|..+.  .+|++|++++| .++.+|.. +.  ++|+.|++.+|.+
T Consensus       273 ~L~~LP~~l~--~sL~~L~Ls~N-~Lt~LP~~-lp--~sL~~L~Ls~N~L  316 (754)
T PRK15370        273 KISCLPENLP--EELRYLSVYDN-SIRTLPAH-LP--SGITHLNVQSNSL  316 (754)
T ss_pred             ccCccccccC--CCCcEEECCCC-ccccCccc-ch--hhHHHHHhcCCcc
Confidence            5555554443  35555555555 44445432 11  2445555554443

>PRK15370 E3 ubiquitin-protein ligase SlrP; Provisional

Probab=99.36  E-value=1.2e-12  Score=152.44  Aligned_cols=247  Identities=18%  Similarity=0.194  Sum_probs=158.1

Q ss_pred             ceEEEEeccccccccccCCCCCccceEEccCCccccccchhhhcCCCccEEEccCCCccccCCccccccCCCCeEEccCC
Q 048126          495 NVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGT  574 (863)
Q Consensus       495 ~lr~L~l~~~~~~~l~~~~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~~  574 (863)
                      +...|.+.++.+..+|.. -.++|+.|++++|.++.+|...+   .+|++|++++| .+..+|..+.  .+|+.|+|++|
T Consensus       179 ~~~~L~L~~~~LtsLP~~-Ip~~L~~L~Ls~N~LtsLP~~l~---~nL~~L~Ls~N-~LtsLP~~l~--~~L~~L~Ls~N  251 (754)
T PRK15370        179 NKTELRLKILGLTTIPAC-IPEQITTLILDNNELKSLPENLQ---GNIKTLYANSN-QLTSIPATLP--DTIQEMELSIN  251 (754)
T ss_pred             CceEEEeCCCCcCcCCcc-cccCCcEEEecCCCCCcCChhhc---cCCCEEECCCC-ccccCChhhh--ccccEEECcCC
Confidence            456788888887777652 23689999999999999987643   58999999999 4567887664  47999999999


Q ss_pred             CccccchhhhcCCCCCEEecCCccccCCCcHHHhhcCCCCcEEEeeccccccCchhhHHHHHcCCccCceEEEEEcChHH
Q 048126          575 AITHLPIELQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRILKSNVLFGGHQFLVEELMGMKHLMALTITLKSWEA  654 (863)
Q Consensus       575 ~l~~lp~~~~~l~~L~~L~l~~~~~l~~lp~~~~~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~~  654 (863)
                      .+..+|..+.  .+|+.|++++| .+..+|.. +  .++|+.|++++|.+..-     +..+.  ++|+.|+++.|....
T Consensus       252 ~L~~LP~~l~--s~L~~L~Ls~N-~L~~LP~~-l--~~sL~~L~Ls~N~Lt~L-----P~~lp--~sL~~L~Ls~N~Lt~  318 (754)
T PRK15370        252 RITELPERLP--SALQSLDLFHN-KISCLPEN-L--PEELRYLSVYDNSIRTL-----PAHLP--SGITHLNVQSNSLTA  318 (754)
T ss_pred             ccCcCChhHh--CCCCEEECcCC-ccCccccc-c--CCCCcEEECCCCccccC-----cccch--hhHHHHHhcCCcccc
Confidence            9999998775  58999999987 67888875 3  25899999998876431     11111  346666666665543


Q ss_pred             HHHHhhhhhhhhcceeeeeccccCCCcccccchhhcCCCceEEEcCCcccccceeccccccccccccccCcccEEEEecc
Q 048126          655 LQELLISQELQRCTQSLFLRCFNDSKSLDIFCLACLHNLNKLYVAGRKHLEDFQMTVQRSSVNQLARGFHSLHTVKVGFC  734 (863)
Q Consensus       655 ~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~l~~~~~~~~~~~~~~~l~~L~~L~L~~c  734 (863)
                      ++.     ...++|+.|.+.++.- +.++ ..+  +++|+.|++++|. +..++ ..          .+++|+.|+|++|
T Consensus       319 LP~-----~l~~sL~~L~Ls~N~L-t~LP-~~l--~~sL~~L~Ls~N~-L~~LP-~~----------lp~~L~~LdLs~N  377 (754)
T PRK15370        319 LPE-----TLPPGLKTLEAGENAL-TSLP-ASL--PPELQVLDVSKNQ-ITVLP-ET----------LPPTITTLDVSRN  377 (754)
T ss_pred             CCc-----cccccceeccccCCcc-ccCC-hhh--cCcccEEECCCCC-CCcCC-hh----------hcCCcCEEECCCC
Confidence            321     1224677777766542 2222 112  2577777777764 33222 11          1356777777776


Q ss_pred             CCCCCCchhhccCCCcEEEEeccccchhhccccccccccCCCCCCCCcCCccceeccCCC
Q 048126          735 FKLKDLTWLVFAPSLKSIVVLSCCNMEQIIKAEKLSQLHHHPERKKSVFAKLQFLSLENL  794 (863)
Q Consensus       735 ~~l~~l~~l~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~~~p~L~~L~l~~~  794 (863)
                       .++.+|.- ..++|+.|+++++ .+..+...     +    +.....+|++..|.+.+.
T Consensus       378 -~Lt~LP~~-l~~sL~~LdLs~N-~L~~LP~s-----l----~~~~~~~~~l~~L~L~~N  425 (754)
T PRK15370        378 -ALTNLPEN-LPAALQIMQASRN-NLVRLPES-----L----PHFRGEGPQPTRIIVEYN  425 (754)
T ss_pred             -cCCCCCHh-HHHHHHHHhhccC-CcccCchh-----H----HHHhhcCCCccEEEeeCC
Confidence             45555531 1235777777764 34433110     0    112233466677777654

>PRK04841 transcriptional regulator MalT; Provisional

Probab=99.35  E-value=7.5e-11  Score=146.37  Aligned_cols=294  Identities=16%  Similarity=0.229  Sum_probs=180.0

Q ss_pred             CCCccchhHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCC-ccCHHHHHHHHHHHh
Q 048126          125 CEPTVGLESMFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSK-DLQLEKIQEKIGRRI  203 (863)
Q Consensus       125 ~~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~-~~~~~~~~~~i~~~l  203 (863)
                      ...+|-|..-.+.+.+   ....+++.|+|++|.||||++..+....     .  .++|+++.. +.+...+...++..+
T Consensus        13 ~~~~~~R~rl~~~l~~---~~~~~~~~v~apaG~GKTtl~~~~~~~~-----~--~~~w~~l~~~d~~~~~f~~~l~~~l   82 (903)
T PRK04841         13 LHNTVVRERLLAKLSG---ANNYRLVLVTSPAGYGKTTLISQWAAGK-----N--NLGWYSLDESDNQPERFASYLIAAL   82 (903)
T ss_pred             ccccCcchHHHHHHhc---ccCCCeEEEECCCCCCHHHHHHHHHHhC-----C--CeEEEecCcccCCHHHHHHHHHHHH
Confidence            3567888766665543   1367899999999999999999988543     1  589999964 446666777777777


Q ss_pred             CCCCcc-----------ccCCChhHHHHHHHHHhc--cCcEEEEEeccCCccc--cc-cccCCCCCCCCCcEEEEecCch
Q 048126          204 GFLDES-----------WKNGSLEDKASDILRILS--KKKFLLLLDDIWERVD--LT-KVGVPFPDPENKSKIVFTTRFL  267 (863)
Q Consensus       204 ~~~~~~-----------~~~~~~~~~~~~l~~~l~--~kr~LlVlDdv~~~~~--~~-~~~~~l~~~~~gs~IivTtR~~  267 (863)
                      +.....           ....+.......+...+.  +.+++|||||+....+  .. .+...+.....+.++|||||..
T Consensus        83 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~lvlDD~h~~~~~~~~~~l~~l~~~~~~~~~lv~~sR~~  162 (903)
T PRK04841         83 QQATNGHCSKSEALAQKRQYASLSSLFAQLFIELADWHQPLYLVIDDYHLITNPEIHEAMRFFLRHQPENLTLVVLSRNL  162 (903)
T ss_pred             HHhcCcccchhhhhhccCCcCCHHHHHHHHHHHHhcCCCCEEEEEeCcCcCCChHHHHHHHHHHHhCCCCeEEEEEeCCC
Confidence            421110           000122233333433333  5789999999976432  11 2222222334567898999984


Q ss_pred             hhhh--ccc-ccceEeec----CCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCCchhHHHHHHHHhcCCCChh
Q 048126          268 EICG--AMK-AHEFLKVE----CLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGLPLALITIGRAMTCKKTTQ  340 (863)
Q Consensus       268 ~v~~--~~~-~~~~~~l~----~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPlai~~~~~~l~~~~~~~  340 (863)
                      .-..  ... ......+.    +|+.+|+.++|....+...      -.+...+|++.|+|.|+++..++..+.......
T Consensus       163 ~~~~~~~l~~~~~~~~l~~~~l~f~~~e~~~ll~~~~~~~~------~~~~~~~l~~~t~Gwp~~l~l~~~~~~~~~~~~  236 (903)
T PRK04841        163 PPLGIANLRVRDQLLEIGSQQLAFDHQEAQQFFDQRLSSPI------EAAESSRLCDDVEGWATALQLIALSARQNNSSL  236 (903)
T ss_pred             CCCchHhHHhcCcceecCHHhCCCCHHHHHHHHHhccCCCC------CHHHHHHHHHHhCChHHHHHHHHHHHhhCCCch
Confidence            2211  111 12234555    9999999999987654321      245578999999999999999887775432110


Q ss_pred             HHHHHHHHHHhcCCCCCCC-cchhhhhh-hhhcCCCCchhhHHHHhHhccCCCCccccHHhHHHHHHhcCCCCCcccchh
Q 048126          341 EWHHAIQILRRSSSEFPGM-GKEVYPLL-KFSYDSLPDDTIRSCFLYCGLFPEDYRIRKSELIDCWIGEGFLDQYDRSGA  418 (863)
Q Consensus       341 ~w~~~l~~l~~~~~~~~~~-~~~~~~~l-~~sy~~L~~~~~k~cfl~~~~fp~~~~i~~~~li~~w~a~g~i~~~~~~~~  418 (863)
                        ......+       .+. ...+...+ .-.++.||+ ..+..++..|+++   .++.+ +..     .+..       
T Consensus       237 --~~~~~~~-------~~~~~~~~~~~l~~~v~~~l~~-~~~~~l~~~a~~~---~~~~~-l~~-----~l~~-------  290 (903)
T PRK04841        237 --HDSARRL-------AGINASHLSDYLVEEVLDNVDL-ETRHFLLRCSVLR---SMNDA-LIV-----RVTG-------  290 (903)
T ss_pred             --hhhhHhh-------cCCCchhHHHHHHHHHHhcCCH-HHHHHHHHhcccc---cCCHH-HHH-----HHcC-------
Confidence              0111111       111 12344433 334789999 7999999999987   23322 222     1111       


Q ss_pred             hhhHHHHHHHHHHhccccccccccccccccceEEeehhHHHHHHHHHH
Q 048126          419 YNEGYYIIGILLHACLLEEEEGDIAEEKSGEHVVKMHDVIRDMVLWIA  466 (863)
Q Consensus       419 ~~~~~~~~~~L~~~sll~~~~~~~~~~~~~~~~~~mHdli~d~a~~~~  466 (863)
                      .+.+...+++|.+.+++....      ++....|++|++++++.+...
T Consensus       291 ~~~~~~~L~~l~~~~l~~~~~------~~~~~~yr~H~L~r~~l~~~l  332 (903)
T PRK04841        291 EENGQMRLEELERQGLFIQRM------DDSGEWFRYHPLFASFLRHRC  332 (903)
T ss_pred             CCcHHHHHHHHHHCCCeeEee------cCCCCEEehhHHHHHHHHHHH
Confidence            223466799999999975321      011347889999999988764

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

Probab=99.34  E-value=4.3e-14  Score=126.81  Aligned_cols=146  Identities=27%  Similarity=0.442  Sum_probs=128.4

Q ss_pred             cCcccccccceEEEEecccccccccc-CCCCCccceEEccCCccccccchhhhcCCCccEEEccCCCcc-ccCCcccccc
Q 048126          486 EAPEIQNWRNVRRMSLMKNKIENLSE-TPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLL-WKLPSGISTL  563 (863)
Q Consensus       486 ~~~~~~~~~~lr~L~l~~~~~~~l~~-~~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~-~~lp~~i~~l  563 (863)
                      .+|.+..+.++..|++.+|.++.+|. ++.++.|+.|++.-|.+..+|.+ |+.++.|.+|||++|... ..+|..+..|
T Consensus        48 vppnia~l~nlevln~~nnqie~lp~~issl~klr~lnvgmnrl~~lprg-fgs~p~levldltynnl~e~~lpgnff~m  126 (264)
T KOG0617|consen   48 VPPNIAELKNLEVLNLSNNQIEELPTSISSLPKLRILNVGMNRLNILPRG-FGSFPALEVLDLTYNNLNENSLPGNFFYM  126 (264)
T ss_pred             cCCcHHHhhhhhhhhcccchhhhcChhhhhchhhhheecchhhhhcCccc-cCCCchhhhhhccccccccccCCcchhHH
Confidence            34678888999999999999999865 48999999999999999888877 899999999999999654 4599999999


Q ss_pred             CCCCeEEccCCCccccchhhhcCCCCCEEecCCccccCCCcHHHhhcCCCCcEEEeeccccccCchhhHHHHHcCC
Q 048126          564 VSLEHLDLSGTAITHLPIELQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRILKSNVLFGGHQFLVEELMGM  639 (863)
Q Consensus       564 ~~L~~L~L~~~~l~~lp~~~~~l~~L~~L~l~~~~~l~~lp~~~~~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~L  639 (863)
                      ..|+.|.|+.|.+..+|..+++|++||.|.+++| .+-.+|.. ++.|+.|++|++.++....     .+.+++++
T Consensus       127 ~tlralyl~dndfe~lp~dvg~lt~lqil~lrdn-dll~lpke-ig~lt~lrelhiqgnrl~v-----lppel~~l  195 (264)
T KOG0617|consen  127 TTLRALYLGDNDFEILPPDVGKLTNLQILSLRDN-DLLSLPKE-IGDLTRLRELHIQGNRLTV-----LPPELANL  195 (264)
T ss_pred             HHHHHHHhcCCCcccCChhhhhhcceeEEeeccC-chhhCcHH-HHHHHHHHHHhcccceeee-----cChhhhhh
Confidence            9999999999999999999999999999999998 66789998 8999999999999987743     34455544

>PRK00411 cdc6 cell division control protein 6; Reviewed

Probab=99.27  E-value=1.6e-09  Score=120.45  Aligned_cols=294  Identities=15%  Similarity=0.063  Sum_probs=171.1

Q ss_pred             CCccchhHHHHHHHHHhcC----CCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHHH
Q 048126          126 EPTVGLESMFDKVWRCLGE----EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGR  201 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~----~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~  201 (863)
                      +.++||++++++|...+.+    .....+.|+|++|+|||++++.++++.. .....-.+++|.+....+...++..++.
T Consensus        30 ~~l~~Re~e~~~l~~~l~~~~~~~~~~~~lI~G~~GtGKT~l~~~v~~~l~-~~~~~~~~v~in~~~~~~~~~~~~~i~~  108 (394)
T PRK00411         30 ENLPHREEQIEELAFALRPALRGSRPLNVLIYGPPGTGKTTTVKKVFEELE-EIAVKVVYVYINCQIDRTRYAIFSEIAR  108 (394)
T ss_pred             CCCCCHHHHHHHHHHHHHHHhCCCCCCeEEEECCCCCCHHHHHHHHHHHHH-HhcCCcEEEEEECCcCCCHHHHHHHHHH
Confidence            5689999999999998843    3456788999999999999999999872 2222235677777777788889999999


Q ss_pred             HhCCCCccccCCChhHHHHHHHHHhcc--CcEEEEEeccCCcc------ccccccCCCCCCCCC--cEEEEecCchhhhh
Q 048126          202 RIGFLDESWKNGSLEDKASDILRILSK--KKFLLLLDDIWERV------DLTKVGVPFPDPENK--SKIVFTTRFLEICG  271 (863)
Q Consensus       202 ~l~~~~~~~~~~~~~~~~~~l~~~l~~--kr~LlVlDdv~~~~------~~~~~~~~l~~~~~g--s~IivTtR~~~v~~  271 (863)
                      ++..........+.++....+.+.++.  ++.+||||+++...      .+..+...+.. ..+  ..+|.++....+..
T Consensus       109 ~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~viviDE~d~l~~~~~~~~l~~l~~~~~~-~~~~~v~vI~i~~~~~~~~  187 (394)
T PRK00411        109 QLFGHPPPSSGLSFDELFDKIAEYLDERDRVLIVALDDINYLFEKEGNDVLYSLLRAHEE-YPGARIGVIGISSDLTFLY  187 (394)
T ss_pred             HhcCCCCCCCCCCHHHHHHHHHHHHHhcCCEEEEEECCHhHhhccCCchHHHHHHHhhhc-cCCCeEEEEEEECCcchhh
Confidence            986522111233456677777777753  56899999998632      12222221111 122  23566655543322


Q ss_pred             ccc-------ccceEeecCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHH----hCCchhHHHHHHHHh--c---C
Q 048126          272 AMK-------AHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKE----YAGLPLALITIGRAM--T---C  335 (863)
Q Consensus       272 ~~~-------~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~----c~glPlai~~~~~~l--~---~  335 (863)
                      ...       ....+.+++++.++..+++...+...- ....--.+..+.|++.    .|..+.|+..+-.+.  .   +
T Consensus       188 ~l~~~~~s~~~~~~i~f~py~~~e~~~il~~r~~~~~-~~~~~~~~~l~~i~~~~~~~~Gd~r~a~~ll~~a~~~a~~~~  266 (394)
T PRK00411        188 ILDPRVKSVFRPEEIYFPPYTADEIFDILKDRVEEGF-YPGVVDDEVLDLIADLTAREHGDARVAIDLLRRAGLIAEREG  266 (394)
T ss_pred             hcCHHHHhcCCcceeecCCCCHHHHHHHHHHHHHhhc-ccCCCCHhHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHHcC
Confidence            111       124678999999999999998764221 0001112333444444    455777776654322  1   1


Q ss_pred             C--CChhHHHHHHHHHHhcCCCCCCCcchhhhhhhhhcCCCCchhhHHHHhHhc-cCCC-CccccHHhHHHH--HHhcCC
Q 048126          336 K--KTTQEWHHAIQILRRSSSEFPGMGKEVYPLLKFSYDSLPDDTIRSCFLYCG-LFPE-DYRIRKSELIDC--WIGEGF  409 (863)
Q Consensus       336 ~--~~~~~w~~~l~~l~~~~~~~~~~~~~~~~~l~~sy~~L~~~~~k~cfl~~~-~fp~-~~~i~~~~li~~--w~a~g~  409 (863)
                      .  -+.+....+.+.+..             ....-.+..||. +.|..+..++ .... ...+...++...  .+++.+
T Consensus       267 ~~~I~~~~v~~a~~~~~~-------------~~~~~~~~~L~~-~~k~~L~ai~~~~~~~~~~~~~~~i~~~y~~l~~~~  332 (394)
T PRK00411        267 SRKVTEEDVRKAYEKSEI-------------VHLSEVLRTLPL-HEKLLLRAIVRLLKKGGDEVTTGEVYEEYKELCEEL  332 (394)
T ss_pred             CCCcCHHHHHHHHHHHHH-------------HHHHHHHhcCCH-HHHHHHHHHHHHHhcCCCcccHHHHHHHHHHHHHHc
Confidence            1  255666666554421             223345778988 4443332222 1221 123444444432  222211


Q ss_pred             CCCcccchhhhhHHHHHHHHHHhccccccc
Q 048126          410 LDQYDRSGAYNEGYYIIGILLHACLLEEEE  439 (863)
Q Consensus       410 i~~~~~~~~~~~~~~~~~~L~~~sll~~~~  439 (863)
                      -..   +-.......|+++|...+++....
T Consensus       333 ~~~---~~~~~~~~~~l~~L~~~glI~~~~  359 (394)
T PRK00411        333 GYE---PRTHTRFYEYINKLDMLGIINTRY  359 (394)
T ss_pred             CCC---cCcHHHHHHHHHHHHhcCCeEEEE
Confidence            110   112344677999999999998653

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

Probab=99.26  E-value=1.1e-09  Score=115.08  Aligned_cols=181  Identities=16%  Similarity=0.189  Sum_probs=116.6

Q ss_pred             CCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHHHHhCCCCccccCCChhHHHHHHHH
Q 048126          145 EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGRRIGFLDESWKNGSLEDKASDILR  224 (863)
Q Consensus       145 ~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~  224 (863)
                      .+.+++.|+|++|+||||+++.+++.. .. ..+ ..+|+ +....+..+++..++..++....   ..+.......+.+
T Consensus        41 ~~~~~~~l~G~~G~GKTtl~~~l~~~l-~~-~~~-~~~~~-~~~~~~~~~~l~~i~~~lG~~~~---~~~~~~~~~~l~~  113 (269)
T TIGR03015        41 QREGFILITGEVGAGKTTLIRNLLKRL-DQ-ERV-VAAKL-VNTRVDAEDLLRMVAADFGLETE---GRDKAALLRELED  113 (269)
T ss_pred             cCCCEEEEEcCCCCCHHHHHHHHHHhc-CC-CCe-EEeee-eCCCCCHHHHHHHHHHHcCCCCC---CCCHHHHHHHHHH
Confidence            445689999999999999999999987 21 221 22343 33345778899999998877542   2222333334433


Q ss_pred             Hh-----ccCcEEEEEeccCCcc--ccccccC---CCCCCCCCcEEEEecCchhhhhcc----------cccceEeecCC
Q 048126          225 IL-----SKKKFLLLLDDIWERV--DLTKVGV---PFPDPENKSKIVFTTRFLEICGAM----------KAHEFLKVECL  284 (863)
Q Consensus       225 ~l-----~~kr~LlVlDdv~~~~--~~~~~~~---~l~~~~~gs~IivTtR~~~v~~~~----------~~~~~~~l~~L  284 (863)
                      .+     .+++.+||+||++...  .++.+..   ..........|++|.... ....+          .....+.++++
T Consensus       114 ~l~~~~~~~~~~vliiDe~~~l~~~~~~~l~~l~~~~~~~~~~~~vvl~g~~~-~~~~l~~~~~~~l~~r~~~~~~l~~l  192 (269)
T TIGR03015       114 FLIEQFAAGKRALLVVDEAQNLTPELLEELRMLSNFQTDNAKLLQIFLVGQPE-FRETLQSPQLQQLRQRIIASCHLGPL  192 (269)
T ss_pred             HHHHHHhCCCCeEEEEECcccCCHHHHHHHHHHhCcccCCCCeEEEEEcCCHH-HHHHHcCchhHHHHhheeeeeeCCCC
Confidence            22     5788999999998753  3333321   111122233556665543 21111          11335789999


Q ss_pred             ChHHHHHHHHHHhcccccCCC-CChHHHHHHHHHHhCCchhHHHHHHHHh
Q 048126          285 GPEDAWRLFRENLRRDVLDNH-PDIPELARSVAKEYAGLPLALITIGRAM  333 (863)
Q Consensus       285 ~~~e~~~lf~~~~~~~~~~~~-~~~~~~~~~i~~~c~glPlai~~~~~~l  333 (863)
                      +.+|..+++...+........ .--.+..+.|++.++|.|..|..++..+
T Consensus       193 ~~~e~~~~l~~~l~~~g~~~~~~~~~~~~~~i~~~s~G~p~~i~~l~~~~  242 (269)
T TIGR03015       193 DREETREYIEHRLERAGNRDAPVFSEGAFDAIHRFSRGIPRLINILCDRL  242 (269)
T ss_pred             CHHHHHHHHHHHHHHcCCCCCCCcCHHHHHHHHHHcCCcccHHHHHHHHH
Confidence            999999999987654331112 2235789999999999999999999776

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=99.22  E-value=1e-12  Score=133.49  Aligned_cols=253  Identities=19%  Similarity=0.216  Sum_probs=123.4

Q ss_pred             ceEEEEecccccccccc--CCCCCccceEEccCCccccccchhhhcCCCccEEEccCCCccccCCc-cccccCCCCeEEc
Q 048126          495 NVRRMSLMKNKIENLSE--TPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPS-GISTLVSLEHLDL  571 (863)
Q Consensus       495 ~lr~L~l~~~~~~~l~~--~~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~-~i~~l~~L~~L~L  571 (863)
                      ....|.+..|.|+.+|.  +..+++||.|+|++|.|+.|.++.|.+++.|-.|-+-++..+..+|+ .+++|..|+.|.+
T Consensus        68 ~tveirLdqN~I~~iP~~aF~~l~~LRrLdLS~N~Is~I~p~AF~GL~~l~~Lvlyg~NkI~~l~k~~F~gL~slqrLll  147 (498)
T KOG4237|consen   68 ETVEIRLDQNQISSIPPGAFKTLHRLRRLDLSKNNISFIAPDAFKGLASLLSLVLYGNNKITDLPKGAFGGLSSLQRLLL  147 (498)
T ss_pred             cceEEEeccCCcccCChhhccchhhhceecccccchhhcChHhhhhhHhhhHHHhhcCCchhhhhhhHhhhHHHHHHHhc
Confidence            44555555566555543  35555666666666666655555566665555554444224445543 3455555666655


Q ss_pred             cCCCccccch-hhhcCCCCCEEecCCccccCCCcHHHhhcCCCCcEEEeeccccccCchh--------hHHHHHcCCccC
Q 048126          572 SGTAITHLPI-ELQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRILKSNVLFGGHQ--------FLVEELMGMKHL  642 (863)
Q Consensus       572 ~~~~l~~lp~-~~~~l~~L~~L~l~~~~~l~~lp~~~~~~L~~L~~L~l~~~~~~~~~~~--------~~~~~l~~L~~L  642 (863)
                      .-|++..++. .+..|++|..|.+.+| .+..++.+.+..+.+++++.+..+....+..-        ..+.+.+.....
T Consensus       148 Nan~i~Cir~~al~dL~~l~lLslyDn-~~q~i~~~tf~~l~~i~tlhlA~np~icdCnL~wla~~~a~~~ietsgarc~  226 (498)
T KOG4237|consen  148 NANHINCIRQDALRDLPSLSLLSLYDN-KIQSICKGTFQGLAAIKTLHLAQNPFICDCNLPWLADDLAMNPIETSGARCV  226 (498)
T ss_pred             ChhhhcchhHHHHHHhhhcchhcccch-hhhhhccccccchhccchHhhhcCccccccccchhhhHHhhchhhcccceec
Confidence            5555554432 3555666666666555 34555554455555555555544332211000        000001110000


Q ss_pred             ceEEEEEcChHHHHHHhhhhhhhhcceee---eeccccCCCcccccchhhcCCCceEEEcCCcccccceecccccccccc
Q 048126          643 MALTITLKSWEALQELLISQELQRCTQSL---FLRCFNDSKSLDIFCLACLHNLNKLYVAGRKHLEDFQMTVQRSSVNQL  719 (863)
Q Consensus       643 ~~L~l~~~~~~~~~~l~~~~~~~~~L~~L---~l~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~l~~~~~~~~~~~~  719 (863)
                      ....+....   +..+ ...++..+++.+   -...|......+..++..+++|++|+++++ .++.+...|+.      
T Consensus       227 ~p~rl~~~R---i~q~-~a~kf~c~~esl~s~~~~~d~~d~~cP~~cf~~L~~L~~lnlsnN-~i~~i~~~aFe------  295 (498)
T KOG4237|consen  227 SPYRLYYKR---INQE-DARKFLCSLESLPSRLSSEDFPDSICPAKCFKKLPNLRKLNLSNN-KITRIEDGAFE------  295 (498)
T ss_pred             chHHHHHHH---hccc-chhhhhhhHHhHHHhhccccCcCCcChHHHHhhcccceEeccCCC-ccchhhhhhhc------
Confidence            000000000   0000 000111122221   111222222223346788999999999886 45555566653      


Q ss_pred             ccccCcccEEEEeccCCCCCCc--hhhccCCCcEEEEeccccchhh
Q 048126          720 ARGFHSLHTVKVGFCFKLKDLT--WLVFAPSLKSIVVLSCCNMEQI  763 (863)
Q Consensus       720 ~~~l~~L~~L~L~~c~~l~~l~--~l~~l~~L~~L~l~~~~~l~~i  763 (863)
                        ....+++|.|..+ +++.+.  .+..+..|+.|+|.+ +.|+.+
T Consensus       296 --~~a~l~eL~L~~N-~l~~v~~~~f~~ls~L~tL~L~~-N~it~~  337 (498)
T KOG4237|consen  296 --GAAELQELYLTRN-KLEFVSSGMFQGLSGLKTLSLYD-NQITTV  337 (498)
T ss_pred             --chhhhhhhhcCcc-hHHHHHHHhhhccccceeeeecC-CeeEEE
Confidence              3677888888875 555543  345677888888887 455554

>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=99.21  E-value=7.9e-11  Score=120.98  Aligned_cols=195  Identities=19%  Similarity=0.226  Sum_probs=103.1

Q ss_pred             ccchhHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHH---------H
Q 048126          128 TVGLESMFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQE---------K  198 (863)
Q Consensus       128 ~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~---------~  198 (863)
                      |+||+.++++|.+++..+..+.+.|+|+.|+|||+|++++.+.. . ...+ .++|+...+......+..         .
T Consensus         1 F~gR~~el~~l~~~l~~~~~~~~~l~G~rg~GKTsLl~~~~~~~-~-~~~~-~~~y~~~~~~~~~~~~~~~~~~~~~~~~   77 (234)
T PF01637_consen    1 FFGREKELEKLKELLESGPSQHILLYGPRGSGKTSLLKEFINEL-K-EKGY-KVVYIDFLEESNESSLRSFIEETSLADE   77 (234)
T ss_dssp             S-S-HHHHHHHHHCHHH--SSEEEEEESTTSSHHHHHHHHHHHC-T---EE-CCCHHCCTTBSHHHHHHHHHHHHHHHCH
T ss_pred             CCCHHHHHHHHHHHHHhhcCcEEEEEcCCcCCHHHHHHHHHHHh-h-hcCC-cEEEEecccchhhhHHHHHHHHHHHHHH
Confidence            68999999999999987777899999999999999999999987 2 1122 344554444432222111         1


Q ss_pred             HHHHhCCCCcc-----c---cCCChhHHHHHHHHHhc--cCcEEEEEeccCCcc-ccc-------cc---cCCCCCCCCC
Q 048126          199 IGRRIGFLDES-----W---KNGSLEDKASDILRILS--KKKFLLLLDDIWERV-DLT-------KV---GVPFPDPENK  257 (863)
Q Consensus       199 i~~~l~~~~~~-----~---~~~~~~~~~~~l~~~l~--~kr~LlVlDdv~~~~-~~~-------~~---~~~l~~~~~g  257 (863)
                      +.+.++...+.     .   ...........+.+.+.  +++.+||+||+.... ...       .+   ........+.
T Consensus        78 l~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~~~~iiviDe~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~  157 (234)
T PF01637_consen   78 LSEALGISIPSITLEKISKDLSEDSFSALERLLEKLKKKGKKVIIVIDEFQYLAIASEEDKDFLKSLRSLLDSLLSQQNV  157 (234)
T ss_dssp             CHHHHHHHCCTSTTEEEECTS-GG-G--HHHHHHHHHHCHCCEEEEEETGGGGGBCTTTTHHHHHHHHHHHHH----TTE
T ss_pred             HHHHHhhhcccccchhhhhcchhhHHHHHHHHHHHHHhcCCcEEEEEecHHHHhhcccchHHHHHHHHHHHhhccccCCc
Confidence            11112110000     0   01112233334444443  356999999997655 111       11   1112223334


Q ss_pred             cEEEEecCchhhhhc--------ccccceEeecCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCCchhHHHH
Q 048126          258 SKIVFTTRFLEICGA--------MKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGLPLALIT  328 (863)
Q Consensus       258 s~IivTtR~~~v~~~--------~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPlai~~  328 (863)
                      + +|+++.+..+...        .+....+.+++|+.+++++++...+... ... +.-.+..++|+..+||+|..|..
T Consensus       158 ~-~v~~~S~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~e~~~~~~~~~~~~-~~~-~~~~~~~~~i~~~~gG~P~~l~~  233 (234)
T PF01637_consen  158 S-IVITGSSDSLMEEFLDDKSPLFGRFSHIELKPLSKEEAREFLKELFKEL-IKL-PFSDEDIEEIYSLTGGNPRYLQE  233 (234)
T ss_dssp             E-EEEEESSHHHHHHTT-TTSTTTT---EEEE----HHHHHHHHHHHHHCC--------HHHHHHHHHHHTT-HHHHHH
T ss_pred             e-EEEECCchHHHHHhhcccCccccccceEEEeeCCHHHHHHHHHHHHHHh-hcc-cCCHHHHHHHHHHhCCCHHHHhc
Confidence            4 4444444443322        2223458999999999999999876543 111 22355679999999999998864

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

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

Probab=99.15  E-value=3.8e-11  Score=129.82  Aligned_cols=136  Identities=22%  Similarity=0.200  Sum_probs=62.0

Q ss_pred             CCCccceEEccCCccccc----cchhhhcCCCccEEEccCCCcc------ccCCccccccCCCCeEEccCCCcc-ccchh
Q 048126          514 TCPHLLSLFLSDNSLKMI----AGDFFQFMPSLRVFNMSNNHLL------WKLPSGISTLVSLEHLDLSGTAIT-HLPIE  582 (863)
Q Consensus       514 ~~~~L~~L~l~~~~l~~~----~~~~~~~l~~L~~L~L~~~~~~------~~lp~~i~~l~~L~~L~L~~~~l~-~lp~~  582 (863)
                      .+.+|+.|++++|.++..    ....+...+.|+.|+++++...      ..++..+..+++|++|++++|.+. ..+..
T Consensus        21 ~l~~L~~l~l~~~~l~~~~~~~i~~~l~~~~~l~~l~l~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~  100 (319)
T cd00116          21 KLLCLQVLRLEGNTLGEEAAKALASALRPQPSLKELCLSLNETGRIPRGLQSLLQGLTKGCGLQELDLSDNALGPDGCGV  100 (319)
T ss_pred             HHhhccEEeecCCCCcHHHHHHHHHHHhhCCCceEEeccccccCCcchHHHHHHHHHHhcCceeEEEccCCCCChhHHHH
Confidence            344466666666654321    1112444555666666665322      112334445556666666665554 23333


Q ss_pred             hhcCCC---CCEEecCCccccCC-----CcHHHhhcC-CCCcEEEeeccccccCchhhHHHHHcCCccCceEEEEEcC
Q 048126          583 LQKLVN---LKCLNLEYMYNLNQ-----FPRLVMSAF-SKLQVLRILKSNVLFGGHQFLVEELMGMKHLMALTITLKS  651 (863)
Q Consensus       583 ~~~l~~---L~~L~l~~~~~l~~-----lp~~~~~~L-~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~  651 (863)
                      +..+.+   |++|++++|. +..     +... +..+ ++|+.|++.+|.+...........+..+++|+.|+++.+.
T Consensus       101 ~~~l~~~~~L~~L~ls~~~-~~~~~~~~l~~~-l~~~~~~L~~L~L~~n~l~~~~~~~~~~~~~~~~~L~~L~l~~n~  176 (319)
T cd00116         101 LESLLRSSSLQELKLNNNG-LGDRGLRLLAKG-LKDLPPALEKLVLGRNRLEGASCEALAKALRANRDLKELNLANNG  176 (319)
T ss_pred             HHHHhccCcccEEEeeCCc-cchHHHHHHHHH-HHhCCCCceEEEcCCCcCCchHHHHHHHHHHhCCCcCEEECcCCC
Confidence            333333   6666665552 221     1111 2333 5555666555554432222233344444555555554443

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).

>TIGR02928 orc1/cdc6 family replication initiation protein

Probab=99.14  E-value=1.7e-08  Score=111.17  Aligned_cols=296  Identities=16%  Similarity=0.145  Sum_probs=169.6

Q ss_pred             CCccchhHHHHHHHHHhcC----CCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCC---CEEEEEEeCCccCHHHHHHH
Q 048126          126 EPTVGLESMFDKVWRCLGE----EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDF---DVVIWVVVSKDLQLEKIQEK  198 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~----~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F---~~~~wv~~s~~~~~~~~~~~  198 (863)
                      +.++||+.++++|..++.+    .....+.|+|++|+|||++++.+++...+.....   -..+||.+....+...++..
T Consensus        15 ~~l~gRe~e~~~l~~~l~~~~~~~~~~~i~I~G~~GtGKT~l~~~~~~~l~~~~~~~~~~~~~v~in~~~~~~~~~~~~~   94 (365)
T TIGR02928        15 DRIVHRDEQIEELAKALRPILRGSRPSNVFIYGKTGTGKTAVTKYVMKELEEAAEDRDVRVVTVYVNCQILDTLYQVLVE   94 (365)
T ss_pred             CCCCCcHHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHHHHHHHHHHHHhhccCCceEEEEEECCCCCCHHHHHHH
Confidence            4689999999999999863    3456789999999999999999998762111111   14578888777778889999


Q ss_pred             HHHHhC---CCCccccCCChhHHHHHHHHHhc--cCcEEEEEeccCCcc-c----cccccCC--CCC-CCCCcEEEEecC
Q 048126          199 IGRRIG---FLDESWKNGSLEDKASDILRILS--KKKFLLLLDDIWERV-D----LTKVGVP--FPD-PENKSKIVFTTR  265 (863)
Q Consensus       199 i~~~l~---~~~~~~~~~~~~~~~~~l~~~l~--~kr~LlVlDdv~~~~-~----~~~~~~~--l~~-~~~gs~IivTtR  265 (863)
                      |+.++.   ...+. ...+..+....+.+.+.  +++++||||+++... .    +..+...  ... ......+|.+|.
T Consensus        95 i~~~l~~~~~~~~~-~~~~~~~~~~~l~~~l~~~~~~~vlvIDE~d~L~~~~~~~L~~l~~~~~~~~~~~~~v~lI~i~n  173 (365)
T TIGR02928        95 LANQLRGSGEEVPT-TGLSTSEVFRRLYKELNERGDSLIIVLDEIDYLVGDDDDLLYQLSRARSNGDLDNAKVGVIGISN  173 (365)
T ss_pred             HHHHHhhcCCCCCC-CCCCHHHHHHHHHHHHHhcCCeEEEEECchhhhccCCcHHHHhHhccccccCCCCCeEEEEEEEC
Confidence            999883   32211 22244555566666664  467899999998652 1    1122111  011 112334455554


Q ss_pred             chhhhhccc-------ccceEeecCCChHHHHHHHHHHhccc--ccCCCCChHHHHHHHHHHhCCchhHHHHHHHH-h--
Q 048126          266 FLEICGAMK-------AHEFLKVECLGPEDAWRLFRENLRRD--VLDNHPDIPELARSVAKEYAGLPLALITIGRA-M--  333 (863)
Q Consensus       266 ~~~v~~~~~-------~~~~~~l~~L~~~e~~~lf~~~~~~~--~~~~~~~~~~~~~~i~~~c~glPlai~~~~~~-l--  333 (863)
                      .......+.       ....+.+++++.++..+++..++...  ....+++..+...+++....|.|-.+..+... .  
T Consensus       174 ~~~~~~~l~~~~~s~~~~~~i~f~p~~~~e~~~il~~r~~~~~~~~~~~~~~l~~i~~~~~~~~Gd~R~al~~l~~a~~~  253 (365)
T TIGR02928       174 DLKFRENLDPRVKSSLCEEEIIFPPYDAEELRDILENRAEKAFYDGVLDDGVIPLCAALAAQEHGDARKAIDLLRVAGEI  253 (365)
T ss_pred             CcchHhhcCHHHhccCCcceeeeCCCCHHHHHHHHHHHHHhhccCCCCChhHHHHHHHHHHHhcCCHHHHHHHHHHHHHH
Confidence            433211110       12467899999999999999886421  11122333344555677777888544332211 1  


Q ss_pred             --c-C--CCChhHHHHHHHHHHhcCCCCCCCcchhhhhhhhhcCCCCchhhHHHHhHhccC--CCCccccHHhHHHHH--
Q 048126          334 --T-C--KKTTQEWHHAIQILRRSSSEFPGMGKEVYPLLKFSYDSLPDDTIRSCFLYCGLF--PEDYRIRKSELIDCW--  404 (863)
Q Consensus       334 --~-~--~~~~~~w~~~l~~l~~~~~~~~~~~~~~~~~l~~sy~~L~~~~~k~cfl~~~~f--p~~~~i~~~~li~~w--  404 (863)
                        . +  .-+.+..+.+.+.+..             ....-++..||. +.|..+..++..  -.+..+...++...+  
T Consensus       254 a~~~~~~~it~~~v~~a~~~~~~-------------~~~~~~i~~l~~-~~~~~l~ai~~~~~~~~~~~~~~~~~~~y~~  319 (365)
T TIGR02928       254 AEREGAERVTEDHVEKAQEKIEK-------------DRLLELIRGLPT-HSKLVLLAIANLAANDEDPFRTGEVYEVYKE  319 (365)
T ss_pred             HHHcCCCCCCHHHHHHHHHHHHH-------------HHHHHHHHcCCH-HHHHHHHHHHHHHhcCCCCccHHHHHHHHHH
Confidence              1 1  1344455544444321             222345668887 555433333211  133345555555422  


Q ss_pred             HhcCCCCCcccchhhhhHHHHHHHHHHhccccccc
Q 048126          405 IGEGFLDQYDRSGAYNEGYYIIGILLHACLLEEEE  439 (863)
Q Consensus       405 ~a~g~i~~~~~~~~~~~~~~~~~~L~~~sll~~~~  439 (863)
                      +++. +.-  .+-.......+++.|...+++....
T Consensus       320 ~~~~-~~~--~~~~~~~~~~~l~~l~~~gli~~~~  351 (365)
T TIGR02928       320 VCED-IGV--DPLTQRRISDLLNELDMLGLVEAEE  351 (365)
T ss_pred             HHHh-cCC--CCCcHHHHHHHHHHHHhcCCeEEEE
Confidence            1221 110  1223466778899999999998764

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.

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

Probab=99.13  E-value=6.4e-11  Score=128.04  Aligned_cols=235  Identities=21%  Similarity=0.153  Sum_probs=146.5

Q ss_pred             cccceEEEEeccccccc-----cc-cCCCCCccceEEccCCcccccc------chhhhcCCCccEEEccCCCccccCCcc
Q 048126          492 NWRNVRRMSLMKNKIEN-----LS-ETPTCPHLLSLFLSDNSLKMIA------GDFFQFMPSLRVFNMSNNHLLWKLPSG  559 (863)
Q Consensus       492 ~~~~lr~L~l~~~~~~~-----l~-~~~~~~~L~~L~l~~~~l~~~~------~~~~~~l~~L~~L~L~~~~~~~~lp~~  559 (863)
                      .+..++.+.+.++.+..     ++ .....++|+.|+++++.+...+      ...+..+++|++|++++|.+....+..
T Consensus        21 ~l~~L~~l~l~~~~l~~~~~~~i~~~l~~~~~l~~l~l~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~  100 (319)
T cd00116          21 KLLCLQVLRLEGNTLGEEAAKALASALRPQPSLKELCLSLNETGRIPRGLQSLLQGLTKGCGLQELDLSDNALGPDGCGV  100 (319)
T ss_pred             HHhhccEEeecCCCCcHHHHHHHHHHHhhCCCceEEeccccccCCcchHHHHHHHHHHhcCceeEEEccCCCCChhHHHH
Confidence            34458888888887632     22 2356778999999988665211      234677889999999999665556666


Q ss_pred             ccccCC---CCeEEccCCCcc-----ccchhhhcC-CCCCEEecCCccccC-----CCcHHHhhcCCCCcEEEeeccccc
Q 048126          560 ISTLVS---LEHLDLSGTAIT-----HLPIELQKL-VNLKCLNLEYMYNLN-----QFPRLVMSAFSKLQVLRILKSNVL  625 (863)
Q Consensus       560 i~~l~~---L~~L~L~~~~l~-----~lp~~~~~l-~~L~~L~l~~~~~l~-----~lp~~~~~~L~~L~~L~l~~~~~~  625 (863)
                      +..+.+   |++|++++|.+.     .++..+..+ ++|+.|++++|. ++     .++. .+..+++|++|++.+|...
T Consensus       101 ~~~l~~~~~L~~L~ls~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~n~-l~~~~~~~~~~-~~~~~~~L~~L~l~~n~l~  178 (319)
T cd00116         101 LESLLRSSSLQELKLNNNGLGDRGLRLLAKGLKDLPPALEKLVLGRNR-LEGASCEALAK-ALRANRDLKELNLANNGIG  178 (319)
T ss_pred             HHHHhccCcccEEEeeCCccchHHHHHHHHHHHhCCCCceEEEcCCCc-CCchHHHHHHH-HHHhCCCcCEEECcCCCCc
Confidence            666665   999999999876     344566777 899999999984 34     2232 2567789999999988776


Q ss_pred             cCchhhHHHHHcCCccCceEEEEEcChHHHH--HHhhhhhhhhcceeeeeccccCCCcccccchhhcCCCceEEEcCCcc
Q 048126          626 FGGHQFLVEELMGMKHLMALTITLKSWEALQ--ELLISQELQRCTQSLFLRCFNDSKSLDIFCLACLHNLNKLYVAGRKH  703 (863)
Q Consensus       626 ~~~~~~~~~~l~~L~~L~~L~l~~~~~~~~~--~l~~~~~~~~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~  703 (863)
                      ..........+..+++|+.|+++.+......  .+..                         .+..+++|++|++++|..
T Consensus       179 ~~~~~~l~~~l~~~~~L~~L~L~~n~i~~~~~~~l~~-------------------------~~~~~~~L~~L~ls~n~l  233 (319)
T cd00116         179 DAGIRALAEGLKANCNLEVLDLNNNGLTDEGASALAE-------------------------TLASLKSLEVLNLGDNNL  233 (319)
T ss_pred             hHHHHHHHHHHHhCCCCCEEeccCCccChHHHHHHHH-------------------------HhcccCCCCEEecCCCcC
Confidence            4322334455666778888888876543221  1111                         133346677777776542


Q ss_pred             cccceeccccccccccccccCcccEEEEeccCCCCCC------chhhccCCCcEEEEeccc
Q 048126          704 LEDFQMTVQRSSVNQLARGFHSLHTVKVGFCFKLKDL------TWLVFAPSLKSIVVLSCC  758 (863)
Q Consensus       704 ~~~l~~~~~~~~~~~~~~~l~~L~~L~L~~c~~l~~l------~~l~~l~~L~~L~l~~~~  758 (863)
                       ++..+..+..  ... ...+.|++|++++| .++..      ..+..+++|++|+++++.
T Consensus       234 -~~~~~~~l~~--~~~-~~~~~L~~L~l~~n-~i~~~~~~~l~~~~~~~~~L~~l~l~~N~  289 (319)
T cd00116         234 -TDAGAAALAS--ALL-SPNISLLTLSLSCN-DITDDGAKDLAEVLAEKESLLELDLRGNK  289 (319)
T ss_pred             -chHHHHHHHH--HHh-ccCCCceEEEccCC-CCCcHHHHHHHHHHhcCCCccEEECCCCC
Confidence             2111111000  000 01367777877777 33311      123345778888887754

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).

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

Probab=99.09  E-value=7.4e-12  Score=128.45  Aligned_cols=294  Identities=18%  Similarity=0.160  Sum_probs=165.7

Q ss_pred             CccceEEccCCccccc--cchhhhcCCCccEEEccCCCcccc--CCccccccCCCCeEEccCC-Cccc--cchhhhcCCC
Q 048126          516 PHLLSLFLSDNSLKMI--AGDFFQFMPSLRVFNMSNNHLLWK--LPSGISTLVSLEHLDLSGT-AITH--LPIELQKLVN  588 (863)
Q Consensus       516 ~~L~~L~l~~~~l~~~--~~~~~~~l~~L~~L~L~~~~~~~~--lp~~i~~l~~L~~L~L~~~-~l~~--lp~~~~~l~~  588 (863)
                      ..|+.|.+.|+.-...  ...+-.+++++..|.+.+|..++.  +-..-..+.+|++|++..| .|+.  |-.....+++
T Consensus       138 g~lk~LSlrG~r~v~~sslrt~~~~CpnIehL~l~gc~~iTd~s~~sla~~C~~l~~l~L~~c~~iT~~~Lk~la~gC~k  217 (483)
T KOG4341|consen  138 GFLKELSLRGCRAVGDSSLRTFASNCPNIEHLALYGCKKITDSSLLSLARYCRKLRHLNLHSCSSITDVSLKYLAEGCRK  217 (483)
T ss_pred             cccccccccccccCCcchhhHHhhhCCchhhhhhhcceeccHHHHHHHHHhcchhhhhhhcccchhHHHHHHHHHHhhhh
Confidence            4577888888732111  123456788888888888864432  1222246778888888886 5652  3334556788


Q ss_pred             CCEEecCCccccCC--CcHHHhhcCCCCcEEEeeccccccCchhhHHHHHcCCccCceEEEEEcChHHHHHHhhhhhhhh
Q 048126          589 LKCLNLEYMYNLNQ--FPRLVMSAFSKLQVLRILKSNVLFGGHQFLVEELMGMKHLMALTITLKSWEALQELLISQELQR  666 (863)
Q Consensus       589 L~~L~l~~~~~l~~--lp~~~~~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~~~~~l~~~~~~~~  666 (863)
                      |.+|++++|+.+..  +.. ...++.+|+.+...+|.-...  ......=.....+-++++..+..-.-..+........
T Consensus       218 L~~lNlSwc~qi~~~gv~~-~~rG~~~l~~~~~kGC~e~~l--e~l~~~~~~~~~i~~lnl~~c~~lTD~~~~~i~~~c~  294 (483)
T KOG4341|consen  218 LKYLNLSWCPQISGNGVQA-LQRGCKELEKLSLKGCLELEL--EALLKAAAYCLEILKLNLQHCNQLTDEDLWLIACGCH  294 (483)
T ss_pred             HHHhhhccCchhhcCcchH-HhccchhhhhhhhcccccccH--HHHHHHhccChHhhccchhhhccccchHHHHHhhhhh
Confidence            88888888865544  111 245566666666656543321  1111111111223333322222111111222223344


Q ss_pred             cceeeeeccccCCCcccccchh-hcCCCceEEEcCCcccccceeccccccccccccccCcccEEEEeccCCCCCC--chh
Q 048126          667 CTQSLFLRCFNDSKSLDIFCLA-CLHNLNKLYVAGRKHLEDFQMTVQRSSVNQLARGFHSLHTVKVGFCFKLKDL--TWL  743 (863)
Q Consensus       667 ~L~~L~l~~~~~~~~~~~~~l~-~~~~L~~L~l~~~~~~~~l~~~~~~~~~~~~~~~l~~L~~L~L~~c~~l~~l--~~l  743 (863)
                      .|+.|..++|...+...+..+. ..++|+.|.+.+|....+......+       .+.+.|+.+++.+|....+-  ..+
T Consensus       295 ~lq~l~~s~~t~~~d~~l~aLg~~~~~L~~l~l~~c~~fsd~~ft~l~-------rn~~~Le~l~~e~~~~~~d~tL~sl  367 (483)
T KOG4341|consen  295 ALQVLCYSSCTDITDEVLWALGQHCHNLQVLELSGCQQFSDRGFTMLG-------RNCPHLERLDLEECGLITDGTLASL  367 (483)
T ss_pred             HhhhhcccCCCCCchHHHHHHhcCCCceEEEeccccchhhhhhhhhhh-------cCChhhhhhcccccceehhhhHhhh
Confidence            6777777777766655544443 3578888888888766544333332       45777888888887544332  112


Q ss_pred             -hccCCCcEEEEeccccchhhccccccccccCCCCCCCCcCCccceeccCCCccccccccC-CCCCCCcceEeecCCCCC
Q 048126          744 -VFAPSLKSIVVLSCCNMEQIIKAEKLSQLHHHPERKKSVFAKLQFLSLENLRNLCCINWE-ALAFPNLKEIRVEGCPKL  821 (863)
Q Consensus       744 -~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~~~p~L~~L~l~~~~~L~~i~~~-~~~~p~L~~L~i~~C~~L  821 (863)
                       -++|.|+.|.+++|..+++.+...+        .....+...|+.|.+.+||.+++-..+ ...+++|+.+++.+|...
T Consensus       368 s~~C~~lr~lslshce~itD~gi~~l--------~~~~c~~~~l~~lEL~n~p~i~d~~Le~l~~c~~Leri~l~~~q~v  439 (483)
T KOG4341|consen  368 SRNCPRLRVLSLSHCELITDEGIRHL--------SSSSCSLEGLEVLELDNCPLITDATLEHLSICRNLERIELIDCQDV  439 (483)
T ss_pred             ccCCchhccCChhhhhhhhhhhhhhh--------hhccccccccceeeecCCCCchHHHHHHHhhCcccceeeeechhhh
Confidence             2567888888888877666522100        123445667778888888776653332 223677888888887777


Q ss_pred             CCCCCC
Q 048126          822 FKLPLD  827 (863)
Q Consensus       822 ~~lp~~  827 (863)
                      ++-|..
T Consensus       440 tk~~i~  445 (483)
T KOG4341|consen  440 TKEAIS  445 (483)
T ss_pred             hhhhhH
Confidence            765543

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

Probab=99.09  E-value=2e-11  Score=124.28  Aligned_cols=234  Identities=18%  Similarity=0.140  Sum_probs=159.0

Q ss_pred             ccccccceEEEEeccccccccc--cCCCCCccceEEccC-CccccccchhhhcCCCccEEEccCCCccccCCccccccCC
Q 048126          489 EIQNWRNVRRMSLMKNKIENLS--ETPTCPHLLSLFLSD-NSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVS  565 (863)
Q Consensus       489 ~~~~~~~lr~L~l~~~~~~~l~--~~~~~~~L~~L~l~~-~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~  565 (863)
                      .+..+.+||+|++++|.|+.+.  .+..++.|.+|-+-+ |.|+.+|.+.|.++..|+-|.+.-|++.-...+.+..|++
T Consensus        86 aF~~l~~LRrLdLS~N~Is~I~p~AF~GL~~l~~Lvlyg~NkI~~l~k~~F~gL~slqrLllNan~i~Cir~~al~dL~~  165 (498)
T KOG4237|consen   86 AFKTLHRLRRLDLSKNNISFIAPDAFKGLASLLSLVLYGNNKITDLPKGAFGGLSSLQRLLLNANHINCIRQDALRDLPS  165 (498)
T ss_pred             hccchhhhceecccccchhhcChHhhhhhHhhhHHHhhcCCchhhhhhhHhhhHHHHHHHhcChhhhcchhHHHHHHhhh
Confidence            4677889999999999998773  357777877777766 8999999999999999999999999665556678899999


Q ss_pred             CCeEEccCCCccccch-hhhcCCCCCEEecCCcccc------------CCCcHHHhhcCCCCcEEEeeccccccC-----
Q 048126          566 LEHLDLSGTAITHLPI-ELQKLVNLKCLNLEYMYNL------------NQFPRLVMSAFSKLQVLRILKSNVLFG-----  627 (863)
Q Consensus       566 L~~L~L~~~~l~~lp~-~~~~l~~L~~L~l~~~~~l------------~~lp~~~~~~L~~L~~L~l~~~~~~~~-----  627 (863)
                      |..|.+..|.+..++. .+..+..++++.+..++.+            ...|.. .+......-..+....+...     
T Consensus       166 l~lLslyDn~~q~i~~~tf~~l~~i~tlhlA~np~icdCnL~wla~~~a~~~ie-tsgarc~~p~rl~~~Ri~q~~a~kf  244 (498)
T KOG4237|consen  166 LSLLSLYDNKIQSICKGTFQGLAAIKTLHLAQNPFICDCNLPWLADDLAMNPIE-TSGARCVSPYRLYYKRINQEDARKF  244 (498)
T ss_pred             cchhcccchhhhhhccccccchhccchHhhhcCccccccccchhhhHHhhchhh-cccceecchHHHHHHHhcccchhhh
Confidence            9999999999999988 6889999999988776411            111111 12221111111111000000     


Q ss_pred             -----------------chhhHHHHHcCCccCceEEEEEcChHHHHHHhhhhhhhhcceeeeeccccCCCcccccchhhc
Q 048126          628 -----------------GHQFLVEELMGMKHLMALTITLKSWEALQELLISQELQRCTQSLFLRCFNDSKSLDIFCLACL  690 (863)
Q Consensus       628 -----------------~~~~~~~~l~~L~~L~~L~l~~~~~~~~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~~~l~~~  690 (863)
                                       .......-++.|++|++|+++.+..+.+..-...  -...++.|.|... .+..+.-..+..+
T Consensus       245 ~c~~esl~s~~~~~d~~d~~cP~~cf~~L~~L~~lnlsnN~i~~i~~~aFe--~~a~l~eL~L~~N-~l~~v~~~~f~~l  321 (498)
T KOG4237|consen  245 LCSLESLPSRLSSEDFPDSICPAKCFKKLPNLRKLNLSNNKITRIEDGAFE--GAAELQELYLTRN-KLEFVSSGMFQGL  321 (498)
T ss_pred             hhhHHhHHHhhccccCcCCcChHHHHhhcccceEeccCCCccchhhhhhhc--chhhhhhhhcCcc-hHHHHHHHhhhcc
Confidence                             0122233478899999999998887766543221  2246777777663 2344443457778


Q ss_pred             CCCceEEEcCCcccccceeccccccccccccccCcccEEEEeccC
Q 048126          691 HNLNKLYVAGRKHLEDFQMTVQRSSVNQLARGFHSLHTVKVGFCF  735 (863)
Q Consensus       691 ~~L~~L~l~~~~~~~~l~~~~~~~~~~~~~~~l~~L~~L~L~~c~  735 (863)
                      ++|+.|+++++.... +.+..+.        .+.+|.+|.|-.++
T Consensus       322 s~L~tL~L~~N~it~-~~~~aF~--------~~~~l~~l~l~~Np  357 (498)
T KOG4237|consen  322 SGLKTLSLYDNQITT-VAPGAFQ--------TLFSLSTLNLLSNP  357 (498)
T ss_pred             ccceeeeecCCeeEE-Eeccccc--------ccceeeeeehccCc
Confidence            999999999975443 3444332        36778888886543

>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]

Probab=99.02  E-value=1.5e-08  Score=114.14  Aligned_cols=299  Identities=17%  Similarity=0.204  Sum_probs=187.0

Q ss_pred             cCCCCCccchhHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCc-cCHHHHHHHHH
Q 048126          122 QRPCEPTVGLESMFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKD-LQLEKIQEKIG  200 (863)
Q Consensus       122 ~~~~~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~-~~~~~~~~~i~  200 (863)
                      |.+..+.|-|..-++.+.+   ..+.+.+.|..++|.||||++.+.....    ..=..+.|.+++.. .++..+...++
T Consensus        15 P~~~~~~v~R~rL~~~L~~---~~~~RL~li~APAGfGKttl~aq~~~~~----~~~~~v~Wlslde~dndp~rF~~yLi   87 (894)
T COG2909          15 PVRPDNYVVRPRLLDRLRR---ANDYRLILISAPAGFGKTTLLAQWRELA----ADGAAVAWLSLDESDNDPARFLSYLI   87 (894)
T ss_pred             CCCcccccccHHHHHHHhc---CCCceEEEEeCCCCCcHHHHHHHHHHhc----CcccceeEeecCCccCCHHHHHHHHH
Confidence            3334556777655544433   2478999999999999999999998743    23346899998765 46788888888


Q ss_pred             HHhCCCCccc-----------cCCChhHHHHHHHHHhc--cCcEEEEEeccCCccc--c-ccccCCCCCCCCCcEEEEec
Q 048126          201 RRIGFLDESW-----------KNGSLEDKASDILRILS--KKKFLLLLDDIWERVD--L-TKVGVPFPDPENKSKIVFTT  264 (863)
Q Consensus       201 ~~l~~~~~~~-----------~~~~~~~~~~~l~~~l~--~kr~LlVlDdv~~~~~--~-~~~~~~l~~~~~gs~IivTt  264 (863)
                      ..++...+..           ...+...+.+.+..-+.  .++..+||||-.-..+  . ..+.-.+.....+-..||||
T Consensus        88 ~al~~~~p~~~~~a~~l~q~~~~~~l~~l~~~L~~Ela~~~~pl~LVlDDyHli~~~~l~~~l~fLl~~~P~~l~lvv~S  167 (894)
T COG2909          88 AALQQATPTLGDEAQTLLQKHQYVSLESLLSSLLNELASYEGPLYLVLDDYHLISDPALHEALRFLLKHAPENLTLVVTS  167 (894)
T ss_pred             HHHHHhCccccHHHHHHHHhcccccHHHHHHHHHHHHHhhcCceEEEeccccccCcccHHHHHHHHHHhCCCCeEEEEEe
Confidence            8886333211           12233344455554444  3689999999765422  1 12222222344578899999


Q ss_pred             Cchhhhhc--cc-ccceEee----cCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCCchhHHHHHHHHhcCCC
Q 048126          265 RFLEICGA--MK-AHEFLKV----ECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGLPLALITIGRAMTCKK  337 (863)
Q Consensus       265 R~~~v~~~--~~-~~~~~~l----~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPlai~~~~~~l~~~~  337 (863)
                      |+..-...  +. .+..+++    =.|+.+|+.++|....+..      --+.-.+.+.+..+|=+-|+..++=.++++.
T Consensus       168 R~rP~l~la~lRlr~~llEi~~~~Lrf~~eE~~~fl~~~~~l~------Ld~~~~~~L~~~teGW~~al~L~aLa~~~~~  241 (894)
T COG2909         168 RSRPQLGLARLRLRDELLEIGSEELRFDTEEAAAFLNDRGSLP------LDAADLKALYDRTEGWAAALQLIALALRNNT  241 (894)
T ss_pred             ccCCCCcccceeehhhHHhcChHhhcCChHHHHHHHHHcCCCC------CChHHHHHHHhhcccHHHHHHHHHHHccCCC
Confidence            98643211  11 1122222    3688999999998765322      2244578899999999999988887777434


Q ss_pred             ChhHHHHHHHHHHhcCCCCCCCcchhh-hhhhhhcCCCCchhhHHHHhHhccCCCCccccHHhHHHHHHhcCCCCCcccc
Q 048126          338 TTQEWHHAIQILRRSSSEFPGMGKEVY-PLLKFSYDSLPDDTIRSCFLYCGLFPEDYRIRKSELIDCWIGEGFLDQYDRS  416 (863)
Q Consensus       338 ~~~~w~~~l~~l~~~~~~~~~~~~~~~-~~l~~sy~~L~~~~~k~cfl~~~~fp~~~~i~~~~li~~w~a~g~i~~~~~~  416 (863)
                      +.+.--..++          +...-+. -...=-++.||+ .+|..++.||+++.-    -+.|+..-            
T Consensus       242 ~~~q~~~~Ls----------G~~~~l~dYL~eeVld~Lp~-~l~~FLl~~svl~~f----~~eL~~~L------------  294 (894)
T COG2909         242 SAEQSLRGLS----------GAASHLSDYLVEEVLDRLPP-ELRDFLLQTSVLSRF----NDELCNAL------------  294 (894)
T ss_pred             cHHHHhhhcc----------chHHHHHHHHHHHHHhcCCH-HHHHHHHHHHhHHHh----hHHHHHHH------------
Confidence            3332222111          1111111 122335678999 799999999998632    13333321            


Q ss_pred             hhhhhHHHHHHHHHHhccccccccccccccccceEEeehhHHHHHHHHHH
Q 048126          417 GAYNEGYYIIGILLHACLLEEEEGDIAEEKSGEHVVKMHDVIRDMVLWIA  466 (863)
Q Consensus       417 ~~~~~~~~~~~~L~~~sll~~~~~~~~~~~~~~~~~~mHdli~d~a~~~~  466 (863)
                      .-++.+...+++|.+++|+-..-      +.....|+.|.++.||.+.--
T Consensus       295 tg~~ng~amLe~L~~~gLFl~~L------dd~~~WfryH~LFaeFL~~r~  338 (894)
T COG2909         295 TGEENGQAMLEELERRGLFLQRL------DDEGQWFRYHHLFAEFLRQRL  338 (894)
T ss_pred             hcCCcHHHHHHHHHhCCCceeee------cCCCceeehhHHHHHHHHhhh
Confidence            22355677899999999986432      112678999999999977543

>PF05729 NACHT: NACHT domain

Probab=99.01  E-value=1.9e-09  Score=104.08  Aligned_cols=142  Identities=20%  Similarity=0.281  Sum_probs=90.8

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHhhhcCCCCC----CCEEEEEEeCCccCHH---HHHHHHHHHhCCCCccccCCChhHHHH
Q 048126          148 GIIGLYGMGGVGKTTLLTKINNKLLGAPND----FDVVIWVVVSKDLQLE---KIQEKIGRRIGFLDESWKNGSLEDKAS  220 (863)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~----F~~~~wv~~s~~~~~~---~~~~~i~~~l~~~~~~~~~~~~~~~~~  220 (863)
                      +++.|+|.+|+||||+++.++..... ...    +...+|+.........   .+...|..+.....     .....   
T Consensus         1 r~l~I~G~~G~GKStll~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~-----~~~~~---   71 (166)
T PF05729_consen    1 RVLWISGEPGSGKSTLLRKLAQQLAE-EEPPPSKFPYPFFFSLRDISDSNNSRSLADLLFDQLPESI-----APIEE---   71 (166)
T ss_pred             CEEEEECCCCCChHHHHHHHHHHHHh-cCcccccceEEEEEeehhhhhccccchHHHHHHHhhccch-----hhhHH---
Confidence            58899999999999999999988732 222    4566777766544332   44444444443211     11111   


Q ss_pred             HHHHH-hccCcEEEEEeccCCccc---------ccc-ccCCCCC-CCCCcEEEEecCchhh---hhcccccceEeecCCC
Q 048126          221 DILRI-LSKKKFLLLLDDIWERVD---------LTK-VGVPFPD-PENKSKIVFTTRFLEI---CGAMKAHEFLKVECLG  285 (863)
Q Consensus       221 ~l~~~-l~~kr~LlVlDdv~~~~~---------~~~-~~~~l~~-~~~gs~IivTtR~~~v---~~~~~~~~~~~l~~L~  285 (863)
                      .+... .+.++++||+|++++...         +.. +...++. ..++.+|+||+|....   .........+.+.+|+
T Consensus        72 ~~~~~~~~~~~~llilDglDE~~~~~~~~~~~~~~~~l~~l~~~~~~~~~~liit~r~~~~~~~~~~~~~~~~~~l~~~~  151 (166)
T PF05729_consen   72 LLQELLEKNKRVLLILDGLDELEEQDQSQERQRLLDLLSQLLPQALPPGVKLIITSRPRAFPDLRRRLKQAQILELEPFS  151 (166)
T ss_pred             HHHHHHHcCCceEEEEechHhcccchhhhHHHHHHHHHHHHhhhccCCCCeEEEEEcCChHHHHHHhcCCCcEEEECCCC
Confidence            22222 246899999999976432         111 1111222 2468999999999766   3333444678999999


Q ss_pred             hHHHHHHHHHHhc
Q 048126          286 PEDAWRLFRENLR  298 (863)
Q Consensus       286 ~~e~~~lf~~~~~  298 (863)
                      +++..+++.+.+.
T Consensus       152 ~~~~~~~~~~~f~  164 (166)
T PF05729_consen  152 EEDIKQYLRKYFS  164 (166)
T ss_pred             HHHHHHHHHHHhh
Confidence            9999999987753

>TIGR00635 ruvB Holliday junction DNA helicase, RuvB subunit

Probab=99.01  E-value=1.9e-08  Score=107.54  Aligned_cols=265  Identities=15%  Similarity=0.102  Sum_probs=149.8

Q ss_pred             CCccchhHHHHHHHHHhcC-----CCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHH
Q 048126          126 EPTVGLESMFDKVWRCLGE-----EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIG  200 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~-----~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~  200 (863)
                      .+|||++..++.+..++..     .....+.++|++|+|||+||+.+++..   ...+   ..+..+.......+ ...+
T Consensus         4 ~~~iG~~~~~~~l~~~l~~~~~~~~~~~~~ll~Gp~G~GKT~la~~ia~~~---~~~~---~~~~~~~~~~~~~l-~~~l   76 (305)
T TIGR00635         4 AEFIGQEKVKEQLQLFIEAAKMRQEALDHLLLYGPPGLGKTTLAHIIANEM---GVNL---KITSGPALEKPGDL-AAIL   76 (305)
T ss_pred             HHHcCHHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHh---CCCE---EEeccchhcCchhH-HHHH
Confidence            4589999999999888852     345668899999999999999999987   2222   12222111112222 2222


Q ss_pred             HHhCCCC----ccccCCChhHHHHHHHHHhccCcEEEEEeccCCccccccccCCCCCCCCCcEEEEecCchhhhhccc--
Q 048126          201 RRIGFLD----ESWKNGSLEDKASDILRILSKKKFLLLLDDIWERVDLTKVGVPFPDPENKSKIVFTTRFLEICGAMK--  274 (863)
Q Consensus       201 ~~l~~~~----~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~~~l~~~~~gs~IivTtR~~~v~~~~~--  274 (863)
                      ..++...    ++....+ ......+...+.+.+..+|+|+..+...+..   .++   +.+-|..||+...+.....  
T Consensus        77 ~~~~~~~vl~iDEi~~l~-~~~~e~l~~~~~~~~~~~v~~~~~~~~~~~~---~~~---~~~li~~t~~~~~l~~~l~sR  149 (305)
T TIGR00635        77 TNLEEGDVLFIDEIHRLS-PAVEELLYPAMEDFRLDIVIGKGPSARSVRL---DLP---PFTLVGATTRAGMLTSPLRDR  149 (305)
T ss_pred             HhcccCCEEEEehHhhhC-HHHHHHhhHHHhhhheeeeeccCccccceee---cCC---CeEEEEecCCccccCHHHHhh
Confidence            3332211    0001011 1233446666667777777877655443332   122   2455667777654432211  


Q ss_pred             ccceEeecCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCCchhHHHHHHHHhc------CC--CChhHHHHHH
Q 048126          275 AHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGLPLALITIGRAMT------CK--KTTQEWHHAI  346 (863)
Q Consensus       275 ~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPlai~~~~~~l~------~~--~~~~~w~~~l  346 (863)
                      ....+.+++++.++..+++.+.+.....   .--.+....|++.|+|.|-.+..++..+.      +.  .+.+..+   
T Consensus       150 ~~~~~~l~~l~~~e~~~il~~~~~~~~~---~~~~~al~~ia~~~~G~pR~~~~ll~~~~~~a~~~~~~~it~~~v~---  223 (305)
T TIGR00635       150 FGIILRLEFYTVEELAEIVSRSAGLLNV---EIEPEAALEIARRSRGTPRIANRLLRRVRDFAQVRGQKIINRDIAL---  223 (305)
T ss_pred             cceEEEeCCCCHHHHHHHHHHHHHHhCC---CcCHHHHHHHHHHhCCCcchHHHHHHHHHHHHHHcCCCCcCHHHHH---
Confidence            1346789999999999999988764321   12245678999999999977655554321      00  0111111   


Q ss_pred             HHHHhcCCCCCCCcchhhhhhhhhcCCCCchhhHHHHh-HhccCCCCccccHHhHHHHHHhcCCCCCcccchhhhhHHHH
Q 048126          347 QILRRSSSEFPGMGKEVYPLLKFSYDSLPDDTIRSCFL-YCGLFPEDYRIRKSELIDCWIGEGFLDQYDRSGAYNEGYYI  425 (863)
Q Consensus       347 ~~l~~~~~~~~~~~~~~~~~l~~sy~~L~~~~~k~cfl-~~~~fp~~~~i~~~~li~~w~a~g~i~~~~~~~~~~~~~~~  425 (863)
                                     .....+..+|..++. +.+..+. ....++.+ .+..+.+....   |        .....+...
T Consensus       224 ---------------~~l~~l~~~~~~l~~-~~~~~L~al~~~~~~~-~~~~~~ia~~l---g--------~~~~~~~~~  275 (305)
T TIGR00635       224 ---------------KALEMLMIDELGLDE-IDRKLLSVLIEQFQGG-PVGLKTLAAAL---G--------EDADTIEDV  275 (305)
T ss_pred             ---------------HHHHHhCCCCCCCCH-HHHHHHHHHHHHhCCC-cccHHHHHHHh---C--------CCcchHHHh
Confidence                           222234556777877 5555444 44555433 33333333221   1        112345555


Q ss_pred             HH-HHHHhcccccc
Q 048126          426 IG-ILLHACLLEEE  438 (863)
Q Consensus       426 ~~-~L~~~sll~~~  438 (863)
                      ++ .|++++|++..
T Consensus       276 ~e~~Li~~~li~~~  289 (305)
T TIGR00635       276 YEPYLLQIGFLQRT  289 (305)
T ss_pred             hhHHHHHcCCcccC
Confidence            77 69999999754

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.

>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed

Probab=98.97  E-value=3.8e-08  Score=105.90  Aligned_cols=272  Identities=14%  Similarity=0.117  Sum_probs=148.0

Q ss_pred             CCccchhHHHHHHHHHhcC-----CCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHH
Q 048126          126 EPTVGLESMFDKVWRCLGE-----EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIG  200 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~-----~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~  200 (863)
                      .+|||++..++.+..++..     .....+.|+|++|+||||+|+.+++.. .  ..+   .++..+. ......+..++
T Consensus        25 ~~~vG~~~~~~~l~~~l~~~~~~~~~~~~~ll~GppG~GKT~la~~ia~~l-~--~~~---~~~~~~~-~~~~~~l~~~l   97 (328)
T PRK00080         25 DEFIGQEKVKENLKIFIEAAKKRGEALDHVLLYGPPGLGKTTLANIIANEM-G--VNI---RITSGPA-LEKPGDLAAIL   97 (328)
T ss_pred             HHhcCcHHHHHHHHHHHHHHHhcCCCCCcEEEECCCCccHHHHHHHHHHHh-C--CCe---EEEeccc-ccChHHHHHHH
Confidence            5689999999998877742     345678899999999999999999987 2  222   1222111 11122223333


Q ss_pred             HHhCCCC----ccccCCChhHHHHHHHHHhccCcEEEEEeccCCccccccccCCCCCCCCCcEEEEecCchhhhhccc--
Q 048126          201 RRIGFLD----ESWKNGSLEDKASDILRILSKKKFLLLLDDIWERVDLTKVGVPFPDPENKSKIVFTTRFLEICGAMK--  274 (863)
Q Consensus       201 ~~l~~~~----~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~~~l~~~~~gs~IivTtR~~~v~~~~~--  274 (863)
                      ..+....    ++....+ ....+.+...+.+.+..+|+|+..+...+..   .++   +.+-|..|||...+.....  
T Consensus        98 ~~l~~~~vl~IDEi~~l~-~~~~e~l~~~~e~~~~~~~l~~~~~~~~~~~---~l~---~~~li~at~~~~~l~~~L~sR  170 (328)
T PRK00080         98 TNLEEGDVLFIDEIHRLS-PVVEEILYPAMEDFRLDIMIGKGPAARSIRL---DLP---PFTLIGATTRAGLLTSPLRDR  170 (328)
T ss_pred             HhcccCCEEEEecHhhcc-hHHHHHHHHHHHhcceeeeeccCccccceee---cCC---CceEEeecCCcccCCHHHHHh
Confidence            3332111    0000000 1122334555556666667766544322211   111   2455667777544432211  


Q ss_pred             ccceEeecCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCCchhHHHHHHHHhcCCCChhHHHHHHHHHHhcCC
Q 048126          275 AHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGLPLALITIGRAMTCKKTTQEWHHAIQILRRSSS  354 (863)
Q Consensus       275 ~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPlai~~~~~~l~~~~~~~~w~~~l~~l~~~~~  354 (863)
                      ....+.+++++.++..+++.+.+......   --.+.+..|++.|+|.|-.+..+...+.      .|...    ... .
T Consensus       171 f~~~~~l~~~~~~e~~~il~~~~~~~~~~---~~~~~~~~ia~~~~G~pR~a~~~l~~~~------~~a~~----~~~-~  236 (328)
T PRK00080        171 FGIVQRLEFYTVEELEKIVKRSARILGVE---IDEEGALEIARRSRGTPRIANRLLRRVR------DFAQV----KGD-G  236 (328)
T ss_pred             cCeeeecCCCCHHHHHHHHHHHHHHcCCC---cCHHHHHHHHHHcCCCchHHHHHHHHHH------HHHHH----cCC-C
Confidence            12468899999999999999887754322   2246789999999999976555554332      11110    000 0


Q ss_pred             CCC-CCcchhhhhhhhhcCCCCchhhHHHHh-HhccCCCCccccHHhHHHHHHhcCCCCCcccchhhhhHHHHHH-HHHH
Q 048126          355 EFP-GMGKEVYPLLKFSYDSLPDDTIRSCFL-YCGLFPEDYRIRKSELIDCWIGEGFLDQYDRSGAYNEGYYIIG-ILLH  431 (863)
Q Consensus       355 ~~~-~~~~~~~~~l~~sy~~L~~~~~k~cfl-~~~~fp~~~~i~~~~li~~w~a~g~i~~~~~~~~~~~~~~~~~-~L~~  431 (863)
                      .+. ..-......+...+..|+. ..+..+. ....|+.+ .+..+.+....           ......++..++ .|++
T Consensus       237 ~I~~~~v~~~l~~~~~~~~~l~~-~~~~~l~~~~~~~~~~-~~~~~~~a~~l-----------g~~~~~~~~~~e~~Li~  303 (328)
T PRK00080        237 VITKEIADKALDMLGVDELGLDE-MDRKYLRTIIEKFGGG-PVGLDTLAAAL-----------GEERDTIEDVYEPYLIQ  303 (328)
T ss_pred             CCCHHHHHHHHHHhCCCcCCCCH-HHHHHHHHHHHHcCCC-ceeHHHHHHHH-----------CCCcchHHHHhhHHHHH
Confidence            000 0001233445566677776 4455443 55566654 34444443221           111233444466 8899


Q ss_pred             hcccccc
Q 048126          432 ACLLEEE  438 (863)
Q Consensus       432 ~sll~~~  438 (863)
                      .+|++..
T Consensus       304 ~~li~~~  310 (328)
T PRK00080        304 QGFIQRT  310 (328)
T ss_pred             cCCcccC
Confidence            9998754

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

Probab=98.95  E-value=8.9e-10  Score=104.62  Aligned_cols=101  Identities=30%  Similarity=0.429  Sum_probs=21.8

Q ss_pred             cceEEEEeccccccccccCC-CCCccceEEccCCccccccchhhhcCCCccEEEccCCCccccCCccc-cccCCCCeEEc
Q 048126          494 RNVRRMSLMKNKIENLSETP-TCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGI-STLVSLEHLDL  571 (863)
Q Consensus       494 ~~lr~L~l~~~~~~~l~~~~-~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i-~~l~~L~~L~L  571 (863)
                      .+++.|++++|.++.+.... .+.+|+.|++++|.++.+..  +..+++|++|++++| .+..++..+ ..+++|+.|++
T Consensus        19 ~~~~~L~L~~n~I~~Ie~L~~~l~~L~~L~Ls~N~I~~l~~--l~~L~~L~~L~L~~N-~I~~i~~~l~~~lp~L~~L~L   95 (175)
T PF14580_consen   19 VKLRELNLRGNQISTIENLGATLDKLEVLDLSNNQITKLEG--LPGLPRLKTLDLSNN-RISSISEGLDKNLPNLQELYL   95 (175)
T ss_dssp             -----------------S--TT-TT--EEE-TTS--S--TT------TT--EEE--SS----S-CHHHHHH-TT--EEE-
T ss_pred             cccccccccccccccccchhhhhcCCCEEECCCCCCccccC--ccChhhhhhcccCCC-CCCccccchHHhCCcCCEEEC
Confidence            34455555555554444433 34455555555555444432  444555555555555 222333222 23455555555


Q ss_pred             cCCCccccc--hhhhcCCCCCEEecCCc
Q 048126          572 SGTAITHLP--IELQKLVNLKCLNLEYM  597 (863)
Q Consensus       572 ~~~~l~~lp--~~~~~l~~L~~L~l~~~  597 (863)
                      ++|+|..+-  ..+..+++|+.|++.+|
T Consensus        96 ~~N~I~~l~~l~~L~~l~~L~~L~L~~N  123 (175)
T PF14580_consen   96 SNNKISDLNELEPLSSLPKLRVLSLEGN  123 (175)
T ss_dssp             TTS---SCCCCGGGGG-TT--EEE-TT-
T ss_pred             cCCcCCChHHhHHHHcCCCcceeeccCC
Confidence            555444321  12334444555555444

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

Probab=98.93  E-value=4.8e-11  Score=122.59  Aligned_cols=298  Identities=16%  Similarity=0.097  Sum_probs=175.4

Q ss_pred             ceEEEEecccccccccc----CCCCCccceEEccCCc-ccccc-chhhhcCCCccEEEccCCCcccc--CCccccccCCC
Q 048126          495 NVRRMSLMKNKIENLSE----TPTCPHLLSLFLSDNS-LKMIA-GDFFQFMPSLRVFNMSNNHLLWK--LPSGISTLVSL  566 (863)
Q Consensus       495 ~lr~L~l~~~~~~~l~~----~~~~~~L~~L~l~~~~-l~~~~-~~~~~~l~~L~~L~L~~~~~~~~--lp~~i~~l~~L  566 (863)
                      .++.|++.++.-.....    ..+|++++.|.+.+|. ++... .++-..++.|++|+|..|..++.  +-.....+++|
T Consensus       139 ~lk~LSlrG~r~v~~sslrt~~~~CpnIehL~l~gc~~iTd~s~~sla~~C~~l~~l~L~~c~~iT~~~Lk~la~gC~kL  218 (483)
T KOG4341|consen  139 FLKELSLRGCRAVGDSSLRTFASNCPNIEHLALYGCKKITDSSLLSLARYCRKLRHLNLHSCSSITDVSLKYLAEGCRKL  218 (483)
T ss_pred             ccccccccccccCCcchhhHHhhhCCchhhhhhhcceeccHHHHHHHHHhcchhhhhhhcccchhHHHHHHHHHHhhhhH
Confidence            56777777664433222    2678888888888883 33221 22235678888888888654433  22234567888


Q ss_pred             CeEEccCC-Cccc--cchhhhcCCCCCEEecCCccccCCCcHHHhh----cCCCCcEEEeeccccccCchhhHHHHHcCC
Q 048126          567 EHLDLSGT-AITH--LPIELQKLVNLKCLNLEYMYNLNQFPRLVMS----AFSKLQVLRILKSNVLFGGHQFLVEELMGM  639 (863)
Q Consensus       567 ~~L~L~~~-~l~~--lp~~~~~l~~L~~L~l~~~~~l~~lp~~~~~----~L~~L~~L~l~~~~~~~~~~~~~~~~l~~L  639 (863)
                      .||++++| .|+.  +-.-...+++|+.+.+++|   .+++...+.    .+.-+-.+++.+|+..++.  .....-..+
T Consensus       219 ~~lNlSwc~qi~~~gv~~~~rG~~~l~~~~~kGC---~e~~le~l~~~~~~~~~i~~lnl~~c~~lTD~--~~~~i~~~c  293 (483)
T KOG4341|consen  219 KYLNLSWCPQISGNGVQALQRGCKELEKLSLKGC---LELELEALLKAAAYCLEILKLNLQHCNQLTDE--DLWLIACGC  293 (483)
T ss_pred             HHhhhccCchhhcCcchHHhccchhhhhhhhccc---ccccHHHHHHHhccChHhhccchhhhccccch--HHHHHhhhh
Confidence            88888888 5553  3334556667777777777   344443332    2334555666677666552  222223345


Q ss_pred             ccCceEEEEEcChHHHHHHhhhhhhhhcceeeeeccccCCCcccccchh-hcCCCceEEEcCCcccccceeccccccccc
Q 048126          640 KHLMALTITLKSWEALQELLISQELQRCTQSLFLRCFNDSKSLDIFCLA-CLHNLNKLYVAGRKHLEDFQMTVQRSSVNQ  718 (863)
Q Consensus       640 ~~L~~L~l~~~~~~~~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~~~l~-~~~~L~~L~l~~~~~~~~l~~~~~~~~~~~  718 (863)
                      ..|+.|..+.+....-..+........+|+.|.+..|...+......+. +.+.|+.+++.+|....+.  ...     .
T Consensus       294 ~~lq~l~~s~~t~~~d~~l~aLg~~~~~L~~l~l~~c~~fsd~~ft~l~rn~~~Le~l~~e~~~~~~d~--tL~-----s  366 (483)
T KOG4341|consen  294 HALQVLCYSSCTDITDEVLWALGQHCHNLQVLELSGCQQFSDRGFTMLGRNCPHLERLDLEECGLITDG--TLA-----S  366 (483)
T ss_pred             hHhhhhcccCCCCCchHHHHHHhcCCCceEEEeccccchhhhhhhhhhhcCChhhhhhcccccceehhh--hHh-----h
Confidence            6677777664443221222222223358888888887765544433332 3578888888887665432  111     1


Q ss_pred             cccccCcccEEEEeccCCCCCCc--h----hhccCCCcEEEEeccccchhhccccccccccCCCCCCCCcCCccceeccC
Q 048126          719 LARGFHSLHTVKVGFCFKLKDLT--W----LVFAPSLKSIVVLSCCNMEQIIKAEKLSQLHHHPERKKSVFAKLQFLSLE  792 (863)
Q Consensus       719 ~~~~l~~L~~L~L~~c~~l~~l~--~----l~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~~~p~L~~L~l~  792 (863)
                      ...+++.|+.|.|++|..+++..  .    -..+..|..|.+++|+.+++-..            .....+++|+.+.+.
T Consensus       367 ls~~C~~lr~lslshce~itD~gi~~l~~~~c~~~~l~~lEL~n~p~i~d~~L------------e~l~~c~~Leri~l~  434 (483)
T KOG4341|consen  367 LSRNCPRLRVLSLSHCELITDEGIRHLSSSSCSLEGLEVLELDNCPLITDATL------------EHLSICRNLERIELI  434 (483)
T ss_pred             hccCCchhccCChhhhhhhhhhhhhhhhhccccccccceeeecCCCCchHHHH------------HHHhhCcccceeeee
Confidence            12467888888888887665541  1    12457788888888887766521            235567788888888


Q ss_pred             CCcccccccc--CCCCCCCcceEeec
Q 048126          793 NLRNLCCINW--EALAFPNLKEIRVE  816 (863)
Q Consensus       793 ~~~~L~~i~~--~~~~~p~L~~L~i~  816 (863)
                      +|.....-+.  ....+|+++...+.
T Consensus       435 ~~q~vtk~~i~~~~~~lp~i~v~a~~  460 (483)
T KOG4341|consen  435 DCQDVTKEAISRFATHLPNIKVHAYF  460 (483)
T ss_pred             chhhhhhhhhHHHHhhCccceehhhc
Confidence            8877665333  22346666655443

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

Probab=98.91  E-value=1.4e-09  Score=103.38  Aligned_cols=141  Identities=26%  Similarity=0.329  Sum_probs=55.1

Q ss_pred             ccccccccccCCCCCccceEEccCCccccccchhhh-cCCCccEEEccCCCccccCCccccccCCCCeEEccCCCccccc
Q 048126          502 MKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQ-FMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAITHLP  580 (863)
Q Consensus       502 ~~~~~~~l~~~~~~~~L~~L~l~~~~l~~~~~~~~~-~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~~~l~~lp  580 (863)
                      ..+.+...+...++.+++.|+|.+|.++.+..  ++ .+.+|++|+|++| .+..++ .+..|++|++|++++|.|+.++
T Consensus         5 t~~~i~~~~~~~n~~~~~~L~L~~n~I~~Ie~--L~~~l~~L~~L~Ls~N-~I~~l~-~l~~L~~L~~L~L~~N~I~~i~   80 (175)
T PF14580_consen    5 TANMIEQIAQYNNPVKLRELNLRGNQISTIEN--LGATLDKLEVLDLSNN-QITKLE-GLPGLPRLKTLDLSNNRISSIS   80 (175)
T ss_dssp             -------------------------------S----TT-TT--EEE-TTS---S--T-T----TT--EEE--SS---S-C
T ss_pred             cccccccccccccccccccccccccccccccc--hhhhhcCCCEEECCCC-CCcccc-CccChhhhhhcccCCCCCCccc
Confidence            34556666777788889999999999887753  44 5789999999999 555665 6788999999999999999997


Q ss_pred             hhh-hcCCCCCEEecCCccccCCCcH-HHhhcCCCCcEEEeeccccccCchhhHHHHHcCCccCceEEEE
Q 048126          581 IEL-QKLVNLKCLNLEYMYNLNQFPR-LVMSAFSKLQVLRILKSNVLFGGHQFLVEELMGMKHLMALTIT  648 (863)
Q Consensus       581 ~~~-~~l~~L~~L~l~~~~~l~~lp~-~~~~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~~L~l~  648 (863)
                      ..+ ..+++|++|++++| .+..+.. ..++.+++|+.|++.+|++... ...-..-+..+++|+.|+-.
T Consensus        81 ~~l~~~lp~L~~L~L~~N-~I~~l~~l~~L~~l~~L~~L~L~~NPv~~~-~~YR~~vi~~lP~Lk~LD~~  148 (175)
T PF14580_consen   81 EGLDKNLPNLQELYLSNN-KISDLNELEPLSSLPKLRVLSLEGNPVCEK-KNYRLFVIYKLPSLKVLDGQ  148 (175)
T ss_dssp             HHHHHH-TT--EEE-TTS----SCCCCGGGGG-TT--EEE-TT-GGGGS-TTHHHHHHHH-TT-SEETTE
T ss_pred             cchHHhCCcCCEEECcCC-cCCChHHhHHHHcCCCcceeeccCCcccch-hhHHHHHHHHcChhheeCCE
Confidence            766 46899999999998 4444432 1267899999999999988654 23345556778888888754

>PRK06893 DNA replication initiation factor; Validated

Probab=98.78  E-value=6.2e-08  Score=98.19  Aligned_cols=152  Identities=18%  Similarity=0.199  Sum_probs=93.2

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHHHHhCCCCccccCCChhHHHHHHHHH
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGRRIGFLDESWKNGSLEDKASDILRI  225 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~  225 (863)
                      ..+.+.++|+.|+|||+||+.+++...   .....+.|+++....   .....                       +.+.
T Consensus        38 ~~~~l~l~G~~G~GKThL~~ai~~~~~---~~~~~~~y~~~~~~~---~~~~~-----------------------~~~~   88 (229)
T PRK06893         38 QQPFFYIWGGKSSGKSHLLKAVSNHYL---LNQRTAIYIPLSKSQ---YFSPA-----------------------VLEN   88 (229)
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHHHH---HcCCCeEEeeHHHhh---hhhHH-----------------------HHhh
Confidence            345789999999999999999999872   223345677654210   00001                       1111


Q ss_pred             hccCcEEEEEeccCCc---ccccc-ccCCCCC-CCCCcEEEE-ecCc---------hhhhhcccccceEeecCCChHHHH
Q 048126          226 LSKKKFLLLLDDIWER---VDLTK-VGVPFPD-PENKSKIVF-TTRF---------LEICGAMKAHEFLKVECLGPEDAW  290 (863)
Q Consensus       226 l~~kr~LlVlDdv~~~---~~~~~-~~~~l~~-~~~gs~Iiv-TtR~---------~~v~~~~~~~~~~~l~~L~~~e~~  290 (863)
                      ++ +.-+||+||+|..   ..|.. +...+.. ...|..+|| |++.         +.+...+.....++++++++++.+
T Consensus        89 ~~-~~dlLilDDi~~~~~~~~~~~~l~~l~n~~~~~~~~illits~~~p~~l~~~~~~L~sRl~~g~~~~l~~pd~e~~~  167 (229)
T PRK06893         89 LE-QQDLVCLDDLQAVIGNEEWELAIFDLFNRIKEQGKTLLLISADCSPHALSIKLPDLASRLTWGEIYQLNDLTDEQKI  167 (229)
T ss_pred             cc-cCCEEEEeChhhhcCChHHHHHHHHHHHHHHHcCCcEEEEeCCCChHHccccchhHHHHHhcCCeeeCCCCCHHHHH
Confidence            21 2348999999863   33432 2221221 123555554 4443         345555566678899999999999


Q ss_pred             HHHHHHhcccccCCCCChHHHHHHHHHHhCCchhHHHHHH
Q 048126          291 RLFRENLRRDVLDNHPDIPELARSVAKEYAGLPLALITIG  330 (863)
Q Consensus       291 ~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPlai~~~~  330 (863)
                      +++++.+......   --+++..-|++.+.|-.-++..+-
T Consensus       168 ~iL~~~a~~~~l~---l~~~v~~~L~~~~~~d~r~l~~~l  204 (229)
T PRK06893        168 IVLQRNAYQRGIE---LSDEVANFLLKRLDRDMHTLFDAL  204 (229)
T ss_pred             HHHHHHHHHcCCC---CCHHHHHHHHHhccCCHHHHHHHH
Confidence            9999988754322   225667888888887665554433

>COG3899 Predicted ATPase [General function prediction only]

Probab=98.76  E-value=1.4e-07  Score=112.81  Aligned_cols=266  Identities=14%  Similarity=0.155  Sum_probs=153.7

Q ss_pred             CccchhHHHHHHHHHhcC---CCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccC---HHHHHHHHH
Q 048126          127 PTVGLESMFDKVWRCLGE---EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQ---LEKIQEKIG  200 (863)
Q Consensus       127 ~~vGr~~~~~~l~~~L~~---~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~---~~~~~~~i~  200 (863)
                      +++||+.+++.|...+..   +.-.++.+.|..|||||+|+++|.....+.+..|-...+-....+..   ..+..++++
T Consensus         1 ~l~GRe~ev~~Ll~~f~~v~~g~~~~~lv~G~sGIGKsalv~ev~~~i~~~~~~~i~~~f~q~~~~ipl~~lvq~~r~l~   80 (849)
T COG3899           1 PLYGRETELAQLLAAFDRVSKGRGEVVLVAGESGIGKSALVNEVHKPITQQRGYFIKGKFDQFERNIPLSPLVQAFRDLM   80 (849)
T ss_pred             CCCchHhHHHHHHHHHHHHhCCCeEEEEEeecCCCcHHHHHHHHHHHHhccceeeeHhhcccccCCCchHHHHHHHHHHH
Confidence            368999999999998864   45669999999999999999999998843322222111111222221   223344444


Q ss_pred             HHh-------------------CCCCcc------------------c--cCCChhHH-----HHHHHHHhc-cCcEEEEE
Q 048126          201 RRI-------------------GFLDES------------------W--KNGSLEDK-----ASDILRILS-KKKFLLLL  235 (863)
Q Consensus       201 ~~l-------------------~~~~~~------------------~--~~~~~~~~-----~~~l~~~l~-~kr~LlVl  235 (863)
                      .++                   +...+.                  .  .......+     ...+..+.. .++.++|+
T Consensus        81 ~~ll~~~~~~~~~~~~~il~~~g~~~~~~~~vip~L~~i~g~~~~~~el~~~~~~~r~n~~~~~~i~~~~~~~~plVi~l  160 (849)
T COG3899          81 GQLLSESDTRILSWRARLLAALGENGQVIIDVIPELELIIGKRPPALELSPTAAQNRFNLAFLRFIQVFTAEEHPLVIVL  160 (849)
T ss_pred             HHHhhccchHHHHHHHHHHHHhcccchhHHhhhHHHHhhcCCCcchhhcccchhHHHHHHHHHHHHHHHHhccCCeEEEE
Confidence            433                   111100                  0  00011111     122223333 46999999


Q ss_pred             eccCC-ccc-c---ccccCCCCC-CCCCcEE--EEecCch--hhhhcccccceEeecCCChHHHHHHHHHHhcccccCCC
Q 048126          236 DDIWE-RVD-L---TKVGVPFPD-PENKSKI--VFTTRFL--EICGAMKAHEFLKVECLGPEDAWRLFRENLRRDVLDNH  305 (863)
Q Consensus       236 Ddv~~-~~~-~---~~~~~~l~~-~~~gs~I--ivTtR~~--~v~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~  305 (863)
                      ||+.- ... +   ..+.....- .-....|  +.|.+..  .+-........+.|.||+..+...+.....+...    
T Consensus       161 eDlhWaD~~SL~lL~~lm~~~~~~~~~~n~v~~~h~~~~~~~~~~~~~~~i~~I~L~PL~~~d~~~lV~~~l~~~~----  236 (849)
T COG3899         161 EDLHWADSASLKLLQLLMDRIAIGAYRDNEVLLLHPLRPTLGEILKSATNITTITLAPLSRADTNQLVAATLGCTK----  236 (849)
T ss_pred             ecccccChhHHHHHHHHHHhcchhhhhccccccCCCccchhhHHhhcCCceeEEecCcCchhhHHHHHHHHhCCcc----
Confidence            99942 211 1   111111100 0001122  2233322  1222223446799999999999999998886532    


Q ss_pred             CChHHHHHHHHHHhCCchhHHHHHHHHhcCC------CChhHHHHHHHHHHhcCCCCCCCcchhhhhhhhhcCCCCchhh
Q 048126          306 PDIPELARSVAKEYAGLPLALITIGRAMTCK------KTTQEWHHAIQILRRSSSEFPGMGKEVYPLLKFSYDSLPDDTI  379 (863)
Q Consensus       306 ~~~~~~~~~i~~~c~glPlai~~~~~~l~~~------~~~~~w~~~l~~l~~~~~~~~~~~~~~~~~l~~sy~~L~~~~~  379 (863)
                      ....+....|+++..|+|+.+..+-..+...      .+...|+.-...+..     .+..+.+...+..-.+.||. ..
T Consensus       237 ~~~~p~~~~i~~kt~GnPfFi~e~lk~l~~~~~i~f~~~~~~w~~~~~~i~~-----~~~~~~vv~~l~~rl~kL~~-~t  310 (849)
T COG3899         237 LLPAPLLELIFEKTKGNPFFIEEFLKALYEEGLLVFNFDTGAWQCSIASLGI-----LATTDAVVEFLAARLQKLPG-TT  310 (849)
T ss_pred             cccchHHHHHHHHhcCCCccHHHHHHHHHhCCeeEecCCCcceeccHHhcCC-----chhhHHHHHHHHHHHhcCCH-HH
Confidence            3345678999999999999999998888752      355556543332221     11223466678888999999 78


Q ss_pred             HHHHhHhccCCCCccccHHhHHHHH
Q 048126          380 RSCFLYCGLFPEDYRIRKSELIDCW  404 (863)
Q Consensus       380 k~cfl~~~~fp~~~~i~~~~li~~w  404 (863)
                      ++..-..|++-..  ++.+.|...+
T Consensus       311 ~~Vl~~AA~iG~~--F~l~~La~l~  333 (849)
T COG3899         311 REVLKAAACIGNR--FDLDTLAALA  333 (849)
T ss_pred             HHHHHHHHHhCcc--CCHHHHHHHH
Confidence            8888888887543  4444544433

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

Probab=98.73  E-value=3.5e-09  Score=109.76  Aligned_cols=208  Identities=19%  Similarity=0.215  Sum_probs=113.1

Q ss_pred             CCCCccceEEccCCccccccc-hhhhcCCCccEEEccCCCccc---cCCccccccCCCCeEEccCCCccccchh--hhcC
Q 048126          513 PTCPHLLSLFLSDNSLKMIAG-DFFQFMPSLRVFNMSNNHLLW---KLPSGISTLVSLEHLDLSGTAITHLPIE--LQKL  586 (863)
Q Consensus       513 ~~~~~L~~L~l~~~~l~~~~~-~~~~~l~~L~~L~L~~~~~~~---~lp~~i~~l~~L~~L~L~~~~l~~lp~~--~~~l  586 (863)
                      +++++|+.+.|.++.+...+. .....|++++.|||++| .+.   .+-.-+..|++|+.|+|+.|++...-.+  -..+
T Consensus       118 sn~kkL~~IsLdn~~V~~~~~~~~~k~~~~v~~LdLS~N-L~~nw~~v~~i~eqLp~Le~LNls~Nrl~~~~~s~~~~~l  196 (505)
T KOG3207|consen  118 SNLKKLREISLDNYRVEDAGIEEYSKILPNVRDLDLSRN-LFHNWFPVLKIAEQLPSLENLNLSSNRLSNFISSNTTLLL  196 (505)
T ss_pred             hhHHhhhheeecCccccccchhhhhhhCCcceeecchhh-hHHhHHHHHHHHHhcccchhcccccccccCCccccchhhh
Confidence            567788888888776654442 34667888888888887 332   2334456777888888887766532111  1244


Q ss_pred             CCCCEEecCCccccCCC-cHHHhhcCCCCcEEEeeccccccCchhhHHHHHcCCccCceEEEEEcChHHHHHHhhhhhhh
Q 048126          587 VNLKCLNLEYMYNLNQF-PRLVMSAFSKLQVLRILKSNVLFGGHQFLVEELMGMKHLMALTITLKSWEALQELLISQELQ  665 (863)
Q Consensus       587 ~~L~~L~l~~~~~l~~l-p~~~~~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~~~~~l~~~~~~~  665 (863)
                      ..|+.|.++.| .++.- -..+...+++|..|++..|...                            ....  ......
T Consensus       197 ~~lK~L~l~~C-Gls~k~V~~~~~~fPsl~~L~L~~N~~~----------------------------~~~~--~~~~i~  245 (505)
T KOG3207|consen  197 SHLKQLVLNSC-GLSWKDVQWILLTFPSLEVLYLEANEII----------------------------LIKA--TSTKIL  245 (505)
T ss_pred             hhhheEEeccC-CCCHHHHHHHHHhCCcHHHhhhhccccc----------------------------ceec--chhhhh
Confidence            55666666666 22210 0112334555555555554311                            0000  111222


Q ss_pred             hcceeeeeccccCCCcccccchhhcCCCceEEEcCCcccccce-eccccccccccccccCcccEEEEeccCC--CCCCch
Q 048126          666 RCTQSLFLRCFNDSKSLDIFCLACLHNLNKLYVAGRKHLEDFQ-MTVQRSSVNQLARGFHSLHTVKVGFCFK--LKDLTW  742 (863)
Q Consensus       666 ~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~l~-~~~~~~~~~~~~~~l~~L~~L~L~~c~~--l~~l~~  742 (863)
                      ..|+.|+|++.+............++.|+.|+++.|.. .++. ++..   .......|++|++|++..++.  ..++..
T Consensus       246 ~~L~~LdLs~N~li~~~~~~~~~~l~~L~~Lnls~tgi-~si~~~d~~---s~~kt~~f~kL~~L~i~~N~I~~w~sl~~  321 (505)
T KOG3207|consen  246 QTLQELDLSNNNLIDFDQGYKVGTLPGLNQLNLSSTGI-ASIAEPDVE---SLDKTHTFPKLEYLNISENNIRDWRSLNH  321 (505)
T ss_pred             hHHhhccccCCcccccccccccccccchhhhhccccCc-chhcCCCcc---chhhhcccccceeeecccCccccccccch
Confidence            35666666665555554444556677788887776543 2221 1110   011124588888888888743  333444


Q ss_pred             hhccCCCcEEEEec
Q 048126          743 LVFAPSLKSIVVLS  756 (863)
Q Consensus       743 l~~l~~L~~L~l~~  756 (863)
                      +..+++|+.|.+..
T Consensus       322 l~~l~nlk~l~~~~  335 (505)
T KOG3207|consen  322 LRTLENLKHLRITL  335 (505)
T ss_pred             hhccchhhhhhccc
Confidence            44567777776554

>COG2256 MGS1 ATPase related to the helicase subunit of the Holliday junction resolvase [DNA replication, recombination, and repair]

Probab=98.73  E-value=1.5e-07  Score=97.43  Aligned_cols=170  Identities=21%  Similarity=0.212  Sum_probs=104.6

Q ss_pred             CccchhHHH---HHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHHHHh
Q 048126          127 PTVGLESMF---DKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGRRI  203 (863)
Q Consensus       127 ~~vGr~~~~---~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l  203 (863)
                      ++||-+.-+   .-|.+++..+.+.-..+||++|+||||||+.++...   ...|     ..+|...+-.+-++.+++.-
T Consensus        25 e~vGQ~HLlg~~~~lrr~v~~~~l~SmIl~GPPG~GKTTlA~liA~~~---~~~f-----~~~sAv~~gvkdlr~i~e~a   96 (436)
T COG2256          25 EVVGQEHLLGEGKPLRRAVEAGHLHSMILWGPPGTGKTTLARLIAGTT---NAAF-----EALSAVTSGVKDLREIIEEA   96 (436)
T ss_pred             HhcChHhhhCCCchHHHHHhcCCCceeEEECCCCCCHHHHHHHHHHhh---CCce-----EEeccccccHHHHHHHHHHH
Confidence            355554433   234455556788888899999999999999999977   4444     33333322222222222211


Q ss_pred             CCCCccccCCChhHHHHHHHHHhccCcEEEEEeccCCc--cccccccCCCCCCCCCcEEEE--ecCchhh---hhccccc
Q 048126          204 GFLDESWKNGSLEDKASDILRILSKKKFLLLLDDIWER--VDLTKVGVPFPDPENKSKIVF--TTRFLEI---CGAMKAH  276 (863)
Q Consensus       204 ~~~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~--~~~~~~~~~l~~~~~gs~Iiv--TtR~~~v---~~~~~~~  276 (863)
                                        -.....+++.+|++|.|+.-  .+-+.+   +|.-..|.-|+|  ||.|+..   .....-.
T Consensus        97 ------------------~~~~~~gr~tiLflDEIHRfnK~QQD~l---Lp~vE~G~iilIGATTENPsF~ln~ALlSR~  155 (436)
T COG2256          97 ------------------RKNRLLGRRTILFLDEIHRFNKAQQDAL---LPHVENGTIILIGATTENPSFELNPALLSRA  155 (436)
T ss_pred             ------------------HHHHhcCCceEEEEehhhhcChhhhhhh---hhhhcCCeEEEEeccCCCCCeeecHHHhhhh
Confidence                              11233478999999999863  233333   455567877776  7777543   2223345


Q ss_pred             ceEeecCCChHHHHHHHHHHhcccccC---CCCCh-HHHHHHHHHHhCCchhH
Q 048126          277 EFLKVECLGPEDAWRLFRENLRRDVLD---NHPDI-PELARSVAKEYAGLPLA  325 (863)
Q Consensus       277 ~~~~l~~L~~~e~~~lf~~~~~~~~~~---~~~~~-~~~~~~i~~~c~glPla  325 (863)
                      .++.+++|+.++-.+++.+.+......   ....+ ++...-++..++|---+
T Consensus       156 ~vf~lk~L~~~di~~~l~ra~~~~~rgl~~~~~~i~~~a~~~l~~~s~GD~R~  208 (436)
T COG2256         156 RVFELKPLSSEDIKKLLKRALLDEERGLGGQIIVLDEEALDYLVRLSNGDARR  208 (436)
T ss_pred             heeeeecCCHHHHHHHHHHHHhhhhcCCCcccccCCHHHHHHHHHhcCchHHH
Confidence            689999999999999999854332211   11223 34677788888886543

>KOG0532 consensus Leucine-rich repeat (LRR) protein, contains calponin homology domain [Cytoskeleton]

Probab=98.71  E-value=6.4e-10  Score=118.57  Aligned_cols=146  Identities=29%  Similarity=0.375  Sum_probs=75.4

Q ss_pred             EEEEecccccccccc-CCCCCccceEEccCCccccccchhhhcCCCccEEEccCCCccccCCccccccCCCCeEEccCCC
Q 048126          497 RRMSLMKNKIENLSE-TPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGTA  575 (863)
Q Consensus       497 r~L~l~~~~~~~l~~-~~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~~~  575 (863)
                      ..+.+..|.+..++. ..++..|.+|+|+.|.+..+|.. ++.| -|++|-+++| .++.+|..++.+.+|..||.+.|.
T Consensus       101 e~liLy~n~~r~ip~~i~~L~~lt~l~ls~NqlS~lp~~-lC~l-pLkvli~sNN-kl~~lp~~ig~~~tl~~ld~s~ne  177 (722)
T KOG0532|consen  101 ESLILYHNCIRTIPEAICNLEALTFLDLSSNQLSHLPDG-LCDL-PLKVLIVSNN-KLTSLPEEIGLLPTLAHLDVSKNE  177 (722)
T ss_pred             HHHHHHhccceecchhhhhhhHHHHhhhccchhhcCChh-hhcC-cceeEEEecC-ccccCCcccccchhHHHhhhhhhh
Confidence            333344444433322 24455555555555555555544 2222 3555555555 344555555555555556666665


Q ss_pred             ccccchhhhcCCCCCEEecCCccccCCCcHHHhhcCCCCcEEEeeccccccCchhhHHHHHcCCccCceEEEEEcChH
Q 048126          576 ITHLPIELQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRILKSNVLFGGHQFLVEELMGMKHLMALTITLKSWE  653 (863)
Q Consensus       576 l~~lp~~~~~l~~L~~L~l~~~~~l~~lp~~~~~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~  653 (863)
                      +..+|..++.|.+|+.|+++.| .+..+|.. +.. -.|..|+++.|++.     ..+..+.+|++|+.|.+..|...
T Consensus       178 i~slpsql~~l~slr~l~vrRn-~l~~lp~E-l~~-LpLi~lDfScNkis-----~iPv~fr~m~~Lq~l~LenNPLq  247 (722)
T KOG0532|consen  178 IQSLPSQLGYLTSLRDLNVRRN-HLEDLPEE-LCS-LPLIRLDFSCNKIS-----YLPVDFRKMRHLQVLQLENNPLQ  247 (722)
T ss_pred             hhhchHHhhhHHHHHHHHHhhh-hhhhCCHH-HhC-CceeeeecccCcee-----ecchhhhhhhhheeeeeccCCCC
Confidence            5556655666666666655555 34455554 332 23555555555443     24555556666666666555443

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

Probab=98.68  E-value=4.8e-09  Score=108.74  Aligned_cols=208  Identities=16%  Similarity=0.142  Sum_probs=104.9

Q ss_pred             cccCCCCeEEccCCCccccch--hhhcCCCCCEEecCCccccCCCc--HHHhhcCCCCcEEEeeccccccCchhhHHHHH
Q 048126          561 STLVSLEHLDLSGTAITHLPI--ELQKLVNLKCLNLEYMYNLNQFP--RLVMSAFSKLQVLRILKSNVLFGGHQFLVEEL  636 (863)
Q Consensus       561 ~~l~~L~~L~L~~~~l~~lp~--~~~~l~~L~~L~l~~~~~l~~lp--~~~~~~L~~L~~L~l~~~~~~~~~~~~~~~~l  636 (863)
                      +++.+|+...|.++.+...+.  ....|++++.|||+.| .+..+-  ..+...|++|+.|+++.|......+....   
T Consensus       118 sn~kkL~~IsLdn~~V~~~~~~~~~k~~~~v~~LdLS~N-L~~nw~~v~~i~eqLp~Le~LNls~Nrl~~~~~s~~~---  193 (505)
T KOG3207|consen  118 SNLKKLREISLDNYRVEDAGIEEYSKILPNVRDLDLSRN-LFHNWFPVLKIAEQLPSLENLNLSSNRLSNFISSNTT---  193 (505)
T ss_pred             hhHHhhhheeecCccccccchhhhhhhCCcceeecchhh-hHHhHHHHHHHHHhcccchhcccccccccCCccccch---
Confidence            456667777777776665553  4566677777777665 222221  12345566666666665544321000000   


Q ss_pred             cCCccCceEEEEEcChHHHHHHhhhhhhhhcceeeeeccccCCCcccccchhhcCCCceEEEcCCcccccceeccccccc
Q 048126          637 MGMKHLMALTITLKSWEALQELLISQELQRCTQSLFLRCFNDSKSLDIFCLACLHNLNKLYVAGRKHLEDFQMTVQRSSV  716 (863)
Q Consensus       637 ~~L~~L~~L~l~~~~~~~~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~l~~~~~~~~~  716 (863)
                      ..++                          +++.|.|+.|+-........+..+|+|+.|++.+|..+.   ...     
T Consensus       194 ~~l~--------------------------~lK~L~l~~CGls~k~V~~~~~~fPsl~~L~L~~N~~~~---~~~-----  239 (505)
T KOG3207|consen  194 LLLS--------------------------HLKQLVLNSCGLSWKDVQWILLTFPSLEVLYLEANEIIL---IKA-----  239 (505)
T ss_pred             hhhh--------------------------hhheEEeccCCCCHHHHHHHHHhCCcHHHhhhhcccccc---eec-----
Confidence            0233                          445555555443211111223446777777777764221   111     


Q ss_pred             cccccccCcccEEEEeccCCCCC--CchhhccCCCcEEEEeccccchhhccccccccccCCCCCCCCcCCccceeccCCC
Q 048126          717 NQLARGFHSLHTVKVGFCFKLKD--LTWLVFAPSLKSIVVLSCCNMEQIIKAEKLSQLHHHPERKKSVFAKLQFLSLENL  794 (863)
Q Consensus       717 ~~~~~~l~~L~~L~L~~c~~l~~--l~~l~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~~~p~L~~L~l~~~  794 (863)
                       .+...+..|++|+|++++.+..  .+..+.||.|..|+++.|. +.++-..  ..+.    ......||+|+.|.+...
T Consensus       240 -~~~~i~~~L~~LdLs~N~li~~~~~~~~~~l~~L~~Lnls~tg-i~si~~~--d~~s----~~kt~~f~kL~~L~i~~N  311 (505)
T KOG3207|consen  240 -TSTKILQTLQELDLSNNNLIDFDQGYKVGTLPGLNQLNLSSTG-IASIAEP--DVES----LDKTHTFPKLEYLNISEN  311 (505)
T ss_pred             -chhhhhhHHhhccccCCcccccccccccccccchhhhhccccC-cchhcCC--Cccc----hhhhcccccceeeecccC
Confidence             0112356777777777643332  2456677777777777743 4444110  0000    112456788888877763


Q ss_pred             cccccccc--CCCCCCCcceEee
Q 048126          795 RNLCCINW--EALAFPNLKEIRV  815 (863)
Q Consensus       795 ~~L~~i~~--~~~~~p~L~~L~i  815 (863)
                       +..+|+.  ....+++|+.|.+
T Consensus       312 -~I~~w~sl~~l~~l~nlk~l~~  333 (505)
T KOG3207|consen  312 -NIRDWRSLNHLRTLENLKHLRI  333 (505)
T ss_pred             -ccccccccchhhccchhhhhhc
Confidence             3333332  2233566666665

>PRK13342 recombination factor protein RarA; Reviewed

Probab=98.66  E-value=3e-07  Score=102.02  Aligned_cols=177  Identities=16%  Similarity=0.146  Sum_probs=107.5

Q ss_pred             CCccchhHHHHH---HHHHhcCCCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHHHH
Q 048126          126 EPTVGLESMFDK---VWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGRR  202 (863)
Q Consensus       126 ~~~vGr~~~~~~---l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~  202 (863)
                      +++||.+..+..   +.+++.......+.++|++|+||||+|+.+++..   ...|     +.++.......-.+.+++.
T Consensus        12 ~d~vGq~~~v~~~~~L~~~i~~~~~~~ilL~GppGtGKTtLA~~ia~~~---~~~~-----~~l~a~~~~~~~ir~ii~~   83 (413)
T PRK13342         12 DEVVGQEHLLGPGKPLRRMIEAGRLSSMILWGPPGTGKTTLARIIAGAT---DAPF-----EALSAVTSGVKDLREVIEE   83 (413)
T ss_pred             HHhcCcHHHhCcchHHHHHHHcCCCceEEEECCCCCCHHHHHHHHHHHh---CCCE-----EEEecccccHHHHHHHHHH
Confidence            468999888766   8888877777788899999999999999999876   2333     2222211111111222211


Q ss_pred             hCCCCccccCCChhHHHHHHHH-HhccCcEEEEEeccCCcc--ccccccCCCCCCCCCcEEEE--ecCchhh--h-hccc
Q 048126          203 IGFLDESWKNGSLEDKASDILR-ILSKKKFLLLLDDIWERV--DLTKVGVPFPDPENKSKIVF--TTRFLEI--C-GAMK  274 (863)
Q Consensus       203 l~~~~~~~~~~~~~~~~~~l~~-~l~~kr~LlVlDdv~~~~--~~~~~~~~l~~~~~gs~Iiv--TtR~~~v--~-~~~~  274 (863)
                                         ... ...+++.+|++|+++...  ..+.+...+.   .|..+++  ||.+...  . ....
T Consensus        84 -------------------~~~~~~~g~~~vL~IDEi~~l~~~~q~~LL~~le---~~~iilI~att~n~~~~l~~aL~S  141 (413)
T PRK13342         84 -------------------ARQRRSAGRRTILFIDEIHRFNKAQQDALLPHVE---DGTITLIGATTENPSFEVNPALLS  141 (413)
T ss_pred             -------------------HHHhhhcCCceEEEEechhhhCHHHHHHHHHHhh---cCcEEEEEeCCCChhhhccHHHhc
Confidence                               111 124578899999998642  2333333322   2444444  4444321  1 1112


Q ss_pred             ccceEeecCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCCchhHHHHHHHH
Q 048126          275 AHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGLPLALITIGRA  332 (863)
Q Consensus       275 ~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPlai~~~~~~  332 (863)
                      ....+.+.+++.++.+.++.+.+........+--.+....|++.|+|.+..+..+...
T Consensus       142 R~~~~~~~~ls~e~i~~lL~~~l~~~~~~~i~i~~~al~~l~~~s~Gd~R~aln~Le~  199 (413)
T PRK13342        142 RAQVFELKPLSEEDIEQLLKRALEDKERGLVELDDEALDALARLANGDARRALNLLEL  199 (413)
T ss_pred             cceeeEeCCCCHHHHHHHHHHHHHHhhcCCCCCCHHHHHHHHHhCCCCHHHHHHHHHH
Confidence            2357899999999999999987643210100223566788999999998776554433

>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda

Probab=98.64  E-value=2.5e-07  Score=94.27  Aligned_cols=174  Identities=15%  Similarity=0.138  Sum_probs=105.6

Q ss_pred             CCcc--chhHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHHHHh
Q 048126          126 EPTV--GLESMFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGRRI  203 (863)
Q Consensus       126 ~~~v--Gr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l  203 (863)
                      ++|+  +.+..++.+.+++.......+.|+|..|+|||+||+.+++..   .......+|++++.-.+..   ..     
T Consensus        15 ~~~~~~~~~~~~~~l~~~~~~~~~~~lll~G~~G~GKT~la~~~~~~~---~~~~~~~~~i~~~~~~~~~---~~-----   83 (226)
T TIGR03420        15 DNFYAGGNAELLAALRQLAAGKGDRFLYLWGESGSGKSHLLQAACAAA---EERGKSAIYLPLAELAQAD---PE-----   83 (226)
T ss_pred             cCcCcCCcHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHH---HhcCCcEEEEeHHHHHHhH---HH-----
Confidence            3455  345577778877655667789999999999999999999887   2233345666654321100   01     


Q ss_pred             CCCCccccCCChhHHHHHHHHHhccCcEEEEEeccCCcc---ccc-cccCCCCC-CCCCcEEEEecCchh---------h
Q 048126          204 GFLDESWKNGSLEDKASDILRILSKKKFLLLLDDIWERV---DLT-KVGVPFPD-PENKSKIVFTTRFLE---------I  269 (863)
Q Consensus       204 ~~~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~---~~~-~~~~~l~~-~~~gs~IivTtR~~~---------v  269 (863)
                                        +.+.+.+ .-+||+||++...   .|. .+...+.. ...+.++|+||+...         +
T Consensus        84 ------------------~~~~~~~-~~lLvIDdi~~l~~~~~~~~~L~~~l~~~~~~~~~iIits~~~~~~~~~~~~~L  144 (226)
T TIGR03420        84 ------------------VLEGLEQ-ADLVCLDDVEAIAGQPEWQEALFHLYNRVREAGGRLLIAGRAAPAQLPLRLPDL  144 (226)
T ss_pred             ------------------HHhhccc-CCEEEEeChhhhcCChHHHHHHHHHHHHHHHcCCeEEEECCCChHHCCcccHHH
Confidence                              1111222 2389999997643   222 22222211 123347888887532         1


Q ss_pred             hhcccccceEeecCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCCchhHHHHHHHH
Q 048126          270 CGAMKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGLPLALITIGRA  332 (863)
Q Consensus       270 ~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPlai~~~~~~  332 (863)
                      ...+.....+++++++.++-..++...+.....   +--.+..+.|++.+.|.|..+..+...
T Consensus       145 ~~r~~~~~~i~l~~l~~~e~~~~l~~~~~~~~~---~~~~~~l~~L~~~~~gn~r~L~~~l~~  204 (226)
T TIGR03420       145 RTRLAWGLVFQLPPLSDEEKIAALQSRAARRGL---QLPDEVADYLLRHGSRDMGSLMALLDA  204 (226)
T ss_pred             HHHHhcCeeEecCCCCHHHHHHHHHHHHHHcCC---CCCHHHHHHHHHhccCCHHHHHHHHHH
Confidence            222222457899999999999999876533221   122456788888888988777665433

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.

>PTZ00112 origin recognition complex 1 protein; Provisional

Probab=98.62  E-value=2.9e-06  Score=96.71  Aligned_cols=204  Identities=16%  Similarity=0.095  Sum_probs=119.6

Q ss_pred             CCccchhHHHHHHHHHhcC----C-CccEEEEEcCCCCcHHHHHHHHHhhhcCC--CCCCC--EEEEEEeCCccCHHHHH
Q 048126          126 EPTVGLESMFDKVWRCLGE----E-QVGIIGLYGMGGVGKTTLLTKINNKLLGA--PNDFD--VVIWVVVSKDLQLEKIQ  196 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~----~-~~~vi~I~G~gGiGKTtLa~~v~~~~~~~--~~~F~--~~~wv~~s~~~~~~~~~  196 (863)
                      +.++||++++++|...|..    . ...++.|+|++|+|||++++.|.+.....  .....  .+++|.+..-.+...++
T Consensus       755 D~LPhREeEIeeLasfL~paIkgsgpnnvLYIyG~PGTGKTATVK~VLrELqeeaeqk~lp~f~vVYINCm~Lstp~sIY  834 (1164)
T PTZ00112        755 KYLPCREKEIKEVHGFLESGIKQSGSNQILYISGMPGTGKTATVYSVIQLLQHKTKQKLLPSFNVFEINGMNVVHPNAAY  834 (1164)
T ss_pred             CcCCChHHHHHHHHHHHHHHHhcCCCCceEEEECCCCCCHHHHHHHHHHHHHHHHhhccCCCceEEEEeCCccCCHHHHH
Confidence            4568999999999998853    2 23578899999999999999998776211  11222  35778777777888899


Q ss_pred             HHHHHHhCCCCccccCCChhHHHHHHHHHhcc---CcEEEEEeccCCccc-----cccccCCCCCCCCCcEEEE--ecCc
Q 048126          197 EKIGRRIGFLDESWKNGSLEDKASDILRILSK---KKFLLLLDDIWERVD-----LTKVGVPFPDPENKSKIVF--TTRF  266 (863)
Q Consensus       197 ~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~---kr~LlVlDdv~~~~~-----~~~~~~~l~~~~~gs~Iiv--TtR~  266 (863)
                      ..|+.++....+. ......+....+...+..   ...+||||+|+....     +-.+... +. ..+++|+|  +|..
T Consensus       835 qvI~qqL~g~~P~-~GlsS~evLerLF~~L~k~~r~v~IIILDEID~L~kK~QDVLYnLFR~-~~-~s~SKLiLIGISNd  911 (1164)
T PTZ00112        835 QVLYKQLFNKKPP-NALNSFKILDRLFNQNKKDNRNVSILIIDEIDYLITKTQKVLFTLFDW-PT-KINSKLVLIAISNT  911 (1164)
T ss_pred             HHHHHHHcCCCCC-ccccHHHHHHHHHhhhhcccccceEEEeehHhhhCccHHHHHHHHHHH-hh-ccCCeEEEEEecCc
Confidence            9999888433221 222333445555554422   245899999975321     1111111 11 23455544  3332


Q ss_pred             hh--------hhhcccccceEeecCCChHHHHHHHHHHhccccc-CCCCChHHHHHHHHHHhCCchhHHHHHHHHh
Q 048126          267 LE--------ICGAMKAHEFLKVECLGPEDAWRLFRENLRRDVL-DNHPDIPELARSVAKEYAGLPLALITIGRAM  333 (863)
Q Consensus       267 ~~--------v~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~-~~~~~~~~~~~~i~~~c~glPlai~~~~~~l  333 (863)
                      .+        +...++ ...+..+|++.++-.+++..++..... -.+..++-+|+.++...|-.=.|+.++-.+.
T Consensus       912 lDLperLdPRLRSRLg-~eeIvF~PYTaEQL~dILk~RAe~A~gVLdDdAIELIArkVAq~SGDARKALDILRrAg  986 (1164)
T PTZ00112        912 MDLPERLIPRCRSRLA-FGRLVFSPYKGDEIEKIIKERLENCKEIIDHTAIQLCARKVANVSGDIRKALQICRKAF  986 (1164)
T ss_pred             hhcchhhhhhhhhccc-cccccCCCCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHhhhhcCCHHHHHHHHHHHHH
Confidence            11        122222 234677999999999999998764211 1112223334444444455556665554443

>PF13173 AAA_14: AAA domain

Probab=98.58  E-value=1.1e-07  Score=86.88  Aligned_cols=120  Identities=19%  Similarity=0.167  Sum_probs=81.5

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHHHHhCCCCccccCCChhHHHHHHHHHh
Q 048126          147 VGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGRRIGFLDESWKNGSLEDKASDILRIL  226 (863)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l  226 (863)
                      .+++.|.|+.|+||||++++++.+.   . ....++|++..+.........                  + ..+.+.+..
T Consensus         2 ~~~~~l~G~R~vGKTtll~~~~~~~---~-~~~~~~yi~~~~~~~~~~~~~------------------~-~~~~~~~~~   58 (128)
T PF13173_consen    2 RKIIILTGPRGVGKTTLLKQLAKDL---L-PPENILYINFDDPRDRRLADP------------------D-LLEYFLELI   58 (128)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHh---c-ccccceeeccCCHHHHHHhhh------------------h-hHHHHHHhh
Confidence            4689999999999999999999887   2 334567776655432110000                  0 223333333


Q ss_pred             ccCcEEEEEeccCCccccccccCCCCCCCCCcEEEEecCchhhhhc------ccccceEeecCCChHHH
Q 048126          227 SKKKFLLLLDDIWERVDLTKVGVPFPDPENKSKIVFTTRFLEICGA------MKAHEFLKVECLGPEDA  289 (863)
Q Consensus       227 ~~kr~LlVlDdv~~~~~~~~~~~~l~~~~~gs~IivTtR~~~v~~~------~~~~~~~~l~~L~~~e~  289 (863)
                      ..++.+|++|++....+|......+.+..+..+|++|+.+......      .+....++|.||+..|.
T Consensus        59 ~~~~~~i~iDEiq~~~~~~~~lk~l~d~~~~~~ii~tgS~~~~l~~~~~~~l~gr~~~~~l~Plsf~E~  127 (128)
T PF13173_consen   59 KPGKKYIFIDEIQYLPDWEDALKFLVDNGPNIKIILTGSSSSLLSKDIAESLAGRVIEIELYPLSFREF  127 (128)
T ss_pred             ccCCcEEEEehhhhhccHHHHHHHHHHhccCceEEEEccchHHHhhcccccCCCeEEEEEECCCCHHHh
Confidence            3477889999999988888776666555567899999998766422      12234679999998774

>TIGR02903 spore_lon_C ATP-dependent protease, Lon family

Probab=98.56  E-value=2.1e-05  Score=91.17  Aligned_cols=203  Identities=16%  Similarity=0.064  Sum_probs=119.3

Q ss_pred             CCccchhHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCC---CEEEEEEeCCc---cCHHHHHHHH
Q 048126          126 EPTVGLESMFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDF---DVVIWVVVSKD---LQLEKIQEKI  199 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F---~~~~wv~~s~~---~~~~~~~~~i  199 (863)
                      +.++|++..+..+.+.+.......+.|+|++|+||||+|+.+++.. .....+   ...-|+.+...   .+...+...+
T Consensus       154 ~~iiGqs~~~~~l~~~ia~~~~~~vlL~Gp~GtGKTTLAr~i~~~~-~~~~~~~~~~~~~fv~i~~~~l~~d~~~i~~~l  232 (615)
T TIGR02903       154 SEIVGQERAIKALLAKVASPFPQHIILYGPPGVGKTTAARLALEEA-KKLKHTPFAEDAPFVEVDGTTLRWDPREVTNPL  232 (615)
T ss_pred             HhceeCcHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHhh-hhccCCcccCCCCeEEEechhccCCHHHHhHHh
Confidence            4589999999999888876667789999999999999999998776 222222   12335544321   1222221111


Q ss_pred             ---------------HHHhCCCCcc-------------c--cCCChhHHHHHHHHHhccCcEEEEEeccCCc--cccccc
Q 048126          200 ---------------GRRIGFLDES-------------W--KNGSLEDKASDILRILSKKKFLLLLDDIWER--VDLTKV  247 (863)
Q Consensus       200 ---------------~~~l~~~~~~-------------~--~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~--~~~~~~  247 (863)
                                     +...+.....             .  ...=....+..+.+.++++++.++-|+.|..  ..|..+
T Consensus       233 lg~~~~~~~~~a~~~l~~~gl~~~~~g~v~~asgGvL~LDEi~~Ld~~~Q~~Ll~~Le~~~v~~~~~~~~~~~~~~~~~i  312 (615)
T TIGR02903       233 LGSVHDPIYQGARRDLAETGVPEPKTGLVTDAHGGVLFIDEIGELDPLLQNKLLKVLEDKRVEFSSSYYDPDDPNVPKYI  312 (615)
T ss_pred             cCCccHHHHHHHHHHHHHcCCCchhcCchhhcCCCeEEEeccccCCHHHHHHHHHHHhhCeEEeecceeccCCcccchhh
Confidence                           1111211000             0  0011123567788888899999997777653  457776


Q ss_pred             cCCCCCCCCCcEEEE--ecCchhh-hhcc-cccceEeecCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCCch
Q 048126          248 GVPFPDPENKSKIVF--TTRFLEI-CGAM-KAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGLP  323 (863)
Q Consensus       248 ~~~l~~~~~gs~Iiv--TtR~~~v-~~~~-~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glP  323 (863)
                      ...+....+...|++  ||++... ...+ .....+.+.+++.+|.+.++.+.+......   --.++...|++.+..-+
T Consensus       313 k~~~~~~~~~~~VLI~aTt~~~~~l~~aLrSR~~~i~~~pls~edi~~Il~~~a~~~~v~---ls~eal~~L~~ys~~gR  389 (615)
T TIGR02903       313 KKLFEEGAPADFVLIGATTRDPEEINPALRSRCAEVFFEPLTPEDIALIVLNAAEKINVH---LAAGVEELIARYTIEGR  389 (615)
T ss_pred             hhhcccCccceEEEEEeccccccccCHHHHhceeEEEeCCCCHHHHHHHHHHHHHHcCCC---CCHHHHHHHHHCCCcHH
Confidence            665655555554555  5665432 1111 112367889999999999999876542211   11344555555554445


Q ss_pred             hHHHHHHHH
Q 048126          324 LALITIGRA  332 (863)
Q Consensus       324 lai~~~~~~  332 (863)
                      -|+..++.+
T Consensus       390 raln~L~~~  398 (615)
T TIGR02903       390 KAVNILADV  398 (615)
T ss_pred             HHHHHHHHH
Confidence            666655544

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.

>PRK04195 replication factor C large subunit; Provisional

Probab=98.56  E-value=4.9e-06  Score=94.31  Aligned_cols=182  Identities=18%  Similarity=0.185  Sum_probs=111.0

Q ss_pred             CCccchhHHHHHHHHHhcC---C-CccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHHH
Q 048126          126 EPTVGLESMFDKVWRCLGE---E-QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGR  201 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~---~-~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~  201 (863)
                      ..++|.+..++.+.+|+..   + ..+.+.|+|++|+||||+|+.+++..     .|+ ++-+..+...+... ...++.
T Consensus        14 ~dlvg~~~~~~~l~~~l~~~~~g~~~~~lLL~GppG~GKTtla~ala~el-----~~~-~ielnasd~r~~~~-i~~~i~   86 (482)
T PRK04195         14 SDVVGNEKAKEQLREWIESWLKGKPKKALLLYGPPGVGKTSLAHALANDY-----GWE-VIELNASDQRTADV-IERVAG   86 (482)
T ss_pred             HHhcCCHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHc-----CCC-EEEEcccccccHHH-HHHHHH
Confidence            4579999999999999864   1 26789999999999999999999987     233 33344444333222 222322


Q ss_pred             HhCCCCccccCCChhHHHHHHHHHhccCcEEEEEeccCCccc------cccccCCCCCCCCCcEEEEecCchh-hhh--c
Q 048126          202 RIGFLDESWKNGSLEDKASDILRILSKKKFLLLLDDIWERVD------LTKVGVPFPDPENKSKIVFTTRFLE-ICG--A  272 (863)
Q Consensus       202 ~l~~~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~------~~~~~~~l~~~~~gs~IivTtR~~~-v~~--~  272 (863)
                      ......                .....++-+||+|+++....      +..+...+.  ..+..||+|+.+.. ...  .
T Consensus        87 ~~~~~~----------------sl~~~~~kvIiIDEaD~L~~~~d~~~~~aL~~~l~--~~~~~iIli~n~~~~~~~k~L  148 (482)
T PRK04195         87 EAATSG----------------SLFGARRKLILLDEVDGIHGNEDRGGARAILELIK--KAKQPIILTANDPYDPSLREL  148 (482)
T ss_pred             HhhccC----------------cccCCCCeEEEEecCcccccccchhHHHHHHHHHH--cCCCCEEEeccCccccchhhH
Confidence            221110                00113678999999976422      233322222  12344666664321 111  1


Q ss_pred             ccccceEeecCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCCchhHHHHHHHHhcC
Q 048126          273 MKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGLPLALITIGRAMTC  335 (863)
Q Consensus       273 ~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPlai~~~~~~l~~  335 (863)
                      -.....+.+.+++.++....+.+.+.......   -.+....|++.++|-.-.+......+..
T Consensus       149 rsr~~~I~f~~~~~~~i~~~L~~i~~~egi~i---~~eaL~~Ia~~s~GDlR~ain~Lq~~a~  208 (482)
T PRK04195        149 RNACLMIEFKRLSTRSIVPVLKRICRKEGIEC---DDEALKEIAERSGGDLRSAINDLQAIAE  208 (482)
T ss_pred             hccceEEEecCCCHHHHHHHHHHHHHHcCCCC---CHHHHHHHHHHcCCCHHHHHHHHHHHhc
Confidence            12235688999999999999888775443222   2467899999999977665544444443

>PRK05564 DNA polymerase III subunit delta'; Validated

Probab=98.56  E-value=1.7e-06  Score=92.43  Aligned_cols=178  Identities=15%  Similarity=0.183  Sum_probs=116.3

Q ss_pred             CCccchhHHHHHHHHHhcCCCc-cEEEEEcCCCCcHHHHHHHHHhhhc---CCCCCCCEEEEEEe-CCccCHHHHHHHHH
Q 048126          126 EPTVGLESMFDKVWRCLGEEQV-GIIGLYGMGGVGKTTLLTKINNKLL---GAPNDFDVVIWVVV-SKDLQLEKIQEKIG  200 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~~---~~~~~F~~~~wv~~-s~~~~~~~~~~~i~  200 (863)
                      .+++|-+..++.+.+++..++. +.+.++|+.|+||||+|+.++....   ....|+|...|... +....++++ +++.
T Consensus         4 ~~i~g~~~~~~~l~~~~~~~~~~ha~Lf~G~~G~Gk~~la~~~a~~l~c~~~~~~h~D~~~~~~~~~~~i~v~~i-r~~~   82 (313)
T PRK05564          4 HTIIGHENIKNRIKNSIIKNRFSHAHIIVGEDGIGKSLLAKEIALKILGKSQQREYVDIIEFKPINKKSIGVDDI-RNII   82 (313)
T ss_pred             hhccCcHHHHHHHHHHHHcCCCCceEEeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCeEEeccccCCCCCHHHH-HHHH
Confidence            4578999999999999987654 5778999999999999999998641   12356676666552 333333342 3333


Q ss_pred             HHhCCCCccccCCChhHHHHHHHHHhccCcEEEEEeccC--CccccccccCCCCCCCCCcEEEEecCchhhh-hc-cccc
Q 048126          201 RRIGFLDESWKNGSLEDKASDILRILSKKKFLLLLDDIW--ERVDLTKVGVPFPDPENKSKIVFTTRFLEIC-GA-MKAH  276 (863)
Q Consensus       201 ~~l~~~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~--~~~~~~~~~~~l~~~~~gs~IivTtR~~~v~-~~-~~~~  276 (863)
                      +.+....                  ..+++-++|+|+++  +...+..+...+.....++.+|++|.+.+.. .. ....
T Consensus        83 ~~~~~~p------------------~~~~~kv~iI~~ad~m~~~a~naLLK~LEepp~~t~~il~~~~~~~ll~TI~SRc  144 (313)
T PRK05564         83 EEVNKKP------------------YEGDKKVIIIYNSEKMTEQAQNAFLKTIEEPPKGVFIILLCENLEQILDTIKSRC  144 (313)
T ss_pred             HHHhcCc------------------ccCCceEEEEechhhcCHHHHHHHHHHhcCCCCCeEEEEEeCChHhCcHHHHhhc
Confidence            3332211                  11344466666654  4456777776676667788899888765432 11 1223


Q ss_pred             ceEeecCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCCchhHHHHH
Q 048126          277 EFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGLPLALITI  329 (863)
Q Consensus       277 ~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPlai~~~  329 (863)
                      ..+.+.++++++....+.+.+...       -.+.+..++..++|.|..+...
T Consensus       145 ~~~~~~~~~~~~~~~~l~~~~~~~-------~~~~~~~l~~~~~g~~~~a~~~  190 (313)
T PRK05564        145 QIYKLNRLSKEEIEKFISYKYNDI-------KEEEKKSAIAFSDGIPGKVEKF  190 (313)
T ss_pred             eeeeCCCcCHHHHHHHHHHHhcCC-------CHHHHHHHHHHcCCCHHHHHHH
Confidence            578899999999988887654311       1334678899999998765443

>KOG0532 consensus Leucine-rich repeat (LRR) protein, contains calponin homology domain [Cytoskeleton]

Probab=98.53  E-value=5.4e-09  Score=111.65  Aligned_cols=194  Identities=24%  Similarity=0.282  Sum_probs=151.6

Q ss_pred             ccceEEEEecccccccccc-CCCCCccceEEccCCccccccchhhhcCCCccEEEccCCCccccCCccccccCCCCeEEc
Q 048126          493 WRNVRRMSLMKNKIENLSE-TPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDL  571 (863)
Q Consensus       493 ~~~lr~L~l~~~~~~~l~~-~~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L  571 (863)
                      +......+++.|.+..+|. ...|-.|..+.|..|.+..+|.. +.++..|.+|||+.| .+..+|..++.|+ |+.|-+
T Consensus        74 ltdt~~aDlsrNR~~elp~~~~~f~~Le~liLy~n~~r~ip~~-i~~L~~lt~l~ls~N-qlS~lp~~lC~lp-Lkvli~  150 (722)
T KOG0532|consen   74 LTDTVFADLSRNRFSELPEEACAFVSLESLILYHNCIRTIPEA-ICNLEALTFLDLSSN-QLSHLPDGLCDLP-LKVLIV  150 (722)
T ss_pred             ccchhhhhccccccccCchHHHHHHHHHHHHHHhccceecchh-hhhhhHHHHhhhccc-hhhcCChhhhcCc-ceeEEE
Confidence            3455677888888887765 36778899999999999888877 789999999999999 6678999999887 999999


Q ss_pred             cCCCccccchhhhcCCCCCEEecCCccccCCCcHHHhhcCCCCcEEEeeccccccCchhhHHHHHcCCccCceEEEEEcC
Q 048126          572 SGTAITHLPIELQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRILKSNVLFGGHQFLVEELMGMKHLMALTITLKS  651 (863)
Q Consensus       572 ~~~~l~~lp~~~~~l~~L~~L~l~~~~~l~~lp~~~~~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~  651 (863)
                      ++|+++.+|..++.+..|.+|+.+.| .+..+|.. ++.+.+|+.|.+..|.+.     ..+.++..|+ |.+|++++|.
T Consensus       151 sNNkl~~lp~~ig~~~tl~~ld~s~n-ei~slpsq-l~~l~slr~l~vrRn~l~-----~lp~El~~Lp-Li~lDfScNk  222 (722)
T KOG0532|consen  151 SNNKLTSLPEEIGLLPTLAHLDVSKN-EIQSLPSQ-LGYLTSLRDLNVRRNHLE-----DLPEELCSLP-LIRLDFSCNK  222 (722)
T ss_pred             ecCccccCCcccccchhHHHhhhhhh-hhhhchHH-hhhHHHHHHHHHhhhhhh-----hCCHHHhCCc-eeeeecccCc
Confidence            99999999999999999999999998 67888887 889999999999888775     3677788765 8899999988


Q ss_pred             hHHHHHHhhhhhhhhcceeeeeccccCCCccccc-ch-hhcCCCceEEEcCC
Q 048126          652 WEALQELLISQELQRCTQSLFLRCFNDSKSLDIF-CL-ACLHNLNKLYVAGR  701 (863)
Q Consensus       652 ~~~~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~~-~l-~~~~~L~~L~l~~~  701 (863)
                      ...++--..   .++.|+.|.|.+++ +++.+.. +. ....-.++|++..|
T Consensus       223 is~iPv~fr---~m~~Lq~l~LenNP-LqSPPAqIC~kGkVHIFKyL~~qA~  270 (722)
T KOG0532|consen  223 ISYLPVDFR---KMRHLQVLQLENNP-LQSPPAQICEKGKVHIFKYLSTQAC  270 (722)
T ss_pred             eeecchhhh---hhhhheeeeeccCC-CCCChHHHHhccceeeeeeecchhc
Confidence            877664322   23588888888755 3333211 11 11234467777666

>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=98.50  E-value=1.1e-07  Score=74.08  Aligned_cols=61  Identities=41%  Similarity=0.544  Sum_probs=41.4

Q ss_pred             CccceEEccCCccccccchhhhcCCCccEEEccCCCccccCCccccccCCCCeEEccCCCc
Q 048126          516 PHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAI  576 (863)
Q Consensus       516 ~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~~~l  576 (863)
                      |+|++|++++|.++.+++..|.++++|++|++++|.+...-|..+.++++|++|++++|+|
T Consensus         1 p~L~~L~l~~n~l~~i~~~~f~~l~~L~~L~l~~N~l~~i~~~~f~~l~~L~~L~l~~N~l   61 (61)
T PF13855_consen    1 PNLESLDLSNNKLTEIPPDSFSNLPNLETLDLSNNNLTSIPPDAFSNLPNLRYLDLSNNNL   61 (61)
T ss_dssp             TTESEEEETSSTESEECTTTTTTGTTESEEEETSSSESEEETTTTTTSTTESEEEETSSSB
T ss_pred             CcCcEEECCCCCCCccCHHHHcCCCCCCEeEccCCccCccCHHHHcCCCCCCEEeCcCCcC
Confidence            4567777777777777777777777777777777744433445667777777777777653

...

>PRK12402 replication factor C small subunit 2; Reviewed

Probab=98.48  E-value=2.3e-06  Score=93.16  Aligned_cols=194  Identities=12%  Similarity=0.075  Sum_probs=109.2

Q ss_pred             CCccchhHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCC-EEEEEEeCCccCHHHHHHHHH----
Q 048126          126 EPTVGLESMFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFD-VVIWVVVSKDLQLEKIQEKIG----  200 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~-~~~wv~~s~~~~~~~~~~~i~----  200 (863)
                      +.++|++..++.+.+++..+..+.+.++|+.|+||||+|+.+++...  ...+. ..+++++++-.+.  ....+.    
T Consensus        15 ~~~~g~~~~~~~L~~~~~~~~~~~lll~Gp~GtGKT~la~~~~~~l~--~~~~~~~~~~i~~~~~~~~--~~~~~~~~~~   90 (337)
T PRK12402         15 EDILGQDEVVERLSRAVDSPNLPHLLVQGPPGSGKTAAVRALARELY--GDPWENNFTEFNVADFFDQ--GKKYLVEDPR   90 (337)
T ss_pred             HHhcCCHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHHHHHHHHhc--CcccccceEEechhhhhhc--chhhhhcCcc
Confidence            56899999999999999877766788999999999999999998862  22222 2345544331100  000000    


Q ss_pred             --HHhCCCCccccCCChhHHHHHH-HHHh-----ccCcEEEEEeccCCccc--cccccCCCCCCCCCcEEEEecCchh-h
Q 048126          201 --RRIGFLDESWKNGSLEDKASDI-LRIL-----SKKKFLLLLDDIWERVD--LTKVGVPFPDPENKSKIVFTTRFLE-I  269 (863)
Q Consensus       201 --~~l~~~~~~~~~~~~~~~~~~l-~~~l-----~~kr~LlVlDdv~~~~~--~~~~~~~l~~~~~gs~IivTtR~~~-v  269 (863)
                        ..++... . ......+....+ ....     .+.+-+||+||+.....  ...+...+......+++|+||.+.. +
T Consensus        91 ~~~~~~~~~-~-~~~~~~~~~~~~~~~~~~~~~~~~~~~vlilDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~~~~~~  168 (337)
T PRK12402         91 FAHFLGTDK-R-IRSSKIDNFKHVLKEYASYRPLSADYKTILLDNAEALREDAQQALRRIMEQYSRTCRFIIATRQPSKL  168 (337)
T ss_pred             hhhhhhhhh-h-hccchHHHHHHHHHHHHhcCCCCCCCcEEEEeCcccCCHHHHHHHHHHHHhccCCCeEEEEeCChhhC
Confidence              0000000 0 000111112211 1111     13445899999975421  2223222222234567777775432 2


Q ss_pred             hhcc-cccceEeecCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCCchhHHHH
Q 048126          270 CGAM-KAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGLPLALIT  328 (863)
Q Consensus       270 ~~~~-~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPlai~~  328 (863)
                      .... .....+.+.+++.++...++.+.+......   --.+....+++.++|.+-.+..
T Consensus       169 ~~~L~sr~~~v~~~~~~~~~~~~~l~~~~~~~~~~---~~~~al~~l~~~~~gdlr~l~~  225 (337)
T PRK12402        169 IPPIRSRCLPLFFRAPTDDELVDVLESIAEAEGVD---YDDDGLELIAYYAGGDLRKAIL  225 (337)
T ss_pred             chhhcCCceEEEecCCCHHHHHHHHHHHHHHcCCC---CCHHHHHHHHHHcCCCHHHHHH
Confidence            1111 123467889999999999998876543321   2256788899999887655443

>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=98.48  E-value=9.8e-07  Score=83.07  Aligned_cols=123  Identities=23%  Similarity=0.150  Sum_probs=74.8

Q ss_pred             cchhHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHHHHhCCCCc
Q 048126          129 VGLESMFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGRRIGFLDE  208 (863)
Q Consensus       129 vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~  208 (863)
                      +|++..++.+...+.....+.+.|+|.+|+|||++|+.+++.. .  ..-..++++..++..........+...      
T Consensus         1 ~~~~~~~~~i~~~~~~~~~~~v~i~G~~G~GKT~l~~~i~~~~-~--~~~~~v~~~~~~~~~~~~~~~~~~~~~------   71 (151)
T cd00009           1 VGQEEAIEALREALELPPPKNLLLYGPPGTGKTTLARAIANEL-F--RPGAPFLYLNASDLLEGLVVAELFGHF------   71 (151)
T ss_pred             CchHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHh-h--cCCCCeEEEehhhhhhhhHHHHHhhhh------
Confidence            4788899999999877667789999999999999999999987 2  222346677665543322221111100      


Q ss_pred             cccCCChhHHHHHHHHHhccCcEEEEEeccCCc-----cccccccCCCCC---CCCCcEEEEecCchh
Q 048126          209 SWKNGSLEDKASDILRILSKKKFLLLLDDIWER-----VDLTKVGVPFPD---PENKSKIVFTTRFLE  268 (863)
Q Consensus       209 ~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~-----~~~~~~~~~l~~---~~~gs~IivTtR~~~  268 (863)
                              ............++.+||+||++..     ..+.........   ...+..||+||....
T Consensus        72 --------~~~~~~~~~~~~~~~~lilDe~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~ii~~~~~~~  131 (151)
T cd00009          72 --------LVRLLFELAEKAKPGVLFIDEIDSLSRGAQNALLRVLETLNDLRIDRENVRVIGATNRPL  131 (151)
T ss_pred             --------hHhHHHHhhccCCCeEEEEeChhhhhHHHHHHHHHHHHhcCceeccCCCeEEEEecCccc
Confidence                    0011111223456789999999853     122222222211   135788888888653

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=98.48  E-value=1.6e-06  Score=87.98  Aligned_cols=172  Identities=18%  Similarity=0.182  Sum_probs=108.7

Q ss_pred             CccchhHHH---HHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHHHHh
Q 048126          127 PTVGLESMF---DKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGRRI  203 (863)
Q Consensus       127 ~~vGr~~~~---~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l  203 (863)
                      +.||.+..+   .-|.+++..+++.-+.+||++|+||||||+.+.+..   +.+-  ..||..|....-..-.+.|+++-
T Consensus       139 dyvGQ~hlv~q~gllrs~ieq~~ipSmIlWGppG~GKTtlArlia~ts---k~~S--yrfvelSAt~a~t~dvR~ife~a  213 (554)
T KOG2028|consen  139 DYVGQSHLVGQDGLLRSLIEQNRIPSMILWGPPGTGKTTLARLIASTS---KKHS--YRFVELSATNAKTNDVRDIFEQA  213 (554)
T ss_pred             HhcchhhhcCcchHHHHHHHcCCCCceEEecCCCCchHHHHHHHHhhc---CCCc--eEEEEEeccccchHHHHHHHHHH
Confidence            345554433   234555566788889999999999999999999886   2221  56777776654444455555433


Q ss_pred             CCCCccccCCChhHHHHHHHHHhccCcEEEEEeccCCc--cccccccCCCCCCCCCcEEEE--ecCchhh---hhccccc
Q 048126          204 GFLDESWKNGSLEDKASDILRILSKKKFLLLLDDIWER--VDLTKVGVPFPDPENKSKIVF--TTRFLEI---CGAMKAH  276 (863)
Q Consensus       204 ~~~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~--~~~~~~~~~l~~~~~gs~Iiv--TtR~~~v---~~~~~~~  276 (863)
                      ..                 ...+.++|.+|.+|.|..-  .+-+.   .+|.-.+|.-++|  ||.++..   +......
T Consensus       214 q~-----------------~~~l~krkTilFiDEiHRFNksQQD~---fLP~VE~G~I~lIGATTENPSFqln~aLlSRC  273 (554)
T KOG2028|consen  214 QN-----------------EKSLTKRKTILFIDEIHRFNKSQQDT---FLPHVENGDITLIGATTENPSFQLNAALLSRC  273 (554)
T ss_pred             HH-----------------HHhhhcceeEEEeHHhhhhhhhhhhc---ccceeccCceEEEecccCCCccchhHHHHhcc
Confidence            21                 1234578999999999753  22332   3566677876665  7877654   2233344


Q ss_pred             ceEeecCCChHHHHHHHHHHhc---cccc--CCCCC----h-HHHHHHHHHHhCCch
Q 048126          277 EFLKVECLGPEDAWRLFRENLR---RDVL--DNHPD----I-PELARSVAKEYAGLP  323 (863)
Q Consensus       277 ~~~~l~~L~~~e~~~lf~~~~~---~~~~--~~~~~----~-~~~~~~i~~~c~glP  323 (863)
                      .++.|++|+.++-..++.+...   ....  ..-++    + ..+..-++..|.|--
T Consensus       274 ~VfvLekL~~n~v~~iL~raia~l~dser~~~~l~n~s~~ve~siidyla~lsdGDa  330 (554)
T KOG2028|consen  274 RVFVLEKLPVNAVVTILMRAIASLGDSERPTDPLPNSSMFVEDSIIDYLAYLSDGDA  330 (554)
T ss_pred             ceeEeccCCHHHHHHHHHHHHHhhccccccCCCCCCcchhhhHHHHHHHHHhcCchH
Confidence            6889999999999999988432   1110  11122    2 235566667777754

>PRK07003 DNA polymerase III subunits gamma and tau; Validated

Probab=98.48  E-value=6.3e-06  Score=93.73  Aligned_cols=194  Identities=15%  Similarity=0.134  Sum_probs=111.2

Q ss_pred             CCccchhHHHHHHHHHhcCCCc-cEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHHHHhC
Q 048126          126 EPTVGLESMFDKVWRCLGEEQV-GIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGRRIG  204 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~  204 (863)
                      +++||.+..++.|.+++..+++ +.+.++|..|+||||+|+.+.+... -...++       +..+......+.|...-.
T Consensus        16 dEVIGQe~Vv~~L~~aL~~gRL~HAyLFtGPpGvGKTTlAriLAKaLn-Ce~~~~-------~~PCG~C~sCr~I~~G~h   87 (830)
T PRK07003         16 ASLVGQEHVVRALTHALDGGRLHHAYLFTGTRGVGKTTLSRIFAKALN-CETGVT-------SQPCGVCRACREIDEGRF   87 (830)
T ss_pred             HHHcCcHHHHHHHHHHHhcCCCCeEEEEECCCCCCHHHHHHHHHHHhc-CccCCC-------CCCCcccHHHHHHhcCCC
Confidence            4579999999999999987664 4667999999999999999988762 111110       011111112222211000


Q ss_pred             CCC---ccccCCChhHHHHHHHHH----hccCcEEEEEeccCCcc--ccccccCCCCCCCCCcEEEEecCchh-hhhc-c
Q 048126          205 FLD---ESWKNGSLEDKASDILRI----LSKKKFLLLLDDIWERV--DLTKVGVPFPDPENKSKIVFTTRFLE-ICGA-M  273 (863)
Q Consensus       205 ~~~---~~~~~~~~~~~~~~l~~~----l~~kr~LlVlDdv~~~~--~~~~~~~~l~~~~~gs~IivTtR~~~-v~~~-~  273 (863)
                      ...   +.......++....+...    ..++.-++|||+++...  .+..+...+.......++|+||++.. +... .
T Consensus        88 ~DviEIDAas~rgVDdIReLIe~a~~~P~~gr~KVIIIDEah~LT~~A~NALLKtLEEPP~~v~FILaTtd~~KIp~TIr  167 (830)
T PRK07003         88 VDYVEMDAASNRGVDEMAALLERAVYAPVDARFKVYMIDEVHMLTNHAFNAMLKTLEEPPPHVKFILATTDPQKIPVTVL  167 (830)
T ss_pred             ceEEEecccccccHHHHHHHHHHHHhccccCCceEEEEeChhhCCHHHHHHHHHHHHhcCCCeEEEEEECChhhccchhh
Confidence            000   000011122222111111    12455688899998653  35555444444445677777777643 2211 1


Q ss_pred             cccceEeecCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCCch-hHHHHHH
Q 048126          274 KAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGLP-LALITIG  330 (863)
Q Consensus       274 ~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glP-lai~~~~  330 (863)
                      .-...+.++.++.++..+.+.+.+......   --.+..+.|++.++|.. -|+..+-
T Consensus       168 SRCq~f~Fk~Ls~eeIv~~L~~Il~~EgI~---id~eAL~lIA~~A~GsmRdALsLLd  222 (830)
T PRK07003        168 SRCLQFNLKQMPAGHIVSHLERILGEERIA---FEPQALRLLARAAQGSMRDALSLTD  222 (830)
T ss_pred             hheEEEecCCcCHHHHHHHHHHHHHHcCCC---CCHHHHHHHHHHcCCCHHHHHHHHH
Confidence            223578999999999999998877543321   12456788999998865 4554433

>KOG2120 consensus SCF ubiquitin ligase, Skp2 component [Posttranslational modification, protein turnover, chaperones]

Probab=98.45  E-value=2.3e-08  Score=98.52  Aligned_cols=81  Identities=21%  Similarity=0.198  Sum_probs=35.5

Q ss_pred             ccceEEccCCccccc-cchhhhcCCCccEEEccCCCccccCCccccccCCCCeEEccCC-Ccccc--chhhhcCCCCCEE
Q 048126          517 HLLSLFLSDNSLKMI-AGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGT-AITHL--PIELQKLVNLKCL  592 (863)
Q Consensus       517 ~L~~L~l~~~~l~~~-~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~~-~l~~l--p~~~~~l~~L~~L  592 (863)
                      .|+.|+|+...++.- -...++.|..|+.|.|+++...+.+-..|.+-.+|+.|+|++| .+++-  ---+.+++.|..|
T Consensus       186 Rlq~lDLS~s~it~stl~~iLs~C~kLk~lSlEg~~LdD~I~~~iAkN~~L~~lnlsm~sG~t~n~~~ll~~scs~L~~L  265 (419)
T KOG2120|consen  186 RLQHLDLSNSVITVSTLHGILSQCSKLKNLSLEGLRLDDPIVNTIAKNSNLVRLNLSMCSGFTENALQLLLSSCSRLDEL  265 (419)
T ss_pred             hhHHhhcchhheeHHHHHHHHHHHHhhhhccccccccCcHHHHHHhccccceeeccccccccchhHHHHHHHhhhhHhhc
Confidence            355555555443311 1223445555555555555433333334444444555555444 33321  1123444444444


Q ss_pred             ecCCc
Q 048126          593 NLEYM  597 (863)
Q Consensus       593 ~l~~~  597 (863)
                      ++++|
T Consensus       266 NlsWc  270 (419)
T KOG2120|consen  266 NLSWC  270 (419)
T ss_pred             CchHh
Confidence            44444

>KOG2120 consensus SCF ubiquitin ligase, Skp2 component [Posttranslational modification, protein turnover, chaperones]

Probab=98.45  E-value=2.9e-08  Score=97.83  Aligned_cols=84  Identities=23%  Similarity=0.250  Sum_probs=43.3

Q ss_pred             CccEEEccCCCcc-ccCCccccccCCCCeEEccCCCcc-ccchhhhcCCCCCEEecCCccccCCCcHH-HhhcCCCCcEE
Q 048126          541 SLRVFNMSNNHLL-WKLPSGISTLVSLEHLDLSGTAIT-HLPIELQKLVNLKCLNLEYMYNLNQFPRL-VMSAFSKLQVL  617 (863)
Q Consensus       541 ~L~~L~L~~~~~~-~~lp~~i~~l~~L~~L~L~~~~l~-~lp~~~~~l~~L~~L~l~~~~~l~~lp~~-~~~~L~~L~~L  617 (863)
                      .|++|||++..+. ..+..-++.+.+|+.|.|.|+.+. .+-..+.+-.+|+.|+++.|..++..... ++++++.|+.|
T Consensus       186 Rlq~lDLS~s~it~stl~~iLs~C~kLk~lSlEg~~LdD~I~~~iAkN~~L~~lnlsm~sG~t~n~~~ll~~scs~L~~L  265 (419)
T KOG2120|consen  186 RLQHLDLSNSVITVSTLHGILSQCSKLKNLSLEGLRLDDPIVNTIAKNSNLVRLNLSMCSGFTENALQLLLSSCSRLDEL  265 (419)
T ss_pred             hhHHhhcchhheeHHHHHHHHHHHHhhhhccccccccCcHHHHHHhccccceeeccccccccchhHHHHHHHhhhhHhhc
Confidence            4666676666332 123334455666666666666554 33444555566666666666544433221 23445555555


Q ss_pred             Eeecccc
Q 048126          618 RILKSNV  624 (863)
Q Consensus       618 ~l~~~~~  624 (863)
                      +++-|..
T Consensus       266 NlsWc~l  272 (419)
T KOG2120|consen  266 NLSWCFL  272 (419)
T ss_pred             CchHhhc
Confidence            5444443

>KOG1259 consensus Nischarin, modulator of integrin alpha5 subunit action [Signal transduction mechanisms; Cytoskeleton]

Probab=98.45  E-value=2.7e-08  Score=97.98  Aligned_cols=128  Identities=24%  Similarity=0.409  Sum_probs=67.4

Q ss_pred             cccceEEEEeccccccccccC-CCCCccceEEccCCccccccchhhhcCCCccEEEccCCCccccCCccccccCCCCeEE
Q 048126          492 NWRNVRRMSLMKNKIENLSET-PTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLD  570 (863)
Q Consensus       492 ~~~~lr~L~l~~~~~~~l~~~-~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~  570 (863)
                      .|..+..+++++|.++.+... .-.|.+|.|++++|.+..+..  +..+++|..|||++| ...++-..=.+|-|.++|.
T Consensus       282 TWq~LtelDLS~N~I~~iDESvKL~Pkir~L~lS~N~i~~v~n--La~L~~L~~LDLS~N-~Ls~~~Gwh~KLGNIKtL~  358 (490)
T KOG1259|consen  282 TWQELTELDLSGNLITQIDESVKLAPKLRRLILSQNRIRTVQN--LAELPQLQLLDLSGN-LLAECVGWHLKLGNIKTLK  358 (490)
T ss_pred             hHhhhhhccccccchhhhhhhhhhccceeEEeccccceeeehh--hhhcccceEeecccc-hhHhhhhhHhhhcCEeeee
Confidence            345566666666666555333 334566666666665554433  455666666666666 2323332223455555666


Q ss_pred             ccCCCccccchhhhcCCCCCEEecCCccccCCCcH-HHhhcCCCCcEEEeecccc
Q 048126          571 LSGTAITHLPIELQKLVNLKCLNLEYMYNLNQFPR-LVMSAFSKLQVLRILKSNV  624 (863)
Q Consensus       571 L~~~~l~~lp~~~~~l~~L~~L~l~~~~~l~~lp~-~~~~~L~~L~~L~l~~~~~  624 (863)
                      |++|.|..+. ++++|.+|..||+++| .+..+.. ..+++|+.|++|.+.+|.+
T Consensus       359 La~N~iE~LS-GL~KLYSLvnLDl~~N-~Ie~ldeV~~IG~LPCLE~l~L~~NPl  411 (490)
T KOG1259|consen  359 LAQNKIETLS-GLRKLYSLVNLDLSSN-QIEELDEVNHIGNLPCLETLRLTGNPL  411 (490)
T ss_pred             hhhhhHhhhh-hhHhhhhheecccccc-chhhHHHhcccccccHHHHHhhcCCCc
Confidence            6666555553 4556666666666655 3333321 1145555666665555544

>KOG1259 consensus Nischarin, modulator of integrin alpha5 subunit action [Signal transduction mechanisms; Cytoskeleton]

Probab=98.44  E-value=7.5e-08  Score=94.87  Aligned_cols=128  Identities=23%  Similarity=0.255  Sum_probs=60.8

Q ss_pred             CCccceEEccCCccccccchhhhcCCCccEEEccCCCccccCCccccccCCCCeEEccCCCccccchhhhcCCCCCEEec
Q 048126          515 CPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAITHLPIELQKLVNLKCLNL  594 (863)
Q Consensus       515 ~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~~~l~~lp~~~~~l~~L~~L~l  594 (863)
                      +..|+.|+|++|.++.+..+ ..-.+.+|+|++++|.+. .+. ++..|++|+.|||++|.++++-..-.+|.|.++|.+
T Consensus       283 Wq~LtelDLS~N~I~~iDES-vKL~Pkir~L~lS~N~i~-~v~-nLa~L~~L~~LDLS~N~Ls~~~Gwh~KLGNIKtL~L  359 (490)
T KOG1259|consen  283 WQELTELDLSGNLITQIDES-VKLAPKLRRLILSQNRIR-TVQ-NLAELPQLQLLDLSGNLLAECVGWHLKLGNIKTLKL  359 (490)
T ss_pred             Hhhhhhccccccchhhhhhh-hhhccceeEEecccccee-eeh-hhhhcccceEeecccchhHhhhhhHhhhcCEeeeeh
Confidence            34455555555555555443 444555555555555222 222 244555555555555555544433444555555555


Q ss_pred             CCccccCCCcHHHhhcCCCCcEEEeeccccccCchhhHHHHHcCCccCceEEEEEcC
Q 048126          595 EYMYNLNQFPRLVMSAFSKLQVLRILKSNVLFGGHQFLVEELMGMKHLMALTITLKS  651 (863)
Q Consensus       595 ~~~~~l~~lp~~~~~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~  651 (863)
                      ++| .+..+..  +++|-+|..|++.+|++..   ......+++|+.|+.+.+..|.
T Consensus       360 a~N-~iE~LSG--L~KLYSLvnLDl~~N~Ie~---ldeV~~IG~LPCLE~l~L~~NP  410 (490)
T KOG1259|consen  360 AQN-KIETLSG--LRKLYSLVNLDLSSNQIEE---LDEVNHIGNLPCLETLRLTGNP  410 (490)
T ss_pred             hhh-hHhhhhh--hHhhhhheeccccccchhh---HHHhcccccccHHHHHhhcCCC
Confidence            554 3333332  4455555555555544421   1223334445555544444443

>PRK14949 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.44  E-value=3.2e-06  Score=98.05  Aligned_cols=182  Identities=16%  Similarity=0.185  Sum_probs=109.6

Q ss_pred             CCccchhHHHHHHHHHhcCCCcc-EEEEEcCCCCcHHHHHHHHHhhhcCCCCC-------------------CCEEEEEE
Q 048126          126 EPTVGLESMFDKVWRCLGEEQVG-IIGLYGMGGVGKTTLLTKINNKLLGAPND-------------------FDVVIWVV  185 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~~~-vi~I~G~gGiGKTtLa~~v~~~~~~~~~~-------------------F~~~~wv~  185 (863)
                      ..+||-+..++.|.+++..+++. .+.++|+.|+||||+|+.+++.... ...                   |.-++++.
T Consensus        16 ddIIGQe~Iv~~LknaI~~~rl~HAyLFtGPpGtGKTTLARiLAk~Lnc-e~~~~~~pCg~C~sC~~i~~g~~~DviEid   94 (944)
T PRK14949         16 EQMVGQSHVLHALTNALTQQRLHHAYLFTGTRGVGKTSLARLFAKGLNC-EQGVTATPCGVCSSCVEIAQGRFVDLIEVD   94 (944)
T ss_pred             HHhcCcHHHHHHHHHHHHhCCCCeEEEEECCCCCCHHHHHHHHHHhccC-ccCCCCCCCCCchHHHHHhcCCCceEEEec
Confidence            45899999999999999877665 4579999999999999999988621 111                   11112221


Q ss_pred             eCCccCHHHHHHHHHHHhCCCCccccCCChhHHHHHHHHHhccCcEEEEEeccCCc--cccccccCCCCCCCCCcEEEEe
Q 048126          186 VSKDLQLEKIQEKIGRRIGFLDESWKNGSLEDKASDILRILSKKKFLLLLDDIWER--VDLTKVGVPFPDPENKSKIVFT  263 (863)
Q Consensus       186 ~s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~--~~~~~~~~~l~~~~~gs~IivT  263 (863)
                      .+....+.. .+.|.+.+.                  .....+++-++|+|+++..  .....+...+.......++|++
T Consensus        95 Aas~~kVDd-IReLie~v~------------------~~P~~gk~KViIIDEAh~LT~eAqNALLKtLEEPP~~vrFILa  155 (944)
T PRK14949         95 AASRTKVDD-TRELLDNVQ------------------YRPSRGRFKVYLIDEVHMLSRSSFNALLKTLEEPPEHVKFLLA  155 (944)
T ss_pred             cccccCHHH-HHHHHHHHH------------------hhhhcCCcEEEEEechHhcCHHHHHHHHHHHhccCCCeEEEEE
Confidence            111111111 122221110                  0112356779999999764  3344444334333345666655


Q ss_pred             cCc-hhhhhc-ccccceEeecCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCCchhHHHHHH
Q 048126          264 TRF-LEICGA-MKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGLPLALITIG  330 (863)
Q Consensus       264 tR~-~~v~~~-~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPlai~~~~  330 (863)
                      |.+ ..+... ......|++++|+.++..+++.+.+.....   ..-.+....|++.++|.|-.+..+.
T Consensus       156 TTe~~kLl~TIlSRCq~f~fkpLs~eEI~~~L~~il~~EgI---~~edeAL~lIA~~S~Gd~R~ALnLL  221 (944)
T PRK14949        156 TTDPQKLPVTVLSRCLQFNLKSLTQDEIGTQLNHILTQEQL---PFEAEALTLLAKAANGSMRDALSLT  221 (944)
T ss_pred             CCCchhchHHHHHhheEEeCCCCCHHHHHHHHHHHHHHcCC---CCCHHHHHHHHHHcCCCHHHHHHHH
Confidence            544 444321 122357899999999999999887654221   1224567889999999886555443

>cd01128 rho_factor Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase

Probab=98.42  E-value=4.3e-07  Score=92.13  Aligned_cols=93  Identities=22%  Similarity=0.187  Sum_probs=63.0

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCc--cCHHHHHHHH-----HHHhCCCCccccCCChhHH
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKD--LQLEKIQEKI-----GRRIGFLDESWKNGSLEDK  218 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~--~~~~~~~~~i-----~~~l~~~~~~~~~~~~~~~  218 (863)
                      .-..++|+|++|+|||||++++++.. .. .+|+.++|+.+++.  .++.++++.+     +.+++.+... ...-....
T Consensus        15 ~Gqr~~I~G~~G~GKTTLlr~I~n~l-~~-~~fdv~~~v~vI~er~~ev~el~~~I~~~~v~~~~~~~~~~-~~~~~~~~   91 (249)
T cd01128          15 KGQRGLIVAPPKAGKTTLLQSIANAI-TK-NHPEVYLIVLLIDERPEEVTDMQRSVKGEVIASTFDEPPER-HVQVAEMV   91 (249)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhcc-cc-ccCCeEEEEEEccCCCccHHHHHHHhccEEEEecCCCCHHH-HHHHHHHH
Confidence            45689999999999999999999998 33 48999999998777  7899999999     3333321100 00000011


Q ss_pred             HHHHHH-HhccCcEEEEEeccCCc
Q 048126          219 ASDILR-ILSKKKFLLLLDDIWER  241 (863)
Q Consensus       219 ~~~l~~-~l~~kr~LlVlDdv~~~  241 (863)
                      ...... .-.+++.++++|++...
T Consensus        92 ~~~a~~~~~~G~~vll~iDei~r~  115 (249)
T cd01128          92 LEKAKRLVEHGKDVVILLDSITRL  115 (249)
T ss_pred             HHHHHHHHHCCCCEEEEEECHHHh
Confidence            111121 12479999999999753

It is a homohexamer. Each monomer consists of an N-terminal domain of the OB fold, which is responsible for binding to cysteine rich nucleotides. This alignment is of the C-terminal ATP binding domain.

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

Probab=98.42  E-value=2e-05  Score=84.90  Aligned_cols=198  Identities=17%  Similarity=0.171  Sum_probs=127.9

Q ss_pred             CCccchhHHHHHHHHHhcC----CCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHHH
Q 048126          126 EPTVGLESMFDKVWRCLGE----EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGR  201 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~----~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~  201 (863)
                      +.+.+|+.+++++...|..    +...-+.|+|..|+|||+.++.|.+.........+ +++|.+-...+..+++..|+.
T Consensus        17 ~~l~~Re~ei~~l~~~l~~~~~~~~p~n~~iyG~~GTGKT~~~~~v~~~l~~~~~~~~-~~yINc~~~~t~~~i~~~i~~   95 (366)
T COG1474          17 EELPHREEEINQLASFLAPALRGERPSNIIIYGPTGTGKTATVKFVMEELEESSANVE-VVYINCLELRTPYQVLSKILN   95 (366)
T ss_pred             ccccccHHHHHHHHHHHHHHhcCCCCccEEEECCCCCCHhHHHHHHHHHHHhhhccCc-eEEEeeeeCCCHHHHHHHHHH
Confidence            4478999999999988853    34445899999999999999999999843323333 789999999999999999999


Q ss_pred             HhCCCCccccCCChhHHHHHHHHHhcc--CcEEEEEeccCCcccc-----ccccCCCCCCCCCcEE--EEecCchhh---
Q 048126          202 RIGFLDESWKNGSLEDKASDILRILSK--KKFLLLLDDIWERVDL-----TKVGVPFPDPENKSKI--VFTTRFLEI---  269 (863)
Q Consensus       202 ~l~~~~~~~~~~~~~~~~~~l~~~l~~--kr~LlVlDdv~~~~~~-----~~~~~~l~~~~~gs~I--ivTtR~~~v---  269 (863)
                      +++....  ...+..+....+.+.+..  +.+++|||+++....-     -.+......+  .++|  |..+-+..+   
T Consensus        96 ~~~~~p~--~g~~~~~~~~~l~~~~~~~~~~~IvvLDEid~L~~~~~~~LY~L~r~~~~~--~~~v~vi~i~n~~~~~~~  171 (366)
T COG1474          96 KLGKVPL--TGDSSLEILKRLYDNLSKKGKTVIVILDEVDALVDKDGEVLYSLLRAPGEN--KVKVSIIAVSNDDKFLDY  171 (366)
T ss_pred             HcCCCCC--CCCchHHHHHHHHHHHHhcCCeEEEEEcchhhhccccchHHHHHHhhcccc--ceeEEEEEEeccHHHHHH
Confidence            9963221  345666777777777754  7899999999764222     1221111111  3443  333433332   


Q ss_pred             -----hhcccccceEeecCCChHHHHHHHHHHhccc--ccCCCCChHHHHHHHHHHhC-CchhHHHHH
Q 048126          270 -----CGAMKAHEFLKVECLGPEDAWRLFRENLRRD--VLDNHPDIPELARSVAKEYA-GLPLALITI  329 (863)
Q Consensus       270 -----~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~--~~~~~~~~~~~~~~i~~~c~-glPlai~~~  329 (863)
                           ...++.. .+..+|-+.+|-.+.+..++...  ....++..-++...++..-+ -.=.|+..+
T Consensus       172 ld~rv~s~l~~~-~I~F~pY~a~el~~Il~~R~~~~~~~~~~~~~vl~lia~~~a~~~GDAR~aidil  238 (366)
T COG1474         172 LDPRVKSSLGPS-EIVFPPYTAEELYDILRERVEEGFSAGVIDDDVLKLIAALVAAESGDARKAIDIL  238 (366)
T ss_pred             hhhhhhhccCcc-eeeeCCCCHHHHHHHHHHHHHhhccCCCcCccHHHHHHHHHHHcCccHHHHHHHH
Confidence                 2222222 37889999999999999876432  11233344444444444444 344444443

>PLN03150 hypothetical protein; Provisional

Probab=98.42  E-value=6.3e-07  Score=104.62  Aligned_cols=107  Identities=21%  Similarity=0.280  Sum_probs=76.6

Q ss_pred             ccceEEccCCccccccchhhhcCCCccEEEccCCCccccCCccccccCCCCeEEccCCCcc-ccchhhhcCCCCCEEecC
Q 048126          517 HLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAIT-HLPIELQKLVNLKCLNLE  595 (863)
Q Consensus       517 ~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~~~l~-~lp~~~~~l~~L~~L~l~  595 (863)
                      .++.|+|++|.+.+..+..++.+++|++|+|++|.+.+.+|..++.+++|++|+|++|.+. .+|..+++|++|++|+++
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            3677778877776555555777888888888888666778878888888888888888776 677778888888888888


Q ss_pred             CccccCCCcHHHhhcCCCCcEEEeeccc
Q 048126          596 YMYNLNQFPRLVMSAFSKLQVLRILKSN  623 (863)
Q Consensus       596 ~~~~l~~lp~~~~~~L~~L~~L~l~~~~  623 (863)
                      +|.....+|..+...+.++..+++.+|.
T Consensus       499 ~N~l~g~iP~~l~~~~~~~~~l~~~~N~  526 (623)
T PLN03150        499 GNSLSGRVPAALGGRLLHRASFNFTDNA  526 (623)
T ss_pred             CCcccccCChHHhhccccCceEEecCCc
Confidence            8755556776532223456666666554

>PRK14961 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.42  E-value=8.6e-06  Score=88.72  Aligned_cols=192  Identities=15%  Similarity=0.186  Sum_probs=108.6

Q ss_pred             CCccchhHHHHHHHHHhcCCCc-cEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHHHHhC
Q 048126          126 EPTVGLESMFDKVWRCLGEEQV-GIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGRRIG  204 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~  204 (863)
                      .++||-+..++.+.+.+..+++ +.+.++|+.|+||||+|+.+++... -.....       ..++........+.....
T Consensus        16 ~~iiGq~~~~~~l~~~~~~~~~~h~~L~~Gp~G~GKTtla~~la~~l~-c~~~~~-------~~pc~~c~~c~~~~~~~~   87 (363)
T PRK14961         16 RDIIGQKHIVTAISNGLSLGRIHHAWLLSGTRGVGKTTIARLLAKSLN-CQNGIT-------SNPCRKCIICKEIEKGLC   87 (363)
T ss_pred             hhccChHHHHHHHHHHHHcCCCCeEEEEecCCCCCHHHHHHHHHHHhc-CCCCCC-------CCCCCCCHHHHHHhcCCC
Confidence            5689999999999999887654 5678999999999999999998761 111100       001111111111111100


Q ss_pred             CCCccc---cCCChhHHHHHHHHHh-----ccCcEEEEEeccCCcc--ccccccCCCCCCCCCcEEEEecCch-hhhhc-
Q 048126          205 FLDESW---KNGSLEDKASDILRIL-----SKKKFLLLLDDIWERV--DLTKVGVPFPDPENKSKIVFTTRFL-EICGA-  272 (863)
Q Consensus       205 ~~~~~~---~~~~~~~~~~~l~~~l-----~~kr~LlVlDdv~~~~--~~~~~~~~l~~~~~gs~IivTtR~~-~v~~~-  272 (863)
                      ......   .....++ ...+.+.+     .+++-++|+|+++...  .+..+...+.......++|++|.+. .+... 
T Consensus        88 ~d~~~~~~~~~~~v~~-ir~i~~~~~~~p~~~~~kviIIDEa~~l~~~a~naLLk~lEe~~~~~~fIl~t~~~~~l~~tI  166 (363)
T PRK14961         88 LDLIEIDAASRTKVEE-MREILDNIYYSPSKSRFKVYLIDEVHMLSRHSFNALLKTLEEPPQHIKFILATTDVEKIPKTI  166 (363)
T ss_pred             CceEEecccccCCHHH-HHHHHHHHhcCcccCCceEEEEEChhhcCHHHHHHHHHHHhcCCCCeEEEEEcCChHhhhHHH
Confidence            000000   0011111 12222221     2345699999998653  3444544444444566777766543 33221 


Q ss_pred             ccccceEeecCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCCchhHHHHH
Q 048126          273 MKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGLPLALITI  329 (863)
Q Consensus       273 ~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPlai~~~  329 (863)
                      .+....+++.+++.++..+.+.+.+.....   .--++.+..|++.++|.|-.+...
T Consensus       167 ~SRc~~~~~~~l~~~el~~~L~~~~~~~g~---~i~~~al~~ia~~s~G~~R~al~~  220 (363)
T PRK14961        167 LSRCLQFKLKIISEEKIFNFLKYILIKESI---DTDEYALKLIAYHAHGSMRDALNL  220 (363)
T ss_pred             HhhceEEeCCCCCHHHHHHHHHHHHHHcCC---CCCHHHHHHHHHHcCCCHHHHHHH
Confidence            122357899999999999988876654321   112456788999999988654433

>PRK08727 hypothetical protein; Validated

Probab=98.41  E-value=4.3e-06  Score=84.98  Aligned_cols=168  Identities=12%  Similarity=0.076  Sum_probs=97.4

Q ss_pred             CCccchh-HHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHHHHhC
Q 048126          126 EPTVGLE-SMFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGRRIG  204 (863)
Q Consensus       126 ~~~vGr~-~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~  204 (863)
                      ++||+.. ..+..+...........+.|+|..|+|||+|++.+++...   .....+.|+++.+      ....+.+   
T Consensus        19 ~~f~~~~~n~~~~~~~~~~~~~~~~l~l~G~~G~GKThL~~a~~~~~~---~~~~~~~y~~~~~------~~~~~~~---   86 (233)
T PRK08727         19 DSYIAAPDGLLAQLQALAAGQSSDWLYLSGPAGTGKTHLALALCAAAE---QAGRSSAYLPLQA------AAGRLRD---   86 (233)
T ss_pred             hhccCCcHHHHHHHHHHHhccCCCeEEEECCCCCCHHHHHHHHHHHHH---HcCCcEEEEeHHH------hhhhHHH---
Confidence            4465433 3344444433333445799999999999999999998872   2223566776432      1111110   


Q ss_pred             CCCccccCCChhHHHHHHHHHhccCcEEEEEeccCCcc---cccc-ccCCCCC-CCCCcEEEEecCch---------hhh
Q 048126          205 FLDESWKNGSLEDKASDILRILSKKKFLLLLDDIWERV---DLTK-VGVPFPD-PENKSKIVFTTRFL---------EIC  270 (863)
Q Consensus       205 ~~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~---~~~~-~~~~l~~-~~~gs~IivTtR~~---------~v~  270 (863)
                                       ..+.+ .+.-+||+||+....   .|.. +...+.. ...|..||+|++..         ++.
T Consensus        87 -----------------~~~~l-~~~dlLiIDDi~~l~~~~~~~~~lf~l~n~~~~~~~~vI~ts~~~p~~l~~~~~dL~  148 (233)
T PRK08727         87 -----------------ALEAL-EGRSLVALDGLESIAGQREDEVALFDFHNRARAAGITLLYTARQMPDGLALVLPDLR  148 (233)
T ss_pred             -----------------HHHHH-hcCCEEEEeCcccccCChHHHHHHHHHHHHHHHcCCeEEEECCCChhhhhhhhHHHH
Confidence                             01111 133589999997432   2221 1111111 12356699999853         223


Q ss_pred             hcccccceEeecCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCCchhHH
Q 048126          271 GAMKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGLPLAL  326 (863)
Q Consensus       271 ~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPlai  326 (863)
                      ..+.....+++++++.++-.+++++.+......   --++...-|++.++|-.-.+
T Consensus       149 SRl~~~~~~~l~~~~~e~~~~iL~~~a~~~~l~---l~~e~~~~La~~~~rd~r~~  201 (233)
T PRK08727        149 SRLAQCIRIGLPVLDDVARAAVLRERAQRRGLA---LDEAAIDWLLTHGERELAGL  201 (233)
T ss_pred             HHHhcCceEEecCCCHHHHHHHHHHHHHHcCCC---CCHHHHHHHHHhCCCCHHHH
Confidence            333345578999999999999999876543211   22456777888887655444

>KOG1909 consensus Ran GTPase-activating protein [RNA processing and modification; Nuclear structure; Signal transduction mechanisms]

Probab=98.40  E-value=1.2e-07  Score=95.94  Aligned_cols=85  Identities=20%  Similarity=0.166  Sum_probs=39.6

Q ss_pred             ccceEEEEeccccccc-----c-ccCCCCCccceEEccCCc----cccccch------hhhcCCCccEEEccCCCccccC
Q 048126          493 WRNVRRMSLMKNKIEN-----L-SETPTCPHLLSLFLSDNS----LKMIAGD------FFQFMPSLRVFNMSNNHLLWKL  556 (863)
Q Consensus       493 ~~~lr~L~l~~~~~~~-----l-~~~~~~~~L~~L~l~~~~----l~~~~~~------~~~~l~~L~~L~L~~~~~~~~l  556 (863)
                      ...+..+++++|.+..     + +.+.+.++|+..++++-.    ...+|+.      .+-.+++|++||||+|-+-...
T Consensus        29 ~~s~~~l~lsgnt~G~EAa~~i~~~L~~~~~L~~v~~sd~ftGR~~~Ei~e~L~~l~~aL~~~~~L~~ldLSDNA~G~~g  108 (382)
T KOG1909|consen   29 MDSLTKLDLSGNTFGTEAARAIAKVLASKKELREVNLSDMFTGRLKDEIPEALKMLSKALLGCPKLQKLDLSDNAFGPKG  108 (382)
T ss_pred             cCceEEEeccCCchhHHHHHHHHHHHhhcccceeeehHhhhcCCcHHHHHHHHHHHHHHHhcCCceeEeeccccccCccc
Confidence            3466677777766532     1 122344466666665431    1122221      1234456666666666333222


Q ss_pred             Cc----cccccCCCCeEEccCCCcc
Q 048126          557 PS----GISTLVSLEHLDLSGTAIT  577 (863)
Q Consensus       557 p~----~i~~l~~L~~L~L~~~~l~  577 (863)
                      +.    .+.++..|+.|.|.+|.+.
T Consensus       109 ~~~l~~ll~s~~~L~eL~L~N~Glg  133 (382)
T KOG1909|consen  109 IRGLEELLSSCTDLEELYLNNCGLG  133 (382)
T ss_pred             hHHHHHHHHhccCHHHHhhhcCCCC
Confidence            22    2334455555555555543

>PRK14960 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.40  E-value=4.9e-06  Score=93.63  Aligned_cols=193  Identities=12%  Similarity=0.116  Sum_probs=110.5

Q ss_pred             CCccchhHHHHHHHHHhcCCCc-cEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHHHHhC
Q 048126          126 EPTVGLESMFDKVWRCLGEEQV-GIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGRRIG  204 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~  204 (863)
                      .++||.+..++.|.+++..++. +.+.++|+.|+||||+|+.+++... -....+       ...++.....+.+...-.
T Consensus        15 ddVIGQe~vv~~L~~aI~~grl~HAyLF~GPpGvGKTTlAriLAK~Ln-C~~~~~-------~~pCg~C~sC~~I~~g~h   86 (702)
T PRK14960         15 NELVGQNHVSRALSSALERGRLHHAYLFTGTRGVGKTTIARILAKCLN-CETGVT-------STPCEVCATCKAVNEGRF   86 (702)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhC-CCcCCC-------CCCCccCHHHHHHhcCCC
Confidence            4579999999999999987664 5778999999999999999988761 111010       011111111222211000


Q ss_pred             CCC---ccccCCChhHHHHHHHH----HhccCcEEEEEeccCCcc--ccccccCCCCCCCCCcEEEEecCchh-hh-hcc
Q 048126          205 FLD---ESWKNGSLEDKASDILR----ILSKKKFLLLLDDIWERV--DLTKVGVPFPDPENKSKIVFTTRFLE-IC-GAM  273 (863)
Q Consensus       205 ~~~---~~~~~~~~~~~~~~l~~----~l~~kr~LlVlDdv~~~~--~~~~~~~~l~~~~~gs~IivTtR~~~-v~-~~~  273 (863)
                      ...   +.......++....+..    ...+++-++|+|+|+...  ....+...+.....+.++|++|.+.. +. ...
T Consensus        87 pDviEIDAAs~~~VddIReli~~~~y~P~~gk~KV~IIDEVh~LS~~A~NALLKtLEEPP~~v~FILaTtd~~kIp~TIl  166 (702)
T PRK14960         87 IDLIEIDAASRTKVEDTRELLDNVPYAPTQGRFKVYLIDEVHMLSTHSFNALLKTLEEPPEHVKFLFATTDPQKLPITVI  166 (702)
T ss_pred             CceEEecccccCCHHHHHHHHHHHhhhhhcCCcEEEEEechHhcCHHHHHHHHHHHhcCCCCcEEEEEECChHhhhHHHH
Confidence            000   00001122222111111    123566789999998642  34444433433345567777666532 21 112


Q ss_pred             cccceEeecCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCCchhHHHHH
Q 048126          274 KAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGLPLALITI  329 (863)
Q Consensus       274 ~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPlai~~~  329 (863)
                      .....+++++++.++..+.+.+.+.....   .--.+....|++.++|.+..+..+
T Consensus       167 SRCq~feFkpLs~eEI~k~L~~Il~kEgI---~id~eAL~~IA~~S~GdLRdALnL  219 (702)
T PRK14960        167 SRCLQFTLRPLAVDEITKHLGAILEKEQI---AADQDAIWQIAESAQGSLRDALSL  219 (702)
T ss_pred             HhhheeeccCCCHHHHHHHHHHHHHHcCC---CCCHHHHHHHHHHcCCCHHHHHHH
Confidence            23357899999999999999887755331   122456788999999987555443

>COG4886 Leucine-rich repeat (LRR) protein [Function unknown]

Probab=98.40  E-value=1.9e-07  Score=104.05  Aligned_cols=121  Identities=29%  Similarity=0.413  Sum_probs=77.2

Q ss_pred             EEeccccc-cccccCCCCCccceEEccCCccccccchhhhcCC-CccEEEccCCCccccCCccccccCCCCeEEccCCCc
Q 048126          499 MSLMKNKI-ENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFMP-SLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAI  576 (863)
Q Consensus       499 L~l~~~~~-~~l~~~~~~~~L~~L~l~~~~l~~~~~~~~~~l~-~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~~~l  576 (863)
                      +....+.+ .........+.+..|.+.+|.+..+++. ...+. +|+.|++++| .+..+|..++.+++|+.|+++.|++
T Consensus        98 l~~~~~~~~~~~~~~~~~~~l~~L~l~~n~i~~i~~~-~~~~~~nL~~L~l~~N-~i~~l~~~~~~l~~L~~L~l~~N~l  175 (394)
T COG4886          98 LDLNLNRLRSNISELLELTNLTSLDLDNNNITDIPPL-IGLLKSNLKELDLSDN-KIESLPSPLRNLPNLKNLDLSFNDL  175 (394)
T ss_pred             eeccccccccCchhhhcccceeEEecCCcccccCccc-cccchhhccccccccc-chhhhhhhhhccccccccccCCchh
Confidence            44444444 3333334456677777777777766654 34443 6777777777 4556666677777777777777777


Q ss_pred             cccchhhhcCCCCCEEecCCccccCCCcHHHhhcCCCCcEEEeeccc
Q 048126          577 THLPIELQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRILKSN  623 (863)
Q Consensus       577 ~~lp~~~~~l~~L~~L~l~~~~~l~~lp~~~~~~L~~L~~L~l~~~~  623 (863)
                      ..+|...+.+++|+.|+++++ .+..+|.. ++.+..|++|.+.++.
T Consensus       176 ~~l~~~~~~~~~L~~L~ls~N-~i~~l~~~-~~~~~~L~~l~~~~N~  220 (394)
T COG4886         176 SDLPKLLSNLSNLNNLDLSGN-KISDLPPE-IELLSALEELDLSNNS  220 (394)
T ss_pred             hhhhhhhhhhhhhhheeccCC-ccccCchh-hhhhhhhhhhhhcCCc
Confidence            777776667777777777776 55667763 3455557777766653

>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B

Probab=98.38  E-value=7e-07  Score=82.23  Aligned_cols=117  Identities=21%  Similarity=0.263  Sum_probs=79.4

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhhcCC--CCCCCEEEEEEeCCccCHHHHHHHHHHHhCCCCccccCCChhHHHHHHH
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGA--PNDFDVVIWVVVSKDLQLEKIQEKIGRRIGFLDESWKNGSLEDKASDIL  223 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~--~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~  223 (863)
                      +.+.+.|+|.+|+|||++++.+++.....  ...-..++|+.+....+...+...++.+++.....  ..+..++.+.+.
T Consensus         3 ~~~~~~i~G~~G~GKT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~~--~~~~~~l~~~~~   80 (131)
T PF13401_consen    3 SQRILVISGPPGSGKTTLIKRLARQLNAEAEIKNHPDVIYVNCPSSRTPRDFAQEILEALGLPLKS--RQTSDELRSLLI   80 (131)
T ss_dssp             ----EEEEE-TTSSHHHHHHHHHHHHHHHHHHCCCEEEEEEEHHHHSSHHHHHHHHHHHHT-SSSS--TS-HHHHHHHHH
T ss_pred             CCcccEEEcCCCCCHHHHHHHHHHHhHHhhhccCCCcEEEEEeCCCCCHHHHHHHHHHHhCccccc--cCCHHHHHHHHH
Confidence            34689999999999999999999886210  00134677999988889999999999999876532  346677778888


Q ss_pred             HHhccCcE-EEEEeccCCc-c--ccccccCCCCCCCCCcEEEEecCc
Q 048126          224 RILSKKKF-LLLLDDIWER-V--DLTKVGVPFPDPENKSKIVFTTRF  266 (863)
Q Consensus       224 ~~l~~kr~-LlVlDdv~~~-~--~~~~~~~~l~~~~~gs~IivTtR~  266 (863)
                      +.+...+. +||+|+++.. .  .++.+.....  ..+.+||+..+.
T Consensus        81 ~~l~~~~~~~lviDe~~~l~~~~~l~~l~~l~~--~~~~~vvl~G~~  125 (131)
T PF13401_consen   81 DALDRRRVVLLVIDEADHLFSDEFLEFLRSLLN--ESNIKVVLVGTP  125 (131)
T ss_dssp             HHHHHCTEEEEEEETTHHHHTHHHHHHHHHHTC--SCBEEEEEEESS
T ss_pred             HHHHhcCCeEEEEeChHhcCCHHHHHHHHHHHh--CCCCeEEEEECh
Confidence            88887655 9999999764 2  1222322222  566777777665

>PRK00440 rfc replication factor C small subunit; Reviewed

Probab=98.38  E-value=8.7e-06  Score=87.84  Aligned_cols=180  Identities=13%  Similarity=0.166  Sum_probs=106.4

Q ss_pred             CCccchhHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEe--CCccCHHHHHHHHHHHh
Q 048126          126 EPTVGLESMFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVV--SKDLQLEKIQEKIGRRI  203 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~--s~~~~~~~~~~~i~~~l  203 (863)
                      .+++|++..++.+..++..+..+.+.++|..|+||||+|+.+++...  ...+.. .++.+  +.......+...+ .++
T Consensus        17 ~~~~g~~~~~~~l~~~i~~~~~~~~ll~G~~G~GKt~~~~~l~~~l~--~~~~~~-~~i~~~~~~~~~~~~~~~~i-~~~   92 (319)
T PRK00440         17 DEIVGQEEIVERLKSYVKEKNMPHLLFAGPPGTGKTTAALALARELY--GEDWRE-NFLELNASDERGIDVIRNKI-KEF   92 (319)
T ss_pred             HHhcCcHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHHc--CCcccc-ceEEeccccccchHHHHHHH-HHH
Confidence            45799999999999999877777789999999999999999998862  222221 22222  2222222111111 111


Q ss_pred             CCCCccccCCChhHHHHHHHHHhccCcEEEEEeccCCcc--ccccccCCCCCCCCCcEEEEecCch-hhhh-cccccceE
Q 048126          204 GFLDESWKNGSLEDKASDILRILSKKKFLLLLDDIWERV--DLTKVGVPFPDPENKSKIVFTTRFL-EICG-AMKAHEFL  279 (863)
Q Consensus       204 ~~~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~--~~~~~~~~l~~~~~gs~IivTtR~~-~v~~-~~~~~~~~  279 (863)
                      ....+                .....+-++++|+++...  ....+...+......+++|+++... .+.. .......+
T Consensus        93 ~~~~~----------------~~~~~~~vviiDe~~~l~~~~~~~L~~~le~~~~~~~lIl~~~~~~~l~~~l~sr~~~~  156 (319)
T PRK00440         93 ARTAP----------------VGGAPFKIIFLDEADNLTSDAQQALRRTMEMYSQNTRFILSCNYSSKIIDPIQSRCAVF  156 (319)
T ss_pred             HhcCC----------------CCCCCceEEEEeCcccCCHHHHHHHHHHHhcCCCCCeEEEEeCCccccchhHHHHhhee
Confidence            10000                001235689999986532  2223332233333456677766432 1211 11123468


Q ss_pred             eecCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCCchhHHHH
Q 048126          280 KVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGLPLALIT  328 (863)
Q Consensus       280 ~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPlai~~  328 (863)
                      ++.+++.++....+...+......   --.+....+++.++|.+.-+..
T Consensus       157 ~~~~l~~~ei~~~l~~~~~~~~~~---i~~~al~~l~~~~~gd~r~~~~  202 (319)
T PRK00440        157 RFSPLKKEAVAERLRYIAENEGIE---ITDDALEAIYYVSEGDMRKAIN  202 (319)
T ss_pred             eeCCCCHHHHHHHHHHHHHHcCCC---CCHHHHHHHHHHcCCCHHHHHH
Confidence            899999999999988877543311   2255688899999998765433

>PRK08084 DNA replication initiation factor; Provisional

Probab=98.34  E-value=6e-06  Score=84.02  Aligned_cols=171  Identities=16%  Similarity=0.152  Sum_probs=100.4

Q ss_pred             CCcc-ch-hHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHHHHh
Q 048126          126 EPTV-GL-ESMFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGRRI  203 (863)
Q Consensus       126 ~~~v-Gr-~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l  203 (863)
                      ++|+ |. ...+..+.++........+.|+|+.|+|||+|++.+++...   ..-..+.|+++.....   .        
T Consensus        22 d~f~~~~n~~a~~~l~~~~~~~~~~~l~l~Gp~G~GKThLl~a~~~~~~---~~~~~v~y~~~~~~~~---~--------   87 (235)
T PRK08084         22 ASFYPGDNDSLLAALQNALRQEHSGYIYLWSREGAGRSHLLHAACAELS---QRGRAVGYVPLDKRAW---F--------   87 (235)
T ss_pred             cccccCccHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHHH---hCCCeEEEEEHHHHhh---h--------
Confidence            3444 63 33445555554445557899999999999999999998862   2223566776543110   0        


Q ss_pred             CCCCccccCCChhHHHHHHHHHhccCcEEEEEeccCCc---cccccc-cCCCCC-CCCC-cEEEEecCch---------h
Q 048126          204 GFLDESWKNGSLEDKASDILRILSKKKFLLLLDDIWER---VDLTKV-GVPFPD-PENK-SKIVFTTRFL---------E  268 (863)
Q Consensus       204 ~~~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~---~~~~~~-~~~l~~-~~~g-s~IivTtR~~---------~  268 (863)
                                 ..+.    .+.+.. --+|++||+...   ..|+.. ...+.. ...| .++|+||+..         +
T Consensus        88 -----------~~~~----~~~~~~-~dlliiDdi~~~~~~~~~~~~lf~l~n~~~e~g~~~li~ts~~~p~~l~~~~~~  151 (235)
T PRK08084         88 -----------VPEV----LEGMEQ-LSLVCIDNIECIAGDELWEMAIFDLYNRILESGRTRLLITGDRPPRQLNLGLPD  151 (235)
T ss_pred             -----------hHHH----HHHhhh-CCEEEEeChhhhcCCHHHHHHHHHHHHHHHHcCCCeEEEeCCCChHHcCcccHH
Confidence                       0011    111111 237899999753   233321 111111 1123 4699999854         2


Q ss_pred             hhhcccccceEeecCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCCchhHHHHH
Q 048126          269 ICGAMKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGLPLALITI  329 (863)
Q Consensus       269 v~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPlai~~~  329 (863)
                      +...+....+++++++++++-.+++.+.+.....   .--+++..-|++.+.|..-++..+
T Consensus       152 L~SRl~~g~~~~l~~~~~~~~~~~l~~~a~~~~~---~l~~~v~~~L~~~~~~d~r~l~~~  209 (235)
T PRK08084        152 LASRLDWGQIYKLQPLSDEEKLQALQLRARLRGF---ELPEDVGRFLLKRLDREMRTLFMT  209 (235)
T ss_pred             HHHHHhCCceeeecCCCHHHHHHHHHHHHHHcCC---CCCHHHHHHHHHhhcCCHHHHHHH
Confidence            3444555678999999999999999886654321   122567788888887765544443

>PF13191 AAA_16: AAA ATPase domain; PDB: 2V1U_A

Probab=98.33  E-value=1.3e-06  Score=85.94  Aligned_cols=45  Identities=29%  Similarity=0.380  Sum_probs=32.7

Q ss_pred             CccchhHHHHHHHHHhc---CCCccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          127 PTVGLESMFDKVWRCLG---EEQVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       127 ~~vGr~~~~~~l~~~L~---~~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      .||||+++++++...+.   ....+.+.|+|.+|+|||+|+++++...
T Consensus         1 ~fvgR~~e~~~l~~~l~~~~~~~~~~~ll~G~~G~GKT~ll~~~~~~~   48 (185)
T PF13191_consen    1 QFVGREEEIERLRDLLDAAQSGSPRNLLLTGESGSGKTSLLRALLDRL   48 (185)
T ss_dssp             --TT-HHHHHHHHHTTGGTSS-----EEE-B-TTSSHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHHHHcCCCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            37999999999999993   2457899999999999999999999988

>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=98.33  E-value=7.5e-06  Score=79.59  Aligned_cols=175  Identities=20%  Similarity=0.198  Sum_probs=92.6

Q ss_pred             CCccchhHHHHHHHHHhc-----CCCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHH
Q 048126          126 EPTVGLESMFDKVWRCLG-----EEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIG  200 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~-----~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~  200 (863)
                      ++|||-+.-++.+.-++.     .+...-+.+||++|+||||||..+++..   ...|.   +++...-...        
T Consensus        24 ~efiGQ~~l~~~l~i~i~aa~~r~~~l~h~lf~GPPG~GKTTLA~IIA~e~---~~~~~---~~sg~~i~k~--------   89 (233)
T PF05496_consen   24 DEFIGQEHLKGNLKILIRAAKKRGEALDHMLFYGPPGLGKTTLARIIANEL---GVNFK---ITSGPAIEKA--------   89 (233)
T ss_dssp             CCS-S-HHHHHHHHHHHHHHHCTTS---EEEEESSTTSSHHHHHHHHHHHC---T--EE---EEECCC--SC--------
T ss_pred             HHccCcHHHHhhhHHHHHHHHhcCCCcceEEEECCCccchhHHHHHHHhcc---CCCeE---eccchhhhhH--------
Confidence            679999988887655543     2356778899999999999999999997   34442   2222110011        


Q ss_pred             HHhCCCCccccCCChhHHHHHHHHHhccCcEEEEEeccCCcc---------ccccccC--CCCCC----------CCCcE
Q 048126          201 RRIGFLDESWKNGSLEDKASDILRILSKKKFLLLLDDIWERV---------DLTKVGV--PFPDP----------ENKSK  259 (863)
Q Consensus       201 ~~l~~~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~---------~~~~~~~--~l~~~----------~~gs~  259 (863)
                                     .+++..+.. + +++-+|.+|+++...         ..+....  ....+          .+-+-
T Consensus        90 ---------------~dl~~il~~-l-~~~~ILFIDEIHRlnk~~qe~LlpamEd~~idiiiG~g~~ar~~~~~l~~FTl  152 (233)
T PF05496_consen   90 ---------------GDLAAILTN-L-KEGDILFIDEIHRLNKAQQEILLPAMEDGKIDIIIGKGPNARSIRINLPPFTL  152 (233)
T ss_dssp             ---------------HHHHHHHHT----TT-EEEECTCCC--HHHHHHHHHHHHCSEEEEEBSSSSS-BEEEEE----EE
T ss_pred             ---------------HHHHHHHHh-c-CCCcEEEEechhhccHHHHHHHHHHhccCeEEEEeccccccceeeccCCCceE
Confidence                           111111111 1 234466667776521         0011000  00000          12344


Q ss_pred             EEEecCchhhhhcccccc--eEeecCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCCchhHHHHHHHHhc
Q 048126          260 IVFTTRFLEICGAMKAHE--FLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGLPLALITIGRAMT  334 (863)
Q Consensus       260 IivTtR~~~v~~~~~~~~--~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPlai~~~~~~l~  334 (863)
                      |=-|||...+..-+....  ..+++..+.+|-.++..+.+..-..   +--++.+.+|+++|.|-|--+.-+-+..+
T Consensus       153 igATTr~g~ls~pLrdRFgi~~~l~~Y~~~el~~Iv~r~a~~l~i---~i~~~~~~~Ia~rsrGtPRiAnrll~rvr  226 (233)
T PF05496_consen  153 IGATTRAGLLSSPLRDRFGIVLRLEFYSEEELAKIVKRSARILNI---EIDEDAAEEIARRSRGTPRIANRLLRRVR  226 (233)
T ss_dssp             EEEESSGCCTSHCCCTTSSEEEE----THHHHHHHHHHCCHCTT----EE-HHHHHHHHHCTTTSHHHHHHHHHHHC
T ss_pred             eeeeccccccchhHHhhcceecchhcCCHHHHHHHHHHHHHHhCC---CcCHHHHHHHHHhcCCChHHHHHHHHHHH
Confidence            457888866644433332  3479999999999999887654331   12257799999999999976665554443

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.

>PRK14963 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.32  E-value=1.3e-05  Score=90.11  Aligned_cols=192  Identities=17%  Similarity=0.126  Sum_probs=109.5

Q ss_pred             CCccchhHHHHHHHHHhcCCCc-cEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHHHHhC
Q 048126          126 EPTVGLESMFDKVWRCLGEEQV-GIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGRRIG  204 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~  204 (863)
                      +++||-+..++.|.+++..++. +.+.++|++|+||||+|+.+++.. .-.+.+...+|.|.+... +..-...-+..++
T Consensus        14 ~dvvGq~~v~~~L~~~i~~~~l~ha~Lf~GppGtGKTTlA~~lA~~l-~c~~~~~~~cg~C~sc~~-i~~~~h~dv~el~   91 (504)
T PRK14963         14 DEVVGQEHVKEVLLAALRQGRLGHAYLFSGPRGVGKTTTARLIAMAV-NCSGEDPKPCGECESCLA-VRRGAHPDVLEID   91 (504)
T ss_pred             HHhcChHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHH-hccCCCCCCCCcChhhHH-HhcCCCCceEEec
Confidence            4579999999999999887665 466899999999999999999887 211222222333221100 0000000000000


Q ss_pred             CCCccccCCChhHHHHHHHHHh-----ccCcEEEEEeccCCc--cccccccCCCCCCCCCcEEEEecC-chhhhhcc-cc
Q 048126          205 FLDESWKNGSLEDKASDILRIL-----SKKKFLLLLDDIWER--VDLTKVGVPFPDPENKSKIVFTTR-FLEICGAM-KA  275 (863)
Q Consensus       205 ~~~~~~~~~~~~~~~~~l~~~l-----~~kr~LlVlDdv~~~--~~~~~~~~~l~~~~~gs~IivTtR-~~~v~~~~-~~  275 (863)
                      ..    .....++ +..+.+.+     .+++-++|+|+++..  ..+..+...+........+|++|. ...+.... ..
T Consensus        92 ~~----~~~~vd~-iR~l~~~~~~~p~~~~~kVVIIDEad~ls~~a~naLLk~LEep~~~t~~Il~t~~~~kl~~~I~SR  166 (504)
T PRK14963         92 AA----SNNSVED-VRDLREKVLLAPLRGGRKVYILDEAHMMSKSAFNALLKTLEEPPEHVIFILATTEPEKMPPTILSR  166 (504)
T ss_pred             cc----ccCCHHH-HHHHHHHHhhccccCCCeEEEEECccccCHHHHHHHHHHHHhCCCCEEEEEEcCChhhCChHHhcc
Confidence            00    0111111 12222222     245668999999754  234445444444334555555554 33332222 22


Q ss_pred             cceEeecCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCCchhHHH
Q 048126          276 HEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGLPLALI  327 (863)
Q Consensus       276 ~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPlai~  327 (863)
                      ...+++.+++.++....+.+.+......   --.+....|++.++|.+--+.
T Consensus       167 c~~~~f~~ls~~el~~~L~~i~~~egi~---i~~~Al~~ia~~s~GdlR~al  215 (504)
T PRK14963        167 TQHFRFRRLTEEEIAGKLRRLLEAEGRE---AEPEALQLVARLADGAMRDAE  215 (504)
T ss_pred             eEEEEecCCCHHHHHHHHHHHHHHcCCC---CCHHHHHHHHHHcCCCHHHHH
Confidence            3578999999999999999877544311   124567889999999886443

>COG4886 Leucine-rich repeat (LRR) protein [Function unknown]

Probab=98.32  E-value=3.6e-07  Score=101.79  Aligned_cols=155  Identities=26%  Similarity=0.350  Sum_probs=121.4

Q ss_pred             ccccccceEEEEeccccccccccCCCCC--ccceEEccCCccccccchhhhcCCCccEEEccCCCccccCCccccccCCC
Q 048126          489 EIQNWRNVRRMSLMKNKIENLSETPTCP--HLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSL  566 (863)
Q Consensus       489 ~~~~~~~lr~L~l~~~~~~~l~~~~~~~--~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L  566 (863)
                      .+...+.+..+++.++.+..++......  +|+.|++++|.+..++.. +..+++|+.|++++| .+..+|...+.+++|
T Consensus       111 ~~~~~~~l~~L~l~~n~i~~i~~~~~~~~~nL~~L~l~~N~i~~l~~~-~~~l~~L~~L~l~~N-~l~~l~~~~~~~~~L  188 (394)
T COG4886         111 ELLELTNLTSLDLDNNNITDIPPLIGLLKSNLKELDLSDNKIESLPSP-LRNLPNLKNLDLSFN-DLSDLPKLLSNLSNL  188 (394)
T ss_pred             hhhcccceeEEecCCcccccCccccccchhhcccccccccchhhhhhh-hhccccccccccCCc-hhhhhhhhhhhhhhh
Confidence            3444467999999999999988765554  899999999999888644 789999999999999 667888888899999


Q ss_pred             CeEEccCCCccccchhhhcCCCCCEEecCCccccCCCcHHHhhcCCCCcEEEeeccccccCchhhHHHHHcCCccCceEE
Q 048126          567 EHLDLSGTAITHLPIELQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRILKSNVLFGGHQFLVEELMGMKHLMALT  646 (863)
Q Consensus       567 ~~L~L~~~~l~~lp~~~~~l~~L~~L~l~~~~~l~~lp~~~~~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~~L~  646 (863)
                      +.|++++|++..+|..+..+..|++|.++++.. ..++.. +.++.++..|.+.++....     .+..++.++.|+.|+
T Consensus       189 ~~L~ls~N~i~~l~~~~~~~~~L~~l~~~~N~~-~~~~~~-~~~~~~l~~l~l~~n~~~~-----~~~~~~~l~~l~~L~  261 (394)
T COG4886         189 NNLDLSGNKISDLPPEIELLSALEELDLSNNSI-IELLSS-LSNLKNLSGLELSNNKLED-----LPESIGNLSNLETLD  261 (394)
T ss_pred             hheeccCCccccCchhhhhhhhhhhhhhcCCcc-eecchh-hhhcccccccccCCceeee-----ccchhccccccceec
Confidence            999999999999999888888899999999843 444443 7788888888866554431     134455666666666


Q ss_pred             EEEcCh
Q 048126          647 ITLKSW  652 (863)
Q Consensus       647 l~~~~~  652 (863)
                      ++.+..
T Consensus       262 ~s~n~i  267 (394)
T COG4886         262 LSNNQI  267 (394)
T ss_pred             cccccc
Confidence            665443

>PTZ00202 tuzin; Provisional

Probab=98.32  E-value=7.6e-06  Score=86.66  Aligned_cols=159  Identities=18%  Similarity=0.154  Sum_probs=99.7

Q ss_pred             CCCccchhHHHHHHHHHhcC---CCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHHH
Q 048126          125 CEPTVGLESMFDKVWRCLGE---EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGR  201 (863)
Q Consensus       125 ~~~~vGr~~~~~~l~~~L~~---~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~  201 (863)
                      ...|+||+.+...+...|.+   ...+++.|+|++|+|||||++.+....     ++  .+++.-..  +..++++.++.
T Consensus       261 ~~~FVGReaEla~Lr~VL~~~d~~~privvLtG~~G~GKTTLlR~~~~~l-----~~--~qL~vNpr--g~eElLr~LL~  331 (550)
T PTZ00202        261 IRQFVSREAEESWVRQVLRRLDTAHPRIVVFTGFRGCGKSSLCRSAVRKE-----GM--PAVFVDVR--GTEDTLRSVVK  331 (550)
T ss_pred             ccCCCCcHHHHHHHHHHHhccCCCCceEEEEECCCCCCHHHHHHHHHhcC-----Cc--eEEEECCC--CHHHHHHHHHH
Confidence            46799999999999999864   234589999999999999999999765     11  23333333  67999999999


Q ss_pred             HhCCCCccccCCChhHHHHHHHHHh-----c-cCcEEEEEeccCCccccccc---cCCCCCCCCCcEEEEecCchhhhhc
Q 048126          202 RIGFLDESWKNGSLEDKASDILRIL-----S-KKKFLLLLDDIWERVDLTKV---GVPFPDPENKSKIVFTTRFLEICGA  272 (863)
Q Consensus       202 ~l~~~~~~~~~~~~~~~~~~l~~~l-----~-~kr~LlVlDdv~~~~~~~~~---~~~l~~~~~gs~IivTtR~~~v~~~  272 (863)
                      +||....    ....++...|++.+     . +++.+||+-= .+...+..+   ...+.....-|+|++----+.+-..
T Consensus       332 ALGV~p~----~~k~dLLrqIqeaLl~~~~e~GrtPVLII~l-reg~~l~rvyne~v~la~drr~ch~v~evpleslt~~  406 (550)
T PTZ00202        332 ALGVPNV----EACGDLLDFISEACRRAKKMNGETPLLVLKL-REGSSLQRVYNEVVALACDRRLCHVVIEVPLESLTIA  406 (550)
T ss_pred             HcCCCCc----ccHHHHHHHHHHHHHHHHHhCCCCEEEEEEe-cCCCcHHHHHHHHHHHHccchhheeeeeehHhhcchh
Confidence            9997432    22234444444433     2 5666776642 111111111   0111122334677765444333111


Q ss_pred             ---ccccceEeecCCChHHHHHHHHHHh
Q 048126          273 ---MKAHEFLKVECLGPEDAWRLFRENL  297 (863)
Q Consensus       273 ---~~~~~~~~l~~L~~~e~~~lf~~~~  297 (863)
                         ..--..|-+++++.++|.++-++..
T Consensus       407 ~~~lprldf~~vp~fsr~qaf~y~~h~~  434 (550)
T PTZ00202        407 NTLLPRLDFYLVPNFSRSQAFAYTQHAI  434 (550)
T ss_pred             cccCccceeEecCCCCHHHHHHHHhhcc
Confidence               1223468899999999999887764

>PLN03025 replication factor C subunit; Provisional

Probab=98.31  E-value=7.6e-06  Score=87.71  Aligned_cols=180  Identities=13%  Similarity=0.135  Sum_probs=105.5

Q ss_pred             CCccchhHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCC-EEEEEEeCCccCHHHHHHHHHHHhC
Q 048126          126 EPTVGLESMFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFD-VVIWVVVSKDLQLEKIQEKIGRRIG  204 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~-~~~wv~~s~~~~~~~~~~~i~~~l~  204 (863)
                      .+++|.+..++.|..++..++.+-+.++|++|+||||+|+.+++...  ...|. .++-+..+...+... .+.++..+.
T Consensus        13 ~~~~g~~~~~~~L~~~~~~~~~~~lll~Gp~G~GKTtla~~la~~l~--~~~~~~~~~eln~sd~~~~~~-vr~~i~~~~   89 (319)
T PLN03025         13 DDIVGNEDAVSRLQVIARDGNMPNLILSGPPGTGKTTSILALAHELL--GPNYKEAVLELNASDDRGIDV-VRNKIKMFA   89 (319)
T ss_pred             HHhcCcHHHHHHHHHHHhcCCCceEEEECCCCCCHHHHHHHHHHHHh--cccCccceeeecccccccHHH-HHHHHHHHH
Confidence            45789999999998888777666678999999999999999998862  22232 122222333222222 222222211


Q ss_pred             CCCccccCCChhHHHHHHHHHhccCcEEEEEeccCCcc--ccccccCCCCCCCCCcEEEEecCch-hhhhc-ccccceEe
Q 048126          205 FLDESWKNGSLEDKASDILRILSKKKFLLLLDDIWERV--DLTKVGVPFPDPENKSKIVFTTRFL-EICGA-MKAHEFLK  280 (863)
Q Consensus       205 ~~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~--~~~~~~~~l~~~~~gs~IivTtR~~-~v~~~-~~~~~~~~  280 (863)
                      ....  .             .-.++.-++|+|+++...  ....+...+......+++|+++... .+... ......++
T Consensus        90 ~~~~--~-------------~~~~~~kviiiDE~d~lt~~aq~aL~~~lE~~~~~t~~il~~n~~~~i~~~L~SRc~~i~  154 (319)
T PLN03025         90 QKKV--T-------------LPPGRHKIVILDEADSMTSGAQQALRRTMEIYSNTTRFALACNTSSKIIEPIQSRCAIVR  154 (319)
T ss_pred             hccc--c-------------CCCCCeEEEEEechhhcCHHHHHHHHHHHhcccCCceEEEEeCCccccchhHHHhhhccc
Confidence            0000  0             001346689999998642  2222222222223456777766442 22111 11124689


Q ss_pred             ecCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCCchhHH
Q 048126          281 VECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGLPLAL  326 (863)
Q Consensus       281 l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPlai  326 (863)
                      +++++.++....+...+......-   -.+....|++.++|-.-.+
T Consensus       155 f~~l~~~~l~~~L~~i~~~egi~i---~~~~l~~i~~~~~gDlR~a  197 (319)
T PLN03025        155 FSRLSDQEILGRLMKVVEAEKVPY---VPEGLEAIIFTADGDMRQA  197 (319)
T ss_pred             CCCCCHHHHHHHHHHHHHHcCCCC---CHHHHHHHHHHcCCCHHHH
Confidence            999999999999988775543221   2456788999998865433

>PRK12323 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.29  E-value=1e-05  Score=90.82  Aligned_cols=196  Identities=14%  Similarity=0.119  Sum_probs=110.1

Q ss_pred             CCccchhHHHHHHHHHhcCCCc-cEEEEEcCCCCcHHHHHHHHHhhhcCCC-C-CCCEEEEEEeCCccCHHHHHHHHHHH
Q 048126          126 EPTVGLESMFDKVWRCLGEEQV-GIIGLYGMGGVGKTTLLTKINNKLLGAP-N-DFDVVIWVVVSKDLQLEKIQEKIGRR  202 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~~~~~-~-~F~~~~wv~~s~~~~~~~~~~~i~~~  202 (863)
                      .++||-+..++.|.+++..+++ +.+.++|..|+||||+|+.+++...... . ... .    .+..++.....+.|...
T Consensus        16 ddVIGQe~vv~~L~~al~~gRLpHA~LFtGP~GvGKTTLAriLAkaLnC~~p~~~~g-~----~~~PCG~C~sC~~I~aG   90 (700)
T PRK12323         16 TTLVGQEHVVRALTHALEQQRLHHAYLFTGTRGVGKTTLSRILAKSLNCTGADGEGG-I----TAQPCGQCRACTEIDAG   90 (700)
T ss_pred             HHHcCcHHHHHHHHHHHHhCCCceEEEEECCCCCCHHHHHHHHHHHhcCCCcccccc-C----CCCCCcccHHHHHHHcC
Confidence            4579999999999999987765 4668899999999999999988762100 0 000 0    00111111111111110


Q ss_pred             hCCCC---ccccCCChhHHHHHHHHH----hccCcEEEEEeccCCc--cccccccCCCCCCCCCcEEE-EecCchhhhhc
Q 048126          203 IGFLD---ESWKNGSLEDKASDILRI----LSKKKFLLLLDDIWER--VDLTKVGVPFPDPENKSKIV-FTTRFLEICGA  272 (863)
Q Consensus       203 l~~~~---~~~~~~~~~~~~~~l~~~----l~~kr~LlVlDdv~~~--~~~~~~~~~l~~~~~gs~Ii-vTtR~~~v~~~  272 (863)
                      -....   +.......++..+.+...    ..++.-++|+|+++..  ..+..+...+.....+.++| +||....+...
T Consensus        91 ~hpDviEIdAas~~gVDdIReLie~~~~~P~~gr~KViIIDEah~Ls~~AaNALLKTLEEPP~~v~FILaTtep~kLlpT  170 (700)
T PRK12323         91 RFVDYIEMDAASNRGVDEMAQLLDKAVYAPTAGRFKVYMIDEVHMLTNHAFNAMLKTLEEPPEHVKFILATTDPQKIPVT  170 (700)
T ss_pred             CCCcceEecccccCCHHHHHHHHHHHHhchhcCCceEEEEEChHhcCHHHHHHHHHhhccCCCCceEEEEeCChHhhhhH
Confidence            00000   000111222222222111    1345669999999864  33444544444433455555 45544444322


Q ss_pred             c-cccceEeecCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCCchhHHHHH
Q 048126          273 M-KAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGLPLALITI  329 (863)
Q Consensus       273 ~-~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPlai~~~  329 (863)
                      . .-...+.++.++.++..+.+.+.+......   .-.+..+.|++.++|.|.....+
T Consensus       171 IrSRCq~f~f~~ls~eei~~~L~~Il~~Egi~---~d~eAL~~IA~~A~Gs~RdALsL  225 (700)
T PRK12323        171 VLSRCLQFNLKQMPPGHIVSHLDAILGEEGIA---HEVNALRLLAQAAQGSMRDALSL  225 (700)
T ss_pred             HHHHHHhcccCCCChHHHHHHHHHHHHHcCCC---CCHHHHHHHHHHcCCCHHHHHHH
Confidence            1 123578999999999999998876543211   12345688999999998755544

>PLN03150 hypothetical protein; Provisional

Probab=98.29  E-value=1.7e-06  Score=101.09  Aligned_cols=110  Identities=23%  Similarity=0.333  Sum_probs=92.5

Q ss_pred             ceEEEEecccccccc--ccCCCCCccceEEccCCccccccchhhhcCCCccEEEccCCCccccCCccccccCCCCeEEcc
Q 048126          495 NVRRMSLMKNKIENL--SETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLS  572 (863)
Q Consensus       495 ~lr~L~l~~~~~~~l--~~~~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~  572 (863)
                      .++.|++.+|.+.+.  +.+..+++|+.|+|++|.+.+..+..++.+++|++|+|++|.+.+.+|..+++|++|++|+|+
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            478899999888643  235789999999999999986555568999999999999998888999999999999999999


Q ss_pred             CCCcc-ccchhhhcC-CCCCEEecCCccccCCCc
Q 048126          573 GTAIT-HLPIELQKL-VNLKCLNLEYMYNLNQFP  604 (863)
Q Consensus       573 ~~~l~-~lp~~~~~l-~~L~~L~l~~~~~l~~lp  604 (863)
                      +|.++ .+|..++.+ .++..+++.+|..+...|
T Consensus       499 ~N~l~g~iP~~l~~~~~~~~~l~~~~N~~lc~~p  532 (623)
T PLN03150        499 GNSLSGRVPAALGGRLLHRASFNFTDNAGLCGIP  532 (623)
T ss_pred             CCcccccCChHHhhccccCceEEecCCccccCCC
Confidence            99887 889888764 577889998886544444

>PRK14962 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.29  E-value=1.9e-05  Score=88.12  Aligned_cols=185  Identities=17%  Similarity=0.208  Sum_probs=106.2

Q ss_pred             CCccchhHHHHHHHHHhcCCCc-cEEEEEcCCCCcHHHHHHHHHhhhcCCCCC--C-----------------CEEEEEE
Q 048126          126 EPTVGLESMFDKVWRCLGEEQV-GIIGLYGMGGVGKTTLLTKINNKLLGAPND--F-----------------DVVIWVV  185 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~--F-----------------~~~~wv~  185 (863)
                      +++||.+..+..+...+..++. +.+.++|++|+||||+|+.+++... -...  +                 ..++.+.
T Consensus        14 ~divGq~~i~~~L~~~i~~~~l~~~~Lf~GPpGtGKTTlA~~lA~~l~-~~~~~~~~pc~~c~~c~~i~~g~~~dv~el~   92 (472)
T PRK14962         14 SEVVGQDHVKKLIINALKKNSISHAYIFAGPRGTGKTTVARILAKSLN-CENRKGVEPCNECRACRSIDEGTFMDVIELD   92 (472)
T ss_pred             HHccCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhc-cccCCCCCCCcccHHHHHHhcCCCCccEEEe
Confidence            4589999988888888877766 4678999999999999999988751 1110  0                 0112222


Q ss_pred             eCCccCHHHHHHHHHHHhCCCCccccCCChhHHHHHHHHHhccCcEEEEEeccCCc--cccccccCCCCCCCCCcEEEEe
Q 048126          186 VSKDLQLEKIQEKIGRRIGFLDESWKNGSLEDKASDILRILSKKKFLLLLDDIWER--VDLTKVGVPFPDPENKSKIVFT  263 (863)
Q Consensus       186 ~s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~--~~~~~~~~~l~~~~~gs~IivT  263 (863)
                      .+...++..+ +.+.+....                  ....+++-++|+|+++..  .....+...+........+|++
T Consensus        93 aa~~~gid~i-R~i~~~~~~------------------~p~~~~~kVvIIDE~h~Lt~~a~~~LLk~LE~p~~~vv~Ila  153 (472)
T PRK14962         93 AASNRGIDEI-RKIRDAVGY------------------RPMEGKYKVYIIDEVHMLTKEAFNALLKTLEEPPSHVVFVLA  153 (472)
T ss_pred             CcccCCHHHH-HHHHHHHhh------------------ChhcCCeEEEEEEChHHhHHHHHHHHHHHHHhCCCcEEEEEE
Confidence            2211112111 112211110                  012245679999999753  2233343333332334444444


Q ss_pred             cCc-hhhhhcc-cccceEeecCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCC-chhHHHHHHHHh
Q 048126          264 TRF-LEICGAM-KAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAG-LPLALITIGRAM  333 (863)
Q Consensus       264 tR~-~~v~~~~-~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g-lPlai~~~~~~l  333 (863)
                      |.+ ..+.... .....+.+.+++.++....+.+.+.....   .--.+....|++.++| ++.|+..+-.+.
T Consensus       154 ttn~~kl~~~L~SR~~vv~f~~l~~~el~~~L~~i~~~egi---~i~~eal~~Ia~~s~GdlR~aln~Le~l~  223 (472)
T PRK14962        154 TTNLEKVPPTIISRCQVIEFRNISDELIIKRLQEVAEAEGI---EIDREALSFIAKRASGGLRDALTMLEQVW  223 (472)
T ss_pred             eCChHhhhHHHhcCcEEEEECCccHHHHHHHHHHHHHHcCC---CCCHHHHHHHHHHhCCCHHHHHHHHHHHH
Confidence            433 3332221 22357889999999999998887754321   1124567888888865 466666665543

>PRK06645 DNA polymerase III subunits gamma and tau; Validated

Probab=98.27  E-value=3.3e-05  Score=86.47  Aligned_cols=195  Identities=16%  Similarity=0.125  Sum_probs=110.4

Q ss_pred             CCccchhHHHHHHHHHhcCCCc-cEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCE-EEEEEeCCccCHHHHHHHHHHHh
Q 048126          126 EPTVGLESMFDKVWRCLGEEQV-GIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDV-VIWVVVSKDLQLEKIQEKIGRRI  203 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~-~~wv~~s~~~~~~~~~~~i~~~l  203 (863)
                      .++||-+..+..+...+..++. +.+.++|+.|+||||+|+.+++..- -...... --+.    .+........+....
T Consensus        21 ~dliGq~~vv~~L~~ai~~~ri~~a~Lf~Gp~G~GKTT~ArilAk~Ln-c~~~~~~~~~~~----~C~~C~~C~~i~~~~   95 (507)
T PRK06645         21 AELQGQEVLVKVLSYTILNDRLAGGYLLTGIRGVGKTTSARIIAKAVN-CSALITENTTIK----TCEQCTNCISFNNHN   95 (507)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHHhc-CccccccCcCcC----CCCCChHHHHHhcCC
Confidence            4579999999999888876654 5788999999999999999998762 1111000 0000    001111111111100


Q ss_pred             CCCC---ccccCCChhHHHHHHHH----HhccCcEEEEEeccCCc--cccccccCCCCCCCCCcEEEE-ecCchhhhhcc
Q 048126          204 GFLD---ESWKNGSLEDKASDILR----ILSKKKFLLLLDDIWER--VDLTKVGVPFPDPENKSKIVF-TTRFLEICGAM  273 (863)
Q Consensus       204 ~~~~---~~~~~~~~~~~~~~l~~----~l~~kr~LlVlDdv~~~--~~~~~~~~~l~~~~~gs~Iiv-TtR~~~v~~~~  273 (863)
                      ....   +.......++....+..    -+.+++-++|+|+++..  ..+..+...+......+.+|+ ||+...+....
T Consensus        96 h~Dv~eidaas~~~vd~Ir~iie~a~~~P~~~~~KVvIIDEa~~Ls~~a~naLLk~LEepp~~~vfI~aTte~~kI~~tI  175 (507)
T PRK06645         96 HPDIIEIDAASKTSVDDIRRIIESAEYKPLQGKHKIFIIDEVHMLSKGAFNALLKTLEEPPPHIIFIFATTEVQKIPATI  175 (507)
T ss_pred             CCcEEEeeccCCCCHHHHHHHHHHHHhccccCCcEEEEEEChhhcCHHHHHHHHHHHhhcCCCEEEEEEeCChHHhhHHH
Confidence            0000   00011122222222211    12356778999999864  345555544544445566654 55555543322


Q ss_pred             -cccceEeecCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCCchhHHHH
Q 048126          274 -KAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGLPLALIT  328 (863)
Q Consensus       274 -~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPlai~~  328 (863)
                       .....+++.+++.++....+.+.+......   --.+....|++.++|.+--+..
T Consensus       176 ~SRc~~~ef~~ls~~el~~~L~~i~~~egi~---ie~eAL~~Ia~~s~GslR~al~  228 (507)
T PRK06645        176 ISRCQRYDLRRLSFEEIFKLLEYITKQENLK---TDIEALRIIAYKSEGSARDAVS  228 (507)
T ss_pred             HhcceEEEccCCCHHHHHHHHHHHHHHcCCC---CCHHHHHHHHHHcCCCHHHHHH
Confidence             223468899999999999999887654311   1245567899999997754433

>KOG1909 consensus Ran GTPase-activating protein [RNA processing and modification; Nuclear structure; Signal transduction mechanisms]

Probab=98.26  E-value=8.6e-07  Score=89.93  Aligned_cols=241  Identities=17%  Similarity=0.112  Sum_probs=146.2

Q ss_pred             CCCCCccceEEccCCcccc----ccchhhhcCCCccEEEccCCCccc----cCCccc-------cccCCCCeEEccCCCc
Q 048126          512 TPTCPHLLSLFLSDNSLKM----IAGDFFQFMPSLRVFNMSNNHLLW----KLPSGI-------STLVSLEHLDLSGTAI  576 (863)
Q Consensus       512 ~~~~~~L~~L~l~~~~l~~----~~~~~~~~l~~L~~L~L~~~~~~~----~lp~~i-------~~l~~L~~L~L~~~~l  576 (863)
                      ......+..++|++|.+..    .....+.+.+.|+..++++- +.+    ++|+.+       -..++|++||||.|-+
T Consensus        26 ~~~~~s~~~l~lsgnt~G~EAa~~i~~~L~~~~~L~~v~~sd~-ftGR~~~Ei~e~L~~l~~aL~~~~~L~~ldLSDNA~  104 (382)
T KOG1909|consen   26 LEPMDSLTKLDLSGNTFGTEAARAIAKVLASKKELREVNLSDM-FTGRLKDEIPEALKMLSKALLGCPKLQKLDLSDNAF  104 (382)
T ss_pred             hcccCceEEEeccCCchhHHHHHHHHHHHhhcccceeeehHhh-hcCCcHHHHHHHHHHHHHHHhcCCceeEeecccccc
Confidence            4566778888888886542    22334667778888888875 333    344433       3456888888888865


Q ss_pred             c-----ccchhhhcCCCCCEEecCCccccCCCcHHH-------------hhcCCCCcEEEeeccccccCchhhHHHHHcC
Q 048126          577 T-----HLPIELQKLVNLKCLNLEYMYNLNQFPRLV-------------MSAFSKLQVLRILKSNVLFGGHQFLVEELMG  638 (863)
Q Consensus       577 ~-----~lp~~~~~l~~L~~L~l~~~~~l~~lp~~~-------------~~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~  638 (863)
                      .     .+-.-+.+++.|++|++.+| .+.......             ++.-++|+.+....|.....+.......+..
T Consensus       105 G~~g~~~l~~ll~s~~~L~eL~L~N~-Glg~~ag~~l~~al~~l~~~kk~~~~~~Lrv~i~~rNrlen~ga~~~A~~~~~  183 (382)
T KOG1909|consen  105 GPKGIRGLEELLSSCTDLEELYLNNC-GLGPEAGGRLGRALFELAVNKKAASKPKLRVFICGRNRLENGGATALAEAFQS  183 (382)
T ss_pred             CccchHHHHHHHHhccCHHHHhhhcC-CCChhHHHHHHHHHHHHHHHhccCCCcceEEEEeeccccccccHHHHHHHHHh
Confidence            4     22234667888888888888 333322221             2234578888777776665555556666777


Q ss_pred             CccCceEEEEEcChHH--HHHHhhhhhhhhcceeeeeccccCCCccc--c-cchhhcCCCceEEEcCCcccccceecccc
Q 048126          639 MKHLMALTITLKSWEA--LQELLISQELQRCTQSLFLRCFNDSKSLD--I-FCLACLHNLNKLYVAGRKHLEDFQMTVQR  713 (863)
Q Consensus       639 L~~L~~L~l~~~~~~~--~~~l~~~~~~~~~L~~L~l~~~~~~~~~~--~-~~l~~~~~L~~L~l~~~~~~~~l~~~~~~  713 (863)
                      .+.|..+.+..+.+..  ...+......+++|+.|+|+++.-.....  + ..++.+++|+.|++++|..-+.-......
T Consensus       184 ~~~leevr~~qN~I~~eG~~al~eal~~~~~LevLdl~DNtft~egs~~LakaL~s~~~L~El~l~dcll~~~Ga~a~~~  263 (382)
T KOG1909|consen  184 HPTLEEVRLSQNGIRPEGVTALAEALEHCPHLEVLDLRDNTFTLEGSVALAKALSSWPHLRELNLGDCLLENEGAIAFVD  263 (382)
T ss_pred             ccccceEEEecccccCchhHHHHHHHHhCCcceeeecccchhhhHHHHHHHHHhcccchheeecccccccccccHHHHHH
Confidence            7888888887666532  22333444556788888887753221111  1 24556778888888887533211000000


Q ss_pred             ccccccccccCcccEEEEeccCCCCCC------chhhccCCCcEEEEecccc
Q 048126          714 SSVNQLARGFHSLHTVKVGFCFKLKDL------TWLVFAPSLKSIVVLSCCN  759 (863)
Q Consensus       714 ~~~~~~~~~l~~L~~L~L~~c~~l~~l------~~l~~l~~L~~L~l~~~~~  759 (863)
                         .+ ....|+|+.|.+.+|. ++.=      ......|.|..|+|++|..
T Consensus       264 ---al-~~~~p~L~vl~l~gNe-It~da~~~la~~~~ek~dL~kLnLngN~l  310 (382)
T KOG1909|consen  264 ---AL-KESAPSLEVLELAGNE-ITRDAALALAACMAEKPDLEKLNLNGNRL  310 (382)
T ss_pred             ---HH-hccCCCCceeccCcch-hHHHHHHHHHHHHhcchhhHHhcCCcccc
Confidence               01 1337889999988874 3321      1234578889999888653

>PRK14957 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.26  E-value=2.2e-05  Score=88.45  Aligned_cols=182  Identities=18%  Similarity=0.182  Sum_probs=107.2

Q ss_pred             CCccchhHHHHHHHHHhcCCCc-cEEEEEcCCCCcHHHHHHHHHhhhcCCC------------------CCCCEEEEEEe
Q 048126          126 EPTVGLESMFDKVWRCLGEEQV-GIIGLYGMGGVGKTTLLTKINNKLLGAP------------------NDFDVVIWVVV  186 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~~~~~------------------~~F~~~~wv~~  186 (863)
                      .++||-+..++.+...+..++. +.+.++|+.|+||||+|+.+++......                  ..|...+++..
T Consensus        16 ~diiGq~~~v~~L~~~i~~~rl~ha~Lf~Gp~GvGKTTlAr~lAk~L~c~~~~~~~pCg~C~sC~~i~~~~~~dlieida   95 (546)
T PRK14957         16 AEVAGQQHALNSLVHALETQKVHHAYLFTGTRGVGKTTLGRLLAKCLNCKTGVTAEPCNKCENCVAINNNSFIDLIEIDA   95 (546)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCcccHHHHHHhcCCCCceEEeec
Confidence            4579999999999999987654 4577999999999999999998651100                  01112222222


Q ss_pred             CCccCHHHHHHHHHHHhCCCCccccCCChhHHHHHHHH-HhccCcEEEEEeccCCc--cccccccCCCCCCCCCcEEEE-
Q 048126          187 SKDLQLEKIQEKIGRRIGFLDESWKNGSLEDKASDILR-ILSKKKFLLLLDDIWER--VDLTKVGVPFPDPENKSKIVF-  262 (863)
Q Consensus       187 s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~-~l~~kr~LlVlDdv~~~--~~~~~~~~~l~~~~~gs~Iiv-  262 (863)
                      .....++++ +.+                   .+.+.. -..+++-++|+|+++..  ..+..+...+......+.+|+ 
T Consensus        96 as~~gvd~i-r~i-------------------i~~~~~~p~~g~~kViIIDEa~~ls~~a~naLLK~LEepp~~v~fIL~  155 (546)
T PRK14957         96 ASRTGVEET-KEI-------------------LDNIQYMPSQGRYKVYLIDEVHMLSKQSFNALLKTLEEPPEYVKFILA  155 (546)
T ss_pred             ccccCHHHH-HHH-------------------HHHHHhhhhcCCcEEEEEechhhccHHHHHHHHHHHhcCCCCceEEEE
Confidence            111111111 111                   111111 12356679999999754  234444444444344565554 


Q ss_pred             ecCchhhhhc-ccccceEeecCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCCchh-HHHHHH
Q 048126          263 TTRFLEICGA-MKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGLPL-ALITIG  330 (863)
Q Consensus       263 TtR~~~v~~~-~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPl-ai~~~~  330 (863)
                      ||....+... ......+++.+++.++....+.+.+.....   .--.+....|++.++|.+- |+..+-
T Consensus       156 Ttd~~kil~tI~SRc~~~~f~~Ls~~eI~~~L~~il~~egi---~~e~~Al~~Ia~~s~GdlR~alnlLe  222 (546)
T PRK14957        156 TTDYHKIPVTILSRCIQLHLKHISQADIKDQLKIILAKENI---NSDEQSLEYIAYHAKGSLRDALSLLD  222 (546)
T ss_pred             ECChhhhhhhHHHheeeEEeCCCCHHHHHHHHHHHHHHcCC---CCCHHHHHHHHHHcCCCHHHHHHHHH
Confidence            5444333322 222357899999999988888876544321   1224556789999999664 444443

>TIGR02397 dnaX_nterm DNA polymerase III, subunit gamma and tau

Probab=98.25  E-value=3.2e-05  Score=84.83  Aligned_cols=182  Identities=14%  Similarity=0.163  Sum_probs=108.8

Q ss_pred             CCccchhHHHHHHHHHhcCCCc-cEEEEEcCCCCcHHHHHHHHHhhhcCC-C------------------CCCCEEEEEE
Q 048126          126 EPTVGLESMFDKVWRCLGEEQV-GIIGLYGMGGVGKTTLLTKINNKLLGA-P------------------NDFDVVIWVV  185 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~~~~-~------------------~~F~~~~wv~  185 (863)
                      ..+||.+..++.+.+++..++. +.+.++|+.|+||||+|+.++...... .                  .+++. +++.
T Consensus        14 ~~iig~~~~~~~l~~~~~~~~~~~~~Ll~G~~G~GKt~~a~~la~~l~~~~~~~~~~c~~c~~c~~~~~~~~~~~-~~~~   92 (355)
T TIGR02397        14 EDVIGQEHIVQTLKNAIKNGRIAHAYLFSGPRGTGKTSIARIFAKALNCQNGPDGEPCNECESCKEINSGSSLDV-IEID   92 (355)
T ss_pred             hhccCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCCHHHHHHhcCCCCCE-EEee
Confidence            4579999999999999987654 467889999999999999998875210 0                  12222 2222


Q ss_pred             eCCccCHHHHHHHHHHHhCCCCccccCCChhHHHHHHHHHhccCcEEEEEeccCCc--cccccccCCCCCCCCCcEEEEe
Q 048126          186 VSKDLQLEKIQEKIGRRIGFLDESWKNGSLEDKASDILRILSKKKFLLLLDDIWER--VDLTKVGVPFPDPENKSKIVFT  263 (863)
Q Consensus       186 ~s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~--~~~~~~~~~l~~~~~gs~IivT  263 (863)
                      .+...... ..+.+.+.+...                  -..+++-++|+|+++..  .....+...+......+.+|++
T Consensus        93 ~~~~~~~~-~~~~l~~~~~~~------------------p~~~~~~vviidea~~l~~~~~~~Ll~~le~~~~~~~lIl~  153 (355)
T TIGR02397        93 AASNNGVD-DIREILDNVKYA------------------PSSGKYKVYIIDEVHMLSKSAFNALLKTLEEPPEHVVFILA  153 (355)
T ss_pred             ccccCCHH-HHHHHHHHHhcC------------------cccCCceEEEEeChhhcCHHHHHHHHHHHhCCccceeEEEE
Confidence            21111111 112222222110                  01234558899998654  2344443344333445666666


Q ss_pred             cCchh-hhhc-ccccceEeecCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCCchhHHHHHH
Q 048126          264 TRFLE-ICGA-MKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGLPLALITIG  330 (863)
Q Consensus       264 tR~~~-v~~~-~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPlai~~~~  330 (863)
                      |.+.. +... ......+++.+++.++..+.+...+......   --.+.+..+++.++|.|..+....
T Consensus       154 ~~~~~~l~~~l~sr~~~~~~~~~~~~~l~~~l~~~~~~~g~~---i~~~a~~~l~~~~~g~~~~a~~~l  219 (355)
T TIGR02397       154 TTEPHKIPATILSRCQRFDFKRIPLEDIVERLKKILDKEGIK---IEDEALELIARAADGSLRDALSLL  219 (355)
T ss_pred             eCCHHHHHHHHHhheeEEEcCCCCHHHHHHHHHHHHHHcCCC---CCHHHHHHHHHHcCCChHHHHHHH
Confidence            65543 2221 1223467889999999999988876543311   124678889999999887665544

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=98.25  E-value=3.2e-05  Score=83.42  Aligned_cols=196  Identities=12%  Similarity=0.070  Sum_probs=109.9

Q ss_pred             CCccchhHHHHHHHHHhcCCCc-cEEEEEcCCCCcHHHHHHHHHhhhcCCC-CCCCE-EEEEEeCCccCHHHHHHHHHHH
Q 048126          126 EPTVGLESMFDKVWRCLGEEQV-GIIGLYGMGGVGKTTLLTKINNKLLGAP-NDFDV-VIWVVVSKDLQLEKIQEKIGRR  202 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~~~~~-~~F~~-~~wv~~s~~~~~~~~~~~i~~~  202 (863)
                      ..+||-+..++.+.+.+..+++ +.+-++|+.|+||+|+|..+++...... ...+. ..-......+......+.+...
T Consensus        19 ~~iiGq~~~~~~L~~~~~~~rl~HA~Lf~Gp~G~GK~~lA~~~A~~Llc~~~~~~~~~~~~~~~l~~~~~c~~c~~i~~~   98 (365)
T PRK07471         19 TALFGHAAAEAALLDAYRSGRLHHAWLIGGPQGIGKATLAYRMARFLLATPPPGGDGAVPPPTSLAIDPDHPVARRIAAG   98 (365)
T ss_pred             hhccChHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHHHhCCCCCCCCccccccccccCCCCChHHHHHHcc
Confidence            5689999999999999988765 4688999999999999999988762111 00110 0000000000011122222111


Q ss_pred             hCCCC-----c---cc-----cCCChhHHHHHHHHHhc-----cCcEEEEEeccCCcc--ccccccCCCCCCCCCcEEEE
Q 048126          203 IGFLD-----E---SW-----KNGSLEDKASDILRILS-----KKKFLLLLDDIWERV--DLTKVGVPFPDPENKSKIVF  262 (863)
Q Consensus       203 l~~~~-----~---~~-----~~~~~~~~~~~l~~~l~-----~kr~LlVlDdv~~~~--~~~~~~~~l~~~~~gs~Iiv  262 (863)
                      - .++     .   ..     ....+++ +..+.+.+.     +.+-++|+||++...  ....+...+.....++.+|+
T Consensus        99 ~-HPDl~~i~~~~~~~~~~~~~~I~Vdq-iR~l~~~~~~~~~~~~~kVviIDead~m~~~aanaLLK~LEepp~~~~~IL  176 (365)
T PRK07471         99 A-HGGLLTLERSWNEKGKRLRTVITVDE-VRELISFFGLTAAEGGWRVVIVDTADEMNANAANALLKVLEEPPARSLFLL  176 (365)
T ss_pred             C-CCCeEEEecccccccccccccccHHH-HHHHHHHhCcCcccCCCEEEEEechHhcCHHHHHHHHHHHhcCCCCeEEEE
Confidence            0 000     0   00     0111222 334444443     456789999997542  23333333333334566676


Q ss_pred             ecCchh-hhhc-ccccceEeecCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCCchhHHHHHH
Q 048126          263 TTRFLE-ICGA-MKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGLPLALITIG  330 (863)
Q Consensus       263 TtR~~~-v~~~-~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPlai~~~~  330 (863)
                      +|.+.. +... ......+.+.+++.++..+++.+......       .+....+++.++|.|..+..+.
T Consensus       177 ~t~~~~~llpti~SRc~~i~l~~l~~~~i~~~L~~~~~~~~-------~~~~~~l~~~s~Gsp~~Al~ll  239 (365)
T PRK07471        177 VSHAPARLLPTIRSRCRKLRLRPLAPEDVIDALAAAGPDLP-------DDPRAALAALAEGSVGRALRLA  239 (365)
T ss_pred             EECCchhchHHhhccceEEECCCCCHHHHHHHHHHhcccCC-------HHHHHHHHHHcCCCHHHHHHHh
Confidence            666643 3222 12235789999999999999987642211       1223678999999998766554

>PRK09376 rho transcription termination factor Rho; Provisional

Probab=98.24  E-value=2.6e-06  Score=89.85  Aligned_cols=101  Identities=16%  Similarity=0.175  Sum_probs=66.7

Q ss_pred             HHHHHhcC-CCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCcc--CHHHHHHHHHHHhCCCCccccCC
Q 048126          137 KVWRCLGE-EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDL--QLEKIQEKIGRRIGFLDESWKNG  213 (863)
Q Consensus       137 ~l~~~L~~-~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~--~~~~~~~~i~~~l~~~~~~~~~~  213 (863)
                      ++++++.. +.-....|+|++|+||||||++||+.. . ..+|+.++||.+++..  ++.++++.+...+-..  .++..
T Consensus       158 rvID~l~PIGkGQR~lIvgppGvGKTTLaK~Ian~I-~-~nhFDv~~~VvLIgER~~EVtdiqrsIlg~vv~s--t~d~~  233 (416)
T PRK09376        158 RIIDLIAPIGKGQRGLIVAPPKAGKTVLLQNIANSI-T-TNHPEVHLIVLLIDERPEEVTDMQRSVKGEVVAS--TFDEP  233 (416)
T ss_pred             eeeeeecccccCceEEEeCCCCCChhHHHHHHHHHH-H-hhcCCeEEEEEEeCCchhHHHHHHHHhcCcEEEE--CCCCC
Confidence            34444443 344578899999999999999999998 3 3489999999999887  7788888886322111  11111


Q ss_pred             ChhHH-----HHHHHHH--hccCcEEEEEeccCCc
Q 048126          214 SLEDK-----ASDILRI--LSKKKFLLLLDDIWER  241 (863)
Q Consensus       214 ~~~~~-----~~~l~~~--l~~kr~LlVlDdv~~~  241 (863)
                      .....     +-...++  ..+++++|++|++...
T Consensus       234 ~~~~~~~a~~~ie~Ae~~~e~G~dVlL~iDsItR~  268 (416)
T PRK09376        234 AERHVQVAEMVIEKAKRLVEHGKDVVILLDSITRL  268 (416)
T ss_pred             HHHHHHHHHHHHHHHHHHHHcCCCEEEEEEChHHH
Confidence            11111     1111122  3579999999999653

>PRK14956 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.24  E-value=1.3e-05  Score=87.72  Aligned_cols=191  Identities=13%  Similarity=0.084  Sum_probs=108.9

Q ss_pred             CCccchhHHHHHHHHHhcCCCcc-EEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHHHHhC
Q 048126          126 EPTVGLESMFDKVWRCLGEEQVG-IIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGRRIG  204 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~~~-vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~  204 (863)
                      +++||-+..+..|..++..+++. .+.++|+.|+||||+|+.+++..-  ......  ...+.....    .+.+.....
T Consensus        18 ~dvVGQe~iv~~L~~~i~~~ri~ha~Lf~GP~GtGKTTlAriLAk~Ln--ce~~~~--~~pCg~C~s----C~~i~~g~~   89 (484)
T PRK14956         18 RDVIHQDLAIGALQNALKSGKIGHAYIFFGPRGVGKTTIARILAKRLN--CENPIG--NEPCNECTS----CLEITKGIS   89 (484)
T ss_pred             HHHhChHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhcC--cccccC--ccccCCCcH----HHHHHccCC
Confidence            45799999999999999877754 688999999999999999998761  111100  001111111    112211111


Q ss_pred             CCCccc---cCCChhHHHHHHHHH-----hccCcEEEEEeccCCc--cccccccCCCCCCCCCcEEEEec-Cchhhhhc-
Q 048126          205 FLDESW---KNGSLEDKASDILRI-----LSKKKFLLLLDDIWER--VDLTKVGVPFPDPENKSKIVFTT-RFLEICGA-  272 (863)
Q Consensus       205 ~~~~~~---~~~~~~~~~~~l~~~-----l~~kr~LlVlDdv~~~--~~~~~~~~~l~~~~~gs~IivTt-R~~~v~~~-  272 (863)
                      ...-..   .....++ +..+.+.     ..++.-++|+|+++..  ..+..+...+........+|++| ....+... 
T Consensus        90 ~dviEIdaas~~gVd~-IReL~e~l~~~p~~g~~KV~IIDEah~Ls~~A~NALLKtLEEPp~~viFILaTte~~kI~~TI  168 (484)
T PRK14956         90 SDVLEIDAASNRGIEN-IRELRDNVKFAPMGGKYKVYIIDEVHMLTDQSFNALLKTLEEPPAHIVFILATTEFHKIPETI  168 (484)
T ss_pred             ccceeechhhcccHHH-HHHHHHHHHhhhhcCCCEEEEEechhhcCHHHHHHHHHHhhcCCCceEEEeecCChhhccHHH
Confidence            000000   0111111 1222221     2356679999999864  34555544444333455555444 44444222 


Q ss_pred             ccccceEeecCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCCchhHHHH
Q 048126          273 MKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGLPLALIT  328 (863)
Q Consensus       273 ~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPlai~~  328 (863)
                      ..-...|.+.+++.++..+.+.+.+.....   .--.+....|++.++|.+.-+..
T Consensus       169 ~SRCq~~~f~~ls~~~i~~~L~~i~~~Egi---~~e~eAL~~Ia~~S~Gd~RdAL~  221 (484)
T PRK14956        169 LSRCQDFIFKKVPLSVLQDYSEKLCKIENV---QYDQEGLFWIAKKGDGSVRDMLS  221 (484)
T ss_pred             HhhhheeeecCCCHHHHHHHHHHHHHHcCC---CCCHHHHHHHHHHcCChHHHHHH
Confidence            122346899999999999998887654321   11245678899999998754433

>PRK13341 recombination factor protein RarA/unknown domain fusion protein; Reviewed

Probab=98.22  E-value=1.2e-05  Score=93.84  Aligned_cols=169  Identities=21%  Similarity=0.261  Sum_probs=98.0

Q ss_pred             CCccchhHHHH---HHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHHHH
Q 048126          126 EPTVGLESMFD---KVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGRR  202 (863)
Q Consensus       126 ~~~vGr~~~~~---~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~  202 (863)
                      +++||.+..+.   .+.+.+..+....+.++|++|+||||+|+.+++..   ...|.   .+..+. ..+.++       
T Consensus        28 dd~vGQe~ii~~~~~L~~~i~~~~~~slLL~GPpGtGKTTLA~aIA~~~---~~~f~---~lna~~-~~i~di-------   93 (725)
T PRK13341         28 EEFVGQDHILGEGRLLRRAIKADRVGSLILYGPPGVGKTTLARIIANHT---RAHFS---SLNAVL-AGVKDL-------   93 (725)
T ss_pred             HHhcCcHHHhhhhHHHHHHHhcCCCceEEEECCCCCCHHHHHHHHHHHh---cCcce---eehhhh-hhhHHH-------
Confidence            45799888774   56667777777788899999999999999999876   34441   111110 011111       


Q ss_pred             hCCCCccccCCChhHHHHHHHHHh--ccCcEEEEEeccCCc--cccccccCCCCCCCCCcEEEE--ecCchh--hhh-cc
Q 048126          203 IGFLDESWKNGSLEDKASDILRIL--SKKKFLLLLDDIWER--VDLTKVGVPFPDPENKSKIVF--TTRFLE--ICG-AM  273 (863)
Q Consensus       203 l~~~~~~~~~~~~~~~~~~l~~~l--~~kr~LlVlDdv~~~--~~~~~~~~~l~~~~~gs~Iiv--TtR~~~--v~~-~~  273 (863)
                                   .+......+.+  .+++.+||+||++..  ...+.+...+   ..|+.+++  ||.+..  +.. ..
T Consensus        94 -------------r~~i~~a~~~l~~~~~~~IL~IDEIh~Ln~~qQdaLL~~l---E~g~IiLI~aTTenp~~~l~~aL~  157 (725)
T PRK13341         94 -------------RAEVDRAKERLERHGKRTILFIDEVHRFNKAQQDALLPWV---ENGTITLIGATTENPYFEVNKALV  157 (725)
T ss_pred             -------------HHHHHHHHHHhhhcCCceEEEEeChhhCCHHHHHHHHHHh---cCceEEEEEecCCChHhhhhhHhh
Confidence                         11111121111  246779999999753  2333443222   23555555  344432  211 11


Q ss_pred             cccceEeecCCChHHHHHHHHHHhcccc----cCCCCChHHHHHHHHHHhCCchh
Q 048126          274 KAHEFLKVECLGPEDAWRLFRENLRRDV----LDNHPDIPELARSVAKEYAGLPL  324 (863)
Q Consensus       274 ~~~~~~~l~~L~~~e~~~lf~~~~~~~~----~~~~~~~~~~~~~i~~~c~glPl  324 (863)
                      .....+.+++|+.++...++.+.+....    .....--.+....|++.+.|.--
T Consensus       158 SR~~v~~l~pLs~edi~~IL~~~l~~~~~~~g~~~v~I~deaL~~La~~s~GD~R  212 (725)
T PRK13341        158 SRSRLFRLKSLSDEDLHQLLKRALQDKERGYGDRKVDLEPEAEKHLVDVANGDAR  212 (725)
T ss_pred             ccccceecCCCCHHHHHHHHHHHHHHHHhhcCCcccCCCHHHHHHHHHhCCCCHH
Confidence            1234789999999999999988764210    00111224566888888887643

>KOG2982 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.21  E-value=1.1e-06  Score=86.96  Aligned_cols=205  Identities=16%  Similarity=0.110  Sum_probs=96.4

Q ss_pred             CCCCccceEEccCCcccccc--chhhhcCCCccEEEccCCCcc---ccCCccccccCCCCeEEccCCCcc--ccchhhhc
Q 048126          513 PTCPHLLSLFLSDNSLKMIA--GDFFQFMPSLRVFNMSNNHLL---WKLPSGISTLVSLEHLDLSGTAIT--HLPIELQK  585 (863)
Q Consensus       513 ~~~~~L~~L~l~~~~l~~~~--~~~~~~l~~L~~L~L~~~~~~---~~lp~~i~~l~~L~~L~L~~~~l~--~lp~~~~~  585 (863)
                      ..++.++.|+|.+|.+....  ..++.+|++|++|+|+.|...   +.+|   ..+.+|++|-|.|+.+.  ..-..+..
T Consensus        68 ~~~~~v~elDL~~N~iSdWseI~~ile~lP~l~~LNls~N~L~s~I~~lp---~p~~nl~~lVLNgT~L~w~~~~s~l~~  144 (418)
T KOG2982|consen   68 SSVTDVKELDLTGNLISDWSEIGAILEQLPALTTLNLSCNSLSSDIKSLP---LPLKNLRVLVLNGTGLSWTQSTSSLDD  144 (418)
T ss_pred             HHhhhhhhhhcccchhccHHHHHHHHhcCccceEeeccCCcCCCccccCc---ccccceEEEEEcCCCCChhhhhhhhhc
Confidence            45666677777777555432  223556667777777666322   2222   23345666666666433  33344455


Q ss_pred             CCCCCEEecCCccccCCCcHHHhhcCCCCcEEEeeccccccCchhhHHHHHcCCccCceEEEEEcChHHHHHHhhhhhhh
Q 048126          586 LVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRILKSNVLFGGHQFLVEELMGMKHLMALTITLKSWEALQELLISQELQ  665 (863)
Q Consensus       586 l~~L~~L~l~~~~~l~~lp~~~~~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~~~~~l~~~~~~~  665 (863)
                      ++.++.|+++.|.               ++.+.+..+...         ..  -+.+++|+...|...............
T Consensus       145 lP~vtelHmS~N~---------------~rq~n~Dd~c~e---------~~--s~~v~tlh~~~c~~~~w~~~~~l~r~F  198 (418)
T KOG2982|consen  145 LPKVTELHMSDNS---------------LRQLNLDDNCIE---------DW--STEVLTLHQLPCLEQLWLNKNKLSRIF  198 (418)
T ss_pred             chhhhhhhhccch---------------hhhhcccccccc---------cc--chhhhhhhcCCcHHHHHHHHHhHHhhc
Confidence            5555555555441               111111111110         00  012233333333322222222233334


Q ss_pred             hcceeeeeccccCCCcccccchhhcCCCceEEEcCCcccccceeccccccccccccccCcccEEEEeccCCCCCCc----
Q 048126          666 RCTQSLFLRCFNDSKSLDIFCLACLHNLNKLYVAGRKHLEDFQMTVQRSSVNQLARGFHSLHTVKVGFCFKLKDLT----  741 (863)
Q Consensus       666 ~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~l~~~~~~~~~~~~~~~l~~L~~L~L~~c~~l~~l~----  741 (863)
                      +++..+.+..|+-.+.....+...++.+..|.++.++.-.....+..        ..|+.|..|.+.+.+-...+.    
T Consensus       199 pnv~sv~v~e~PlK~~s~ek~se~~p~~~~LnL~~~~idswasvD~L--------n~f~~l~dlRv~~~Pl~d~l~~~er  270 (418)
T KOG2982|consen  199 PNVNSVFVCEGPLKTESSEKGSEPFPSLSCLNLGANNIDSWASVDAL--------NGFPQLVDLRVSENPLSDPLRGGER  270 (418)
T ss_pred             ccchheeeecCcccchhhcccCCCCCcchhhhhcccccccHHHHHHH--------cCCchhheeeccCCcccccccCCcc
Confidence            46666655555432222223444556666666665443222222222        347888888887776554442    


Q ss_pred             ---hhhccCCCcEEEE
Q 048126          742 ---WLVFAPSLKSIVV  754 (863)
Q Consensus       742 ---~l~~l~~L~~L~l  754 (863)
                         .++.|++++.|+=
T Consensus       271 r~llIaRL~~v~vLNG  286 (418)
T KOG2982|consen  271 RFLLIARLTKVQVLNG  286 (418)
T ss_pred             eEEEEeeccceEEecC
Confidence               2346677776643

>TIGR00678 holB DNA polymerase III, delta' subunit

Probab=98.21  E-value=3.2e-05  Score=76.05  Aligned_cols=161  Identities=14%  Similarity=0.131  Sum_probs=92.8

Q ss_pred             HHHHHhcCCCc-cEEEEEcCCCCcHHHHHHHHHhhhcCCC-------------------CCCCEEEEEEeCCccCHHHHH
Q 048126          137 KVWRCLGEEQV-GIIGLYGMGGVGKTTLLTKINNKLLGAP-------------------NDFDVVIWVVVSKDLQLEKIQ  196 (863)
Q Consensus       137 ~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~~~~~-------------------~~F~~~~wv~~s~~~~~~~~~  196 (863)
                      .+.+.+..+++ +.+.++|+.|+||||+|+.+.+......                   .+.|............++. .
T Consensus         3 ~l~~~i~~~~~~~~~L~~G~~G~gkt~~a~~~~~~l~~~~~~~~~~c~~~~~c~~~~~~~~~d~~~~~~~~~~~~~~~-i   81 (188)
T TIGR00678         3 QLKRALEKGRLAHAYLFAGPEGVGKELLALALAKALLCEQPGGGEPCGECPSCRLIEAGNHPDLHRLEPEGQSIKVDQ-V   81 (188)
T ss_pred             HHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHHcCCCCcEEEeccccCcCCHHH-H
Confidence            45566666655 5788999999999999999988862110                   1222221111111111111 1


Q ss_pred             HHHHHHhCCCCccccCCChhHHHHHHHHHhccCcEEEEEeccCCcc--ccccccCCCCCCCCCcEEEEecCch-hhhhcc
Q 048126          197 EKIGRRIGFLDESWKNGSLEDKASDILRILSKKKFLLLLDDIWERV--DLTKVGVPFPDPENKSKIVFTTRFL-EICGAM  273 (863)
Q Consensus       197 ~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~--~~~~~~~~l~~~~~gs~IivTtR~~-~v~~~~  273 (863)
                      +++.+.+...                  -..+.+-++|+||++...  ....+...+......+.+|++|++. .+....
T Consensus        82 ~~i~~~~~~~------------------~~~~~~kviiide~~~l~~~~~~~Ll~~le~~~~~~~~il~~~~~~~l~~~i  143 (188)
T TIGR00678        82 RELVEFLSRT------------------PQESGRRVVIIEDAERMNEAAANALLKTLEEPPPNTLFILITPSPEKLLPTI  143 (188)
T ss_pred             HHHHHHHccC------------------cccCCeEEEEEechhhhCHHHHHHHHHHhcCCCCCeEEEEEECChHhChHHH
Confidence            1222222111                  012456689999997642  3444444444444456677666653 222211


Q ss_pred             -cccceEeecCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCCchhH
Q 048126          274 -KAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGLPLA  325 (863)
Q Consensus       274 -~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPla  325 (863)
                       .....+.+.+++.++..+.+.+. + .       -.+.+..|++.++|.|..
T Consensus       144 ~sr~~~~~~~~~~~~~~~~~l~~~-g-i-------~~~~~~~i~~~~~g~~r~  187 (188)
T TIGR00678       144 RSRCQVLPFPPLSEEALLQWLIRQ-G-I-------SEEAAELLLALAGGSPGA  187 (188)
T ss_pred             HhhcEEeeCCCCCHHHHHHHHHHc-C-C-------CHHHHHHHHHHcCCCccc
Confidence             12357899999999999888876 1 1       145688999999998853

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.

>PRK14951 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.20  E-value=2.9e-05  Score=88.73  Aligned_cols=196  Identities=14%  Similarity=0.159  Sum_probs=109.5

Q ss_pred             CCccchhHHHHHHHHHhcCCCc-cEEEEEcCCCCcHHHHHHHHHhhhcCCC-CCCCEEEEEEeCCccCHHHHHHHHHHHh
Q 048126          126 EPTVGLESMFDKVWRCLGEEQV-GIIGLYGMGGVGKTTLLTKINNKLLGAP-NDFDVVIWVVVSKDLQLEKIQEKIGRRI  203 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~~~~~-~~F~~~~wv~~s~~~~~~~~~~~i~~~l  203 (863)
                      +++||-+..++.|.+++..++. +.+.++|+.|+||||+|+.+++..-... ......-    ...++.....+.|...-
T Consensus        16 ~dviGQe~vv~~L~~~l~~~rl~ha~Lf~Gp~GvGKTtlAr~lAk~LnC~~~~~~~~~~----~~pCg~C~~C~~i~~g~   91 (618)
T PRK14951         16 SEMVGQEHVVQALTNALTQQRLHHAYLFTGTRGVGKTTVSRILAKSLNCQGPDGQGGIT----ATPCGVCQACRDIDSGR   91 (618)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcCCCcccccCCC----CCCCCccHHHHHHHcCC
Confidence            4589999999999999987765 5678999999999999999987751100 0000000    01122222222221100


Q ss_pred             CCCC---ccccCCChhHHHHHHHHHh-----ccCcEEEEEeccCCc--cccccccCCCCCCCCCcEEEEec-Cchhhhhc
Q 048126          204 GFLD---ESWKNGSLEDKASDILRIL-----SKKKFLLLLDDIWER--VDLTKVGVPFPDPENKSKIVFTT-RFLEICGA  272 (863)
Q Consensus       204 ~~~~---~~~~~~~~~~~~~~l~~~l-----~~kr~LlVlDdv~~~--~~~~~~~~~l~~~~~gs~IivTt-R~~~v~~~  272 (863)
                      ....   +.......++.. .+.+..     .++.-++|+|+|+..  ..+..+...+.......++|++| ....+...
T Consensus        92 h~D~~eldaas~~~Vd~iR-eli~~~~~~p~~g~~KV~IIDEvh~Ls~~a~NaLLKtLEEPP~~~~fIL~Ttd~~kil~T  170 (618)
T PRK14951         92 FVDYTELDAASNRGVDEVQ-QLLEQAVYKPVQGRFKVFMIDEVHMLTNTAFNAMLKTLEEPPEYLKFVLATTDPQKVPVT  170 (618)
T ss_pred             CCceeecCcccccCHHHHH-HHHHHHHhCcccCCceEEEEEChhhCCHHHHHHHHHhcccCCCCeEEEEEECCchhhhHH
Confidence            0000   000111122221 122221     234558899999864  23444444444433455666554 43433222


Q ss_pred             -ccccceEeecCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCCchhHHHHH
Q 048126          273 -MKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGLPLALITI  329 (863)
Q Consensus       273 -~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPlai~~~  329 (863)
                       ......+++++++.++..+.+.+.+......   --.+....|++.++|.+.-+..+
T Consensus       171 IlSRc~~~~f~~Ls~eei~~~L~~i~~~egi~---ie~~AL~~La~~s~GslR~al~l  225 (618)
T PRK14951        171 VLSRCLQFNLRPMAPETVLEHLTQVLAAENVP---AEPQALRLLARAARGSMRDALSL  225 (618)
T ss_pred             HHHhceeeecCCCCHHHHHHHHHHHHHHcCCC---CCHHHHHHHHHHcCCCHHHHHHH
Confidence             2223578999999999999998876543321   12456788999999987555443

>PRK07940 DNA polymerase III subunit delta'; Validated

Probab=98.19  E-value=3.7e-05  Score=83.67  Aligned_cols=187  Identities=9%  Similarity=0.035  Sum_probs=103.6

Q ss_pred             CCccchhHHHHHHHHHhcCCC----------ccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHH
Q 048126          126 EPTVGLESMFDKVWRCLGEEQ----------VGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKI  195 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~----------~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~  195 (863)
                      +.++|-+..++.+.+++..+.          .+.+.++|+.|+|||++|+.++.....   ....      ...++....
T Consensus         5 ~~IiGq~~~~~~L~~~i~~~~~~~~~~~~~l~ha~Lf~Gp~G~GKt~lA~~lA~~l~c---~~~~------~~~Cg~C~~   75 (394)
T PRK07940          5 DDLVGQEAVVAELRAAARAARADVAAAGSGMTHAWLFTGPPGSGRSVAARAFAAALQC---TDPD------EPGCGECRA   75 (394)
T ss_pred             hhccChHHHHHHHHHHHHhccccccccCCCCCeEEEEECCCCCcHHHHHHHHHHHhCC---CCCC------CCCCCCCHH
Confidence            457899999999999997653          456889999999999999999876511   1000      001111111


Q ss_pred             HHHHHHHhCCC----CccccCCChhHHHHHHHHHh-----ccCcEEEEEeccCCcc--ccccccCCCCCCCCCcEEEEec
Q 048126          196 QEKIGRRIGFL----DESWKNGSLEDKASDILRIL-----SKKKFLLLLDDIWERV--DLTKVGVPFPDPENKSKIVFTT  264 (863)
Q Consensus       196 ~~~i~~~l~~~----~~~~~~~~~~~~~~~l~~~l-----~~kr~LlVlDdv~~~~--~~~~~~~~l~~~~~gs~IivTt  264 (863)
                      .+.+...-...    .+.......++. +.+.+..     .+++-++|+|+++...  ....+...+.....+..+|++|
T Consensus        76 C~~~~~~~hpD~~~i~~~~~~i~i~~i-R~l~~~~~~~p~~~~~kViiIDead~m~~~aanaLLk~LEep~~~~~fIL~a  154 (394)
T PRK07940         76 CRTVLAGTHPDVRVVAPEGLSIGVDEV-RELVTIAARRPSTGRWRIVVIEDADRLTERAANALLKAVEEPPPRTVWLLCA  154 (394)
T ss_pred             HHHHhcCCCCCEEEeccccccCCHHHH-HHHHHHHHhCcccCCcEEEEEechhhcCHHHHHHHHHHhhcCCCCCeEEEEE
Confidence            11111100000    000001111221 1222222     2345588889997642  2233333333334456566666


Q ss_pred             Cc-hhhhhcc-cccceEeecCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCCchhHHHHHH
Q 048126          265 RF-LEICGAM-KAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGLPLALITIG  330 (863)
Q Consensus       265 R~-~~v~~~~-~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPlai~~~~  330 (863)
                      .+ ..+.... .-...+.+.+++.++..+.+.+..+.        ..+.+..+++.++|.|.....+.
T Consensus       155 ~~~~~llpTIrSRc~~i~f~~~~~~~i~~~L~~~~~~--------~~~~a~~la~~s~G~~~~A~~l~  214 (394)
T PRK07940        155 PSPEDVLPTIRSRCRHVALRTPSVEAVAEVLVRRDGV--------DPETARRAARASQGHIGRARRLA  214 (394)
T ss_pred             CChHHChHHHHhhCeEEECCCCCHHHHHHHHHHhcCC--------CHHHHHHHHHHcCCCHHHHHHHh
Confidence            55 3333221 22357899999999999888754321        13557889999999997665543

>PRK05896 DNA polymerase III subunits gamma and tau; Validated

Probab=98.19  E-value=3e-05  Score=87.45  Aligned_cols=194  Identities=12%  Similarity=0.116  Sum_probs=107.2

Q ss_pred             CCccchhHHHHHHHHHhcCCCc-cEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHHHHhC
Q 048126          126 EPTVGLESMFDKVWRCLGEEQV-GIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGRRIG  204 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~  204 (863)
                      ..++|.+..++.+.+++..+++ +.+.++|+.|+||||+|+.+++.... ..      |.. ...++.....+.+.....
T Consensus        16 ~dIIGQe~iv~~L~~aI~~~rl~hA~Lf~GP~GvGKTTlA~~lAk~L~C-~~------~~~-~~~Cg~C~sCr~i~~~~h   87 (605)
T PRK05896         16 KQIIGQELIKKILVNAILNNKLTHAYIFSGPRGIGKTSIAKIFAKAINC-LN------PKD-GDCCNSCSVCESINTNQS   87 (605)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHHhcC-CC------CCC-CCCCcccHHHHHHHcCCC
Confidence            4579999999999999976554 47889999999999999999987621 11      111 011122222222221111


Q ss_pred             CCCccc---cCCChhHHHHHHHHH-----hccCcEEEEEeccCCc--cccccccCCCCCCCCCcEEEEec-Cchhhhhc-
Q 048126          205 FLDESW---KNGSLEDKASDILRI-----LSKKKFLLLLDDIWER--VDLTKVGVPFPDPENKSKIVFTT-RFLEICGA-  272 (863)
Q Consensus       205 ~~~~~~---~~~~~~~~~~~l~~~-----l~~kr~LlVlDdv~~~--~~~~~~~~~l~~~~~gs~IivTt-R~~~v~~~-  272 (863)
                      ...-..   .....++. +.+.+.     ..+++-++|+|+++..  ..+..+...+........+|++| ....+... 
T Consensus        88 ~DiieIdaas~igVd~I-ReIi~~~~~~P~~~~~KVIIIDEad~Lt~~A~NaLLKtLEEPp~~tvfIL~Tt~~~KLl~TI  166 (605)
T PRK05896         88 VDIVELDAASNNGVDEI-RNIIDNINYLPTTFKYKVYIIDEAHMLSTSAWNALLKTLEEPPKHVVFIFATTEFQKIPLTI  166 (605)
T ss_pred             CceEEeccccccCHHHH-HHHHHHHHhchhhCCcEEEEEechHhCCHHHHHHHHHHHHhCCCcEEEEEECCChHhhhHHH
Confidence            000000   00111221 112111     1233446999999753  33444443333333455555544 43333221 


Q ss_pred             ccccceEeecCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCCchh-HHHHHHH
Q 048126          273 MKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGLPL-ALITIGR  331 (863)
Q Consensus       273 ~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPl-ai~~~~~  331 (863)
                      ......+++.+++.++....+.+.+......   --.+.+..+++.++|.+. |+..+-.
T Consensus       167 ~SRcq~ieF~~Ls~~eL~~~L~~il~kegi~---Is~eal~~La~lS~GdlR~AlnlLek  223 (605)
T PRK05896        167 ISRCQRYNFKKLNNSELQELLKSIAKKEKIK---IEDNAIDKIADLADGSLRDGLSILDQ  223 (605)
T ss_pred             HhhhhhcccCCCCHHHHHHHHHHHHHHcCCC---CCHHHHHHHHHHcCCcHHHHHHHHHH
Confidence            2223578999999999999888876543211   124567889999999664 4444443

>PRK09087 hypothetical protein; Validated

Probab=98.19  E-value=2.3e-05  Score=78.91  Aligned_cols=141  Identities=16%  Similarity=0.113  Sum_probs=87.0

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHHHHhCCCCccccCCChhHHHHHHHHH
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGRRIGFLDESWKNGSLEDKASDILRI  225 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~  225 (863)
                      ..+.+.|+|..|+|||+|++.++... .       ..|++..      .+...++..                       
T Consensus        43 ~~~~l~l~G~~GsGKThLl~~~~~~~-~-------~~~i~~~------~~~~~~~~~-----------------------   85 (226)
T PRK09087         43 PSPVVVLAGPVGSGKTHLASIWREKS-D-------ALLIHPN------EIGSDAANA-----------------------   85 (226)
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHhc-C-------CEEecHH------HcchHHHHh-----------------------
Confidence            34679999999999999999988765 1       1244321      111111111                       


Q ss_pred             hccCcEEEEEeccCCcc-ccccccCCCCC-CCCCcEEEEecCc---------hhhhhcccccceEeecCCChHHHHHHHH
Q 048126          226 LSKKKFLLLLDDIWERV-DLTKVGVPFPD-PENKSKIVFTTRF---------LEICGAMKAHEFLKVECLGPEDAWRLFR  294 (863)
Q Consensus       226 l~~kr~LlVlDdv~~~~-~~~~~~~~l~~-~~~gs~IivTtR~---------~~v~~~~~~~~~~~l~~L~~~e~~~lf~  294 (863)
                      +.+  -+|++||+.... +-..+...+.. ...|..||+|++.         +++...+.....+++++++.++-.++++
T Consensus        86 ~~~--~~l~iDDi~~~~~~~~~lf~l~n~~~~~g~~ilits~~~p~~~~~~~~dL~SRl~~gl~~~l~~pd~e~~~~iL~  163 (226)
T PRK09087         86 AAE--GPVLIEDIDAGGFDETGLFHLINSVRQAGTSLLMTSRLWPSSWNVKLPDLKSRLKAATVVEIGEPDDALLSQVIF  163 (226)
T ss_pred             hhc--CeEEEECCCCCCCCHHHHHHHHHHHHhCCCeEEEECCCChHHhccccccHHHHHhCCceeecCCCCHHHHHHHHH
Confidence            111  278889996431 11112111111 1236678998874         2334445556789999999999999999


Q ss_pred             HHhcccccCCCCChHHHHHHHHHHhCCchhHHHH
Q 048126          295 ENLRRDVLDNHPDIPELARSVAKEYAGLPLALIT  328 (863)
Q Consensus       295 ~~~~~~~~~~~~~~~~~~~~i~~~c~glPlai~~  328 (863)
                      +.+......   --+++..-|++.+.|..-++..
T Consensus       164 ~~~~~~~~~---l~~ev~~~La~~~~r~~~~l~~  194 (226)
T PRK09087        164 KLFADRQLY---VDPHVVYYLVSRMERSLFAAQT  194 (226)
T ss_pred             HHHHHcCCC---CCHHHHHHHHHHhhhhHHHHHH
Confidence            988653322   2256788888888887766654

>PRK08691 DNA polymerase III subunits gamma and tau; Validated

Probab=98.18  E-value=2.2e-05  Score=89.36  Aligned_cols=193  Identities=13%  Similarity=0.132  Sum_probs=106.0

Q ss_pred             CCccchhHHHHHHHHHhcCCCc-cEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHHHHh-
Q 048126          126 EPTVGLESMFDKVWRCLGEEQV-GIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGRRI-  203 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l-  203 (863)
                      .++||.+..+..|.+++..+++ +.+.++|+.|+||||+|+.+++... -.....   +    ..+......+.+...- 
T Consensus        16 ddIIGQe~vv~~L~~ai~~~rl~Ha~Lf~GP~GvGKTTlAriLAk~Ln-C~~~~~---~----~pCg~C~sCr~i~~g~~   87 (709)
T PRK08691         16 ADLVGQEHVVKALQNALDEGRLHHAYLLTGTRGVGKTTIARILAKSLN-CENAQH---G----EPCGVCQSCTQIDAGRY   87 (709)
T ss_pred             HHHcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCcHHHHHHHHHHHhc-ccCCCC---C----CCCcccHHHHHHhccCc
Confidence            4579999999999999987664 4678999999999999999988751 111100   0    0001001111110000 


Q ss_pred             -CC-CCccccCCChhHHHHHHHH----HhccCcEEEEEeccCCccc--cccccCCCCCCCCCcEEEEecCch-hhhhc-c
Q 048126          204 -GF-LDESWKNGSLEDKASDILR----ILSKKKFLLLLDDIWERVD--LTKVGVPFPDPENKSKIVFTTRFL-EICGA-M  273 (863)
Q Consensus       204 -~~-~~~~~~~~~~~~~~~~l~~----~l~~kr~LlVlDdv~~~~~--~~~~~~~l~~~~~gs~IivTtR~~-~v~~~-~  273 (863)
                       .. ..+.......+++...+..    -..+++-++|+|+++....  ...+...+......+++|++|.+. .+... .
T Consensus        88 ~DvlEidaAs~~gVd~IRelle~a~~~P~~gk~KVIIIDEad~Ls~~A~NALLKtLEEPp~~v~fILaTtd~~kL~~TIr  167 (709)
T PRK08691         88 VDLLEIDAASNTGIDNIREVLENAQYAPTAGKYKVYIIDEVHMLSKSAFNAMLKTLEEPPEHVKFILATTDPHKVPVTVL  167 (709)
T ss_pred             cceEEEeccccCCHHHHHHHHHHHHhhhhhCCcEEEEEECccccCHHHHHHHHHHHHhCCCCcEEEEEeCCccccchHHH
Confidence             00 0000011111221111111    1224667899999976432  333333333223456666666543 22211 1


Q ss_pred             cccceEeecCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCCchhHHHHH
Q 048126          274 KAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGLPLALITI  329 (863)
Q Consensus       274 ~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPlai~~~  329 (863)
                      +....+.+.+++.++....+.+.+......   --.+....|++.++|.+.-+..+
T Consensus       168 SRC~~f~f~~Ls~eeI~~~L~~Il~kEgi~---id~eAL~~Ia~~A~GslRdAlnL  220 (709)
T PRK08691        168 SRCLQFVLRNMTAQQVADHLAHVLDSEKIA---YEPPALQLLGRAAAGSMRDALSL  220 (709)
T ss_pred             HHHhhhhcCCCCHHHHHHHHHHHHHHcCCC---cCHHHHHHHHHHhCCCHHHHHHH
Confidence            222457889999999999998877654321   12456789999999988554443

>PRK14964 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.18  E-value=4.3e-05  Score=84.83  Aligned_cols=181  Identities=15%  Similarity=0.188  Sum_probs=108.6

Q ss_pred             CCccchhHHHHHHHHHhcCCCcc-EEEEEcCCCCcHHHHHHHHHhhhcCCC------------------CCCCEEEEEEe
Q 048126          126 EPTVGLESMFDKVWRCLGEEQVG-IIGLYGMGGVGKTTLLTKINNKLLGAP------------------NDFDVVIWVVV  186 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~~~-vi~I~G~gGiGKTtLa~~v~~~~~~~~------------------~~F~~~~wv~~  186 (863)
                      .++||-+..++.+.+.+..+++. .+-++|+.|+||||+|+.++.......                  ..+.-++.+..
T Consensus        13 ~dliGQe~vv~~L~~a~~~~ri~ha~Lf~Gp~G~GKTT~ArilAk~LnC~~~~~~~pCg~C~~C~~i~~~~~~Dv~eida   92 (491)
T PRK14964         13 KDLVGQDVLVRILRNAFTLNKIPQSILLVGASGVGKTTCARIISLCLNCSNGPTSDPCGTCHNCISIKNSNHPDVIEIDA   92 (491)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCCCceEEEECCCCccHHHHHHHHHHHHcCcCCCCCCCccccHHHHHHhccCCCCEEEEec
Confidence            45799999999999988877665 788999999999999999987531000                  01112233333


Q ss_pred             CCccCHHHHHHHHHHHhCCCCccccCCChhHHHHHHHHHhccCcEEEEEeccCCcc--ccccccCCCCCCCCCcEEEEec
Q 048126          187 SKDLQLEKIQEKIGRRIGFLDESWKNGSLEDKASDILRILSKKKFLLLLDDIWERV--DLTKVGVPFPDPENKSKIVFTT  264 (863)
Q Consensus       187 s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~--~~~~~~~~l~~~~~gs~IivTt  264 (863)
                      +...++.++ +.+++.....                  -..+++-++|+|+++...  ....+...+......+++|++|
T Consensus        93 as~~~vddI-R~Iie~~~~~------------------P~~~~~KVvIIDEah~Ls~~A~NaLLK~LEePp~~v~fIlat  153 (491)
T PRK14964         93 ASNTSVDDI-KVILENSCYL------------------PISSKFKVYIIDEVHMLSNSAFNALLKTLEEPAPHVKFILAT  153 (491)
T ss_pred             ccCCCHHHH-HHHHHHHHhc------------------cccCCceEEEEeChHhCCHHHHHHHHHHHhCCCCCeEEEEEe
Confidence            322222221 1122211100                  012456689999997542  3444444444444566666555


Q ss_pred             -Cchhhhhc-ccccceEeecCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCCchhHHHH
Q 048126          265 -RFLEICGA-MKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGLPLALIT  328 (863)
Q Consensus       265 -R~~~v~~~-~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPlai~~  328 (863)
                       ....+... ......+.+.+++.++....+.+.+......   --.+....|++.++|.+..+..
T Consensus       154 te~~Kl~~tI~SRc~~~~f~~l~~~el~~~L~~ia~~Egi~---i~~eAL~lIa~~s~GslR~als  216 (491)
T PRK14964        154 TEVKKIPVTIISRCQRFDLQKIPTDKLVEHLVDIAKKENIE---HDEESLKLIAENSSGSMRNALF  216 (491)
T ss_pred             CChHHHHHHHHHhheeeecccccHHHHHHHHHHHHHHcCCC---CCHHHHHHHHHHcCCCHHHHHH
Confidence             33444322 2223568999999999999998877654311   1245677899999987754433

>PRK09112 DNA polymerase III subunit delta'; Validated

Probab=98.17  E-value=2.7e-05  Score=83.48  Aligned_cols=197  Identities=11%  Similarity=0.083  Sum_probs=112.3

Q ss_pred             CCCccchhHHHHHHHHHhcCCCc-cEEEEEcCCCCcHHHHHHHHHhhhcCCC-CCCCEEEEEEeCCccCHHHHHHHHHHH
Q 048126          125 CEPTVGLESMFDKVWRCLGEEQV-GIIGLYGMGGVGKTTLLTKINNKLLGAP-NDFDVVIWVVVSKDLQLEKIQEKIGRR  202 (863)
Q Consensus       125 ~~~~vGr~~~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~~~~~-~~F~~~~wv~~s~~~~~~~~~~~i~~~  202 (863)
                      ...++|-+...+.+...+..++. +.+.|+|+.|+||||+|..+++...... ..+...   .....+......+.+...
T Consensus        22 ~~~l~Gh~~a~~~L~~a~~~grl~ha~L~~G~~G~GKttlA~~lA~~Llc~~~~~~~~~---~~~~~~~~c~~c~~i~~~   98 (351)
T PRK09112         22 NTRLFGHEEAEAFLAQAYREGKLHHALLFEGPEGIGKATLAFHLANHILSHPDPAEAPE---TLADPDPASPVWRQIAQG   98 (351)
T ss_pred             hhhccCcHHHHHHHHHHHHcCCCCeeEeeECCCCCCHHHHHHHHHHHHcCCCccccCcc---ccCCCCCCCHHHHHHHcC
Confidence            35689999999999999987654 4688999999999999999998872100 001111   011111122233333322


Q ss_pred             hC-------CCCccc-----cCCChhHHHHHHHHHhc-----cCcEEEEEeccCCcc--ccccccCCCCCCCCCcE-EEE
Q 048126          203 IG-------FLDESW-----KNGSLEDKASDILRILS-----KKKFLLLLDDIWERV--DLTKVGVPFPDPENKSK-IVF  262 (863)
Q Consensus       203 l~-------~~~~~~-----~~~~~~~~~~~l~~~l~-----~kr~LlVlDdv~~~~--~~~~~~~~l~~~~~gs~-Iiv  262 (863)
                      -.       .+.+..     .....++ +..+.+++.     +++-++|+|+++...  ....+...+.....+.. |++
T Consensus        99 ~hPdl~~l~~~~~~~~~~~~~~I~vd~-iR~l~~~l~~~~~~g~~rVviIDeAd~l~~~aanaLLk~LEEpp~~~~fiLi  177 (351)
T PRK09112         99 AHPNLLHITRPFDEKTGKFKTAITVDE-IRRVGHFLSQTSGDGNWRIVIIDPADDMNRNAANAILKTLEEPPARALFILI  177 (351)
T ss_pred             CCCCEEEeecccccccccccccCCHHH-HHHHHHHhhhccccCCceEEEEEchhhcCHHHHHHHHHHHhcCCCCceEEEE
Confidence            10       000000     0112233 334444443     466799999998642  22333222322223444 445


Q ss_pred             ecCchhhhhcc-cccceEeecCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCCchhHHHHHH
Q 048126          263 TTRFLEICGAM-KAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGLPLALITIG  330 (863)
Q Consensus       263 TtR~~~v~~~~-~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPlai~~~~  330 (863)
                      |++...+.... .....+++.+++.++..+++.+.... .   . --.+....|++.++|.|.....+.
T Consensus       178 t~~~~~llptIrSRc~~i~l~pl~~~~~~~~L~~~~~~-~---~-~~~~~~~~i~~~s~G~pr~Al~ll  241 (351)
T PRK09112        178 SHSSGRLLPTIRSRCQPISLKPLDDDELKKALSHLGSS-Q---G-SDGEITEALLQRSKGSVRKALLLL  241 (351)
T ss_pred             ECChhhccHHHHhhccEEEecCCCHHHHHHHHHHhhcc-c---C-CCHHHHHHHHHHcCCCHHHHHHHH
Confidence            54444332221 12347899999999999999874321 1   1 124557889999999998766544

>PRK07994 DNA polymerase III subunits gamma and tau; Validated

Probab=98.17  E-value=2.2e-05  Score=89.88  Aligned_cols=193  Identities=15%  Similarity=0.145  Sum_probs=109.9

Q ss_pred             CCccchhHHHHHHHHHhcCCCcc-EEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHHHHhC
Q 048126          126 EPTVGLESMFDKVWRCLGEEQVG-IIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGRRIG  204 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~~~-vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~  204 (863)
                      .++||-+..++.|.+.+..+++. .+.++|..|+||||+|+.+++..-. ...+       .+..+......+.|...-.
T Consensus        16 ~divGQe~vv~~L~~~l~~~rl~hAyLf~Gp~GvGKTTlAr~lAk~L~c-~~~~-------~~~pCg~C~~C~~i~~g~~   87 (647)
T PRK07994         16 AEVVGQEHVLTALANALDLGRLHHAYLFSGTRGVGKTTIARLLAKGLNC-ETGI-------TATPCGECDNCREIEQGRF   87 (647)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhhhh-ccCC-------CCCCCCCCHHHHHHHcCCC
Confidence            46899999999999999877654 5679999999999999999887621 0000       0111122222222221100


Q ss_pred             CCC---ccccCCChhHHHHHHHHH-----hccCcEEEEEeccCCc--cccccccCCCCCCCCCcEEEEecCc-hhhhhc-
Q 048126          205 FLD---ESWKNGSLEDKASDILRI-----LSKKKFLLLLDDIWER--VDLTKVGVPFPDPENKSKIVFTTRF-LEICGA-  272 (863)
Q Consensus       205 ~~~---~~~~~~~~~~~~~~l~~~-----l~~kr~LlVlDdv~~~--~~~~~~~~~l~~~~~gs~IivTtR~-~~v~~~-  272 (863)
                      ...   +.......++. +.+.+.     ..+++-++|+|+++..  .....+...+.......++|++|.+ ..+... 
T Consensus        88 ~D~ieidaas~~~Vddi-R~li~~~~~~p~~g~~KV~IIDEah~Ls~~a~NALLKtLEEPp~~v~FIL~Tt~~~kLl~TI  166 (647)
T PRK07994         88 VDLIEIDAASRTKVEDT-RELLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLPVTI  166 (647)
T ss_pred             CCceeecccccCCHHHH-HHHHHHHHhhhhcCCCEEEEEechHhCCHHHHHHHHHHHHcCCCCeEEEEecCCccccchHH
Confidence            000   00001112222 122221     2356679999999864  2344443333333345555554444 444321 


Q ss_pred             ccccceEeecCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCCchhHHHHHH
Q 048126          273 MKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGLPLALITIG  330 (863)
Q Consensus       273 ~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPlai~~~~  330 (863)
                      ..-...+.+++++.++..+.+.+.+.....   ..-.+....|++.++|.+-.+..+.
T Consensus       167 ~SRC~~~~f~~Ls~~ei~~~L~~il~~e~i---~~e~~aL~~Ia~~s~Gs~R~Al~ll  221 (647)
T PRK07994        167 LSRCLQFHLKALDVEQIRQQLEHILQAEQI---PFEPRALQLLARAADGSMRDALSLT  221 (647)
T ss_pred             HhhheEeeCCCCCHHHHHHHHHHHHHHcCC---CCCHHHHHHHHHHcCCCHHHHHHHH
Confidence            122357899999999999999887643221   1224556789999999887555443

>PRK14955 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.15  E-value=2.8e-05  Score=85.78  Aligned_cols=198  Identities=12%  Similarity=0.113  Sum_probs=111.5

Q ss_pred             CCccchhHHHHHHHHHhcCCCcc-EEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEE-eCCccCHHHHHHHHHHHh
Q 048126          126 EPTVGLESMFDKVWRCLGEEQVG-IIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVV-VSKDLQLEKIQEKIGRRI  203 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~~~-vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~-~s~~~~~~~~~~~i~~~l  203 (863)
                      .+++|.+..++.|.+++..+++. .+.++|+.|+||||+|+.+++.... ...++...|.. +...++.....+.+...-
T Consensus        16 ~eiiGq~~~~~~L~~~~~~~~~~ha~lf~Gp~G~GKtt~A~~~a~~l~c-~~~~~~~~~~~~~~~~c~~c~~c~~~~~~~   94 (397)
T PRK14955         16 ADITAQEHITRTIQNSLRMGRVGHGYIFSGLRGVGKTTAARVFAKAVNC-QRMIDDADYLQEVTEPCGECESCRDFDAGT   94 (397)
T ss_pred             hhccChHHHHHHHHHHHHhCCcceeEEEECCCCCCHHHHHHHHHHHhcC-CCCcCcccccccCCCCCCCCHHHHHHhcCC
Confidence            45899999999999999876654 5889999999999999999987721 11111111110 011122222222222111


Q ss_pred             CCCCccc---cCCChhHHHHHHHHHh-----ccCcEEEEEeccCCcc--ccccccCCCCCCCCCcEEEEec-Cchhhhhc
Q 048126          204 GFLDESW---KNGSLEDKASDILRIL-----SKKKFLLLLDDIWERV--DLTKVGVPFPDPENKSKIVFTT-RFLEICGA  272 (863)
Q Consensus       204 ~~~~~~~---~~~~~~~~~~~l~~~l-----~~kr~LlVlDdv~~~~--~~~~~~~~l~~~~~gs~IivTt-R~~~v~~~  272 (863)
                      .......   .....++.. .+.+.+     .+++-++|+|+++...  .+..+...+......+.+|++| +...+...
T Consensus        95 ~~n~~~~~~~~~~~id~Ir-~l~~~~~~~p~~~~~kvvIIdea~~l~~~~~~~LLk~LEep~~~t~~Il~t~~~~kl~~t  173 (397)
T PRK14955         95 SLNISEFDAASNNSVDDIR-LLRENVRYGPQKGRYRVYIIDEVHMLSIAAFNAFLKTLEEPPPHAIFIFATTELHKIPAT  173 (397)
T ss_pred             CCCeEeecccccCCHHHHH-HHHHHHhhchhcCCeEEEEEeChhhCCHHHHHHHHHHHhcCCCCeEEEEEeCChHHhHHH
Confidence            1100000   011122222 233333     2455688999997643  4555554454444566666555 43444322


Q ss_pred             c-cccceEeecCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCCchhHHHH
Q 048126          273 M-KAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGLPLALIT  328 (863)
Q Consensus       273 ~-~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPlai~~  328 (863)
                      . .....+++.+++.++..+.+...+.....   .--.+.+..|++.++|.+--+..
T Consensus       174 l~sR~~~v~f~~l~~~ei~~~l~~~~~~~g~---~i~~~al~~l~~~s~g~lr~a~~  227 (397)
T PRK14955        174 IASRCQRFNFKRIPLEEIQQQLQGICEAEGI---SVDADALQLIGRKAQGSMRDAQS  227 (397)
T ss_pred             HHHHHHHhhcCCCCHHHHHHHHHHHHHHcCC---CCCHHHHHHHHHHcCCCHHHHHH
Confidence            1 12346889999999998888877643221   12256788999999997754443

>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=98.14  E-value=1.5e-06  Score=67.51  Aligned_cols=57  Identities=39%  Similarity=0.625  Sum_probs=38.6

Q ss_pred             CCccEEEccCCCccccCC-ccccccCCCCeEEccCCCccccch-hhhcCCCCCEEecCCc
Q 048126          540 PSLRVFNMSNNHLLWKLP-SGISTLVSLEHLDLSGTAITHLPI-ELQKLVNLKCLNLEYM  597 (863)
Q Consensus       540 ~~L~~L~L~~~~~~~~lp-~~i~~l~~L~~L~L~~~~l~~lp~-~~~~l~~L~~L~l~~~  597 (863)
                      ++|++|++++|. +..+| ..+.++++|++|++++|.++.+|+ .+..+++|++|++++|
T Consensus         1 p~L~~L~l~~n~-l~~i~~~~f~~l~~L~~L~l~~N~l~~i~~~~f~~l~~L~~L~l~~N   59 (61)
T PF13855_consen    1 PNLESLDLSNNK-LTEIPPDSFSNLPNLETLDLSNNNLTSIPPDAFSNLPNLRYLDLSNN   59 (61)
T ss_dssp             TTESEEEETSST-ESEECTTTTTTGTTESEEEETSSSESEEETTTTTTSTTESEEEETSS
T ss_pred             CcCcEEECCCCC-CCccCHHHHcCCCCCCEeEccCCccCccCHHHHcCCCCCCEEeCcCC
Confidence            357777777773 33444 466677777777777777776654 4677777777777766

...

>PRK14970 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.13  E-value=6.1e-05  Score=82.71  Aligned_cols=179  Identities=12%  Similarity=0.160  Sum_probs=103.1

Q ss_pred             CCccchhHHHHHHHHHhcCCCc-cEEEEEcCCCCcHHHHHHHHHhhhcCC-----CCCCCEEE-EEEeCCccCHHHHHHH
Q 048126          126 EPTVGLESMFDKVWRCLGEEQV-GIIGLYGMGGVGKTTLLTKINNKLLGA-----PNDFDVVI-WVVVSKDLQLEKIQEK  198 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~~~~-----~~~F~~~~-wv~~s~~~~~~~~~~~  198 (863)
                      .+++|.+..++.+.+.+..+.. +.+.++|+.|+||||+|+.+++.....     ...|...+ -+......++.. .+.
T Consensus        17 ~~iig~~~~~~~l~~~i~~~~~~~~~L~~G~~G~GKt~~a~~la~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~-i~~   95 (367)
T PRK14970         17 DDVVGQSHITNTLLNAIENNHLAQALLFCGPRGVGKTTCARILARKINQPGYDDPNEDFSFNIFELDAASNNSVDD-IRN   95 (367)
T ss_pred             HhcCCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCcceEEeccccCCCHHH-HHH
Confidence            4579999999999999987654 478899999999999999998876210     11122111 111111111111 112


Q ss_pred             HHHHhCCCCccccCCChhHHHHHHHHHhccCcEEEEEeccCCcc--ccccccCCCCCCCCCcEEEEec-Cchhhhhc-cc
Q 048126          199 IGRRIGFLDESWKNGSLEDKASDILRILSKKKFLLLLDDIWERV--DLTKVGVPFPDPENKSKIVFTT-RFLEICGA-MK  274 (863)
Q Consensus       199 i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~--~~~~~~~~l~~~~~gs~IivTt-R~~~v~~~-~~  274 (863)
                      +++++...                  -..+++-++|+|+++...  .+..+...+......+.+|++| +...+... ..
T Consensus        96 l~~~~~~~------------------p~~~~~kiviIDE~~~l~~~~~~~ll~~le~~~~~~~~Il~~~~~~kl~~~l~s  157 (367)
T PRK14970         96 LIDQVRIP------------------PQTGKYKIYIIDEVHMLSSAAFNAFLKTLEEPPAHAIFILATTEKHKIIPTILS  157 (367)
T ss_pred             HHHHHhhc------------------cccCCcEEEEEeChhhcCHHHHHHHHHHHhCCCCceEEEEEeCCcccCCHHHHh
Confidence            22222110                  012345589999986532  2444433332223345555554 33333211 22


Q ss_pred             ccceEeecCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCCchhHH
Q 048126          275 AHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGLPLAL  326 (863)
Q Consensus       275 ~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPlai  326 (863)
                      ....++++++++++....+...+......-   -.+.+..+++.++|.+-.+
T Consensus       158 r~~~v~~~~~~~~~l~~~l~~~~~~~g~~i---~~~al~~l~~~~~gdlr~~  206 (367)
T PRK14970        158 RCQIFDFKRITIKDIKEHLAGIAVKEGIKF---EDDALHIIAQKADGALRDA  206 (367)
T ss_pred             cceeEecCCccHHHHHHHHHHHHHHcCCCC---CHHHHHHHHHhCCCCHHHH
Confidence            234688999999999988888765433211   2467788888999865533

>PRK08903 DnaA regulatory inactivator Hda; Validated

Probab=98.13  E-value=3.6e-05  Score=78.33  Aligned_cols=171  Identities=12%  Similarity=0.073  Sum_probs=97.3

Q ss_pred             CCcc-chhHH-HHHHHHHhcC-CCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHHHH
Q 048126          126 EPTV-GLESM-FDKVWRCLGE-EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGRR  202 (863)
Q Consensus       126 ~~~v-Gr~~~-~~~l~~~L~~-~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~  202 (863)
                      ++|+ |.... +..+.++... .....+.|+|..|+|||+||+.+++...  .... .+.+++......      .    
T Consensus        18 d~f~~~~~~~~~~~l~~~~~~~~~~~~~~l~G~~G~GKT~La~ai~~~~~--~~~~-~~~~i~~~~~~~------~----   84 (227)
T PRK08903         18 DNFVAGENAELVARLRELAAGPVADRFFYLWGEAGSGRSHLLQALVADAS--YGGR-NARYLDAASPLL------A----   84 (227)
T ss_pred             cccccCCcHHHHHHHHHHHhccCCCCeEEEECCCCCCHHHHHHHHHHHHH--hCCC-cEEEEehHHhHH------H----
Confidence            4455 54433 3444444432 3456789999999999999999998762  1222 345555433210      0    


Q ss_pred             hCCCCccccCCChhHHHHHHHHHhccCcEEEEEeccCCccccc--cccCCCCC-CCCCc-EEEEecCchhhhh-------
Q 048126          203 IGFLDESWKNGSLEDKASDILRILSKKKFLLLLDDIWERVDLT--KVGVPFPD-PENKS-KIVFTTRFLEICG-------  271 (863)
Q Consensus       203 l~~~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~~~--~~~~~l~~-~~~gs-~IivTtR~~~v~~-------  271 (863)
                      +                    ... ...-+||+||+.....+.  .+...+.. ...+. .||+|++......       
T Consensus        85 ~--------------------~~~-~~~~~liiDdi~~l~~~~~~~L~~~~~~~~~~~~~~vl~~~~~~~~~~~l~~~L~  143 (227)
T PRK08903         85 F--------------------DFD-PEAELYAVDDVERLDDAQQIALFNLFNRVRAHGQGALLVAGPAAPLALPLREDLR  143 (227)
T ss_pred             H--------------------hhc-ccCCEEEEeChhhcCchHHHHHHHHHHHHHHcCCcEEEEeCCCCHHhCCCCHHHH
Confidence            0                    011 123478899997543221  12122211 12333 4667766533211       


Q ss_pred             -cccccceEeecCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCCchhHHHHHHHHh
Q 048126          272 -AMKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGLPLALITIGRAM  333 (863)
Q Consensus       272 -~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPlai~~~~~~l  333 (863)
                       .+.....++++++++++-..++.+.+.....   .--++....+++.+.|.+..+..+-..+
T Consensus       144 sr~~~~~~i~l~pl~~~~~~~~l~~~~~~~~v---~l~~~al~~L~~~~~gn~~~l~~~l~~l  203 (227)
T PRK08903        144 TRLGWGLVYELKPLSDADKIAALKAAAAERGL---QLADEVPDYLLTHFRRDMPSLMALLDAL  203 (227)
T ss_pred             HHHhcCeEEEecCCCHHHHHHHHHHHHHHcCC---CCCHHHHHHHHHhccCCHHHHHHHHHHH
Confidence             2222357899999998877777765433221   1224677888888999998877766554

>PRK14958 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.12  E-value=3.8e-05  Score=86.71  Aligned_cols=180  Identities=13%  Similarity=0.140  Sum_probs=106.6

Q ss_pred             CCccchhHHHHHHHHHhcCCCcc-EEEEEcCCCCcHHHHHHHHHhhhcCCCC-------------------CCCEEEEEE
Q 048126          126 EPTVGLESMFDKVWRCLGEEQVG-IIGLYGMGGVGKTTLLTKINNKLLGAPN-------------------DFDVVIWVV  185 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~~~-vi~I~G~gGiGKTtLa~~v~~~~~~~~~-------------------~F~~~~wv~  185 (863)
                      .++||-+..++.|.+++..++++ .+.++|+.|+||||+|+.+++..-. ..                   .|.-++.+.
T Consensus        16 ~divGq~~v~~~L~~~~~~~~l~ha~Lf~Gp~G~GKTt~A~~lAk~l~c-~~~~~~~pCg~C~~C~~i~~g~~~d~~eid   94 (509)
T PRK14958         16 QEVIGQAPVVRALSNALDQQYLHHAYLFTGTRGVGKTTISRILAKCLNC-EKGVSANPCNDCENCREIDEGRFPDLFEVD   94 (509)
T ss_pred             HHhcCCHHHHHHHHHHHHhCCCCeeEEEECCCCCCHHHHHHHHHHHhcC-CCCCCcccCCCCHHHHHHhcCCCceEEEEc
Confidence            45899999999999999876654 5789999999999999999987611 11                   111123333


Q ss_pred             eCCccCHHHHHHHHHHHhCCCCccccCCChhHHHHHHHHHhccCcEEEEEeccCCc--cccccccCCCCCCCCCcEEEEe
Q 048126          186 VSKDLQLEKIQEKIGRRIGFLDESWKNGSLEDKASDILRILSKKKFLLLLDDIWER--VDLTKVGVPFPDPENKSKIVFT  263 (863)
Q Consensus       186 ~s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~--~~~~~~~~~l~~~~~gs~IivT  263 (863)
                      .+....+.++ +.+++.+...                  -..++.-++|+|+|+..  .....+...+......+++|++
T Consensus        95 aas~~~v~~i-R~l~~~~~~~------------------p~~~~~kV~iIDE~~~ls~~a~naLLk~LEepp~~~~fIla  155 (509)
T PRK14958         95 AASRTKVEDT-RELLDNIPYA------------------PTKGRFKVYLIDEVHMLSGHSFNALLKTLEEPPSHVKFILA  155 (509)
T ss_pred             ccccCCHHHH-HHHHHHHhhc------------------cccCCcEEEEEEChHhcCHHHHHHHHHHHhccCCCeEEEEE
Confidence            2222222222 2222222110                  11245668999999864  2344443334333345666665


Q ss_pred             cCc-hhhhhc-ccccceEeecCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCCchhHHHH
Q 048126          264 TRF-LEICGA-MKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGLPLALIT  328 (863)
Q Consensus       264 tR~-~~v~~~-~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPlai~~  328 (863)
                      |.+ ..+... ......+++++++.++....+.+.+......   --.+....|++.++|.+..+..
T Consensus       156 ttd~~kl~~tI~SRc~~~~f~~l~~~~i~~~l~~il~~egi~---~~~~al~~ia~~s~GslR~al~  219 (509)
T PRK14958        156 TTDHHKLPVTVLSRCLQFHLAQLPPLQIAAHCQHLLKEENVE---FENAALDLLARAANGSVRDALS  219 (509)
T ss_pred             ECChHhchHHHHHHhhhhhcCCCCHHHHHHHHHHHHHHcCCC---CCHHHHHHHHHHcCCcHHHHHH
Confidence            543 333211 1123467899999999888777766543211   1234567889999998755444

>TIGR01242 26Sp45 26S proteasome subunit P45 family

Probab=98.11  E-value=2.2e-05  Score=85.79  Aligned_cols=170  Identities=21%  Similarity=0.282  Sum_probs=98.1

Q ss_pred             CCccchhHHHHHHHHHhcC-------------CCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCH
Q 048126          126 EPTVGLESMFDKVWRCLGE-------------EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQL  192 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~-------------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~  192 (863)
                      ..+.|++..+++|.+.+..             ...+-+.++|++|+|||++|+.+++..   ...|     +.+..    
T Consensus       122 ~di~Gl~~~~~~l~~~i~~~~~~~~~~~~~g~~~p~gvLL~GppGtGKT~lakaia~~l---~~~~-----~~v~~----  189 (364)
T TIGR01242       122 EDIGGLEEQIREIREAVELPLKHPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHET---NATF-----IRVVG----  189 (364)
T ss_pred             HHhCChHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhC---CCCE-----Eecch----
Confidence            3568999999999887732             124568899999999999999999987   3333     22211    


Q ss_pred             HHHHHHHHHHhCCCCccccCCChhHHHHHHHHHh-ccCcEEEEEeccCCcc----------------ccccccCCCC--C
Q 048126          193 EKIQEKIGRRIGFLDESWKNGSLEDKASDILRIL-SKKKFLLLLDDIWERV----------------DLTKVGVPFP--D  253 (863)
Q Consensus       193 ~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l-~~kr~LlVlDdv~~~~----------------~~~~~~~~l~--~  253 (863)
                      ..+....   ++         ........+.+.. ...+.+|++||++...                .+..+...+.  .
T Consensus       190 ~~l~~~~---~g---------~~~~~i~~~f~~a~~~~p~il~iDEiD~l~~~~~~~~~~~~~~~~~~l~~ll~~ld~~~  257 (364)
T TIGR01242       190 SELVRKY---IG---------EGARLVREIFELAKEKAPSIIFIDEIDAIAAKRTDSGTSGDREVQRTLMQLLAELDGFD  257 (364)
T ss_pred             HHHHHHh---hh---------HHHHHHHHHHHHHHhcCCcEEEhhhhhhhccccccCCCCccHHHHHHHHHHHHHhhCCC
Confidence            1111111   00         0111122222222 3467899999987531                0111111111  1


Q ss_pred             CCCCcEEEEecCchhh-----hhcccccceEeecCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCCch
Q 048126          254 PENKSKIVFTTRFLEI-----CGAMKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGLP  323 (863)
Q Consensus       254 ~~~gs~IivTtR~~~v-----~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glP  323 (863)
                      ...+.+||.||.....     ......+..+.++..+.++..++|+..+.........+    ...+++.+.|..
T Consensus       258 ~~~~v~vI~ttn~~~~ld~al~r~grfd~~i~v~~P~~~~r~~Il~~~~~~~~l~~~~~----~~~la~~t~g~s  328 (364)
T TIGR01242       258 PRGNVKVIAATNRPDILDPALLRPGRFDRIIEVPLPDFEGRLEILKIHTRKMKLAEDVD----LEAIAKMTEGAS  328 (364)
T ss_pred             CCCCEEEEEecCChhhCChhhcCcccCceEEEeCCcCHHHHHHHHHHHHhcCCCCccCC----HHHHHHHcCCCC
Confidence            1246778888875432     22112345789999999999999998775543121122    466777777654

Many proteins may score above the trusted cutoff because an internal

>KOG1859 consensus Leucine-rich repeat proteins [General function prediction only]

Probab=98.10  E-value=1.3e-07  Score=103.83  Aligned_cols=162  Identities=23%  Similarity=0.305  Sum_probs=82.1

Q ss_pred             cCCCcccCcccccccceEEEEeccccccccccC---------------------------------CCCCccceEEccCC
Q 048126          480 AGLGLTEAPEIQNWRNVRRMSLMKNKIENLSET---------------------------------PTCPHLLSLFLSDN  526 (863)
Q Consensus       480 ~~~~~~~~~~~~~~~~lr~L~l~~~~~~~l~~~---------------------------------~~~~~L~~L~l~~~  526 (863)
                      .+-+.+.+-++..++++|+|-+.++.+.....+                                 .....|.+.+.++|
T Consensus        95 pa~~pt~pi~ifpF~sLr~LElrg~~L~~~~GL~~lr~qLe~LIC~~Sl~Al~~v~ascggd~~ns~~Wn~L~~a~fsyN  174 (1096)
T KOG1859|consen   95 PARDPTEPISIFPFRSLRVLELRGCDLSTAKGLQELRHQLEKLICHNSLDALRHVFASCGGDISNSPVWNKLATASFSYN  174 (1096)
T ss_pred             CCCCCCCCceeccccceeeEEecCcchhhhhhhHHHHHhhhhhhhhccHHHHHHHHHHhccccccchhhhhHhhhhcchh
Confidence            333444455677888999999998876543221                                 11123344444444


Q ss_pred             ccccccchhhhcCCCccEEEccCCCccccCCccccccCCCCeEEccCCCccccchh-hhcCCCCCEEecCCccccCCCcH
Q 048126          527 SLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAITHLPIE-LQKLVNLKCLNLEYMYNLNQFPR  605 (863)
Q Consensus       527 ~l~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~~~l~~lp~~-~~~l~~L~~L~l~~~~~l~~lp~  605 (863)
                      .+.....+ +.-++.|+.|||++|++. ... .+..|++|.+|||++|.+..+|.- ...+ +|+.|.+++| .++.+-.
T Consensus       175 ~L~~mD~S-Lqll~ale~LnLshNk~~-~v~-~Lr~l~~LkhLDlsyN~L~~vp~l~~~gc-~L~~L~lrnN-~l~tL~g  249 (1096)
T KOG1859|consen  175 RLVLMDES-LQLLPALESLNLSHNKFT-KVD-NLRRLPKLKHLDLSYNCLRHVPQLSMVGC-KLQLLNLRNN-ALTTLRG  249 (1096)
T ss_pred             hHHhHHHH-HHHHHHhhhhccchhhhh-hhH-HHHhcccccccccccchhccccccchhhh-hheeeeeccc-HHHhhhh
Confidence            44333322 445556666666666332 222 455566666666666665555532 1222 2666666655 3444443


Q ss_pred             HHhhcCCCCcEEEeeccccccCchhhHHHHHcCCccCceEEEEEcC
Q 048126          606 LVMSAFSKLQVLRILKSNVLFGGHQFLVEELMGMKHLMALTITLKS  651 (863)
Q Consensus       606 ~~~~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~  651 (863)
                        +.+|.+|+.|+++.|-+..-   .-+.-|..|..|+.|.+.+|.
T Consensus       250 --ie~LksL~~LDlsyNll~~h---seL~pLwsLs~L~~L~LeGNP  290 (1096)
T KOG1859|consen  250 --IENLKSLYGLDLSYNLLSEH---SELEPLWSLSSLIVLWLEGNP  290 (1096)
T ss_pred             --HHhhhhhhccchhHhhhhcc---hhhhHHHHHHHHHHHhhcCCc
Confidence              55566666666655544321   122333334444555555443

>PRK05642 DNA replication initiation factor; Validated

Probab=98.10  E-value=5.3e-05  Score=77.03  Aligned_cols=150  Identities=17%  Similarity=0.229  Sum_probs=89.1

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHHHHhCCCCccccCCChhHHHHHHHHHh
Q 048126          147 VGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGRRIGFLDESWKNGSLEDKASDILRIL  226 (863)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l  226 (863)
                      ...+.|+|..|+|||+|++.+++...   ..-..++|++..+      +...                    ...+.+.+
T Consensus        45 ~~~l~l~G~~G~GKTHLl~a~~~~~~---~~~~~v~y~~~~~------~~~~--------------------~~~~~~~~   95 (234)
T PRK05642         45 ESLIYLWGKDGVGRSHLLQAACLRFE---QRGEPAVYLPLAE------LLDR--------------------GPELLDNL   95 (234)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHH---hCCCcEEEeeHHH------HHhh--------------------hHHHHHhh
Confidence            36789999999999999999998762   1123567776432      1110                    01122222


Q ss_pred             ccCcEEEEEeccCCc---ccccc-ccCCCCC-CCCCcEEEEecCchhh---------hhcccccceEeecCCChHHHHHH
Q 048126          227 SKKKFLLLLDDIWER---VDLTK-VGVPFPD-PENKSKIVFTTRFLEI---------CGAMKAHEFLKVECLGPEDAWRL  292 (863)
Q Consensus       227 ~~kr~LlVlDdv~~~---~~~~~-~~~~l~~-~~~gs~IivTtR~~~v---------~~~~~~~~~~~l~~L~~~e~~~l  292 (863)
                      .+-. +||+||+...   ..|.. +...+.. ...|.+||+|++...-         ...+....++++++++.++-.++
T Consensus        96 ~~~d-~LiiDDi~~~~~~~~~~~~Lf~l~n~~~~~g~~ilits~~~p~~l~~~~~~L~SRl~~gl~~~l~~~~~e~~~~i  174 (234)
T PRK05642         96 EQYE-LVCLDDLDVIAGKADWEEALFHLFNRLRDSGRRLLLAASKSPRELPIKLPDLKSRLTLALVFQMRGLSDEDKLRA  174 (234)
T ss_pred             hhCC-EEEEechhhhcCChHHHHHHHHHHHHHHhcCCEEEEeCCCCHHHcCccCccHHHHHhcCeeeecCCCCHHHHHHH
Confidence            2222 6788999643   23432 2222211 2246678888875322         22333446789999999999999


Q ss_pred             HHHHhcccccCCCCChHHHHHHHHHHhCCchhHHHHH
Q 048126          293 FRENLRRDVLDNHPDIPELARSVAKEYAGLPLALITI  329 (863)
Q Consensus       293 f~~~~~~~~~~~~~~~~~~~~~i~~~c~glPlai~~~  329 (863)
                      +++++......-   -+++..-|++.+.|-.-.+..+
T Consensus       175 l~~ka~~~~~~l---~~ev~~~L~~~~~~d~r~l~~~  208 (234)
T PRK05642        175 LQLRASRRGLHL---TDEVGHFILTRGTRSMSALFDL  208 (234)
T ss_pred             HHHHHHHcCCCC---CHHHHHHHHHhcCCCHHHHHHH
Confidence            996654432111   1466777888777765444433

>PF00308 Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013317 This entry represents the central domain of bacterial DnaA proteins [, , ] that play an important role in initiating and regulating chromosomal replication

Probab=98.06  E-value=4.5e-05  Score=76.54  Aligned_cols=161  Identities=17%  Similarity=0.189  Sum_probs=92.4

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHHHHhCCCCccccCCChhHHHHHHHHH
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGRRIGFLDESWKNGSLEDKASDILRI  225 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~  225 (863)
                      ....+.|+|..|+|||+|.+++++...+.... ..++|++      ..+....+...+...       .    ...+.+.
T Consensus        33 ~~~~l~l~G~~G~GKTHLL~Ai~~~~~~~~~~-~~v~y~~------~~~f~~~~~~~~~~~-------~----~~~~~~~   94 (219)
T PF00308_consen   33 RYNPLFLYGPSGLGKTHLLQAIANEAQKQHPG-KRVVYLS------AEEFIREFADALRDG-------E----IEEFKDR   94 (219)
T ss_dssp             SSSEEEEEESTTSSHHHHHHHHHHHHHHHCTT-S-EEEEE------HHHHHHHHHHHHHTT-------S----HHHHHHH
T ss_pred             CCCceEEECCCCCCHHHHHHHHHHHHHhcccc-ccceeec------HHHHHHHHHHHHHcc-------c----chhhhhh
Confidence            34578999999999999999999987321112 2466664      445555555544221       1    2233444


Q ss_pred             hccCcEEEEEeccCCccc---ccc-ccCCCCC-CCCCcEEEEecCchh---------hhhcccccceEeecCCChHHHHH
Q 048126          226 LSKKKFLLLLDDIWERVD---LTK-VGVPFPD-PENKSKIVFTTRFLE---------ICGAMKAHEFLKVECLGPEDAWR  291 (863)
Q Consensus       226 l~~kr~LlVlDdv~~~~~---~~~-~~~~l~~-~~~gs~IivTtR~~~---------v~~~~~~~~~~~l~~L~~~e~~~  291 (863)
                      +++ -=+|++||++....   |.+ +...+.. ...|-+||+|++...         +...+...-++++++.+.++-.+
T Consensus        95 ~~~-~DlL~iDDi~~l~~~~~~q~~lf~l~n~~~~~~k~li~ts~~~P~~l~~~~~~L~SRl~~Gl~~~l~~pd~~~r~~  173 (219)
T PF00308_consen   95 LRS-ADLLIIDDIQFLAGKQRTQEELFHLFNRLIESGKQLILTSDRPPSELSGLLPDLRSRLSWGLVVELQPPDDEDRRR  173 (219)
T ss_dssp             HCT-SSEEEEETGGGGTTHHHHHHHHHHHHHHHHHTTSEEEEEESS-TTTTTTS-HHHHHHHHCSEEEEE----HHHHHH
T ss_pred             hhc-CCEEEEecchhhcCchHHHHHHHHHHHHHHhhCCeEEEEeCCCCccccccChhhhhhHhhcchhhcCCCCHHHHHH
Confidence            443 34788999976422   221 1111110 124668999996532         23444555689999999999999


Q ss_pred             HHHHHhcccccCCCCChHHHHHHHHHHhCCchhHHHH
Q 048126          292 LFRENLRRDVLDNHPDIPELARSVAKEYAGLPLALIT  328 (863)
Q Consensus       292 lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPlai~~  328 (863)
                      ++.+.+......   --++++.-|++.+.+..-.+..
T Consensus       174 il~~~a~~~~~~---l~~~v~~~l~~~~~~~~r~L~~  207 (219)
T PF00308_consen  174 ILQKKAKERGIE---LPEEVIEYLARRFRRDVRELEG  207 (219)
T ss_dssp             HHHHHHHHTT-----S-HHHHHHHHHHTTSSHHHHHH
T ss_pred             HHHHHHHHhCCC---CcHHHHHHHHHhhcCCHHHHHH
Confidence            999988764422   2255667777776655444433

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.

>PRK14969 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.03  E-value=7.5e-05  Score=84.92  Aligned_cols=181  Identities=15%  Similarity=0.170  Sum_probs=104.9

Q ss_pred             CCccchhHHHHHHHHHhcCCCcc-EEEEEcCCCCcHHHHHHHHHhhhcCCC------------------CCCCEEEEEEe
Q 048126          126 EPTVGLESMFDKVWRCLGEEQVG-IIGLYGMGGVGKTTLLTKINNKLLGAP------------------NDFDVVIWVVV  186 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~~~-vi~I~G~gGiGKTtLa~~v~~~~~~~~------------------~~F~~~~wv~~  186 (863)
                      .++||-+..++.+.+++..++.. .+.++|+.|+||||+|+.+++..-...                  ..|.-.+++..
T Consensus        16 ~divGq~~v~~~L~~~i~~~~~~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~~~pcg~C~~C~~i~~~~~~d~~ei~~   95 (527)
T PRK14969         16 SELVGQEHVVRALTNALEQQRLHHAYLFTGTRGVGKTTLARILAKSLNCETGVTATPCGVCSACLEIDSGRFVDLIEVDA   95 (527)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCCCEEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCCHHHHHHhcCCCCceeEeec
Confidence            45799999999999999876654 567999999999999999988761100                  00111222221


Q ss_pred             CCccCHHHHHHHHHHHhCCCCccccCCChhHHHHHHHHHhccCcEEEEEeccCCcc--ccccccCCCCCCCCCcEEEEec
Q 048126          187 SKDLQLEKIQEKIGRRIGFLDESWKNGSLEDKASDILRILSKKKFLLLLDDIWERV--DLTKVGVPFPDPENKSKIVFTT  264 (863)
Q Consensus       187 s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~--~~~~~~~~l~~~~~gs~IivTt  264 (863)
                      +....+.. .+.+++.....                  -..+++-++|+|+++...  ....+...+......+.+|++|
T Consensus        96 ~~~~~vd~-ir~l~~~~~~~------------------p~~~~~kVvIIDEad~ls~~a~naLLK~LEepp~~~~fIL~t  156 (527)
T PRK14969         96 ASNTQVDA-MRELLDNAQYA------------------PTRGRFKVYIIDEVHMLSKSAFNAMLKTLEEPPEHVKFILAT  156 (527)
T ss_pred             cccCCHHH-HHHHHHHHhhC------------------cccCCceEEEEcCcccCCHHHHHHHHHHHhCCCCCEEEEEEe
Confidence            11111111 11222111100                  112456799999997643  2333433343333456666555


Q ss_pred             Cc-hhhhhc-ccccceEeecCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCCchhHHHH
Q 048126          265 RF-LEICGA-MKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGLPLALIT  328 (863)
Q Consensus       265 R~-~~v~~~-~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPlai~~  328 (863)
                      .+ ..+... ......+++.+++.++..+.+.+.+.....   ..-.+....|++.++|.+--+..
T Consensus       157 ~d~~kil~tI~SRc~~~~f~~l~~~~i~~~L~~il~~egi---~~~~~al~~la~~s~Gslr~al~  219 (527)
T PRK14969        157 TDPQKIPVTVLSRCLQFNLKQMPPPLIVSHLQHILEQENI---PFDATALQLLARAAAGSMRDALS  219 (527)
T ss_pred             CChhhCchhHHHHHHHHhcCCCCHHHHHHHHHHHHHHcCC---CCCHHHHHHHHHHcCCCHHHHHH
Confidence            44 333211 112346889999999999888877653321   12245568899999997754333

>PRK09111 DNA polymerase III subunits gamma and tau; Validated

Probab=98.03  E-value=0.00011  Score=84.37  Aligned_cols=196  Identities=12%  Similarity=0.098  Sum_probs=110.6

Q ss_pred             CCccchhHHHHHHHHHhcCCCc-cEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCC--EEEEEEeCCccCHHHHHHHHHHH
Q 048126          126 EPTVGLESMFDKVWRCLGEEQV-GIIGLYGMGGVGKTTLLTKINNKLLGAPNDFD--VVIWVVVSKDLQLEKIQEKIGRR  202 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~--~~~wv~~s~~~~~~~~~~~i~~~  202 (863)
                      .++||.+..++.|.+++..++. +.+.++|+.|+||||+|+.+++.... .....  ...+    ..++...-.+.|...
T Consensus        24 ~dliGq~~~v~~L~~~~~~gri~ha~L~~Gp~GvGKTt~Ar~lAk~L~c-~~~~~~~~~~~----~~cg~c~~C~~i~~g   98 (598)
T PRK09111         24 DDLIGQEAMVRTLTNAFETGRIAQAFMLTGVRGVGKTTTARILARALNY-EGPDGDGGPTI----DLCGVGEHCQAIMEG   98 (598)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHhhCc-CCccccCCCcc----ccCcccHHHHHHhcC
Confidence            4579999999999999987764 46889999999999999999987621 11000  0000    011111112222221


Q ss_pred             hCCCCcc---ccCCChhHHHHHHHHHh-----ccCcEEEEEeccCCcc--ccccccCCCCCCCCCcEEEEec-Cchhhhh
Q 048126          203 IGFLDES---WKNGSLEDKASDILRIL-----SKKKFLLLLDDIWERV--DLTKVGVPFPDPENKSKIVFTT-RFLEICG  271 (863)
Q Consensus       203 l~~~~~~---~~~~~~~~~~~~l~~~l-----~~kr~LlVlDdv~~~~--~~~~~~~~l~~~~~gs~IivTt-R~~~v~~  271 (863)
                      -....-.   ......++.. .+.+.+     .+++-++|+|+++...  ....+...+.....++.+|++| ....+..
T Consensus        99 ~h~Dv~e~~a~s~~gvd~IR-eIie~~~~~P~~a~~KVvIIDEad~Ls~~a~naLLKtLEePp~~~~fIl~tte~~kll~  177 (598)
T PRK09111         99 RHVDVLEMDAASHTGVDDIR-EIIESVRYRPVSARYKVYIIDEVHMLSTAAFNALLKTLEEPPPHVKFIFATTEIRKVPV  177 (598)
T ss_pred             CCCceEEecccccCCHHHHH-HHHHHHHhchhcCCcEEEEEEChHhCCHHHHHHHHHHHHhCCCCeEEEEEeCChhhhhH
Confidence            1110000   0111222221 222222     2355679999997543  3444444444334456666544 4444322


Q ss_pred             cc-cccceEeecCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCCchhHHHHHH
Q 048126          272 AM-KAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGLPLALITIG  330 (863)
Q Consensus       272 ~~-~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPlai~~~~  330 (863)
                      .. .....+.+..++.++....+.+.+......   --.+....|++.++|.+.-+...-
T Consensus       178 tI~SRcq~~~f~~l~~~el~~~L~~i~~kegi~---i~~eAl~lIa~~a~Gdlr~al~~L  234 (598)
T PRK09111        178 TVLSRCQRFDLRRIEADVLAAHLSRIAAKEGVE---VEDEALALIARAAEGSVRDGLSLL  234 (598)
T ss_pred             HHHhheeEEEecCCCHHHHHHHHHHHHHHcCCC---CCHHHHHHHHHHcCCCHHHHHHHH
Confidence            21 123578999999999999998877543311   123567889999999886655443

>COG2255 RuvB Holliday junction resolvasome, helicase subunit [DNA replication, recombination, and repair]

Probab=98.03  E-value=0.00047  Score=68.69  Aligned_cols=172  Identities=20%  Similarity=0.240  Sum_probs=99.2

Q ss_pred             CCccchhHHHHHHHHHhcC-----CCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHH
Q 048126          126 EPTVGLESMFDKVWRCLGE-----EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIG  200 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~-----~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~  200 (863)
                      .+|||.++.++.+.=++..     +...-+.++|++|.||||||.-+++.. .+  .+.    ++-+.-.....-+..++
T Consensus        26 ~efiGQ~~vk~~L~ifI~AAk~r~e~lDHvLl~GPPGlGKTTLA~IIA~Em-gv--n~k----~tsGp~leK~gDlaaiL   98 (332)
T COG2255          26 DEFIGQEKVKEQLQIFIKAAKKRGEALDHVLLFGPPGLGKTTLAHIIANEL-GV--NLK----ITSGPALEKPGDLAAIL   98 (332)
T ss_pred             HHhcChHHHHHHHHHHHHHHHhcCCCcCeEEeeCCCCCcHHHHHHHHHHHh-cC--CeE----ecccccccChhhHHHHH
Confidence            5689999888887766642     456788999999999999999999988 22  221    11110000001111111


Q ss_pred             HHhCCCCccccCCChhHHHHHHHHHhccCcEEEEEeccCCcc------------c------------cccccCCCCCCCC
Q 048126          201 RRIGFLDESWKNGSLEDKASDILRILSKKKFLLLLDDIWERV------------D------------LTKVGVPFPDPEN  256 (863)
Q Consensus       201 ~~l~~~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~------------~------------~~~~~~~l~~~~~  256 (863)
                      ..+                       + ..=.|.+|.++...            +            -..+...+|   +
T Consensus        99 t~L-----------------------e-~~DVLFIDEIHrl~~~vEE~LYpaMEDf~lDI~IG~gp~Arsv~ldLp---p  151 (332)
T COG2255          99 TNL-----------------------E-EGDVLFIDEIHRLSPAVEEVLYPAMEDFRLDIIIGKGPAARSIRLDLP---P  151 (332)
T ss_pred             hcC-----------------------C-cCCeEEEehhhhcChhHHHHhhhhhhheeEEEEEccCCccceEeccCC---C
Confidence            111                       1 12234456554321            0            011111111   1


Q ss_pred             CcEEEEecCchhhhhcccc--cceEeecCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCCchhHHHHHHHHhc
Q 048126          257 KSKIVFTTRFLEICGAMKA--HEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGLPLALITIGRAMT  334 (863)
Q Consensus       257 gs~IivTtR~~~v~~~~~~--~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPlai~~~~~~l~  334 (863)
                      -+-|=-|||.-.+..-...  .-+.+++..+.+|-.+...+.+..-....   -++-+.+|+++..|-|--+.-+-+..+
T Consensus       152 FTLIGATTr~G~lt~PLrdRFGi~~rlefY~~~eL~~Iv~r~a~~l~i~i---~~~~a~eIA~rSRGTPRIAnRLLrRVR  228 (332)
T COG2255         152 FTLIGATTRAGMLTNPLRDRFGIIQRLEFYTVEELEEIVKRSAKILGIEI---DEEAALEIARRSRGTPRIANRLLRRVR  228 (332)
T ss_pred             eeEeeeccccccccchhHHhcCCeeeeecCCHHHHHHHHHHHHHHhCCCC---ChHHHHHHHHhccCCcHHHHHHHHHHH
Confidence            2333468887655332222  23568999999999999998875433222   245689999999999976655554443

>TIGR00767 rho transcription termination factor Rho

Probab=98.01  E-value=1.4e-05  Score=85.05  Aligned_cols=92  Identities=21%  Similarity=0.217  Sum_probs=63.4

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCc--cCHHHHHHHHHHHhCCCCccccCCChh--HHHH-
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKD--LQLEKIQEKIGRRIGFLDESWKNGSLE--DKAS-  220 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~--~~~~~~~~~i~~~l~~~~~~~~~~~~~--~~~~-  220 (863)
                      .-..++|+|++|+|||||++.+++.. . .++|+..+||.+.+.  .++.++++.+...+-...  ++.....  ..+. 
T Consensus       167 ~Gq~~~IvG~~g~GKTtL~~~i~~~I-~-~nhfdv~v~VlLIgER~~EVtDLqrsIlg~Vvast--~d~p~~~~~~va~~  242 (415)
T TIGR00767       167 KGQRGLIVAPPKAGKTVLLQKIAQAI-T-RNHPEVELIVLLIDERPEEVTDMQRSVKGEVVAST--FDEPASRHVQVAEM  242 (415)
T ss_pred             CCCEEEEECCCCCChhHHHHHHHHhh-c-ccCCceEEEEEEcCCCCccHHHHHHHhhceEEEec--CCCChHHHHHHHHH
Confidence            44689999999999999999999998 3 348999999999866  789999999954332211  1111111  1111 


Q ss_pred             ---HHHH-HhccCcEEEEEeccCCc
Q 048126          221 ---DILR-ILSKKKFLLLLDDIWER  241 (863)
Q Consensus       221 ---~l~~-~l~~kr~LlVlDdv~~~  241 (863)
                         .... .-.+++++|++|++...
T Consensus       243 v~e~Ae~~~~~GkdVVLlIDEitR~  267 (415)
T TIGR00767       243 VIEKAKRLVEHKKDVVILLDSITRL  267 (415)
T ss_pred             HHHHHHHHHHcCCCeEEEEEChhHH
Confidence               1111 23579999999999753

Members of this family differ in the specificity of RNA binding.

>PRK14959 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.00  E-value=0.00011  Score=83.35  Aligned_cols=196  Identities=15%  Similarity=0.162  Sum_probs=110.7

Q ss_pred             CCccchhHHHHHHHHHhcCCC-ccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHHHHhC
Q 048126          126 EPTVGLESMFDKVWRCLGEEQ-VGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGRRIG  204 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~-~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~  204 (863)
                      .++||-+..++.|.+++..++ .+.+.++|+.|+||||+|+.+++... -....+       ...++.....+.|.....
T Consensus        16 ~dIiGQe~v~~~L~~ai~~~ri~ha~Lf~GPpG~GKTtiArilAk~L~-C~~~~~-------~~pCg~C~sC~~i~~g~h   87 (624)
T PRK14959         16 AEVAGQETVKAILSRAAQENRVAPAYLFSGTRGVGKTTIARIFAKALN-CETAPT-------GEPCNTCEQCRKVTQGMH   87 (624)
T ss_pred             HHhcCCHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHhcc-ccCCCC-------CCCCcccHHHHHHhcCCC
Confidence            457999988899999888765 46778899999999999999998762 111000       011111122222221110


Q ss_pred             CCCccc---cCCChhHHHHHHHHH-----hccCcEEEEEeccCCc--cccccccCCCCCCCCCcEEEEecCc-hhhhhc-
Q 048126          205 FLDESW---KNGSLEDKASDILRI-----LSKKKFLLLLDDIWER--VDLTKVGVPFPDPENKSKIVFTTRF-LEICGA-  272 (863)
Q Consensus       205 ~~~~~~---~~~~~~~~~~~l~~~-----l~~kr~LlVlDdv~~~--~~~~~~~~~l~~~~~gs~IivTtR~-~~v~~~-  272 (863)
                      ...-..   .....++ ++.+.+.     ..+++-++|+|+++..  .....+...+........+|++|.+ ..+... 
T Consensus        88 pDv~eId~a~~~~Id~-iR~L~~~~~~~p~~g~~kVIIIDEad~Lt~~a~naLLk~LEEP~~~~ifILaTt~~~kll~TI  166 (624)
T PRK14959         88 VDVVEIDGASNRGIDD-AKRLKEAIGYAPMEGRYKVFIIDEAHMLTREAFNALLKTLEEPPARVTFVLATTEPHKFPVTI  166 (624)
T ss_pred             CceEEEecccccCHHH-HHHHHHHHHhhhhcCCceEEEEEChHhCCHHHHHHHHHHhhccCCCEEEEEecCChhhhhHHH
Confidence            000000   0111111 1122222     2346679999999764  2334444444333334556655544 444322 


Q ss_pred             ccccceEeecCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCCch-hHHHHHHHHh
Q 048126          273 MKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGLP-LALITIGRAM  333 (863)
Q Consensus       273 ~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glP-lai~~~~~~l  333 (863)
                      ......+++++++.++....+.+.+......   --.+.+..|++.++|.+ .|+..+..++
T Consensus       167 ~SRcq~i~F~pLs~~eL~~~L~~il~~egi~---id~eal~lIA~~s~GdlR~Al~lLeqll  225 (624)
T PRK14959        167 VSRCQHFTFTRLSEAGLEAHLTKVLGREGVD---YDPAAVRLIARRAAGSVRDSMSLLGQVL  225 (624)
T ss_pred             HhhhhccccCCCCHHHHHHHHHHHHHHcCCC---CCHHHHHHHHHHcCCCHHHHHHHHHHHH
Confidence            1123468899999999999888866543211   12456788999999965 6777666544

>PRK14954 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.97  E-value=0.0002  Score=82.33  Aligned_cols=199  Identities=12%  Similarity=0.129  Sum_probs=109.5

Q ss_pred             CCccchhHHHHHHHHHhcCCCc-cEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEE-eCCccCHHHHHHHHHHHh
Q 048126          126 EPTVGLESMFDKVWRCLGEEQV-GIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVV-VSKDLQLEKIQEKIGRRI  203 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~-~s~~~~~~~~~~~i~~~l  203 (863)
                      .++||-+..++.+.+++..+++ +.+.++|+.|+||||+|+.+++... -...++.-.|-. +...++.....+.+...-
T Consensus        16 ~eivGQe~i~~~L~~~i~~~ri~ha~Lf~Gp~GvGKttlA~~lAk~L~-c~~~~~~~~~~~~~~~~Cg~C~sC~~~~~g~   94 (620)
T PRK14954         16 ADITAQEHITHTIQNSLRMDRVGHGYIFSGLRGVGKTTAARVFAKAVN-CQRMIDDPVYLQEVTEPCGECESCRDFDAGT   94 (620)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCCCeeEEEECCCCCCHHHHHHHHHHHhC-CCCcCCccccccccCCCCccCHHHHHHhccC
Confidence            4589999999999999887665 4588999999999999999988762 111111001111 011122222222222111


Q ss_pred             CCCCccc---cCCChhHHHHHHHHHh-----ccCcEEEEEeccCCcc--ccccccCCCCCCCCCcEEEEec-Cchhhhhc
Q 048126          204 GFLDESW---KNGSLEDKASDILRIL-----SKKKFLLLLDDIWERV--DLTKVGVPFPDPENKSKIVFTT-RFLEICGA  272 (863)
Q Consensus       204 ~~~~~~~---~~~~~~~~~~~l~~~l-----~~kr~LlVlDdv~~~~--~~~~~~~~l~~~~~gs~IivTt-R~~~v~~~  272 (863)
                      .......   .....++... +.+.+     .+.+-++|+|+++...  ....+...+......+.+|++| +...+...
T Consensus        95 ~~n~~~~d~~s~~~vd~Ir~-l~e~~~~~P~~~~~KVvIIdEad~Lt~~a~naLLK~LEePp~~tv~IL~t~~~~kLl~T  173 (620)
T PRK14954         95 SLNISEFDAASNNSVDDIRQ-LRENVRYGPQKGRYRVYIIDEVHMLSTAAFNAFLKTLEEPPPHAIFIFATTELHKIPAT  173 (620)
T ss_pred             CCCeEEecccccCCHHHHHH-HHHHHHhhhhcCCCEEEEEeChhhcCHHHHHHHHHHHhCCCCCeEEEEEeCChhhhhHH
Confidence            1100000   1111233222 22222     3455688999997643  2444444444433455555444 44444322


Q ss_pred             -ccccceEeecCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCCchh-HHHHH
Q 048126          273 -MKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGLPL-ALITI  329 (863)
Q Consensus       273 -~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPl-ai~~~  329 (863)
                       ......+++.+++.++....+.+.+......   --.+.+..|++.++|..- |+..+
T Consensus       174 I~SRc~~vef~~l~~~ei~~~L~~i~~~egi~---I~~eal~~La~~s~Gdlr~al~eL  229 (620)
T PRK14954        174 IASRCQRFNFKRIPLDEIQSQLQMICRAEGIQ---IDADALQLIARKAQGSMRDAQSIL  229 (620)
T ss_pred             HHhhceEEecCCCCHHHHHHHHHHHHHHcCCC---CCHHHHHHHHHHhCCCHHHHHHHH
Confidence             2234578999999999888888766432211   124568889999999654 44433

>PRK14952 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.95  E-value=0.00023  Score=81.11  Aligned_cols=196  Identities=13%  Similarity=0.111  Sum_probs=109.0

Q ss_pred             CCccchhHHHHHHHHHhcCCCcc-EEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHHHHhC
Q 048126          126 EPTVGLESMFDKVWRCLGEEQVG-IIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGRRIG  204 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~~~-vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~  204 (863)
                      .++||.+..++.|.+++..+++. .+.++|+.|+||||+|+.+++..... ...+       ...++.....+.|...-+
T Consensus        13 ~eivGq~~i~~~L~~~i~~~r~~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~-~~~~-------~~pCg~C~~C~~i~~~~~   84 (584)
T PRK14952         13 AEVVGQEHVTEPLSSALDAGRINHAYLFSGPRGCGKTSSARILARSLNCA-QGPT-------ATPCGVCESCVALAPNGP   84 (584)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhccc-cCCC-------CCcccccHHHHHhhcccC
Confidence            45799999999999999877654 57899999999999999999876210 1000       001111111222211000


Q ss_pred             CCC-----ccccCCChhHHHHHHHHH-----hccCcEEEEEeccCCc--cccccccCCCCCCCCCcEEEE-ecCchhhhh
Q 048126          205 FLD-----ESWKNGSLEDKASDILRI-----LSKKKFLLLLDDIWER--VDLTKVGVPFPDPENKSKIVF-TTRFLEICG  271 (863)
Q Consensus       205 ~~~-----~~~~~~~~~~~~~~l~~~-----l~~kr~LlVlDdv~~~--~~~~~~~~~l~~~~~gs~Iiv-TtR~~~v~~  271 (863)
                      ...     +.......++. ..+.+.     ..+++-++|+|+++..  .....+...+........+|+ ||....+..
T Consensus        85 ~~~dvieidaas~~gvd~i-Rel~~~~~~~P~~~~~KVvIIDEah~Lt~~A~NALLK~LEEpp~~~~fIL~tte~~kll~  163 (584)
T PRK14952         85 GSIDVVELDAASHGGVDDT-RELRDRAFYAPAQSRYRIFIVDEAHMVTTAGFNALLKIVEEPPEHLIFIFATTEPEKVLP  163 (584)
T ss_pred             CCceEEEeccccccCHHHH-HHHHHHHHhhhhcCCceEEEEECCCcCCHHHHHHHHHHHhcCCCCeEEEEEeCChHhhHH
Confidence            000     00001112221 122211     1245568899999753  334444444443334555554 554444432


Q ss_pred             c-ccccceEeecCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCCchh-HHHHHHHHh
Q 048126          272 A-MKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGLPL-ALITIGRAM  333 (863)
Q Consensus       272 ~-~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPl-ai~~~~~~l  333 (863)
                      . ......+++.+++.++..+.+.+.+......   --.+....|++.++|.+- |+..+-.++
T Consensus       164 TI~SRc~~~~F~~l~~~~i~~~L~~i~~~egi~---i~~~al~~Ia~~s~GdlR~aln~Ldql~  224 (584)
T PRK14952        164 TIRSRTHHYPFRLLPPRTMRALIARICEQEGVV---VDDAVYPLVIRAGGGSPRDTLSVLDQLL  224 (584)
T ss_pred             HHHHhceEEEeeCCCHHHHHHHHHHHHHHcCCC---CCHHHHHHHHHHcCCCHHHHHHHHHHHH
Confidence            2 2224578999999999998888766543311   124566888999999774 444444443

>COG3903 Predicted ATPase [General function prediction only]

Probab=97.94  E-value=9.9e-06  Score=84.97  Aligned_cols=268  Identities=17%  Similarity=0.189  Sum_probs=167.1

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCC-EEEEEEeCCccCHHHHHHHHHHHhCCCCccccCCChhHHHHHHHH
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFD-VVIWVVVSKDLQLEKIQEKIGRRIGFLDESWKNGSLEDKASDILR  224 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~-~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~  224 (863)
                      ..+.+.++|.|||||||++-.+.. .   ...|. .+.++....-.+...+.-.....++....     +-+.....+..
T Consensus        13 ~~RlvtL~g~ggvgkttl~~~~a~-~---~~~~~~~v~~vdl~pitD~~~v~~~~ag~~gl~~~-----~g~~~~~~~~~   83 (414)
T COG3903          13 ALRLVTLTGAGGVGKTTLALQAAH-A---ASEYADGVAFVDLAPITDPALVFPTLAGALGLHVQ-----PGDSAVDTLVR   83 (414)
T ss_pred             hhheeeeeccCccceehhhhhhHh-H---hhhcccceeeeeccccCchhHhHHHHHhhcccccc-----cchHHHHHHHH
Confidence            467899999999999999999998 4   34554 66777777777777777777777776542     22344556777


Q ss_pred             HhccCcEEEEEeccCCccc-cccccCCCCCCCCCcEEEEecCchhhhhcccccceEeecCCChH-HHHHHHHHHhcccc-
Q 048126          225 ILSKKKFLLLLDDIWERVD-LTKVGVPFPDPENKSKIVFTTRFLEICGAMKAHEFLKVECLGPE-DAWRLFRENLRRDV-  301 (863)
Q Consensus       225 ~l~~kr~LlVlDdv~~~~~-~~~~~~~l~~~~~gs~IivTtR~~~v~~~~~~~~~~~l~~L~~~-e~~~lf~~~~~~~~-  301 (863)
                      ...++|.++|+||-....+ -......+..+...-.|+.|+|....   ........+++|+.. ++.++|...+.... 
T Consensus        84 ~~~~rr~llvldncehl~~~~a~~i~all~~~~~~~~~atsre~~l---~~ge~~~~~~~L~~~d~a~~lf~~ra~~~~~  160 (414)
T COG3903          84 RIGDRRALLVLDNCEHLLDACAALIVALLGACPRLAILATSREAIL---VAGEVHRRVPSLSLFDEAIELFVCRAVLVAL  160 (414)
T ss_pred             HHhhhhHHHHhcCcHHHHHHHHHHHHHHHccchhhhhHHHhHhhhc---ccccccccCCccccCCchhHHHHHHHHHhcc
Confidence            7888999999999754321 11111112233345568888887532   234456778888875 78899887664321 


Q ss_pred             -cCCCCChHHHHHHHHHHhCCchhHHHHHHHHhcCCCChhHHHHHHHHHHhcC---CCCCC----CcchhhhhhhhhcCC
Q 048126          302 -LDNHPDIPELARSVAKEYAGLPLALITIGRAMTCKKTTQEWHHAIQILRRSS---SEFPG----MGKEVYPLLKFSYDS  373 (863)
Q Consensus       302 -~~~~~~~~~~~~~i~~~c~glPlai~~~~~~l~~~~~~~~w~~~l~~l~~~~---~~~~~----~~~~~~~~l~~sy~~  373 (863)
                       ..-...-...+.+|.++..|.|++|...++..+.- ...+   +.+.+++..   .....    -.....+.+.+||.-
T Consensus       161 ~f~l~~~~~a~v~~icr~ldg~~laielaaarv~sl-~~~~---i~~~L~drf~ll~~~~r~a~~~~qtl~asl~ws~~l  236 (414)
T COG3903         161 SFWLTDDNAAAVAEICRRLDGIPLAIELAAARVRSL-SPDE---IAAGLRDRFRLLTGGARLAVLRQQTLRASLDWSYAL  236 (414)
T ss_pred             ceeecCCchHHHHHHHHHhhcchHHHHHHHHHHHhc-CHHH---HHHHHhhHHHHHhcccccchhHHHhccchhhhhhHh
Confidence             11122335678999999999999999999888762 2222   122222211   11100    012467889999999


Q ss_pred             CCchhhHHHHhHhccCCCCccccHHhHHHHHHhcCCCCCcccchhhhhHHHHHHHHHHhcccccc
Q 048126          374 LPDDTIRSCFLYCGLFPEDYRIRKSELIDCWIGEGFLDQYDRSGAYNEGYYIIGILLHACLLEEE  438 (863)
Q Consensus       374 L~~~~~k~cfl~~~~fp~~~~i~~~~li~~w~a~g~i~~~~~~~~~~~~~~~~~~L~~~sll~~~  438 (863)
                      |.. -.+.-|--++.|...+...    ...|.+-|=....    ..-.....+..+++.++....
T Consensus       237 Ltg-we~~~~~rLa~~~g~f~~~----l~~~~a~g~~~~~----~~y~~~~a~~ll~~kslv~a~  292 (414)
T COG3903         237 LTG-WERALFGRLAVFVGGFDLG----LALAVAAGADVDV----PRYLVLLALTLLVDKSLVVAL  292 (414)
T ss_pred             hhh-HHHHHhcchhhhhhhhccc----HHHHHhcCCcccc----chHHHHHHHHHHhhccchhhh
Confidence            987 5677788888887665443    2234444322111    112223335667777776554

>PHA02544 44 clamp loader, small subunit; Provisional

Probab=97.94  E-value=0.00016  Score=77.69  Aligned_cols=145  Identities=10%  Similarity=0.120  Sum_probs=83.5

Q ss_pred             CCccchhHHHHHHHHHhcCCCc-cEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHHHHhC
Q 048126          126 EPTVGLESMFDKVWRCLGEEQV-GIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGRRIG  204 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~  204 (863)
                      ++++|.+...+.+..++..+.. +++.++|++|+||||+|+.+++..   ...   ...+..+. .....+...+.....
T Consensus        21 ~~~~~~~~~~~~l~~~~~~~~~~~~lll~G~~G~GKT~la~~l~~~~---~~~---~~~i~~~~-~~~~~i~~~l~~~~~   93 (316)
T PHA02544         21 DECILPAADKETFKSIVKKGRIPNMLLHSPSPGTGKTTVAKALCNEV---GAE---VLFVNGSD-CRIDFVRNRLTRFAS   93 (316)
T ss_pred             HHhcCcHHHHHHHHHHHhcCCCCeEEEeeCcCCCCHHHHHHHHHHHh---Ccc---ceEeccCc-ccHHHHHHHHHHHHH
Confidence            4579999999999999987654 566779999999999999999875   222   23444443 222222111111000


Q ss_pred             CCCccccCCChhHHHHHHHHHhccCcEEEEEeccCCcc--c-cccccCCCCCCCCCcEEEEecCchhh-hhc-ccccceE
Q 048126          205 FLDESWKNGSLEDKASDILRILSKKKFLLLLDDIWERV--D-LTKVGVPFPDPENKSKIVFTTRFLEI-CGA-MKAHEFL  279 (863)
Q Consensus       205 ~~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~--~-~~~~~~~l~~~~~gs~IivTtR~~~v-~~~-~~~~~~~  279 (863)
                      .                  ..+.+.+-++|+||++...  + ...+...+.....++++|+||..... ... ......+
T Consensus        94 ~------------------~~~~~~~~vliiDe~d~l~~~~~~~~L~~~le~~~~~~~~Ilt~n~~~~l~~~l~sR~~~i  155 (316)
T PHA02544         94 T------------------VSLTGGGKVIIIDEFDRLGLADAQRHLRSFMEAYSKNCSFIITANNKNGIIEPLRSRCRVI  155 (316)
T ss_pred             h------------------hcccCCCeEEEEECcccccCHHHHHHHHHHHHhcCCCceEEEEcCChhhchHHHHhhceEE
Confidence            0                  0011345578999997541  1 12222223333456788888865432 111 1112356


Q ss_pred             eecCCChHHHHHHHHH
Q 048126          280 KVECLGPEDAWRLFRE  295 (863)
Q Consensus       280 ~l~~L~~~e~~~lf~~  295 (863)
                      .++..+.++..+++..
T Consensus       156 ~~~~p~~~~~~~il~~  171 (316)
T PHA02544        156 DFGVPTKEEQIEMMKQ  171 (316)
T ss_pred             EeCCCCHHHHHHHHHH
Confidence            7777777777666554

>TIGR02881 spore_V_K stage V sporulation protein K

Probab=97.94  E-value=8.7e-05  Score=77.07  Aligned_cols=153  Identities=13%  Similarity=0.116  Sum_probs=80.0

Q ss_pred             CccchhHHHHHHHHHhc---------------CCCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccC
Q 048126          127 PTVGLESMFDKVWRCLG---------------EEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQ  191 (863)
Q Consensus       127 ~~vGr~~~~~~l~~~L~---------------~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~  191 (863)
                      .++|.+..+++|.+...               .+...-+.++|++|+||||+|+.+++..... ..-....++.++..  
T Consensus         7 ~~~Gl~~vk~~i~~~~~~~~~~~~~~~~g~~~~~~~~~vll~GppGtGKTtlA~~ia~~l~~~-~~~~~~~~v~~~~~--   83 (261)
T TIGR02881         7 RMVGLDEVKALIKEIYAWIQINEKRKEEGLKTSKQVLHMIFKGNPGTGKTTVARILGKLFKEM-NVLSKGHLIEVERA--   83 (261)
T ss_pred             HhcChHHHHHHHHHHHHHHHHHHHHHHcCCCCCCCcceEEEEcCCCCCHHHHHHHHHHHHHhc-CcccCCceEEecHH--
Confidence            46888877766654321               0234567899999999999999998875211 11111123333221  


Q ss_pred             HHHHHHHHHHHhCCCCccccCCChhHHHHHHHHHhccCcEEEEEeccCCcc----------ccccccCCCCCCCCCcEEE
Q 048126          192 LEKIQEKIGRRIGFLDESWKNGSLEDKASDILRILSKKKFLLLLDDIWERV----------DLTKVGVPFPDPENKSKIV  261 (863)
Q Consensus       192 ~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~----------~~~~~~~~l~~~~~gs~Ii  261 (863)
                        ++..    ..       ...........+.. .  ..-+|++|+++...          ..+.+...+........+|
T Consensus        84 --~l~~----~~-------~g~~~~~~~~~~~~-a--~~~VL~IDE~~~L~~~~~~~~~~~~i~~Ll~~~e~~~~~~~vi  147 (261)
T TIGR02881        84 --DLVG----EY-------IGHTAQKTREVIKK-A--LGGVLFIDEAYSLARGGEKDFGKEAIDTLVKGMEDNRNEFVLI  147 (261)
T ss_pred             --Hhhh----hh-------ccchHHHHHHHHHh-c--cCCEEEEechhhhccCCccchHHHHHHHHHHHHhccCCCEEEE
Confidence              1111    10       00111111112211 1  23488999997521          1222322232333334556


Q ss_pred             EecCchhh----------hhcccccceEeecCCChHHHHHHHHHHhccc
Q 048126          262 FTTRFLEI----------CGAMKAHEFLKVECLGPEDAWRLFRENLRRD  300 (863)
Q Consensus       262 vTtR~~~v----------~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~  300 (863)
                      +++...+.          ...+  ...+.+++++.++-.+++.+.+...
T Consensus       148 la~~~~~~~~~~~~~p~L~sRf--~~~i~f~~~~~~el~~Il~~~~~~~  194 (261)
T TIGR02881       148 LAGYSDEMDYFLSLNPGLRSRF--PISIDFPDYTVEELMEIAERMVKER  194 (261)
T ss_pred             ecCCcchhHHHHhcChHHHhcc--ceEEEECCCCHHHHHHHHHHHHHHc
Confidence            66544322          1111  2457899999999999998877543

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.

>KOG2227 consensus Pre-initiation complex, subunit CDC6, AAA+ superfamily ATPase [Replication, recombination and repair; Cell cycle control, cell division, chromosome partitioning]

Probab=97.94  E-value=0.00075  Score=71.89  Aligned_cols=192  Identities=16%  Similarity=0.136  Sum_probs=116.4

Q ss_pred             CCccchhHHHHHHHHHhcC----CCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHHH
Q 048126          126 EPTVGLESMFDKVWRCLGE----EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGR  201 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~----~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~  201 (863)
                      +..+||+.+++.+.+++..    ...+-+.|.|.+|.|||.+...++.+...-... -.++++.+..-.....++..|..
T Consensus       150 ~~l~gRe~e~~~v~~F~~~hle~~t~gSlYVsG~PGtgkt~~l~rvl~~~~~~~~~-~~~v~inc~sl~~~~aiF~kI~~  228 (529)
T KOG2227|consen  150 GTLKGRELEMDIVREFFSLHLELNTSGSLYVSGQPGTGKTALLSRVLDSLSKSSKS-PVTVYINCTSLTEASAIFKKIFS  228 (529)
T ss_pred             CCccchHHHHHHHHHHHHhhhhcccCcceEeeCCCCcchHHHHHHHHHhhhhhccc-ceeEEEeeccccchHHHHHHHHH
Confidence            5679999999999999864    456789999999999999999999987211111 24577777665566777777777


Q ss_pred             HhCCCCccccCCChhHHHHHHHHHhccC--cEEEEEeccCCccc--cccccCCCCC-CCCCcEEEEecCchhh------h
Q 048126          202 RIGFLDESWKNGSLEDKASDILRILSKK--KFLLLLDDIWERVD--LTKVGVPFPD-PENKSKIVFTTRFLEI------C  270 (863)
Q Consensus       202 ~l~~~~~~~~~~~~~~~~~~l~~~l~~k--r~LlVlDdv~~~~~--~~~~~~~l~~-~~~gs~IivTtR~~~v------~  270 (863)
                      .+-....  ......+....+.++..+.  -+++|+|..+....  -..+...|.+ .-+++|+|+.---..+      .
T Consensus       229 ~~~q~~~--s~~~~~~~~~~~~~h~~q~k~~~llVlDEmD~L~tr~~~vLy~lFewp~lp~sr~iLiGiANslDlTdR~L  306 (529)
T KOG2227|consen  229 SLLQDLV--SPGTGMQHLEKFEKHTKQSKFMLLLVLDEMDHLITRSQTVLYTLFEWPKLPNSRIILIGIANSLDLTDRFL  306 (529)
T ss_pred             HHHHHhc--CCchhHHHHHHHHHHHhcccceEEEEechhhHHhhcccceeeeehhcccCCcceeeeeeehhhhhHHHHHh
Confidence            6611110  1122255666677766654  58999999864211  1111111111 1245666543321111      1


Q ss_pred             hcc-----cccceEeecCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCCc
Q 048126          271 GAM-----KAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGL  322 (863)
Q Consensus       271 ~~~-----~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~gl  322 (863)
                      ...     -....+..+|.+.++-.++|..+.....  ..+.+....+-+++|+.|.
T Consensus       307 prL~~~~~~~P~~l~F~PYTk~qI~~Il~~rl~~~~--t~~~~~~Aie~~ArKvaa~  361 (529)
T KOG2227|consen  307 PRLNLDLTIKPKLLVFPPYTKDQIVEILQQRLSEES--TSIFLNAAIELCARKVAAP  361 (529)
T ss_pred             hhhhhccCCCCceeeecCCCHHHHHHHHHHHHhccc--ccccchHHHHHHHHHhccC
Confidence            111     1234678899999999999999876543  1223333444555555443

>TIGR02880 cbbX_cfxQ probable Rubsico expression protein CbbX

Probab=97.93  E-value=0.00015  Score=75.83  Aligned_cols=132  Identities=11%  Similarity=0.070  Sum_probs=71.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHHHHhCCCCccccCCChhHHHHHHHHHhcc
Q 048126          149 IIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGRRIGFLDESWKNGSLEDKASDILRILSK  228 (863)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~  228 (863)
                      -+.++|++|+|||++|+.++..... .......-|+.++.    .++    ...+..       .+.......+.+   .
T Consensus        60 ~vll~G~pGTGKT~lA~~ia~~l~~-~g~~~~~~~v~v~~----~~l----~~~~~g-------~~~~~~~~~~~~---a  120 (284)
T TIGR02880        60 HMSFTGNPGTGKTTVALRMAQILHR-LGYVRKGHLVSVTR----DDL----VGQYIG-------HTAPKTKEILKR---A  120 (284)
T ss_pred             eEEEEcCCCCCHHHHHHHHHHHHHH-cCCcccceEEEecH----HHH----hHhhcc-------cchHHHHHHHHH---c
Confidence            5789999999999999888776521 11111112444442    122    221111       111112222222   1


Q ss_pred             CcEEEEEeccCCc------cc-----cccccCCCCCCCCCcEEEEecCchhhhhcc--------cccceEeecCCChHHH
Q 048126          229 KKFLLLLDDIWER------VD-----LTKVGVPFPDPENKSKIVFTTRFLEICGAM--------KAHEFLKVECLGPEDA  289 (863)
Q Consensus       229 kr~LlVlDdv~~~------~~-----~~~~~~~l~~~~~gs~IivTtR~~~v~~~~--------~~~~~~~l~~L~~~e~  289 (863)
                      ..-+|++|++...      .+     ...+...+.....+.+||+++.........        .....+++++++.+|-
T Consensus       121 ~~gvL~iDEi~~L~~~~~~~~~~~~~~~~Ll~~le~~~~~~~vI~a~~~~~~~~~~~~np~L~sR~~~~i~fp~l~~edl  200 (284)
T TIGR02880       121 MGGVLFIDEAYYLYRPDNERDYGQEAIEILLQVMENQRDDLVVILAGYKDRMDSFFESNPGFSSRVAHHVDFPDYSEAEL  200 (284)
T ss_pred             cCcEEEEechhhhccCCCccchHHHHHHHHHHHHhcCCCCEEEEEeCCcHHHHHHHhhCHHHHhhCCcEEEeCCcCHHHH
Confidence            3468899999632      11     222333333344566777777543221111        1134689999999999


Q ss_pred             HHHHHHHhcc
Q 048126          290 WRLFRENLRR  299 (863)
Q Consensus       290 ~~lf~~~~~~  299 (863)
                      .+++...+..
T Consensus       201 ~~I~~~~l~~  210 (284)
T TIGR02880       201 LVIAGLMLKE  210 (284)
T ss_pred             HHHHHHHHHH
Confidence            9999887654

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.

>PF05621 TniB: Bacterial TniB protein; InterPro: IPR008868 This family consists of several bacterial TniB NTP-binding proteins

Probab=97.93  E-value=0.00029  Score=72.07  Aligned_cols=191  Identities=15%  Similarity=0.134  Sum_probs=111.2

Q ss_pred             HHHHHHHhcC---CCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCC---CCEEEEEEeCCccCHHHHHHHHHHHhCCCCc
Q 048126          135 FDKVWRCLGE---EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPND---FDVVIWVVVSKDLQLEKIQEKIGRRIGFLDE  208 (863)
Q Consensus       135 ~~~l~~~L~~---~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~---F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~  208 (863)
                      ++++.+++..   .+.+-+.|||..|.|||++++++...+....+.   --.++.|.....++...++..|+.+++.+..
T Consensus        46 L~~L~~Ll~~P~~~Rmp~lLivG~snnGKT~Ii~rF~~~hp~~~d~~~~~~PVv~vq~P~~p~~~~~Y~~IL~~lgaP~~  125 (302)
T PF05621_consen   46 LDRLEELLEYPKRHRMPNLLIVGDSNNGKTMIIERFRRLHPPQSDEDAERIPVVYVQMPPEPDERRFYSAILEALGAPYR  125 (302)
T ss_pred             HHHHHHHHhCCcccCCCceEEecCCCCcHHHHHHHHHHHCCCCCCCCCccccEEEEecCCCCChHHHHHHHHHHhCcccC
Confidence            4444444433   356678999999999999999999887221111   1157788888899999999999999998763


Q ss_pred             cccCCChhHHHHHHHHHhcc-CcEEEEEeccCCccc--------cccccCCCCCCCCCcEEEEecCchhhhhccc-----
Q 048126          209 SWKNGSLEDKASDILRILSK-KKFLLLLDDIWERVD--------LTKVGVPFPDPENKSKIVFTTRFLEICGAMK-----  274 (863)
Q Consensus       209 ~~~~~~~~~~~~~l~~~l~~-kr~LlVlDdv~~~~~--------~~~~~~~l~~~~~gs~IivTtR~~~v~~~~~-----  274 (863)
                        ...+.........+.++. +-=+||+|++.+.-.        .......+...-.=+-|.|-|+...-+-..+     
T Consensus       126 --~~~~~~~~~~~~~~llr~~~vrmLIIDE~H~lLaGs~~~qr~~Ln~LK~L~NeL~ipiV~vGt~~A~~al~~D~QLa~  203 (302)
T PF05621_consen  126 --PRDRVAKLEQQVLRLLRRLGVRMLIIDEFHNLLAGSYRKQREFLNALKFLGNELQIPIVGVGTREAYRALRTDPQLAS  203 (302)
T ss_pred             --CCCCHHHHHHHHHHHHHHcCCcEEEeechHHHhcccHHHHHHHHHHHHHHhhccCCCeEEeccHHHHHHhccCHHHHh
Confidence              233444444455555554 445899999986311        1111111111112244555555432211111     


Q ss_pred             ccceEeecCCChH-HHHHHHHHHhccc--ccCCCCChHHHHHHHHHHhCCchhHHH
Q 048126          275 AHEFLKVECLGPE-DAWRLFRENLRRD--VLDNHPDIPELARSVAKEYAGLPLALI  327 (863)
Q Consensus       275 ~~~~~~l~~L~~~-e~~~lf~~~~~~~--~~~~~~~~~~~~~~i~~~c~glPlai~  327 (863)
                      -..++.++....+ |...|+......-  ...++-...+++..|...++|+.=-+.
T Consensus       204 RF~~~~Lp~W~~d~ef~~LL~s~e~~LPLr~~S~l~~~~la~~i~~~s~G~iG~l~  259 (302)
T PF05621_consen  204 RFEPFELPRWELDEEFRRLLASFERALPLRKPSNLASPELARRIHERSEGLIGELS  259 (302)
T ss_pred             ccCCccCCCCCCCcHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHcCCchHHHH
Confidence            1235566665554 4444443322111  112233457889999999999864443

TniB is a probable ATP-binding protein [] which is involved in Tn5053 mercury resistance transposition [].

>PRK07764 DNA polymerase III subunits gamma and tau; Validated

Probab=97.93  E-value=0.00022  Score=84.68  Aligned_cols=190  Identities=12%  Similarity=0.122  Sum_probs=106.2

Q ss_pred             CCccchhHHHHHHHHHhcCCCc-cEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHHHH--
Q 048126          126 EPTVGLESMFDKVWRCLGEEQV-GIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGRR--  202 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~--  202 (863)
                      .++||.+..++.|.+++..+++ +.+.++|+.|+||||+|+.+++..... ....       ...++.....+.|...  
T Consensus        15 ~eiiGqe~v~~~L~~~i~~~ri~Ha~Lf~Gp~G~GKTt~A~~lAr~L~C~-~~~~-------~~pCg~C~sC~~~~~g~~   86 (824)
T PRK07764         15 AEVIGQEHVTEPLSTALDSGRINHAYLFSGPRGCGKTSSARILARSLNCV-EGPT-------STPCGECDSCVALAPGGP   86 (824)
T ss_pred             HHhcCcHHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHHHHHHHHhCcc-cCCC-------CCCCcccHHHHHHHcCCC
Confidence            4579999999999999987665 467899999999999999998887211 1110       0001111111111111  


Q ss_pred             --hCCC-CccccCCChhHHHHHHHHH-----hccCcEEEEEeccCCc--cccccccCCCCCCCCCcEEEEec-Cchhhhh
Q 048126          203 --IGFL-DESWKNGSLEDKASDILRI-----LSKKKFLLLLDDIWER--VDLTKVGVPFPDPENKSKIVFTT-RFLEICG  271 (863)
Q Consensus       203 --l~~~-~~~~~~~~~~~~~~~l~~~-----l~~kr~LlVlDdv~~~--~~~~~~~~~l~~~~~gs~IivTt-R~~~v~~  271 (863)
                        .... .+......+++.. .+.+.     ..+++-++|||+++..  .....+...+......+.+|++| ....+..
T Consensus        87 ~~~dv~eidaas~~~Vd~iR-~l~~~~~~~p~~~~~KV~IIDEad~lt~~a~NaLLK~LEEpP~~~~fIl~tt~~~kLl~  165 (824)
T PRK07764         87 GSLDVTEIDAASHGGVDDAR-ELRERAFFAPAESRYKIFIIDEAHMVTPQGFNALLKIVEEPPEHLKFIFATTEPDKVIG  165 (824)
T ss_pred             CCCcEEEecccccCCHHHHH-HHHHHHHhchhcCCceEEEEechhhcCHHHHHHHHHHHhCCCCCeEEEEEeCChhhhhH
Confidence              0000 0000011122221 12221     2345568899999864  23444444444333455566555 4444433


Q ss_pred             c-ccccceEeecCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCCchhHHH
Q 048126          272 A-MKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGLPLALI  327 (863)
Q Consensus       272 ~-~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPlai~  327 (863)
                      . ......|++..++.++..+++.+.+......   --.+....|++.++|.+..+.
T Consensus       166 TIrSRc~~v~F~~l~~~~l~~~L~~il~~EGv~---id~eal~lLa~~sgGdlR~Al  219 (824)
T PRK07764        166 TIRSRTHHYPFRLVPPEVMRGYLERICAQEGVP---VEPGVLPLVIRAGGGSVRDSL  219 (824)
T ss_pred             HHHhheeEEEeeCCCHHHHHHHHHHHHHHcCCC---CCHHHHHHHHHHcCCCHHHHH
Confidence            2 2234578999999999998888766443211   123456789999999874433

>PRK14087 dnaA chromosomal replication initiation protein; Provisional

Probab=97.91  E-value=8.9e-05  Score=82.65  Aligned_cols=168  Identities=13%  Similarity=0.128  Sum_probs=102.9

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHHHHhCCCCccccCCChhHHHHHHHHHh
Q 048126          147 VGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGRRIGFLDESWKNGSLEDKASDILRIL  226 (863)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l  226 (863)
                      ...+.|+|..|+|||+|++.+++.... ...-..+++++      ..++...+...++...         .....+.+.+
T Consensus       141 ~npl~i~G~~G~GKTHLl~Ai~~~l~~-~~~~~~v~yv~------~~~f~~~~~~~l~~~~---------~~~~~~~~~~  204 (450)
T PRK14087        141 YNPLFIYGESGMGKTHLLKAAKNYIES-NFSDLKVSYMS------GDEFARKAVDILQKTH---------KEIEQFKNEI  204 (450)
T ss_pred             cCceEEECCCCCcHHHHHHHHHHHHHH-hCCCCeEEEEE------HHHHHHHHHHHHHHhh---------hHHHHHHHHh
Confidence            356889999999999999999996521 11122445654      3456666666553210         1223344444


Q ss_pred             ccCcEEEEEeccCCcc---cc-ccccCCCCC-CCCCcEEEEecCch---------hhhhcccccceEeecCCChHHHHHH
Q 048126          227 SKKKFLLLLDDIWERV---DL-TKVGVPFPD-PENKSKIVFTTRFL---------EICGAMKAHEFLKVECLGPEDAWRL  292 (863)
Q Consensus       227 ~~kr~LlVlDdv~~~~---~~-~~~~~~l~~-~~~gs~IivTtR~~---------~v~~~~~~~~~~~l~~L~~~e~~~l  292 (863)
                      + +.-+||+||+....   .+ +.+...+.. ...|..||+|+...         .+...+...-++.+++++.++-.++
T Consensus       205 ~-~~dvLiIDDiq~l~~k~~~~e~lf~l~N~~~~~~k~iIltsd~~P~~l~~l~~rL~SR~~~Gl~~~L~~pd~e~r~~i  283 (450)
T PRK14087        205 C-QNDVLIIDDVQFLSYKEKTNEIFFTIFNNFIENDKQLFFSSDKSPELLNGFDNRLITRFNMGLSIAIQKLDNKTATAI  283 (450)
T ss_pred             c-cCCEEEEeccccccCCHHHHHHHHHHHHHHHHcCCcEEEECCCCHHHHhhccHHHHHHHhCCceeccCCcCHHHHHHH
Confidence            3 34488899997532   11 222222211 12345688887643         2233344455788999999999999


Q ss_pred             HHHHhcccccCCCCChHHHHHHHHHHhCCchhHHHHHHHH
Q 048126          293 FRENLRRDVLDNHPDIPELARSVAKEYAGLPLALITIGRA  332 (863)
Q Consensus       293 f~~~~~~~~~~~~~~~~~~~~~i~~~c~glPlai~~~~~~  332 (863)
                      +.+.+...... ..--+++..-|++.++|.|-.+..+...
T Consensus       284 L~~~~~~~gl~-~~l~~evl~~Ia~~~~gd~R~L~gaL~~  322 (450)
T PRK14087        284 IKKEIKNQNIK-QEVTEEAINFISNYYSDDVRKIKGSVSR  322 (450)
T ss_pred             HHHHHHhcCCC-CCCCHHHHHHHHHccCCCHHHHHHHHHH
Confidence            99987643211 1233678899999999999877665533

>PRK03992 proteasome-activating nucleotidase; Provisional

Probab=97.91  E-value=0.00014  Score=79.96  Aligned_cols=169  Identities=20%  Similarity=0.300  Sum_probs=96.1

Q ss_pred             CCccchhHHHHHHHHHhcC-------------CCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCH
Q 048126          126 EPTVGLESMFDKVWRCLGE-------------EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQL  192 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~-------------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~  192 (863)
                      +.+.|++..++++.+.+..             ...+-|.++|++|+|||++|+.+++..   ...     |+.++.    
T Consensus       131 ~di~Gl~~~~~~l~~~i~~pl~~~~~~~~~g~~~p~gvLL~GppGtGKT~lAkaia~~~---~~~-----~i~v~~----  198 (389)
T PRK03992        131 EDIGGLEEQIREVREAVELPLKKPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHET---NAT-----FIRVVG----  198 (389)
T ss_pred             HHhCCcHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCceEEECCCCCChHHHHHHHHHHh---CCC-----EEEeeh----
Confidence            3467999999999887631             235668899999999999999999987   222     222221    


Q ss_pred             HHHHHHHHHHhCCCCccccCCChhHHHHHHHHHh-ccCcEEEEEeccCCcc----------c------cccccCCCC--C
Q 048126          193 EKIQEKIGRRIGFLDESWKNGSLEDKASDILRIL-SKKKFLLLLDDIWERV----------D------LTKVGVPFP--D  253 (863)
Q Consensus       193 ~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l-~~kr~LlVlDdv~~~~----------~------~~~~~~~l~--~  253 (863)
                      ..+..    ..       .... ......+.+.. ...+.+|++||++...          +      +..+...+.  .
T Consensus       199 ~~l~~----~~-------~g~~-~~~i~~~f~~a~~~~p~IlfiDEiD~l~~~r~~~~~~~~~~~~~~l~~lL~~ld~~~  266 (389)
T PRK03992        199 SELVQ----KF-------IGEG-ARLVRELFELAREKAPSIIFIDEIDAIAAKRTDSGTSGDREVQRTLMQLLAEMDGFD  266 (389)
T ss_pred             HHHhH----hh-------ccch-HHHHHHHHHHHHhcCCeEEEEechhhhhcccccCCCCccHHHHHHHHHHHHhccccC
Confidence            11111    11       0011 11222222222 3467899999997521          0      111111111  1


Q ss_pred             CCCCcEEEEecCchhhhh-c-c---cccceEeecCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCCc
Q 048126          254 PENKSKIVFTTRFLEICG-A-M---KAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGL  322 (863)
Q Consensus       254 ~~~gs~IivTtR~~~v~~-~-~---~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~gl  322 (863)
                      ...+..||.||....... . .   .-+..+.++..+.++-.++|+..+.........+    ...+++.+.|.
T Consensus       267 ~~~~v~VI~aTn~~~~ld~allRpgRfd~~I~v~~P~~~~R~~Il~~~~~~~~~~~~~~----~~~la~~t~g~  336 (389)
T PRK03992        267 PRGNVKIIAATNRIDILDPAILRPGRFDRIIEVPLPDEEGRLEILKIHTRKMNLADDVD----LEELAELTEGA  336 (389)
T ss_pred             CCCCEEEEEecCChhhCCHHHcCCccCceEEEECCCCHHHHHHHHHHHhccCCCCCcCC----HHHHHHHcCCC
Confidence            123566777776543311 1 1   1245689999999999999998775443222223    35566666664

>PRK14950 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.90  E-value=0.00032  Score=81.28  Aligned_cols=194  Identities=12%  Similarity=0.128  Sum_probs=111.0

Q ss_pred             CCccchhHHHHHHHHHhcCCCc-cEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHHHHhC
Q 048126          126 EPTVGLESMFDKVWRCLGEEQV-GIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGRRIG  204 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~  204 (863)
                      .++||-+..++.|..++..+++ +.+.++|+.|+||||+|+.+++... -.....      ....++.....+.+.....
T Consensus        16 ~eiiGq~~~~~~L~~~i~~~~i~~a~Lf~Gp~G~GKTtlA~~lA~~l~-c~~~~~------~~~~c~~c~~c~~i~~~~~   88 (585)
T PRK14950         16 AELVGQEHVVQTLRNAIAEGRVAHAYLFTGPRGVGKTSTARILAKAVN-CTTNDP------KGRPCGTCEMCRAIAEGSA   88 (585)
T ss_pred             HHhcCCHHHHHHHHHHHHhCCCceEEEEECCCCCCHHHHHHHHHHHhc-CCCCCC------CCCCCccCHHHHHHhcCCC
Confidence            4589999999999998877654 4668999999999999999998761 100000      0112222333344433221


Q ss_pred             CCCccc---cCCChhHHHHHHHHHh-----ccCcEEEEEeccCCc--cccccccCCCCCCCCCcEEEEecCc-hhhhhc-
Q 048126          205 FLDESW---KNGSLEDKASDILRIL-----SKKKFLLLLDDIWER--VDLTKVGVPFPDPENKSKIVFTTRF-LEICGA-  272 (863)
Q Consensus       205 ~~~~~~---~~~~~~~~~~~l~~~l-----~~kr~LlVlDdv~~~--~~~~~~~~~l~~~~~gs~IivTtR~-~~v~~~-  272 (863)
                      ...-..   .....++ +..+.+.+     .+++-++|+|+++..  .....+...+......+.+|++|.+ ..+... 
T Consensus        89 ~d~~~i~~~~~~~vd~-ir~ii~~~~~~p~~~~~kVvIIDEa~~L~~~a~naLLk~LEepp~~tv~Il~t~~~~kll~tI  167 (585)
T PRK14950         89 VDVIEMDAASHTSVDD-AREIIERVQFRPALARYKVYIIDEVHMLSTAAFNALLKTLEEPPPHAIFILATTEVHKVPATI  167 (585)
T ss_pred             CeEEEEeccccCCHHH-HHHHHHHHhhCcccCCeEEEEEeChHhCCHHHHHHHHHHHhcCCCCeEEEEEeCChhhhhHHH
Confidence            110000   0111222 12222222     245668999999754  2344444334333345666665543 333221 


Q ss_pred             ccccceEeecCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCCchhHHHHHH
Q 048126          273 MKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGLPLALITIG  330 (863)
Q Consensus       273 ~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPlai~~~~  330 (863)
                      ......+.+..++.++....+...+......   --.+.+..|++.++|.+..+...-
T Consensus       168 ~SR~~~i~f~~l~~~el~~~L~~~a~~egl~---i~~eal~~La~~s~Gdlr~al~~L  222 (585)
T PRK14950        168 LSRCQRFDFHRHSVADMAAHLRKIAAAEGIN---LEPGALEAIARAATGSMRDAENLL  222 (585)
T ss_pred             HhccceeeCCCCCHHHHHHHHHHHHHHcCCC---CCHHHHHHHHHHcCCCHHHHHHHH
Confidence            1223467889999999998888776543311   124568899999999886555443

>KOG2982 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.89  E-value=3.6e-06  Score=83.37  Aligned_cols=75  Identities=21%  Similarity=0.264  Sum_probs=38.4

Q ss_pred             eEEccCCcccccc--chhhhcCCCccEEEccCCCcc--ccCCccccccCCCCeEEccCCCcc----ccchhhhcCCCCCE
Q 048126          520 SLFLSDNSLKMIA--GDFFQFMPSLRVFNMSNNHLL--WKLPSGISTLVSLEHLDLSGTAIT----HLPIELQKLVNLKC  591 (863)
Q Consensus       520 ~L~l~~~~l~~~~--~~~~~~l~~L~~L~L~~~~~~--~~lp~~i~~l~~L~~L~L~~~~l~----~lp~~~~~l~~L~~  591 (863)
                      .|.+.++.+....  ..+-..+.+++.|||.+|.+.  .++..-+.+|++|++|+|+.|.+.    .+|   -.+.+|++
T Consensus        49 llvln~~~id~~gd~~~~~~~~~~v~elDL~~N~iSdWseI~~ile~lP~l~~LNls~N~L~s~I~~lp---~p~~nl~~  125 (418)
T KOG2982|consen   49 LLVLNGSIIDNEGDVMLFGSSVTDVKELDLTGNLISDWSEIGAILEQLPALTTLNLSCNSLSSDIKSLP---LPLKNLRV  125 (418)
T ss_pred             hheecCCCCCcchhHHHHHHHhhhhhhhhcccchhccHHHHHHHHhcCccceEeeccCCcCCCccccCc---ccccceEE
Confidence            4445555444332  222345666777777777332  123333456666777777666543    233   23445566


Q ss_pred             EecCCc
Q 048126          592 LNLEYM  597 (863)
Q Consensus       592 L~l~~~  597 (863)
                      |-|.++
T Consensus       126 lVLNgT  131 (418)
T KOG2982|consen  126 LVLNGT  131 (418)
T ss_pred             EEEcCC
Confidence            555553

>KOG0531 consensus Protein phosphatase 1, regulatory subunit, and related proteins [Signal transduction mechanisms]

Probab=97.89  E-value=1.2e-06  Score=97.78  Aligned_cols=120  Identities=30%  Similarity=0.416  Sum_probs=61.3

Q ss_pred             EEeccccccc-cccCCCCCccceEEccCCccccccchhhhcCCCccEEEccCCCccccCCccccccCCCCeEEccCCCcc
Q 048126          499 MSLMKNKIEN-LSETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAIT  577 (863)
Q Consensus       499 L~l~~~~~~~-l~~~~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~~~l~  577 (863)
                      +++..|.+.. ......+.+|..|++.+|.+..+... +..+++|++|+|++| .++.+. .+..+..|+.|++++|.|.
T Consensus        77 l~l~~n~i~~~~~~l~~~~~l~~l~l~~n~i~~i~~~-l~~~~~L~~L~ls~N-~I~~i~-~l~~l~~L~~L~l~~N~i~  153 (414)
T KOG0531|consen   77 LNLRQNLIAKILNHLSKLKSLEALDLYDNKIEKIENL-LSSLVNLQVLDLSFN-KITKLE-GLSTLTLLKELNLSGNLIS  153 (414)
T ss_pred             hccchhhhhhhhcccccccceeeeeccccchhhcccc-hhhhhcchheecccc-cccccc-chhhccchhhheeccCcch
Confidence            3344444443 22245555666666666655555432 445666666666666 333332 3455555666666666665


Q ss_pred             ccchhhhcCCCCCEEecCCccccCCCcH-HHhhcCCCCcEEEeecccc
Q 048126          578 HLPIELQKLVNLKCLNLEYMYNLNQFPR-LVMSAFSKLQVLRILKSNV  624 (863)
Q Consensus       578 ~lp~~~~~l~~L~~L~l~~~~~l~~lp~-~~~~~L~~L~~L~l~~~~~  624 (863)
                      .++ .+..+++|+.+++++| .+..++. . ...+.+|+.+.+.++.+
T Consensus       154 ~~~-~~~~l~~L~~l~l~~n-~i~~ie~~~-~~~~~~l~~l~l~~n~i  198 (414)
T KOG0531|consen  154 DIS-GLESLKSLKLLDLSYN-RIVDIENDE-LSELISLEELDLGGNSI  198 (414)
T ss_pred             hcc-CCccchhhhcccCCcc-hhhhhhhhh-hhhccchHHHhccCCch
Confidence            554 3344566666666665 2333333 1 24555555555555443

>CHL00181 cbbX CbbX; Provisional

Probab=97.89  E-value=0.00025  Score=74.19  Aligned_cols=133  Identities=13%  Similarity=0.150  Sum_probs=71.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHHHHhCCCCccccCCChhHHHHHHHHHhcc
Q 048126          149 IIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGRRIGFLDESWKNGSLEDKASDILRILSK  228 (863)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~  228 (863)
                      .+.++|++|+||||+|+.+++.... ...-...-|+.++..    .+.....   +        .........+.+.   
T Consensus        61 ~ill~G~pGtGKT~lAr~la~~~~~-~g~~~~~~~~~v~~~----~l~~~~~---g--------~~~~~~~~~l~~a---  121 (287)
T CHL00181         61 HMSFTGSPGTGKTTVALKMADILYK-LGYIKKGHLLTVTRD----DLVGQYI---G--------HTAPKTKEVLKKA---  121 (287)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHHHH-cCCCCCCceEEecHH----HHHHHHh---c--------cchHHHHHHHHHc---
Confidence            4788999999999999999886511 111111124444421    2221111   1        0111111222221   


Q ss_pred             CcEEEEEeccCCc-----------cccccccCCCCCCCCCcEEEEecCchhhhhcc--------cccceEeecCCChHHH
Q 048126          229 KKFLLLLDDIWER-----------VDLTKVGVPFPDPENKSKIVFTTRFLEICGAM--------KAHEFLKVECLGPEDA  289 (863)
Q Consensus       229 kr~LlVlDdv~~~-----------~~~~~~~~~l~~~~~gs~IivTtR~~~v~~~~--------~~~~~~~l~~L~~~e~  289 (863)
                      ..-+|++|++...           .....+...+.....+.+||+++....+....        .....+.+++++.+|-
T Consensus       122 ~ggVLfIDE~~~l~~~~~~~~~~~e~~~~L~~~me~~~~~~~vI~ag~~~~~~~~~~~np~L~sR~~~~i~F~~~t~~el  201 (287)
T CHL00181        122 MGGVLFIDEAYYLYKPDNERDYGSEAIEILLQVMENQRDDLVVIFAGYKDRMDKFYESNPGLSSRIANHVDFPDYTPEEL  201 (287)
T ss_pred             cCCEEEEEccchhccCCCccchHHHHHHHHHHHHhcCCCCEEEEEeCCcHHHHHHHhcCHHHHHhCCceEEcCCcCHHHH
Confidence            2348999999642           11122223333344557777887654332111        1234688999999999


Q ss_pred             HHHHHHHhccc
Q 048126          290 WRLFRENLRRD  300 (863)
Q Consensus       290 ~~lf~~~~~~~  300 (863)
                      .+++...+...
T Consensus       202 ~~I~~~~l~~~  212 (287)
T CHL00181        202 LQIAKIMLEEQ  212 (287)
T ss_pred             HHHHHHHHHHh
Confidence            99988877543

>PRK08451 DNA polymerase III subunits gamma and tau; Validated

Probab=97.89  E-value=0.00044  Score=77.67  Aligned_cols=194  Identities=12%  Similarity=0.110  Sum_probs=107.2

Q ss_pred             CCccchhHHHHHHHHHhcCCCcc-EEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHHHHhC
Q 048126          126 EPTVGLESMFDKVWRCLGEEQVG-IIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGRRIG  204 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~~~-vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~  204 (863)
                      .++||-+..++.+...+..++.. ++.++|+.|+||||+|+.+++..-. ....+.       .++......+.+.....
T Consensus        14 deiiGqe~v~~~L~~~I~~grl~hayLf~Gp~G~GKTt~Ar~LAk~L~c-~~~~~~-------~pC~~C~~C~~~~~~~h   85 (535)
T PRK08451         14 DELIGQESVSKTLSLALDNNRLAHAYLFSGLRGSGKTSSARIFARALVC-EQGPSS-------TPCDTCIQCQSALENRH   85 (535)
T ss_pred             HHccCcHHHHHHHHHHHHcCCCCeeEEEECCCCCcHHHHHHHHHHHhcC-CCCCCC-------CCCcccHHHHHHhhcCC
Confidence            45799999999999999877655 5689999999999999998877511 000000       00011111111111000


Q ss_pred             CCC---ccccCCChhHHHHHHHH----HhccCcEEEEEeccCCcc--ccccccCCCCCCCCCcEEEEecCch-hhhh-cc
Q 048126          205 FLD---ESWKNGSLEDKASDILR----ILSKKKFLLLLDDIWERV--DLTKVGVPFPDPENKSKIVFTTRFL-EICG-AM  273 (863)
Q Consensus       205 ~~~---~~~~~~~~~~~~~~l~~----~l~~kr~LlVlDdv~~~~--~~~~~~~~l~~~~~gs~IivTtR~~-~v~~-~~  273 (863)
                      ...   +.......++....+..    -..+++-++|+|+++...  ....+...+......+++|++|.+. .+.. ..
T Consensus        86 ~dv~eldaas~~gId~IRelie~~~~~P~~~~~KVvIIDEad~Lt~~A~NALLK~LEEpp~~t~FIL~ttd~~kL~~tI~  165 (535)
T PRK08451         86 IDIIEMDAASNRGIDDIRELIEQTKYKPSMARFKIFIIDEVHMLTKEAFNALLKTLEEPPSYVKFILATTDPLKLPATIL  165 (535)
T ss_pred             CeEEEeccccccCHHHHHHHHHHHhhCcccCCeEEEEEECcccCCHHHHHHHHHHHhhcCCceEEEEEECChhhCchHHH
Confidence            000   00000112222222211    011355688999997642  2333433333334456666666553 2211 11


Q ss_pred             cccceEeecCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCCchhHHHHHH
Q 048126          274 KAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGLPLALITIG  330 (863)
Q Consensus       274 ~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPlai~~~~  330 (863)
                      .....+++.+++.++....+.+.+.....   .--.+.+..|++.++|.+.-+..+.
T Consensus       166 SRc~~~~F~~Ls~~ei~~~L~~Il~~EGi---~i~~~Al~~Ia~~s~GdlR~alnlL  219 (535)
T PRK08451        166 SRTQHFRFKQIPQNSIISHLKTILEKEGV---SYEPEALEILARSGNGSLRDTLTLL  219 (535)
T ss_pred             hhceeEEcCCCCHHHHHHHHHHHHHHcCC---CCCHHHHHHHHHHcCCcHHHHHHHH
Confidence            12357899999999999998877654331   1124677899999999886555543

>PRK15386 type III secretion protein GogB; Provisional

Probab=97.88  E-value=4.1e-05  Score=81.91  Aligned_cols=64  Identities=14%  Similarity=0.172  Sum_probs=41.6

Q ss_pred             hhcCCCccEEEccCCCccccCCccccccCCCCeEEccCC-CccccchhhhcCCCCCEEecCCccccCCCcH
Q 048126          536 FQFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGT-AITHLPIELQKLVNLKCLNLEYMYNLNQFPR  605 (863)
Q Consensus       536 ~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~~-~l~~lp~~~~~l~~L~~L~l~~~~~l~~lp~  605 (863)
                      +..+++++.|++++| .+..+|.   -..+|+.|.+++| .++.+|..+.  .+|++|++++|..+..+|.
T Consensus        48 ~~~~~~l~~L~Is~c-~L~sLP~---LP~sLtsL~Lsnc~nLtsLP~~LP--~nLe~L~Ls~Cs~L~sLP~  112 (426)
T PRK15386         48 IEEARASGRLYIKDC-DIESLPV---LPNELTEITIENCNNLTTLPGSIP--EGLEKLTVCHCPEISGLPE  112 (426)
T ss_pred             HHHhcCCCEEEeCCC-CCcccCC---CCCCCcEEEccCCCCcccCCchhh--hhhhheEccCccccccccc
Confidence            445677888888877 5666662   1235777777776 6667775542  5777777777755555553

>PRK14971 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.88  E-value=0.00034  Score=80.86  Aligned_cols=180  Identities=13%  Similarity=0.181  Sum_probs=108.4

Q ss_pred             CCccchhHHHHHHHHHhcCCCcc-EEEEEcCCCCcHHHHHHHHHhhhcC--------------------CCCCCCEEEEE
Q 048126          126 EPTVGLESMFDKVWRCLGEEQVG-IIGLYGMGGVGKTTLLTKINNKLLG--------------------APNDFDVVIWV  184 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~~~-vi~I~G~gGiGKTtLa~~v~~~~~~--------------------~~~~F~~~~wv  184 (863)
                      .++||-+..++.+.+++..+++. .+.++|+.|+||||+|+.++.....                    ...+|+. ..+
T Consensus        17 ~~viGq~~~~~~L~~~i~~~~l~hayLf~Gp~G~GKtt~A~~lAk~l~c~~~~~~~~~Cg~C~sC~~~~~~~~~n~-~~l   95 (614)
T PRK14971         17 ESVVGQEALTTTLKNAIATNKLAHAYLFCGPRGVGKTTCARIFAKTINCQNLTADGEACNECESCVAFNEQRSYNI-HEL   95 (614)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCCCeeEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCCCcchHHHHHhcCCCCce-EEe
Confidence            45799999999999999877654 5789999999999999998886510                    0113332 222


Q ss_pred             EeCCccCHHHHHHHHHHHhCCCCccccCCChhHHHHHHHHHhccCcEEEEEeccCCcc--ccccccCCCCCCCCCcEEEE
Q 048126          185 VVSKDLQLEKIQEKIGRRIGFLDESWKNGSLEDKASDILRILSKKKFLLLLDDIWERV--DLTKVGVPFPDPENKSKIVF  262 (863)
Q Consensus       185 ~~s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~--~~~~~~~~l~~~~~gs~Iiv  262 (863)
                      ..+....+.++. .++.++....                  ..+++=++|+|++....  .+..+...+.....++.+|+
T Consensus        96 d~~~~~~vd~Ir-~li~~~~~~P------------------~~~~~KVvIIdea~~Ls~~a~naLLK~LEepp~~tifIL  156 (614)
T PRK14971         96 DAASNNSVDDIR-NLIEQVRIPP------------------QIGKYKIYIIDEVHMLSQAAFNAFLKTLEEPPSYAIFIL  156 (614)
T ss_pred             cccccCCHHHHH-HHHHHHhhCc------------------ccCCcEEEEEECcccCCHHHHHHHHHHHhCCCCCeEEEE
Confidence            222222222221 2222221110                  12345588999987642  34455444444444566655


Q ss_pred             -ecCchhhhhc-ccccceEeecCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCCchhHHHH
Q 048126          263 -TTRFLEICGA-MKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGLPLALIT  328 (863)
Q Consensus       263 -TtR~~~v~~~-~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPlai~~  328 (863)
                       ||+...+... ......+++.+++.++....+.+.+......   --.+.+..|++.++|..--+..
T Consensus       157 ~tt~~~kIl~tI~SRc~iv~f~~ls~~ei~~~L~~ia~~egi~---i~~~al~~La~~s~gdlr~al~  221 (614)
T PRK14971        157 ATTEKHKILPTILSRCQIFDFNRIQVADIVNHLQYVASKEGIT---AEPEALNVIAQKADGGMRDALS  221 (614)
T ss_pred             EeCCchhchHHHHhhhheeecCCCCHHHHHHHHHHHHHHcCCC---CCHHHHHHHHHHcCCCHHHHHH
Confidence             4454444332 2234578999999999999988876543311   1235678899999997654433

>PF14516 AAA_35: AAA-like domain

Probab=97.86  E-value=0.0013  Score=70.56  Aligned_cols=199  Identities=15%  Similarity=0.143  Sum_probs=118.7

Q ss_pred             CCccchhHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCc-----cCHHHHH----
Q 048126          126 EPTVGLESMFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKD-----LQLEKIQ----  196 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~-----~~~~~~~----  196 (863)
                      +..|.|...-+++.+.+.++ -..+.|.|+-.+|||+|...+.+...  +..+ .++++++..-     .+....+    
T Consensus        11 ~~Yi~R~~~e~~~~~~i~~~-G~~~~I~apRq~GKTSll~~l~~~l~--~~~~-~~v~id~~~~~~~~~~~~~~f~~~~~   86 (331)
T PF14516_consen   11 PFYIERPPAEQECYQEIVQP-GSYIRIKAPRQMGKTSLLLRLLERLQ--QQGY-RCVYIDLQQLGSAIFSDLEQFLRWFC   86 (331)
T ss_pred             CcccCchHHHHHHHHHHhcC-CCEEEEECcccCCHHHHHHHHHHHHH--HCCC-EEEEEEeecCCCcccCCHHHHHHHHH
Confidence            34589997777788777653 35899999999999999999998882  2344 4557776542     2345444    


Q ss_pred             HHHHHHhCCCCc---ccc--CCChhHHHHHHHHHh-c--cCcEEEEEeccCCcccc----cccc----------CCCCCC
Q 048126          197 EKIGRRIGFLDE---SWK--NGSLEDKASDILRIL-S--KKKFLLLLDDIWERVDL----TKVG----------VPFPDP  254 (863)
Q Consensus       197 ~~i~~~l~~~~~---~~~--~~~~~~~~~~l~~~l-~--~kr~LlVlDdv~~~~~~----~~~~----------~~l~~~  254 (863)
                      ..+.++++....   .+.  ..........+.+.+ +  +++.+|++|+|+.....    ..+.          ...+.-
T Consensus        87 ~~i~~~L~l~~~l~~~w~~~~~~~~~~~~~~~~~ll~~~~~~lVL~iDEiD~l~~~~~~~~dF~~~LR~~~~~~~~~~~~  166 (331)
T PF14516_consen   87 EEISRQLKLDEKLDEYWDEEIGSKISCTEYFEEYLLKQIDKPLVLFIDEIDRLFEYPQIADDFFGLLRSWYEQRKNNPIW  166 (331)
T ss_pred             HHHHHHcCCChhHHHHHHHhcCChhhHHHHHHHHHHhcCCCCEEEEEechhhhccCcchHHHHHHHHHHHHHhcccCccc
Confidence            444555554421   011  112223333444432 2  58999999999753211    1111          100000


Q ss_pred             CCCcEEEEec-Cchhhhhc----ccccceEeecCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCCchhHHHHH
Q 048126          255 ENKSKIVFTT-RFLEICGA----MKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGLPLALITI  329 (863)
Q Consensus       255 ~~gs~IivTt-R~~~v~~~----~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPlai~~~  329 (863)
                      ..-+-|++.+ +.......    ......+.|++++.+|...|+.+.-..-.       ....++|...+||+|.-+..+
T Consensus       167 ~~L~li~~~~t~~~~~~~~~~SPFNIg~~i~L~~Ft~~ev~~L~~~~~~~~~-------~~~~~~l~~~tgGhP~Lv~~~  239 (331)
T PF14516_consen  167 QKLRLILAGSTEDYIILDINQSPFNIGQPIELPDFTPEEVQELAQRYGLEFS-------QEQLEQLMDWTGGHPYLVQKA  239 (331)
T ss_pred             ceEEEEEecCcccccccCCCCCCcccccceeCCCCCHHHHHHHHHhhhccCC-------HHHHHHHHHHHCCCHHHHHHH
Confidence            0111122222 11111111    12334789999999999999987632211       223899999999999999999


Q ss_pred             HHHhcC
Q 048126          330 GRAMTC  335 (863)
Q Consensus       330 ~~~l~~  335 (863)
                      +..+..
T Consensus       240 ~~~l~~  245 (331)
T PF14516_consen  240 CYLLVE  245 (331)
T ss_pred             HHHHHH
Confidence            999975

>PRK11331 5-methylcytosine-specific restriction enzyme subunit McrB; Provisional

Probab=97.86  E-value=0.00013  Score=79.22  Aligned_cols=108  Identities=18%  Similarity=0.152  Sum_probs=72.6

Q ss_pred             CCccchhHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHHHHhCC
Q 048126          126 EPTVGLESMFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGRRIGF  205 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~  205 (863)
                      .++++.+..++.+...|..  .+.|.++|++|+|||++|+.+++.. .....|+.+.||++++..+..++...+... +.
T Consensus       175 ~d~~i~e~~le~l~~~L~~--~~~iil~GppGtGKT~lA~~la~~l-~~~~~~~~v~~VtFHpsySYeDFI~G~rP~-~v  250 (459)
T PRK11331        175 NDLFIPETTIETILKRLTI--KKNIILQGPPGVGKTFVARRLAYLL-TGEKAPQRVNMVQFHQSYSYEDFIQGYRPN-GV  250 (459)
T ss_pred             hcccCCHHHHHHHHHHHhc--CCCEEEECCCCCCHHHHHHHHHHHh-cCCcccceeeEEeecccccHHHHhcccCCC-CC
Confidence            4568889999999998874  3577789999999999999999987 445578889999999988877665433110 00


Q ss_pred             CCccccCCChhHHHHHHHHHhc--cCcEEEEEeccCCc
Q 048126          206 LDESWKNGSLEDKASDILRILS--KKKFLLLLDDIWER  241 (863)
Q Consensus       206 ~~~~~~~~~~~~~~~~l~~~l~--~kr~LlVlDdv~~~  241 (863)
                      .   ....+ .-..+.+.....  +++++||+|++...
T Consensus       251 g---y~~~~-G~f~~~~~~A~~~p~~~~vliIDEINRa  284 (459)
T PRK11331        251 G---FRRKD-GIFYNFCQQAKEQPEKKYVFIIDEINRA  284 (459)
T ss_pred             C---eEecC-chHHHHHHHHHhcccCCcEEEEehhhcc
Confidence            0   00000 011122222222  46899999999754

>PRK07133 DNA polymerase III subunits gamma and tau; Validated

Probab=97.86  E-value=0.00036  Score=80.58  Aligned_cols=187  Identities=11%  Similarity=0.131  Sum_probs=104.8

Q ss_pred             CCccchhHHHHHHHHHhcCCCc-cEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHHHHhC
Q 048126          126 EPTVGLESMFDKVWRCLGEEQV-GIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGRRIG  204 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~  204 (863)
                      ..+||-+..++.+.+++..+++ +.+.++|+.|+||||+|+.++...-  ..+.. ..+       .........   .+
T Consensus        18 ~dIiGQe~~v~~L~~aI~~~rl~HAYLF~GP~GtGKTt~AriLAk~Ln--C~~~~-~~~-------~pC~~C~~~---~~   84 (725)
T PRK07133         18 DDIVGQDHIVQTLKNIIKSNKISHAYLFSGPRGTGKTSVAKIFANALN--CSHKT-DLL-------EPCQECIEN---VN   84 (725)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCcHHHHHHHHHHHhc--ccccC-CCC-------CchhHHHHh---hc
Confidence            4579999999999999987654 4667899999999999999988751  11100 000       000000000   00


Q ss_pred             CCCc-----cccCCChhHHHHHHHHHh-----ccCcEEEEEeccCCc--cccccccCCCCCCCCCcEEE-EecCchhhhh
Q 048126          205 FLDE-----SWKNGSLEDKASDILRIL-----SKKKFLLLLDDIWER--VDLTKVGVPFPDPENKSKIV-FTTRFLEICG  271 (863)
Q Consensus       205 ~~~~-----~~~~~~~~~~~~~l~~~l-----~~kr~LlVlDdv~~~--~~~~~~~~~l~~~~~gs~Ii-vTtR~~~v~~  271 (863)
                      ...+     .......++ ++.+.+.+     .+++-++|+|+++..  ..+..+...+........+| +|++...+..
T Consensus        85 ~~~Dvieidaasn~~vd~-IReLie~~~~~P~~g~~KV~IIDEa~~LT~~A~NALLKtLEEPP~~tifILaTte~~KLl~  163 (725)
T PRK07133         85 NSLDIIEMDAASNNGVDE-IRELIENVKNLPTQSKYKIYIIDEVHMLSKSAFNALLKTLEEPPKHVIFILATTEVHKIPL  163 (725)
T ss_pred             CCCcEEEEeccccCCHHH-HHHHHHHHHhchhcCCCEEEEEEChhhCCHHHHHHHHHHhhcCCCceEEEEEcCChhhhhH
Confidence            0000     000011121 22222222     246668999999753  23444443333333344444 5555544432


Q ss_pred             c-ccccceEeecCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCCchhHHHHH
Q 048126          272 A-MKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGLPLALITI  329 (863)
Q Consensus       272 ~-~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPlai~~~  329 (863)
                      . ......+.+.+++.++....+...+......   --.+.+..|++.++|.+.-+..+
T Consensus       164 TI~SRcq~ieF~~L~~eeI~~~L~~il~kegI~---id~eAl~~LA~lS~GslR~Alsl  219 (725)
T PRK07133        164 TILSRVQRFNFRRISEDEIVSRLEFILEKENIS---YEKNALKLIAKLSSGSLRDALSI  219 (725)
T ss_pred             HHHhhceeEEccCCCHHHHHHHHHHHHHHcCCC---CCHHHHHHHHHHcCCCHHHHHHH
Confidence            2 2223578999999999998888765433211   12355788999999977544443

>PRK06305 DNA polymerase III subunits gamma and tau; Validated

Probab=97.86  E-value=0.00045  Score=77.15  Aligned_cols=181  Identities=15%  Similarity=0.180  Sum_probs=104.0

Q ss_pred             CCccchhHHHHHHHHHhcCCCc-cEEEEEcCCCCcHHHHHHHHHhhhcCCC--------------------CCCCEEEEE
Q 048126          126 EPTVGLESMFDKVWRCLGEEQV-GIIGLYGMGGVGKTTLLTKINNKLLGAP--------------------NDFDVVIWV  184 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~~~~~--------------------~~F~~~~wv  184 (863)
                      .++||.+..++.+.+++..++. +.+.++|+.|+||||+|+.+++......                    .+++ .+++
T Consensus        17 ~diiGq~~~v~~L~~~i~~~~i~ha~Lf~Gp~G~GKtt~A~~lAk~l~c~~~~~~~~~c~~c~~C~~i~~~~~~d-~~~i   95 (451)
T PRK06305         17 SEILGQDAVVAVLKNALRFNRAAHAYLFSGIRGTGKTTLARIFAKALNCQNPTEDQEPCNQCASCKEISSGTSLD-VLEI   95 (451)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCCceEEEEEcCCCCCHHHHHHHHHHHhcCCCcccCCCCCcccHHHHHHhcCCCCc-eEEe
Confidence            4589999999999999987665 5678999999999999999988762100                    0111 1111


Q ss_pred             EeCCccCHHHHHHHHHHHhCCCCccccCCChhHHHHHHHHHhccCcEEEEEeccCCc--cccccccCCCCCCCCCcEEEE
Q 048126          185 VVSKDLQLEKIQEKIGRRIGFLDESWKNGSLEDKASDILRILSKKKFLLLLDDIWER--VDLTKVGVPFPDPENKSKIVF  262 (863)
Q Consensus       185 ~~s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~--~~~~~~~~~l~~~~~gs~Iiv  262 (863)
                      .......+.++ +++.+.+..                  ....+.+-++|+|+++..  .....+...+........+|+
T Consensus        96 ~g~~~~gid~i-r~i~~~l~~------------------~~~~~~~kvvIIdead~lt~~~~n~LLk~lEep~~~~~~Il  156 (451)
T PRK06305         96 DGASHRGIEDI-RQINETVLF------------------TPSKSRYKIYIIDEVHMLTKEAFNSLLKTLEEPPQHVKFFL  156 (451)
T ss_pred             eccccCCHHHH-HHHHHHHHh------------------hhhcCCCEEEEEecHHhhCHHHHHHHHHHhhcCCCCceEEE
Confidence            11011111111 111111100                  011256678899998653  223334333333334566666


Q ss_pred             ecC-chhhhhc-ccccceEeecCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCCchh-HHHHH
Q 048126          263 TTR-FLEICGA-MKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGLPL-ALITI  329 (863)
Q Consensus       263 TtR-~~~v~~~-~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPl-ai~~~  329 (863)
                      +|. ...+... ......+++.++++++....+.+.+......   --.+.+..|++.++|.+- |+..+
T Consensus       157 ~t~~~~kl~~tI~sRc~~v~f~~l~~~el~~~L~~~~~~eg~~---i~~~al~~L~~~s~gdlr~a~~~L  223 (451)
T PRK06305        157 ATTEIHKIPGTILSRCQKMHLKRIPEETIIDKLALIAKQEGIE---TSREALLPIARAAQGSLRDAESLY  223 (451)
T ss_pred             EeCChHhcchHHHHhceEEeCCCCCHHHHHHHHHHHHHHcCCC---CCHHHHHHHHHHcCCCHHHHHHHH
Confidence            553 3333221 1223468999999999988888766533211   224567889999999764 44333

>PRK14953 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.83  E-value=0.00057  Score=76.81  Aligned_cols=178  Identities=12%  Similarity=0.126  Sum_probs=104.1

Q ss_pred             CCccchhHHHHHHHHHhcCCCcc-EEEEEcCCCCcHHHHHHHHHhhhcCC--CC----------------CCCEEEEEEe
Q 048126          126 EPTVGLESMFDKVWRCLGEEQVG-IIGLYGMGGVGKTTLLTKINNKLLGA--PN----------------DFDVVIWVVV  186 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~~~-vi~I~G~gGiGKTtLa~~v~~~~~~~--~~----------------~F~~~~wv~~  186 (863)
                      ..++|-+..+..+.+++..+++. .+.++|+.|+||||+|+.++......  ..                .|...+++..
T Consensus        16 ~diiGq~~i~~~L~~~i~~~~i~hayLf~Gp~G~GKTtlAr~lAk~L~c~~~~~~~pc~~c~nc~~i~~g~~~d~~eida   95 (486)
T PRK14953         16 KEVIGQEIVVRILKNAVKLQRVSHAYIFAGPRGTGKTTIARILAKVLNCLNPQEGEPCGKCENCVEIDKGSFPDLIEIDA   95 (486)
T ss_pred             HHccChHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcCcCCCCCCCCCccHHHHHHhcCCCCcEEEEeC
Confidence            45799999999999999876554 56789999999999999998875110  00                0111112211


Q ss_pred             CCccCHHHHHHHHHHHhCCCCccccCCChhHHHHHHHHHh-----ccCcEEEEEeccCCc--cccccccCCCCCCCCCcE
Q 048126          187 SKDLQLEKIQEKIGRRIGFLDESWKNGSLEDKASDILRIL-----SKKKFLLLLDDIWER--VDLTKVGVPFPDPENKSK  259 (863)
Q Consensus       187 s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l-----~~kr~LlVlDdv~~~--~~~~~~~~~l~~~~~gs~  259 (863)
                      +..                       ...++ ++.+.+..     .+++-++|+|+++..  .....+...+........
T Consensus        96 as~-----------------------~gvd~-ir~I~~~~~~~P~~~~~KVvIIDEad~Lt~~a~naLLk~LEepp~~~v  151 (486)
T PRK14953         96 ASN-----------------------RGIDD-IRALRDAVSYTPIKGKYKVYIIDEAHMLTKEAFNALLKTLEEPPPRTI  151 (486)
T ss_pred             ccC-----------------------CCHHH-HHHHHHHHHhCcccCCeeEEEEEChhhcCHHHHHHHHHHHhcCCCCeE
Confidence            111                       11111 11222222     245669999999754  223344333333333455


Q ss_pred             EEEec-Cchhhhhc-ccccceEeecCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCCchhHHHHHH
Q 048126          260 IVFTT-RFLEICGA-MKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGLPLALITIG  330 (863)
Q Consensus       260 IivTt-R~~~v~~~-~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPlai~~~~  330 (863)
                      +|++| +...+... ......+.+.+++.++....+.+.+......   --.+.+..|++.++|.+..+....
T Consensus       152 ~Il~tt~~~kl~~tI~SRc~~i~f~~ls~~el~~~L~~i~k~egi~---id~~al~~La~~s~G~lr~al~~L  221 (486)
T PRK14953        152 FILCTTEYDKIPPTILSRCQRFIFSKPTKEQIKEYLKRICNEEKIE---YEEKALDLLAQASEGGMRDAASLL  221 (486)
T ss_pred             EEEEECCHHHHHHHHHHhceEEEcCCCCHHHHHHHHHHHHHHcCCC---CCHHHHHHHHHHcCCCHHHHHHHH
Confidence            55544 43333221 1223468899999999998888876543311   124567788899999776554444

>KOG0531 consensus Protein phosphatase 1, regulatory subunit, and related proteins [Signal transduction mechanisms]

Probab=97.82  E-value=3.1e-06  Score=94.46  Aligned_cols=213  Identities=23%  Similarity=0.247  Sum_probs=135.2

Q ss_pred             CCCccceEEccCCccccccchhhhcCCCccEEEccCCCccccCCccccccCCCCeEEccCCCccccchhhhcCCCCCEEe
Q 048126          514 TCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAITHLPIELQKLVNLKCLN  593 (863)
Q Consensus       514 ~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~~~l~~lp~~~~~l~~L~~L~  593 (863)
                      .+..+..+.+..|.+..+-.. ++.+++|.+|++.+| .+..+...+..+++|++|++++|.|+.+. .+..++.|+.|+
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~  146 (414)
T KOG0531|consen   70 SLTSLKELNLRQNLIAKILNH-LSKLKSLEALDLYDN-KIEKIENLLSSLVNLQVLDLSFNKITKLE-GLSTLTLLKELN  146 (414)
T ss_pred             HhHhHHhhccchhhhhhhhcc-cccccceeeeecccc-chhhcccchhhhhcchheecccccccccc-chhhccchhhhe
Confidence            456667777888877663332 678999999999999 55566555888999999999999999886 677888899999


Q ss_pred             cCCccccCCCcHHHhhcCCCCcEEEeeccccccCchhhHHHH--HcCCccCceEEEEEcChHHHHHHhhhhhhhhcceee
Q 048126          594 LEYMYNLNQFPRLVMSAFSKLQVLRILKSNVLFGGHQFLVEE--LMGMKHLMALTITLKSWEALQELLISQELQRCTQSL  671 (863)
Q Consensus       594 l~~~~~l~~lp~~~~~~L~~L~~L~l~~~~~~~~~~~~~~~~--l~~L~~L~~L~l~~~~~~~~~~l~~~~~~~~~L~~L  671 (863)
                      +.+| .+..++.  +..+.+|+.+++.++.+..      +..  +..+.+|+.+.+..+....+..+....    .+..+
T Consensus       147 l~~N-~i~~~~~--~~~l~~L~~l~l~~n~i~~------ie~~~~~~~~~l~~l~l~~n~i~~i~~~~~~~----~l~~~  213 (414)
T KOG0531|consen  147 LSGN-LISDISG--LESLKSLKLLDLSYNRIVD------IENDELSELISLEELDLGGNSIREIEGLDLLK----KLVLL  213 (414)
T ss_pred             eccC-cchhccC--CccchhhhcccCCcchhhh------hhhhhhhhccchHHHhccCCchhcccchHHHH----HHHHh
Confidence            9998 5677765  6668999999998887652      223  577778888888777665544332221    22222


Q ss_pred             eeccccCCCcccccchhhcCC--CceEEEcCCcccccceeccccccccccccccCcccEEEEeccCCCCCCchhhccCCC
Q 048126          672 FLRCFNDSKSLDIFCLACLHN--LNKLYVAGRKHLEDFQMTVQRSSVNQLARGFHSLHTVKVGFCFKLKDLTWLVFAPSL  749 (863)
Q Consensus       672 ~l~~~~~~~~~~~~~l~~~~~--L~~L~l~~~~~~~~l~~~~~~~~~~~~~~~l~~L~~L~L~~c~~l~~l~~l~~l~~L  749 (863)
                      .+...   ....+..+..+..  |+.+++.+++.... . ..        ...+.++..|++.+. ++..+..+...+.+
T Consensus       214 ~l~~n---~i~~~~~l~~~~~~~L~~l~l~~n~i~~~-~-~~--------~~~~~~l~~l~~~~n-~~~~~~~~~~~~~~  279 (414)
T KOG0531|consen  214 SLLDN---KISKLEGLNELVMLHLRELYLSGNRISRS-P-EG--------LENLKNLPVLDLSSN-RISNLEGLERLPKL  279 (414)
T ss_pred             hcccc---cceeccCcccchhHHHHHHhcccCccccc-c-cc--------ccccccccccchhhc-cccccccccccchH
Confidence            22221   1111112222233  78888887655431 0 11        123677777777764 44444433344444


Q ss_pred             cEEEEec
Q 048126          750 KSIVVLS  756 (863)
Q Consensus       750 ~~L~l~~  756 (863)
                      ..+....
T Consensus       280 ~~~~~~~  286 (414)
T KOG0531|consen  280 SELWLND  286 (414)
T ss_pred             HHhccCc
Confidence            4444433

>KOG2543 consensus Origin recognition complex, subunit 5 [Replication, recombination and repair]

Probab=97.80  E-value=0.00033  Score=72.52  Aligned_cols=163  Identities=20%  Similarity=0.244  Sum_probs=104.8

Q ss_pred             CCccchhHHHHHHHHHhcCCC---ccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHHHH
Q 048126          126 EPTVGLESMFDKVWRCLGEEQ---VGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGRR  202 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~---~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~  202 (863)
                      +.+.+|+..+..+..++.+..   ++.|.|+|..|.|||.+.+++.+..   ..   ..+|+++-+.++.+.++..|+.+
T Consensus         6 ~~v~~Re~qi~~L~~Llg~~~~~~PS~~~iyG~sgTGKT~~~r~~l~~~---n~---~~vw~n~~ecft~~~lle~IL~~   79 (438)
T KOG2543|consen    6 PNVPCRESQIRRLKSLLGNNSCTIPSIVHIYGHSGTGKTYLVRQLLRKL---NL---ENVWLNCVECFTYAILLEKILNK   79 (438)
T ss_pred             cCccchHHHHHHHHHHhCCCCcccceeEEEeccCCCchhHHHHHHHhhc---CC---cceeeehHHhccHHHHHHHHHHH
Confidence            456799999999999997643   3456899999999999999999886   22   25899999999999999999999


Q ss_pred             hCCCC-cccc-CCChh---HHHHHHHH--Hhc--cCcEEEEEeccCCccccccc--------cCCCCCCCCCcEEEEecC
Q 048126          203 IGFLD-ESWK-NGSLE---DKASDILR--ILS--KKKFLLLLDDIWERVDLTKV--------GVPFPDPENKSKIVFTTR  265 (863)
Q Consensus       203 l~~~~-~~~~-~~~~~---~~~~~l~~--~l~--~kr~LlVlDdv~~~~~~~~~--------~~~l~~~~~gs~IivTtR  265 (863)
                      .+..+ +... ..+.+   +....+.+  ...  ++.++||||+++...+.+.+        -..+  +.+...|+...-
T Consensus        80 ~~~~d~dg~~~~~~~en~~d~i~~l~q~~~~t~~d~~~~liLDnad~lrD~~a~ll~~l~~L~el~--~~~~i~iils~~  157 (438)
T KOG2543|consen   80 SQLADKDGDKVEGDAENFSDFIYLLVQWPAATNRDQKVFLILDNADALRDMDAILLQCLFRLYELL--NEPTIVIILSAP  157 (438)
T ss_pred             hccCCCchhhhhhHHHHHHHHHHHHHhhHHhhccCceEEEEEcCHHhhhccchHHHHHHHHHHHHh--CCCceEEEEecc
Confidence            86322 1111 11111   12222222  112  46899999999865443332        1111  123343433332


Q ss_pred             c-hhh-hhcccccc--eEeecCCChHHHHHHHHHH
Q 048126          266 F-LEI-CGAMKAHE--FLKVECLGPEDAWRLFREN  296 (863)
Q Consensus       266 ~-~~v-~~~~~~~~--~~~l~~L~~~e~~~lf~~~  296 (863)
                      . +.. ...++...  ++..+.-+.+|..+++.+.
T Consensus       158 ~~e~~y~~n~g~~~i~~l~fP~Ys~~e~~~Il~~~  192 (438)
T KOG2543|consen  158 SCEKQYLINTGTLEIVVLHFPQYSVEETQVILSRD  192 (438)
T ss_pred             ccHHHhhcccCCCCceEEecCCCCHHHHHHHHhcC
Confidence            2 222 22244433  4677899999999998754

>PRK14948 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.79  E-value=0.00076  Score=78.01  Aligned_cols=195  Identities=12%  Similarity=0.099  Sum_probs=109.5

Q ss_pred             CCccchhHHHHHHHHHhcCCCc-cEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHHHHhC
Q 048126          126 EPTVGLESMFDKVWRCLGEEQV-GIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGRRIG  204 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~  204 (863)
                      ..++|.+..++.|..++..++. +.+.++|+.|+||||+|+.+++..-  ....+..    ....++.....+.+.....
T Consensus        16 ~~liGq~~i~~~L~~~l~~~rl~~a~Lf~Gp~G~GKttlA~~lAk~L~--c~~~~~~----~~~~Cg~C~~C~~i~~g~h   89 (620)
T PRK14948         16 DELVGQEAIATTLKNALISNRIAPAYLFTGPRGTGKTSSARILAKSLN--CLNSDKP----TPEPCGKCELCRAIAAGNA   89 (620)
T ss_pred             hhccChHHHHHHHHHHHHcCCCCceEEEECCCCCChHHHHHHHHHHhc--CCCcCCC----CCCCCcccHHHHHHhcCCC
Confidence            4579999999999999987654 5778999999999999999998862  1111100    0112222333333333222


Q ss_pred             CCC---ccccCCChhHHHHHHHHHh-----ccCcEEEEEeccCCc--cccccccCCCCCCCCCcEEEEecCc-hhhhhcc
Q 048126          205 FLD---ESWKNGSLEDKASDILRIL-----SKKKFLLLLDDIWER--VDLTKVGVPFPDPENKSKIVFTTRF-LEICGAM  273 (863)
Q Consensus       205 ~~~---~~~~~~~~~~~~~~l~~~l-----~~kr~LlVlDdv~~~--~~~~~~~~~l~~~~~gs~IivTtR~-~~v~~~~  273 (863)
                      ...   ........++. +.+.+..     .+++-++|+|+++..  ..+..+...+........+|++|.+ ..+....
T Consensus        90 ~D~~ei~~~~~~~vd~I-Reii~~a~~~p~~~~~KViIIDEad~Lt~~a~naLLK~LEePp~~tvfIL~t~~~~~llpTI  168 (620)
T PRK14948         90 LDVIEIDAASNTGVDNI-RELIERAQFAPVQARWKVYVIDECHMLSTAAFNALLKTLEEPPPRVVFVLATTDPQRVLPTI  168 (620)
T ss_pred             ccEEEEeccccCCHHHH-HHHHHHHhhChhcCCceEEEEECccccCHHHHHHHHHHHhcCCcCeEEEEEeCChhhhhHHH
Confidence            110   00011112222 2222222     245568899999764  2344444444333344555544443 3332221


Q ss_pred             -cccceEeecCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCCchhHHHHHH
Q 048126          274 -KAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGLPLALITIG  330 (863)
Q Consensus       274 -~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPlai~~~~  330 (863)
                       .....+.+..++.++....+...+......   --.+.+..|++.++|.+..+..+-
T Consensus       169 rSRc~~~~f~~l~~~ei~~~L~~ia~kegi~---is~~al~~La~~s~G~lr~A~~lL  223 (620)
T PRK14948        169 ISRCQRFDFRRIPLEAMVQHLSEIAEKESIE---IEPEALTLVAQRSQGGLRDAESLL  223 (620)
T ss_pred             HhheeEEEecCCCHHHHHHHHHHHHHHhCCC---CCHHHHHHHHHHcCCCHHHHHHHH
Confidence             123467888999999888887766543211   113567889999999876554443

>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA

Probab=97.79  E-value=0.00016  Score=86.27  Aligned_cols=155  Identities=16%  Similarity=0.286  Sum_probs=88.6

Q ss_pred             CCccchhHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHhhhcCC--CCCC-CEEEEEEeCCccCHHHHHHHHHHH
Q 048126          126 EPTVGLESMFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGA--PNDF-DVVIWVVVSKDLQLEKIQEKIGRR  202 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~--~~~F-~~~~wv~~s~~~~~~~~~~~i~~~  202 (863)
                      +++|||+.+++++++.|......-+.++|++|+|||++|+.++++....  ...+ +..+|..     +...+.    ..
T Consensus       182 ~~~igr~~ei~~~~~~L~~~~~~n~lL~G~pG~GKT~l~~~la~~~~~~~~p~~l~~~~~~~~-----~~~~l~----a~  252 (731)
T TIGR02639       182 DPLIGREDELERTIQVLCRRKKNNPLLVGEPGVGKTAIAEGLALRIAEGKVPENLKNAKIYSL-----DMGSLL----AG  252 (731)
T ss_pred             CcccCcHHHHHHHHHHHhcCCCCceEEECCCCCCHHHHHHHHHHHHHhCCCchhhcCCeEEEe-----cHHHHh----hh
Confidence            4689999999999999977666667799999999999999999987211  1111 2333321     111111    10


Q ss_pred             hCCCCccccCCChhHHHHHHHHHh-ccCcEEEEEeccCCcc----------ccccccCCCCCCCCC-cEEEEecCchhhh
Q 048126          203 IGFLDESWKNGSLEDKASDILRIL-SKKKFLLLLDDIWERV----------DLTKVGVPFPDPENK-SKIVFTTRFLEIC  270 (863)
Q Consensus       203 l~~~~~~~~~~~~~~~~~~l~~~l-~~kr~LlVlDdv~~~~----------~~~~~~~~l~~~~~g-s~IivTtR~~~v~  270 (863)
                      ..      .....++....+.+.+ +.++.+|++|+++...          +...+..+  .-..| -++|-+|...+..
T Consensus       253 ~~------~~g~~e~~l~~i~~~~~~~~~~ILfiDEih~l~~~g~~~~~~~~~~~~L~~--~l~~g~i~~IgaTt~~e~~  324 (731)
T TIGR02639       253 TK------YRGDFEERLKAVVSEIEKEPNAILFIDEIHTIVGAGATSGGSMDASNLLKP--ALSSGKLRCIGSTTYEEYK  324 (731)
T ss_pred             cc------ccchHHHHHHHHHHHHhccCCeEEEEecHHHHhccCCCCCccHHHHHHHHH--HHhCCCeEEEEecCHHHHH
Confidence            00      0112233333333333 3468899999997431          11112111  11223 3455444432211


Q ss_pred             -------hcccccceEeecCCChHHHHHHHHHHh
Q 048126          271 -------GAMKAHEFLKVECLGPEDAWRLFRENL  297 (863)
Q Consensus       271 -------~~~~~~~~~~l~~L~~~e~~~lf~~~~  297 (863)
                             ....-...+.++.++.++..++++...
T Consensus       325 ~~~~~d~al~rRf~~i~v~~p~~~~~~~il~~~~  358 (731)
T TIGR02639       325 NHFEKDRALSRRFQKIDVGEPSIEETVKILKGLK  358 (731)
T ss_pred             HHhhhhHHHHHhCceEEeCCCCHHHHHHHHHHHH
Confidence                   111123468999999999999998654

>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=97.78  E-value=2.9e-05  Score=55.21  Aligned_cols=39  Identities=46%  Similarity=0.626  Sum_probs=21.6

Q ss_pred             CCCeEEccCCCccccchhhhcCCCCCEEecCCccccCCCc
Q 048126          565 SLEHLDLSGTAITHLPIELQKLVNLKCLNLEYMYNLNQFP  604 (863)
Q Consensus       565 ~L~~L~L~~~~l~~lp~~~~~l~~L~~L~l~~~~~l~~lp  604 (863)
                      +|++|++++|+|+.+|..+++|++|++|++++| .++.+|
T Consensus         2 ~L~~L~l~~N~i~~l~~~l~~l~~L~~L~l~~N-~i~~i~   40 (44)
T PF12799_consen    2 NLEELDLSNNQITDLPPELSNLPNLETLNLSNN-PISDIS   40 (44)
T ss_dssp             T-SEEEETSSS-SSHGGHGTTCTTSSEEEETSS-CCSBEG
T ss_pred             cceEEEccCCCCcccCchHhCCCCCCEEEecCC-CCCCCc
Confidence            456666666666666655666666666666665 344443

...

>KOG0989 consensus Replication factor C, subunit RFC4 [Replication, recombination and repair]

Probab=97.78  E-value=0.00016  Score=72.75  Aligned_cols=181  Identities=15%  Similarity=0.158  Sum_probs=109.8

Q ss_pred             CCccchhHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEE-EEeCCccCHHHHHHHHHHHhC
Q 048126          126 EPTVGLESMFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIW-VVVSKDLQLEKIQEKIGRRIG  204 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~w-v~~s~~~~~~~~~~~i~~~l~  204 (863)
                      .+++|-+..+..+.+.+..........+|++|.|||+-|..++... --.+-|.+++. .++|..-.+.-+-..+     
T Consensus        36 de~~gQe~vV~~L~~a~~~~~lp~~LFyGPpGTGKTStalafar~L-~~~~~~~~rvl~lnaSderGisvvr~Ki-----  109 (346)
T KOG0989|consen   36 DELAGQEHVVQVLKNALLRRILPHYLFYGPPGTGKTSTALAFARAL-NCEQLFPCRVLELNASDERGISVVREKI-----  109 (346)
T ss_pred             HhhcchHHHHHHHHHHHhhcCCceEEeeCCCCCcHhHHHHHHHHHh-cCccccccchhhhcccccccccchhhhh-----
Confidence            4578999999999999988778899999999999999999998876 22345655442 3344433222110000     


Q ss_pred             CCCccccCCChhHHHHHHHHHh--ccCc-EEEEEeccCCc--cccccccCCCCCCCCCcEEEEecCc-hhhhhc-ccccc
Q 048126          205 FLDESWKNGSLEDKASDILRIL--SKKK-FLLLLDDIWER--VDLTKVGVPFPDPENKSKIVFTTRF-LEICGA-MKAHE  277 (863)
Q Consensus       205 ~~~~~~~~~~~~~~~~~l~~~l--~~kr-~LlVlDdv~~~--~~~~~~~~~l~~~~~gs~IivTtR~-~~v~~~-~~~~~  277 (863)
                              .+...+........  .-++ -.+|||+++..  +.|..+...+......++.|+.+.. ..+... ..-..
T Consensus       110 --------k~fakl~~~~~~~~~~~~~~fKiiIlDEcdsmtsdaq~aLrr~mE~~s~~trFiLIcnylsrii~pi~SRC~  181 (346)
T KOG0989|consen  110 --------KNFAKLTVLLKRSDGYPCPPFKIIILDECDSMTSDAQAALRRTMEDFSRTTRFILICNYLSRIIRPLVSRCQ  181 (346)
T ss_pred             --------cCHHHHhhccccccCCCCCcceEEEEechhhhhHHHHHHHHHHHhccccceEEEEEcCChhhCChHHHhhHH
Confidence                    00000000000000  0123 37888999864  5687776655554555665544443 222111 11123


Q ss_pred             eEeecCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCCch
Q 048126          278 FLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGLP  323 (863)
Q Consensus       278 ~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glP  323 (863)
                      .|..++|.+++...-++..+.......+   .+..+.|++.++|--
T Consensus       182 KfrFk~L~d~~iv~rL~~Ia~~E~v~~d---~~al~~I~~~S~GdL  224 (346)
T KOG0989|consen  182 KFRFKKLKDEDIVDRLEKIASKEGVDID---DDALKLIAKISDGDL  224 (346)
T ss_pred             HhcCCCcchHHHHHHHHHHHHHhCCCCC---HHHHHHHHHHcCCcH
Confidence            5889999999999988888765543222   456788999998853

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=97.76  E-value=0.00033  Score=84.23  Aligned_cols=178  Identities=16%  Similarity=0.191  Sum_probs=97.0

Q ss_pred             CCccchhHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHhhhcCC--CC-CCCEEEE-EEeCCccCHHHHHHHHHH
Q 048126          126 EPTVGLESMFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGA--PN-DFDVVIW-VVVSKDLQLEKIQEKIGR  201 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~--~~-~F~~~~w-v~~s~~~~~~~~~~~i~~  201 (863)
                      +++|||+.++.++++.|......-+.++|.+|+||||+|+.++++....  .. -.+..+| +.++.      +    . 
T Consensus       187 d~~iGr~~ei~~~i~~l~r~~~~n~lLvG~pGvGKTal~~~La~~i~~~~v~~~l~~~~i~~l~l~~------l----~-  255 (852)
T TIGR03345       187 DPVLGRDDEIRQMIDILLRRRQNNPILTGEAGVGKTAVVEGLALRIAAGDVPPALRNVRLLSLDLGL------L----Q-  255 (852)
T ss_pred             CcccCCHHHHHHHHHHHhcCCcCceeEECCCCCCHHHHHHHHHHHHhhCCCCccccCCeEEEeehhh------h----h-
Confidence            5689999999999999887666667799999999999999999986210  00 1122232 22211      0    0 


Q ss_pred             HhCCCCccccCCChhHHHHHHHHHhc--cCcEEEEEeccCCcc---------ccccccCCCCCCCCC-cEEEEecCchhh
Q 048126          202 RIGFLDESWKNGSLEDKASDILRILS--KKKFLLLLDDIWERV---------DLTKVGVPFPDPENK-SKIVFTTRFLEI  269 (863)
Q Consensus       202 ~l~~~~~~~~~~~~~~~~~~l~~~l~--~kr~LlVlDdv~~~~---------~~~~~~~~l~~~~~g-s~IivTtR~~~v  269 (863)
                         ... . .....+.....+.+.++  +++.+|++|+++...         +...+..+  .-..| -++|-||...+.
T Consensus       256 ---ag~-~-~~ge~e~~lk~ii~e~~~~~~~~ILfIDEih~l~~~g~~~~~~d~~n~Lkp--~l~~G~l~~IgaTT~~e~  328 (852)
T TIGR03345       256 ---AGA-S-VKGEFENRLKSVIDEVKASPQPIILFIDEAHTLIGAGGQAGQGDAANLLKP--ALARGELRTIAATTWAEY  328 (852)
T ss_pred             ---ccc-c-cchHHHHHHHHHHHHHHhcCCCeEEEEeChHHhccCCCccccccHHHHhhH--HhhCCCeEEEEecCHHHH
Confidence               000 0 01111222222222222  468999999987532         11112222  22233 556666654332


Q ss_pred             hh-------cccccceEeecCCChHHHHHHHHHHhcccccCCC-CChHHHHHHHHHHhCC
Q 048126          270 CG-------AMKAHEFLKVECLGPEDAWRLFRENLRRDVLDNH-PDIPELARSVAKEYAG  321 (863)
Q Consensus       270 ~~-------~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~-~~~~~~~~~i~~~c~g  321 (863)
                      ..       ...-...+.+++++.+++.+++......-..... .--.+....+++.+.+
T Consensus       329 ~~~~~~d~AL~rRf~~i~v~eps~~~~~~iL~~~~~~~e~~~~v~i~d~al~~~~~ls~r  388 (852)
T TIGR03345       329 KKYFEKDPALTRRFQVVKVEEPDEETAIRMLRGLAPVLEKHHGVLILDEAVVAAVELSHR  388 (852)
T ss_pred             hhhhhccHHHHHhCeEEEeCCCCHHHHHHHHHHHHHhhhhcCCCeeCHHHHHHHHHHccc
Confidence            11       1112347899999999999997644322110011 1123445666666654

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.

>PRK14088 dnaA chromosomal replication initiation protein; Provisional

Probab=97.73  E-value=0.00031  Score=78.32  Aligned_cols=157  Identities=22%  Similarity=0.212  Sum_probs=94.1

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCC-EEEEEEeCCccCHHHHHHHHHHHhCCCCccccCCChhHHHHHHHHH
Q 048126          147 VGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFD-VVIWVVVSKDLQLEKIQEKIGRRIGFLDESWKNGSLEDKASDILRI  225 (863)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~-~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~  225 (863)
                      ..-+.|+|..|+|||+||+.+++...  +.+.+ .++|++.      .++...+...+...       ..    ..+.+.
T Consensus       130 ~n~l~lyG~~G~GKTHLl~ai~~~l~--~~~~~~~v~yi~~------~~f~~~~~~~~~~~-------~~----~~f~~~  190 (440)
T PRK14088        130 YNPLFIYGGVGLGKTHLLQSIGNYVV--QNEPDLRVMYITS------EKFLNDLVDSMKEG-------KL----NEFREK  190 (440)
T ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHH--HhCCCCeEEEEEH------HHHHHHHHHHHhcc-------cH----HHHHHH
Confidence            45699999999999999999999872  22223 4667753      34555555554321       11    123333


Q ss_pred             hccCcEEEEEeccCCccc---c-ccccCCCCC-CCCCcEEEEecC-chhh--------hhcccccceEeecCCChHHHHH
Q 048126          226 LSKKKFLLLLDDIWERVD---L-TKVGVPFPD-PENKSKIVFTTR-FLEI--------CGAMKAHEFLKVECLGPEDAWR  291 (863)
Q Consensus       226 l~~kr~LlVlDdv~~~~~---~-~~~~~~l~~-~~~gs~IivTtR-~~~v--------~~~~~~~~~~~l~~L~~~e~~~  291 (863)
                      ...+.-+|++||++....   + ..+...+.. ...|..||+||. ...-        ...+.....+.+++.+.+.-.+
T Consensus       191 ~~~~~dvLlIDDi~~l~~~~~~q~elf~~~n~l~~~~k~iIitsd~~p~~l~~l~~rL~SR~~~gl~v~i~~pd~e~r~~  270 (440)
T PRK14088        191 YRKKVDVLLIDDVQFLIGKTGVQTELFHTFNELHDSGKQIVICSDREPQKLSEFQDRLVSRFQMGLVAKLEPPDEETRKK  270 (440)
T ss_pred             HHhcCCEEEEechhhhcCcHHHHHHHHHHHHHHHHcCCeEEEECCCCHHHHHHHHHHHhhHHhcCceEeeCCCCHHHHHH
Confidence            334456899999974311   1 122111110 123456888885 3221        2223344578899999999999


Q ss_pred             HHHHHhcccccCCCCChHHHHHHHHHHhCCchhH
Q 048126          292 LFRENLRRDVLDNHPDIPELARSVAKEYAGLPLA  325 (863)
Q Consensus       292 lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPla  325 (863)
                      ++++.+......   --+++..-|++.+.|.--.
T Consensus       271 IL~~~~~~~~~~---l~~ev~~~Ia~~~~~~~R~  301 (440)
T PRK14088        271 IARKMLEIEHGE---LPEEVLNFVAENVDDNLRR  301 (440)
T ss_pred             HHHHHHHhcCCC---CCHHHHHHHHhccccCHHH
Confidence            999887643211   1256788888888775433

>KOG1859 consensus Leucine-rich repeat proteins [General function prediction only]

Probab=97.73  E-value=1.2e-06  Score=96.53  Aligned_cols=129  Identities=26%  Similarity=0.340  Sum_probs=93.4

Q ss_pred             ccccceEEEEecccccccccc-CCCCCccceEEccCCccccccchhhhcCCCccEEEccCCCccccCCccccccCCCCeE
Q 048126          491 QNWRNVRRMSLMKNKIENLSE-TPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHL  569 (863)
Q Consensus       491 ~~~~~lr~L~l~~~~~~~l~~-~~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L  569 (863)
                      ..|.++...++++|.+..+.. +.-++.|+.|+|++|+++...  ++..|++|++|||++| .+..+|.--..=.+|+.|
T Consensus       161 ~~Wn~L~~a~fsyN~L~~mD~SLqll~ale~LnLshNk~~~v~--~Lr~l~~LkhLDlsyN-~L~~vp~l~~~gc~L~~L  237 (1096)
T KOG1859|consen  161 PVWNKLATASFSYNRLVLMDESLQLLPALESLNLSHNKFTKVD--NLRRLPKLKHLDLSYN-CLRHVPQLSMVGCKLQLL  237 (1096)
T ss_pred             hhhhhHhhhhcchhhHHhHHHHHHHHHHhhhhccchhhhhhhH--HHHhcccccccccccc-hhccccccchhhhhheee
Confidence            345677778888887766533 356788999999999887765  5888999999999999 555666422222348999


Q ss_pred             EccCCCccccchhhhcCCCCCEEecCCccccCCCcH-HHhhcCCCCcEEEeecccc
Q 048126          570 DLSGTAITHLPIELQKLVNLKCLNLEYMYNLNQFPR-LVMSAFSKLQVLRILKSNV  624 (863)
Q Consensus       570 ~L~~~~l~~lp~~~~~l~~L~~L~l~~~~~l~~lp~-~~~~~L~~L~~L~l~~~~~  624 (863)
                      ++++|.+++|- ++.+|.+|++||+++| .+..... ..++.|..|+.|++.+|.+
T Consensus       238 ~lrnN~l~tL~-gie~LksL~~LDlsyN-ll~~hseL~pLwsLs~L~~L~LeGNPl  291 (1096)
T KOG1859|consen  238 NLRNNALTTLR-GIENLKSLYGLDLSYN-LLSEHSELEPLWSLSSLIVLWLEGNPL  291 (1096)
T ss_pred             eecccHHHhhh-hHHhhhhhhccchhHh-hhhcchhhhHHHHHHHHHHHhhcCCcc
Confidence            99999888874 7889999999999887 3332221 1256778888888888765

>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=97.72  E-value=3e-05  Score=55.13  Aligned_cols=40  Identities=35%  Similarity=0.564  Sum_probs=24.3

Q ss_pred             CCccEEEccCCCccccCCccccccCCCCeEEccCCCccccc
Q 048126          540 PSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAITHLP  580 (863)
Q Consensus       540 ~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~~~l~~lp  580 (863)
                      ++|++|++++| .+..+|..+++|++|++|++++|+|+.+|
T Consensus         1 ~~L~~L~l~~N-~i~~l~~~l~~l~~L~~L~l~~N~i~~i~   40 (44)
T PF12799_consen    1 KNLEELDLSNN-QITDLPPELSNLPNLETLNLSNNPISDIS   40 (44)
T ss_dssp             TT-SEEEETSS-S-SSHGGHGTTCTTSSEEEETSSCCSBEG
T ss_pred             CcceEEEccCC-CCcccCchHhCCCCCCEEEecCCCCCCCc
Confidence            35666666666 34456655666777777777776666554

...

>PRK06620 hypothetical protein; Validated

Probab=97.70  E-value=0.0002  Score=71.51  Aligned_cols=132  Identities=14%  Similarity=0.028  Sum_probs=77.7

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHHHHhCCCCccccCCChhHHHHHHHHHhc
Q 048126          148 GIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGRRIGFLDESWKNGSLEDKASDILRILS  227 (863)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~  227 (863)
                      +.+.|+|++|+|||+|++.+++..   ..     .++.  ..+..                       +       +.. 
T Consensus        45 ~~l~l~Gp~G~GKThLl~a~~~~~---~~-----~~~~--~~~~~-----------------------~-------~~~-   83 (214)
T PRK06620         45 FTLLIKGPSSSGKTYLTKIWQNLS---NA-----YIIK--DIFFN-----------------------E-------EIL-   83 (214)
T ss_pred             ceEEEECCCCCCHHHHHHHHHhcc---CC-----EEcc--hhhhc-----------------------h-------hHH-
Confidence            568999999999999999988765   11     1221  00000                       0       011 


Q ss_pred             cCcEEEEEeccCCccccccccCCCC-CCCCCcEEEEecCchh-------hhhcccccceEeecCCChHHHHHHHHHHhcc
Q 048126          228 KKKFLLLLDDIWERVDLTKVGVPFP-DPENKSKIVFTTRFLE-------ICGAMKAHEFLKVECLGPEDAWRLFRENLRR  299 (863)
Q Consensus       228 ~kr~LlVlDdv~~~~~~~~~~~~l~-~~~~gs~IivTtR~~~-------v~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~  299 (863)
                      +..-+|++||++...+ ..+...+. -...|..||+|++...       ....+....++++++++.++-..++++.+..
T Consensus        84 ~~~d~lliDdi~~~~~-~~lf~l~N~~~e~g~~ilits~~~p~~l~l~~L~SRl~~gl~~~l~~pd~~~~~~~l~k~~~~  162 (214)
T PRK06620         84 EKYNAFIIEDIENWQE-PALLHIFNIINEKQKYLLLTSSDKSRNFTLPDLSSRIKSVLSILLNSPDDELIKILIFKHFSI  162 (214)
T ss_pred             hcCCEEEEeccccchH-HHHHHHHHHHHhcCCEEEEEcCCCccccchHHHHHHHhCCceEeeCCCCHHHHHHHHHHHHHH
Confidence            1234788899974321 11111111 0134668999988533       2333444557999999999988888887653


Q ss_pred             cccCCCCChHHHHHHHHHHhCCchh
Q 048126          300 DVLDNHPDIPELARSVAKEYAGLPL  324 (863)
Q Consensus       300 ~~~~~~~~~~~~~~~i~~~c~glPl  324 (863)
                      ....   --+++..-|++.+.|---
T Consensus       163 ~~l~---l~~ev~~~L~~~~~~d~r  184 (214)
T PRK06620        163 SSVT---ISRQIIDFLLVNLPREYS  184 (214)
T ss_pred             cCCC---CCHHHHHHHHHHccCCHH
Confidence            2211   125667777777766543

>TIGR00362 DnaA chromosomal replication initiator protein DnaA

Probab=97.70  E-value=0.00041  Score=77.20  Aligned_cols=158  Identities=22%  Similarity=0.216  Sum_probs=92.3

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHHHHhCCCCccccCCChhHHHHHHHHHh
Q 048126          147 VGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGRRIGFLDESWKNGSLEDKASDILRIL  226 (863)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l  226 (863)
                      ...+.|+|..|+|||+|++.+++... ....=..++|++.      .++...+...+...       ..    ..+.+.+
T Consensus       136 ~n~l~l~G~~G~GKThL~~ai~~~l~-~~~~~~~v~yi~~------~~~~~~~~~~~~~~-------~~----~~~~~~~  197 (405)
T TIGR00362       136 YNPLFIYGGVGLGKTHLLHAIGNEIL-ENNPNAKVVYVSS------EKFTNDFVNALRNN-------KM----EEFKEKY  197 (405)
T ss_pred             CCeEEEECCCCCcHHHHHHHHHHHHH-HhCCCCcEEEEEH------HHHHHHHHHHHHcC-------CH----HHHHHHH
Confidence            45789999999999999999999872 1111124566643      33444454444211       11    2233333


Q ss_pred             ccCcEEEEEeccCCccc---c-ccccCCCCC-CCCCcEEEEecCchh---------hhhcccccceEeecCCChHHHHHH
Q 048126          227 SKKKFLLLLDDIWERVD---L-TKVGVPFPD-PENKSKIVFTTRFLE---------ICGAMKAHEFLKVECLGPEDAWRL  292 (863)
Q Consensus       227 ~~kr~LlVlDdv~~~~~---~-~~~~~~l~~-~~~gs~IivTtR~~~---------v~~~~~~~~~~~l~~L~~~e~~~l  292 (863)
                      ++ .-+||+||++....   + +.+...+.. ...|..||+|+....         +...+.....+.+++.+.++-..+
T Consensus       198 ~~-~dlLiiDDi~~l~~~~~~~~~l~~~~n~~~~~~~~iiits~~~p~~l~~l~~~l~SRl~~g~~v~i~~pd~~~r~~i  276 (405)
T TIGR00362       198 RS-VDLLLIDDIQFLAGKERTQEEFFHTFNALHENGKQIVLTSDRPPKELPGLEERLRSRFEWGLVVDIEPPDLETRLAI  276 (405)
T ss_pred             Hh-CCEEEEehhhhhcCCHHHHHHHHHHHHHHHHCCCCEEEecCCCHHHHhhhhhhhhhhccCCeEEEeCCCCHHHHHHH
Confidence            33 34888999975321   1 112111111 123456888776421         222333345688999999999999


Q ss_pred             HHHHhcccccCCCCChHHHHHHHHHHhCCchhHH
Q 048126          293 FRENLRRDVLDNHPDIPELARSVAKEYAGLPLAL  326 (863)
Q Consensus       293 f~~~~~~~~~~~~~~~~~~~~~i~~~c~glPlai  326 (863)
                      +.+.+......   --+++...|++.+.|..-.+
T Consensus       277 l~~~~~~~~~~---l~~e~l~~ia~~~~~~~r~l  307 (405)
T TIGR00362       277 LQKKAEEEGLE---LPDEVLEFIAKNIRSNVREL  307 (405)
T ss_pred             HHHHHHHcCCC---CCHHHHHHHHHhcCCCHHHH
Confidence            99887654311   12567788888888766543

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).

>PRK15386 type III secretion protein GogB; Provisional

Probab=97.69  E-value=0.00013  Score=78.07  Aligned_cols=144  Identities=16%  Similarity=0.114  Sum_probs=78.4

Q ss_pred             HHHHHcCCccCceEEEEEcChHHHHHHhhhhhhhhcceeeeeccccCCCcccccchhhcCCCceEEEcCCcccccceecc
Q 048126          632 LVEELMGMKHLMALTITLKSWEALQELLISQELQRCTQSLFLRCFNDSKSLDIFCLACLHNLNKLYVAGRKHLEDFQMTV  711 (863)
Q Consensus       632 ~~~~l~~L~~L~~L~l~~~~~~~~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~l~~~~  711 (863)
                      ....+..+.++..|+++.+....++      .++.+|+.|.+.+|..++.++ ..+  .++|++|.+++|..+..+    
T Consensus        44 a~~r~~~~~~l~~L~Is~c~L~sLP------~LP~sLtsL~Lsnc~nLtsLP-~~L--P~nLe~L~Ls~Cs~L~sL----  110 (426)
T PRK15386         44 ITPQIEEARASGRLYIKDCDIESLP------VLPNELTEITIENCNNLTTLP-GSI--PEGLEKLTVCHCPEISGL----  110 (426)
T ss_pred             HHHHHHHhcCCCEEEeCCCCCcccC------CCCCCCcEEEccCCCCcccCC-chh--hhhhhheEccCccccccc----
Confidence            3444555677788888766554443      244577777777776654443 122  257777777777555422    


Q ss_pred             ccccccccccccCcccEEEEeccCCCCCCchhhccCCCcEEEEeccccchhhccccccccccCCCCCCCCcCCccceecc
Q 048126          712 QRSSVNQLARGFHSLHTVKVGFCFKLKDLTWLVFAPSLKSIVVLSCCNMEQIIKAEKLSQLHHHPERKKSVFAKLQFLSL  791 (863)
Q Consensus       712 ~~~~~~~~~~~l~~L~~L~L~~c~~l~~l~~l~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~~~p~L~~L~l  791 (863)
                                 +++|+.|++..+ .+..++.  -.++|+.|.+.+++.....             .....-.++|+.|.+
T Consensus       111 -----------P~sLe~L~L~~n-~~~~L~~--LPssLk~L~I~~~n~~~~~-------------~lp~~LPsSLk~L~I  163 (426)
T PRK15386        111 -----------PESVRSLEIKGS-ATDSIKN--VPNGLTSLSINSYNPENQA-------------RIDNLISPSLKTLSL  163 (426)
T ss_pred             -----------ccccceEEeCCC-CCccccc--CcchHhheecccccccccc-------------ccccccCCcccEEEe
Confidence                       345677776532 2222221  1256777776443211100             000112257888888


Q ss_pred             CCCccccccccCCCCCCCcceEeecCC
Q 048126          792 ENLRNLCCINWEALAFPNLKEIRVEGC  818 (863)
Q Consensus       792 ~~~~~L~~i~~~~~~~p~L~~L~i~~C  818 (863)
                      .+|..+. ++..  -.++|+.|.+..+
T Consensus       164 s~c~~i~-LP~~--LP~SLk~L~ls~n  187 (426)
T PRK15386        164 TGCSNII-LPEK--LPESLQSITLHIE  187 (426)
T ss_pred             cCCCccc-Cccc--ccccCcEEEeccc
Confidence            8887553 2211  1257888888664

>KOG3665 consensus ZYG-1-like serine/threonine protein kinases [General function prediction only]

Probab=97.68  E-value=3.3e-05  Score=90.00  Aligned_cols=128  Identities=20%  Similarity=0.298  Sum_probs=81.6

Q ss_pred             ceEEEEeccccccc--cc--cCCCCCccceEEccCCcccccc-chhhhcCCCccEEEccCCCccccCCccccccCCCCeE
Q 048126          495 NVRRMSLMKNKIEN--LS--ETPTCPHLLSLFLSDNSLKMIA-GDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHL  569 (863)
Q Consensus       495 ~lr~L~l~~~~~~~--l~--~~~~~~~L~~L~l~~~~l~~~~-~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L  569 (863)
                      +|++|++.+.....  .+  -...+|+|++|.+.+-.+..-. ...+.++++|+.||+|++ .+..+ ..+++|++|+.|
T Consensus       123 nL~~LdI~G~~~~s~~W~~kig~~LPsL~sL~i~~~~~~~~dF~~lc~sFpNL~sLDIS~T-nI~nl-~GIS~LknLq~L  200 (699)
T KOG3665|consen  123 NLQHLDISGSELFSNGWPKKIGTMLPSLRSLVISGRQFDNDDFSQLCASFPNLRSLDISGT-NISNL-SGISRLKNLQVL  200 (699)
T ss_pred             hhhhcCccccchhhccHHHHHhhhCcccceEEecCceecchhHHHHhhccCccceeecCCC-CccCc-HHHhccccHHHH
Confidence            78888887754321  11  1256788888888876443211 233567888888888888 45455 678888888888


Q ss_pred             EccCCCccccc--hhhhcCCCCCEEecCCccccCCCcHH------HhhcCCCCcEEEeeccccc
Q 048126          570 DLSGTAITHLP--IELQKLVNLKCLNLEYMYNLNQFPRL------VMSAFSKLQVLRILKSNVL  625 (863)
Q Consensus       570 ~L~~~~l~~lp--~~~~~l~~L~~L~l~~~~~l~~lp~~------~~~~L~~L~~L~l~~~~~~  625 (863)
                      .+++-.+..-+  ..+.+|++|++||++...... -+..      ....|++|+.|+.+++...
T Consensus       201 ~mrnLe~e~~~~l~~LF~L~~L~vLDIS~~~~~~-~~~ii~qYlec~~~LpeLrfLDcSgTdi~  263 (699)
T KOG3665|consen  201 SMRNLEFESYQDLIDLFNLKKLRVLDISRDKNND-DTKIIEQYLECGMVLPELRFLDCSGTDIN  263 (699)
T ss_pred             hccCCCCCchhhHHHHhcccCCCeeecccccccc-chHHHHHHHHhcccCccccEEecCCcchh
Confidence            88876665432  356778888888888753322 2211      0133677777777766554

>PRK12422 chromosomal replication initiation protein; Provisional

Probab=97.66  E-value=0.00056  Score=76.06  Aligned_cols=152  Identities=14%  Similarity=0.086  Sum_probs=88.3

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHHHHhCCCCccccCCChhHHHHHHHHHh
Q 048126          147 VGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGRRIGFLDESWKNGSLEDKASDILRIL  226 (863)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l  226 (863)
                      ...+.|+|+.|+|||+|++.+++...   .....++|++      ...+...+...+...       .    ...+++..
T Consensus       141 ~npl~L~G~~G~GKTHLl~Ai~~~l~---~~~~~v~yi~------~~~f~~~~~~~l~~~-------~----~~~f~~~~  200 (445)
T PRK12422        141 FNPIYLFGPEGSGKTHLMQAAVHALR---ESGGKILYVR------SELFTEHLVSAIRSG-------E----MQRFRQFY  200 (445)
T ss_pred             CceEEEEcCCCCCHHHHHHHHHHHHH---HcCCCEEEee------HHHHHHHHHHHHhcc-------h----HHHHHHHc
Confidence            35788999999999999999999872   1223356664      234444555444311       1    12233333


Q ss_pred             ccCcEEEEEeccCCccc--c--ccccCCCCC-CCCCcEEEEecCch---------hhhhcccccceEeecCCChHHHHHH
Q 048126          227 SKKKFLLLLDDIWERVD--L--TKVGVPFPD-PENKSKIVFTTRFL---------EICGAMKAHEFLKVECLGPEDAWRL  292 (863)
Q Consensus       227 ~~kr~LlVlDdv~~~~~--~--~~~~~~l~~-~~~gs~IivTtR~~---------~v~~~~~~~~~~~l~~L~~~e~~~l  292 (863)
                      + +.-+|++||+.....  +  +.+...+.. ...|..||+||...         .+...+.....+.+.+++.++-..+
T Consensus       201 ~-~~dvLiIDDiq~l~~k~~~qeelf~l~N~l~~~~k~IIlts~~~p~~l~~l~~rL~SR~~~Gl~~~l~~pd~e~r~~i  279 (445)
T PRK12422        201 R-NVDALFIEDIEVFSGKGATQEEFFHTFNSLHTEGKLIVISSTCAPQDLKAMEERLISRFEWGIAIPLHPLTKEGLRSF  279 (445)
T ss_pred             c-cCCEEEEcchhhhcCChhhHHHHHHHHHHHHHCCCcEEEecCCCHHHHhhhHHHHHhhhcCCeEEecCCCCHHHHHHH
Confidence            3 344888899875422  1  122111110 11355688888542         1223333446789999999999999


Q ss_pred             HHHHhcccccCCCCChHHHHHHHHHHhCCc
Q 048126          293 FRENLRRDVLDNHPDIPELARSVAKEYAGL  322 (863)
Q Consensus       293 f~~~~~~~~~~~~~~~~~~~~~i~~~c~gl  322 (863)
                      +.+.+......-   -+++..-|+..+.|.
T Consensus       280 L~~k~~~~~~~l---~~evl~~la~~~~~d  306 (445)
T PRK12422        280 LERKAEALSIRI---EETALDFLIEALSSN  306 (445)
T ss_pred             HHHHHHHcCCCC---CHHHHHHHHHhcCCC
Confidence            998876533111   245556566666643

>PTZ00361 26 proteosome regulatory subunit 4-like protein; Provisional

Probab=97.66  E-value=0.00033  Score=77.03  Aligned_cols=169  Identities=16%  Similarity=0.184  Sum_probs=94.1

Q ss_pred             CccchhHHHHHHHHHhcC-------------CCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHH
Q 048126          127 PTVGLESMFDKVWRCLGE-------------EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLE  193 (863)
Q Consensus       127 ~~vGr~~~~~~l~~~L~~-------------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~  193 (863)
                      ++.|.+..+++|.+.+.-             ...+-+.++|++|+|||++|+.+++..   ...|   +.|..+.     
T Consensus       184 DIgGl~~qi~~l~e~v~lpl~~p~~~~~~gi~~p~gVLL~GPPGTGKT~LAraIA~el---~~~f---i~V~~se-----  252 (438)
T PTZ00361        184 DIGGLEQQIQEIKEAVELPLTHPELYDDIGIKPPKGVILYGPPGTGKTLLAKAVANET---SATF---LRVVGSE-----  252 (438)
T ss_pred             HhcCHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCcEEEEECCCCCCHHHHHHHHHHhh---CCCE---EEEecch-----
Confidence            357899999988887631             134568899999999999999999986   3333   2221111     


Q ss_pred             HHHHHHHHHhCCCCccccCCChhHHHHHHHHHhccCcEEEEEeccCCccc----------------cccccCCCC--CCC
Q 048126          194 KIQEKIGRRIGFLDESWKNGSLEDKASDILRILSKKKFLLLLDDIWERVD----------------LTKVGVPFP--DPE  255 (863)
Q Consensus       194 ~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~----------------~~~~~~~l~--~~~  255 (863)
                       +.    ...       .......+...+.....+.+.+|+||+++....                ...+...+.  ...
T Consensus       253 -L~----~k~-------~Ge~~~~vr~lF~~A~~~~P~ILfIDEID~l~~kR~~~~sgg~~e~qr~ll~LL~~Ldg~~~~  320 (438)
T PTZ00361        253 -LI----QKY-------LGDGPKLVRELFRVAEENAPSIVFIDEIDAIGTKRYDATSGGEKEIQRTMLELLNQLDGFDSR  320 (438)
T ss_pred             -hh----hhh-------cchHHHHHHHHHHHHHhCCCcEEeHHHHHHHhccCCCCCCcccHHHHHHHHHHHHHHhhhccc
Confidence             11    111       001111122222223345678999999853210                001111111  112


Q ss_pred             CCcEEEEecCchhhhhc--c---cccceEeecCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCCc
Q 048126          256 NKSKIVFTTRFLEICGA--M---KAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGL  322 (863)
Q Consensus       256 ~gs~IivTtR~~~v~~~--~---~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~gl  322 (863)
                      .+.+||+||...+....  .   ..+..+.++..+.++-.++|..++.........++    ..++..+.|.
T Consensus       321 ~~V~VI~ATNr~d~LDpaLlRpGRfd~~I~~~~Pd~~~R~~Il~~~~~k~~l~~dvdl----~~la~~t~g~  388 (438)
T PTZ00361        321 GDVKVIMATNRIESLDPALIRPGRIDRKIEFPNPDEKTKRRIFEIHTSKMTLAEDVDL----EEFIMAKDEL  388 (438)
T ss_pred             CCeEEEEecCChHHhhHHhccCCeeEEEEEeCCCCHHHHHHHHHHHHhcCCCCcCcCH----HHHHHhcCCC
Confidence            35678888876544221  1   23457889999999999999977654332222233    4445555544

>PRK06647 DNA polymerase III subunits gamma and tau; Validated

Probab=97.65  E-value=0.0018  Score=74.16  Aligned_cols=192  Identities=14%  Similarity=0.113  Sum_probs=107.8

Q ss_pred             CCccchhHHHHHHHHHhcCCCcc-EEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHHHHhC
Q 048126          126 EPTVGLESMFDKVWRCLGEEQVG-IIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGRRIG  204 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~~~-vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~  204 (863)
                      .++||-+..++.+..++..++.. .+.++|+.|+||||+|+.+++..- -......       .+++.....+.+...-.
T Consensus        16 ~diiGqe~iv~~L~~~i~~~~i~hayLf~Gp~G~GKTt~Ar~lAk~L~-c~~~~~~-------~pC~~C~~C~~i~~~~~   87 (563)
T PRK06647         16 NSLEGQDFVVETLKHSIESNKIANAYIFSGPRGVGKTSSARAFARCLN-CVNGPTP-------MPCGECSSCKSIDNDNS   87 (563)
T ss_pred             HHccCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhhc-cccCCCC-------CCCccchHHHHHHcCCC
Confidence            45899999999999999876554 678999999999999999998761 1111000       00000011111111100


Q ss_pred             CCC---ccccCCChhHHHHHHHH-----HhccCcEEEEEeccCCcc--ccccccCCCCCCCCCcEEEEecCc-hhhhhc-
Q 048126          205 FLD---ESWKNGSLEDKASDILR-----ILSKKKFLLLLDDIWERV--DLTKVGVPFPDPENKSKIVFTTRF-LEICGA-  272 (863)
Q Consensus       205 ~~~---~~~~~~~~~~~~~~l~~-----~l~~kr~LlVlDdv~~~~--~~~~~~~~l~~~~~gs~IivTtR~-~~v~~~-  272 (863)
                      ...   +.......++... +.+     -..+++-++|+|+++...  .+..+...+........+|++|.. ..+... 
T Consensus        88 ~dv~~idgas~~~vddIr~-l~e~~~~~p~~~~~KVvIIDEa~~Ls~~a~naLLK~LEepp~~~vfI~~tte~~kL~~tI  166 (563)
T PRK06647         88 LDVIEIDGASNTSVQDVRQ-IKEEIMFPPASSRYRVYIIDEVHMLSNSAFNALLKTIEEPPPYIVFIFATTEVHKLPATI  166 (563)
T ss_pred             CCeEEecCcccCCHHHHHH-HHHHHHhchhcCCCEEEEEEChhhcCHHHHHHHHHhhccCCCCEEEEEecCChHHhHHHH
Confidence            000   0000111222221 211     123466689999997642  344554444444455666665543 333221 


Q ss_pred             ccccceEeecCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCCchhHHHHH
Q 048126          273 MKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGLPLALITI  329 (863)
Q Consensus       273 ~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPlai~~~  329 (863)
                      ......+++.+++.++-...+.+.+.....   +--.+.+..|++.++|.+..+..+
T Consensus       167 ~SRc~~~~f~~l~~~el~~~L~~i~~~egi---~id~eAl~lLa~~s~GdlR~alsl  220 (563)
T PRK06647        167 KSRCQHFNFRLLSLEKIYNMLKKVCLEDQI---KYEDEALKWIAYKSTGSVRDAYTL  220 (563)
T ss_pred             HHhceEEEecCCCHHHHHHHHHHHHHHcCC---CCCHHHHHHHHHHcCCCHHHHHHH
Confidence            122346889999999998888877644321   122466788999999987654443

>PRK00149 dnaA chromosomal replication initiation protein; Reviewed

Probab=97.64  E-value=0.00046  Score=77.78  Aligned_cols=158  Identities=20%  Similarity=0.183  Sum_probs=93.4

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHHHHhCCCCccccCCChhHHHHHHHHHh
Q 048126          147 VGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGRRIGFLDESWKNGSLEDKASDILRIL  226 (863)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l  226 (863)
                      ...+.|+|..|+|||+||+.+++... ....--.++|++..      .+...+...+...       ..    ..+.+.+
T Consensus       148 ~~~l~l~G~~G~GKThL~~ai~~~~~-~~~~~~~v~yi~~~------~~~~~~~~~~~~~-------~~----~~~~~~~  209 (450)
T PRK00149        148 YNPLFIYGGVGLGKTHLLHAIGNYIL-EKNPNAKVVYVTSE------KFTNDFVNALRNN-------TM----EEFKEKY  209 (450)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHH-HhCCCCeEEEEEHH------HHHHHHHHHHHcC-------cH----HHHHHHH
Confidence            45789999999999999999999872 11112245666533      3334444444211       11    2233333


Q ss_pred             ccCcEEEEEeccCCccc---c-ccccCCCCC-CCCCcEEEEecCchh---------hhhcccccceEeecCCChHHHHHH
Q 048126          227 SKKKFLLLLDDIWERVD---L-TKVGVPFPD-PENKSKIVFTTRFLE---------ICGAMKAHEFLKVECLGPEDAWRL  292 (863)
Q Consensus       227 ~~kr~LlVlDdv~~~~~---~-~~~~~~l~~-~~~gs~IivTtR~~~---------v~~~~~~~~~~~l~~L~~~e~~~l  292 (863)
                      + +.-+||+||++....   + +.+...+.. ...|..||+||....         +...+.....+.+++.+.++-..+
T Consensus       210 ~-~~dlLiiDDi~~l~~~~~~~~~l~~~~n~l~~~~~~iiits~~~p~~l~~l~~~l~SRl~~gl~v~i~~pd~~~r~~i  288 (450)
T PRK00149        210 R-SVDVLLIDDIQFLAGKERTQEEFFHTFNALHEAGKQIVLTSDRPPKELPGLEERLRSRFEWGLTVDIEPPDLETRIAI  288 (450)
T ss_pred             h-cCCEEEEehhhhhcCCHHHHHHHHHHHHHHHHCCCcEEEECCCCHHHHHHHHHHHHhHhcCCeeEEecCCCHHHHHHH
Confidence            3 344889999975311   1 122111110 113455888776532         223344445789999999999999


Q ss_pred             HHHHhcccccCCCCChHHHHHHHHHHhCCchhHH
Q 048126          293 FRENLRRDVLDNHPDIPELARSVAKEYAGLPLAL  326 (863)
Q Consensus       293 f~~~~~~~~~~~~~~~~~~~~~i~~~c~glPlai  326 (863)
                      +++.+.....   .--+++..-|++.+.|..-.+
T Consensus       289 l~~~~~~~~~---~l~~e~l~~ia~~~~~~~R~l  319 (450)
T PRK00149        289 LKKKAEEEGI---DLPDEVLEFIAKNITSNVREL  319 (450)
T ss_pred             HHHHHHHcCC---CCCHHHHHHHHcCcCCCHHHH
Confidence            9998764321   122567888888888876543

>KOG1947 consensus Leucine rich repeat proteins, some proteins contain F-box [General function prediction only]

Probab=97.64  E-value=1.6e-05  Score=91.33  Aligned_cols=112  Identities=25%  Similarity=0.241  Sum_probs=52.5

Q ss_pred             CCCccceEEccCC-cccccc-chhhhcCCCccEEEccCC-CccccC----CccccccCCCCeEEccCCC-ccc--cchhh
Q 048126          514 TCPHLLSLFLSDN-SLKMIA-GDFFQFMPSLRVFNMSNN-HLLWKL----PSGISTLVSLEHLDLSGTA-ITH--LPIEL  583 (863)
Q Consensus       514 ~~~~L~~L~l~~~-~l~~~~-~~~~~~l~~L~~L~L~~~-~~~~~l----p~~i~~l~~L~~L~L~~~~-l~~--lp~~~  583 (863)
                      .+++|+.|.+.++ .+.... ..+...+++|+.|+++++ ......    +.....+.+|+.|+++++. ++.  +..-.
T Consensus       186 ~~~~L~~l~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~L~~l~l~~~~~isd~~l~~l~  265 (482)
T KOG1947|consen  186 SCPLLKRLSLSGCSKITDDSLDALALKCPNLEELDLSGCCLLITLSPLLLLLLLSICRKLKSLDLSGCGLVTDIGLSALA  265 (482)
T ss_pred             hCchhhHhhhcccccCChhhHHHHHhhCchhheecccCcccccccchhHhhhhhhhcCCcCccchhhhhccCchhHHHHH
Confidence            3677777777766 333211 233566777777777763 111111    1122344556666666654 331  11112


Q ss_pred             hcCCCCCEEecCCccccCCCcH-HHhhcCCCCcEEEeeccccc
Q 048126          584 QKLVNLKCLNLEYMYNLNQFPR-LVMSAFSKLQVLRILKSNVL  625 (863)
Q Consensus       584 ~~l~~L~~L~l~~~~~l~~lp~-~~~~~L~~L~~L~l~~~~~~  625 (863)
                      ..+++|++|.+.+|..++...- .+..++++|++|++..|...
T Consensus       266 ~~c~~L~~L~l~~c~~lt~~gl~~i~~~~~~L~~L~l~~c~~~  308 (482)
T KOG1947|consen  266 SRCPNLETLSLSNCSNLTDEGLVSIAERCPSLRELDLSGCHGL  308 (482)
T ss_pred             hhCCCcceEccCCCCccchhHHHHHHHhcCcccEEeeecCccc
Confidence            2245566665555533222111 11234555555555555443

>COG1373 Predicted ATPase (AAA+ superfamily) [General function prediction only]

Probab=97.63  E-value=0.00064  Score=74.69  Aligned_cols=135  Identities=18%  Similarity=0.178  Sum_probs=85.8

Q ss_pred             hhHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCcc-CHHHHHHHHHHHhCCCCcc
Q 048126          131 LESMFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDL-QLEKIQEKIGRRIGFLDES  209 (863)
Q Consensus       131 r~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~-~~~~~~~~i~~~l~~~~~~  209 (863)
                      |..-..++.+.+..... ++.|+|+-++||||+++.+....   .+.   .+++..-+.. +-..+ .+           
T Consensus        22 ~~~~~~~l~~~~~~~~~-i~~i~GpR~~GKTtll~~l~~~~---~~~---~iy~~~~d~~~~~~~l-~d-----------   82 (398)
T COG1373          22 RRKLLPRLIKKLDLRPF-IILILGPRQVGKTTLLKLLIKGL---LEE---IIYINFDDLRLDRIEL-LD-----------   82 (398)
T ss_pred             HHhhhHHHHhhcccCCc-EEEEECCccccHHHHHHHHHhhC---Ccc---eEEEEecchhcchhhH-HH-----------
Confidence            34455566666554433 99999999999999997777765   222   5555432221 11111 11           


Q ss_pred             ccCCChhHHHHHHHHHhccCcEEEEEeccCCccccccccCCCCCCCCCcEEEEecCchhhh-----hc-ccccceEeecC
Q 048126          210 WKNGSLEDKASDILRILSKKKFLLLLDDIWERVDLTKVGVPFPDPENKSKIVFTTRFLEIC-----GA-MKAHEFLKVEC  283 (863)
Q Consensus       210 ~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~~~l~~~~~gs~IivTtR~~~v~-----~~-~~~~~~~~l~~  283 (863)
                              ....+.+.-..++..|+||.|....+|+.....+.+.++. +|++|+-+....     .. .|-...+.+.|
T Consensus        83 --------~~~~~~~~~~~~~~yifLDEIq~v~~W~~~lk~l~d~~~~-~v~itgsss~ll~~~~~~~L~GR~~~~~l~P  153 (398)
T COG1373          83 --------LLRAYIELKEREKSYIFLDEIQNVPDWERALKYLYDRGNL-DVLITGSSSSLLSKEISESLAGRGKDLELYP  153 (398)
T ss_pred             --------HHHHHHHhhccCCceEEEecccCchhHHHHHHHHHccccc-eEEEECCchhhhccchhhhcCCCceeEEECC
Confidence                    1111111111277899999999999999887777666665 888888876552     21 12345689999


Q ss_pred             CChHHHHHHH
Q 048126          284 LGPEDAWRLF  293 (863)
Q Consensus       284 L~~~e~~~lf  293 (863)
                      ||..|...+-
T Consensus       154 lSF~Efl~~~  163 (398)
T COG1373         154 LSFREFLKLK  163 (398)
T ss_pred             CCHHHHHhhc
Confidence            9999987654

>KOG3665 consensus ZYG-1-like serine/threonine protein kinases [General function prediction only]

Probab=97.63  E-value=2.2e-05  Score=91.47  Aligned_cols=136  Identities=21%  Similarity=0.190  Sum_probs=78.2

Q ss_pred             CccceEEccCCc--cccccchhhhcCCCccEEEccCCCcc-ccCCccccccCCCCeEEccCCCccccchhhhcCCCCCEE
Q 048126          516 PHLLSLFLSDNS--LKMIAGDFFQFMPSLRVFNMSNNHLL-WKLPSGISTLVSLEHLDLSGTAITHLPIELQKLVNLKCL  592 (863)
Q Consensus       516 ~~L~~L~l~~~~--l~~~~~~~~~~l~~L~~L~L~~~~~~-~~lp~~i~~l~~L~~L~L~~~~l~~lp~~~~~l~~L~~L  592 (863)
                      .+|+.|+++|..  ..+.+...-..+|.|+.|.+++-.+. +++-.-..++++|..||+|+|+++.+ .++.+|+||+.|
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            567777777762  22333343455777888877775433 22333445677788888888877777 577777777777


Q ss_pred             ecCCccccCCCcHHHhhcCCCCcEEEeeccccccCc--hhhHHHHHcCCccCceEEEEEcCh
Q 048126          593 NLEYMYNLNQFPRLVMSAFSKLQVLRILKSNVLFGG--HQFLVEELMGMKHLMALTITLKSW  652 (863)
Q Consensus       593 ~l~~~~~l~~lp~~~~~~L~~L~~L~l~~~~~~~~~--~~~~~~~l~~L~~L~~L~l~~~~~  652 (863)
                      .+.+-.......-..+-+|++|+.|+++........  .....+--..|++|+.|+.+....
T Consensus       201 ~mrnLe~e~~~~l~~LF~L~~L~vLDIS~~~~~~~~~ii~qYlec~~~LpeLrfLDcSgTdi  262 (699)
T KOG3665|consen  201 SMRNLEFESYQDLIDLFNLKKLRVLDISRDKNNDDTKIIEQYLECGMVLPELRFLDCSGTDI  262 (699)
T ss_pred             hccCCCCCchhhHHHHhcccCCCeeeccccccccchHHHHHHHHhcccCccccEEecCCcch
Confidence            776532211111112456777777777765544331  011122233467777777765543

>PTZ00454 26S protease regulatory subunit 6B-like protein; Provisional

Probab=97.63  E-value=0.00079  Score=73.63  Aligned_cols=171  Identities=14%  Similarity=0.174  Sum_probs=95.5

Q ss_pred             CCccchhHHHHHHHHHhcC-------------CCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCH
Q 048126          126 EPTVGLESMFDKVWRCLGE-------------EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQL  192 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~-------------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~  192 (863)
                      .++.|.+..+++|.+.+.-             ...+-+.++|++|+|||++|+.+++..   ...|   +.+  ..    
T Consensus       145 ~digGl~~~k~~l~~~v~~pl~~~~~~~~~Gl~~pkgvLL~GppGTGKT~LAkalA~~l---~~~f---i~i--~~----  212 (398)
T PTZ00454        145 SDIGGLDIQKQEIREAVELPLTCPELYEQIGIDPPRGVLLYGPPGTGKTMLAKAVAHHT---TATF---IRV--VG----  212 (398)
T ss_pred             HHcCCHHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhc---CCCE---EEE--eh----
Confidence            3467999888888876631             235678899999999999999999986   2333   122  11    


Q ss_pred             HHHHHHHHHHhCCCCccccCCChhHHHHHHHHHhccCcEEEEEeccCCcc------------c----cccccCCCC--CC
Q 048126          193 EKIQEKIGRRIGFLDESWKNGSLEDKASDILRILSKKKFLLLLDDIWERV------------D----LTKVGVPFP--DP  254 (863)
Q Consensus       193 ~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~------------~----~~~~~~~l~--~~  254 (863)
                      ..+....   ++        .....+...+.......+.+|++|+++...            .    +..+...+.  ..
T Consensus       213 s~l~~k~---~g--------e~~~~lr~lf~~A~~~~P~ILfIDEID~i~~~r~~~~~~~d~~~~r~l~~LL~~ld~~~~  281 (398)
T PTZ00454        213 SEFVQKY---LG--------EGPRMVRDVFRLARENAPSIIFIDEVDSIATKRFDAQTGADREVQRILLELLNQMDGFDQ  281 (398)
T ss_pred             HHHHHHh---cc--------hhHHHHHHHHHHHHhcCCeEEEEECHhhhccccccccCCccHHHHHHHHHHHHHhhccCC
Confidence            1111110   11        111112222233334578999999986420            0    111111111  12


Q ss_pred             CCCcEEEEecCchhhhh-c-c---cccceEeecCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCCch
Q 048126          255 ENKSKIVFTTRFLEICG-A-M---KAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGLP  323 (863)
Q Consensus       255 ~~gs~IivTtR~~~v~~-~-~---~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glP  323 (863)
                      ..+..||.||...+... . .   .-+..+.++..+.++-.++|+..........+.+    ..++++.+.|.-
T Consensus       282 ~~~v~VI~aTN~~d~LDpAllR~GRfd~~I~~~~P~~~~R~~Il~~~~~~~~l~~dvd----~~~la~~t~g~s  351 (398)
T PTZ00454        282 TTNVKVIMATNRADTLDPALLRPGRLDRKIEFPLPDRRQKRLIFQTITSKMNLSEEVD----LEDFVSRPEKIS  351 (398)
T ss_pred             CCCEEEEEecCCchhCCHHHcCCCcccEEEEeCCcCHHHHHHHHHHHHhcCCCCcccC----HHHHHHHcCCCC
Confidence            24567888887644321 1 1   2345688998899998888887665433222223    345566665553

>KOG4579 consensus Leucine-rich repeat (LRR) protein associated with apoptosis in muscle tissue [General function prediction only]

Probab=97.62  E-value=9.6e-06  Score=71.17  Aligned_cols=109  Identities=18%  Similarity=0.237  Sum_probs=81.2

Q ss_pred             eEEEEecccccccc----ccCCCCCccceEEccCCccccccchhhhcCCCccEEEccCCCccccCCccccccCCCCeEEc
Q 048126          496 VRRMSLMKNKIENL----SETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDL  571 (863)
Q Consensus       496 lr~L~l~~~~~~~l----~~~~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L  571 (863)
                      +..++++++.+..+    ........|...+|++|.++.+|+.+-..++.+..|+|++| -+..+|..+..++.|+.|++
T Consensus        29 ~h~ldLssc~lm~i~davy~l~~~~el~~i~ls~N~fk~fp~kft~kf~t~t~lNl~~n-eisdvPeE~Aam~aLr~lNl  107 (177)
T KOG4579|consen   29 LHFLDLSSCQLMYIADAVYMLSKGYELTKISLSDNGFKKFPKKFTIKFPTATTLNLANN-EISDVPEELAAMPALRSLNL  107 (177)
T ss_pred             hhhcccccchhhHHHHHHHHHhCCceEEEEecccchhhhCCHHHhhccchhhhhhcchh-hhhhchHHHhhhHHhhhccc
Confidence            33445555544322    22356667888888888888888887777788888888888 56688888888888888888


Q ss_pred             cCCCccccchhhhcCCCCCEEecCCccccCCCcHH
Q 048126          572 SGTAITHLPIELQKLVNLKCLNLEYMYNLNQFPRL  606 (863)
Q Consensus       572 ~~~~l~~lp~~~~~l~~L~~L~l~~~~~l~~lp~~  606 (863)
                      +.|.+...|..+..|.+|-.|+..++ ....+|-.
T Consensus       108 ~~N~l~~~p~vi~~L~~l~~Lds~~n-a~~eid~d  141 (177)
T KOG4579|consen  108 RFNPLNAEPRVIAPLIKLDMLDSPEN-ARAEIDVD  141 (177)
T ss_pred             ccCccccchHHHHHHHhHHHhcCCCC-ccccCcHH
Confidence            88888888888888888888888776 44556544

>PRK14965 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.60  E-value=0.0011  Score=76.36  Aligned_cols=192  Identities=13%  Similarity=0.117  Sum_probs=104.5

Q ss_pred             CCccchhHHHHHHHHHhcCCCc-cEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHHHHhC
Q 048126          126 EPTVGLESMFDKVWRCLGEEQV-GIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGRRIG  204 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~  204 (863)
                      .++||.+..++.|.+++..+++ +.+.++|+.|+||||+|+.+++..-. ....+       ...++.....+.|...-.
T Consensus        16 ~~iiGq~~v~~~L~~~i~~~~~~hayLf~Gp~G~GKtt~A~~lak~l~c-~~~~~-------~~~c~~c~~c~~i~~g~~   87 (576)
T PRK14965         16 SDLTGQEHVSRTLQNAIDTGRVAHAFLFTGARGVGKTSTARILAKALNC-EQGLT-------AEPCNVCPPCVEITEGRS   87 (576)
T ss_pred             HHccCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhhcC-CCCCC-------CCCCCccHHHHHHhcCCC
Confidence            5689999999999999987765 46689999999999999999887511 11100       001111111111111000


Q ss_pred             CCC---ccccCCChhHHHHHHHHHh-----ccCcEEEEEeccCCcc--ccccccCCCCCCCCCcEEEE-ecCchhhhhc-
Q 048126          205 FLD---ESWKNGSLEDKASDILRIL-----SKKKFLLLLDDIWERV--DLTKVGVPFPDPENKSKIVF-TTRFLEICGA-  272 (863)
Q Consensus       205 ~~~---~~~~~~~~~~~~~~l~~~l-----~~kr~LlVlDdv~~~~--~~~~~~~~l~~~~~gs~Iiv-TtR~~~v~~~-  272 (863)
                      ...   +.......++ ++.+.+.+     .+++-++|+|+++...  ....+...+......+.+|+ ||....+... 
T Consensus        88 ~d~~eid~~s~~~v~~-ir~l~~~~~~~p~~~~~KVvIIdev~~Lt~~a~naLLk~LEepp~~~~fIl~t~~~~kl~~tI  166 (576)
T PRK14965         88 VDVFEIDGASNTGVDD-IRELRENVKYLPSRSRYKIFIIDEVHMLSTNAFNALLKTLEEPPPHVKFIFATTEPHKVPITI  166 (576)
T ss_pred             CCeeeeeccCccCHHH-HHHHHHHHHhccccCCceEEEEEChhhCCHHHHHHHHHHHHcCCCCeEEEEEeCChhhhhHHH
Confidence            000   0000111111 12222222     2345588899997542  23344333333334555554 5544444322 


Q ss_pred             ccccceEeecCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCCch-hHHHHH
Q 048126          273 MKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGLP-LALITI  329 (863)
Q Consensus       273 ~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glP-lai~~~  329 (863)
                      ......+.+.+++.++....+...+......   --.+....|++.++|.. .|+..+
T Consensus       167 ~SRc~~~~f~~l~~~~i~~~L~~i~~~egi~---i~~~al~~la~~a~G~lr~al~~L  221 (576)
T PRK14965        167 LSRCQRFDFRRIPLQKIVDRLRYIADQEGIS---ISDAALALVARKGDGSMRDSLSTL  221 (576)
T ss_pred             HHhhhhhhcCCCCHHHHHHHHHHHHHHhCCC---CCHHHHHHHHHHcCCCHHHHHHHH
Confidence            2223467889999999888887765443211   12456788899999865 444444

>PRK05563 DNA polymerase III subunits gamma and tau; Validated

Probab=97.56  E-value=0.0026  Score=73.14  Aligned_cols=190  Identities=15%  Similarity=0.125  Sum_probs=105.1

Q ss_pred             CCccchhHHHHHHHHHhcCCCc-cEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHHHHhC
Q 048126          126 EPTVGLESMFDKVWRCLGEEQV-GIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGRRIG  204 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~  204 (863)
                      +.+||.+..++.+.+++..++. +.+.++|+.|+||||+|+.++..... ...-+       ..+++.....+.+.....
T Consensus        16 ~~viGq~~v~~~L~~~i~~~~~~hayLf~Gp~GtGKTt~Ak~lAkal~c-~~~~~-------~~pC~~C~~C~~i~~g~~   87 (559)
T PRK05563         16 EDVVGQEHITKTLKNAIKQGKISHAYLFSGPRGTGKTSAAKIFAKAVNC-LNPPD-------GEPCNECEICKAITNGSL   87 (559)
T ss_pred             HhccCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcC-CCCCC-------CCCCCccHHHHHHhcCCC
Confidence            5689999999999999987654 45678999999999999999877511 11000       111222222222221111


Q ss_pred             CCCccc---cCCChhHHHHHHHHH-----hccCcEEEEEeccCCc--cccccccCCCCCCCCCcEEEE-ecCchhhhhc-
Q 048126          205 FLDESW---KNGSLEDKASDILRI-----LSKKKFLLLLDDIWER--VDLTKVGVPFPDPENKSKIVF-TTRFLEICGA-  272 (863)
Q Consensus       205 ~~~~~~---~~~~~~~~~~~l~~~-----l~~kr~LlVlDdv~~~--~~~~~~~~~l~~~~~gs~Iiv-TtR~~~v~~~-  272 (863)
                      ...-..   .....+ .+..+.+.     ..+++-++|+|+++..  ..+..+...+........+|+ ||....+... 
T Consensus        88 ~dv~eidaas~~~vd-~ir~i~~~v~~~p~~~~~kViIIDE~~~Lt~~a~naLLKtLEepp~~~ifIlatt~~~ki~~tI  166 (559)
T PRK05563         88 MDVIEIDAASNNGVD-EIRDIRDKVKYAPSEAKYKVYIIDEVHMLSTGAFNALLKTLEEPPAHVIFILATTEPHKIPATI  166 (559)
T ss_pred             CCeEEeeccccCCHH-HHHHHHHHHhhCcccCCeEEEEEECcccCCHHHHHHHHHHhcCCCCCeEEEEEeCChhhCcHHH
Confidence            000000   011111 12222222     1345668899999754  234444433333333444554 4444433221 


Q ss_pred             ccccceEeecCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCCchhHHH
Q 048126          273 MKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGLPLALI  327 (863)
Q Consensus       273 ~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPlai~  327 (863)
                      ......+.+.+++.++....+...+......   --.+.+..|++.++|.+..+.
T Consensus       167 ~SRc~~~~f~~~~~~ei~~~L~~i~~~egi~---i~~~al~~ia~~s~G~~R~al  218 (559)
T PRK05563        167 LSRCQRFDFKRISVEDIVERLKYILDKEGIE---YEDEALRLIARAAEGGMRDAL  218 (559)
T ss_pred             HhHheEEecCCCCHHHHHHHHHHHHHHcCCC---CCHHHHHHHHHHcCCCHHHHH
Confidence            1223467889999999988888776543211   124567888999988775444

>PF05673 DUF815: Protein of unknown function (DUF815); InterPro: IPR008533 This domain consists of several bacterial proteins of unknown function

Probab=97.54  E-value=0.0032  Score=62.47  Aligned_cols=46  Identities=20%  Similarity=0.338  Sum_probs=37.7

Q ss_pred             CCccchhHHHHHHHHHhc----CCCccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          126 EPTVGLESMFDKVWRCLG----EEQVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~----~~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      +.++|.+..++.|++-..    .....-+-+||..|+|||++++++.+..
T Consensus        27 ~~L~Gie~Qk~~l~~Nt~~Fl~G~pannvLL~G~rGtGKSSlVkall~~y   76 (249)
T PF05673_consen   27 DDLIGIERQKEALIENTEQFLQGLPANNVLLWGARGTGKSSLVKALLNEY   76 (249)
T ss_pred             HHhcCHHHHHHHHHHHHHHHHcCCCCcceEEecCCCCCHHHHHHHHHHHH
Confidence            568999999988877543    3345567789999999999999999987

>PRK10865 protein disaggregation chaperone; Provisional

Probab=97.52  E-value=0.00076  Score=81.50  Aligned_cols=46  Identities=22%  Similarity=0.414  Sum_probs=41.2

Q ss_pred             CCccchhHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          126 EPTVGLESMFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      +++|||+.++.++++.|......-+.++|.+|+|||++|+.++.+.
T Consensus       178 ~~vigr~~ei~~~i~iL~r~~~~n~lL~G~pGvGKT~l~~~la~~i  223 (857)
T PRK10865        178 DPVIGRDEEIRRTIQVLQRRTKNNPVLIGEPGVGKTAIVEGLAQRI  223 (857)
T ss_pred             CcCCCCHHHHHHHHHHHhcCCcCceEEECCCCCCHHHHHHHHHHHh
Confidence            5689999999999999987666677799999999999999999987

>PRK05707 DNA polymerase III subunit delta'; Validated

Probab=97.51  E-value=0.0019  Score=68.75  Aligned_cols=167  Identities=11%  Similarity=0.079  Sum_probs=88.0

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHHHHhCCCC-----cc-ccCCChhHHHH
Q 048126          147 VGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGRRIGFLD-----ES-WKNGSLEDKAS  220 (863)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~-----~~-~~~~~~~~~~~  220 (863)
                      .+.+.++|+.|+||||+|+.++....-. ...+       ...++.....+.+...-....     +. .....+++.. 
T Consensus        22 ~ha~Lf~G~~G~GK~~~A~~~A~~llC~-~~~~-------~~~Cg~C~sC~~~~~g~HPD~~~i~~~~~~~~i~id~iR-   92 (328)
T PRK05707         22 PHAYLLHGPAGIGKRALAERLAAALLCE-APQG-------GGACGSCKGCQLLRAGSHPDNFVLEPEEADKTIKVDQVR-   92 (328)
T ss_pred             ceeeeeECCCCCCHHHHHHHHHHHHcCC-CCCC-------CCCCCCCHHHHHHhcCCCCCEEEEeccCCCCCCCHHHHH-
Confidence            4578899999999999999998876211 0000       001111111111111000000     00 0011122222 


Q ss_pred             HHHHHh-----ccCcEEEEEeccCCc--cccccccCCCCCCCCCcEEEEecCchh-hhhc-ccccceEeecCCChHHHHH
Q 048126          221 DILRIL-----SKKKFLLLLDDIWER--VDLTKVGVPFPDPENKSKIVFTTRFLE-ICGA-MKAHEFLKVECLGPEDAWR  291 (863)
Q Consensus       221 ~l~~~l-----~~kr~LlVlDdv~~~--~~~~~~~~~l~~~~~gs~IivTtR~~~-v~~~-~~~~~~~~l~~L~~~e~~~  291 (863)
                      .+.+.+     .+++-++|+|+++..  .....+...+.....++.+|+||.+.. +... ..-...+.+.+++.+++.+
T Consensus        93 ~l~~~~~~~~~~~~~kv~iI~~a~~m~~~aaNaLLK~LEEPp~~~~fiL~t~~~~~ll~TI~SRc~~~~~~~~~~~~~~~  172 (328)
T PRK05707         93 ELVSFVVQTAQLGGRKVVLIEPAEAMNRNAANALLKSLEEPSGDTVLLLISHQPSRLLPTIKSRCQQQACPLPSNEESLQ  172 (328)
T ss_pred             HHHHHHhhccccCCCeEEEECChhhCCHHHHHHHHHHHhCCCCCeEEEEEECChhhCcHHHHhhceeeeCCCcCHHHHHH
Confidence            222222     233445577999764  334444333433345677777777653 3222 2223468999999999999


Q ss_pred             HHHHHhcccccCCCCChHHHHHHHHHHhCCchhHHHHH
Q 048126          292 LFRENLRRDVLDNHPDIPELARSVAKEYAGLPLALITI  329 (863)
Q Consensus       292 lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPlai~~~  329 (863)
                      .+.+.....       ..+.+..++..++|.|..+..+
T Consensus       173 ~L~~~~~~~-------~~~~~~~~l~la~Gsp~~A~~l  203 (328)
T PRK05707        173 WLQQALPES-------DERERIELLTLAGGSPLRALQL  203 (328)
T ss_pred             HHHHhcccC-------ChHHHHHHHHHcCCCHHHHHHH
Confidence            987653111       1334567889999999866554

>CHL00095 clpC Clp protease ATP binding subunit

Probab=97.49  E-value=0.00044  Score=83.67  Aligned_cols=155  Identities=17%  Similarity=0.285  Sum_probs=88.3

Q ss_pred             CCccchhHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHhhhcC--CCCCC-CEEEEEEeCCccCHHHHHHHHHHH
Q 048126          126 EPTVGLESMFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLG--APNDF-DVVIWVVVSKDLQLEKIQEKIGRR  202 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~--~~~~F-~~~~wv~~s~~~~~~~~~~~i~~~  202 (863)
                      .+++||+++++++++.|......-+.++|++|+|||++|+.++.+...  +.... +..+|. +    +...++    . 
T Consensus       179 ~~~igr~~ei~~~~~~L~r~~~~n~lL~G~pGvGKTal~~~la~~i~~~~vp~~l~~~~i~~-l----~~~~l~----a-  248 (821)
T CHL00095        179 DPVIGREKEIERVIQILGRRTKNNPILIGEPGVGKTAIAEGLAQRIVNRDVPDILEDKLVIT-L----DIGLLL----A-  248 (821)
T ss_pred             CCCCCcHHHHHHHHHHHcccccCCeEEECCCCCCHHHHHHHHHHHHHhCCCChhhcCCeEEE-e----eHHHHh----c-
Confidence            467999999999999998765556679999999999999999988721  11111 234442 1    222111    1 


Q ss_pred             hCCCCccccCCChhHHHHHHHHHh-ccCcEEEEEeccCCcc---------ccccccCCCCCCCCCcEEEEecCchhhhh-
Q 048126          203 IGFLDESWKNGSLEDKASDILRIL-SKKKFLLLLDDIWERV---------DLTKVGVPFPDPENKSKIVFTTRFLEICG-  271 (863)
Q Consensus       203 l~~~~~~~~~~~~~~~~~~l~~~l-~~kr~LlVlDdv~~~~---------~~~~~~~~l~~~~~gs~IivTtR~~~v~~-  271 (863)
                       +..    .....++....+.+.+ ..++.+|++|+++...         +...+..+.... ..-++|-+|...+... 
T Consensus       249 -g~~----~~ge~e~rl~~i~~~~~~~~~~ILfiDEih~l~~~g~~~g~~~~a~lLkp~l~r-g~l~~IgaTt~~ey~~~  322 (821)
T CHL00095        249 -GTK----YRGEFEERLKRIFDEIQENNNIILVIDEVHTLIGAGAAEGAIDAANILKPALAR-GELQCIGATTLDEYRKH  322 (821)
T ss_pred             -cCC----CccHHHHHHHHHHHHHHhcCCeEEEEecHHHHhcCCCCCCcccHHHHhHHHHhC-CCcEEEEeCCHHHHHHH
Confidence             100    1112233333333333 3468999999996421         111222111111 2245665665544311 


Q ss_pred             ------cccccceEeecCCChHHHHHHHHHH
Q 048126          272 ------AMKAHEFLKVECLGPEDAWRLFREN  296 (863)
Q Consensus       272 ------~~~~~~~~~l~~L~~~e~~~lf~~~  296 (863)
                            .......+.+...+.++...++...
T Consensus       323 ie~D~aL~rRf~~I~v~ep~~~e~~aILr~l  353 (821)
T CHL00095        323 IEKDPALERRFQPVYVGEPSVEETIEILFGL  353 (821)
T ss_pred             HhcCHHHHhcceEEecCCCCHHHHHHHHHHH
Confidence                  1112346788889999988887754

>PRK14086 dnaA chromosomal replication initiation protein; Provisional

Probab=97.47  E-value=0.0016  Score=73.83  Aligned_cols=156  Identities=20%  Similarity=0.175  Sum_probs=92.0

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHHHHhCCCCccccCCChhHHHHHHHHHh
Q 048126          147 VGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGRRIGFLDESWKNGSLEDKASDILRIL  226 (863)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l  226 (863)
                      ...+.|+|..|+|||.|++.+++...+ ...--.++|++.      .++...+...+..       ..    ...+.+.+
T Consensus       314 ~NpL~LyG~sGsGKTHLL~AIa~~a~~-~~~g~~V~Yita------eef~~el~~al~~-------~~----~~~f~~~y  375 (617)
T PRK14086        314 YNPLFIYGESGLGKTHLLHAIGHYARR-LYPGTRVRYVSS------EEFTNEFINSIRD-------GK----GDSFRRRY  375 (617)
T ss_pred             CCcEEEECCCCCCHHHHHHHHHHHHHH-hCCCCeEEEeeH------HHHHHHHHHHHHh-------cc----HHHHHHHh
Confidence            356899999999999999999998721 111124566653      3444444443321       11    12233333


Q ss_pred             ccCcEEEEEeccCCccc---cc-cccCCCCC-CCCCcEEEEecCch---------hhhhcccccceEeecCCChHHHHHH
Q 048126          227 SKKKFLLLLDDIWERVD---LT-KVGVPFPD-PENKSKIVFTTRFL---------EICGAMKAHEFLKVECLGPEDAWRL  292 (863)
Q Consensus       227 ~~kr~LlVlDdv~~~~~---~~-~~~~~l~~-~~~gs~IivTtR~~---------~v~~~~~~~~~~~l~~L~~~e~~~l  292 (863)
                      ++ -=+|||||+.....   |. .+...+.. ...|..|||||+..         .+...+...-++.++..+.+.-.++
T Consensus       376 ~~-~DLLlIDDIq~l~gke~tqeeLF~l~N~l~e~gk~IIITSd~~P~eL~~l~~rL~SRf~~GLvv~I~~PD~EtR~aI  454 (617)
T PRK14086        376 RE-MDILLVDDIQFLEDKESTQEEFFHTFNTLHNANKQIVLSSDRPPKQLVTLEDRLRNRFEWGLITDVQPPELETRIAI  454 (617)
T ss_pred             hc-CCEEEEehhccccCCHHHHHHHHHHHHHHHhcCCCEEEecCCChHhhhhccHHHHhhhhcCceEEcCCCCHHHHHHH
Confidence            33 34788999975321   21 12111111 12355688888762         2334445566789999999999999


Q ss_pred             HHHHhcccccCCCCChHHHHHHHHHHhCCchh
Q 048126          293 FRENLRRDVLDNHPDIPELARSVAKEYAGLPL  324 (863)
Q Consensus       293 f~~~~~~~~~~~~~~~~~~~~~i~~~c~glPl  324 (863)
                      +.+++......-   -+++..-|++.+.+..-
T Consensus       455 L~kka~~r~l~l---~~eVi~yLa~r~~rnvR  483 (617)
T PRK14086        455 LRKKAVQEQLNA---PPEVLEFIASRISRNIR  483 (617)
T ss_pred             HHHHHHhcCCCC---CHHHHHHHHHhccCCHH
Confidence            998876543222   25667777777765543

>COG3267 ExeA Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]

Probab=97.47  E-value=0.0048  Score=61.00  Aligned_cols=183  Identities=17%  Similarity=0.231  Sum_probs=105.7

Q ss_pred             CCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeC-CccCHHHHHHHHHHHhCCCCccccCCChhHHHHHHH
Q 048126          145 EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVS-KDLQLEKIQEKIGRRIGFLDESWKNGSLEDKASDIL  223 (863)
Q Consensus       145 ~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s-~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~  223 (863)
                      ++.+++.++|.-|.|||.+++...... .  +. +... |.+. ...+...+...++..+............++....+.
T Consensus        49 d~qg~~~vtGevGsGKTv~~Ral~~s~-~--~d-~~~~-v~i~~~~~s~~~~~~ai~~~l~~~p~~~~~~~~e~~~~~L~  123 (269)
T COG3267          49 DGQGILAVTGEVGSGKTVLRRALLASL-N--ED-QVAV-VVIDKPTLSDATLLEAIVADLESQPKVNVNAVLEQIDRELA  123 (269)
T ss_pred             cCCceEEEEecCCCchhHHHHHHHHhc-C--CC-ceEE-EEecCcchhHHHHHHHHHHHhccCccchhHHHHHHHHHHHH
Confidence            456799999999999999999666555 1  11 1222 3333 344667788888888876321101112233344444


Q ss_pred             HHh-ccCc-EEEEEeccCCcc--ccccccCC--CC-CCCCCcEEEEecCch-------hhhhccc-ccce-EeecCCChH
Q 048126          224 RIL-SKKK-FLLLLDDIWERV--DLTKVGVP--FP-DPENKSKIVFTTRFL-------EICGAMK-AHEF-LKVECLGPE  287 (863)
Q Consensus       224 ~~l-~~kr-~LlVlDdv~~~~--~~~~~~~~--l~-~~~~gs~IivTtR~~-------~v~~~~~-~~~~-~~l~~L~~~  287 (863)
                      +.. +++| ..+++||..+..  ..+.++-.  +. +...--+|+..-..+       .+..... -... |.+.|++.+
T Consensus       124 al~~~g~r~v~l~vdEah~L~~~~le~Lrll~nl~~~~~~~l~ivL~Gqp~L~~~lr~~~l~e~~~R~~ir~~l~P~~~~  203 (269)
T COG3267         124 ALVKKGKRPVVLMVDEAHDLNDSALEALRLLTNLEEDSSKLLSIVLIGQPKLRPRLRLPVLRELEQRIDIRIELPPLTEA  203 (269)
T ss_pred             HHHHhCCCCeEEeehhHhhhChhHHHHHHHHHhhcccccCceeeeecCCcccchhhchHHHHhhhheEEEEEecCCcChH
Confidence            444 3577 899999987642  22222111  11 111112233322211       0111111 1223 899999999


Q ss_pred             HHHHHHHHHhcccccCCCCChHHHHHHHHHHhCCchhHHHHHHHH
Q 048126          288 DAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGLPLALITIGRA  332 (863)
Q Consensus       288 e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPlai~~~~~~  332 (863)
                      +...++...........+---.+....|.....|.|.+|..++..
T Consensus       204 ~t~~yl~~~Le~a~~~~~l~~~~a~~~i~~~sqg~P~lin~~~~~  248 (269)
T COG3267         204 ETGLYLRHRLEGAGLPEPLFSDDALLLIHEASQGIPRLINNLATL  248 (269)
T ss_pred             HHHHHHHHHHhccCCCcccCChhHHHHHHHHhccchHHHHHHHHH
Confidence            999999988776642222233567788999999999999887744

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=97.45  E-value=0.00081  Score=81.62  Aligned_cols=156  Identities=16%  Similarity=0.239  Sum_probs=88.2

Q ss_pred             CCccchhHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCC----CCEEEEEEeCCccCHHHHHHHHHH
Q 048126          126 EPTVGLESMFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPND----FDVVIWVVVSKDLQLEKIQEKIGR  201 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~----F~~~~wv~~s~~~~~~~~~~~i~~  201 (863)
                      .++|||+.++.+++..|......-+.++|.+|+|||++|..++.+.. ....    ....+|..     ++..+.    .
T Consensus       173 ~~~igr~~ei~~~~~~l~r~~~~n~lL~G~pGvGKT~l~~~la~~i~-~~~~p~~l~~~~~~~l-----~~~~l~----a  242 (852)
T TIGR03346       173 DPVIGRDEEIRRTIQVLSRRTKNNPVLIGEPGVGKTAIVEGLAQRIV-NGDVPESLKNKRLLAL-----DMGALI----A  242 (852)
T ss_pred             CcCCCcHHHHHHHHHHHhcCCCCceEEEcCCCCCHHHHHHHHHHHHh-ccCCchhhcCCeEEEe-----eHHHHh----h
Confidence            45899999999999999776666677999999999999999998862 1110    12223221     111111    0


Q ss_pred             HhCCCCccccCCChhHHHHHHHHHhc--cCcEEEEEeccCCcc---------ccccccCCCCCCCCCcEEEEecCchhhh
Q 048126          202 RIGFLDESWKNGSLEDKASDILRILS--KKKFLLLLDDIWERV---------DLTKVGVPFPDPENKSKIVFTTRFLEIC  270 (863)
Q Consensus       202 ~l~~~~~~~~~~~~~~~~~~l~~~l~--~kr~LlVlDdv~~~~---------~~~~~~~~l~~~~~gs~IivTtR~~~v~  270 (863)
                        +..    .....+.....+.+.+.  +++.+|++|+++...         +...+..+.... ..-++|-+|...+.-
T Consensus       243 --~~~----~~g~~e~~l~~~l~~~~~~~~~~ILfIDEih~l~~~g~~~~~~d~~~~Lk~~l~~-g~i~~IgaTt~~e~r  315 (852)
T TIGR03346       243 --GAK----YRGEFEERLKAVLNEVTKSEGQIILFIDELHTLVGAGKAEGAMDAGNMLKPALAR-GELHCIGATTLDEYR  315 (852)
T ss_pred             --cch----hhhhHHHHHHHHHHHHHhcCCCeEEEeccHHHhhcCCCCcchhHHHHHhchhhhc-CceEEEEeCcHHHHH
Confidence              000    01122223333333332  468999999997532         111222222211 224555555544331


Q ss_pred             h-------cccccceEeecCCChHHHHHHHHHHhc
Q 048126          271 G-------AMKAHEFLKVECLGPEDAWRLFRENLR  298 (863)
Q Consensus       271 ~-------~~~~~~~~~l~~L~~~e~~~lf~~~~~  298 (863)
                      .       ...-...+.++..+.++...++.....
T Consensus       316 ~~~~~d~al~rRf~~i~v~~p~~~~~~~iL~~~~~  350 (852)
T TIGR03346       316 KYIEKDAALERRFQPVFVDEPTVEDTISILRGLKE  350 (852)
T ss_pred             HHhhcCHHHHhcCCEEEeCCCCHHHHHHHHHHHHH
Confidence            1       111224678888999999998876543

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.

>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional

Probab=97.44  E-value=0.00081  Score=79.34  Aligned_cols=156  Identities=18%  Similarity=0.299  Sum_probs=89.2

Q ss_pred             CCccchhHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCC---CCEEEEEEeCCccCHHHHHHHHHHH
Q 048126          126 EPTVGLESMFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPND---FDVVIWVVVSKDLQLEKIQEKIGRR  202 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~---F~~~~wv~~s~~~~~~~~~~~i~~~  202 (863)
                      ++++||+.++.++++.|......-+.++|.+|+|||++|+.++.........   .++.+|..     +...+    +. 
T Consensus       186 ~~liGR~~ei~~~i~iL~r~~~~n~LLvGppGvGKT~lae~la~~i~~~~vP~~l~~~~~~~l-----~~~~l----la-  255 (758)
T PRK11034        186 DPLIGREKELERAIQVLCRRRKNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSL-----DIGSL----LA-  255 (758)
T ss_pred             CcCcCCCHHHHHHHHHHhccCCCCeEEECCCCCCHHHHHHHHHHHHHhcCCCchhcCCeEEec-----cHHHH----hc-
Confidence            4579999999999999977555566789999999999999999875211111   23444421     11111    10 


Q ss_pred             hCCCCccccCCChhHHHHHHHHHh-ccCcEEEEEeccCCc----------cccccccCCCCCCCCCcEEEEecCchhhhh
Q 048126          203 IGFLDESWKNGSLEDKASDILRIL-SKKKFLLLLDDIWER----------VDLTKVGVPFPDPENKSKIVFTTRFLEICG  271 (863)
Q Consensus       203 l~~~~~~~~~~~~~~~~~~l~~~l-~~kr~LlVlDdv~~~----------~~~~~~~~~l~~~~~gs~IivTtR~~~v~~  271 (863)
                       +..    .....+.....+.+.+ +..+.+|++|+++..          .+...+..++.. ...-++|-+|...+...
T Consensus       256 -G~~----~~Ge~e~rl~~l~~~l~~~~~~ILfIDEIh~L~g~g~~~~g~~d~~nlLkp~L~-~g~i~vIgATt~~E~~~  329 (758)
T PRK11034        256 -GTK----YRGDFEKRFKALLKQLEQDTNSILFIDEIHTIIGAGAASGGQVDAANLIKPLLS-SGKIRVIGSTTYQEFSN  329 (758)
T ss_pred             -ccc----hhhhHHHHHHHHHHHHHhcCCCEEEeccHHHHhccCCCCCcHHHHHHHHHHHHh-CCCeEEEecCChHHHHH
Confidence             000    0112233333333333 346789999999742          111112222221 12345555555443211


Q ss_pred             -------cccccceEeecCCChHHHHHHHHHHh
Q 048126          272 -------AMKAHEFLKVECLGPEDAWRLFRENL  297 (863)
Q Consensus       272 -------~~~~~~~~~l~~L~~~e~~~lf~~~~  297 (863)
                             ...-...+.++..+.+++.+++....
T Consensus       330 ~~~~D~AL~rRFq~I~v~ePs~~~~~~IL~~~~  362 (758)
T PRK11034        330 IFEKDRALARRFQKIDITEPSIEETVQIINGLK  362 (758)
T ss_pred             HhhccHHHHhhCcEEEeCCCCHHHHHHHHHHHH
Confidence                   11122478999999999999998654

>smart00382 AAA ATPases associated with a variety of cellular activities

Probab=97.43  E-value=0.00049  Score=63.89  Aligned_cols=89  Identities=27%  Similarity=0.156  Sum_probs=49.6

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHHHHhCCCCccccCCChhHHHHHHHHHhc
Q 048126          148 GIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGRRIGFLDESWKNGSLEDKASDILRILS  227 (863)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~  227 (863)
                      ..+.|+|++|+||||+|+.++....   .....++++..+........... ........   ...........+.+..+
T Consensus         3 ~~~~l~G~~G~GKTtl~~~l~~~~~---~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~---~~~~~~~~~~~~~~~~~   75 (148)
T smart00382        3 EVILIVGPPGSGKTTLARALARELG---PPGGGVIYIDGEDILEEVLDQLL-LIIVGGKK---ASGSGELRLRLALALAR   75 (148)
T ss_pred             CEEEEECCCCCcHHHHHHHHHhccC---CCCCCEEEECCEEccccCHHHHH-hhhhhccC---CCCCHHHHHHHHHHHHH
Confidence            5789999999999999999999872   22234566655443322222111 00111000   11222233334444444


Q ss_pred             cC-cEEEEEeccCCccc
Q 048126          228 KK-KFLLLLDDIWERVD  243 (863)
Q Consensus       228 ~k-r~LlVlDdv~~~~~  243 (863)
                      .. ..+|++|+++....
T Consensus        76 ~~~~~viiiDei~~~~~   92 (148)
T smart00382       76 KLKPDVLILDEITSLLD   92 (148)
T ss_pred             hcCCCEEEEECCcccCC
Confidence            44 48999999987543

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.

>TIGR03689 pup_AAA proteasome ATPase

Probab=97.43  E-value=0.0011  Score=74.08  Aligned_cols=161  Identities=13%  Similarity=0.160  Sum_probs=88.4

Q ss_pred             CCccchhHHHHHHHHHhcC-------------CCccEEEEEcCCCCcHHHHHHHHHhhhcCCC---CCCCEEEEEEeCCc
Q 048126          126 EPTVGLESMFDKVWRCLGE-------------EQVGIIGLYGMGGVGKTTLLTKINNKLLGAP---NDFDVVIWVVVSKD  189 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~-------------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~---~~F~~~~wv~~s~~  189 (863)
                      ..+.|.+..+++|.+.+.-             ...+-+.++|++|+|||++|+.+++.. ...   ..+....|+.+...
T Consensus       182 ~dIgGl~~~i~~i~~~v~lp~~~~~l~~~~gl~~p~GILLyGPPGTGKT~LAKAlA~eL-~~~i~~~~~~~~~fl~v~~~  260 (512)
T TIGR03689       182 ADIGGLDSQIEQIRDAVELPFLHPELYREYDLKPPKGVLLYGPPGCGKTLIAKAVANSL-AQRIGAETGDKSYFLNIKGP  260 (512)
T ss_pred             HHcCChHHHHHHHHHHHHHHhhCHHHHHhccCCCCcceEEECCCCCcHHHHHHHHHHhh-ccccccccCCceeEEeccch
Confidence            3456899999998887631             134568899999999999999999987 211   01223445554432


Q ss_pred             cCHHHHHHHHHHHhCCCCccccCCChhHHHHHHHHH-hccCcEEEEEeccCCcc---------cc-----ccccCCCCC-
Q 048126          190 LQLEKIQEKIGRRIGFLDESWKNGSLEDKASDILRI-LSKKKFLLLLDDIWERV---------DL-----TKVGVPFPD-  253 (863)
Q Consensus       190 ~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~-l~~kr~LlVlDdv~~~~---------~~-----~~~~~~l~~-  253 (863)
                          .+..    .....    .......+....++. -.+++.+|+||+++...         +.     ..+...+.. 
T Consensus       261 ----eLl~----kyvGe----te~~ir~iF~~Ar~~a~~g~p~IIfIDEiD~L~~~R~~~~s~d~e~~il~~LL~~LDgl  328 (512)
T TIGR03689       261 ----ELLN----KYVGE----TERQIRLIFQRAREKASDGRPVIVFFDEMDSIFRTRGSGVSSDVETTVVPQLLSELDGV  328 (512)
T ss_pred             ----hhcc----cccch----HHHHHHHHHHHHHHHhhcCCCceEEEehhhhhhcccCCCccchHHHHHHHHHHHHhccc
Confidence                1110    00000    000011111122221 12478999999997421         11     122222221 


Q ss_pred             -CCCCcEEEEecCchhhhh-c-c---cccceEeecCCChHHHHHHHHHHhcc
Q 048126          254 -PENKSKIVFTTRFLEICG-A-M---KAHEFLKVECLGPEDAWRLFRENLRR  299 (863)
Q Consensus       254 -~~~gs~IivTtR~~~v~~-~-~---~~~~~~~l~~L~~~e~~~lf~~~~~~  299 (863)
                       ...+..||.||....... . .   .-+..+.++..+.++..++|+.++..
T Consensus       329 ~~~~~ViVI~ATN~~d~LDpALlRpGRfD~~I~~~~Pd~e~r~~Il~~~l~~  380 (512)
T TIGR03689       329 ESLDNVIVIGASNREDMIDPAILRPGRLDVKIRIERPDAEAAADIFSKYLTD  380 (512)
T ss_pred             ccCCceEEEeccCChhhCCHhhcCccccceEEEeCCCCHHHHHHHHHHHhhc
Confidence             113445566665543311 1 1   22456899999999999999988643

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.

>TIGR00763 lon ATP-dependent protease La

Probab=97.42  E-value=0.01  Score=71.51  Aligned_cols=46  Identities=33%  Similarity=0.426  Sum_probs=38.1

Q ss_pred             CCccchhHHHHHHHHHhcC------CCccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          126 EPTVGLESMFDKVWRCLGE------EQVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~------~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ..++|.+..++.|.+++..      ....++.++|++|+|||++|+.+++..
T Consensus       320 ~~~~G~~~~k~~i~~~~~~~~~~~~~~~~~lll~GppG~GKT~lAk~iA~~l  371 (775)
T TIGR00763       320 EDHYGLKKVKERILEYLAVQKLRGKMKGPILCLVGPPGVGKTSLGKSIAKAL  371 (775)
T ss_pred             hhcCChHHHHHHHHHHHHHHHhhcCCCCceEEEECCCCCCHHHHHHHHHHHh
Confidence            3468999999999887642      234589999999999999999999987

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.

>PRK07399 DNA polymerase III subunit delta'; Validated

Probab=97.41  E-value=0.005  Score=65.29  Aligned_cols=198  Identities=14%  Similarity=0.138  Sum_probs=108.6

Q ss_pred             CCccchhHHHHHHHHHhcCCCc-cEEEEEcCCCCcHHHHHHHHHhhhcCC------------CCCCCEEEEEEeCCccCH
Q 048126          126 EPTVGLESMFDKVWRCLGEEQV-GIIGLYGMGGVGKTTLLTKINNKLLGA------------PNDFDVVIWVVVSKDLQL  192 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~~~~------------~~~F~~~~wv~~s~~~~~  192 (863)
                      .+++|-+..++.+.+.+..+++ +..-++|+.|+||+++|..+++.....            ...+.-..|+.-....+-
T Consensus         4 ~~iiGq~~~~~~L~~~i~~~rl~ha~Lf~G~~G~Gk~~~A~~~a~~llc~~~c~~c~~~~~~~~~hPDl~~i~p~~~~~g   83 (314)
T PRK07399          4 ANLIGQPLAIELLTAAIKQNRIAPAYLFAGPEGVGRKLAALCFIEGLLSQGSPSKNIRRRLEEGNHPDLLWVEPTYQHQG   83 (314)
T ss_pred             HHhCCHHHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHHHHHHHHHcCCCCCCCcHhcccccCCCCCEEEEeccccccc
Confidence            4578999999999999988765 789999999999999999988775211            011122334321100000


Q ss_pred             HHHHHHHHHHhCCCCccccCCChhHHHHHHHHHhc-----cCcEEEEEeccCCcc--ccccccCCCCCCCCCcEEEEecC
Q 048126          193 EKIQEKIGRRIGFLDESWKNGSLEDKASDILRILS-----KKKFLLLLDDIWERV--DLTKVGVPFPDPENKSKIVFTTR  265 (863)
Q Consensus       193 ~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~-----~kr~LlVlDdv~~~~--~~~~~~~~l~~~~~gs~IivTtR  265 (863)
                      ..+-...++..+...........++ ++.+.+.+.     +.+-++|+|+++...  ....+...+....+..-|++|++
T Consensus        84 ~~~~~~~~~~~~~~~~~~~~I~id~-ir~i~~~l~~~p~~~~~kVvII~~ae~m~~~aaNaLLK~LEEPp~~~fILi~~~  162 (314)
T PRK07399         84 KLITASEAEEAGLKRKAPPQIRLEQ-IREIKRFLSRPPLEAPRKVVVIEDAETMNEAAANALLKTLEEPGNGTLILIAPS  162 (314)
T ss_pred             cccchhhhhhccccccccccCcHHH-HHHHHHHHccCcccCCceEEEEEchhhcCHHHHHHHHHHHhCCCCCeEEEEECC
Confidence            0000111111111000001111222 233444443     456789999987542  23333333322223333444544


Q ss_pred             chhhhhcc-cccceEeecCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCCchhHHHHHH
Q 048126          266 FLEICGAM-KAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGLPLALITIG  330 (863)
Q Consensus       266 ~~~v~~~~-~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPlai~~~~  330 (863)
                      ...+.... .-...+.+.+++.++..+.+.+......      .......++..++|.|..+..+.
T Consensus       163 ~~~Ll~TI~SRcq~i~f~~l~~~~~~~~L~~~~~~~~------~~~~~~~l~~~a~Gs~~~al~~l  222 (314)
T PRK07399        163 PESLLPTIVSRCQIIPFYRLSDEQLEQVLKRLGDEEI------LNINFPELLALAQGSPGAAIANI  222 (314)
T ss_pred             hHhCcHHHHhhceEEecCCCCHHHHHHHHHHhhcccc------chhHHHHHHHHcCCCHHHHHHHH
Confidence            44443322 2235789999999999999987643211      11123678999999997665533

>TIGR01241 FtsH_fam ATP-dependent metalloprotease FtsH

Probab=97.41  E-value=0.0038  Score=71.28  Aligned_cols=170  Identities=12%  Similarity=0.117  Sum_probs=92.1

Q ss_pred             CCccchhHHHHHHHHHhc---C---------CCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHH
Q 048126          126 EPTVGLESMFDKVWRCLG---E---------EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLE  193 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~---~---------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~  193 (863)
                      .+++|.+..++++.+.+.   .         ...+-+.++|++|+|||++|+.+++..   ...|     +.++.    .
T Consensus        55 ~di~g~~~~k~~l~~~~~~l~~~~~~~~~g~~~~~giLL~GppGtGKT~la~alA~~~---~~~~-----~~i~~----~  122 (495)
T TIGR01241        55 KDVAGIDEAKEELMEIVDFLKNPSKFTKLGAKIPKGVLLVGPPGTGKTLLAKAVAGEA---GVPF-----FSISG----S  122 (495)
T ss_pred             HHhCCHHHHHHHHHHHHHHHHCHHHHHhcCCCCCCcEEEECCCCCCHHHHHHHHHHHc---CCCe-----eeccH----H
Confidence            346788877766655442   1         123458899999999999999999876   2222     22221    1


Q ss_pred             HHHHHHHHHhCCCCccccCCChhHHHHHHHHHhccCcEEEEEeccCCccc------------c----ccccCCCC--CCC
Q 048126          194 KIQEKIGRRIGFLDESWKNGSLEDKASDILRILSKKKFLLLLDDIWERVD------------L----TKVGVPFP--DPE  255 (863)
Q Consensus       194 ~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~------------~----~~~~~~l~--~~~  255 (863)
                      .+....           .......+...+.......+.+|++||++....            +    ..+...+.  ...
T Consensus       123 ~~~~~~-----------~g~~~~~l~~~f~~a~~~~p~Il~iDEid~l~~~r~~~~~~~~~~~~~~~~~lL~~~d~~~~~  191 (495)
T TIGR01241       123 DFVEMF-----------VGVGASRVRDLFEQAKKNAPCIIFIDEIDAVGRQRGAGLGGGNDEREQTLNQLLVEMDGFGTN  191 (495)
T ss_pred             HHHHHH-----------hcccHHHHHHHHHHHHhcCCCEEEEechhhhhhccccCcCCccHHHHHHHHHHHhhhccccCC
Confidence            111110           011112223333334445678999999964210            0    11111111  122


Q ss_pred             CCcEEEEecCchhh-----hhcccccceEeecCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCCc
Q 048126          256 NKSKIVFTTRFLEI-----CGAMKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGL  322 (863)
Q Consensus       256 ~gs~IivTtR~~~v-----~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~gl  322 (863)
                      .+..||.||.....     .+...-+..+.++..+.++-.++|+..+........    .....+++.+.|.
T Consensus       192 ~~v~vI~aTn~~~~ld~al~r~gRfd~~i~i~~Pd~~~R~~il~~~l~~~~~~~~----~~l~~la~~t~G~  259 (495)
T TIGR01241       192 TGVIVIAATNRPDVLDPALLRPGRFDRQVVVDLPDIKGREEILKVHAKNKKLAPD----VDLKAVARRTPGF  259 (495)
T ss_pred             CCeEEEEecCChhhcCHHHhcCCcceEEEEcCCCCHHHHHHHHHHHHhcCCCCcc----hhHHHHHHhCCCC
Confidence            34556666655432     111123456888888888888888877654321111    1245777777774

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.

>KOG1947 consensus Leucine rich repeat proteins, some proteins contain F-box [General function prediction only]

Probab=97.36  E-value=4e-05  Score=88.01  Aligned_cols=115  Identities=23%  Similarity=0.173  Sum_probs=61.5

Q ss_pred             ccCCCCeEEccCC-Cccc--cchhhhcCCCCCEEecCCc-cccCCCc---HHHhhcCCCCcEEEeeccccccCchhhHHH
Q 048126          562 TLVSLEHLDLSGT-AITH--LPIELQKLVNLKCLNLEYM-YNLNQFP---RLVMSAFSKLQVLRILKSNVLFGGHQFLVE  634 (863)
Q Consensus       562 ~l~~L~~L~L~~~-~l~~--lp~~~~~l~~L~~L~l~~~-~~l~~lp---~~~~~~L~~L~~L~l~~~~~~~~~~~~~~~  634 (863)
                      .+++|+.|.+.++ .+..  +-.....+++|+.|++++| ......+   ......+.+|+.|++..+....+   ..+.
T Consensus       186 ~~~~L~~l~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~L~~l~l~~~~~isd---~~l~  262 (482)
T KOG1947|consen  186 SCPLLKRLSLSGCSKITDDSLDALALKCPNLEELDLSGCCLLITLSPLLLLLLLSICRKLKSLDLSGCGLVTD---IGLS  262 (482)
T ss_pred             hCchhhHhhhcccccCChhhHHHHHhhCchhheecccCcccccccchhHhhhhhhhcCCcCccchhhhhccCc---hhHH
Confidence            3677888888877 5554  4456777888888888772 2222222   12245567778888777764332   2233


Q ss_pred             HHcC-CccCceEEEEEcChHHHHHHhhhhhhhhcceeeeeccccCC
Q 048126          635 ELMG-MKHLMALTITLKSWEALQELLISQELQRCTQSLFLRCFNDS  679 (863)
Q Consensus       635 ~l~~-L~~L~~L~l~~~~~~~~~~l~~~~~~~~~L~~L~l~~~~~~  679 (863)
                      .+.. +++|+.|.+..+..-.-..+.......++|+.|++++|...
T Consensus       263 ~l~~~c~~L~~L~l~~c~~lt~~gl~~i~~~~~~L~~L~l~~c~~~  308 (482)
T KOG1947|consen  263 ALASRCPNLETLSLSNCSNLTDEGLVSIAERCPSLRELDLSGCHGL  308 (482)
T ss_pred             HHHhhCCCcceEccCCCCccchhHHHHHHHhcCcccEEeeecCccc
Confidence            3322 55666666443332111222222233345666666555544

>PRK08116 hypothetical protein; Validated

Probab=97.35  E-value=0.00031  Score=72.71  Aligned_cols=101  Identities=25%  Similarity=0.287  Sum_probs=58.0

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHHHHhCCCCccccCCChhHHHHHHHHHhc
Q 048126          148 GIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGRRIGFLDESWKNGSLEDKASDILRILS  227 (863)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~  227 (863)
                      ..+.++|..|+|||+||..+++...   ..-..++|++      ..+++..+........    ..+    ...+.+.+.
T Consensus       115 ~gl~l~G~~GtGKThLa~aia~~l~---~~~~~v~~~~------~~~ll~~i~~~~~~~~----~~~----~~~~~~~l~  177 (268)
T PRK08116        115 VGLLLWGSVGTGKTYLAACIANELI---EKGVPVIFVN------FPQLLNRIKSTYKSSG----KED----ENEIIRSLV  177 (268)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHHH---HcCCeEEEEE------HHHHHHHHHHHHhccc----ccc----HHHHHHHhc
Confidence            4588999999999999999999972   2233466665      3445555554443211    111    222334444


Q ss_pred             cCcEEEEEeccCC--cccccc--ccCCCCC-CCCCcEEEEecCc
Q 048126          228 KKKFLLLLDDIWE--RVDLTK--VGVPFPD-PENKSKIVFTTRF  266 (863)
Q Consensus       228 ~kr~LlVlDdv~~--~~~~~~--~~~~l~~-~~~gs~IivTtR~  266 (863)
                      +-. ||||||+..  ..+|..  +...+.. -..|..+|+||..
T Consensus       178 ~~d-lLviDDlg~e~~t~~~~~~l~~iin~r~~~~~~~IiTsN~  220 (268)
T PRK08116        178 NAD-LLILDDLGAERDTEWAREKVYNIIDSRYRKGLPTIVTTNL  220 (268)
T ss_pred             CCC-EEEEecccCCCCCHHHHHHHHHHHHHHHHCCCCEEEECCC
Confidence            444 899999953  233432  2111111 1245668888864

>KOG1644 consensus U2-associated snRNP A' protein [RNA processing and modification]

Probab=97.34  E-value=0.00029  Score=66.46  Aligned_cols=101  Identities=28%  Similarity=0.471  Sum_probs=69.0

Q ss_pred             ceEEEEeccccccccccCCCCCccceEEccCCccccccchhhhcCCCccEEEccCCCccccCC--ccccccCCCCeEEcc
Q 048126          495 NVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLP--SGISTLVSLEHLDLS  572 (863)
Q Consensus       495 ~lr~L~l~~~~~~~l~~~~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~lp--~~i~~l~~L~~L~L~  572 (863)
                      ....+++.+|++..+..++.++.|.+|.+.+|.|+.+.+..-.-+++|..|.|.+|+ +..+-  .-+..++.|++|.+-
T Consensus        43 ~~d~iDLtdNdl~~l~~lp~l~rL~tLll~nNrIt~I~p~L~~~~p~l~~L~LtnNs-i~~l~dl~pLa~~p~L~~Ltll  121 (233)
T KOG1644|consen   43 QFDAIDLTDNDLRKLDNLPHLPRLHTLLLNNNRITRIDPDLDTFLPNLKTLILTNNS-IQELGDLDPLASCPKLEYLTLL  121 (233)
T ss_pred             ccceecccccchhhcccCCCccccceEEecCCcceeeccchhhhccccceEEecCcc-hhhhhhcchhccCCccceeeec
Confidence            455677777877777777788888888888888887777755566778888888873 32221  234566777888777


Q ss_pred             CCCccccch----hhhcCCCCCEEecCC
Q 048126          573 GTAITHLPI----ELQKLVNLKCLNLEY  596 (863)
Q Consensus       573 ~~~l~~lp~----~~~~l~~L~~L~l~~  596 (863)
                      +|.++..+.    .++++++|++||...
T Consensus       122 ~Npv~~k~~YR~yvl~klp~l~~LDF~k  149 (233)
T KOG1644|consen  122 GNPVEHKKNYRLYVLYKLPSLRTLDFQK  149 (233)
T ss_pred             CCchhcccCceeEEEEecCcceEeehhh
Confidence            777664432    356667777776654

>PRK10536 hypothetical protein; Provisional

Probab=97.33  E-value=0.0016  Score=65.42  Aligned_cols=136  Identities=10%  Similarity=0.109  Sum_probs=75.0

Q ss_pred             CCccchhHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEE--e--CCc-----cCHH---
Q 048126          126 EPTVGLESMFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVV--V--SKD-----LQLE---  193 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~--~--s~~-----~~~~---  193 (863)
                      ..+.+|......++.++.+.  .++.+.|..|+|||+||..++.+. -....|+.++.+.  +  ++.     -+..   
T Consensus        55 ~~i~p~n~~Q~~~l~al~~~--~lV~i~G~aGTGKT~La~a~a~~~-l~~~~~~kIiI~RP~v~~ge~LGfLPG~~~eK~  131 (262)
T PRK10536         55 SPILARNEAQAHYLKAIESK--QLIFATGEAGCGKTWISAAKAAEA-LIHKDVDRIIVTRPVLQADEDLGFLPGDIAEKF  131 (262)
T ss_pred             ccccCCCHHHHHHHHHHhcC--CeEEEECCCCCCHHHHHHHHHHHH-HhcCCeeEEEEeCCCCCchhhhCcCCCCHHHHH
Confidence            44568888888888888653  599999999999999999998864 1123455433321  1  110     0111   


Q ss_pred             -HHHHHHHHHhCCCCccccCCChhHHHH--------HHHHHhccCcE---EEEEeccCCccccccccCCCCCCCCCcEEE
Q 048126          194 -KIQEKIGRRIGFLDESWKNGSLEDKAS--------DILRILSKKKF---LLLLDDIWERVDLTKVGVPFPDPENKSKIV  261 (863)
Q Consensus       194 -~~~~~i~~~l~~~~~~~~~~~~~~~~~--------~l~~~l~~kr~---LlVlDdv~~~~~~~~~~~~l~~~~~gs~Ii  261 (863)
                       -.++-+.+.+....   .....+....        .=..+++++.+   +||+|++.+... ..+...+...+.+|+||
T Consensus       132 ~p~~~pi~D~L~~~~---~~~~~~~~~~~~~~~Iei~~l~ymRGrtl~~~~vIvDEaqn~~~-~~~k~~ltR~g~~sk~v  207 (262)
T PRK10536        132 APYFRPVYDVLVRRL---GASFMQYCLRPEIGKVEIAPFAYMRGRTFENAVVILDEAQNVTA-AQMKMFLTRLGENVTVI  207 (262)
T ss_pred             HHHHHHHHHHHHHHh---ChHHHHHHHHhccCcEEEecHHHhcCCcccCCEEEEechhcCCH-HHHHHHHhhcCCCCEEE
Confidence             11222222221100   0000010100        00236667654   999999987543 22222233456789999


Q ss_pred             EecCchh
Q 048126          262 FTTRFLE  268 (863)
Q Consensus       262 vTtR~~~  268 (863)
                      +|--..+
T Consensus       208 ~~GD~~Q  214 (262)
T PRK10536        208 VNGDITQ  214 (262)
T ss_pred             EeCChhh
Confidence            9876543

>PRK08118 topology modulation protein; Reviewed

Probab=97.33  E-value=0.00015  Score=69.48  Aligned_cols=36  Identities=36%  Similarity=0.580  Sum_probs=28.5

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEE
Q 048126          148 GIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIW  183 (863)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~w  183 (863)
                      ..|.|+|++|+||||||+.+++...-..-+||..+|
T Consensus         2 ~rI~I~G~~GsGKSTlak~L~~~l~~~~~~lD~l~~   37 (167)
T PRK08118          2 KKIILIGSGGSGKSTLARQLGEKLNIPVHHLDALFW   37 (167)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHhCCCceecchhhc
Confidence            468899999999999999999987222256777775

>COG0593 DnaA ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]

Probab=97.32  E-value=0.0009  Score=71.96  Aligned_cols=134  Identities=20%  Similarity=0.204  Sum_probs=82.9

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCC--EEEEEEeCCccCHHHHHHHHHHHhCCCCccccCCChhHHHHHHH
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFD--VVIWVVVSKDLQLEKIQEKIGRRIGFLDESWKNGSLEDKASDIL  223 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~--~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~  223 (863)
                      ....+.|||..|.|||.|++++.+..   .....  .+++++      .+.....++..+..           .....++
T Consensus       112 ~~nplfi~G~~GlGKTHLl~Aign~~---~~~~~~a~v~y~~------se~f~~~~v~a~~~-----------~~~~~Fk  171 (408)
T COG0593         112 AYNPLFIYGGVGLGKTHLLQAIGNEA---LANGPNARVVYLT------SEDFTNDFVKALRD-----------NEMEKFK  171 (408)
T ss_pred             cCCcEEEECCCCCCHHHHHHHHHHHH---HhhCCCceEEecc------HHHHHHHHHHHHHh-----------hhHHHHH
Confidence            47799999999999999999999998   23333  344442      23333333333321           1233444


Q ss_pred             HHhccCcEEEEEeccCCccc---cc-cccCCCCC-CCCCcEEEEecCch---------hhhhcccccceEeecCCChHHH
Q 048126          224 RILSKKKFLLLLDDIWERVD---LT-KVGVPFPD-PENKSKIVFTTRFL---------EICGAMKAHEFLKVECLGPEDA  289 (863)
Q Consensus       224 ~~l~~kr~LlVlDdv~~~~~---~~-~~~~~l~~-~~~gs~IivTtR~~---------~v~~~~~~~~~~~l~~L~~~e~  289 (863)
                      +..  .-=++++||++-...   |+ ++...+.. ...|-.||+|++..         .+...+...-.+.+.+.+.+.-
T Consensus       172 ~~y--~~dlllIDDiq~l~gk~~~qeefFh~FN~l~~~~kqIvltsdr~P~~l~~~~~rL~SR~~~Gl~~~I~~Pd~e~r  249 (408)
T COG0593         172 EKY--SLDLLLIDDIQFLAGKERTQEEFFHTFNALLENGKQIVLTSDRPPKELNGLEDRLRSRLEWGLVVEIEPPDDETR  249 (408)
T ss_pred             Hhh--ccCeeeechHhHhcCChhHHHHHHHHHHHHHhcCCEEEEEcCCCchhhccccHHHHHHHhceeEEeeCCCCHHHH
Confidence            444  333888999975322   21 22111111 12344899999653         3344555567899999999999


Q ss_pred             HHHHHHHhcccc
Q 048126          290 WRLFRENLRRDV  301 (863)
Q Consensus       290 ~~lf~~~~~~~~  301 (863)
                      ...+.+.+....
T Consensus       250 ~aiL~kka~~~~  261 (408)
T COG0593         250 LAILRKKAEDRG  261 (408)
T ss_pred             HHHHHHHHHhcC
Confidence            999999776554

>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=97.29  E-value=0.017  Score=62.03  Aligned_cols=198  Identities=14%  Similarity=0.189  Sum_probs=125.4

Q ss_pred             hhHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHH-HHHHhhhcCCCCCCCEEEEEEeCCcc---CHHHHHHHHHHHhCCC
Q 048126          131 LESMFDKVWRCLGEEQVGIIGLYGMGGVGKTTLL-TKINNKLLGAPNDFDVVIWVVVSKDL---QLEKIQEKIGRRIGFL  206 (863)
Q Consensus       131 r~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa-~~v~~~~~~~~~~F~~~~wv~~s~~~---~~~~~~~~i~~~l~~~  206 (863)
                      |.+.+++|..||.+..-..|.|.|+-|.||+.|+ .++..+. +      .++.|.|.+-.   +-..+...++.++|.-
T Consensus         1 R~e~~~~L~~wL~e~~~TFIvV~GPrGSGK~elV~d~~L~~r-~------~vL~IDC~~i~~ar~D~~~I~~lA~qvGY~   73 (431)
T PF10443_consen    1 RKEAIEQLKSWLNENPNTFIVVQGPRGSGKRELVMDHVLKDR-K------NVLVIDCDQIVKARGDAAFIKNLASQVGYF   73 (431)
T ss_pred             CchHHHHHHHHHhcCCCeEEEEECCCCCCccHHHHHHHHhCC-C------CEEEEEChHhhhccChHHHHHHHHHhcCCC
Confidence            5678899999999877789999999999999999 7777664 1      27777765432   3445666666666532


Q ss_pred             C-----------------------ccccCCChhHHHHHH-------HH-------------------Hhc---cCcEEEE
Q 048126          207 D-----------------------ESWKNGSLEDKASDI-------LR-------------------ILS---KKKFLLL  234 (863)
Q Consensus       207 ~-----------------------~~~~~~~~~~~~~~l-------~~-------------------~l~---~kr~LlV  234 (863)
                      .                       ..+......++...+       ++                   +|.   .+|=+||
T Consensus        74 PvFsw~nSiss~IDLa~qGltGqKaGfSes~e~Ql~~IL~~t~~ALr~ial~~~~~~~~~~~l~e~~yl~~hPe~~PVVV  153 (431)
T PF10443_consen   74 PVFSWMNSISSFIDLAVQGLTGQKAGFSESLETQLKKILQTTATALRDIALSNRKKDDKDANLKEEDYLEAHPERRPVVV  153 (431)
T ss_pred             cchHHHHHHHHHHHHHHhhccccccCCCCChHHHHHHHHHHHHHHHHHHHHHhhhccccccccCchhhhhhCCccCCEEE
Confidence            1                       001111122222111       11                   011   1256899


Q ss_pred             EeccCCc-----------cccccccCCCCCCCCCcEEEEecCchhh----hhccc--ccceEeecCCChHHHHHHHHHHh
Q 048126          235 LDDIWER-----------VDLTKVGVPFPDPENKSKIVFTTRFLEI----CGAMK--AHEFLKVECLGPEDAWRLFRENL  297 (863)
Q Consensus       235 lDdv~~~-----------~~~~~~~~~l~~~~~gs~IivTtR~~~v----~~~~~--~~~~~~l~~L~~~e~~~lf~~~~  297 (863)
                      +|+.-..           .+|.....    ..+-.+||++|-+...    ...+.  ..+.+.|...+.+.|..+.....
T Consensus       154 IdnF~~k~~~~~~iy~~laeWAa~Lv----~~nIAHVIFlT~dv~~~k~LskaLPn~vf~tI~L~Das~~~Ak~yV~~~L  229 (431)
T PF10443_consen  154 IDNFLHKAEENDFIYDKLAEWAASLV----QNNIAHVIFLTDDVSYSKPLSKALPNRVFKTISLSDASPESAKQYVLSQL  229 (431)
T ss_pred             EcchhccCcccchHHHHHHHHHHHHH----hcCccEEEEECCCCchhhhHHHhCCCCceeEEeecCCCHHHHHHHHHHHh
Confidence            9997542           23433211    1244678988877544    23332  34568899999999999999887


Q ss_pred             cccccC------------CC-----CChHHHHHHHHHHhCCchhHHHHHHHHhcCCCCh
Q 048126          298 RRDVLD------------NH-----PDIPELARSVAKEYAGLPLALITIGRAMTCKKTT  339 (863)
Q Consensus       298 ~~~~~~------------~~-----~~~~~~~~~i~~~c~glPlai~~~~~~l~~~~~~  339 (863)
                      ......            .+     .....-....++..||--.-+..+++.++...++
T Consensus       230 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~eld~~i~~LGGRltDLe~lvrRiksGe~p  288 (431)
T PF10443_consen  230 DEDTEDSSDSKESNEQNKNDKSAENEKDLAELDECIEPLGGRLTDLEFLVRRIKSGESP  288 (431)
T ss_pred             cccccccccccccccccccccccccccchHHHHHHHHHcCCcHHHHHHHHHHHHcCCCH
Confidence            653210            00     1233445677888999999999999999876554

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 [].

>TIGR00602 rad24 checkpoint protein rad24

Probab=97.29  E-value=0.0013  Score=75.59  Aligned_cols=46  Identities=20%  Similarity=0.258  Sum_probs=39.0

Q ss_pred             CCccchhHHHHHHHHHhcCC-----CccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          126 EPTVGLESMFDKVWRCLGEE-----QVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~-----~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ++++|-+..++++..++...     ..+++.|+|+.|+||||+++.++...
T Consensus        84 del~~~~~ki~~l~~~l~~~~~~~~~~~illL~GP~GsGKTTl~~~la~~l  134 (637)
T TIGR00602        84 HELAVHKKKIEEVETWLKAQVLENAPKRILLITGPSGCGKSTTIKILSKEL  134 (637)
T ss_pred             HHhcCcHHHHHHHHHHHHhcccccCCCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            45789999999999998652     33579999999999999999999876

This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).

>CHL00176 ftsH cell division protein; Validated

Probab=97.27  E-value=0.0056  Score=71.06  Aligned_cols=169  Identities=15%  Similarity=0.168  Sum_probs=94.5

Q ss_pred             CCccchhHHHHHHHHHh---cCC---------CccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHH
Q 048126          126 EPTVGLESMFDKVWRCL---GEE---------QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLE  193 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L---~~~---------~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~  193 (863)
                      .+++|.++.++++.+.+   ...         ..+-|.++|++|+|||++|+.++...   ...     |+.++..    
T Consensus       183 ~dv~G~~~~k~~l~eiv~~lk~~~~~~~~g~~~p~gVLL~GPpGTGKT~LAralA~e~---~~p-----~i~is~s----  250 (638)
T CHL00176        183 RDIAGIEEAKEEFEEVVSFLKKPERFTAVGAKIPKGVLLVGPPGTGKTLLAKAIAGEA---EVP-----FFSISGS----  250 (638)
T ss_pred             HhccChHHHHHHHHHHHHHHhCHHHHhhccCCCCceEEEECCCCCCHHHHHHHHHHHh---CCC-----eeeccHH----
Confidence            45678887766655543   321         24568899999999999999999876   222     2332211    


Q ss_pred             HHHHHHHHHhCCCCccccCCChhHHHHHHHHHhccCcEEEEEeccCCcc------------c----cccccCCCC--CCC
Q 048126          194 KIQEKIGRRIGFLDESWKNGSLEDKASDILRILSKKKFLLLLDDIWERV------------D----LTKVGVPFP--DPE  255 (863)
Q Consensus       194 ~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~------------~----~~~~~~~l~--~~~  255 (863)
                      ++....   .+        .........+.+.....+.+|++||++...            .    +..+...+.  ...
T Consensus       251 ~f~~~~---~g--------~~~~~vr~lF~~A~~~~P~ILfIDEID~l~~~r~~~~~~~~~e~~~~L~~LL~~~dg~~~~  319 (638)
T CHL00176        251 EFVEMF---VG--------VGAARVRDLFKKAKENSPCIVFIDEIDAVGRQRGAGIGGGNDEREQTLNQLLTEMDGFKGN  319 (638)
T ss_pred             HHHHHh---hh--------hhHHHHHHHHHHHhcCCCcEEEEecchhhhhcccCCCCCCcHHHHHHHHHHHhhhccccCC
Confidence            111100   00        111222333444455678999999996421            0    111211111  123


Q ss_pred             CCcEEEEecCchhhhh-c-c---cccceEeecCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCC
Q 048126          256 NKSKIVFTTRFLEICG-A-M---KAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAG  321 (863)
Q Consensus       256 ~gs~IivTtR~~~v~~-~-~---~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g  321 (863)
                      .+..||.||...+... . .   .-+..+.++..+.++-.++++.++.....    ........+++.+.|
T Consensus       320 ~~ViVIaaTN~~~~LD~ALlRpGRFd~~I~v~lPd~~~R~~IL~~~l~~~~~----~~d~~l~~lA~~t~G  386 (638)
T CHL00176        320 KGVIVIAATNRVDILDAALLRPGRFDRQITVSLPDREGRLDILKVHARNKKL----SPDVSLELIARRTPG  386 (638)
T ss_pred             CCeeEEEecCchHhhhhhhhccccCceEEEECCCCHHHHHHHHHHHHhhccc----chhHHHHHHHhcCCC
Confidence            4556777776644321 1 1   12356788888999988999887754221    112335667777776

>PRK08769 DNA polymerase III subunit delta'; Validated

Probab=97.18  E-value=0.013  Score=62.04  Aligned_cols=177  Identities=10%  Similarity=0.065  Sum_probs=95.3

Q ss_pred             hHHHHHHHHHhcCCCc-cEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHHHHhCCCCcc-
Q 048126          132 ESMFDKVWRCLGEEQV-GIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGRRIGFLDES-  209 (863)
Q Consensus       132 ~~~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~-  209 (863)
                      +...+.+...+..+++ +.+.++|+.|+||+++|..++...-- .....+-       ..   ...+ .+.+-..++-. 
T Consensus        10 ~~~~~~l~~~~~~~rl~HA~Lf~Gp~G~GK~~lA~~lA~~LlC-~~~~~~~-------~c---~~c~-~~~~g~HPD~~~   77 (319)
T PRK08769         10 QRAYDQTVAALDAGRLGHGLLICGPEGLGKRAVALALAEHVLA-SGPDPAA-------AQ---RTRQ-LIAAGTHPDLQL   77 (319)
T ss_pred             HHHHHHHHHHHHcCCcceeEeeECCCCCCHHHHHHHHHHHHhC-CCCCCCC-------cc---hHHH-HHhcCCCCCEEE
Confidence            3456677777766654 46889999999999999999876521 1100000       00   0000 00100000000 


Q ss_pred             ----cc--------CCChhHHHHHHHHHh-----ccCcEEEEEeccCCcc--ccccccCCCCCCCCCcEEEEecCc-hhh
Q 048126          210 ----WK--------NGSLEDKASDILRIL-----SKKKFLLLLDDIWERV--DLTKVGVPFPDPENKSKIVFTTRF-LEI  269 (863)
Q Consensus       210 ----~~--------~~~~~~~~~~l~~~l-----~~kr~LlVlDdv~~~~--~~~~~~~~l~~~~~gs~IivTtR~-~~v  269 (863)
                          .+        ...++ .+..+.+.+     .+++-++|+|+++...  .-..+...+.....++.+|++|.+ ..+
T Consensus        78 i~~~p~~~~~k~~~~I~id-qIR~l~~~~~~~p~~g~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~~~fiL~~~~~~~l  156 (319)
T PRK08769         78 VSFIPNRTGDKLRTEIVIE-QVREISQKLALTPQYGIAQVVIVDPADAINRAACNALLKTLEEPSPGRYLWLISAQPARL  156 (319)
T ss_pred             EecCCCcccccccccccHH-HHHHHHHHHhhCcccCCcEEEEeccHhhhCHHHHHHHHHHhhCCCCCCeEEEEECChhhC
Confidence                00        00111 222233322     2456689999997642  222333333333456767766665 333


Q ss_pred             hhcc-cccceEeecCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCCchhHHHHHH
Q 048126          270 CGAM-KAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGLPLALITIG  330 (863)
Q Consensus       270 ~~~~-~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPlai~~~~  330 (863)
                      .... .-...+.+.+++.+++.+.+... +.     +   ...+..++..++|.|+.+..+.
T Consensus       157 LpTIrSRCq~i~~~~~~~~~~~~~L~~~-~~-----~---~~~a~~~~~l~~G~p~~A~~~~  209 (319)
T PRK08769        157 PATIRSRCQRLEFKLPPAHEALAWLLAQ-GV-----S---ERAAQEALDAARGHPGLAAQWL  209 (319)
T ss_pred             chHHHhhheEeeCCCcCHHHHHHHHHHc-CC-----C---hHHHHHHHHHcCCCHHHHHHHh
Confidence            3222 22346789999999998888653 11     1   2236678999999998776544

>PRK08058 DNA polymerase III subunit delta'; Validated

Probab=97.17  E-value=0.0088  Score=64.21  Aligned_cols=159  Identities=9%  Similarity=0.045  Sum_probs=84.1

Q ss_pred             ccc-hhHHHHHHHHHhcCCCc-cEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHHHHhCC
Q 048126          128 TVG-LESMFDKVWRCLGEEQV-GIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGRRIGF  205 (863)
Q Consensus       128 ~vG-r~~~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~  205 (863)
                      ++| -+..++.+.+.+..+++ +...++|+.|+||||+|+.+++.... .......       .++.....+.+...-..
T Consensus         7 i~~~q~~~~~~L~~~~~~~~l~ha~Lf~G~~G~gk~~~a~~la~~l~c-~~~~~~~-------~cg~C~~c~~~~~~~hp   78 (329)
T PRK08058          7 LTALQPVVVKMLQNSIAKNRLSHAYLFEGAKGTGKKATALWLAKSLFC-LERNGVE-------PCGTCTNCKRIDSGNHP   78 (329)
T ss_pred             HHhhHHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHHHCC-CCCCCCC-------CCCcCHHHHHHhcCCCC
Confidence            566 66677888888876654 56689999999999999999877521 1100000       00000111111100000


Q ss_pred             C----CccccCCChhHHHHHHHHH-----hccCcEEEEEeccCCcc--ccccccCCCCCCCCCcEEEEecCchh-hhhc-
Q 048126          206 L----DESWKNGSLEDKASDILRI-----LSKKKFLLLLDDIWERV--DLTKVGVPFPDPENKSKIVFTTRFLE-ICGA-  272 (863)
Q Consensus       206 ~----~~~~~~~~~~~~~~~l~~~-----l~~kr~LlVlDdv~~~~--~~~~~~~~l~~~~~gs~IivTtR~~~-v~~~-  272 (863)
                      .    ...-.....++.. .+.+.     ..+.+=++|+|+++...  ....+...+.....++.+|++|.+.. +... 
T Consensus        79 D~~~i~~~~~~i~id~ir-~l~~~~~~~~~~~~~kvviI~~a~~~~~~a~NaLLK~LEEPp~~~~~Il~t~~~~~ll~TI  157 (329)
T PRK08058         79 DVHLVAPDGQSIKKDQIR-YLKEEFSKSGVESNKKVYIIEHADKMTASAANSLLKFLEEPSGGTTAILLTENKHQILPTI  157 (329)
T ss_pred             CEEEeccccccCCHHHHH-HHHHHHhhCCcccCceEEEeehHhhhCHHHHHHHHHHhcCCCCCceEEEEeCChHhCcHHH
Confidence            0    0000001112222 12222     22445578899987542  23344444444455677777776533 3222 


Q ss_pred             ccccceEeecCCChHHHHHHHHH
Q 048126          273 MKAHEFLKVECLGPEDAWRLFRE  295 (863)
Q Consensus       273 ~~~~~~~~l~~L~~~e~~~lf~~  295 (863)
                      ..-...+++.+++.++..+.+.+
T Consensus       158 rSRc~~i~~~~~~~~~~~~~L~~  180 (329)
T PRK08058        158 LSRCQVVEFRPLPPESLIQRLQE  180 (329)
T ss_pred             HhhceeeeCCCCCHHHHHHHHHH
Confidence            22235789999999999888865

>PRK06090 DNA polymerase III subunit delta'; Validated

Probab=97.15  E-value=0.031  Score=59.05  Aligned_cols=177  Identities=12%  Similarity=0.046  Sum_probs=95.9

Q ss_pred             HHHHHHHHHhcCCC-ccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHHHHhCCCC----
Q 048126          133 SMFDKVWRCLGEEQ-VGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGRRIGFLD----  207 (863)
Q Consensus       133 ~~~~~l~~~L~~~~-~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~----  207 (863)
                      ...+.+.+.+..++ .+.+-++|+.|+||+++|..++...--.....         ..++.-...+.+...-....    
T Consensus        10 ~~~~~l~~~~~~~rl~hA~L~~G~~G~Gk~~lA~~~a~~llC~~~~~---------~~Cg~C~sC~~~~~g~HPD~~~i~   80 (319)
T PRK06090         10 PVWQNWKAGLDAGRIPGALLLQSDEGLGVESLVELFSRALLCQNYQS---------EACGFCHSCELMQSGNHPDLHVIK   80 (319)
T ss_pred             HHHHHHHHHHHcCCcceeEeeECCCCCCHHHHHHHHHHHHcCCCCCC---------CCCCCCHHHHHHHcCCCCCEEEEe
Confidence            34566677766555 45788999999999999999987652110000         01111111111111000000    


Q ss_pred             cc--ccCCChhHHHHHHHHHh-----ccCcEEEEEeccCCc--cccccccCCCCCCCCCcEEEEecCch-hhhhcc-ccc
Q 048126          208 ES--WKNGSLEDKASDILRIL-----SKKKFLLLLDDIWER--VDLTKVGVPFPDPENKSKIVFTTRFL-EICGAM-KAH  276 (863)
Q Consensus       208 ~~--~~~~~~~~~~~~l~~~l-----~~kr~LlVlDdv~~~--~~~~~~~~~l~~~~~gs~IivTtR~~-~v~~~~-~~~  276 (863)
                      +.  -....+++. +.+.+.+     .+.+=++|+|+++..  .....+...+.....++.+|++|.+. .+.... .-.
T Consensus        81 p~~~~~~I~vdqi-R~l~~~~~~~~~~~~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~t~fiL~t~~~~~lLpTI~SRC  159 (319)
T PRK06090         81 PEKEGKSITVEQI-RQCNRLAQESSQLNGYRLFVIEPADAMNESASNALLKTLEEPAPNCLFLLVTHNQKRLLPTIVSRC  159 (319)
T ss_pred             cCcCCCcCCHHHH-HHHHHHHhhCcccCCceEEEecchhhhCHHHHHHHHHHhcCCCCCeEEEEEECChhhChHHHHhcc
Confidence            00  001122222 2333333     234558889999764  33444444444444566676666654 443322 223


Q ss_pred             ceEeecCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCCchhHHHHHH
Q 048126          277 EFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGLPLALITIG  330 (863)
Q Consensus       277 ~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPlai~~~~  330 (863)
                      ..+.+.+++.+++.+.+.... .     +     .+..+++.++|.|+.+..+.
T Consensus       160 q~~~~~~~~~~~~~~~L~~~~-~-----~-----~~~~~l~l~~G~p~~A~~~~  202 (319)
T PRK06090        160 QQWVVTPPSTAQAMQWLKGQG-I-----T-----VPAYALKLNMGSPLKTLAMM  202 (319)
T ss_pred             eeEeCCCCCHHHHHHHHHHcC-C-----c-----hHHHHHHHcCCCHHHHHHHh
Confidence            478899999999999886531 0     1     14567899999999776553

>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=97.12  E-value=0.00091  Score=61.35  Aligned_cols=22  Identities=45%  Similarity=0.496  Sum_probs=20.7

Q ss_pred             EEEEcCCCCcHHHHHHHHHhhh
Q 048126          150 IGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       150 i~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      |.|+|++|+||||+|+.+++..
T Consensus         1 ill~G~~G~GKT~l~~~la~~l   22 (132)
T PF00004_consen    1 ILLHGPPGTGKTTLARALAQYL   22 (132)
T ss_dssp             EEEESSTTSSHHHHHHHHHHHT
T ss_pred             CEEECcCCCCeeHHHHHHHhhc
Confidence            5799999999999999999997

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 ....

>COG1222 RPT1 ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein turnover, chaperones]

Probab=97.11  E-value=0.015  Score=60.16  Aligned_cols=193  Identities=16%  Similarity=0.229  Sum_probs=107.3

Q ss_pred             cchhHHHHHHHHHhcC-------------CCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHH
Q 048126          129 VGLESMFDKVWRCLGE-------------EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKI  195 (863)
Q Consensus       129 vGr~~~~~~l~~~L~~-------------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~  195 (863)
                      =|-++.+++|.+.+.-             +.++-|.+||++|.|||-||++|+++-   ...|     +.|...    + 
T Consensus       154 GGL~~Qi~EirE~VELPL~~PElF~~~GI~PPKGVLLYGPPGTGKTLLAkAVA~~T---~AtF-----IrvvgS----E-  220 (406)
T COG1222         154 GGLDEQIQEIREVVELPLKNPELFEELGIDPPKGVLLYGPPGTGKTLLAKAVANQT---DATF-----IRVVGS----E-  220 (406)
T ss_pred             cCHHHHHHHHHHHhcccccCHHHHHHcCCCCCCceEeeCCCCCcHHHHHHHHHhcc---CceE-----EEeccH----H-
Confidence            4789999999888741             356778899999999999999999986   3344     333221    1 


Q ss_pred             HHHHHHHhCCCCccccCCChhHHHHHHHHHhcc-CcEEEEEeccCCcc----------c------cccccCCCC--CCCC
Q 048126          196 QEKIGRRIGFLDESWKNGSLEDKASDILRILSK-KKFLLLLDDIWERV----------D------LTKVGVPFP--DPEN  256 (863)
Q Consensus       196 ~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~-kr~LlVlDdv~~~~----------~------~~~~~~~l~--~~~~  256 (863)
                         +++..-..        -..+...+.+.-+. .+.+|.+|.++...          +      .-++...+.  +...
T Consensus       221 ---lVqKYiGE--------GaRlVRelF~lArekaPsIIFiDEIDAIg~kR~d~~t~gDrEVQRTmleLL~qlDGFD~~~  289 (406)
T COG1222         221 ---LVQKYIGE--------GARLVRELFELAREKAPSIIFIDEIDAIGAKRFDSGTSGDREVQRTMLELLNQLDGFDPRG  289 (406)
T ss_pred             ---HHHHHhcc--------chHHHHHHHHHHhhcCCeEEEEechhhhhcccccCCCCchHHHHHHHHHHHHhccCCCCCC
Confidence               22211111        12344444444443 68899999986420          0      111222222  1234


Q ss_pred             CcEEEEecCchhhh-----hcccccceEeecCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCCch----hHHH
Q 048126          257 KSKIVFTTRFLEIC-----GAMKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGLP----LALI  327 (863)
Q Consensus       257 gs~IivTtR~~~v~-----~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glP----lai~  327 (863)
                      ..|||..|-..++.     +--.-+..++++.=+.+.=.++|+-++..-....+-++    +.+++.|.|.-    -|+.
T Consensus       290 nvKVI~ATNR~D~LDPALLRPGR~DRkIEfplPd~~gR~~Il~IHtrkM~l~~dvd~----e~la~~~~g~sGAdlkaic  365 (406)
T COG1222         290 NVKVIMATNRPDILDPALLRPGRFDRKIEFPLPDEEGRAEILKIHTRKMNLADDVDL----ELLARLTEGFSGADLKAIC  365 (406)
T ss_pred             CeEEEEecCCccccChhhcCCCcccceeecCCCCHHHHHHHHHHHhhhccCccCcCH----HHHHHhcCCCchHHHHHHH
Confidence            58899888766552     21223456777744444455667666554333333344    55666666654    3344


Q ss_pred             HHHHHhc--CCC---ChhHHHHHHHHH
Q 048126          328 TIGRAMT--CKK---TTQEWHHAIQIL  349 (863)
Q Consensus       328 ~~~~~l~--~~~---~~~~w~~~l~~l  349 (863)
                      +=|++++  ..+   +.+++..+.++.
T Consensus       366 tEAGm~AiR~~R~~Vt~~DF~~Av~KV  392 (406)
T COG1222         366 TEAGMFAIRERRDEVTMEDFLKAVEKV  392 (406)
T ss_pred             HHHhHHHHHhccCeecHHHHHHHHHHH
Confidence            4444443  222   445555554443

>COG0466 Lon ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]

Probab=97.10  E-value=0.0057  Score=68.96  Aligned_cols=158  Identities=23%  Similarity=0.304  Sum_probs=89.9

Q ss_pred             CCccchhHHHHHHHHHhcC------CCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHH
Q 048126          126 EPTVGLESMFDKVWRCLGE------EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKI  199 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i  199 (863)
                      .+.+|.++.+++|+++|.-      -+-+++++||++|||||+|++.+++-.   ...|   +-++++.--|..++-..=
T Consensus       323 ~dHYGLekVKeRIlEyLAV~~l~~~~kGpILcLVGPPGVGKTSLgkSIA~al---~Rkf---vR~sLGGvrDEAEIRGHR  396 (782)
T COG0466         323 KDHYGLEKVKERILEYLAVQKLTKKLKGPILCLVGPPGVGKTSLGKSIAKAL---GRKF---VRISLGGVRDEAEIRGHR  396 (782)
T ss_pred             ccccCchhHHHHHHHHHHHHHHhccCCCcEEEEECCCCCCchhHHHHHHHHh---CCCE---EEEecCccccHHHhcccc
Confidence            4568999999999999852      245799999999999999999999987   3444   223344333333321100


Q ss_pred             HHHhCCCCccccCCChhHHHHHHHHHhccCcEEEEEeccCCc---------cccccccCC-----CCC-----CCCCcEE
Q 048126          200 GRRIGFLDESWKNGSLEDKASDILRILSKKKFLLLLDDIWER---------VDLTKVGVP-----FPD-----PENKSKI  260 (863)
Q Consensus       200 ~~~l~~~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~---------~~~~~~~~~-----l~~-----~~~gs~I  260 (863)
                      -..+|        .=....++.+. ..+.++=+++||.++..         ..+.++..|     |.+     .--=|.|
T Consensus       397 RTYIG--------amPGrIiQ~mk-ka~~~NPv~LLDEIDKm~ss~rGDPaSALLEVLDPEQN~~F~DhYLev~yDLS~V  467 (782)
T COG0466         397 RTYIG--------AMPGKIIQGMK-KAGVKNPVFLLDEIDKMGSSFRGDPASALLEVLDPEQNNTFSDHYLEVPYDLSKV  467 (782)
T ss_pred             ccccc--------cCChHHHHHHH-HhCCcCCeEEeechhhccCCCCCChHHHHHhhcCHhhcCchhhccccCccchhhe
Confidence            00011        00111122222 22346778999998743         111222211     110     0112555


Q ss_pred             E-EecCc-hh-h-hhcccccceEeecCCChHHHHHHHHHHhc
Q 048126          261 V-FTTRF-LE-I-CGAMKAHEFLKVECLGPEDAWRLFRENLR  298 (863)
Q Consensus       261 i-vTtR~-~~-v-~~~~~~~~~~~l~~L~~~e~~~lf~~~~~  298 (863)
                      + |||-| -+ + +..+...+++++.+.+++|-.++-+++.-
T Consensus       468 mFiaTANsl~tIP~PLlDRMEiI~lsgYt~~EKl~IAk~~Li  509 (782)
T COG0466         468 MFIATANSLDTIPAPLLDRMEVIRLSGYTEDEKLEIAKRHLI  509 (782)
T ss_pred             EEEeecCccccCChHHhcceeeeeecCCChHHHHHHHHHhcc
Confidence            5 44443 22 1 23344457899999999998888877653

>COG5238 RNA1 Ran GTPase-activating protein (RanGAP) involved in mRNA processing and transport [Signal transduction mechanisms / RNA processing and modification]

Probab=97.10  E-value=0.00062  Score=67.04  Aligned_cols=44  Identities=14%  Similarity=0.150  Sum_probs=22.8

Q ss_pred             chhhcCCCceEEEcCCcccccceeccccccccccccccCcccEEEEecc
Q 048126          686 CLACLHNLNKLYVAGRKHLEDFQMTVQRSSVNQLARGFHSLHTVKVGFC  734 (863)
Q Consensus       686 ~l~~~~~L~~L~l~~~~~~~~l~~~~~~~~~~~~~~~l~~L~~L~L~~c  734 (863)
                      .+..+.+|+.|+|.+|..... .....+    ......+.|+.|.+.+|
T Consensus       209 gl~y~~~LevLDlqDNtft~~-gS~~La----~al~~W~~lrEL~lnDC  252 (388)
T COG5238         209 GLFYSHSLEVLDLQDNTFTLE-GSRYLA----DALCEWNLLRELRLNDC  252 (388)
T ss_pred             HHHHhCcceeeeccccchhhh-hHHHHH----HHhcccchhhhccccch
Confidence            455567888888877643221 000000    00012356788888887

>PRK06871 DNA polymerase III subunit delta'; Validated

Probab=97.09  E-value=0.022  Score=60.32  Aligned_cols=178  Identities=6%  Similarity=0.029  Sum_probs=96.7

Q ss_pred             HHHHHHHHHhcCCCc-cEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHHHHhCCCC----
Q 048126          133 SMFDKVWRCLGEEQV-GIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGRRIGFLD----  207 (863)
Q Consensus       133 ~~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~----  207 (863)
                      ..-+.+.+.+..+++ +.+.+.|+.|+||+++|+.++....-. ....       ...++.....+.+...-....    
T Consensus         9 ~~~~~l~~~~~~~rl~HA~Lf~G~~G~GK~~lA~~~A~~llC~-~~~~-------~~~Cg~C~sC~~~~~g~HPD~~~i~   80 (325)
T PRK06871          9 PTYQQITQAFQQGLGHHALLFKADSGLGTEQLIRALAQWLMCQ-TPQG-------DQPCGQCHSCHLFQAGNHPDFHILE   80 (325)
T ss_pred             HHHHHHHHHHHcCCcceeEEeECCCCCCHHHHHHHHHHHHcCC-CCCC-------CCCCCCCHHHHHHhcCCCCCEEEEc
Confidence            345667777766554 677899999999999999998776210 1000       011111111222211100000    


Q ss_pred             c-cccCCChhHHHHHHHHHh-----ccCcEEEEEeccCCc--cccccccCCCCCCCCCcEEEEecCch-hhhhcc-cccc
Q 048126          208 E-SWKNGSLEDKASDILRIL-----SKKKFLLLLDDIWER--VDLTKVGVPFPDPENKSKIVFTTRFL-EICGAM-KAHE  277 (863)
Q Consensus       208 ~-~~~~~~~~~~~~~l~~~l-----~~kr~LlVlDdv~~~--~~~~~~~~~l~~~~~gs~IivTtR~~-~v~~~~-~~~~  277 (863)
                      + .-....+++ ++.+.+.+     .+++=++|+|+++..  .....+...+.....++.+|++|.+. .+.... .-..
T Consensus        81 p~~~~~I~id~-iR~l~~~~~~~~~~g~~KV~iI~~a~~m~~~AaNaLLKtLEEPp~~~~fiL~t~~~~~llpTI~SRC~  159 (325)
T PRK06871         81 PIDNKDIGVDQ-VREINEKVSQHAQQGGNKVVYIQGAERLTEAAANALLKTLEEPRPNTYFLLQADLSAALLPTIYSRCQ  159 (325)
T ss_pred             cccCCCCCHHH-HHHHHHHHhhccccCCceEEEEechhhhCHHHHHHHHHHhcCCCCCeEEEEEECChHhCchHHHhhce
Confidence            0 000112222 22333333     245568889999764  23344444444444566777777664 343222 2235


Q ss_pred             eEeecCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCCchhHHH
Q 048126          278 FLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGLPLALI  327 (863)
Q Consensus       278 ~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPlai~  327 (863)
                      .+.+.+++.++..+.+.......        ...+...++.++|.|..+.
T Consensus       160 ~~~~~~~~~~~~~~~L~~~~~~~--------~~~~~~~~~l~~g~p~~A~  201 (325)
T PRK06871        160 TWLIHPPEEQQALDWLQAQSSAE--------ISEILTALRINYGRPLLAL  201 (325)
T ss_pred             EEeCCCCCHHHHHHHHHHHhccC--------hHHHHHHHHHcCCCHHHHH
Confidence            78999999999998888754211        1235667889999996443

>KOG0741 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=97.09  E-value=0.0081  Score=64.91  Aligned_cols=147  Identities=22%  Similarity=0.244  Sum_probs=88.2

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHHHHhCCCCccccCCChhHHHHHHHHH
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGRRIGFLDESWKNGSLEDKASDILRI  225 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~  225 (863)
                      ....+.+.|++|+|||+||.+++..-     .|..+--++      ++++       +|..    +..........+.+.
T Consensus       537 ~lvSvLl~Gp~~sGKTaLAA~iA~~S-----~FPFvKiiS------pe~m-------iG~s----EsaKc~~i~k~F~DA  594 (744)
T KOG0741|consen  537 PLVSVLLEGPPGSGKTALAAKIALSS-----DFPFVKIIS------PEDM-------IGLS----ESAKCAHIKKIFEDA  594 (744)
T ss_pred             cceEEEEecCCCCChHHHHHHHHhhc-----CCCeEEEeC------hHHc-------cCcc----HHHHHHHHHHHHHHh
Confidence            45567789999999999999998764     676543332      1111       1111    011111222233334


Q ss_pred             hccCcEEEEEeccCCccccccccCCCC-------------CCCCCcE--EEEecCchhhhhcccc----cceEeecCCCh
Q 048126          226 LSKKKFLLLLDDIWERVDLTKVGVPFP-------------DPENKSK--IVFTTRFLEICGAMKA----HEFLKVECLGP  286 (863)
Q Consensus       226 l~~kr~LlVlDdv~~~~~~~~~~~~l~-------------~~~~gs~--IivTtR~~~v~~~~~~----~~~~~l~~L~~  286 (863)
                      -+..=-.||+||+....+|-.++..+.             ....|-|  |+-||....|...|+-    ...|.++.++.
T Consensus       595 YkS~lsiivvDdiErLiD~vpIGPRfSN~vlQaL~VllK~~ppkg~kLli~~TTS~~~vL~~m~i~~~F~~~i~Vpnl~~  674 (744)
T KOG0741|consen  595 YKSPLSIIVVDDIERLLDYVPIGPRFSNLVLQALLVLLKKQPPKGRKLLIFGTTSRREVLQEMGILDCFSSTIHVPNLTT  674 (744)
T ss_pred             hcCcceEEEEcchhhhhcccccCchhhHHHHHHHHHHhccCCCCCceEEEEecccHHHHHHHcCHHHhhhheeecCccCc
Confidence            445667999999988888877655432             1123444  4457777778777763    34688999987


Q ss_pred             -HHHHHHHHHHh-cccccCCCCChHHHHHHHHHHh
Q 048126          287 -EDAWRLFRENL-RRDVLDNHPDIPELARSVAKEY  319 (863)
Q Consensus       287 -~e~~~lf~~~~-~~~~~~~~~~~~~~~~~i~~~c  319 (863)
                       ++..+.++..- |.     +.+...++.+...+|
T Consensus       675 ~~~~~~vl~~~n~fs-----d~~~~~~~~~~~~~~  704 (744)
T KOG0741|consen  675 GEQLLEVLEELNIFS-----DDEVRAIAEQLLSKK  704 (744)
T ss_pred             hHHHHHHHHHccCCC-----cchhHHHHHHHhccc
Confidence             77777776542 22     234555666666666

>PRK12608 transcription termination factor Rho; Provisional

Probab=97.09  E-value=0.0031  Score=67.04  Aligned_cols=105  Identities=13%  Similarity=0.144  Sum_probs=65.5

Q ss_pred             HHHHHHHHhcC-CCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCE-EEEEEeCCcc-CHHHHHHHHHHHhCCCCccc
Q 048126          134 MFDKVWRCLGE-EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDV-VIWVVVSKDL-QLEKIQEKIGRRIGFLDESW  210 (863)
Q Consensus       134 ~~~~l~~~L~~-~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~-~~wv~~s~~~-~~~~~~~~i~~~l~~~~~~~  210 (863)
                      ...++++.+.. ++-..+.|+|..|+|||||++.+++...  .++-+. ++|+.+.+.. ++.++.+.+...+.......
T Consensus       119 ~~~RvID~l~PiGkGQR~LIvG~pGtGKTTLl~~la~~i~--~~~~dv~~vv~lIgER~~EV~df~~~i~~~Vvast~de  196 (380)
T PRK12608        119 LSMRVVDLVAPIGKGQRGLIVAPPRAGKTVLLQQIAAAVA--ANHPEVHLMVLLIDERPEEVTDMRRSVKGEVYASTFDR  196 (380)
T ss_pred             hhHhhhhheeecCCCceEEEECCCCCCHHHHHHHHHHHHH--hcCCCceEEEEEecCCCCCHHHHHHHHhhhEEeecCCC
Confidence            34457777754 3334678999999999999999998772  223344 4677776654 67888888887765432100


Q ss_pred             cCC---ChhHHHHHHHHHh--ccCcEEEEEeccCC
Q 048126          211 KNG---SLEDKASDILRIL--SKKKFLLLLDDIWE  240 (863)
Q Consensus       211 ~~~---~~~~~~~~l~~~l--~~kr~LlVlDdv~~  240 (863)
                      ...   ........+.+++  ++++++||+|++..
T Consensus       197 ~~~~~~~v~~~~~~~Ae~f~~~GkdVVLvlDsltr  231 (380)
T PRK12608        197 PPDEHIRVAELVLERAKRLVEQGKDVVILLDSLTR  231 (380)
T ss_pred             CHHHHHHHHHHHHHHHHHHHHcCCCEEEEEeCcHH
Confidence            000   1111112222222  47999999999964

>KOG1644 consensus U2-associated snRNP A' protein [RNA processing and modification]

Probab=97.08  E-value=0.0007  Score=64.01  Aligned_cols=79  Identities=24%  Similarity=0.278  Sum_probs=38.8

Q ss_pred             ccceEEccCCccccccchhhhcCCCccEEEccCCCccccCCccccccCCCCeEEccCCCccccch--hhhcCCCCCEEec
Q 048126          517 HLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAITHLPI--ELQKLVNLKCLNL  594 (863)
Q Consensus       517 ~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~~~l~~lp~--~~~~l~~L~~L~l  594 (863)
                      +...++|++|.+..++.  |..++.|..|.|.+|.+...-|.--..+++|..|.|.+|+|.++-+  .+..+++|+.|.+
T Consensus        43 ~~d~iDLtdNdl~~l~~--lp~l~rL~tLll~nNrIt~I~p~L~~~~p~l~~L~LtnNsi~~l~dl~pLa~~p~L~~Ltl  120 (233)
T KOG1644|consen   43 QFDAIDLTDNDLRKLDN--LPHLPRLHTLLLNNNRITRIDPDLDTFLPNLKTLILTNNSIQELGDLDPLASCPKLEYLTL  120 (233)
T ss_pred             ccceecccccchhhccc--CCCccccceEEecCCcceeeccchhhhccccceEEecCcchhhhhhcchhccCCccceeee
Confidence            44556666665544433  4556666666666664333333333334455666666655554421  1334444444444


Q ss_pred             CCc
Q 048126          595 EYM  597 (863)
Q Consensus       595 ~~~  597 (863)
                      -+|
T Consensus       121 l~N  123 (233)
T KOG1644|consen  121 LGN  123 (233)
T ss_pred             cCC
Confidence            443

>KOG4579 consensus Leucine-rich repeat (LRR) protein associated with apoptosis in muscle tissue [General function prediction only]

Probab=97.07  E-value=0.0001  Score=64.93  Aligned_cols=106  Identities=27%  Similarity=0.367  Sum_probs=80.8

Q ss_pred             CCccceEEccCCccccccch--hhhcCCCccEEEccCCCccccCCccccc-cCCCCeEEccCCCccccchhhhcCCCCCE
Q 048126          515 CPHLLSLFLSDNSLKMIAGD--FFQFMPSLRVFNMSNNHLLWKLPSGIST-LVSLEHLDLSGTAITHLPIELQKLVNLKC  591 (863)
Q Consensus       515 ~~~L~~L~l~~~~l~~~~~~--~~~~l~~L~~L~L~~~~~~~~lp~~i~~-l~~L~~L~L~~~~l~~lp~~~~~l~~L~~  591 (863)
                      ...+-.++|+.|.+..+++.  .+....+|...+|++| ....+|..+.. .+.+++|++++|.|+.+|..+..++.|+.
T Consensus        26 akE~h~ldLssc~lm~i~davy~l~~~~el~~i~ls~N-~fk~fp~kft~kf~t~t~lNl~~neisdvPeE~Aam~aLr~  104 (177)
T KOG4579|consen   26 AKELHFLDLSSCQLMYIADAVYMLSKGYELTKISLSDN-GFKKFPKKFTIKFPTATTLNLANNEISDVPEELAAMPALRS  104 (177)
T ss_pred             HHHhhhcccccchhhHHHHHHHHHhCCceEEEEecccc-hhhhCCHHHhhccchhhhhhcchhhhhhchHHHhhhHHhhh
Confidence            34466778888877655533  2456677888899999 66678877764 45899999999999999999999999999


Q ss_pred             EecCCccccCCCcHHHhhcCCCCcEEEeeccc
Q 048126          592 LNLEYMYNLNQFPRLVMSAFSKLQVLRILKSN  623 (863)
Q Consensus       592 L~l~~~~~l~~lp~~~~~~L~~L~~L~l~~~~  623 (863)
                      |+++.| .+...|.- +-.|.+|-.|+.-++.
T Consensus       105 lNl~~N-~l~~~p~v-i~~L~~l~~Lds~~na  134 (177)
T KOG4579|consen  105 LNLRFN-PLNAEPRV-IAPLIKLDMLDSPENA  134 (177)
T ss_pred             cccccC-ccccchHH-HHHHHhHHHhcCCCCc
Confidence            999998 56777875 5557777777765543

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

Probab=97.07  E-value=0.0061  Score=57.99  Aligned_cols=137  Identities=14%  Similarity=0.186  Sum_probs=72.0

Q ss_pred             chhHHHHHHHHHhcCCCc-cEEEEEcCCCCcHHHHHHHHHhhhcCCCC-----------------CCCEEEEEEeCCc--
Q 048126          130 GLESMFDKVWRCLGEEQV-GIIGLYGMGGVGKTTLLTKINNKLLGAPN-----------------DFDVVIWVVVSKD--  189 (863)
Q Consensus       130 Gr~~~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~~~~~~-----------------~F~~~~wv~~s~~--  189 (863)
                      |-+...+.+.+.+..++. +.+.++|+.|+||+++|..+++..-....                 ...-..|+.-...  
T Consensus         1 gq~~~~~~L~~~~~~~~l~ha~L~~G~~g~gk~~~a~~~a~~ll~~~~~~~~c~~c~~c~~~~~~~~~d~~~~~~~~~~~   80 (162)
T PF13177_consen    1 GQEEIIELLKNLIKSGRLPHALLFHGPSGSGKKTLALAFARALLCSNPNEDPCGECRSCRRIEEGNHPDFIIIKPDKKKK   80 (162)
T ss_dssp             S-HHHHHHHHHHHHCTC--SEEEEECSTTSSHHHHHHHHHHHHC-TT-CTT--SSSHHHHHHHTT-CTTEEEEETTTSSS
T ss_pred             CcHHHHHHHHHHHHcCCcceeEEEECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCHHHHHHHhccCcceEEEecccccc
Confidence            456677888888877664 47899999999999999999887621111                 1112223322211  


Q ss_pred             -cCHHHHHHHHHHHhCCCCccccCCChhHHHHHHHHHhccCcEEEEEeccCCc--cccccccCCCCCCCCCcEEEEecCc
Q 048126          190 -LQLEKIQEKIGRRIGFLDESWKNGSLEDKASDILRILSKKKFLLLLDDIWER--VDLTKVGVPFPDPENKSKIVFTTRF  266 (863)
Q Consensus       190 -~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~--~~~~~~~~~l~~~~~gs~IivTtR~  266 (863)
                       ..++++. .+...+....                  ..+++=++|+||++..  .....+...+.....++++|++|++
T Consensus        81 ~i~i~~ir-~i~~~~~~~~------------------~~~~~KviiI~~ad~l~~~a~NaLLK~LEepp~~~~fiL~t~~  141 (162)
T PF13177_consen   81 SIKIDQIR-EIIEFLSLSP------------------SEGKYKVIIIDEADKLTEEAQNALLKTLEEPPENTYFILITNN  141 (162)
T ss_dssp             SBSHHHHH-HHHHHCTSS-------------------TTSSSEEEEEETGGGS-HHHHHHHHHHHHSTTTTEEEEEEES-
T ss_pred             hhhHHHHH-HHHHHHHHHH------------------hcCCceEEEeehHhhhhHHHHHHHHHHhcCCCCCEEEEEEECC
Confidence             1222222 3333322211                  1235668999999864  3344444444444567888888887


Q ss_pred             hhh-hhc-ccccceEeecCCC
Q 048126          267 LEI-CGA-MKAHEFLKVECLG  285 (863)
Q Consensus       267 ~~v-~~~-~~~~~~~~l~~L~  285 (863)
                      ..- ... ..-...+.+.++|
T Consensus       142 ~~~il~TI~SRc~~i~~~~ls  162 (162)
T PF13177_consen  142 PSKILPTIRSRCQVIRFRPLS  162 (162)
T ss_dssp             GGGS-HHHHTTSEEEEE----
T ss_pred             hHHChHHHHhhceEEecCCCC
Confidence            542 221 1122355666553

...

>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=97.05  E-value=0.0015  Score=65.33  Aligned_cols=36  Identities=28%  Similarity=0.392  Sum_probs=30.1

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEe
Q 048126          148 GIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVV  186 (863)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~  186 (863)
                      -.++|+|..|.||||++..+....   ...|+++++++-
T Consensus        14 fr~viIG~sGSGKT~li~~lL~~~---~~~f~~I~l~t~   49 (241)
T PF04665_consen   14 FRMVIIGKSGSGKTTLIKSLLYYL---RHKFDHIFLITP   49 (241)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHhh---cccCCEEEEEec
Confidence            367799999999999999999887   678887777654

This is thought to be an ATPase involved in viral DNA packaging [].

>KOG0733 consensus Nuclear AAA ATPase (VCP subfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=97.03  E-value=0.014  Score=64.31  Aligned_cols=91  Identities=20%  Similarity=0.225  Sum_probs=61.3

Q ss_pred             CccchhHHHHHHHHHhcC------------CCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHH
Q 048126          127 PTVGLESMFDKVWRCLGE------------EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEK  194 (863)
Q Consensus       127 ~~vGr~~~~~~l~~~L~~------------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~  194 (863)
                      ++=|.+..+.++.+++..            ...+-|.++|++|+|||.||+++++.. .  -.     |+.++.+     
T Consensus       191 diGG~d~~~~el~~li~~i~~Pe~~~~lGv~PprGvLlHGPPGCGKT~lA~AiAgel-~--vP-----f~~isAp-----  257 (802)
T KOG0733|consen  191 DIGGLDKTLAELCELIIHIKHPEVFSSLGVRPPRGVLLHGPPGCGKTSLANAIAGEL-G--VP-----FLSISAP-----  257 (802)
T ss_pred             hccChHHHHHHHHHHHHHhcCchhHhhcCCCCCCceeeeCCCCccHHHHHHHHhhhc-C--Cc-----eEeecch-----
Confidence            345889888888887642            235678899999999999999999987 2  22     3444432     


Q ss_pred             HHHHHHHHhCCCCccccCCChhHHHHHHHHHhccCcEEEEEeccCC
Q 048126          195 IQEKIGRRIGFLDESWKNGSLEDKASDILRILSKKKFLLLLDDIWE  240 (863)
Q Consensus       195 ~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~  240 (863)
                         .|+..+       ...+++.+.+.+.+.-..-++++++|+++.
T Consensus       258 ---eivSGv-------SGESEkkiRelF~~A~~~aPcivFiDeIDA  293 (802)
T KOG0733|consen  258 ---EIVSGV-------SGESEKKIRELFDQAKSNAPCIVFIDEIDA  293 (802)
T ss_pred             ---hhhccc-------CcccHHHHHHHHHHHhccCCeEEEeecccc
Confidence               222222       233444444455556667899999999974

>PRK06835 DNA replication protein DnaC; Validated

Probab=97.01  E-value=0.0088  Score=63.61  Aligned_cols=37  Identities=32%  Similarity=0.368  Sum_probs=29.0

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEe
Q 048126          147 VGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVV  186 (863)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~  186 (863)
                      ...+.++|..|+|||+||..+++...  ...+ .++|+++
T Consensus       183 ~~~Lll~G~~GtGKThLa~aIa~~l~--~~g~-~V~y~t~  219 (329)
T PRK06835        183 NENLLFYGNTGTGKTFLSNCIAKELL--DRGK-SVIYRTA  219 (329)
T ss_pred             CCcEEEECCCCCcHHHHHHHHHHHHH--HCCC-eEEEEEH
Confidence            37799999999999999999999872  2233 5677764

>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=97.00  E-value=0.0025  Score=62.56  Aligned_cols=90  Identities=22%  Similarity=0.214  Sum_probs=55.4

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCC-ccCHHHHHHHHHHHhCCCCccc-cCCChhHHHHHHHH
Q 048126          147 VGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSK-DLQLEKIQEKIGRRIGFLDESW-KNGSLEDKASDILR  224 (863)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~-~~~~~~~~~~i~~~l~~~~~~~-~~~~~~~~~~~l~~  224 (863)
                      +++|.++|+.|+||||.+.+++... ..+  -..+..|+... .....+.++..++.++.+.... ...+..+......+
T Consensus         1 p~vi~lvGptGvGKTTt~aKLAa~~-~~~--~~~v~lis~D~~R~ga~eQL~~~a~~l~vp~~~~~~~~~~~~~~~~~l~   77 (196)
T PF00448_consen    1 PKVIALVGPTGVGKTTTIAKLAARL-KLK--GKKVALISADTYRIGAVEQLKTYAEILGVPFYVARTESDPAEIAREALE   77 (196)
T ss_dssp             SEEEEEEESTTSSHHHHHHHHHHHH-HHT--T--EEEEEESTSSTHHHHHHHHHHHHHTEEEEESSTTSCHHHHHHHHHH
T ss_pred             CEEEEEECCCCCchHhHHHHHHHHH-hhc--cccceeecCCCCCccHHHHHHHHHHHhccccchhhcchhhHHHHHHHHH
Confidence            4689999999999999999998887 222  33566777543 2345677888999998764221 12233344433333


Q ss_pred             HhccCc-EEEEEeccC
Q 048126          225 ILSKKK-FLLLLDDIW  239 (863)
Q Consensus       225 ~l~~kr-~LlVlDdv~  239 (863)
                      ..+.++ =++++|=.-
T Consensus        78 ~~~~~~~D~vlIDT~G   93 (196)
T PF00448_consen   78 KFRKKGYDLVLIDTAG   93 (196)
T ss_dssp             HHHHTTSSEEEEEE-S
T ss_pred             HHhhcCCCEEEEecCC
Confidence            334433 477778653

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 ....

>PRK07261 topology modulation protein; Provisional

Probab=96.96  E-value=0.0029  Score=60.91  Aligned_cols=66  Identities=24%  Similarity=0.436  Sum_probs=41.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhhcCC-CCCCCEEEEEEeCCccCHHHHHHHHHHHhCCCCccccCCChhHHHHHHHHHhc
Q 048126          149 IIGLYGMGGVGKTTLLTKINNKLLGA-PNDFDVVIWVVVSKDLQLEKIQEKIGRRIGFLDESWKNGSLEDKASDILRILS  227 (863)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~~~~-~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~  227 (863)
                      .|.|+|++|+||||||+.+.... .. .-+.|...|-..                       +...+.++....+.+.+.
T Consensus         2 ri~i~G~~GsGKSTla~~l~~~~-~~~~i~~D~~~~~~~-----------------------~~~~~~~~~~~~~~~~~~   57 (171)
T PRK07261          2 KIAIIGYSGSGKSTLARKLSQHY-NCPVLHLDTLHFQPN-----------------------WQERDDDDMIADISNFLL   57 (171)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHh-CCCeEecCCEEeccc-----------------------cccCCHHHHHHHHHHHHh
Confidence            58899999999999999998775 21 123444444211                       122233455556666666


Q ss_pred             cCcEEEEEeccCC
Q 048126          228 KKKFLLLLDDIWE  240 (863)
Q Consensus       228 ~kr~LlVlDdv~~  240 (863)
                      +.+  .|+|+...
T Consensus        58 ~~~--wIidg~~~   68 (171)
T PRK07261         58 KHD--WIIDGNYS   68 (171)
T ss_pred             CCC--EEEcCcch
Confidence            666  57787643

>COG0542 clpA ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]

Probab=96.95  E-value=0.013  Score=67.95  Aligned_cols=104  Identities=21%  Similarity=0.360  Sum_probs=63.9

Q ss_pred             CCccchhHHHHHHHHHhcC-------C--CccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHH
Q 048126          126 EPTVGLESMFDKVWRCLGE-------E--QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQ  196 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~-------~--~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~  196 (863)
                      ..+||-+..++.+.+.+..       +  ...+...+|+.|||||.||++++...   -+.=+..+-+..|.-....   
T Consensus       491 ~rViGQd~AV~avs~aIrraRaGL~dp~rPigsFlF~GPTGVGKTELAkaLA~~L---fg~e~aliR~DMSEy~EkH---  564 (786)
T COG0542         491 KRVIGQDEAVEAVSDAIRRARAGLGDPNRPIGSFLFLGPTGVGKTELAKALAEAL---FGDEQALIRIDMSEYMEKH---  564 (786)
T ss_pred             cceeChHHHHHHHHHHHHHHhcCCCCCCCCceEEEeeCCCcccHHHHHHHHHHHh---cCCCccceeechHHHHHHH---
Confidence            3578999999999988852       1  34577789999999999999999876   2211334444444332222   


Q ss_pred             HHHHHHhCCCCccccCCChhHHHHHHHHHhccCcE-EEEEeccCC
Q 048126          197 EKIGRRIGFLDESWKNGSLEDKASDILRILSKKKF-LLLLDDIWE  240 (863)
Q Consensus       197 ~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~kr~-LlVlDdv~~  240 (863)
                       .+.+-+|.+.. ....+  + -..|-+..+.++| +|.||+|..
T Consensus       565 -sVSrLIGaPPG-YVGye--e-GG~LTEaVRr~PySViLlDEIEK  604 (786)
T COG0542         565 -SVSRLIGAPPG-YVGYE--E-GGQLTEAVRRKPYSVILLDEIEK  604 (786)
T ss_pred             -HHHHHhCCCCC-Cceec--c-ccchhHhhhcCCCeEEEechhhh
Confidence             22222333321 11111  1 3446667778888 777799864

>PRK10865 protein disaggregation chaperone; Provisional

Probab=96.92  E-value=0.085  Score=64.13  Aligned_cols=46  Identities=24%  Similarity=0.395  Sum_probs=37.3

Q ss_pred             CCccchhHHHHHHHHHhcC-------C-C-ccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          126 EPTVGLESMFDKVWRCLGE-------E-Q-VGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~-------~-~-~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ..++|.+..++.|.+.+..       + + ..++.++|+.|+|||++|+.+++..
T Consensus       568 ~~viGQ~~ai~~l~~~i~~~~~gl~~~~~p~~~~Lf~Gp~G~GKT~lA~aLa~~l  622 (857)
T PRK10865        568 HRVIGQNEAVEAVSNAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTELCKALANFM  622 (857)
T ss_pred             CeEeCCHHHHHHHHHHHHHHHhcccCCCCCCceEEEECCCCCCHHHHHHHHHHHh
Confidence            4578999999988888752       1 1 2478899999999999999999876

>PRK10787 DNA-binding ATP-dependent protease La; Provisional

Probab=96.91  E-value=0.014  Score=69.58  Aligned_cols=157  Identities=18%  Similarity=0.195  Sum_probs=84.8

Q ss_pred             CCccchhHHHHHHHHHhcC------CCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHH
Q 048126          126 EPTVGLESMFDKVWRCLGE------EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKI  199 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i  199 (863)
                      ...+|.+..++.|++++..      ....++.++|++|+||||+|+.++...   ...|-   -+..+...+...+...-
T Consensus       322 ~~~~g~~~vK~~i~~~l~~~~~~~~~~g~~i~l~GppG~GKTtl~~~ia~~l---~~~~~---~i~~~~~~d~~~i~g~~  395 (784)
T PRK10787        322 TDHYGLERVKDRILEYLAVQSRVNKIKGPILCLVGPPGVGKTSLGQSIAKAT---GRKYV---RMALGGVRDEAEIRGHR  395 (784)
T ss_pred             hhccCHHHHHHHHHHHHHHHHhcccCCCceEEEECCCCCCHHHHHHHHHHHh---CCCEE---EEEcCCCCCHHHhccch
Confidence            4578999999999988852      245689999999999999999999876   23332   23333333332221111


Q ss_pred             HHHhCCCCccccCCChhHHHHHHHHHhccCcEEEEEeccCCccc------cccccCCC---------------CCCCCCc
Q 048126          200 GRRIGFLDESWKNGSLEDKASDILRILSKKKFLLLLDDIWERVD------LTKVGVPF---------------PDPENKS  258 (863)
Q Consensus       200 ~~~l~~~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~------~~~~~~~l---------------~~~~~gs  258 (863)
                      ....        ..........+... ....-+++||.++....      ...+...+               +..-.+.
T Consensus       396 ~~~~--------g~~~G~~~~~l~~~-~~~~~villDEidk~~~~~~g~~~~aLlevld~~~~~~~~d~~~~~~~dls~v  466 (784)
T PRK10787        396 RTYI--------GSMPGKLIQKMAKV-GVKNPLFLLDEIDKMSSDMRGDPASALLEVLDPEQNVAFSDHYLEVDYDLSDV  466 (784)
T ss_pred             hccC--------CCCCcHHHHHHHhc-CCCCCEEEEEChhhcccccCCCHHHHHHHHhccccEEEEecccccccccCCce
Confidence            0001        11111222223221 12344788999864311      01111111               1111334


Q ss_pred             EEEEecCchhhhh-cccccceEeecCCChHHHHHHHHHHh
Q 048126          259 KIVFTTRFLEICG-AMKAHEFLKVECLGPEDAWRLFRENL  297 (863)
Q Consensus       259 ~IivTtR~~~v~~-~~~~~~~~~l~~L~~~e~~~lf~~~~  297 (863)
                      -+|.|+.+..+.. ..+-..++.+.+++.+|-.++.+++.
T Consensus       467 ~~i~TaN~~~i~~aLl~R~~ii~~~~~t~eek~~Ia~~~L  506 (784)
T PRK10787        467 MFVATSNSMNIPAPLLDRMEVIRLSGYTEDEKLNIAKRHL  506 (784)
T ss_pred             EEEEcCCCCCCCHHHhcceeeeecCCCCHHHHHHHHHHhh
Confidence            3444554433211 11223468899999999888887765

>PRK08181 transposase; Validated

Probab=96.87  E-value=0.0014  Score=67.47  Aligned_cols=78  Identities=26%  Similarity=0.239  Sum_probs=46.0

Q ss_pred             HHhcCCCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHHHHhCCCCccccCCChhHHH
Q 048126          140 RCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGRRIGFLDESWKNGSLEDKA  219 (863)
Q Consensus       140 ~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~  219 (863)
                      +|+.  ...-+.++|++|+|||.||..+.+...   .....++|++      ..++...+.....       ..+.....
T Consensus       101 ~~~~--~~~nlll~Gp~GtGKTHLa~Aia~~a~---~~g~~v~f~~------~~~L~~~l~~a~~-------~~~~~~~l  162 (269)
T PRK08181        101 SWLA--KGANLLLFGPPGGGKSHLAAAIGLALI---ENGWRVLFTR------TTDLVQKLQVARR-------ELQLESAI  162 (269)
T ss_pred             HHHh--cCceEEEEecCCCcHHHHHHHHHHHHH---HcCCceeeee------HHHHHHHHHHHHh-------CCcHHHHH
Confidence            4554  334689999999999999999998762   2223456664      3445555533221       11122222


Q ss_pred             HHHHHHhccCcEEEEEeccCC
Q 048126          220 SDILRILSKKKFLLLLDDIWE  240 (863)
Q Consensus       220 ~~l~~~l~~kr~LlVlDdv~~  240 (863)
                          +.+. +.=|||+||+..
T Consensus       163 ----~~l~-~~dLLIIDDlg~  178 (269)
T PRK08181        163 ----AKLD-KFDLLILDDLAY  178 (269)
T ss_pred             ----HHHh-cCCEEEEecccc
Confidence                2222 345999999964

>PRK12377 putative replication protein; Provisional

Probab=96.84  E-value=0.0054  Score=62.35  Aligned_cols=75  Identities=31%  Similarity=0.294  Sum_probs=45.9

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHHHHhCCCCccccCCChhHHHHHHHHH
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGRRIGFLDESWKNGSLEDKASDILRI  225 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~  225 (863)
                      +...+.++|..|+|||+||..+++...   .....++++++.      ++...+-.....      .....    .+.+.
T Consensus       100 ~~~~l~l~G~~GtGKThLa~AIa~~l~---~~g~~v~~i~~~------~l~~~l~~~~~~------~~~~~----~~l~~  160 (248)
T PRK12377        100 GCTNFVFSGKPGTGKNHLAAAIGNRLL---AKGRSVIVVTVP------DVMSRLHESYDN------GQSGE----KFLQE  160 (248)
T ss_pred             cCCeEEEECCCCCCHHHHHHHHHHHHH---HcCCCeEEEEHH------HHHHHHHHHHhc------cchHH----HHHHH
Confidence            346789999999999999999999982   233345676543      344444333211      11111    12222


Q ss_pred             hccCcEEEEEeccCC
Q 048126          226 LSKKKFLLLLDDIWE  240 (863)
Q Consensus       226 l~~kr~LlVlDdv~~  240 (863)
                      + .+-=|||+||+..
T Consensus       161 l-~~~dLLiIDDlg~  174 (248)
T PRK12377        161 L-CKVDLLVLDEIGI  174 (248)
T ss_pred             h-cCCCEEEEcCCCC
Confidence            2 3556999999953

>KOG2228 consensus Origin recognition complex, subunit 4 [Replication, recombination and repair]

Probab=96.83  E-value=0.022  Score=58.39  Aligned_cols=168  Identities=20%  Similarity=0.241  Sum_probs=101.4

Q ss_pred             CCccchhHHHHHHHHHhcC----CCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccC-----HHHHH
Q 048126          126 EPTVGLESMFDKVWRCLGE----EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQ-----LEKIQ  196 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~----~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~-----~~~~~  196 (863)
                      ..++|-.++..++.+++..    ++..-+.|+|+.|.|||+|...+..+..+..++|   +-|......-     +..+.
T Consensus        24 ~~l~g~~~~~~~l~~~lkqt~~~gEsnsviiigprgsgkT~li~~~Ls~~q~~~E~~---l~v~Lng~~~~dk~al~~I~  100 (408)
T KOG2228|consen   24 INLFGVQDEQKHLSELLKQTILHGESNSVIIIGPRGSGKTILIDTRLSDIQENGENF---LLVRLNGELQTDKIALKGIT  100 (408)
T ss_pred             cceeehHHHHHHHHHHHHHHHHhcCCCceEEEccCCCCceEeeHHHHhhHHhcCCeE---EEEEECccchhhHHHHHHHH
Confidence            4578999999998888864    4556777999999999999998888753344444   3344443332     23344


Q ss_pred             HHHHHHhCCCCccccCCChhHHHHHHHHHhcc------CcEEEEEeccCCccc------ccc-ccCCCCCCCCCcEEEEe
Q 048126          197 EKIGRRIGFLDESWKNGSLEDKASDILRILSK------KKFLLLLDDIWERVD------LTK-VGVPFPDPENKSKIVFT  263 (863)
Q Consensus       197 ~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~------kr~LlVlDdv~~~~~------~~~-~~~~l~~~~~gs~IivT  263 (863)
                      +++..++.....  ...+..+....+.+.|+.      -++++|+|.++-...      +-. +-..-....+-+-|-+|
T Consensus       101 rql~~e~~~~~k--~~gsfte~l~~lL~~L~~~~~~t~~~ViFIldEfDlf~~h~rQtllYnlfDisqs~r~Piciig~T  178 (408)
T KOG2228|consen  101 RQLALELNRIVK--SFGSFTENLSKLLEALKKGDETTSGKVIFILDEFDLFAPHSRQTLLYNLFDISQSARAPICIIGVT  178 (408)
T ss_pred             HHHHHHHhhhhe--eecccchhHHHHHHHHhcCCCCCCceEEEEeehhhccccchhhHHHHHHHHHHhhcCCCeEEEEee
Confidence            444444433221  234455556666666653      368999998864311      000 10111123455777899


Q ss_pred             cCchh-------hhhcccccceEeecCCChHHHHHHHHHHhc
Q 048126          264 TRFLE-------ICGAMKAHEFLKVECLGPEDAWRLFRENLR  298 (863)
Q Consensus       264 tR~~~-------v~~~~~~~~~~~l~~L~~~e~~~lf~~~~~  298 (863)
                      ||-..       |-....-..++-++.++-++...++++...
T Consensus       179 trld~lE~LEKRVKSRFshr~I~m~~~~~l~~yv~l~r~ll~  220 (408)
T KOG2228|consen  179 TRLDILELLEKRVKSRFSHRVIFMLPSLPLGDYVDLYRKLLS  220 (408)
T ss_pred             ccccHHHHHHHHHHhhcccceeeccCCCChHHHHHHHHHHhc
Confidence            99643       233332233556788888888888887663

>PRK00771 signal recognition particle protein Srp54; Provisional

Probab=96.78  E-value=0.035  Score=61.33  Aligned_cols=90  Identities=20%  Similarity=0.158  Sum_probs=52.1

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCc-cCHHHHHHHHHHHhCCCCccc-cCCChhHHHHHHH
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKD-LQLEKIQEKIGRRIGFLDESW-KNGSLEDKASDIL  223 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~-~~~~~~~~~i~~~l~~~~~~~-~~~~~~~~~~~l~  223 (863)
                      ...+|.++|.+|+||||+|..++....  +..+ .++.|++... ....+.++.++.+++.+.... ...+....+....
T Consensus        94 ~p~vI~lvG~~GsGKTTtaakLA~~L~--~~g~-kV~lV~~D~~R~aa~eQL~~la~~~gvp~~~~~~~~d~~~i~~~al  170 (437)
T PRK00771         94 KPQTIMLVGLQGSGKTTTAAKLARYFK--KKGL-KVGLVAADTYRPAAYDQLKQLAEKIGVPFYGDPDNKDAVEIAKEGL  170 (437)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHH--HcCC-eEEEecCCCCCHHHHHHHHHHHHHcCCcEEecCCccCHHHHHHHHH
Confidence            467999999999999999999998872  2233 3444544321 223455667777776543211 1122223333333


Q ss_pred             HHhccCcEEEEEeccC
Q 048126          224 RILSKKKFLLLLDDIW  239 (863)
Q Consensus       224 ~~l~~kr~LlVlDdv~  239 (863)
                      +...+. =++|+|..-
T Consensus       171 ~~~~~~-DvVIIDTAG  185 (437)
T PRK00771        171 EKFKKA-DVIIVDTAG  185 (437)
T ss_pred             HHhhcC-CEEEEECCC
Confidence            333343 467778763

>PRK09361 radB DNA repair and recombination protein RadB; Provisional

Probab=96.75  E-value=0.0053  Score=62.31  Aligned_cols=46  Identities=24%  Similarity=0.360  Sum_probs=35.7

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHH
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKI  195 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~  195 (863)
                      .-.++.|+|.+|+|||++|.+++....   ..-..++|++.. .++...+
T Consensus        22 ~g~i~~i~G~~GsGKT~l~~~la~~~~---~~~~~v~yi~~e-~~~~~r~   67 (225)
T PRK09361         22 RGTITQIYGPPGSGKTNICLQLAVEAA---KNGKKVIYIDTE-GLSPERF   67 (225)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHH---HCCCeEEEEECC-CCCHHHH
Confidence            456999999999999999999988762   234678899877 5555444

>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA

Probab=96.74  E-value=0.0094  Score=71.39  Aligned_cols=101  Identities=22%  Similarity=0.270  Sum_probs=58.8

Q ss_pred             CCccchhHHHHHHHHHhcC-------C--CccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHH
Q 048126          126 EPTVGLESMFDKVWRCLGE-------E--QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQ  196 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~-------~--~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~  196 (863)
                      ..++|-+..++.|.+.+..       +  ...++.++|+.|+|||+||+.++...   .   ...+.++.+.-.+...+ 
T Consensus       454 ~~v~GQ~~ai~~l~~~i~~~~~g~~~~~~p~~~~lf~Gp~GvGKT~lA~~la~~l---~---~~~~~~d~se~~~~~~~-  526 (731)
T TIGR02639       454 AKIFGQDEAIDSLVSSIKRSRAGLGNPNKPVGSFLFTGPTGVGKTELAKQLAEAL---G---VHLERFDMSEYMEKHTV-  526 (731)
T ss_pred             cceeCcHHHHHHHHHHHHHHhcCCCCCCCCceeEEEECCCCccHHHHHHHHHHHh---c---CCeEEEeCchhhhcccH-
Confidence            4468888888888887752       1  13467899999999999999999876   2   22355555543221111 


Q ss_pred             HHHHHHhCCCCccccCCChhHHHHHHHHHhccCc-EEEEEeccCC
Q 048126          197 EKIGRRIGFLDESWKNGSLEDKASDILRILSKKK-FLLLLDDIWE  240 (863)
Q Consensus       197 ~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~kr-~LlVlDdv~~  240 (863)
                         ...++.+.. ....+   ....+.+.++.++ -+++||+++.
T Consensus       527 ---~~lig~~~g-yvg~~---~~~~l~~~~~~~p~~VvllDEiek  564 (731)
T TIGR02639       527 ---SRLIGAPPG-YVGFE---QGGLLTEAVRKHPHCVLLLDEIEK  564 (731)
T ss_pred             ---HHHhcCCCC-Ccccc---hhhHHHHHHHhCCCeEEEEechhh
Confidence               111222111 01111   1223344444444 4999999975

>TIGR02640 gas_vesic_GvpN gas vesicle protein GvpN

Probab=96.73  E-value=0.029  Score=58.20  Aligned_cols=56  Identities=23%  Similarity=0.280  Sum_probs=36.2

Q ss_pred             HHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHH
Q 048126          133 SMFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQ  196 (863)
Q Consensus       133 ~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~  196 (863)
                      .-++++..++..+  .-|.+.|.+|+|||++|+.++...   ..   ..+.++++...+..+++
T Consensus         9 ~l~~~~l~~l~~g--~~vLL~G~~GtGKT~lA~~la~~l---g~---~~~~i~~~~~~~~~dll   64 (262)
T TIGR02640         9 RVTSRALRYLKSG--YPVHLRGPAGTGKTTLAMHVARKR---DR---PVMLINGDAELTTSDLV   64 (262)
T ss_pred             HHHHHHHHHHhcC--CeEEEEcCCCCCHHHHHHHHHHHh---CC---CEEEEeCCccCCHHHHh
Confidence            3345555555433  355689999999999999999754   22   23556666655555443

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).

>KOG0991 consensus Replication factor C, subunit RFC2 [Replication, recombination and repair]

Probab=96.72  E-value=0.006  Score=58.92  Aligned_cols=46  Identities=24%  Similarity=0.277  Sum_probs=41.4

Q ss_pred             CCccchhHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          126 EPTVGLESMFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      .++||-++.++.+.-...+++.+-+.|.||+|+||||-+..+++..
T Consensus        27 ~dIVGNe~tv~rl~via~~gnmP~liisGpPG~GKTTsi~~LAr~L   72 (333)
T KOG0991|consen   27 QDIVGNEDTVERLSVIAKEGNMPNLIISGPPGTGKTTSILCLAREL   72 (333)
T ss_pred             HHhhCCHHHHHHHHHHHHcCCCCceEeeCCCCCchhhHHHHHHHHH
Confidence            4579999999999888888889999999999999999999888876

>PRK12727 flagellar biosynthesis regulator FlhF; Provisional

Probab=96.70  E-value=0.046  Score=60.91  Aligned_cols=89  Identities=25%  Similarity=0.291  Sum_probs=48.0

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCC-ccCHHHHHHHHHHHhCCCCccccCCChhHHHHHHHH
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSK-DLQLEKIQEKIGRRIGFLDESWKNGSLEDKASDILR  224 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~-~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~  224 (863)
                      ...+|+|+|.+|+||||++..++... ..+.....+..++... .......++.....++....  ...+..++...+. 
T Consensus       349 ~G~vIaLVGPtGvGKTTtaakLAa~l-a~~~~gkkVaLIdtDtyRigA~EQLk~ya~iLgv~v~--~a~d~~~L~~aL~-  424 (559)
T PRK12727        349 RGGVIALVGPTGAGKTTTIAKLAQRF-AAQHAPRDVALVTTDTQRVGGREQLHSYGRQLGIAVH--EADSAESLLDLLE-  424 (559)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHH-HHhcCCCceEEEecccccccHHHHHHHhhcccCceeE--ecCcHHHHHHHHH-
Confidence            34799999999999999999998776 2122223455555422 11222333333444443321  1122233333333 


Q ss_pred             HhccCcEEEEEeccC
Q 048126          225 ILSKKKFLLLLDDIW  239 (863)
Q Consensus       225 ~l~~kr~LlVlDdv~  239 (863)
                      .+.+ .=+||+|..-
T Consensus       425 ~l~~-~DLVLIDTaG  438 (559)
T PRK12727        425 RLRD-YKLVLIDTAG  438 (559)
T ss_pred             Hhcc-CCEEEecCCC
Confidence            3333 4577888874

>KOG0730 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=96.70  E-value=0.068  Score=59.97  Aligned_cols=161  Identities=19%  Similarity=0.202  Sum_probs=85.8

Q ss_pred             cchhHHHHHHHHHhcC-------------CCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHH
Q 048126          129 VGLESMFDKVWRCLGE-------------EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKI  195 (863)
Q Consensus       129 vGr~~~~~~l~~~L~~-------------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~  195 (863)
                      =|.++.+.++.+.+.-             ...+-|-.+|++|+|||++|+.+++..   +..|     +.++.+    ++
T Consensus       437 GGlE~lK~elq~~V~~p~~~pe~F~r~Gi~ppkGVLlyGPPGC~KT~lAkalAne~---~~nF-----lsvkgp----EL  504 (693)
T KOG0730|consen  437 GGLEELKRELQQAVEWPLKHPEKFARFGISPPKGVLLYGPPGCGKTLLAKALANEA---GMNF-----LSVKGP----EL  504 (693)
T ss_pred             cCHHHHHHHHHHHHhhhhhchHHHHHhcCCCCceEEEECCCCcchHHHHHHHhhhh---cCCe-----eeccCH----HH
Confidence            3577777777665531             356788899999999999999999987   4454     222221    11


Q ss_pred             HHHHHHHhCCCCccccCCChhHHHHHHHHHhccCcEEEEEeccCCccc-------------cccccCCCCCCCCCcEE-E
Q 048126          196 QEKIGRRIGFLDESWKNGSLEDKASDILRILSKKKFLLLLDDIWERVD-------------LTKVGVPFPDPENKSKI-V  261 (863)
Q Consensus       196 ~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~-------------~~~~~~~l~~~~~gs~I-i  261 (863)
                      +...           ...++..+...+.+.=+--+.+|.||.++....             +..+...+........| |
T Consensus       505 ~sk~-----------vGeSEr~ir~iF~kAR~~aP~IiFfDEiDsi~~~R~g~~~~v~~RVlsqLLtEmDG~e~~k~V~V  573 (693)
T KOG0730|consen  505 FSKY-----------VGESERAIREVFRKARQVAPCIIFFDEIDALAGSRGGSSSGVTDRVLSQLLTEMDGLEALKNVLV  573 (693)
T ss_pred             HHHh-----------cCchHHHHHHHHHHHhhcCCeEEehhhHHhHhhccCCCccchHHHHHHHHHHHcccccccCcEEE
Confidence            1100           122223333333333334568888888764210             11121222221222223 3


Q ss_pred             E--ecCchhhh-hccc---ccceEeecCCChHHHHHHHHHHhcccccCCCCChHHHH
Q 048126          262 F--TTRFLEIC-GAMK---AHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELA  312 (863)
Q Consensus       262 v--TtR~~~v~-~~~~---~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~  312 (863)
                      +  |-|...+- ..+.   -+..+.++.=+.+--.++|+.++..-.....-++.+++
T Consensus       574 iAATNRpd~ID~ALlRPGRlD~iiyVplPD~~aR~~Ilk~~~kkmp~~~~vdl~~La  630 (693)
T KOG0730|consen  574 IAATNRPDMIDPALLRPGRLDRIIYVPLPDLEARLEILKQCAKKMPFSEDVDLEELA  630 (693)
T ss_pred             EeccCChhhcCHHHcCCcccceeEeecCccHHHHHHHHHHHHhcCCCCccccHHHHH
Confidence            2  33433331 1222   34567777777777788999888765433333444443

>PRK07993 DNA polymerase III subunit delta'; Validated

Probab=96.69  E-value=0.048  Score=58.38  Aligned_cols=179  Identities=9%  Similarity=0.055  Sum_probs=96.2

Q ss_pred             HHHHHHHHHhcCCC-ccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHHHHhCCCC----
Q 048126          133 SMFDKVWRCLGEEQ-VGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGRRIGFLD----  207 (863)
Q Consensus       133 ~~~~~l~~~L~~~~-~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~----  207 (863)
                      ..-+++.+.+..++ .+.+-+.|+.|+||+++|..++....-. ..-+.       ..++.-.-.+.+...- .++    
T Consensus         9 ~~~~~l~~~~~~~rl~HA~Lf~G~~G~Gk~~lA~~~A~~LlC~-~~~~~-------~~Cg~C~sC~~~~~g~-HPD~~~i   79 (334)
T PRK07993          9 PDYEQLVGSYQAGRGHHALLIQALPGMGDDALIYALSRWLMCQ-QPQGH-------KSCGHCRGCQLMQAGT-HPDYYTL   79 (334)
T ss_pred             HHHHHHHHHHHcCCcceEEeeECCCCCCHHHHHHHHHHHHcCC-CCCCC-------CCCCCCHHHHHHHcCC-CCCEEEE
Confidence            34566777776655 4578899999999999999988765210 00000       0111111111111000 000    


Q ss_pred             -ccc--cCCChhHHHHHHHHHh-----ccCcEEEEEeccCCc--cccccccCCCCCCCCCcEEEEecCch-hhhhc-ccc
Q 048126          208 -ESW--KNGSLEDKASDILRIL-----SKKKFLLLLDDIWER--VDLTKVGVPFPDPENKSKIVFTTRFL-EICGA-MKA  275 (863)
Q Consensus       208 -~~~--~~~~~~~~~~~l~~~l-----~~kr~LlVlDdv~~~--~~~~~~~~~l~~~~~gs~IivTtR~~-~v~~~-~~~  275 (863)
                       +..  ....+++ ++.+.+.+     .+++=++|+|+++..  .....+...+.....++.+|++|.+. .+... ..-
T Consensus        80 ~p~~~~~~I~idq-iR~l~~~~~~~~~~g~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~t~fiL~t~~~~~lLpTIrSR  158 (334)
T PRK07993         80 TPEKGKSSLGVDA-VREVTEKLYEHARLGGAKVVWLPDAALLTDAAANALLKTLEEPPENTWFFLACREPARLLATLRSR  158 (334)
T ss_pred             ecccccccCCHHH-HHHHHHHHhhccccCCceEEEEcchHhhCHHHHHHHHHHhcCCCCCeEEEEEECChhhChHHHHhc
Confidence             000  0011222 22233333     245668899998754  23344444444444566677666654 34322 222


Q ss_pred             cceEeecCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCCchhHHHHH
Q 048126          276 HEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGLPLALITI  329 (863)
Q Consensus       276 ~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPlai~~~  329 (863)
                      ...+.+.+++.+++.+.+....+.        -.+.+..+++.++|.|..+..+
T Consensus       159 Cq~~~~~~~~~~~~~~~L~~~~~~--------~~~~a~~~~~la~G~~~~Al~l  204 (334)
T PRK07993        159 CRLHYLAPPPEQYALTWLSREVTM--------SQDALLAALRLSAGAPGAALAL  204 (334)
T ss_pred             cccccCCCCCHHHHHHHHHHccCC--------CHHHHHHHHHHcCCCHHHHHHH
Confidence            346789999999999888654221        1233678899999999755443

>KOG2123 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.69  E-value=0.0002  Score=70.63  Aligned_cols=100  Identities=23%  Similarity=0.226  Sum_probs=52.0

Q ss_pred             CCccceEEccCCccccccchhhhcCCCccEEEccCCCccccCCccccccCCCCeEEccCCCccccch--hhhcCCCCCEE
Q 048126          515 CPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAITHLPI--ELQKLVNLKCL  592 (863)
Q Consensus       515 ~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~~~l~~lp~--~~~~l~~L~~L  592 (863)
                      +.+.+.|++.||.+..+  ++..+|+.|.+|.|+-|+ +..+. .+..+.+|+.|+|+.|.|..+-.  -+.++++|+.|
T Consensus        18 l~~vkKLNcwg~~L~DI--sic~kMp~lEVLsLSvNk-IssL~-pl~rCtrLkElYLRkN~I~sldEL~YLknlpsLr~L   93 (388)
T KOG2123|consen   18 LENVKKLNCWGCGLDDI--SICEKMPLLEVLSLSVNK-ISSLA-PLQRCTRLKELYLRKNCIESLDELEYLKNLPSLRTL   93 (388)
T ss_pred             HHHhhhhcccCCCccHH--HHHHhcccceeEEeeccc-cccch-hHHHHHHHHHHHHHhcccccHHHHHHHhcCchhhhH
Confidence            34455566666665554  234566666666666663 22332 34555666666666665554432  24556666666


Q ss_pred             ecCCccccCCCcH----HHhhcCCCCcEEE
Q 048126          593 NLEYMYNLNQFPR----LVMSAFSKLQVLR  618 (863)
Q Consensus       593 ~l~~~~~l~~lp~----~~~~~L~~L~~L~  618 (863)
                      -|..|+-...-+.    .++.-|+||+.|+
T Consensus        94 WL~ENPCc~~ag~nYR~~VLR~LPnLkKLD  123 (388)
T KOG2123|consen   94 WLDENPCCGEAGQNYRRKVLRVLPNLKKLD  123 (388)
T ss_pred             hhccCCcccccchhHHHHHHHHcccchhcc
Confidence            6655543333222    1344455555554

>KOG1514 consensus Origin recognition complex, subunit 1, and related proteins [Replication, recombination and repair]

Probab=96.68  E-value=0.044  Score=61.83  Aligned_cols=196  Identities=17%  Similarity=0.122  Sum_probs=116.1

Q ss_pred             ccchhHHHHHHHHHhcC-----CCccEEEEEcCCCCcHHHHHHHHHhhhcC-----CCCCCCEEEEEEeCCccCHHHHHH
Q 048126          128 TVGLESMFDKVWRCLGE-----EQVGIIGLYGMGGVGKTTLLTKINNKLLG-----APNDFDVVIWVVVSKDLQLEKIQE  197 (863)
Q Consensus       128 ~vGr~~~~~~l~~~L~~-----~~~~vi~I~G~gGiGKTtLa~~v~~~~~~-----~~~~F~~~~wv~~s~~~~~~~~~~  197 (863)
                      +-+|+.+..+|-+++..     +..+.+.|.|.+|+|||..+..|.+...+     .-..|+ .+.|..-.-....+++.
T Consensus       398 LpcRe~E~~~I~~f~~~~i~~~~~g~~mYIsGvPGtGKT~tV~~Vm~~Lq~~s~~~e~p~f~-yveINgm~l~~~~~~Y~  476 (767)
T KOG1514|consen  398 LPCRENEFSEIEDFLRSFISDQGLGSCMYISGVPGTGKTATVLEVMKELQTSSAQKELPKFD-YVEINGLRLASPREIYE  476 (767)
T ss_pred             ccchhHHHHHHHHHHHhhcCCCCCceeEEEecCCCCCceehHHHHHHHHHHHHhhcCCCCcc-EEEEcceeecCHHHHHH
Confidence            45899999999888742     23459999999999999999999986521     122343 34455455567899999


Q ss_pred             HHHHHhCCCCccccCCChhHHHHHHHHHhc-----cCcEEEEEeccCCcc-----ccccccCCCCCCCCCcEEEEecC-c
Q 048126          198 KIGRRIGFLDESWKNGSLEDKASDILRILS-----KKKFLLLLDDIWERV-----DLTKVGVPFPDPENKSKIVFTTR-F  266 (863)
Q Consensus       198 ~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~-----~kr~LlVlDdv~~~~-----~~~~~~~~l~~~~~gs~IivTtR-~  266 (863)
                      .|..++....     .....-.+.+..++.     .+..++++|+++...     .+-.+.. +| ..++||++|-+= +
T Consensus       477 ~I~~~lsg~~-----~~~~~al~~L~~~f~~~k~~~~~~VvLiDElD~Lvtr~QdVlYn~fd-Wp-t~~~sKLvvi~IaN  549 (767)
T KOG1514|consen  477 KIWEALSGER-----VTWDAALEALNFRFTVPKPKRSTTVVLIDELDILVTRSQDVLYNIFD-WP-TLKNSKLVVIAIAN  549 (767)
T ss_pred             HHHHhcccCc-----ccHHHHHHHHHHhhccCCCCCCCEEEEeccHHHHhcccHHHHHHHhc-CC-cCCCCceEEEEecc
Confidence            9999997643     223344445555543     356888889886421     1111111 11 335677665432 1


Q ss_pred             -hh---------hhhcccccceEeecCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCCchhHHHHHHHH
Q 048126          267 -LE---------ICGAMKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGLPLALITIGRA  332 (863)
Q Consensus       267 -~~---------v~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPlai~~~~~~  332 (863)
                       .+         ++..+ ....+...+.+.++-.++...+..+...-.+.-.+=++++|+...|..-.|+.+.-++
T Consensus       550 TmdlPEr~l~nrvsSRl-g~tRi~F~pYth~qLq~Ii~~RL~~~~~f~~~aielvarkVAavSGDaRraldic~RA  624 (767)
T KOG1514|consen  550 TMDLPERLLMNRVSSRL-GLTRICFQPYTHEQLQEIISARLKGLDAFENKAIELVARKVAAVSGDARRALDICRRA  624 (767)
T ss_pred             cccCHHHHhccchhhhc-cceeeecCCCCHHHHHHHHHHhhcchhhcchhHHHHHHHHHHhccccHHHHHHHHHHH
Confidence             11         11222 1235677888888888887776654421112223334566665555555555554433

>COG2812 DnaX DNA polymerase III, gamma/tau subunits [DNA replication, recombination, and repair]

Probab=96.67  E-value=0.015  Score=64.79  Aligned_cols=187  Identities=14%  Similarity=0.185  Sum_probs=110.6

Q ss_pred             CCccchhHHHHHHHHHhcCCCc-cEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHHHH--
Q 048126          126 EPTVGLESMFDKVWRCLGEEQV-GIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGRR--  202 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~--  202 (863)
                      +++||-+.-...|.+.+..++. +.....|+-|+||||+|+.++...-  ..+     + ....+++.....+.|...  
T Consensus        16 ~evvGQe~v~~~L~nal~~~ri~hAYlfsG~RGvGKTt~Ari~AkalN--C~~-----~-~~~ePC~~C~~Ck~I~~g~~   87 (515)
T COG2812          16 DDVVGQEHVVKTLSNALENGRIAHAYLFSGPRGVGKTTIARILAKALN--CEN-----G-PTAEPCGKCISCKEINEGSL   87 (515)
T ss_pred             HHhcccHHHHHHHHHHHHhCcchhhhhhcCCCCcCchhHHHHHHHHhc--CCC-----C-CCCCcchhhhhhHhhhcCCc
Confidence            4579999999999999987654 4667799999999999999988761  110     0 122333333344444332  


Q ss_pred             hCCCC-ccccCCChhHHHHHHHHHh-----ccCcEEEEEeccCCc--cccccccCCCCCCCCCcEEEEecCch-hhh-hc
Q 048126          203 IGFLD-ESWKNGSLEDKASDILRIL-----SKKKFLLLLDDIWER--VDLTKVGVPFPDPENKSKIVFTTRFL-EIC-GA  272 (863)
Q Consensus       203 l~~~~-~~~~~~~~~~~~~~l~~~l-----~~kr~LlVlDdv~~~--~~~~~~~~~l~~~~~gs~IivTtR~~-~v~-~~  272 (863)
                      +.+.. +......+++ ++.|.+..     +++.=..|+|+|+-.  ..|..+...+.......+.|+.|++. .+. ..
T Consensus        88 ~DviEiDaASn~gVdd-iR~i~e~v~y~P~~~ryKVyiIDEvHMLS~~afNALLKTLEEPP~hV~FIlATTe~~Kip~TI  166 (515)
T COG2812          88 IDVIEIDAASNTGVDD-IREIIEKVNYAPSEGRYKVYIIDEVHMLSKQAFNALLKTLEEPPSHVKFILATTEPQKIPNTI  166 (515)
T ss_pred             ccchhhhhhhccChHH-HHHHHHHhccCCccccceEEEEecHHhhhHHHHHHHhcccccCccCeEEEEecCCcCcCchhh
Confidence            11000 0001122222 22233322     245558889999753  45666655555444556666666554 332 22


Q ss_pred             ccccceEeecCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCCchh
Q 048126          273 MKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGLPL  324 (863)
Q Consensus       273 ~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPl  324 (863)
                      ......|.++.++.++-...+...+.......   ..+....|++..+|...
T Consensus       167 lSRcq~f~fkri~~~~I~~~L~~i~~~E~I~~---e~~aL~~ia~~a~Gs~R  215 (515)
T COG2812         167 LSRCQRFDFKRLDLEEIAKHLAAILDKEGINI---EEDALSLIARAAEGSLR  215 (515)
T ss_pred             hhccccccccCCCHHHHHHHHHHHHHhcCCcc---CHHHHHHHHHHcCCChh
Confidence            23345789999999999999888876554222   24456667777777544

>KOG2739 consensus Leucine-rich acidic nuclear protein [Cell cycle control, cell division, chromosome partitioning; General function prediction only]

Probab=96.67  E-value=0.00097  Score=65.92  Aligned_cols=82  Identities=28%  Similarity=0.303  Sum_probs=48.1

Q ss_pred             hcCCCccEEEccCC--CccccCCccccccCCCCeEEccCCCccc---cchhhhcCCCCCEEecCCccccCCCc---HHHh
Q 048126          537 QFMPSLRVFNMSNN--HLLWKLPSGISTLVSLEHLDLSGTAITH---LPIELQKLVNLKCLNLEYMYNLNQFP---RLVM  608 (863)
Q Consensus       537 ~~l~~L~~L~L~~~--~~~~~lp~~i~~l~~L~~L~L~~~~l~~---lp~~~~~l~~L~~L~l~~~~~l~~lp---~~~~  608 (863)
                      -.|++|++|+++.|  +....++-.+.++++|++|++++|+|+-   ++ .+..+.||..|++.+|.... +-   ..++
T Consensus        62 P~Lp~LkkL~lsdn~~~~~~~l~vl~e~~P~l~~l~ls~Nki~~lstl~-pl~~l~nL~~Ldl~n~~~~~-l~dyre~vf  139 (260)
T KOG2739|consen   62 PKLPKLKKLELSDNYRRVSGGLEVLAEKAPNLKVLNLSGNKIKDLSTLR-PLKELENLKSLDLFNCSVTN-LDDYREKVF  139 (260)
T ss_pred             CCcchhhhhcccCCcccccccceehhhhCCceeEEeecCCccccccccc-hhhhhcchhhhhcccCCccc-cccHHHHHH
Confidence            34556666666666  4444455555556777777777776653   22 35566777788888774422 22   2234


Q ss_pred             hcCCCCcEEEee
Q 048126          609 SAFSKLQVLRIL  620 (863)
Q Consensus       609 ~~L~~L~~L~l~  620 (863)
                      .-+++|.+|+-.
T Consensus       140 ~ll~~L~~LD~~  151 (260)
T KOG2739|consen  140 LLLPSLKYLDGC  151 (260)
T ss_pred             HHhhhhcccccc
Confidence            556677666644

>PRK06964 DNA polymerase III subunit delta'; Validated

Probab=96.67  E-value=0.079  Score=56.62  Aligned_cols=92  Identities=13%  Similarity=0.139  Sum_probs=56.8

Q ss_pred             cCcEEEEEeccCCc--cccccccCCCCCCCCCcEEEEecCc-hhhhhcc-cccceEeecCCChHHHHHHHHHHhcccccC
Q 048126          228 KKKFLLLLDDIWER--VDLTKVGVPFPDPENKSKIVFTTRF-LEICGAM-KAHEFLKVECLGPEDAWRLFRENLRRDVLD  303 (863)
Q Consensus       228 ~kr~LlVlDdv~~~--~~~~~~~~~l~~~~~gs~IivTtR~-~~v~~~~-~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~  303 (863)
                      +++-++|+|+++..  .....+...+....+++.+|++|.+ ..+.... .-...+.+.+++.++..+.+... +.    
T Consensus       131 ~~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~t~fiL~t~~~~~LLpTI~SRcq~i~~~~~~~~~~~~~L~~~-~~----  205 (342)
T PRK06964        131 GGARVVVLYPAEALNVAAANALLKTLEEPPPGTVFLLVSARIDRLLPTILSRCRQFPMTVPAPEAAAAWLAAQ-GV----  205 (342)
T ss_pred             CCceEEEEechhhcCHHHHHHHHHHhcCCCcCcEEEEEECChhhCcHHHHhcCEEEEecCCCHHHHHHHHHHc-CC----
Confidence            34558889999764  3344444444444556666655555 4443222 22357889999999999988764 11    


Q ss_pred             CCCChHHHHHHHHHHhCCchhHHHHHH
Q 048126          304 NHPDIPELARSVAKEYAGLPLALITIG  330 (863)
Q Consensus       304 ~~~~~~~~~~~i~~~c~glPlai~~~~  330 (863)
                        ++    ...++..++|.|..+..+.
T Consensus       206 --~~----~~~~l~~~~Gsp~~Al~~~  226 (342)
T PRK06964        206 --AD----ADALLAEAGGAPLAALALA  226 (342)
T ss_pred             --Ch----HHHHHHHcCCCHHHHHHHH
Confidence              11    2335778899997665543

>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=96.66  E-value=0.0015  Score=58.85  Aligned_cols=23  Identities=35%  Similarity=0.576  Sum_probs=21.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 048126          149 IIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      +|+|.|++|+||||+|+.+++..
T Consensus         1 vI~I~G~~gsGKST~a~~La~~~   23 (121)
T PF13207_consen    1 VIIISGPPGSGKSTLAKELAERL   23 (121)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHHHH
Confidence            68999999999999999999986

...

>PRK06526 transposase; Provisional

Probab=96.65  E-value=0.0018  Score=66.37  Aligned_cols=26  Identities=23%  Similarity=0.254  Sum_probs=22.9

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      +..-+.++|++|+|||+||..+....
T Consensus        97 ~~~nlll~Gp~GtGKThLa~al~~~a  122 (254)
T PRK06526         97 GKENVVFLGPPGTGKTHLAIGLGIRA  122 (254)
T ss_pred             cCceEEEEeCCCCchHHHHHHHHHHH
Confidence            34568999999999999999998876

>PRK04296 thymidine kinase; Provisional

Probab=96.62  E-value=0.0017  Score=63.64  Aligned_cols=113  Identities=16%  Similarity=0.037  Sum_probs=63.5

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHHHHhCCCCccccCCChhHHHHHHHHHhc
Q 048126          148 GIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGRRIGFLDESWKNGSLEDKASDILRILS  227 (863)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~  227 (863)
                      .++.|+|..|.||||+|..++.+..   .+-..++++.  ..++.+.....++.+++...+........+....+.+ ..
T Consensus         3 ~i~litG~~GsGKTT~~l~~~~~~~---~~g~~v~i~k--~~~d~~~~~~~i~~~lg~~~~~~~~~~~~~~~~~~~~-~~   76 (190)
T PRK04296          3 KLEFIYGAMNSGKSTELLQRAYNYE---ERGMKVLVFK--PAIDDRYGEGKVVSRIGLSREAIPVSSDTDIFELIEE-EG   76 (190)
T ss_pred             EEEEEECCCCCHHHHHHHHHHHHHH---HcCCeEEEEe--ccccccccCCcEecCCCCcccceEeCChHHHHHHHHh-hC
Confidence            4678899999999999999998872   2223344442  1112222234456666543322112334445555555 33


Q ss_pred             cCcEEEEEeccCCc--cccccccCCCCCCCCCcEEEEecCchh
Q 048126          228 KKKFLLLLDDIWER--VDLTKVGVPFPDPENKSKIVFTTRFLE  268 (863)
Q Consensus       228 ~kr~LlVlDdv~~~--~~~~~~~~~l~~~~~gs~IivTtR~~~  268 (863)
                      ++.-+||+|.+.-.  .+..++...+  ...|..||+|.++..
T Consensus        77 ~~~dvviIDEaq~l~~~~v~~l~~~l--~~~g~~vi~tgl~~~  117 (190)
T PRK04296         77 EKIDCVLIDEAQFLDKEQVVQLAEVL--DDLGIPVICYGLDTD  117 (190)
T ss_pred             CCCCEEEEEccccCCHHHHHHHHHHH--HHcCCeEEEEecCcc
Confidence            34558999999542  1122222111  235778999998854

>CHL00195 ycf46 Ycf46; Provisional

Probab=96.62  E-value=0.014  Score=65.51  Aligned_cols=172  Identities=15%  Similarity=0.102  Sum_probs=89.8

Q ss_pred             CccchhHHHHHHHHHhc---C-------CCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHH
Q 048126          127 PTVGLESMFDKVWRCLG---E-------EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQ  196 (863)
Q Consensus       127 ~~vGr~~~~~~l~~~L~---~-------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~  196 (863)
                      ++.|.+..++.+.+...   .       ...+-|.++|++|+|||.+|+.+++..   ...|   +-+.++      .+.
T Consensus       229 dvgGl~~lK~~l~~~~~~~~~~~~~~gl~~pkGILL~GPpGTGKTllAkaiA~e~---~~~~---~~l~~~------~l~  296 (489)
T CHL00195        229 DIGGLDNLKDWLKKRSTSFSKQASNYGLPTPRGLLLVGIQGTGKSLTAKAIANDW---QLPL---LRLDVG------KLF  296 (489)
T ss_pred             HhcCHHHHHHHHHHHHHHhhHHHHhcCCCCCceEEEECCCCCcHHHHHHHHHHHh---CCCE---EEEEhH------Hhc
Confidence            35687776666654321   1       235678899999999999999999987   2222   222211      111


Q ss_pred             HHHHHHhCCCCccccCCChhHHHHHHHHHhccCcEEEEEeccCCccc----c----------ccccCCCCCCCCCcEEEE
Q 048126          197 EKIGRRIGFLDESWKNGSLEDKASDILRILSKKKFLLLLDDIWERVD----L----------TKVGVPFPDPENKSKIVF  262 (863)
Q Consensus       197 ~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~----~----------~~~~~~l~~~~~gs~Iiv  262 (863)
                      .    ..       ...+...+...+...-...+++|++|+++....    .          ..+...+.....+.-||.
T Consensus       297 ~----~~-------vGese~~l~~~f~~A~~~~P~IL~IDEID~~~~~~~~~~d~~~~~rvl~~lL~~l~~~~~~V~vIa  365 (489)
T CHL00195        297 G----GI-------VGESESRMRQMIRIAEALSPCILWIDEIDKAFSNSESKGDSGTTNRVLATFITWLSEKKSPVFVVA  365 (489)
T ss_pred             c----cc-------cChHHHHHHHHHHHHHhcCCcEEEehhhhhhhccccCCCCchHHHHHHHHHHHHHhcCCCceEEEE
Confidence            0    00       111112222222222234789999999964210    0          011111112223344556


Q ss_pred             ecCchhh-----hhcccccceEeecCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCCch
Q 048126          263 TTRFLEI-----CGAMKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGLP  323 (863)
Q Consensus       263 TtR~~~v-----~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glP  323 (863)
                      ||.+...     .+...-+..+.++.-+.++-.++|+............  ..-...+++.+.|.-
T Consensus       366 TTN~~~~Ld~allR~GRFD~~i~v~lP~~~eR~~Il~~~l~~~~~~~~~--~~dl~~La~~T~GfS  429 (489)
T CHL00195        366 TANNIDLLPLEILRKGRFDEIFFLDLPSLEEREKIFKIHLQKFRPKSWK--KYDIKKLSKLSNKFS  429 (489)
T ss_pred             ecCChhhCCHHHhCCCcCCeEEEeCCcCHHHHHHHHHHHHhhcCCCccc--ccCHHHHHhhcCCCC
Confidence            7765432     1211234577888888999999998876543211100  112456666666543

>PRK08939 primosomal protein DnaI; Reviewed

Probab=96.61  E-value=0.005  Score=64.98  Aligned_cols=115  Identities=23%  Similarity=0.258  Sum_probs=64.6

Q ss_pred             chhHHHHHHHHHhcC----CCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHHHHhCC
Q 048126          130 GLESMFDKVWRCLGE----EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGRRIGF  205 (863)
Q Consensus       130 Gr~~~~~~l~~~L~~----~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~  205 (863)
                      ++....+...+++..    ...+-+.++|..|+|||.||..+++...  ...+. +.|++++      .++..+....+-
T Consensus       135 ~~~~~~~~~~~fi~~~~~~~~~~gl~L~G~~G~GKThLa~Aia~~l~--~~g~~-v~~~~~~------~l~~~lk~~~~~  205 (306)
T PRK08939        135 DRLDALMAALDFLEAYPPGEKVKGLYLYGDFGVGKSYLLAAIANELA--KKGVS-STLLHFP------EFIRELKNSISD  205 (306)
T ss_pred             HHHHHHHHHHHHHHHhhccCCCCeEEEECCCCCCHHHHHHHHHHHHH--HcCCC-EEEEEHH------HHHHHHHHHHhc
Confidence            455555555555542    2456799999999999999999999983  33343 5566543      455555444321


Q ss_pred             CCccccCCChhHHHHHHHHHhccCcEEEEEeccCCc--ccccc--ccCCC-CCC-CCCcEEEEecC
Q 048126          206 LDESWKNGSLEDKASDILRILSKKKFLLLLDDIWER--VDLTK--VGVPF-PDP-ENKSKIVFTTR  265 (863)
Q Consensus       206 ~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~--~~~~~--~~~~l-~~~-~~gs~IivTtR  265 (863)
                             .+..+    ..+.++ +-=||||||+..+  .+|..  +...+ ... ..+-.+|+||-
T Consensus       206 -------~~~~~----~l~~l~-~~dlLiIDDiG~e~~s~~~~~~ll~~Il~~R~~~~~~ti~TSN  259 (306)
T PRK08939        206 -------GSVKE----KIDAVK-EAPVLMLDDIGAEQMSSWVRDEVLGVILQYRMQEELPTFFTSN  259 (306)
T ss_pred             -------CcHHH----HHHHhc-CCCEEEEecCCCccccHHHHHHHHHHHHHHHHHCCCeEEEECC
Confidence                   11112    122222 4558999999643  34532  32221 111 13445777775

>smart00763 AAA_PrkA PrkA AAA domain

Probab=96.60  E-value=0.0026  Score=67.37  Aligned_cols=45  Identities=24%  Similarity=0.375  Sum_probs=40.1

Q ss_pred             CccchhHHHHHHHHHhcC------CCccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          127 PTVGLESMFDKVWRCLGE------EQVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       127 ~~vGr~~~~~~l~~~L~~------~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      .++|.++.++++++++..      ...++++++|++|+||||||+.+++..
T Consensus        52 ~~~G~~~~i~~lv~~l~~~a~g~~~~r~il~L~GPPGsGKStla~~La~~l  102 (361)
T smart00763       52 DFFGMEEAIERFVNYFKSAAQGLEERKQILYLLGPVGGGKSSLVECLKRGL  102 (361)
T ss_pred             hccCcHHHHHHHHHHHHHHHhcCCCCCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            589999999999999853      246789999999999999999999988

This is a family of PrkA bacterial and archaeal serine kinases approximately 630 residues long. This is the N-terminal AAA domain.

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=96.60  E-value=0.015  Score=70.00  Aligned_cols=171  Identities=16%  Similarity=0.123  Sum_probs=90.9

Q ss_pred             CccchhHHHHHHHHHhcC-------------CCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHH
Q 048126          127 PTVGLESMFDKVWRCLGE-------------EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLE  193 (863)
Q Consensus       127 ~~vGr~~~~~~l~~~L~~-------------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~  193 (863)
                      ++.|.+..+++|.+++.-             ...+.|.++|++|+|||++|+.+++..   ...|   +.+..+      
T Consensus       179 di~G~~~~~~~l~~~i~~~~~~~~~~~~~gi~~~~giLL~GppGtGKT~laraia~~~---~~~~---i~i~~~------  246 (733)
T TIGR01243       179 DIGGLKEAKEKIREMVELPMKHPELFEHLGIEPPKGVLLYGPPGTGKTLLAKAVANEA---GAYF---ISINGP------  246 (733)
T ss_pred             HhcCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCceEEEECCCCCChHHHHHHHHHHh---CCeE---EEEecH------
Confidence            467999999988877631             234578899999999999999999876   2222   222211      


Q ss_pred             HHHHHHHHHhCCCCccccCCChhHHHHHHHHHhccCcEEEEEeccCCccc-------------cccccCCCCC-CCCCcE
Q 048126          194 KIQEKIGRRIGFLDESWKNGSLEDKASDILRILSKKKFLLLLDDIWERVD-------------LTKVGVPFPD-PENKSK  259 (863)
Q Consensus       194 ~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~-------------~~~~~~~l~~-~~~gs~  259 (863)
                      .+.    ...       .......+...+.......+.+|++|+++....             ...+...+.. ...+..
T Consensus       247 ~i~----~~~-------~g~~~~~l~~lf~~a~~~~p~il~iDEid~l~~~r~~~~~~~~~~~~~~Ll~~ld~l~~~~~v  315 (733)
T TIGR01243       247 EIM----SKY-------YGESEERLREIFKEAEENAPSIIFIDEIDAIAPKREEVTGEVEKRVVAQLLTLMDGLKGRGRV  315 (733)
T ss_pred             HHh----ccc-------ccHHHHHHHHHHHHHHhcCCcEEEeehhhhhcccccCCcchHHHHHHHHHHHHhhccccCCCE
Confidence            111    000       111112222333334445678999999854210             1112111111 122333


Q ss_pred             EEE-ecCchh-hhhcc----cccceEeecCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCCchh
Q 048126          260 IVF-TTRFLE-ICGAM----KAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGLPL  324 (863)
Q Consensus       260 Iiv-TtR~~~-v~~~~----~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPl  324 (863)
                      ++| ||.... +...+    .-...+.++..+.++-.++++..........+    .....+++.+.|.--
T Consensus       316 ivI~atn~~~~ld~al~r~gRfd~~i~i~~P~~~~R~~Il~~~~~~~~l~~d----~~l~~la~~t~G~~g  382 (733)
T TIGR01243       316 IVIGATNRPDALDPALRRPGRFDREIVIRVPDKRARKEILKVHTRNMPLAED----VDLDKLAEVTHGFVG  382 (733)
T ss_pred             EEEeecCChhhcCHHHhCchhccEEEEeCCcCHHHHHHHHHHHhcCCCCccc----cCHHHHHHhCCCCCH
Confidence            444 444332 21111    12345778888888888888865433221111    124667778877643

This subfamily of the AAA family ATPases includes two members each from three archaeal species. It also includes yeast CDC48 (cell division control protein 48) and the human ortholog, transitional endoplasmic reticulum ATPase (valosin-containing protein). These proteins in eukaryotes are involved in the budding and transfer of membrane from the transitional endoplasmic reticulum to the Golgi apparatus.

>cd01393 recA_like RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response

Probab=96.56  E-value=0.022  Score=57.80  Aligned_cols=90  Identities=17%  Similarity=0.200  Sum_probs=55.6

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCC------CEEEEEEeCCccCHHHHHHHHHHHhCCCCcc-------ccC
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDF------DVVIWVVVSKDLQLEKIQEKIGRRIGFLDES-------WKN  212 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F------~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~-------~~~  212 (863)
                      .-.++.|+|.+|+|||++|.+++...   ...-      ..++|++....++...+. .+++..+.....       ...
T Consensus        18 ~g~v~~I~G~~GsGKT~l~~~ia~~~---~~~~~~~g~~~~v~yi~~e~~~~~~rl~-~~~~~~~~~~~~~~~~i~~~~~   93 (226)
T cd01393          18 TGRITEIFGEFGSGKTQLCLQLAVEA---QLPGELGGLEGKVVYIDTEGAFRPERLV-QLAVRFGLDPEEVLDNIYVARP   93 (226)
T ss_pred             CCcEEEEeCCCCCChhHHHHHHHHHh---hcccccCCCcceEEEEecCCCCCHHHHH-HHHHHhccchhhhhccEEEEeC
Confidence            45799999999999999999998765   1222      567899987777665543 333333221100       012


Q ss_pred             CChhHHHHHHHHHhc---c-CcEEEEEeccC
Q 048126          213 GSLEDKASDILRILS---K-KKFLLLLDDIW  239 (863)
Q Consensus       213 ~~~~~~~~~l~~~l~---~-kr~LlVlDdv~  239 (863)
                      .+.++....+.+..+   . +.-++|+|.+.
T Consensus        94 ~~~~~~~~~l~~~~~~~~~~~~~lvVIDsis  124 (226)
T cd01393          94 YNGEQQLEIVEELERIMSSGRVDLVVVDSVA  124 (226)
T ss_pred             CCHHHHHHHHHHHHHHhhcCCeeEEEEcCcc
Confidence            344555555554432   3 44588889874

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.

>cd00983 recA RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response

Probab=96.55  E-value=0.023  Score=59.91  Aligned_cols=86  Identities=17%  Similarity=0.165  Sum_probs=56.3

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHHHHhCCCCcc---ccCCChhHHHHHH
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGRRIGFLDES---WKNGSLEDKASDI  222 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~---~~~~~~~~~~~~l  222 (863)
                      .-+++-|+|++|+||||||.+++...   ...-..++||+....++..     .+++++...+.   ....+.++....+
T Consensus        54 ~G~iteI~Gp~GsGKTtLal~~~~~~---~~~g~~~vyId~E~~~~~~-----~a~~lGvd~~~l~v~~p~~~eq~l~i~  125 (325)
T cd00983          54 KGRIIEIYGPESSGKTTLALHAIAEA---QKLGGTVAFIDAEHALDPV-----YAKKLGVDLDNLLISQPDTGEQALEIA  125 (325)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH---HHcCCCEEEECccccHHHH-----HHHHcCCCHHHheecCCCCHHHHHHHH
Confidence            45789999999999999999988776   2233568899877766643     34455543221   1223445555555


Q ss_pred             HHHhcc-CcEEEEEeccC
Q 048126          223 LRILSK-KKFLLLLDDIW  239 (863)
Q Consensus       223 ~~~l~~-kr~LlVlDdv~  239 (863)
                      ...++. ..-++|+|.|.
T Consensus       126 ~~li~s~~~~lIVIDSva  143 (325)
T cd00983         126 DSLVRSGAVDLIVVDSVA  143 (325)
T ss_pred             HHHHhccCCCEEEEcchH
Confidence            554443 56689999985

RecA couples ATP hydrolysis to DNA strand exchange.

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

Probab=96.52  E-value=0.0019  Score=63.18  Aligned_cols=128  Identities=20%  Similarity=0.179  Sum_probs=61.8

Q ss_pred             hhHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeC----Ccc-----CHH----HHHH
Q 048126          131 LESMFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVS----KDL-----QLE----KIQE  197 (863)
Q Consensus       131 r~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s----~~~-----~~~----~~~~  197 (863)
                      +..+-...++.|.  ...++.+.|++|.|||.||.+.+-+. -....|+.++++.-.    ++.     +..    -...
T Consensus         5 ~~~~Q~~~~~al~--~~~~v~~~G~AGTGKT~LA~a~Al~~-v~~g~~~kiii~Rp~v~~~~~lGflpG~~~eK~~p~~~   81 (205)
T PF02562_consen    5 KNEEQKFALDALL--NNDLVIVNGPAGTGKTFLALAAALEL-VKEGEYDKIIITRPPVEAGEDLGFLPGDLEEKMEPYLR   81 (205)
T ss_dssp             -SHHHHHHHHHHH--H-SEEEEE--TTSSTTHHHHHHHHHH-HHTTS-SEEEEEE-S--TT----SS---------TTTH
T ss_pred             CCHHHHHHHHHHH--hCCeEEEECCCCCcHHHHHHHHHHHH-HHhCCCcEEEEEecCCCCccccccCCCCHHHHHHHHHH
Confidence            3444555666665  55699999999999999999998766 334788888776421    111     000    0112


Q ss_pred             HHHHHhCCCCccccCCChhHHHHH------HHHHhccC---cEEEEEeccCCc--cccccccCCCCCCCCCcEEEEecCc
Q 048126          198 KIGRRIGFLDESWKNGSLEDKASD------ILRILSKK---KFLLLLDDIWER--VDLTKVGVPFPDPENKSKIVFTTRF  266 (863)
Q Consensus       198 ~i~~~l~~~~~~~~~~~~~~~~~~------l~~~l~~k---r~LlVlDdv~~~--~~~~~~~~~l~~~~~gs~IivTtR~  266 (863)
                      .+.+.+..-.   .....+.+...      -..+++++   ..+||+|++.+.  ..+..+..   ..+.|||||++--.
T Consensus        82 p~~d~l~~~~---~~~~~~~~~~~~~Ie~~~~~~iRGrt~~~~~iIvDEaQN~t~~~~k~ilT---R~g~~skii~~GD~  155 (205)
T PF02562_consen   82 PIYDALEELF---GKEKLEELIQNGKIEIEPLAFIRGRTFDNAFIIVDEAQNLTPEELKMILT---RIGEGSKIIITGDP  155 (205)
T ss_dssp             HHHHHHTTTS----TTCHHHHHHTTSEEEEEGGGGTT--B-SEEEEE-SGGG--HHHHHHHHT---TB-TT-EEEEEE--
T ss_pred             HHHHHHHHHh---ChHhHHHHhhcCeEEEEehhhhcCccccceEEEEecccCCCHHHHHHHHc---ccCCCcEEEEecCc
Confidence            2222221110   11111111110      01244553   569999999875  34555533   34679999998755


Q ss_pred             h
Q 048126          267 L  267 (863)
Q Consensus       267 ~  267 (863)
                      .
T Consensus       156 ~  156 (205)
T PF02562_consen  156 S  156 (205)
T ss_dssp             -
T ss_pred             e
Confidence            4

; GO: 0005524 ATP binding; PDB: 3B85_A.

>PRK09183 transposase/IS protein; Provisional

Probab=96.51  E-value=0.0042  Score=64.07  Aligned_cols=26  Identities=35%  Similarity=0.393  Sum_probs=22.4

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ....+.|+|+.|+|||+||..++...
T Consensus       101 ~~~~v~l~Gp~GtGKThLa~al~~~a  126 (259)
T PRK09183        101 RNENIVLLGPSGVGKTHLAIALGYEA  126 (259)
T ss_pred             cCCeEEEEeCCCCCHHHHHHHHHHHH
Confidence            34567899999999999999998775

>TIGR02237 recomb_radB DNA repair and recombination protein RadB

Probab=96.51  E-value=0.014  Score=58.39  Aligned_cols=48  Identities=21%  Similarity=0.328  Sum_probs=37.1

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHH
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQE  197 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~  197 (863)
                      .-+++.|+|.+|+|||++|.+++...   ...-..++||+... ++...+.+
T Consensus        11 ~g~i~~i~G~~GsGKT~l~~~~~~~~---~~~g~~v~yi~~e~-~~~~rl~~   58 (209)
T TIGR02237        11 RGTITQIYGPPGSGKTNICMILAVNA---ARQGKKVVYIDTEG-LSPERFKQ   58 (209)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH---HhCCCeEEEEECCC-CCHHHHHH
Confidence            45799999999999999999998876   23346789999875 55555443

This family consists exclusively of archaeal RadB protein, a homolog of bacterial RecA (TIGR02012), eukaryotic RAD51 (TIGR02239) and DMC1 (TIGR02238), and archaeal RadA (TIGR02236).

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=96.49  E-value=0.04  Score=66.26  Aligned_cols=171  Identities=16%  Similarity=0.164  Sum_probs=93.6

Q ss_pred             CCccchhHHHHHHHHHhcC-------------CCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCH
Q 048126          126 EPTVGLESMFDKVWRCLGE-------------EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQL  192 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~-------------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~  192 (863)
                      ..+.|.+..+++|.+.+.-             ...+-|.++|++|+|||++|+.+++..   ...|     +.++..   
T Consensus       453 ~di~g~~~~k~~l~~~v~~~~~~~~~~~~~g~~~~~giLL~GppGtGKT~lakalA~e~---~~~f-----i~v~~~---  521 (733)
T TIGR01243       453 SDIGGLEEVKQELREAVEWPLKHPEIFEKMGIRPPKGVLLFGPPGTGKTLLAKAVATES---GANF-----IAVRGP---  521 (733)
T ss_pred             hhcccHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhc---CCCE-----EEEehH---
Confidence            3457888888877776531             134568899999999999999999987   3333     222211   


Q ss_pred             HHHHHHHHHHhCCCCccccCCChhHHHHHHHHHhccCcEEEEEeccCCcc--------c------cccccCCCCC--CCC
Q 048126          193 EKIQEKIGRRIGFLDESWKNGSLEDKASDILRILSKKKFLLLLDDIWERV--------D------LTKVGVPFPD--PEN  256 (863)
Q Consensus       193 ~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~--------~------~~~~~~~l~~--~~~  256 (863)
                       ++    +...       ...+...+...+...-+..+.+|++|+++...        .      ...+...+..  ...
T Consensus       522 -~l----~~~~-------vGese~~i~~~f~~A~~~~p~iifiDEid~l~~~r~~~~~~~~~~~~~~~lL~~ldg~~~~~  589 (733)
T TIGR01243       522 -EI----LSKW-------VGESEKAIREIFRKARQAAPAIIFFDEIDAIAPARGARFDTSVTDRIVNQLLTEMDGIQELS  589 (733)
T ss_pred             -HH----hhcc-------cCcHHHHHHHHHHHHHhcCCEEEEEEChhhhhccCCCCCCccHHHHHHHHHHHHhhcccCCC
Confidence             11    1110       11122222223333334567999999986421        0      0111111211  123


Q ss_pred             CcEEEEecCchhhhh-c-c---cccceEeecCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCCch
Q 048126          257 KSKIVFTTRFLEICG-A-M---KAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGLP  323 (863)
Q Consensus       257 gs~IivTtR~~~v~~-~-~---~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glP  323 (863)
                      +.-||.||...+... . .   .-+..+.++..+.++-.++|+............+    ...+++.+.|.-
T Consensus       590 ~v~vI~aTn~~~~ld~allRpgRfd~~i~v~~Pd~~~R~~i~~~~~~~~~~~~~~~----l~~la~~t~g~s  657 (733)
T TIGR01243       590 NVVVIAATNRPDILDPALLRPGRFDRLILVPPPDEEARKEIFKIHTRSMPLAEDVD----LEELAEMTEGYT  657 (733)
T ss_pred             CEEEEEeCCChhhCCHhhcCCCccceEEEeCCcCHHHHHHHHHHHhcCCCCCccCC----HHHHHHHcCCCC
Confidence            445666665544321 1 1   2345678888899988899986654332122222    355667777653

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.

>PF07693 KAP_NTPase: KAP family P-loop domain; InterPro: IPR011646 The KAP (after Kidins220/ARMS and PifA) family of predicted NTPases are sporadically distributed across a wide phylogenetic range in bacteria and in animals

Probab=96.49  E-value=0.089  Score=56.76  Aligned_cols=40  Identities=25%  Similarity=0.461  Sum_probs=33.1

Q ss_pred             hHHHHHHHHHhcC---CCccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          132 ESMFDKVWRCLGE---EQVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       132 ~~~~~~l~~~L~~---~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      +.-.+.|.+.+.+   +...+|+|.|.=|+||||+.+.+.+..
T Consensus         2 ~~~a~~la~~I~~~~~~~~~~IgL~G~WGsGKSs~l~~l~~~L   44 (325)
T PF07693_consen    2 KPYAKALAEIIKNPDSDDPFVIGLYGEWGSGKSSFLNMLKEEL   44 (325)
T ss_pred             hHHHHHHHHHHhccCCCCCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            4455667777765   467799999999999999999999988

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 [].

>PRK07952 DNA replication protein DnaC; Validated

Probab=96.45  E-value=0.021  Score=58.01  Aligned_cols=89  Identities=25%  Similarity=0.287  Sum_probs=51.9

Q ss_pred             HHHHHHHHhcC--CCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHHHHhCCCCcccc
Q 048126          134 MFDKVWRCLGE--EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGRRIGFLDESWK  211 (863)
Q Consensus       134 ~~~~l~~~L~~--~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~  211 (863)
                      .+..+.++...  .+...+.++|.+|+|||+||..+++...   ..-..+++++      ..++...+-.....     .
T Consensus        84 al~~a~~~~~~~~~~~~~~~l~G~~GtGKThLa~aia~~l~---~~g~~v~~it------~~~l~~~l~~~~~~-----~  149 (244)
T PRK07952         84 ALSKARQYVEEFDGNIASFIFSGKPGTGKNHLAAAICNELL---LRGKSVLIIT------VADIMSAMKDTFSN-----S  149 (244)
T ss_pred             HHHHHHHHHHhhccCCceEEEECCCCCCHHHHHHHHHHHHH---hcCCeEEEEE------HHHHHHHHHHHHhh-----c
Confidence            44455554432  2345788999999999999999999872   2223566664      34444444433321     1


Q ss_pred             CCChhHHHHHHHHHhccCcEEEEEeccCCc
Q 048126          212 NGSLEDKASDILRILSKKKFLLLLDDIWER  241 (863)
Q Consensus       212 ~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~  241 (863)
                      ..+..    .+.+.+. +.=+||+||+...
T Consensus       150 ~~~~~----~~l~~l~-~~dlLvIDDig~~  174 (244)
T PRK07952        150 ETSEE----QLLNDLS-NVDLLVIDEIGVQ  174 (244)
T ss_pred             cccHH----HHHHHhc-cCCEEEEeCCCCC
Confidence            11111    2333344 3448888999653

>COG1223 Predicted ATPase (AAA+ superfamily) [General function prediction only]

Probab=96.45  E-value=0.028  Score=55.45  Aligned_cols=169  Identities=15%  Similarity=0.231  Sum_probs=93.0

Q ss_pred             CCccchhHHHHH---HHHHhcCC------CccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHH
Q 048126          126 EPTVGLESMFDK---VWRCLGEE------QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQ  196 (863)
Q Consensus       126 ~~~vGr~~~~~~---l~~~L~~~------~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~  196 (863)
                      +++||.+..+.+   |+++|.++      ..+-|..+|++|.|||.+|+++++..   +-.|     +.+..       .
T Consensus       121 ddViGqEeAK~kcrli~~yLenPe~Fg~WAPknVLFyGppGTGKTm~Akalane~---kvp~-----l~vka-------t  185 (368)
T COG1223         121 DDVIGQEEAKRKCRLIMEYLENPERFGDWAPKNVLFYGPPGTGKTMMAKALANEA---KVPL-----LLVKA-------T  185 (368)
T ss_pred             hhhhchHHHHHHHHHHHHHhhChHHhcccCcceeEEECCCCccHHHHHHHHhccc---CCce-----EEech-------H
Confidence            346898876654   67777653      57889999999999999999999987   2232     22111       1


Q ss_pred             HHHHHHhCCCCccccCCChhHHHHHHHHHhc-cCcEEEEEeccCCc----------ccccc----ccCCCC--CCCCCcE
Q 048126          197 EKIGRRIGFLDESWKNGSLEDKASDILRILS-KKKFLLLLDDIWER----------VDLTK----VGVPFP--DPENKSK  259 (863)
Q Consensus       197 ~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~-~kr~LlVlDdv~~~----------~~~~~----~~~~l~--~~~~gs~  259 (863)
                      .-|.+..|         +....+..+.+.-+ .-++++.+|.++..          .+..+    +...+.  ..+.|..
T Consensus       186 ~liGehVG---------dgar~Ihely~rA~~~aPcivFiDE~DAiaLdRryQelRGDVsEiVNALLTelDgi~eneGVv  256 (368)
T COG1223         186 ELIGEHVG---------DGARRIHELYERARKAAPCIVFIDELDAIALDRRYQELRGDVSEIVNALLTELDGIKENEGVV  256 (368)
T ss_pred             HHHHHHhh---------hHHHHHHHHHHHHHhcCCeEEEehhhhhhhhhhhHHHhcccHHHHHHHHHHhccCcccCCceE
Confidence            11222111         11223333333332 36899999987642          11111    111121  1234555


Q ss_pred             EEEecCchhhhhc-cc--ccceEeecCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCCc
Q 048126          260 IVFTTRFLEICGA-MK--AHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGL  322 (863)
Q Consensus       260 IivTtR~~~v~~~-~~--~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~gl  322 (863)
                      .|-.|.+.++... ..  -...++..--+++|-.+++...+..-...    +..-.+.++++.+|.
T Consensus       257 tIaaTN~p~~LD~aiRsRFEeEIEF~LP~~eEr~~ile~y~k~~Plp----v~~~~~~~~~~t~g~  318 (368)
T COG1223         257 TIAATNRPELLDPAIRSRFEEEIEFKLPNDEERLEILEYYAKKFPLP----VDADLRYLAAKTKGM  318 (368)
T ss_pred             EEeecCChhhcCHHHHhhhhheeeeeCCChHHHHHHHHHHHHhCCCc----cccCHHHHHHHhCCC
Confidence            5666665554321 11  12346666667888888888777542211    112245666666664

>cd01394 radB RadB

Probab=96.42  E-value=0.025  Score=56.98  Aligned_cols=43  Identities=16%  Similarity=0.209  Sum_probs=32.8

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccC
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQ  191 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~  191 (863)
                      .-.++.|.|.+|+||||+|.+++....   ..-..++|++....+.
T Consensus        18 ~g~i~~i~G~~GsGKT~l~~~~a~~~~---~~g~~v~yi~~e~~~~   60 (218)
T cd01394          18 RGTVTQVYGPPGTGKTNIAIQLAVETA---GQGKKVAYIDTEGLSS   60 (218)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHH---hcCCeEEEEECCCCCH
Confidence            457899999999999999999988762   2234678887655443

The archaeal protein radB shares similarity radA, the archaeal functional homologue to the bacterial RecA. The precise function of radB is unclear.

>PF08423 Rad51: Rad51; InterPro: IPR013632 This domain is found at the C terminus of the DNA repair and recombination protein Rad51

Probab=96.41  E-value=0.014  Score=60.04  Aligned_cols=101  Identities=25%  Similarity=0.319  Sum_probs=59.6

Q ss_pred             HHHHHhcCC--CccEEEEEcCCCCcHHHHHHHHHhhhcCCC----CCCCEEEEEEeCCccCHHHHHHHHHHHhCCCCcc-
Q 048126          137 KVWRCLGEE--QVGIIGLYGMGGVGKTTLLTKINNKLLGAP----NDFDVVIWVVVSKDLQLEKIQEKIGRRIGFLDES-  209 (863)
Q Consensus       137 ~l~~~L~~~--~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~----~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~-  209 (863)
                      .|-++|..+  .-.+.=|+|.+|+|||.|+.+++-.. ...    ..=..++||+-...|+..++. +|+++.+...+. 
T Consensus        26 ~lD~~L~GGi~~g~itEi~G~~gsGKTql~l~l~~~~-~l~~~~~g~~~~vvyidTe~~f~~~Rl~-~i~~~~~~~~~~~  103 (256)
T PF08423_consen   26 SLDELLGGGIPTGSITEIVGESGSGKTQLCLQLAVNV-QLPEEIGGLGGKVVYIDTEGTFSPERLQ-QIAERFGLDPEEI  103 (256)
T ss_dssp             HHHHHTTSSEETTSEEEEEESTTSSHHHHHHHHHHHT-TSGGCTTSSSSEEEEEESSSSS-HHHHH-HHHHHTTS-HHHH
T ss_pred             HHHHhhCCCCCCCcEEEEEEecccccchHHHHHHHHh-hcccccccCCCceEEEeCCCCCCHHHHH-HHhhccccccchh
Confidence            344445332  34699999999999999999887554 111    122478999998889887775 466665543211 


Q ss_pred             ------ccCCChhHHHHHH---HHHhcc-CcEEEEEeccC
Q 048126          210 ------WKNGSLEDKASDI---LRILSK-KKFLLLLDDIW  239 (863)
Q Consensus       210 ------~~~~~~~~~~~~l---~~~l~~-kr~LlVlDdv~  239 (863)
                            ....+.+++...+   ...+.+ +=-|||+|.+-
T Consensus       104 l~~I~v~~~~~~~~l~~~L~~l~~~l~~~~ikLIVIDSIa  143 (256)
T PF08423_consen  104 LDNIFVIRVFDLEELLELLEQLPKLLSESKIKLIVIDSIA  143 (256)
T ss_dssp             HHTEEEEE-SSHHHHHHHHHHHHHHHHHSCEEEEEEETSS
T ss_pred             hhceeeeecCCHHHHHHHHHHHHhhccccceEEEEecchH
Confidence                  0122333433333   333333 44588888873

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 ....

>cd01133 F1-ATPase_beta F1 ATP synthase beta subunit, nucleotide-binding domain

Probab=96.41  E-value=0.0092  Score=61.04  Aligned_cols=93  Identities=18%  Similarity=0.295  Sum_probs=57.2

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCC-CEEEEEEeCCccC-HHHHHHHHHHHhCCCC-----ccccCCChh--
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDF-DVVIWVVVSKDLQ-LEKIQEKIGRRIGFLD-----ESWKNGSLE--  216 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F-~~~~wv~~s~~~~-~~~~~~~i~~~l~~~~-----~~~~~~~~~--  216 (863)
                      +-..++|.|..|+||||||+.+++..   +.+| +.++++-+.+... +.++.+.+.+.-....     ...+.....  
T Consensus        68 ~GQr~~If~~~G~GKTtLa~~i~~~i---~~~~~~~~V~~~iGer~~Ev~e~~~~~~~~~~~~~tvvv~~t~d~~~~~r~  144 (274)
T cd01133          68 KGGKIGLFGGAGVGKTVLIMELINNI---AKAHGGYSVFAGVGERTREGNDLYHEMKESGVLSKTALVYGQMNEPPGARA  144 (274)
T ss_pred             cCCEEEEecCCCCChhHHHHHHHHHH---HhcCCCEEEEEEeccCcHHHHHHHHHHHhcCCcceeEEEEECCCCCHHHHH
Confidence            34578999999999999999999987   3344 4567777776653 4566666654321110     000111111  


Q ss_pred             ---HHHHHHHHHh---ccCcEEEEEeccCCc
Q 048126          217 ---DKASDILRIL---SKKKFLLLLDDIWER  241 (863)
Q Consensus       217 ---~~~~~l~~~l---~~kr~LlVlDdv~~~  241 (863)
                         ..+-.+.+++   +++.+|+|+||+...
T Consensus       145 ~~~~~a~~~AEyfr~~~g~~Vl~~~Dsltr~  175 (274)
T cd01133         145 RVALTGLTMAEYFRDEEGQDVLLFIDNIFRF  175 (274)
T ss_pred             HHHHHHHHHHHHHHHhcCCeEEEEEeChhHH
Confidence               1222344555   378999999998653

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.

>cd01123 Rad51_DMC1_radA Rad51_DMC1_radA,B

Probab=96.41  E-value=0.01  Score=60.61  Aligned_cols=57  Identities=21%  Similarity=0.380  Sum_probs=39.7

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhhcCCCCC----CCEEEEEEeCCccCHHHHHHHHHHHhC
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPND----FDVVIWVVVSKDLQLEKIQEKIGRRIG  204 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~----F~~~~wv~~s~~~~~~~~~~~i~~~l~  204 (863)
                      .-.++.|+|.+|+|||++|.+++-.. .....    -..++|++....++...+. ++++..+
T Consensus        18 ~g~i~~i~G~~GsGKT~l~~~l~~~~-~~~~~~~g~~~~viyi~~e~~~~~~rl~-~~~~~~~   78 (235)
T cd01123          18 TGSITEIFGEFGSGKTQLCHQLAVTV-QLPIELGGLEGKAVYIDTEGTFRPERLV-QIAERFG   78 (235)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHe-eCccccCCCCccEEEEeCCCCcCHHHHH-HHHHHhc
Confidence            45799999999999999999997554 11221    3578999988777655443 3444443

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 .

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=96.39  E-value=0.012  Score=71.66  Aligned_cols=60  Identities=27%  Similarity=0.384  Sum_probs=44.0

Q ss_pred             CCccchhHHHHHHHHHhcCC---------CccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCC
Q 048126          126 EPTVGLESMFDKVWRCLGEE---------QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSK  188 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~---------~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~  188 (863)
                      ..++|.+..++.+.+.+...         ...++.++|+.|+|||++|+.++...   ...-...+.+.++.
T Consensus       565 ~~v~GQ~~av~~v~~~i~~~~~gl~~~~~p~~~~Lf~Gp~GvGKt~lA~~La~~l---~~~~~~~i~~d~s~  633 (852)
T TIGR03346       565 ERVVGQDEAVEAVSDAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTELAKALAEFL---FDDEDAMVRIDMSE  633 (852)
T ss_pred             cccCCChHHHHHHHHHHHHHhccCCCCCCCCeEEEEEcCCCCCHHHHHHHHHHHh---cCCCCcEEEEechh
Confidence            45789999999999888531         13568899999999999999999876   22223445555554

Members of this protein family are the bacterial ATP-dependent chaperone ClpB. This protein belongs to the AAA family, ATPases associated with various cellular activities (pfam00004). This molecular chaperone does not act as a protease, but rather serves to disaggregate misfolded and aggregated proteins.

>PRK04132 replication factor C small subunit; Provisional

Probab=96.33  E-value=0.065  Score=63.73  Aligned_cols=155  Identities=12%  Similarity=0.076  Sum_probs=93.1

Q ss_pred             c--CCCCcHHHHHHHHHhhhcCCCCCC-CEEEEEEeCCccCHHHHHHHHHHHhCCCCccccCCChhHHHHHHHHHhccCc
Q 048126          154 G--MGGVGKTTLLTKINNKLLGAPNDF-DVVIWVVVSKDLQLEKIQEKIGRRIGFLDESWKNGSLEDKASDILRILSKKK  230 (863)
Q Consensus       154 G--~gGiGKTtLa~~v~~~~~~~~~~F-~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~kr  230 (863)
                      |  +.++||||+|..++++.-  .+.+ ..++-+++|+..++..+. +++..+....+  .              -..+.
T Consensus       571 G~lPh~lGKTT~A~ala~~l~--g~~~~~~~lElNASd~rgid~IR-~iIk~~a~~~~--~--------------~~~~~  631 (846)
T PRK04132        571 GNLPTVLHNTTAALALARELF--GENWRHNFLELNASDERGINVIR-EKVKEFARTKP--I--------------GGASF  631 (846)
T ss_pred             CCCCCcccHHHHHHHHHHhhh--cccccCeEEEEeCCCcccHHHHH-HHHHHHHhcCC--c--------------CCCCC
Confidence            7  789999999999999861  1223 246777777655555443 33332211100  0              01245


Q ss_pred             EEEEEeccCCcc--ccccccCCCCCCCCCcEEEEecCch-hhhhcc-cccceEeecCCChHHHHHHHHHHhcccccCCCC
Q 048126          231 FLLLLDDIWERV--DLTKVGVPFPDPENKSKIVFTTRFL-EICGAM-KAHEFLKVECLGPEDAWRLFRENLRRDVLDNHP  306 (863)
Q Consensus       231 ~LlVlDdv~~~~--~~~~~~~~l~~~~~gs~IivTtR~~-~v~~~~-~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~  306 (863)
                      -++|+|+++...  +...+...+......+++|++|.+. .+.... .....+.+.+++.++-...+...+.......  
T Consensus       632 KVvIIDEaD~Lt~~AQnALLk~lEep~~~~~FILi~N~~~kIi~tIrSRC~~i~F~~ls~~~i~~~L~~I~~~Egi~i--  709 (846)
T PRK04132        632 KIIFLDEADALTQDAQQALRRTMEMFSSNVRFILSCNYSSKIIEPIQSRCAIFRFRPLRDEDIAKRLRYIAENEGLEL--  709 (846)
T ss_pred             EEEEEECcccCCHHHHHHHHHHhhCCCCCeEEEEEeCChhhCchHHhhhceEEeCCCCCHHHHHHHHHHHHHhcCCCC--
Confidence            799999998753  3444444343333456677666553 332221 2235789999999999888877654322111  


Q ss_pred             ChHHHHHHHHHHhCCchhHHHHHH
Q 048126          307 DIPELARSVAKEYAGLPLALITIG  330 (863)
Q Consensus       307 ~~~~~~~~i~~~c~glPlai~~~~  330 (863)
                       -.+....|++.++|-+..+..+-
T Consensus       710 -~~e~L~~Ia~~s~GDlR~AIn~L  732 (846)
T PRK04132        710 -TEEGLQAILYIAEGDMRRAINIL  732 (846)
T ss_pred             -CHHHHHHHHHHcCCCHHHHHHHH
Confidence             24578899999999885544433

>TIGR01425 SRP54_euk signal recognition particle protein SRP54

Probab=96.31  E-value=0.14  Score=56.09  Aligned_cols=26  Identities=35%  Similarity=0.457  Sum_probs=23.5

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ...+|.++|..|+||||+|..++...
T Consensus        99 ~~~vi~lvG~~GvGKTTtaaKLA~~l  124 (429)
T TIGR01425        99 KQNVIMFVGLQGSGKTTTCTKLAYYY  124 (429)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            46799999999999999999998776

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.

>PRK05541 adenylylsulfate kinase; Provisional

Probab=96.30  E-value=0.0085  Score=58.12  Aligned_cols=36  Identities=28%  Similarity=0.479  Sum_probs=29.1

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEE
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWV  184 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv  184 (863)
                      ...+|.+.|+.|+||||+|+.++...   ...+..++++
T Consensus         6 ~~~~I~i~G~~GsGKst~a~~l~~~l---~~~~~~~~~~   41 (176)
T PRK05541          6 NGYVIWITGLAGSGKTTIAKALYERL---KLKYSNVIYL   41 (176)
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHHHHH---HHcCCcEEEE
Confidence            45699999999999999999999988   3445555555

>COG5238 RNA1 Ran GTPase-activating protein (RanGAP) involved in mRNA processing and transport [Signal transduction mechanisms / RNA processing and modification]

Probab=96.30  E-value=0.004  Score=61.52  Aligned_cols=125  Identities=15%  Similarity=0.027  Sum_probs=65.9

Q ss_pred             hhhcCCCceEEEcCCcccccceeccccccccccccccCcccEEEEeccCCCCCCc------hhhccCCCcEEEEeccccc
Q 048126          687 LACLHNLNKLYVAGRKHLEDFQMTVQRSSVNQLARGFHSLHTVKVGFCFKLKDLT------WLVFAPSLKSIVVLSCCNM  760 (863)
Q Consensus       687 l~~~~~L~~L~l~~~~~~~~l~~~~~~~~~~~~~~~l~~L~~L~L~~c~~l~~l~------~l~~l~~L~~L~l~~~~~l  760 (863)
                      +....+|+.+.+..|.. .   |..+......+...+.+|+.|+|.++. ++...      .+..-+.|+.|.+.+|- +
T Consensus       181 l~sh~~lk~vki~qNgI-r---pegv~~L~~~gl~y~~~LevLDlqDNt-ft~~gS~~La~al~~W~~lrEL~lnDCl-l  254 (388)
T COG5238         181 LESHENLKEVKIQQNGI-R---PEGVTMLAFLGLFYSHSLEVLDLQDNT-FTLEGSRYLADALCEWNLLRELRLNDCL-L  254 (388)
T ss_pred             HHhhcCceeEEeeecCc-C---cchhHHHHHHHHHHhCcceeeeccccc-hhhhhHHHHHHHhcccchhhhccccchh-h
Confidence            44456788888876532 2   221110011222457899999999864 33221      11234678999999984 2


Q ss_pred             hhhccccccccccCCCCCCCCcCCccceeccCCCccccccc-------cCCCCCCCcceEeecCCCCCCCC
Q 048126          761 EQIIKAEKLSQLHHHPERKKSVFAKLQFLSLENLRNLCCIN-------WEALAFPNLKEIRVEGCPKLFKL  824 (863)
Q Consensus       761 ~~i~~~~~~~~~~~~~~~~~~~~p~L~~L~l~~~~~L~~i~-------~~~~~~p~L~~L~i~~C~~L~~l  824 (863)
                      ..-+..+...      .+.-..+|+|..|.+.....-..+.       ....++|-|..|.+.+ +.++.+
T Consensus       255 s~~G~~~v~~------~f~e~~~p~l~~L~~~Yne~~~~~i~~~~l~~~e~~~~p~L~~le~ng-Nr~~E~  318 (388)
T COG5238         255 SNEGVKSVLR------RFNEKFVPNLMPLPGDYNERRGGIILDISLNEFEQDAVPLLVDLERNG-NRIKEL  318 (388)
T ss_pred             ccccHHHHHH------HhhhhcCCCccccccchhhhcCceeeeechhhhhhcccHHHHHHHHcc-CcchhH
Confidence            2221111000      1234457888888887643222211       1345678888888776 345443

>KOG0735 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=96.27  E-value=0.0095  Score=66.73  Aligned_cols=74  Identities=28%  Similarity=0.216  Sum_probs=52.6

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCcc--CHHHHHHHHHHHhCCCCccccCCChhHHHHHHH
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDL--QLEKIQEKIGRRIGFLDESWKNGSLEDKASDIL  223 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~--~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~  223 (863)
                      ...-|.|.|+.|+|||+||+++++...  ++..-++.+|+++.-.  ..+.+++.+-                   ..+.
T Consensus       430 ~~~~Ill~G~~GsGKT~L~kal~~~~~--k~~~~hv~~v~Cs~l~~~~~e~iQk~l~-------------------~vfs  488 (952)
T KOG0735|consen  430 RHGNILLNGPKGSGKTNLVKALFDYYS--KDLIAHVEIVSCSTLDGSSLEKIQKFLN-------------------NVFS  488 (952)
T ss_pred             ccccEEEeCCCCCCHhHHHHHHHHHhc--cccceEEEEEechhccchhHHHHHHHHH-------------------HHHH
Confidence            345788999999999999999999983  6666678888877542  2333333222                   2233


Q ss_pred             HHhccCcEEEEEeccCC
Q 048126          224 RILSKKKFLLLLDDIWE  240 (863)
Q Consensus       224 ~~l~~kr~LlVlDdv~~  240 (863)
                      +.+.-.+-+|||||++-
T Consensus       489 e~~~~~PSiIvLDdld~  505 (952)
T KOG0735|consen  489 EALWYAPSIIVLDDLDC  505 (952)
T ss_pred             HHHhhCCcEEEEcchhh
Confidence            45566789999999863

>PRK06696 uridine kinase; Validated

Probab=96.25  E-value=0.0067  Score=61.31  Aligned_cols=42  Identities=12%  Similarity=0.209  Sum_probs=35.1

Q ss_pred             chhHHHHHHHHHhc---CCCccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          130 GLESMFDKVWRCLG---EEQVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       130 Gr~~~~~~l~~~L~---~~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      .|.+.+++|.+.+.   .++..+|+|.|.+|+||||+|+.++...
T Consensus         2 ~~~~~~~~la~~~~~~~~~~~~iI~I~G~sgsGKSTlA~~L~~~l   46 (223)
T PRK06696          2 SRKQLIKELAEHILTLNLTRPLRVAIDGITASGKTTFADELAEEI   46 (223)
T ss_pred             cHHHHHHHHHHHHHHhCCCCceEEEEECCCCCCHHHHHHHHHHHH
Confidence            46677777777774   3567899999999999999999999887

>PF07728 AAA_5: AAA domain (dynein-related subfamily); InterPro: IPR011704 The ATPases Associated to a variety of cellular Activities (AAA) are a family distinguished by a highly conserved module of 230 amino acids []

Probab=96.25  E-value=0.0045  Score=57.38  Aligned_cols=42  Identities=33%  Similarity=0.352  Sum_probs=32.2

Q ss_pred             EEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHH
Q 048126          150 IGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQE  197 (863)
Q Consensus       150 i~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~  197 (863)
                      |.++|.+|+|||+||+.++...   ..   ...-+.++...+..++..
T Consensus         2 vlL~G~~G~GKt~l~~~la~~~---~~---~~~~i~~~~~~~~~dl~g   43 (139)
T PF07728_consen    2 VLLVGPPGTGKTTLARELAALL---GR---PVIRINCSSDTTEEDLIG   43 (139)
T ss_dssp             EEEEESSSSSHHHHHHHHHHHH---TC---EEEEEE-TTTSTHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHHHh---hc---ceEEEEecccccccccee
Confidence            5689999999999999999887   11   345567888877777654

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.

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=96.24  E-value=0.009  Score=72.14  Aligned_cols=46  Identities=24%  Similarity=0.396  Sum_probs=37.7

Q ss_pred             CCccchhHHHHHHHHHhcC-------C--CccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          126 EPTVGLESMFDKVWRCLGE-------E--QVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~-------~--~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ..++|.+..++.+.+.+..       +  ...++.++|+.|+|||.+|+.++...
T Consensus       566 ~~v~GQ~~Av~~v~~~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKT~lA~~La~~l  620 (852)
T TIGR03345       566 ERVIGQDHALEAIAERIRTARAGLEDPRKPLGVFLLVGPSGVGKTETALALAELL  620 (852)
T ss_pred             CeEcChHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCCCCHHHHHHHHHHHH
Confidence            4578999999999888742       1  23478899999999999999998876

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.

>COG2884 FtsE Predicted ATPase involved in cell division [Cell division and chromosome partitioning]

Probab=96.22  E-value=0.025  Score=53.32  Aligned_cols=125  Identities=20%  Similarity=0.184  Sum_probs=72.2

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEE---------------------eCCcc--------------
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVV---------------------VSKDL--------------  190 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~---------------------~s~~~--------------  190 (863)
                      .-.++.++|+.|.||||+.+.+|... +.   -...+|+.                     |-|++              
T Consensus        27 ~Gef~fl~GpSGAGKSTllkLi~~~e-~p---t~G~i~~~~~dl~~l~~~~iP~LRR~IGvVFQD~rLL~~~tvyeNVA~  102 (223)
T COG2884          27 KGEFVFLTGPSGAGKSTLLKLIYGEE-RP---TRGKILVNGHDLSRLKGREIPFLRRQIGVVFQDFRLLPDRTVYENVAL  102 (223)
T ss_pred             CceEEEEECCCCCCHHHHHHHHHhhh-cC---CCceEEECCeecccccccccchhhheeeeEeeeccccccchHhhhhhh
Confidence            45689999999999999999999886 21   12233332                     11221              


Q ss_pred             -------CHHHH---HHHHHHHhCCCCcc----ccCCChhHHHHHHHHHhccCcEEEEEecc----CCccccccccCCCC
Q 048126          191 -------QLEKI---QEKIGRRIGFLDES----WKNGSLEDKASDILRILSKKKFLLLLDDI----WERVDLTKVGVPFP  252 (863)
Q Consensus       191 -------~~~~~---~~~i~~~l~~~~~~----~~~~~~~~~~~~l~~~l~~kr~LlVlDdv----~~~~~~~~~~~~l~  252 (863)
                             ...++   ....++..++....    .+.+.-++..-.|.+.+-+++-+|+-|.-    +....|+-+...-.
T Consensus       103 pL~v~G~~~~~i~~rV~~~L~~VgL~~k~~~lP~~LSGGEQQRvaIARAiV~~P~vLlADEPTGNLDp~~s~~im~lfee  182 (223)
T COG2884         103 PLRVIGKPPREIRRRVSEVLDLVGLKHKARALPSQLSGGEQQRVAIARAIVNQPAVLLADEPTGNLDPDLSWEIMRLFEE  182 (223)
T ss_pred             hhhccCCCHHHHHHHHHHHHHHhccchhhhcCccccCchHHHHHHHHHHHccCCCeEeecCCCCCCChHHHHHHHHHHHH
Confidence                   12222   22223333332210    01223344445667777888999999964    33333443322222


Q ss_pred             CCCCCcEEEEecCchhhhhccc
Q 048126          253 DPENKSKIVFTTRFLEICGAMK  274 (863)
Q Consensus       253 ~~~~gs~IivTtR~~~v~~~~~  274 (863)
                      -+..|.-|+++|-+..+...+.
T Consensus       183 inr~GtTVl~ATHd~~lv~~~~  204 (223)
T COG2884         183 INRLGTTVLMATHDLELVNRMR  204 (223)
T ss_pred             HhhcCcEEEEEeccHHHHHhcc
Confidence            3556999999999998876653

>KOG0736 consensus Peroxisome assembly factor 2 containing the AAA+-type ATPase domain [Posttranslational modification, protein turnover, chaperones]

Probab=96.22  E-value=0.05  Score=61.86  Aligned_cols=92  Identities=20%  Similarity=0.235  Sum_probs=64.7

Q ss_pred             CCccchhHHHHHHHHHhcC------------CCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHH
Q 048126          126 EPTVGLESMFDKVWRCLGE------------EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLE  193 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~------------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~  193 (863)
                      +++=|.++.+++|.+-+.-            .+.+-|-++|++|.|||-+|++|+...   .     .-|++|-.+    
T Consensus       672 dDVGGLeevK~eIldTIqlPL~hpeLfssglrkRSGILLYGPPGTGKTLlAKAVATEc---s-----L~FlSVKGP----  739 (953)
T KOG0736|consen  672 DDVGGLEEVKTEILDTIQLPLKHPELFSSGLRKRSGILLYGPPGTGKTLLAKAVATEC---S-----LNFLSVKGP----  739 (953)
T ss_pred             hcccCHHHHHHHHHHHhcCcccChhhhhccccccceeEEECCCCCchHHHHHHHHhhc---e-----eeEEeecCH----
Confidence            3456899999999988742            135678899999999999999999887   1     345665544    


Q ss_pred             HHHHHHHHHhCCCCccccCCChhHHHHHHHHHhccCcEEEEEeccCC
Q 048126          194 KIQEKIGRRIGFLDESWKNGSLEDKASDILRILSKKKFLLLLDDIWE  240 (863)
Q Consensus       194 ~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~  240 (863)
                      +++..-           ...+++.+.+.+.+.=..+++.|.||.++.
T Consensus       740 ELLNMY-----------VGqSE~NVR~VFerAR~A~PCVIFFDELDS  775 (953)
T KOG0736|consen  740 ELLNMY-----------VGQSEENVREVFERARSAAPCVIFFDELDS  775 (953)
T ss_pred             HHHHHH-----------hcchHHHHHHHHHHhhccCCeEEEeccccc
Confidence            111111           234455566666666667999999999875

>TIGR02012 tigrfam_recA protein RecA

Probab=96.21  E-value=0.013  Score=61.65  Aligned_cols=87  Identities=16%  Similarity=0.163  Sum_probs=57.0

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHHHHhCCCCcc---ccCCChhHHHHHH
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGRRIGFLDES---WKNGSLEDKASDI  222 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~---~~~~~~~~~~~~l  222 (863)
                      .-+++-|+|++|+||||||.+++....   ..-..++||+.-..++..     .+++++...+.   ....+.++....+
T Consensus        54 ~G~iteI~G~~GsGKTtLaL~~~~~~~---~~g~~v~yId~E~~~~~~-----~a~~lGvd~~~l~v~~p~~~eq~l~~~  125 (321)
T TIGR02012        54 RGRIIEIYGPESSGKTTLALHAIAEAQ---KAGGTAAFIDAEHALDPV-----YARKLGVDIDNLLVSQPDTGEQALEIA  125 (321)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHH---HcCCcEEEEcccchhHHH-----HHHHcCCCHHHeEEecCCCHHHHHHHH
Confidence            457999999999999999999887762   233567899776655543     35555543321   1223445555555


Q ss_pred             HHHhc-cCcEEEEEeccCC
Q 048126          223 LRILS-KKKFLLLLDDIWE  240 (863)
Q Consensus       223 ~~~l~-~kr~LlVlDdv~~  240 (863)
                      ...++ +..-++|+|.|..
T Consensus       126 ~~li~~~~~~lIVIDSv~a  144 (321)
T TIGR02012       126 ETLVRSGAVDIIVVDSVAA  144 (321)
T ss_pred             HHHhhccCCcEEEEcchhh
Confidence            55444 3566899999853

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.

>COG0470 HolB ATPase involved in DNA replication [DNA replication, recombination, and repair]

Probab=96.20  E-value=0.025  Score=61.00  Aligned_cols=121  Identities=13%  Similarity=0.124  Sum_probs=73.3

Q ss_pred             ccchhHHHHHHHHHhcC-CCcc-EEEEEcCCCCcHHHHHHHHHhhhcCCCC------------------CCCEEEEEEeC
Q 048126          128 TVGLESMFDKVWRCLGE-EQVG-IIGLYGMGGVGKTTLLTKINNKLLGAPN------------------DFDVVIWVVVS  187 (863)
Q Consensus       128 ~vGr~~~~~~l~~~L~~-~~~~-vi~I~G~gGiGKTtLa~~v~~~~~~~~~------------------~F~~~~wv~~s  187 (863)
                      ++|-+....++..+... ++.+ .+-++|+.|+||||+|..+++.......                  ....+..+..+
T Consensus         3 ~~~~~~~~~~l~~~~~~~~~~~halL~~Gp~G~Gktt~a~~lA~~l~~~~~~~~~~~~~~~~~~~~~~~~~~d~lel~~s   82 (325)
T COG0470           3 LVPWQEAVKRLLVQALESGRLPHALLFYGPPGVGKTTAALALAKELLCENPTGLLPCGHCRSCKLIPAGNHPDFLELNPS   82 (325)
T ss_pred             cccchhHHHHHHHHHHhcCCCCceeeeeCCCCCCHHHHHHHHHHHHhCCCcccCCcccchhhhhHHhhcCCCceEEeccc
Confidence            56777788888888864 3344 5999999999999999999988721000                  12334444444


Q ss_pred             CccC---HHHHHHHHHHHhCCCCccccCCChhHHHHHHHHHhccCcEEEEEeccCCcc--ccccccCCCCCCCCCcEEEE
Q 048126          188 KDLQ---LEKIQEKIGRRIGFLDESWKNGSLEDKASDILRILSKKKFLLLLDDIWERV--DLTKVGVPFPDPENKSKIVF  262 (863)
Q Consensus       188 ~~~~---~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~--~~~~~~~~l~~~~~gs~Iiv  262 (863)
                      ....   ..+..+.+.+.......                  .++.-++++|+++...  .-..+...+......+++|+
T Consensus        83 ~~~~~~i~~~~vr~~~~~~~~~~~------------------~~~~kviiidead~mt~~A~nallk~lEep~~~~~~il  144 (325)
T COG0470          83 DLRKIDIIVEQVRELAEFLSESPL------------------EGGYKVVIIDEADKLTEDAANALLKTLEEPPKNTRFIL  144 (325)
T ss_pred             ccCCCcchHHHHHHHHHHhccCCC------------------CCCceEEEeCcHHHHhHHHHHHHHHHhccCCCCeEEEE
Confidence            4433   24444444444433210                  2567789999997642  22333333334455677888


Q ss_pred             ecCc
Q 048126          263 TTRF  266 (863)
Q Consensus       263 TtR~  266 (863)
                      +|..
T Consensus       145 ~~n~  148 (325)
T COG0470         145 ITND  148 (325)
T ss_pred             EcCC
Confidence            7774

>KOG0731 consensus AAA+-type ATPase containing the peptidase M41 domain [Posttranslational modification, protein turnover, chaperones]

Probab=96.18  E-value=0.053  Score=62.65  Aligned_cols=174  Identities=17%  Similarity=0.213  Sum_probs=98.2

Q ss_pred             CCccchhHHHHH---HHHHhcCC---------CccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHH
Q 048126          126 EPTVGLESMFDK---VWRCLGEE---------QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLE  193 (863)
Q Consensus       126 ~~~vGr~~~~~~---l~~~L~~~---------~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~  193 (863)
                      .++.|.|+.+++   ++++|.++         -++-+-++|++|+|||-||++++-.. .       +=|+++|..    
T Consensus       311 kDVAG~deAK~El~E~V~fLKNP~~Y~~lGAKiPkGvLL~GPPGTGKTLLAKAiAGEA-g-------VPF~svSGS----  378 (774)
T KOG0731|consen  311 KDVAGVDEAKEELMEFVKFLKNPEQYQELGAKIPKGVLLVGPPGTGKTLLAKAIAGEA-G-------VPFFSVSGS----  378 (774)
T ss_pred             ccccCcHHHHHHHHHHHHHhcCHHHHHHcCCcCcCceEEECCCCCcHHHHHHHHhccc-C-------CceeeechH----
Confidence            345687765555   55556542         25678899999999999999999887 2       234555543    


Q ss_pred             HHHHHHHHHhCCCCccccCCChhHHHHHHHHHh-ccCcEEEEEeccCCccc-----------------cccccCCCCCCC
Q 048126          194 KIQEKIGRRIGFLDESWKNGSLEDKASDILRIL-SKKKFLLLLDDIWERVD-----------------LTKVGVPFPDPE  255 (863)
Q Consensus       194 ~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l-~~kr~LlVlDdv~~~~~-----------------~~~~~~~l~~~~  255 (863)
                          ++++.+....        ..+...+...- ...+.++.+|+++...-                 +.++...+....
T Consensus       379 ----EFvE~~~g~~--------asrvr~lf~~ar~~aP~iifideida~~~~r~G~~~~~~~~e~e~tlnQll~emDgf~  446 (774)
T KOG0731|consen  379 ----EFVEMFVGVG--------ASRVRDLFPLARKNAPSIIFIDEIDAVGRKRGGKGTGGGQDEREQTLNQLLVEMDGFE  446 (774)
T ss_pred             ----HHHHHhcccc--------hHHHHHHHHHhhccCCeEEEecccccccccccccccCCCChHHHHHHHHHHHHhcCCc
Confidence                2222222111        12233333222 24678899998864311                 112221122212


Q ss_pred             --CCcEEEEecCchhhhhc--c---cccceEeecCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCCchhHH
Q 048126          256 --NKSKIVFTTRFLEICGA--M---KAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGLPLAL  326 (863)
Q Consensus       256 --~gs~IivTtR~~~v~~~--~---~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPlai  326 (863)
                        .+.-++-+|...++.+.  +   .-+..+.++.=+...-.++|.-++......  .+..++++ |+...-|.+=|.
T Consensus       447 ~~~~vi~~a~tnr~d~ld~allrpGRfdr~i~i~~p~~~~r~~i~~~h~~~~~~~--~e~~dl~~-~a~~t~gf~gad  521 (774)
T KOG0731|consen  447 TSKGVIVLAATNRPDILDPALLRPGRFDRQIQIDLPDVKGRASILKVHLRKKKLD--DEDVDLSK-LASLTPGFSGAD  521 (774)
T ss_pred             CCCcEEEEeccCCccccCHHhcCCCccccceeccCCchhhhHHHHHHHhhccCCC--cchhhHHH-HHhcCCCCcHHH
Confidence              22333445555554211  1   224567788888888889998887654421  34456666 888888877553

>CHL00095 clpC Clp protease ATP binding subunit

Probab=96.18  E-value=0.0081  Score=72.86  Aligned_cols=104  Identities=18%  Similarity=0.279  Sum_probs=60.1

Q ss_pred             CCccchhHHHHHHHHHhcC-------C-C-ccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHH
Q 048126          126 EPTVGLESMFDKVWRCLGE-------E-Q-VGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQ  196 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~-------~-~-~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~  196 (863)
                      ..++|-+..++.|.+.+..       + + ...+.++|+.|+|||+||+.+++..   -..-...+-+..+.-.+...+.
T Consensus       509 ~~v~GQ~~ai~~l~~~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKt~lA~~LA~~l---~~~~~~~~~~d~s~~~~~~~~~  585 (821)
T CHL00095        509 KRIIGQDEAVVAVSKAIRRARVGLKNPNRPIASFLFSGPTGVGKTELTKALASYF---FGSEDAMIRLDMSEYMEKHTVS  585 (821)
T ss_pred             CcCcChHHHHHHHHHHHHHHhhcccCCCCCceEEEEECCCCCcHHHHHHHHHHHh---cCCccceEEEEchhccccccHH
Confidence            4578999999999888752       1 1 3456789999999999999999876   1212234444444432222221


Q ss_pred             HHHHHHhCCCCccccCCChhHHHHHHHHHhccCcE-EEEEeccCC
Q 048126          197 EKIGRRIGFLDESWKNGSLEDKASDILRILSKKKF-LLLLDDIWE  240 (863)
Q Consensus       197 ~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~kr~-LlVlDdv~~  240 (863)
                      +    -++.+. .....+.   ...+.+.++.++| +++||++..
T Consensus       586 ~----l~g~~~-gyvg~~~---~~~l~~~~~~~p~~VvllDeiek  622 (821)
T CHL00095        586 K----LIGSPP-GYVGYNE---GGQLTEAVRKKPYTVVLFDEIEK  622 (821)
T ss_pred             H----hcCCCC-cccCcCc---cchHHHHHHhCCCeEEEECChhh
Confidence            1    122211 1111111   1234455555654 888999975

>TIGR00959 ffh signal recognition particle protein

Probab=96.18  E-value=0.036  Score=61.12  Aligned_cols=92  Identities=21%  Similarity=0.204  Sum_probs=50.5

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCc-cCHHHHHHHHHHHhCCCCccc-cCCChhHHHHHHH
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKD-LQLEKIQEKIGRRIGFLDESW-KNGSLEDKASDIL  223 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~-~~~~~~~~~i~~~l~~~~~~~-~~~~~~~~~~~l~  223 (863)
                      ...++.++|.+|+||||.|..++... ..+..+ .++.|++... +...+.+...+.+.+.+.... ...+..+......
T Consensus        98 ~p~vi~~vG~~GsGKTTtaakLA~~l-~~~~g~-kV~lV~~D~~R~~a~~QL~~~a~~~gvp~~~~~~~~~P~~i~~~al  175 (428)
T TIGR00959        98 PPTVILMVGLQGSGKTTTCGKLAYYL-KKKQGK-KVLLVACDLYRPAAIEQLKVLGQQVGVPVFALGKGQSPVEIARRAL  175 (428)
T ss_pred             CCEEEEEECCCCCcHHHHHHHHHHHH-HHhCCC-eEEEEeccccchHHHHHHHHHHHhcCCceEecCCCCCHHHHHHHHH
Confidence            46799999999999999999998875 111222 3444443321 122344455556665543211 1123334443333


Q ss_pred             HHhccCcE-EEEEeccC
Q 048126          224 RILSKKKF-LLLLDDIW  239 (863)
Q Consensus       224 ~~l~~kr~-LlVlDdv~  239 (863)
                      +....+.| ++|+|-.-
T Consensus       176 ~~~~~~~~DvVIIDTaG  192 (428)
T TIGR00959       176 EYAKENGFDVVIVDTAG  192 (428)
T ss_pred             HHHHhcCCCEEEEeCCC
Confidence            34444445 77777664

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.

>PRK15455 PrkA family serine protein kinase; Provisional

Probab=96.18  E-value=0.0059  Score=68.01  Aligned_cols=46  Identities=26%  Similarity=0.426  Sum_probs=40.6

Q ss_pred             CCccchhHHHHHHHHHhc------CCCccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          126 EPTVGLESMFDKVWRCLG------EEQVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~------~~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      .+++|.++.+++|++.|.      +.+.+++.++|++|+||||||+.+++-.
T Consensus        76 ~d~yGlee~ieriv~~l~~Aa~gl~~~~~IL~LvGPpG~GKSsLa~~la~~l  127 (644)
T PRK15455         76 EEFYGMEEAIEQIVSYFRHAAQGLEEKKQILYLLGPVGGGKSSLAERLKSLM  127 (644)
T ss_pred             hcccCcHHHHHHHHHHHHHHHHhcCCCCceEEEecCCCCCchHHHHHHHHHH
Confidence            357899999999999983      3466799999999999999999999987

>KOG1969 consensus DNA replication checkpoint protein CHL12/CTF18 [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]

Probab=96.17  E-value=0.012  Score=66.36  Aligned_cols=73  Identities=26%  Similarity=0.353  Sum_probs=55.7

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHHHHhCCCCccccCCChhHHHHHHHHH
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGRRIGFLDESWKNGSLEDKASDILRI  225 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~  225 (863)
                      .-++.-++|++|+||||||..+++..     .|. ++=|.+|++-+...+-..|...+....                 .
T Consensus       325 ~kKilLL~GppGlGKTTLAHViAkqa-----GYs-VvEINASDeRt~~~v~~kI~~avq~~s-----------------~  381 (877)
T KOG1969|consen  325 PKKILLLCGPPGLGKTTLAHVIAKQA-----GYS-VVEINASDERTAPMVKEKIENAVQNHS-----------------V  381 (877)
T ss_pred             ccceEEeecCCCCChhHHHHHHHHhc-----Cce-EEEecccccccHHHHHHHHHHHHhhcc-----------------c
Confidence            45789999999999999999999875     443 667888888888887777776664322                 2


Q ss_pred             hc--cCcEEEEEeccCCc
Q 048126          226 LS--KKKFLLLLDDIWER  241 (863)
Q Consensus       226 l~--~kr~LlVlDdv~~~  241 (863)
                      +.  +++.-||+|.++..
T Consensus       382 l~adsrP~CLViDEIDGa  399 (877)
T KOG1969|consen  382 LDADSRPVCLVIDEIDGA  399 (877)
T ss_pred             cccCCCcceEEEecccCC
Confidence            21  57888999998754

>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=96.16  E-value=0.022  Score=61.26  Aligned_cols=89  Identities=21%  Similarity=0.228  Sum_probs=53.7

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCC-ccCHHHHHHHHHHHhCCCCccccCCChhHHHHHHHH
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSK-DLQLEKIQEKIGRRIGFLDESWKNGSLEDKASDILR  224 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~-~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~  224 (863)
                      +-.++.++|+.|+||||++.+++... ..+.....+.+|+... .....+.++...+.++.+...  ..+..++...+. 
T Consensus       136 ~g~ii~lvGptGvGKTTtiakLA~~~-~~~~G~~~V~lit~D~~R~ga~EqL~~~a~~~gv~~~~--~~~~~~l~~~l~-  211 (374)
T PRK14722        136 RGGVFALMGPTGVGKTTTTAKLAARC-VMRFGASKVALLTTDSYRIGGHEQLRIFGKILGVPVHA--VKDGGDLQLALA-  211 (374)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHH-HHhcCCCeEEEEecccccccHHHHHHHHHHHcCCceEe--cCCcccHHHHHH-
Confidence            34699999999999999999999876 1122223566665332 224456667777777765421  222233333333 


Q ss_pred             HhccCcEEEEEeccC
Q 048126          225 ILSKKKFLLLLDDIW  239 (863)
Q Consensus       225 ~l~~kr~LlVlDdv~  239 (863)
                      .+.++ =++++|..-
T Consensus       212 ~l~~~-DlVLIDTaG  225 (374)
T PRK14722        212 ELRNK-HMVLIDTIG  225 (374)
T ss_pred             HhcCC-CEEEEcCCC
Confidence            34455 455588874

>PRK06921 hypothetical protein; Provisional

Probab=96.14  E-value=0.011  Score=61.09  Aligned_cols=39  Identities=33%  Similarity=0.416  Sum_probs=29.7

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEe
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVV  186 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~  186 (863)
                      ....+.++|..|+|||+||..+++...  +..-..++|++.
T Consensus       116 ~~~~l~l~G~~G~GKThLa~aia~~l~--~~~g~~v~y~~~  154 (266)
T PRK06921        116 RKNSIALLGQPGSGKTHLLTAAANELM--RKKGVPVLYFPF  154 (266)
T ss_pred             CCCeEEEECCCCCcHHHHHHHHHHHHh--hhcCceEEEEEH
Confidence            456789999999999999999999872  221345677764

>TIGR03877 thermo_KaiC_1 KaiC domain protein, Ph0284 family

Probab=96.14  E-value=0.034  Score=56.79  Aligned_cols=48  Identities=17%  Similarity=0.198  Sum_probs=35.3

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHH
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEK  198 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~  198 (863)
                      .-+++.|.|.+|+|||++|.++.....   ..-..++||+...  +..++.+.
T Consensus        20 ~gs~~lI~G~pGsGKT~la~~~l~~~~---~~ge~~lyvs~ee--~~~~i~~~   67 (237)
T TIGR03877        20 ERNVVLLSGGPGTGKSIFSQQFLWNGL---QMGEPGIYVALEE--HPVQVRRN   67 (237)
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHHH---HcCCcEEEEEeeC--CHHHHHHH
Confidence            567999999999999999999876641   2345688888765  44455554

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.

>PRK10867 signal recognition particle protein; Provisional

Probab=96.13  E-value=0.039  Score=60.85  Aligned_cols=26  Identities=35%  Similarity=0.474  Sum_probs=23.2

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ...+|.++|.+|+||||.|..++...
T Consensus        99 ~p~vI~~vG~~GsGKTTtaakLA~~l  124 (433)
T PRK10867         99 PPTVIMMVGLQGAGKTTTAGKLAKYL  124 (433)
T ss_pred             CCEEEEEECCCCCcHHHHHHHHHHHH
Confidence            46799999999999999999988776

>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]

Probab=96.12  E-value=0.027  Score=57.80  Aligned_cols=91  Identities=26%  Similarity=0.272  Sum_probs=53.6

Q ss_pred             chhHHHHHHHHHhcC-CCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHHHHhCCCCc
Q 048126          130 GLESMFDKVWRCLGE-EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGRRIGFLDE  208 (863)
Q Consensus       130 Gr~~~~~~l~~~L~~-~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~  208 (863)
                      ++...+..+.+.... ++..-+.++|.+|+|||.||.++.++..  +..+ .+.|++      ..++..++.......  
T Consensus        87 ~~~~~l~~~~~~~~~~~~~~nl~l~G~~G~GKThLa~Ai~~~l~--~~g~-sv~f~~------~~el~~~Lk~~~~~~--  155 (254)
T COG1484          87 IDKKALEDLASLVEFFERGENLVLLGPPGVGKTHLAIAIGNELL--KAGI-SVLFIT------APDLLSKLKAAFDEG--  155 (254)
T ss_pred             hhHHHHHHHHHHHHHhccCCcEEEECCCCCcHHHHHHHHHHHHH--HcCC-eEEEEE------HHHHHHHHHHHHhcC--
Confidence            344444444433311 3667889999999999999999999982  3333 455664      445566665544321  


Q ss_pred             cccCCChhHHHHHHHHHhccCcEEEEEeccCC
Q 048126          209 SWKNGSLEDKASDILRILSKKKFLLLLDDIWE  240 (863)
Q Consensus       209 ~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~  240 (863)
                              .....+.+.++ +-=||||||+..
T Consensus       156 --------~~~~~l~~~l~-~~dlLIiDDlG~  178 (254)
T COG1484         156 --------RLEEKLLRELK-KVDLLIIDDIGY  178 (254)
T ss_pred             --------chHHHHHHHhh-cCCEEEEecccC
Confidence                    11222222222 234899999864

>PRK10463 hydrogenase nickel incorporation protein HypB; Provisional

Probab=96.12  E-value=0.032  Score=57.59  Aligned_cols=98  Identities=15%  Similarity=0.141  Sum_probs=53.7

Q ss_pred             HHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHHHHhCCCCcccc----
Q 048126          136 DKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGRRIGFLDESWK----  211 (863)
Q Consensus       136 ~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~----  211 (863)
                      ++..+++...+..+|.|+|.+|+|||||+..+.+..   ..... ++.+ ..+..+..+.  ..+...+.+.-+..    
T Consensus        93 ~~~r~~~~~~~~~~v~l~G~pGsGKTTLl~~l~~~l---~~~~~-~~VI-~gD~~t~~Da--~rI~~~g~pvvqi~tG~~  165 (290)
T PRK10463         93 ERNRARFAARKQLVLNLVSSPGSGKTTLLTETLMRL---KDSVP-CAVI-EGDQQTVNDA--ARIRATGTPAIQVNTGKG  165 (290)
T ss_pred             HHHHHHHHhcCCeEEEEECCCCCCHHHHHHHHHHHh---ccCCC-EEEE-CCCcCcHHHH--HHHHhcCCcEEEecCCCC
Confidence            334455555688999999999999999999999986   23332 2222 2222222221  12333333221111    


Q ss_pred             -CCChhHHHHHHHHHhccCcEEEEEeccCC
Q 048126          212 -NGSLEDKASDILRILSKKKFLLLLDDIWE  240 (863)
Q Consensus       212 -~~~~~~~~~~l~~~l~~kr~LlVlDdv~~  240 (863)
                       ......+...+...-....=++|+++|-+
T Consensus       166 Chl~a~mv~~Al~~L~~~~~d~liIEnvGn  195 (290)
T PRK10463        166 CHLDAQMIADAAPRLPLDDNGILFIENVGN  195 (290)
T ss_pred             CcCcHHHHHHHHHHHhhcCCcEEEEECCCC
Confidence             11223344445544334446778899865

>PF01695 IstB_IS21: IstB-like ATP binding protein; InterPro: IPR002611 Proteins in this entry contain an ATP/GTP binding P-loop motif

Probab=96.12  E-value=0.022  Score=55.08  Aligned_cols=75  Identities=28%  Similarity=0.449  Sum_probs=43.5

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHHHHhCCCCccccCCChhHHHHHHHHH
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGRRIGFLDESWKNGSLEDKASDILRI  225 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~  225 (863)
                      ...-+.++|..|+|||.||..+.+...  ...+ .+.|++      ..+++..+-..-       ........    .+.
T Consensus        46 ~~~~l~l~G~~G~GKThLa~ai~~~~~--~~g~-~v~f~~------~~~L~~~l~~~~-------~~~~~~~~----~~~  105 (178)
T PF01695_consen   46 NGENLILYGPPGTGKTHLAVAIANEAI--RKGY-SVLFIT------ASDLLDELKQSR-------SDGSYEEL----LKR  105 (178)
T ss_dssp             C--EEEEEESTTSSHHHHHHHHHHHHH--HTT---EEEEE------HHHHHHHHHCCH-------CCTTHCHH----HHH
T ss_pred             cCeEEEEEhhHhHHHHHHHHHHHHHhc--cCCc-ceeEee------cCceeccccccc-------cccchhhh----cCc
Confidence            446799999999999999999998873  2333 356664      344554443211       11122222    223


Q ss_pred             hccCcEEEEEeccCCc
Q 048126          226 LSKKKFLLLLDDIWER  241 (863)
Q Consensus       226 l~~kr~LlVlDdv~~~  241 (863)
                      +. +-=||||||+...
T Consensus       106 l~-~~dlLilDDlG~~  120 (178)
T PF01695_consen  106 LK-RVDLLILDDLGYE  120 (178)
T ss_dssp             HH-TSSCEEEETCTSS
T ss_pred             cc-cccEeccccccee
Confidence            33 3457889999653

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.

>TIGR03499 FlhF flagellar biosynthetic protein FlhF

Probab=96.11  E-value=0.024  Score=59.40  Aligned_cols=88  Identities=24%  Similarity=0.271  Sum_probs=49.0

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCcc-CHHHHHHHHHHHhCCCCccccCCChhHHHHHHHH
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDL-QLEKIQEKIGRRIGFLDESWKNGSLEDKASDILR  224 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~-~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~  224 (863)
                      ..++|+|+|+.|+||||++..++... ..+..-..+..|+..... .....+......++.+..  ...+..++...+..
T Consensus       193 ~~~vi~~vGptGvGKTTt~~kLa~~~-~~~~g~~~V~li~~D~~r~~a~eql~~~~~~~~~p~~--~~~~~~~l~~~l~~  269 (282)
T TIGR03499       193 QGGVIALVGPTGVGKTTTLAKLAARF-VLEHGNKKVALITTDTYRIGAVEQLKTYAKILGVPVK--VARDPKELRKALDR  269 (282)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH-HHHcCCCeEEEEECCccchhHHHHHHHHHHHhCCcee--ccCCHHHHHHHHHH
Confidence            45699999999999999999998876 212111245666644321 223344444555554432  12233344444433


Q ss_pred             HhccCcEEEEEecc
Q 048126          225 ILSKKKFLLLLDDI  238 (863)
Q Consensus       225 ~l~~kr~LlVlDdv  238 (863)
                       +.+ .=+|++|..
T Consensus       270 -~~~-~d~vliDt~  281 (282)
T TIGR03499       270 -LRD-KDLILIDTA  281 (282)
T ss_pred             -ccC-CCEEEEeCC
Confidence             333 347777754

>COG0572 Udk Uridine kinase [Nucleotide transport and metabolism]

Probab=96.10  E-value=0.015  Score=56.87  Aligned_cols=79  Identities=19%  Similarity=0.191  Sum_probs=45.6

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHHHHhCCCCccccCCChhHHHHHHHHH
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGRRIGFLDESWKNGSLEDKASDILRI  225 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~  225 (863)
                      ++.+|+|.|.+|+||||+|+.++..+   +..+  +.-++...-+ ...-.....+......+.....+.+-..+.|...
T Consensus         7 ~~iiIgIaG~SgSGKTTva~~l~~~~---~~~~--~~~I~~D~YY-k~~~~~~~~~~~~~n~d~p~A~D~dLl~~~L~~L   80 (218)
T COG0572           7 KVIIIGIAGGSGSGKTTVAKELSEQL---GVEK--VVVISLDDYY-KDQSHLPFEERNKINYDHPEAFDLDLLIEHLKDL   80 (218)
T ss_pred             ceEEEEEeCCCCCCHHHHHHHHHHHh---CcCc--ceEeeccccc-cchhhcCHhhcCCcCccChhhhcHHHHHHHHHHH
Confidence            45799999999999999999999998   3332  1222211111 1111112222222222222444566677778888


Q ss_pred             hccCc
Q 048126          226 LSKKK  230 (863)
Q Consensus       226 l~~kr  230 (863)
                      +++++
T Consensus        81 ~~g~~   85 (218)
T COG0572          81 KQGKP   85 (218)
T ss_pred             HcCCc
Confidence            88877

>COG0541 Ffh Signal recognition particle GTPase [Intracellular trafficking and secretion]

Probab=96.09  E-value=0.34  Score=52.18  Aligned_cols=58  Identities=19%  Similarity=0.236  Sum_probs=40.3

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCcc--CHHHHHHHHHHHhCCCC
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDL--QLEKIQEKIGRRIGFLD  207 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~--~~~~~~~~i~~~l~~~~  207 (863)
                      .+.||-.+|.-|.||||-|-++++...   + ....+-+...+.+  ...+.++.++++.+.+.
T Consensus        99 ~P~vImmvGLQGsGKTTt~~KLA~~lk---k-~~~kvllVaaD~~RpAA~eQL~~La~q~~v~~  158 (451)
T COG0541          99 PPTVILMVGLQGSGKTTTAGKLAKYLK---K-KGKKVLLVAADTYRPAAIEQLKQLAEQVGVPF  158 (451)
T ss_pred             CCeEEEEEeccCCChHhHHHHHHHHHH---H-cCCceEEEecccCChHHHHHHHHHHHHcCCce
Confidence            467899999999999999999999883   2 2223333333333  34566788888887654

>KOG0734 consensus AAA+-type ATPase containing the peptidase M41 domain [Posttranslational modification, protein turnover, chaperones]

Probab=96.07  E-value=0.017  Score=62.64  Aligned_cols=43  Identities=21%  Similarity=0.288  Sum_probs=35.2

Q ss_pred             cchhH---HHHHHHHHhcCC---------CccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          129 VGLES---MFDKVWRCLGEE---------QVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       129 vGr~~---~~~~l~~~L~~~---------~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      -|-|+   ++++|+++|.++         =++-|.++|++|.|||-||++|+...
T Consensus       307 kG~DEAK~ELeEiVefLkdP~kftrLGGKLPKGVLLvGPPGTGKTlLARAvAGEA  361 (752)
T KOG0734|consen  307 KGVDEAKQELEEIVEFLKDPTKFTRLGGKLPKGVLLVGPPGTGKTLLARAVAGEA  361 (752)
T ss_pred             cChHHHHHHHHHHHHHhcCcHHhhhccCcCCCceEEeCCCCCchhHHHHHhhccc
Confidence            46654   677888888763         25678899999999999999999887

>TIGR02238 recomb_DMC1 meiotic recombinase Dmc1

Probab=96.05  E-value=0.033  Score=58.95  Aligned_cols=100  Identities=21%  Similarity=0.272  Sum_probs=60.3

Q ss_pred             HHHHhcC--CCccEEEEEcCCCCcHHHHHHHHHhhhcCCC----CCCCEEEEEEeCCccCHHHHHHHHHHHhCCCCccc-
Q 048126          138 VWRCLGE--EQVGIIGLYGMGGVGKTTLLTKINNKLLGAP----NDFDVVIWVVVSKDLQLEKIQEKIGRRIGFLDESW-  210 (863)
Q Consensus       138 l~~~L~~--~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~----~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~-  210 (863)
                      +-++|..  ..-+++-|+|.+|+|||+|+.+++-.. ...    ..=..++||+....++.+++.+ ++++++...+.. 
T Consensus        85 LD~lLgGGi~~G~iteI~G~~GsGKTql~lqla~~~-~~~~~~gg~~~~vvYIdtE~~f~~eRi~~-~a~~~g~d~~~~l  162 (313)
T TIGR02238        85 LDGILGGGIESMSITEVFGEFRCGKTQLSHTLCVTA-QLPREMGGGNGKVAYIDTEGTFRPDRIRA-IAERFGVDPDAVL  162 (313)
T ss_pred             HHHHhCCCCcCCeEEEEECCCCCCcCHHHHHHHHHH-hcchhhcCCCCeEEEEEcCCCCCHHHHHH-HHHHcCCChHHhc
Confidence            3344543  245788999999999999999876543 111    1124789999988888888754 567776543210 


Q ss_pred             ------cCCChhHHH---HHHHHHhc-cCcEEEEEeccC
Q 048126          211 ------KNGSLEDKA---SDILRILS-KKKFLLLLDDIW  239 (863)
Q Consensus       211 ------~~~~~~~~~---~~l~~~l~-~kr~LlVlDdv~  239 (863)
                            ...+.++..   ..+...+. .+--|||+|.+.
T Consensus       163 ~~i~~~~~~~~e~~~~~l~~l~~~i~~~~~~LvVIDSis  201 (313)
T TIGR02238       163 DNILYARAYTSEHQMELLDYLAAKFSEEPFRLLIVDSIM  201 (313)
T ss_pred             CcEEEecCCCHHHHHHHHHHHHHHhhccCCCEEEEEcch
Confidence                  111233333   23333333 344578888874

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.

>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=96.05  E-value=0.0077  Score=55.03  Aligned_cols=35  Identities=40%  Similarity=0.456  Sum_probs=27.1

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEE
Q 048126          148 GIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWV  184 (863)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv  184 (863)
                      .-|+|.|++|+||||+++.+++..+  .+.|...-++
T Consensus         6 mki~ITG~PGvGKtTl~~ki~e~L~--~~g~kvgGf~   40 (179)
T COG1618           6 MKIFITGRPGVGKTTLVLKIAEKLR--EKGYKVGGFI   40 (179)
T ss_pred             eEEEEeCCCCccHHHHHHHHHHHHH--hcCceeeeEE
Confidence            4689999999999999999999883  3346544333

>COG2607 Predicted ATPase (AAA+ superfamily) [General function prediction only]

Probab=96.04  E-value=0.023  Score=55.46  Aligned_cols=46  Identities=22%  Similarity=0.332  Sum_probs=36.5

Q ss_pred             CCccchhHHHHHHHHHhc----CCCccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          126 EPTVGLESMFDKVWRCLG----EEQVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~----~~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ..++|.|...+.+++--.    .-...-|-+||.-|+|||+|++++.+..
T Consensus        60 ~~l~Gvd~qk~~L~~NT~~F~~G~pANnVLLwGaRGtGKSSLVKA~~~e~  109 (287)
T COG2607          60 ADLVGVDRQKEALVRNTEQFAEGLPANNVLLWGARGTGKSSLVKALLNEY  109 (287)
T ss_pred             HHHhCchHHHHHHHHHHHHHHcCCcccceEEecCCCCChHHHHHHHHHHH
Confidence            457898888888776432    2344567799999999999999999988

>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=96.01  E-value=0.026  Score=54.52  Aligned_cols=89  Identities=20%  Similarity=0.147  Sum_probs=45.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCc-cCHHHHHHHHHHHhCCCCcc-ccCCChhHHH-HHHHHH
Q 048126          149 IIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKD-LQLEKIQEKIGRRIGFLDES-WKNGSLEDKA-SDILRI  225 (863)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~-~~~~~~~~~i~~~l~~~~~~-~~~~~~~~~~-~~l~~~  225 (863)
                      ++.++|++|+||||+++.++....  +..+ .++.+..... ....+.+...+.+.+..... ....+..+.. +.+...
T Consensus         2 ~~~~~G~~G~GKTt~~~~la~~~~--~~g~-~v~~i~~D~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   78 (173)
T cd03115           2 VILLVGLQGVGKTTTAAKLALYLK--KKGK-KVLLVAADTYRPAAIEQLRVLGEQVGVPVFEEGEGKDPVSIAKRAIEHA   78 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHH--HCCC-cEEEEEcCCCChHHHHHHHHhcccCCeEEEecCCCCCHHHHHHHHHHHH
Confidence            688999999999999999998872  1222 3444543321 12233344444444432111 0112333333 233333


Q ss_pred             hccCcEEEEEeccCC
Q 048126          226 LSKKKFLLLLDDIWE  240 (863)
Q Consensus       226 l~~kr~LlVlDdv~~  240 (863)
                      ..+..-++|+|..-.
T Consensus        79 ~~~~~d~viiDt~g~   93 (173)
T cd03115          79 REENFDVVIVDTAGR   93 (173)
T ss_pred             HhCCCCEEEEECccc
Confidence            333333566776543

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.

>KOG0743 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=96.01  E-value=0.23  Score=53.55  Aligned_cols=148  Identities=18%  Similarity=0.192  Sum_probs=82.3

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHHHHhCCCCccccCCChhHHHHHHHHHhc
Q 048126          148 GIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGRRIGFLDESWKNGSLEDKASDILRILS  227 (863)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~  227 (863)
                      |--.++|++|.|||++..++++..     .|+..- +..+...+-.+                           |+..|.
T Consensus       236 RGYLLYGPPGTGKSS~IaAmAn~L-----~ydIyd-LeLt~v~~n~d---------------------------Lr~LL~  282 (457)
T KOG0743|consen  236 RGYLLYGPPGTGKSSFIAAMANYL-----NYDIYD-LELTEVKLDSD---------------------------LRHLLL  282 (457)
T ss_pred             ccceeeCCCCCCHHHHHHHHHhhc-----CCceEE-eeeccccCcHH---------------------------HHHHHH
Confidence            445789999999999999999987     455332 11111111111                           222222


Q ss_pred             --cCcEEEEEeccCCcccc-----------c---------cccCCCC--CCCC-CcEEE-EecCchhh-----hhccccc
Q 048126          228 --KKKFLLLLDDIWERVDL-----------T---------KVGVPFP--DPEN-KSKIV-FTTRFLEI-----CGAMKAH  276 (863)
Q Consensus       228 --~kr~LlVlDdv~~~~~~-----------~---------~~~~~l~--~~~~-gs~Ii-vTtR~~~v-----~~~~~~~  276 (863)
                        ..+-+||+.|++-..+.           .         -+...+.  +... +-||| +||-..+-     .+.-..+
T Consensus       283 ~t~~kSIivIEDIDcs~~l~~~~~~~~~~~~~~~~~VTlSGLLNfiDGlwSscg~ERIivFTTNh~EkLDPALlRpGRmD  362 (457)
T KOG0743|consen  283 ATPNKSILLIEDIDCSFDLRERRKKKKENFEGDLSRVTLSGLLNFLDGLWSSCGDERIIVFTTNHKEKLDPALLRPGRMD  362 (457)
T ss_pred             hCCCCcEEEEeecccccccccccccccccccCCcceeehHHhhhhhccccccCCCceEEEEecCChhhcCHhhcCCCcce
Confidence              24678888888642110           1         0111111  1112 34565 56665443     2211234


Q ss_pred             ceEeecCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCCchhHHHHHHHHhc
Q 048126          277 EFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGLPLALITIGRAMT  334 (863)
Q Consensus       277 ~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPlai~~~~~~l~  334 (863)
                      ..+.|..-+.+....||....+...  .+    .++.+|.+.-.|.-+.=..++..|-
T Consensus       363 mhI~mgyCtf~~fK~La~nYL~~~~--~h----~L~~eie~l~~~~~~tPA~V~e~lm  414 (457)
T KOG0743|consen  363 MHIYMGYCTFEAFKTLASNYLGIEE--DH----RLFDEIERLIEETEVTPAQVAEELM  414 (457)
T ss_pred             eEEEcCCCCHHHHHHHHHHhcCCCC--Cc----chhHHHHHHhhcCccCHHHHHHHHh
Confidence            4678999999999999999887643  12    3466666666666555455554443

>PRK08699 DNA polymerase III subunit delta'; Validated

Probab=96.01  E-value=0.076  Score=56.62  Aligned_cols=25  Identities=24%  Similarity=0.250  Sum_probs=22.2

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          147 VGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      .+.+.++|+.|+||||+|+.++...
T Consensus        21 ~hA~Lf~G~~G~GK~~la~~~a~~l   45 (325)
T PRK08699         21 PNAWLFAGKKGIGKTAFARFAAQAL   45 (325)
T ss_pred             ceEEEeECCCCCCHHHHHHHHHHHH
Confidence            4578899999999999999998875

>cd01120 RecA-like_NTPases RecA-like NTPases

Probab=96.00  E-value=0.038  Score=52.56  Aligned_cols=40  Identities=25%  Similarity=0.469  Sum_probs=30.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccC
Q 048126          149 IIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQ  191 (863)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~  191 (863)
                      ++.|+|.+|+||||++..++...   ...-..++|+.......
T Consensus         1 ~~~i~G~~G~GKT~l~~~i~~~~---~~~~~~v~~~~~e~~~~   40 (165)
T cd01120           1 LILVFGPTGSGKTTLALQLALNI---ATKGGKVVYVDIEEEIE   40 (165)
T ss_pred             CeeEeCCCCCCHHHHHHHHHHHH---HhcCCEEEEEECCcchH
Confidence            36799999999999999999887   22345678887765543

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.

>PRK09354 recA recombinase A; Provisional

Probab=95.97  E-value=0.021  Score=60.60  Aligned_cols=87  Identities=15%  Similarity=0.157  Sum_probs=58.2

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHHHHhCCCCcc---ccCCChhHHHHHH
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGRRIGFLDES---WKNGSLEDKASDI  222 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~---~~~~~~~~~~~~l  222 (863)
                      .-+++-|+|+.|+||||||.+++....   ..-..++||+.-..++..     .+++++...+.   ....+.++....+
T Consensus        59 ~G~IteI~G~~GsGKTtLal~~~~~~~---~~G~~~~yId~E~s~~~~-----~a~~lGvdld~lli~qp~~~Eq~l~i~  130 (349)
T PRK09354         59 RGRIVEIYGPESSGKTTLALHAIAEAQ---KAGGTAAFIDAEHALDPV-----YAKKLGVDIDNLLVSQPDTGEQALEIA  130 (349)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHH---HcCCcEEEECCccchHHH-----HHHHcCCCHHHeEEecCCCHHHHHHHH
Confidence            457899999999999999999887762   233578899887776653     45555543321   1223455555555


Q ss_pred             HHHhcc-CcEEEEEeccCC
Q 048126          223 LRILSK-KKFLLLLDDIWE  240 (863)
Q Consensus       223 ~~~l~~-kr~LlVlDdv~~  240 (863)
                      ...++. ..-+||+|.|..
T Consensus       131 ~~li~s~~~~lIVIDSvaa  149 (349)
T PRK09354        131 DTLVRSGAVDLIVVDSVAA  149 (349)
T ss_pred             HHHhhcCCCCEEEEeChhh
Confidence            555543 566899999853

>COG0542 clpA ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]

Probab=95.97  E-value=0.019  Score=66.67  Aligned_cols=153  Identities=20%  Similarity=0.271  Sum_probs=86.7

Q ss_pred             CCccchhHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCC-----CEEEEEEeCCccCHHHHHHHHH
Q 048126          126 EPTVGLESMFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDF-----DVVIWVVVSKDLQLEKIQEKIG  200 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F-----~~~~wv~~s~~~~~~~~~~~i~  200 (863)
                      ++.+||+.++.++++.|....-.--.++|-+|||||++|.-++.+..  .+.-     +..++.     .|+..+     
T Consensus       170 DPvIGRd~EI~r~iqIL~RR~KNNPvLiGEpGVGKTAIvEGLA~rIv--~g~VP~~L~~~~i~s-----LD~g~L-----  237 (786)
T COG0542         170 DPVIGRDEEIRRTIQILSRRTKNNPVLVGEPGVGKTAIVEGLAQRIV--NGDVPESLKDKRIYS-----LDLGSL-----  237 (786)
T ss_pred             CCCcChHHHHHHHHHHHhccCCCCCeEecCCCCCHHHHHHHHHHHHh--cCCCCHHHcCCEEEE-----ecHHHH-----
Confidence            46899999999999999754333334789999999999988888762  1111     111111     011111     


Q ss_pred             HHhCCCCccccCCChhHHHHHHHHHhc-cCcEEEEEeccCCccc----------cccccCCCCCCCCC-cE-EEEecCch
Q 048126          201 RRIGFLDESWKNGSLEDKASDILRILS-KKKFLLLLDDIWERVD----------LTKVGVPFPDPENK-SK-IVFTTRFL  267 (863)
Q Consensus       201 ~~l~~~~~~~~~~~~~~~~~~l~~~l~-~kr~LlVlDdv~~~~~----------~~~~~~~l~~~~~g-s~-IivTtR~~  267 (863)
                        ....   .-....+++...+.+.++ .++.+|.+|.++....          -..+..|  .-+.| -+ |--||-++
T Consensus       238 --vAGa---kyRGeFEeRlk~vl~ev~~~~~vILFIDEiHtiVGAG~~~G~a~DAaNiLKP--aLARGeL~~IGATT~~E  310 (786)
T COG0542         238 --VAGA---KYRGEFEERLKAVLKEVEKSKNVILFIDEIHTIVGAGATEGGAMDAANLLKP--ALARGELRCIGATTLDE  310 (786)
T ss_pred             --hccc---cccCcHHHHHHHHHHHHhcCCCeEEEEechhhhcCCCcccccccchhhhhHH--HHhcCCeEEEEeccHHH
Confidence              1000   023445566665555554 4589999999875321          1122222  12223 33 44555443


Q ss_pred             hh------hhcccccceEeecCCChHHHHHHHHHHh
Q 048126          268 EI------CGAMKAHEFLKVECLGPEDAWRLFRENL  297 (863)
Q Consensus       268 ~v------~~~~~~~~~~~l~~L~~~e~~~lf~~~~  297 (863)
                      .-      +....-...+.++.-+.+++...++...
T Consensus       311 YRk~iEKD~AL~RRFQ~V~V~EPs~e~ti~ILrGlk  346 (786)
T COG0542         311 YRKYIEKDAALERRFQKVLVDEPSVEDTIAILRGLK  346 (786)
T ss_pred             HHHHhhhchHHHhcCceeeCCCCCHHHHHHHHHHHH
Confidence            21      1112234567888888888888877543

>cd01121 Sms Sms (bacterial radA) DNA repair protein

Probab=95.95  E-value=0.039  Score=59.85  Aligned_cols=96  Identities=28%  Similarity=0.369  Sum_probs=55.3

Q ss_pred             HHHHHHhcCC--CccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHHHHhCCCCccc---
Q 048126          136 DKVWRCLGEE--QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGRRIGFLDESW---  210 (863)
Q Consensus       136 ~~l~~~L~~~--~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~---  210 (863)
                      .++-+.|..+  .-.++.|.|.+|+|||||+.+++....   ..-..++|++....  ..++ ..-+..++...+..   
T Consensus        69 ~eLD~vLgGGi~~GslvLI~G~pG~GKStLllq~a~~~a---~~g~~VlYvs~EEs--~~qi-~~Ra~rlg~~~~~l~l~  142 (372)
T cd01121          69 EELDRVLGGGLVPGSVILIGGDPGIGKSTLLLQVAARLA---KRGGKVLYVSGEES--PEQI-KLRADRLGISTENLYLL  142 (372)
T ss_pred             HHHHHhhcCCccCCeEEEEEeCCCCCHHHHHHHHHHHHH---hcCCeEEEEECCcC--HHHH-HHHHHHcCCCcccEEEE
Confidence            3444444332  346999999999999999999998762   22346788876443  3333 22244555433221   


Q ss_pred             cCCChhHHHHHHHHHhccCcEEEEEeccCC
Q 048126          211 KNGSLEDKASDILRILSKKKFLLLLDDIWE  240 (863)
Q Consensus       211 ~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~  240 (863)
                      ...+.+++.+.+.   +.+.-++|+|.+..
T Consensus       143 ~e~~le~I~~~i~---~~~~~lVVIDSIq~  169 (372)
T cd01121         143 AETNLEDILASIE---ELKPDLVIIDSIQT  169 (372)
T ss_pred             ccCcHHHHHHHHH---hcCCcEEEEcchHH
Confidence            1122333333332   23666888998843

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.

>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=95.95  E-value=0.064  Score=57.47  Aligned_cols=90  Identities=20%  Similarity=0.208  Sum_probs=51.5

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCc-cCHHHHHHHHHHHhCCCCccccCCChhHHHHHHHH
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKD-LQLEKIQEKIGRRIGFLDESWKNGSLEDKASDILR  224 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~-~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~  224 (863)
                      +.++|+++|++|+||||++..++....  ...+ .+.+++.... ....+-++..++.++.+..  ...+..++...+..
T Consensus       240 ~~~vI~LVGptGvGKTTTiaKLA~~L~--~~Gk-kVglI~aDt~RiaAvEQLk~yae~lgipv~--v~~d~~~L~~aL~~  314 (436)
T PRK11889        240 EVQTIALIGPTGVGKTTTLAKMAWQFH--GKKK-TVGFITTDHSRIGTVQQLQDYVKTIGFEVI--AVRDEAAMTRALTY  314 (436)
T ss_pred             CCcEEEEECCCCCcHHHHHHHHHHHHH--HcCC-cEEEEecCCcchHHHHHHHHHhhhcCCcEE--ecCCHHHHHHHHHH
Confidence            457999999999999999999988772  2222 3445554321 1233334455555554431  22344555555544


Q ss_pred             Hhcc-CcEEEEEeccCC
Q 048126          225 ILSK-KKFLLLLDDIWE  240 (863)
Q Consensus       225 ~l~~-kr~LlVlDdv~~  240 (863)
                      .-.. +.=++++|-.-.
T Consensus       315 lk~~~~~DvVLIDTaGR  331 (436)
T PRK11889        315 FKEEARVDYILIDTAGK  331 (436)
T ss_pred             HHhccCCCEEEEeCccc
Confidence            3222 234677787643

>COG1102 Cmk Cytidylate kinase [Nucleotide transport and metabolism]

Probab=95.94  E-value=0.021  Score=52.29  Aligned_cols=45  Identities=29%  Similarity=0.505  Sum_probs=35.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHHHHhCCCC
Q 048126          149 IIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGRRIGFLD  207 (863)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~  207 (863)
                      +|.|-|++|.||||+|+.+++.. .    ..+   |      +.-.+++++++..++.-
T Consensus         2 ~ItIsG~pGsG~TTva~~lAe~~-g----l~~---v------saG~iFR~~A~e~gmsl   46 (179)
T COG1102           2 VITISGLPGSGKTTVARELAEHL-G----LKL---V------SAGTIFREMARERGMSL   46 (179)
T ss_pred             EEEeccCCCCChhHHHHHHHHHh-C----Cce---e------eccHHHHHHHHHcCCCH
Confidence            68999999999999999999987 1    111   1      33468899999888754

>KOG2035 consensus Replication factor C, subunit RFC3 [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]

Probab=95.94  E-value=0.28  Score=49.25  Aligned_cols=209  Identities=13%  Similarity=0.161  Sum_probs=116.2

Q ss_pred             CccchhHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHhhhcCC---CCCCCEEEEEEeCCc----------c---
Q 048126          127 PTVGLESMFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGA---PNDFDVVIWVVVSKD----------L---  190 (863)
Q Consensus       127 ~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~---~~~F~~~~wv~~s~~----------~---  190 (863)
                      ...++++....+......++..-.-++|+.|.||-|.+..+.+..-.+   +-.-+..-|.+-|..          +   
T Consensus        14 ~l~~~~e~~~~Lksl~~~~d~PHll~yGPSGaGKKTrimclL~elYG~gveklki~~~t~~tpS~kklEistvsS~yHlE   93 (351)
T KOG2035|consen   14 ELIYHEELANLLKSLSSTGDFPHLLVYGPSGAGKKTRIMCLLRELYGVGVEKLKIETRTFTTPSKKKLEISTVSSNYHLE   93 (351)
T ss_pred             hcccHHHHHHHHHHhcccCCCCeEEEECCCCCCchhhHHHHHHHHhCCCchheeeeeEEEecCCCceEEEEEecccceEE
Confidence            467888888888888776778888999999999999888776664211   122344555543332          1   


Q ss_pred             --------CHHHHHHHHHHHhCCCCccccCCChhHHHHHHHHHhccCcEE-EEEeccCCc--cccccccCCCCCCCCCcE
Q 048126          191 --------QLEKIQEKIGRRIGFLDESWKNGSLEDKASDILRILSKKKFL-LLLDDIWER--VDLTKVGVPFPDPENKSK  259 (863)
Q Consensus       191 --------~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~kr~L-lVlDdv~~~--~~~~~~~~~l~~~~~gs~  259 (863)
                              .-+.+.++++++++...+-              +.-..+.|= +|+-.+++.  ++-..++.....-.+.+|
T Consensus        94 itPSDaG~~DRvViQellKevAQt~qi--------------e~~~qr~fKvvvi~ead~LT~dAQ~aLRRTMEkYs~~~R  159 (351)
T KOG2035|consen   94 ITPSDAGNYDRVVIQELLKEVAQTQQI--------------ETQGQRPFKVVVINEADELTRDAQHALRRTMEKYSSNCR  159 (351)
T ss_pred             eChhhcCcccHHHHHHHHHHHHhhcch--------------hhccccceEEEEEechHhhhHHHHHHHHHHHHHHhcCce
Confidence                    1122333444333221100              011124553 344444321  111122111112234567


Q ss_pred             EEEecCchh--hhhcccccceEeecCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCCchhHHHHHHHHhcCC-
Q 048126          260 IVFTTRFLE--ICGAMKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGLPLALITIGRAMTCK-  336 (863)
Q Consensus       260 IivTtR~~~--v~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPlai~~~~~~l~~~-  336 (863)
                      +|+...+..  +...-...-.+++...+++|-...+++.+......-+   .+++.+|+++++|.---...+-..++-+ 
T Consensus       160 lIl~cns~SriIepIrSRCl~iRvpaps~eeI~~vl~~v~~kE~l~lp---~~~l~rIa~kS~~nLRrAllmlE~~~~~n  236 (351)
T KOG2035|consen  160 LILVCNSTSRIIEPIRSRCLFIRVPAPSDEEITSVLSKVLKKEGLQLP---KELLKRIAEKSNRNLRRALLMLEAVRVNN  236 (351)
T ss_pred             EEEEecCcccchhHHhhheeEEeCCCCCHHHHHHHHHHHHHHhcccCc---HHHHHHHHHHhcccHHHHHHHHHHHHhcc
Confidence            765433211  1111111235789999999999999988766543222   7889999999998755444444443321 


Q ss_pred             ---------CChhHHHHHHHHHHhc
Q 048126          337 ---------KTTQEWHHAIQILRRS  352 (863)
Q Consensus       337 ---------~~~~~w~~~l~~l~~~  352 (863)
                               -..-+|+-++.++...
T Consensus       237 ~~~~a~~~~i~~~dWe~~i~e~a~~  261 (351)
T KOG2035|consen  237 EPFTANSQVIPKPDWEIYIQEIARV  261 (351)
T ss_pred             ccccccCCCCCCccHHHHHHHHHHH
Confidence                     2456899888776544

>cd00561 CobA_CobO_BtuR ATP:corrinoid adenosyltransferase BtuR/CobO/CobP

Probab=95.92  E-value=0.02  Score=53.56  Aligned_cols=116  Identities=22%  Similarity=0.209  Sum_probs=61.7

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEe---CCccCHHHHHHHHHHHh-----CCCCccccCCChhH--
Q 048126          148 GIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVV---SKDLQLEKIQEKIGRRI-----GFLDESWKNGSLED--  217 (863)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~---s~~~~~~~~~~~i~~~l-----~~~~~~~~~~~~~~--  217 (863)
                      ..|-|++..|.||||.|...+-+..  ...+. +.+|..   ....+-..+++.+ ..+     +... .+...+..+  
T Consensus         3 G~i~vy~g~G~Gkt~~a~g~~~ra~--~~g~~-v~~vQFlKg~~~~gE~~~l~~l-~~v~~~~~g~~~-~~~~~~~~~~~   77 (159)
T cd00561           3 GLIQVYTGNGKGKTTAALGLALRAL--GHGYR-VGVVQFLKGGWKYGELKALERL-PNIEIHRMGRGF-FWTTENDEEDI   77 (159)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHH--HCCCe-EEEEEEeCCCCccCHHHHHHhC-CCcEEEECCCCC-ccCCCChHHHH
Confidence            5788899999999999999988762  33443 344332   2233444444443 111     1000 001111111  


Q ss_pred             -----HHHHHHHHhcc-CcEEEEEeccCCc-----cccccccCCCCCCCCCcEEEEecCchh
Q 048126          218 -----KASDILRILSK-KKFLLLLDDIWER-----VDLTKVGVPFPDPENKSKIVFTTRFLE  268 (863)
Q Consensus       218 -----~~~~l~~~l~~-kr~LlVlDdv~~~-----~~~~~~~~~l~~~~~gs~IivTtR~~~  268 (863)
                           .....++.+.. +-=|||||++-..     .+.+.+...+.....+..||+|.|+..
T Consensus        78 ~~a~~~~~~a~~~~~~~~~dLlVLDEi~~a~~~gli~~~~v~~ll~~rp~~~evIlTGr~~p  139 (159)
T cd00561          78 AAAAEGWAFAKEAIASGEYDLVILDEINYALGYGLLDVEEVVDLLKAKPEDLELVLTGRNAP  139 (159)
T ss_pred             HHHHHHHHHHHHHHhcCCCCEEEEechHhHhhCCCCCHHHHHHHHHcCCCCCEEEEECCCCC
Confidence                 12223334444 4459999998543     223334333444445678999999853

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.

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

Probab=95.91  E-value=0.011  Score=61.16  Aligned_cols=136  Identities=16%  Similarity=0.203  Sum_probs=72.4

Q ss_pred             chhHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEE----EEeCCccC---------HHHHH
Q 048126          130 GLESMFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIW----VVVSKDLQ---------LEKIQ  196 (863)
Q Consensus       130 Gr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~w----v~~s~~~~---------~~~~~  196 (863)
                      +|..+..--+++|.++++..|.+.|.+|.|||.||-+..=..--.+..|..++-    +.++++..         +.-.+
T Consensus       228 prn~eQ~~ALdlLld~dI~lV~L~G~AGtGKTlLALaAgleqv~e~~~y~KiiVtRp~vpvG~dIGfLPG~eEeKm~PWm  307 (436)
T COG1875         228 PRNAEQRVALDLLLDDDIDLVSLGGKAGTGKTLLALAAGLEQVLERKRYRKIIVTRPTVPVGEDIGFLPGTEEEKMGPWM  307 (436)
T ss_pred             cccHHHHHHHHHhcCCCCCeEEeeccCCccHhHHHHHHHHHHHHHHhhhceEEEecCCcCcccccCcCCCchhhhccchH
Confidence            466666777888999999999999999999998887653322112344443321    22333321         11122


Q ss_pred             HHHHHHhCCCCccccCCChhHHHHHHH----------HHhccC---cEEEEEeccCCccccccccCCCCCCCCCcEEEEe
Q 048126          197 EKIGRRIGFLDESWKNGSLEDKASDIL----------RILSKK---KFLLLLDDIWERVDLTKVGVPFPDPENKSKIVFT  263 (863)
Q Consensus       197 ~~i~~~l~~~~~~~~~~~~~~~~~~l~----------~~l~~k---r~LlVlDdv~~~~~~~~~~~~l~~~~~gs~IivT  263 (863)
                      ..|..-+..-... .... ....+.+.          .+++++   +-++|+|...+... .++...+...+.||||+.|
T Consensus       308 q~i~DnLE~L~~~-~~~~-~~~l~~~l~~~~iev~alt~IRGRSl~~~FiIIDEaQNLTp-heikTiltR~G~GsKIVl~  384 (436)
T COG1875         308 QAIFDNLEVLFSP-NEPG-DRALEEILSRGRIEVEALTYIRGRSLPDSFIIIDEAQNLTP-HELKTILTRAGEGSKIVLT  384 (436)
T ss_pred             HHHHhHHHHHhcc-cccc-hHHHHHHHhccceeeeeeeeecccccccceEEEehhhccCH-HHHHHHHHhccCCCEEEEc
Confidence            2222222110000 0011 22222221          133443   46899999976421 2233334457889999998


Q ss_pred             cCchh
Q 048126          264 TRFLE  268 (863)
Q Consensus       264 tR~~~  268 (863)
                      --..+
T Consensus       385 gd~aQ  389 (436)
T COG1875         385 GDPAQ  389 (436)
T ss_pred             CCHHH
Confidence            75443

>PRK14723 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=95.91  E-value=0.41  Score=56.30  Aligned_cols=88  Identities=24%  Similarity=0.285  Sum_probs=53.1

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCC-ccCHHHHHHHHHHHhCCCCccccCCChhHHHHHHHHH
Q 048126          147 VGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSK-DLQLEKIQEKIGRRIGFLDESWKNGSLEDKASDILRI  225 (863)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~-~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~  225 (863)
                      ..+|+++|+.|+||||.+.+++... ........+..++... .....+.++...+.++++..  ...+..++...+. .
T Consensus       185 g~Vi~lVGpnGvGKTTTiaKLA~~~-~~~~G~kkV~lit~Dt~RigA~eQL~~~a~~~gvpv~--~~~~~~~l~~al~-~  260 (767)
T PRK14723        185 GGVLALVGPTGVGKTTTTAKLAARC-VAREGADQLALLTTDSFRIGALEQLRIYGRILGVPVH--AVKDAADLRFALA-A  260 (767)
T ss_pred             CeEEEEECCCCCcHHHHHHHHHhhH-HHHcCCCeEEEecCcccchHHHHHHHHHHHhCCCCcc--ccCCHHHHHHHHH-H
Confidence            4699999999999999999998776 2122223455555432 11244566667777776442  2234455544444 3


Q ss_pred             hccCcEEEEEeccC
Q 048126          226 LSKKKFLLLLDDIW  239 (863)
Q Consensus       226 l~~kr~LlVlDdv~  239 (863)
                      ++++. +|++|=.-
T Consensus       261 ~~~~D-~VLIDTAG  273 (767)
T PRK14723        261 LGDKH-LVLIDTVG  273 (767)
T ss_pred             hcCCC-EEEEeCCC
Confidence            44443 67777664

>KOG2739 consensus Leucine-rich acidic nuclear protein [Cell cycle control, cell division, chromosome partitioning; General function prediction only]

Probab=95.91  E-value=0.0046  Score=61.26  Aligned_cols=104  Identities=27%  Similarity=0.344  Sum_probs=75.8

Q ss_pred             ccceEEEEeccccccccccCCCCCccceEEccCC--ccc-cccchhhhcCCCccEEEccCCCcc--ccCCccccccCCCC
Q 048126          493 WRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDN--SLK-MIAGDFFQFMPSLRVFNMSNNHLL--WKLPSGISTLVSLE  567 (863)
Q Consensus       493 ~~~lr~L~l~~~~~~~l~~~~~~~~L~~L~l~~~--~l~-~~~~~~~~~l~~L~~L~L~~~~~~--~~lp~~i~~l~~L~  567 (863)
                      +..+..+++.+..+..+..++.+++|+.|.++.|  .+. .++. ....+++|++|++++|++-  ..++ .+..+.+|.
T Consensus        42 ~~~le~ls~~n~gltt~~~~P~Lp~LkkL~lsdn~~~~~~~l~v-l~e~~P~l~~l~ls~Nki~~lstl~-pl~~l~nL~  119 (260)
T KOG2739|consen   42 FVELELLSVINVGLTTLTNFPKLPKLKKLELSDNYRRVSGGLEV-LAEKAPNLKVLNLSGNKIKDLSTLR-PLKELENLK  119 (260)
T ss_pred             ccchhhhhhhccceeecccCCCcchhhhhcccCCccccccccee-hhhhCCceeEEeecCCccccccccc-hhhhhcchh
Confidence            3467777777777777888899999999999999  333 2222 2566799999999999543  2222 346778889


Q ss_pred             eEEccCCCccccc----hhhhcCCCCCEEecCCcc
Q 048126          568 HLDLSGTAITHLP----IELQKLVNLKCLNLEYMY  598 (863)
Q Consensus       568 ~L~L~~~~l~~lp----~~~~~l~~L~~L~l~~~~  598 (863)
                      .|++.+|..+.+-    ..+.-+++|..|+-..+.
T Consensus       120 ~Ldl~n~~~~~l~dyre~vf~ll~~L~~LD~~dv~  154 (260)
T KOG2739|consen  120 SLDLFNCSVTNLDDYREKVFLLLPSLKYLDGCDVD  154 (260)
T ss_pred             hhhcccCCccccccHHHHHHHHhhhhccccccccC
Confidence            9999999776552    246677889998876653

>PRK06547 hypothetical protein; Provisional

Probab=95.91  E-value=0.011  Score=56.66  Aligned_cols=36  Identities=22%  Similarity=0.183  Sum_probs=29.3

Q ss_pred             HHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          136 DKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       136 ~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      +.+...+......+|+|.|+.|+||||+|+.+.+..
T Consensus         4 ~~~~~~~~~~~~~~i~i~G~~GsGKTt~a~~l~~~~   39 (172)
T PRK06547          4 ALIAARLCGGGMITVLIDGRSGSGKTTLAGALAART   39 (172)
T ss_pred             HHHHHHhhcCCCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            334445556678899999999999999999999875

>PRK06067 flagellar accessory protein FlaH; Validated

Probab=95.89  E-value=0.049  Score=55.55  Aligned_cols=88  Identities=11%  Similarity=0.146  Sum_probs=54.8

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHHHHhCCCCccc---------------
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGRRIGFLDESW---------------  210 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~---------------  210 (863)
                      .-+++.|+|.+|+|||++|.++.....  + .=..++|++..+.  ...+.+++ .+++......               
T Consensus        24 ~g~~~~i~G~~GsGKt~l~~~~~~~~~--~-~g~~~~y~~~e~~--~~~~~~~~-~~~g~~~~~~~~~g~l~i~~~~~~~   97 (234)
T PRK06067         24 FPSLILIEGDHGTGKSVLSQQFVYGAL--K-QGKKVYVITTENT--SKSYLKQM-ESVKIDISDFFLWGYLRIFPLNTEG   97 (234)
T ss_pred             CCcEEEEECCCCCChHHHHHHHHHHHH--h-CCCEEEEEEcCCC--HHHHHHHH-HHCCCChhHHHhCCCceEEeccccc
Confidence            567999999999999999999966541  2 2346889888654  44555543 3343321100               


Q ss_pred             ---cCCChhHHHHHHHHHhcc-CcEEEEEeccC
Q 048126          211 ---KNGSLEDKASDILRILSK-KKFLLLLDDIW  239 (863)
Q Consensus       211 ---~~~~~~~~~~~l~~~l~~-kr~LlVlDdv~  239 (863)
                         .....++....+.+.++. +.-++|+|.+.
T Consensus        98 ~~~~~~~~~~ll~~l~~~i~~~~~~~iviDs~t  130 (234)
T PRK06067         98 FEWNSTLANKLLELIIEFIKSKREDVIIIDSLT  130 (234)
T ss_pred             cccCcchHHHHHHHHHHHHHhcCCCEEEEecHH
Confidence               011234555666666654 55578888875

>KOG2004 consensus Mitochondrial ATP-dependent protease PIM1/LON [Posttranslational modification, protein turnover, chaperones]

Probab=95.83  E-value=0.018  Score=64.82  Aligned_cols=64  Identities=25%  Similarity=0.375  Sum_probs=48.8

Q ss_pred             CCccchhHHHHHHHHHhcC------CCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHH
Q 048126          126 EPTVGLESMFDKVWRCLGE------EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKI  195 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~  195 (863)
                      ++.+|.++.+++|++++.-      -+-++++.+|++|||||.+|+.++.-.   ...|   +-++|+.-.|..+|
T Consensus       411 eDHYgm~dVKeRILEfiAV~kLrgs~qGkIlCf~GPPGVGKTSI~kSIA~AL---nRkF---fRfSvGG~tDvAeI  480 (906)
T KOG2004|consen  411 EDHYGMEDVKERILEFIAVGKLRGSVQGKILCFVGPPGVGKTSIAKSIARAL---NRKF---FRFSVGGMTDVAEI  480 (906)
T ss_pred             ccccchHHHHHHHHHHHHHHhhcccCCCcEEEEeCCCCCCcccHHHHHHHHh---CCce---EEEeccccccHHhh
Confidence            4568999999999999852      256799999999999999999999987   2333   22455655555554

>PLN00020 ribulose bisphosphate carboxylase/oxygenase activase -RuBisCO activase (RCA); Provisional

Probab=95.80  E-value=0.012  Score=61.83  Aligned_cols=27  Identities=26%  Similarity=0.390  Sum_probs=24.6

Q ss_pred             CCccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          145 EQVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       145 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ..+..++|||++|+|||.+|+.+++..
T Consensus       146 k~PlgllL~GPPGcGKTllAraiA~el  172 (413)
T PLN00020        146 KVPLILGIWGGKGQGKSFQCELVFKKM  172 (413)
T ss_pred             CCCeEEEeeCCCCCCHHHHHHHHHHHc
Confidence            356789999999999999999999997

>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional

Probab=95.80  E-value=0.021  Score=67.63  Aligned_cols=46  Identities=22%  Similarity=0.330  Sum_probs=37.3

Q ss_pred             CCccchhHHHHHHHHHhcC--------C-CccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          126 EPTVGLESMFDKVWRCLGE--------E-QVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~--------~-~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ..+||-+..++.|.+.+..        . ....+.++|+.|+|||++|+.++...
T Consensus       458 ~~ViGQ~~ai~~l~~~i~~~~~gl~~~~kp~~~~Lf~GP~GvGKT~lAk~LA~~l  512 (758)
T PRK11034        458 MLVFGQDKAIEALTEAIKMSRAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKAL  512 (758)
T ss_pred             ceEeCcHHHHHHHHHHHHHHhccccCCCCCcceEEEECCCCCCHHHHHHHHHHHh
Confidence            3468999999998888752        1 23578899999999999999998876

>PRK10733 hflB ATP-dependent metalloprotease; Reviewed

Probab=95.79  E-value=0.096  Score=61.65  Aligned_cols=150  Identities=14%  Similarity=0.116  Sum_probs=80.0

Q ss_pred             ccchhHHHHHHHHHh---cC---------CCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHH
Q 048126          128 TVGLESMFDKVWRCL---GE---------EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKI  195 (863)
Q Consensus       128 ~vGr~~~~~~l~~~L---~~---------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~  195 (863)
                      +.|.+..++++.+.+   ..         .-.+-|.++|++|+|||++|+.+++..   ...|   +.++.+.      +
T Consensus       154 i~g~~~~~~~l~~i~~~~~~~~~~~~~~~~~~~gill~G~~G~GKt~~~~~~a~~~---~~~f---~~is~~~------~  221 (644)
T PRK10733        154 VAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEA---KVPF---FTISGSD------F  221 (644)
T ss_pred             HcCHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCcEEEECCCCCCHHHHHHHHHHHc---CCCE---EEEehHH------h
Confidence            457666555554433   22         113458899999999999999999876   2233   2222221      1


Q ss_pred             HHHHHHHhCCCCccccCCChhHHHHHHHHHhccCcEEEEEeccCCccc----------------cccccCCCCC--CCCC
Q 048126          196 QEKIGRRIGFLDESWKNGSLEDKASDILRILSKKKFLLLLDDIWERVD----------------LTKVGVPFPD--PENK  257 (863)
Q Consensus       196 ~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~----------------~~~~~~~l~~--~~~g  257 (863)
                      ..    ..       ...........+...-...+.+|++|+++....                ...+...+..  ...+
T Consensus       222 ~~----~~-------~g~~~~~~~~~f~~a~~~~P~IifIDEiD~l~~~r~~~~~g~~~~~~~~ln~lL~~mdg~~~~~~  290 (644)
T PRK10733        222 VE----MF-------VGVGASRVRDMFEQAKKAAPCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFEGNEG  290 (644)
T ss_pred             HH----hh-------hcccHHHHHHHHHHHHhcCCcEEEehhHhhhhhccCCCCCCCchHHHHHHHHHHHhhhcccCCCC
Confidence            11    00       011112222333333345678999999865310                0111111111  1234


Q ss_pred             cEEEEecCchhhhhc--c---cccceEeecCCChHHHHHHHHHHhccc
Q 048126          258 SKIVFTTRFLEICGA--M---KAHEFLKVECLGPEDAWRLFRENLRRD  300 (863)
Q Consensus       258 s~IivTtR~~~v~~~--~---~~~~~~~l~~L~~~e~~~lf~~~~~~~  300 (863)
                      .-+|.||...+....  .   .-+..+.++.-+.++-.++++......
T Consensus       291 vivIaaTN~p~~lD~Al~RpgRfdr~i~v~~Pd~~~R~~Il~~~~~~~  338 (644)
T PRK10733        291 IIVIAATNRPDVLDPALLRPGRFDRQVVVGLPDVRGREQILKVHMRRV  338 (644)
T ss_pred             eeEEEecCChhhcCHHHhCCcccceEEEcCCCCHHHHHHHHHHHhhcC
Confidence            455557776554221  1   224567788888888888888776543

>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=95.78  E-value=0.19  Score=52.81  Aligned_cols=97  Identities=16%  Similarity=0.163  Sum_probs=57.9

Q ss_pred             HHHHHhcCC---CccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHHHHhCCCCccc---
Q 048126          137 KVWRCLGEE---QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGRRIGFLDESW---  210 (863)
Q Consensus       137 ~l~~~L~~~---~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~---  210 (863)
                      .|-..|..+   .-+++-|+|+.|+||||||..+....   ...-..++||.....++..     .++++++..+..   
T Consensus        40 ~LD~aLg~GG~p~G~ivEi~G~~ssGKttLaL~~ia~~---q~~g~~~a~ID~e~~ld~~-----~a~~lGvdl~rllv~  111 (322)
T PF00154_consen   40 ALDYALGIGGLPRGRIVEIYGPESSGKTTLALHAIAEA---QKQGGICAFIDAEHALDPE-----YAESLGVDLDRLLVV  111 (322)
T ss_dssp             HHHHHTSSSSEETTSEEEEEESTTSSHHHHHHHHHHHH---HHTT-EEEEEESSS---HH-----HHHHTT--GGGEEEE
T ss_pred             ccchhhccCccccCceEEEeCCCCCchhhhHHHHHHhh---hcccceeEEecCcccchhh-----HHHhcCccccceEEe
Confidence            344445433   45799999999999999999998876   2234578999987766553     344555543321   


Q ss_pred             cCCChhHHHHHHHHHhcc-CcEEEEEeccCCc
Q 048126          211 KNGSLEDKASDILRILSK-KKFLLLLDDIWER  241 (863)
Q Consensus       211 ~~~~~~~~~~~l~~~l~~-kr~LlVlDdv~~~  241 (863)
                      .....++..+...+.++. .--++|+|.|-..
T Consensus       112 ~P~~~E~al~~~e~lirsg~~~lVVvDSv~al  143 (322)
T PF00154_consen  112 QPDTGEQALWIAEQLIRSGAVDLVVVDSVAAL  143 (322)
T ss_dssp             E-SSHHHHHHHHHHHHHTTSESEEEEE-CTT-
T ss_pred             cCCcHHHHHHHHHHHhhcccccEEEEecCccc
Confidence            233445555555565654 3458899998654

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 ....

>PRK04301 radA DNA repair and recombination protein RadA; Validated

Probab=95.77  E-value=0.066  Score=57.32  Aligned_cols=58  Identities=19%  Similarity=0.422  Sum_probs=42.2

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhhcCCCCC----CCEEEEEEeCCccCHHHHHHHHHHHhCC
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPND----FDVVIWVVVSKDLQLEKIQEKIGRRIGF  205 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~----F~~~~wv~~s~~~~~~~~~~~i~~~l~~  205 (863)
                      ...++-|+|.+|+|||+++.+++... .....    =..++||+....++...+.+ +++.++.
T Consensus       101 ~g~vtei~G~~GsGKT~l~~~~~~~~-~~~~~~gg~~~~~~yi~te~~f~~~rl~~-~~~~~g~  162 (317)
T PRK04301        101 TQSITEFYGEFGSGKTQICHQLAVNV-QLPEEKGGLEGKAVYIDTEGTFRPERIEQ-MAEALGL  162 (317)
T ss_pred             CCcEEEEECCCCCCHhHHHHHHHHHh-ccccccCCCCceEEEEeCCCCcCHHHHHH-HHHHcCC
Confidence            46789999999999999999998765 11111    14789999988888777654 4455543

>PHA00729 NTP-binding motif containing protein

Probab=95.76  E-value=0.013  Score=58.01  Aligned_cols=35  Identities=23%  Similarity=0.332  Sum_probs=28.8

Q ss_pred             HHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          137 KVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       137 ~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ++++.+...+...|.|+|.+|+||||||..+.+..
T Consensus         7 ~~~~~l~~~~f~nIlItG~pGvGKT~LA~aLa~~l   41 (226)
T PHA00729          7 KIVSAYNNNGFVSAVIFGKQGSGKTTYALKVARDV   41 (226)
T ss_pred             HHHHHHhcCCeEEEEEECCCCCCHHHHHHHHHHHH
Confidence            45555555666789999999999999999999875

>TIGR02239 recomb_RAD51 DNA repair protein RAD51

Probab=95.75  E-value=0.05  Score=57.79  Aligned_cols=59  Identities=19%  Similarity=0.272  Sum_probs=41.4

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhhcCCC----CCCCEEEEEEeCCccCHHHHHHHHHHHhCCC
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAP----NDFDVVIWVVVSKDLQLEKIQEKIGRRIGFL  206 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~----~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~  206 (863)
                      .-.++.|+|.+|+|||+|+..++... ...    ..-..++||+....++..++ .++++.++..
T Consensus        95 ~g~i~~i~G~~g~GKT~l~~~~~~~~-~~~~~~Gg~~~~vvyIdtE~~f~~~Rl-~~ia~~~~~~  157 (316)
T TIGR02239        95 TGSITEIFGEFRTGKTQLCHTLAVTC-QLPIDQGGGEGKALYIDTEGTFRPERL-LAIAERYGLN  157 (316)
T ss_pred             CCeEEEEECCCCCCcCHHHHHHHHHH-hhhhhcCCCCceEEEEECCCCCCHHHH-HHHHHHcCCC
Confidence            46799999999999999999987643 111    11236799998887777764 4456666543

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).

>KOG2123 consensus Uncharacterized conserved protein [Function unknown]

Probab=95.73  E-value=0.0018  Score=64.14  Aligned_cols=95  Identities=25%  Similarity=0.250  Sum_probs=41.5

Q ss_pred             eEEEEeccccccccccCCCCCccceEEccCCccccccchhhhcCCCccEEEccCCCccccCC--ccccccCCCCeEEccC
Q 048126          496 VRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLP--SGISTLVSLEHLDLSG  573 (863)
Q Consensus       496 lr~L~l~~~~~~~l~~~~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~lp--~~i~~l~~L~~L~L~~  573 (863)
                      ++.|++.++.+..+.-..+++.|++|.|+-|.++.+.+  |..|++|+.|.|..| .+..+-  ..+.++++|++|-|..
T Consensus        21 vkKLNcwg~~L~DIsic~kMp~lEVLsLSvNkIssL~p--l~rCtrLkElYLRkN-~I~sldEL~YLknlpsLr~LWL~E   97 (388)
T KOG2123|consen   21 VKKLNCWGCGLDDISICEKMPLLEVLSLSVNKISSLAP--LQRCTRLKELYLRKN-CIESLDELEYLKNLPSLRTLWLDE   97 (388)
T ss_pred             hhhhcccCCCccHHHHHHhcccceeEEeeccccccchh--HHHHHHHHHHHHHhc-ccccHHHHHHHhcCchhhhHhhcc
Confidence            33444444444444334444445555555444444433  444555555555444 222221  1234445555555544


Q ss_pred             CCcc-ccc-----hhhhcCCCCCEEe
Q 048126          574 TAIT-HLP-----IELQKLVNLKCLN  593 (863)
Q Consensus       574 ~~l~-~lp-----~~~~~l~~L~~L~  593 (863)
                      |... .-+     ..+.-|+||+.||
T Consensus        98 NPCc~~ag~nYR~~VLR~LPnLkKLD  123 (388)
T KOG2123|consen   98 NPCCGEAGQNYRRKVLRVLPNLKKLD  123 (388)
T ss_pred             CCcccccchhHHHHHHHHcccchhcc
Confidence            4222 111     1244556666664

>KOG0744 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=95.72  E-value=0.029  Score=57.16  Aligned_cols=81  Identities=17%  Similarity=0.231  Sum_probs=50.2

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHhhhcCC--CCCCCEEEEEEeCCccCHHHHHHHHHHHhCCCCccccCCChhHHHHHHHH
Q 048126          147 VGIIGLYGMGGVGKTTLLTKINNKLLGA--PNDFDVVIWVVVSKDLQLEKIQEKIGRRIGFLDESWKNGSLEDKASDILR  224 (863)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~--~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~  224 (863)
                      -++|.++|++|.|||+|.+++++.. .+  .+.|.....+.++    -..++..-..+        ...-...+.+++++
T Consensus       177 NRliLlhGPPGTGKTSLCKaLaQkL-SIR~~~~y~~~~liEin----shsLFSKWFsE--------SgKlV~kmF~kI~E  243 (423)
T KOG0744|consen  177 NRLILLHGPPGTGKTSLCKALAQKL-SIRTNDRYYKGQLIEIN----SHSLFSKWFSE--------SGKLVAKMFQKIQE  243 (423)
T ss_pred             eeEEEEeCCCCCChhHHHHHHHHhh-eeeecCccccceEEEEe----hhHHHHHHHhh--------hhhHHHHHHHHHHH
Confidence            4789999999999999999999987 33  2334433344332    22233222211        23345566677777


Q ss_pred             HhccCc--EEEEEeccCC
Q 048126          225 ILSKKK--FLLLLDDIWE  240 (863)
Q Consensus       225 ~l~~kr--~LlVlDdv~~  240 (863)
                      .++++.  +++.+|.|..
T Consensus       244 Lv~d~~~lVfvLIDEVES  261 (423)
T KOG0744|consen  244 LVEDRGNLVFVLIDEVES  261 (423)
T ss_pred             HHhCCCcEEEEEeHHHHH
Confidence            777755  3455688853

>KOG0733 consensus Nuclear AAA ATPase (VCP subfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=95.66  E-value=0.13  Score=57.20  Aligned_cols=152  Identities=18%  Similarity=0.217  Sum_probs=85.9

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHHHHhCCCCccccCCChhHHHHHHHHH
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGRRIGFLDESWKNGSLEDKASDILRI  225 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~  225 (863)
                      ...-|.+||++|+|||-||++|+|..   +-.|     ++|-.+    +++..-           ...++..+...+++.
T Consensus       544 ~PsGvLL~GPPGCGKTLlAKAVANEa---g~NF-----isVKGP----ELlNkY-----------VGESErAVR~vFqRA  600 (802)
T KOG0733|consen  544 APSGVLLCGPPGCGKTLLAKAVANEA---GANF-----ISVKGP----ELLNKY-----------VGESERAVRQVFQRA  600 (802)
T ss_pred             CCCceEEeCCCCccHHHHHHHHhhhc---cCce-----EeecCH----HHHHHH-----------hhhHHHHHHHHHHHh
Confidence            35678899999999999999999987   4454     444332    222111           223333444444444


Q ss_pred             hccCcEEEEEeccCCc-------ccc------ccccCCCCC--CCCCcEEEEecCchhhh-hc-c---cccceEeecCCC
Q 048126          226 LSKKKFLLLLDDIWER-------VDL------TKVGVPFPD--PENKSKIVFTTRFLEIC-GA-M---KAHEFLKVECLG  285 (863)
Q Consensus       226 l~~kr~LlVlDdv~~~-------~~~------~~~~~~l~~--~~~gs~IivTtR~~~v~-~~-~---~~~~~~~l~~L~  285 (863)
                      =..-++.|.||.++..       ..|      .++..-+..  ...|.-||-.|-.+++. .. .   .-+...-++.-+
T Consensus       601 R~saPCVIFFDEiDaL~p~R~~~~s~~s~RvvNqLLtElDGl~~R~gV~viaATNRPDiIDpAiLRPGRlDk~LyV~lPn  680 (802)
T KOG0733|consen  601 RASAPCVIFFDEIDALVPRRSDEGSSVSSRVVNQLLTELDGLEERRGVYVIAATNRPDIIDPAILRPGRLDKLLYVGLPN  680 (802)
T ss_pred             hcCCCeEEEecchhhcCcccCCCCchhHHHHHHHHHHHhcccccccceEEEeecCCCcccchhhcCCCccCceeeecCCC
Confidence            4567999999998642       111      122222221  22455566555554442 11 1   124456677778


Q ss_pred             hHHHHHHHHHHhccc--ccCCCCChHHHHHHHHHHhCCc
Q 048126          286 PEDAWRLFRENLRRD--VLDNHPDIPELARSVAKEYAGL  322 (863)
Q Consensus       286 ~~e~~~lf~~~~~~~--~~~~~~~~~~~~~~i~~~c~gl  322 (863)
                      .+|=.++++......  ....+-++.++|+.  .+|.|.
T Consensus       681 ~~eR~~ILK~~tkn~k~pl~~dVdl~eia~~--~~c~gf  717 (802)
T KOG0733|consen  681 AEERVAILKTITKNTKPPLSSDVDLDEIARN--TKCEGF  717 (802)
T ss_pred             HHHHHHHHHHHhccCCCCCCcccCHHHHhhc--ccccCC
Confidence            888888888887632  22333455555543  345554

>cd01131 PilT Pilus retraction ATPase PilT

Probab=95.65  E-value=0.014  Score=57.63  Aligned_cols=107  Identities=12%  Similarity=0.126  Sum_probs=59.6

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHH---HHHHHhCCCCccccCCChhHHHHHHHH
Q 048126          148 GIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQE---KIGRRIGFLDESWKNGSLEDKASDILR  224 (863)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~---~i~~~l~~~~~~~~~~~~~~~~~~l~~  224 (863)
                      .+|.|+|+.|.||||++..+....   .......+++- .++..  ....   .+..+-.      ...+.....+.++.
T Consensus         2 GlilI~GptGSGKTTll~~ll~~~---~~~~~~~i~t~-e~~~E--~~~~~~~~~i~q~~------vg~~~~~~~~~i~~   69 (198)
T cd01131           2 GLVLVTGPTGSGKSTTLAAMIDYI---NKNKTHHILTI-EDPIE--FVHESKRSLINQRE------VGLDTLSFENALKA   69 (198)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHh---hhcCCcEEEEE-cCCcc--ccccCccceeeecc------cCCCccCHHHHHHH
Confidence            478999999999999999988776   22333343332 22211  1000   0111100      11122345566777


Q ss_pred             HhccCcEEEEEeccCCccccccccCCCCCCCCCcEEEEecCchhh
Q 048126          225 ILSKKKFLLLLDDIWERVDLTKVGVPFPDPENKSKIVFTTRFLEI  269 (863)
Q Consensus       225 ~l~~kr~LlVlDdv~~~~~~~~~~~~l~~~~~gs~IivTtR~~~v  269 (863)
                      .+...+=.+++|++.+..........   ...|..++.|+-...+
T Consensus        70 aLr~~pd~ii~gEird~e~~~~~l~~---a~~G~~v~~t~Ha~~~  111 (198)
T cd01131          70 ALRQDPDVILVGEMRDLETIRLALTA---AETGHLVMSTLHTNSA  111 (198)
T ss_pred             HhcCCcCEEEEcCCCCHHHHHHHHHH---HHcCCEEEEEecCCcH
Confidence            78777889999999776544432222   1235556666665443

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.

>PRK04328 hypothetical protein; Provisional

Probab=95.64  E-value=0.052  Score=55.76  Aligned_cols=41  Identities=15%  Similarity=0.141  Sum_probs=31.7

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCc
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKD  189 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~  189 (863)
                      .-+++.|.|.+|+|||+||.++....   ...-..++||+....
T Consensus        22 ~gs~ili~G~pGsGKT~l~~~fl~~~---~~~ge~~lyis~ee~   62 (249)
T PRK04328         22 ERNVVLLSGGPGTGKSIFSQQFLWNG---LQMGEPGVYVALEEH   62 (249)
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHHH---HhcCCcEEEEEeeCC
Confidence            46799999999999999999987664   122356788887664

>COG1066 Sms Predicted ATP-dependent serine protease [Posttranslational modification, protein turnover, chaperones]

Probab=95.60  E-value=0.081  Score=56.16  Aligned_cols=96  Identities=25%  Similarity=0.373  Sum_probs=60.4

Q ss_pred             HHHHHHHhcCC--CccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHHHHhCCCCccc--
Q 048126          135 FDKVWRCLGEE--QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGRRIGFLDESW--  210 (863)
Q Consensus       135 ~~~l~~~L~~~--~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~--  210 (863)
                      +.++-+.|..+  .-.+|.|-|-+|||||||.-+++.+..   ..- .++||+--+.  ..+ .+--++.++...+..  
T Consensus        79 ~~EldRVLGGG~V~Gs~iLIgGdPGIGKSTLLLQva~~lA---~~~-~vLYVsGEES--~~Q-iklRA~RL~~~~~~l~l  151 (456)
T COG1066          79 IEELDRVLGGGLVPGSVILIGGDPGIGKSTLLLQVAARLA---KRG-KVLYVSGEES--LQQ-IKLRADRLGLPTNNLYL  151 (456)
T ss_pred             hHHHHhhhcCCcccccEEEEccCCCCCHHHHHHHHHHHHH---hcC-cEEEEeCCcC--HHH-HHHHHHHhCCCccceEE
Confidence            45555556543  346899999999999999999999983   222 6888865443  222 233456676544321  


Q ss_pred             -cCCChhHHHHHHHHHhccCcEEEEEeccCC
Q 048126          211 -KNGSLEDKASDILRILSKKKFLLLLDDIWE  240 (863)
Q Consensus       211 -~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~  240 (863)
                       ...+.++....+.   +.++-++|+|-+..
T Consensus       152 ~aEt~~e~I~~~l~---~~~p~lvVIDSIQT  179 (456)
T COG1066         152 LAETNLEDIIAELE---QEKPDLVVIDSIQT  179 (456)
T ss_pred             ehhcCHHHHHHHHH---hcCCCEEEEeccce
Confidence             1223333333333   36888999999854

>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=95.58  E-value=0.01  Score=54.05  Aligned_cols=22  Identities=41%  Similarity=0.794  Sum_probs=20.3

Q ss_pred             EEEEcCCCCcHHHHHHHHHhhh
Q 048126          150 IGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       150 i~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      |+|.|+.|+||||+|+.+....
T Consensus         1 I~i~G~~GsGKtTia~~L~~~~   22 (129)
T PF13238_consen    1 IGISGIPGSGKTTIAKELAERL   22 (129)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHH
T ss_pred             CEEECCCCCCHHHHHHHHHHHH
Confidence            6899999999999999999884

...

>PRK14974 cell division protein FtsY; Provisional

Probab=95.56  E-value=0.1  Score=55.64  Aligned_cols=91  Identities=21%  Similarity=0.198  Sum_probs=50.4

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCcc--CHHHHHHHHHHHhCCCCcc-ccCCChhHHH-HH
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDL--QLEKIQEKIGRRIGFLDES-WKNGSLEDKA-SD  221 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~--~~~~~~~~i~~~l~~~~~~-~~~~~~~~~~-~~  221 (863)
                      +..+|.++|+.|+||||++..++....  ...+ .++.+.. +.+  .....++..+..++.+... ....+....+ ..
T Consensus       139 ~~~vi~~~G~~GvGKTTtiakLA~~l~--~~g~-~V~li~~-Dt~R~~a~eqL~~~a~~lgv~v~~~~~g~dp~~v~~~a  214 (336)
T PRK14974        139 KPVVIVFVGVNGTGKTTTIAKLAYYLK--KNGF-SVVIAAG-DTFRAGAIEQLEEHAERLGVKVIKHKYGADPAAVAYDA  214 (336)
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHHH--HcCC-eEEEecC-CcCcHHHHHHHHHHHHHcCCceecccCCCCHHHHHHHH
Confidence            467999999999999999999887762  2334 3334432 222  2334456667777654321 1112222222 22


Q ss_pred             HHHHhccCcEEEEEeccCC
Q 048126          222 ILRILSKKKFLLLLDDIWE  240 (863)
Q Consensus       222 l~~~l~~kr~LlVlDdv~~  240 (863)
                      +...-....=++++|-+..
T Consensus       215 i~~~~~~~~DvVLIDTaGr  233 (336)
T PRK14974        215 IEHAKARGIDVVLIDTAGR  233 (336)
T ss_pred             HHHHHhCCCCEEEEECCCc
Confidence            2222222223888898754

>TIGR00064 ftsY signal recognition particle-docking protein FtsY

Probab=95.56  E-value=0.067  Score=55.53  Aligned_cols=90  Identities=21%  Similarity=0.258  Sum_probs=50.4

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCH--HHHHHHHHHHhCCCCcc-ccCCChhH-HHHH
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQL--EKIQEKIGRRIGFLDES-WKNGSLED-KASD  221 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~--~~~~~~i~~~l~~~~~~-~~~~~~~~-~~~~  221 (863)
                      +.++|.++|++|+||||++..++....  +.. ..+++++... +..  .+-+...++..+...-. ....+... ....
T Consensus        71 ~~~vi~l~G~~G~GKTTt~akLA~~l~--~~g-~~V~li~~D~-~r~~a~~ql~~~~~~~~i~~~~~~~~~dp~~~~~~~  146 (272)
T TIGR00064        71 KPNVILFVGVNGVGKTTTIAKLANKLK--KQG-KSVLLAAGDT-FRAAAIEQLEEWAKRLGVDVIKQKEGADPAAVAFDA  146 (272)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHH--hcC-CEEEEEeCCC-CCHHHHHHHHHHHHhCCeEEEeCCCCCCHHHHHHHH
Confidence            467999999999999999999988772  222 3456665432 222  23344455555533210 01112222 2233


Q ss_pred             HHHHhccCcEEEEEeccC
Q 048126          222 ILRILSKKKFLLLLDDIW  239 (863)
Q Consensus       222 l~~~l~~kr~LlVlDdv~  239 (863)
                      +.....+..=++++|-.-
T Consensus       147 l~~~~~~~~D~ViIDT~G  164 (272)
T TIGR00064       147 IQKAKARNIDVVLIDTAG  164 (272)
T ss_pred             HHHHHHCCCCEEEEeCCC
Confidence            444333445578888764

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.

>PF00485 PRK: Phosphoribulokinase / Uridine kinase family; InterPro: IPR006083 Phosphoribulokinase (PRK) 2

Probab=95.56  E-value=0.066  Score=52.78  Aligned_cols=82  Identities=17%  Similarity=0.180  Sum_probs=44.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhhcCCCCCCC---EEEEEEeCCccCHHHHHHHHHHHh--CCCCccccCCChhHHHHHHH
Q 048126          149 IIGLYGMGGVGKTTLLTKINNKLLGAPNDFD---VVIWVVVSKDLQLEKIQEKIGRRI--GFLDESWKNGSLEDKASDIL  223 (863)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~---~~~wv~~s~~~~~~~~~~~i~~~l--~~~~~~~~~~~~~~~~~~l~  223 (863)
                      ||+|.|.+|+||||+|+.+.....  +....   ....+.............. -...  ..........+.+.+.+.+.
T Consensus         1 IIgI~G~sgSGKTTla~~L~~~L~--~~~~~~~~~~~~~~~d~~~~~~~~~~~-~~~~~~~~~~~~p~a~d~~~l~~~l~   77 (194)
T PF00485_consen    1 IIGIAGPSGSGKTTLAKRLAQILN--KRGIPAMEMDIILSLDDFYDDYHLRDR-KGRGENRYNFDHPDAFDFDLLKEDLK   77 (194)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHT--TCTTTCCCSEEEEEGGGGBHHHHHHHH-HHHCTTTSSTTSGGGBSHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHHHhC--ccCcCccceeEEEeecccccccchhhH-hhccccccCCCCccccCHHHHHHHHH
Confidence            799999999999999999999882  22333   2333333322222222221 1111  11111123445666777777


Q ss_pred             HHhccCcEEE
Q 048126          224 RILSKKKFLL  233 (863)
Q Consensus       224 ~~l~~kr~Ll  233 (863)
                      ...+++..-+
T Consensus        78 ~L~~g~~i~~   87 (194)
T PF00485_consen   78 ALKNGGSIEI   87 (194)
T ss_dssp             HHHTTSCEEE
T ss_pred             HHhCCCcccc
Confidence            7666666444

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 ....

>TIGR03881 KaiC_arch_4 KaiC domain protein, PAE1156 family

Probab=95.53  E-value=0.098  Score=53.17  Aligned_cols=53  Identities=28%  Similarity=0.345  Sum_probs=35.8

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHHHHhC
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGRRIG  204 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~  204 (863)
                      .-.++.|.|.+|+||||+|.+++....   ..-..++|++....  ...+.+. +++++
T Consensus        19 ~G~~~~i~G~~G~GKT~l~~~~~~~~~---~~g~~~~~is~e~~--~~~i~~~-~~~~g   71 (229)
T TIGR03881        19 RGFFVAVTGEPGTGKTIFCLHFAYKGL---RDGDPVIYVTTEES--RESIIRQ-AAQFG   71 (229)
T ss_pred             CCeEEEEECCCCCChHHHHHHHHHHHH---hcCCeEEEEEccCC--HHHHHHH-HHHhC
Confidence            457999999999999999999876541   12346788876443  3444333 44444

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.

>KOG0652 consensus 26S proteasome regulatory complex, ATPase RPT5 [Posttranslational modification, protein turnover, chaperones]

Probab=95.53  E-value=0.23  Score=49.04  Aligned_cols=53  Identities=23%  Similarity=0.336  Sum_probs=40.6

Q ss_pred             ccccCCCCC---ccchhHHHHHHHHHhcC-------------CCccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          119 AVDQRPCEP---TVGLESMFDKVWRCLGE-------------EQVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       119 ~~~~~~~~~---~vGr~~~~~~l~~~L~~-------------~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      .++++|++.   +=|.+..++++++.+.-             ..++-+..+|++|.|||-+|++.+..-
T Consensus       161 evDekPtE~YsDiGGldkQIqELvEAiVLpmth~ekF~~lgi~pPKGvLmYGPPGTGKTlmARAcAaqT  229 (424)
T KOG0652|consen  161 EVDEKPTEQYSDIGGLDKQIQELVEAIVLPMTHKEKFENLGIRPPKGVLMYGPPGTGKTLMARACAAQT  229 (424)
T ss_pred             eeccCCcccccccccHHHHHHHHHHHhccccccHHHHHhcCCCCCCceEeeCCCCCcHHHHHHHHHHhc
Confidence            455666543   45889999999998731             135678899999999999999998765

>PRK13531 regulatory ATPase RavA; Provisional

Probab=95.50  E-value=0.043  Score=60.52  Aligned_cols=44  Identities=9%  Similarity=0.042  Sum_probs=37.8

Q ss_pred             CCccchhHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          126 EPTVGLESMFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ..++||++.++.+...+..+  .-|.|.|++|+|||++|+.+....
T Consensus        20 ~~i~gre~vI~lll~aalag--~hVLL~GpPGTGKT~LAraLa~~~   63 (498)
T PRK13531         20 KGLYERSHAIRLCLLAALSG--ESVFLLGPPGIAKSLIARRLKFAF   63 (498)
T ss_pred             hhccCcHHHHHHHHHHHccC--CCEEEECCCChhHHHHHHHHHHHh
Confidence            35899999999999888654  356799999999999999999876

>PF00560 LRR_1: Leucine Rich Repeat; InterPro: IPR001611 Leucine-rich repeats (LRR) consist of 2-45 motifs of 20-30 amino acids in length that generally folds into an arc or horseshoe shape []

Probab=95.49  E-value=0.0056  Score=36.08  Aligned_cols=21  Identities=43%  Similarity=0.713  Sum_probs=11.5

Q ss_pred             CCCeEEccCCCccccchhhhc
Q 048126          565 SLEHLDLSGTAITHLPIELQK  585 (863)
Q Consensus       565 ~L~~L~L~~~~l~~lp~~~~~  585 (863)
                      +|++|++++|.++.+|.++++
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            355566666655555555443

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 ....

>cd03247 ABCC_cytochrome_bd The CYD subfamily implicated in cytochrome bd biogenesis

Probab=95.49  E-value=0.056  Score=52.48  Aligned_cols=127  Identities=20%  Similarity=0.200  Sum_probs=63.3

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHHHHhCCCCcc------------ccCC
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGRRIGFLDES------------WKNG  213 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~------------~~~~  213 (863)
                      .-.+++|+|..|.|||||++.++.-. ..   ....+++.-.   ++......+...++...+.            ...-
T Consensus        27 ~Ge~~~i~G~nGsGKStLl~~l~G~~-~~---~~G~i~~~g~---~~~~~~~~~~~~i~~~~q~~~~~~~tv~~~i~~~L   99 (178)
T cd03247          27 QGEKIALLGRSGSGKSTLLQLLTGDL-KP---QQGEITLDGV---PVSDLEKALSSLISVLNQRPYLFDTTLRNNLGRRF   99 (178)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhccC-CC---CCCEEEECCE---EHHHHHHHHHhhEEEEccCCeeecccHHHhhcccC
Confidence            34689999999999999999998775 21   1223333211   1111111111111111100            0011


Q ss_pred             C-hhHHHHHHHHHhccCcEEEEEeccCCcccc---ccccCCCCCCCCCcEEEEecCchhhhhcccccceEee
Q 048126          214 S-LEDKASDILRILSKKKFLLLLDDIWERVDL---TKVGVPFPDPENKSKIVFTTRFLEICGAMKAHEFLKV  281 (863)
Q Consensus       214 ~-~~~~~~~l~~~l~~kr~LlVlDdv~~~~~~---~~~~~~l~~~~~gs~IivTtR~~~v~~~~~~~~~~~l  281 (863)
                      + -+...-.+...+-.++=++++|+....-|.   ..+...+.....+..||++|.+......  .++.+.+
T Consensus       100 S~G~~qrv~laral~~~p~~lllDEP~~~LD~~~~~~l~~~l~~~~~~~tii~~sh~~~~~~~--~d~~~~l  169 (178)
T cd03247         100 SGGERQRLALARILLQDAPIVLLDEPTVGLDPITERQLLSLIFEVLKDKTLIWITHHLTGIEH--MDKILFL  169 (178)
T ss_pred             CHHHHHHHHHHHHHhcCCCEEEEECCcccCCHHHHHHHHHHHHHHcCCCEEEEEecCHHHHHh--CCEEEEE
Confidence            1 122223345566677889999998654321   1111111111135668888888766542  3445444

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.

>PLN03186 DNA repair protein RAD51 homolog; Provisional

Probab=95.47  E-value=0.11  Score=55.70  Aligned_cols=59  Identities=19%  Similarity=0.291  Sum_probs=43.3

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhhcCCC----CCCCEEEEEEeCCccCHHHHHHHHHHHhCCC
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAP----NDFDVVIWVVVSKDLQLEKIQEKIGRRIGFL  206 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~----~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~  206 (863)
                      .-.++-|+|.+|+|||+++..++-.. ...    ..-..++||+....+..+++. ++++.++..
T Consensus       122 ~g~i~~i~G~~g~GKT~l~~~l~~~~-~~~~~~gg~~g~vlyIdtE~~f~~eRl~-qia~~~~~~  184 (342)
T PLN03186        122 TGSITEIYGEFRTGKTQLCHTLCVTC-QLPLDQGGGEGKAMYIDTEGTFRPQRLI-QIAERFGLN  184 (342)
T ss_pred             CceEEEEECCCCCCccHHHHHHHHHh-hcchhhCCCCceEEEEECCCCccHHHHH-HHHHHcCCC
Confidence            45788899999999999999887543 111    112378999999988887764 566776654

>PLN03187 meiotic recombination protein DMC1 homolog; Provisional

Probab=95.46  E-value=0.12  Score=55.34  Aligned_cols=60  Identities=18%  Similarity=0.165  Sum_probs=43.5

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhhcC---CCCCCCEEEEEEeCCccCHHHHHHHHHHHhCCC
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKLLG---APNDFDVVIWVVVSKDLQLEKIQEKIGRRIGFL  206 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~---~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~  206 (863)
                      .-+++-|+|.+|+|||+|+.+++-....   ....-..++||+....|+.+++.+ ++++++..
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            4578889999999999999998644311   011124789999999888888754 56667654

>PRK12723 flagellar biosynthesis regulator FlhF; Provisional

Probab=95.46  E-value=0.11  Score=56.45  Aligned_cols=91  Identities=22%  Similarity=0.214  Sum_probs=54.4

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhhcCCC-CCCCEEEEEEeCCc-cCHHHHHHHHHHHhCCCCccccCCChhHHHHHHH
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAP-NDFDVVIWVVVSKD-LQLEKIQEKIGRRIGFLDESWKNGSLEDKASDIL  223 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~-~~F~~~~wv~~s~~-~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~  223 (863)
                      ..++|.++|+.|+||||.+..++....... .+-..+..|++... ......++..++.++.+..  ......++...+.
T Consensus       173 ~~~vi~lvGptGvGKTTT~aKLA~~~~~~~~~~g~~V~lit~Dt~R~aa~eQL~~~a~~lgvpv~--~~~~~~~l~~~L~  250 (388)
T PRK12723        173 KKRVFILVGPTGVGKTTTIAKLAAIYGINSDDKSLNIKIITIDNYRIGAKKQIQTYGDIMGIPVK--AIESFKDLKEEIT  250 (388)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHhhhccCCCeEEEEeccCccHHHHHHHHHHhhcCCcceE--eeCcHHHHHHHHH
Confidence            357999999999999999999988762111 12234555655432 1233346666776766432  2233344444444


Q ss_pred             HHhccCcEEEEEeccCC
Q 048126          224 RILSKKKFLLLLDDIWE  240 (863)
Q Consensus       224 ~~l~~kr~LlVlDdv~~  240 (863)
                      +.  .+.-++++|.+..
T Consensus       251 ~~--~~~DlVLIDTaGr  265 (388)
T PRK12723        251 QS--KDFDLVLVDTIGK  265 (388)
T ss_pred             Hh--CCCCEEEEcCCCC
Confidence            33  3456888898743

>PRK07667 uridine kinase; Provisional

Probab=95.45  E-value=0.019  Score=56.54  Aligned_cols=37  Identities=22%  Similarity=0.449  Sum_probs=29.7

Q ss_pred             HHHHHHHhcC--CCccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          135 FDKVWRCLGE--EQVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       135 ~~~l~~~L~~--~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      .+.|.+.+..  +...+|+|.|.+|+||||+|+.+....
T Consensus         3 ~~~~~~~~~~~~~~~~iIgI~G~~gsGKStla~~L~~~l   41 (193)
T PRK07667          3 TNELINIMKKHKENRFILGIDGLSRSGKTTFVANLKENM   41 (193)
T ss_pred             HHHHHHHHHhcCCCCEEEEEECCCCCCHHHHHHHHHHHH
Confidence            4556666643  355799999999999999999999887

>PF13306 LRR_5: Leucine rich repeats (6 copies); PDB: 3ZYJ_A 3V47_B 3V44_A 3ZYN_A 3ZYO_A 3SB4_A

Probab=95.45  E-value=0.053  Score=49.28  Aligned_cols=115  Identities=23%  Similarity=0.349  Sum_probs=44.8

Q ss_pred             ccceEEEEeccccccccc--cCCCCCccceEEccCCccccccchhhhcCCCccEEEccCCCccccCCccccccCCCCeEE
Q 048126          493 WRNVRRMSLMKNKIENLS--ETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLD  570 (863)
Q Consensus       493 ~~~lr~L~l~~~~~~~l~--~~~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~  570 (863)
                      +++++.+.+.. .+..+.  .+..+++|+.+.+..+ +..++...|.+++.|+.+.+.++ ....-...+..+.+|+.++
T Consensus        11 ~~~l~~i~~~~-~~~~I~~~~F~~~~~l~~i~~~~~-~~~i~~~~F~~~~~l~~i~~~~~-~~~i~~~~F~~~~~l~~i~   87 (129)
T PF13306_consen   11 CSNLESITFPN-TIKKIGENAFSNCTSLKSINFPNN-LTSIGDNAFSNCKSLESITFPNN-LKSIGDNAFSNCTNLKNID   87 (129)
T ss_dssp             -TT--EEEETS-T--EE-TTTTTT-TT-SEEEESST-TSCE-TTTTTT-TT-EEEEETST-T-EE-TTTTTT-TTECEEE
T ss_pred             CCCCCEEEECC-CeeEeChhhccccccccccccccc-ccccceeeeeccccccccccccc-ccccccccccccccccccc
Confidence            34555555552 333332  2355666666666553 55666666666666666666543 2211222344566666666


Q ss_pred             ccCCCccccchh-hhcCCCCCEEecCCccccCCCcHHHhhcCCCC
Q 048126          571 LSGTAITHLPIE-LQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKL  614 (863)
Q Consensus       571 L~~~~l~~lp~~-~~~l~~L~~L~l~~~~~l~~lp~~~~~~L~~L  614 (863)
                      +..+ +..++.. +.+. +|+.+.+..  .+..++...+.++++|
T Consensus        88 ~~~~-~~~i~~~~f~~~-~l~~i~~~~--~~~~i~~~~F~~~~~l  128 (129)
T PF13306_consen   88 IPSN-ITEIGSSSFSNC-NLKEINIPS--NITKIEENAFKNCTKL  128 (129)
T ss_dssp             ETTT--BEEHTTTTTT--T--EEE-TT--B-SS----GGG-----
T ss_pred             cCcc-ccEEchhhhcCC-CceEEEECC--CccEECCccccccccC
Confidence            6543 4444332 4444 666666554  3345555445555444

>PF00006 ATP-synt_ab: ATP synthase alpha/beta family, nucleotide-binding domain This Pfam entry corresponds to chains a,b,c,d,e and f; InterPro: IPR000194 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane

Probab=95.43  E-value=0.077  Score=52.70  Aligned_cols=96  Identities=25%  Similarity=0.361  Sum_probs=57.2

Q ss_pred             HHHhcC-CCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCcc-CHHHHHHHHHHHhCCCC-----cccc
Q 048126          139 WRCLGE-EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDL-QLEKIQEKIGRRIGFLD-----ESWK  211 (863)
Q Consensus       139 ~~~L~~-~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~-~~~~~~~~i~~~l~~~~-----~~~~  211 (863)
                      ++.+.. .+-..++|.|..|+|||+|+..+.+..     .-+.++++.+++.. .+.++.+.+...-....     .. .
T Consensus         6 ID~l~Pig~Gqr~~I~g~~g~GKt~Ll~~i~~~~-----~~d~~V~~~iGer~~Ev~~~~~~~~~~~~~~~t~vv~~t-~   79 (215)
T PF00006_consen    6 IDLLFPIGRGQRIGIFGGAGVGKTVLLQEIANNQ-----DADVVVYALIGERGREVTEFIEELKGEGALERTVVVAAT-S   79 (215)
T ss_dssp             HHHHSCEETTSEEEEEESTTSSHHHHHHHHHHHC-----TTTEEEEEEESECHHHHHHHHHHHHHTTGGGGEEEEEEE-T
T ss_pred             eccccccccCCEEEEEcCcccccchhhHHHHhcc-----cccceeeeeccccchhHHHHHHHHhhccccccccccccc-c
Confidence            444433 233578999999999999999999986     23455888888664 45666666643311110     00 1


Q ss_pred             CCChhH------HHHHHHHHh--ccCcEEEEEeccCC
Q 048126          212 NGSLED------KASDILRIL--SKKKFLLLLDDIWE  240 (863)
Q Consensus       212 ~~~~~~------~~~~l~~~l--~~kr~LlVlDdv~~  240 (863)
                      ..+...      ..-.+.+++  +++.+|+++||+..
T Consensus        80 ~~~~~~r~~~~~~a~t~AEyfrd~G~dVlli~Dsltr  116 (215)
T PF00006_consen   80 DEPPAARYRAPYTALTIAEYFRDQGKDVLLIIDSLTR  116 (215)
T ss_dssp             TS-HHHHHHHHHHHHHHHHHHHHTTSEEEEEEETHHH
T ss_pred             hhhHHHHhhhhccchhhhHHHhhcCCceeehhhhhHH
Confidence            111111      111222333  58999999999844

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 ....

>PRK08972 fliI flagellum-specific ATP synthase; Validated

Probab=95.43  E-value=0.041  Score=60.06  Aligned_cols=91  Identities=23%  Similarity=0.278  Sum_probs=54.7

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccC-HHHHHHHHHHHhCCCCccc----cCCChh----
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQ-LEKIQEKIGRRIGFLDESW----KNGSLE----  216 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~-~~~~~~~i~~~l~~~~~~~----~~~~~~----  216 (863)
                      .-..++|+|..|+|||||++.++...     ..+.++++-+++... +.++.+.++..-+....-.    .+.+..    
T Consensus       161 ~GqrigI~G~sG~GKSTLL~~I~~~~-----~~dv~Vi~lIGER~rEv~efi~~~l~~~~l~rtvvv~atsd~p~~~R~~  235 (444)
T PRK08972        161 KGQRMGLFAGSGVGKSVLLGMMTRGT-----TADVIVVGLVGERGREVKEFIEEILGEEGRARSVVVAAPADTSPLMRLK  235 (444)
T ss_pred             CCCEEEEECCCCCChhHHHHHhccCC-----CCCEEEEEEEcCChHHHHHHHHHhhccCCcccEEEEEECCCCCHHHHHH
Confidence            44689999999999999999998654     225666677776543 4455555544322111000    111111    


Q ss_pred             --HHHHHHHHHh--ccCcEEEEEeccCCc
Q 048126          217 --DKASDILRIL--SKKKFLLLLDDIWER  241 (863)
Q Consensus       217 --~~~~~l~~~l--~~kr~LlVlDdv~~~  241 (863)
                        ..+-.+.+++  +++.+|+++||+...
T Consensus       236 a~~~A~tiAEyfrd~G~~VLl~~DslTR~  264 (444)
T PRK08972        236 GCETATTIAEYFRDQGLNVLLLMDSLTRY  264 (444)
T ss_pred             HHHHHHHHHHHHHHcCCCEEEEEcChHHH
Confidence              1122234444  579999999998653

>PF10236 DAP3: Mitochondrial ribosomal death-associated protein 3; InterPro: IPR019368 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=95.40  E-value=0.49  Score=50.22  Aligned_cols=49  Identities=20%  Similarity=0.147  Sum_probs=35.0

Q ss_pred             eEeecCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCCchhHH
Q 048126          278 FLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGLPLAL  326 (863)
Q Consensus       278 ~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPlai  326 (863)
                      ++++++++.+|+..++.-............-+...+++.-..+|+|.-+
T Consensus       258 ~i~v~~~s~~E~~~ll~yy~~~~~l~~~~~~~~~~e~~~~~s~GNp~el  306 (309)
T PF10236_consen  258 PIEVPRLSKEEARSLLEYYADSGWLRSRVDEELVLEKLFLSSNGNPREL  306 (309)
T ss_pred             eEEeCCCCHHHHHHHHHHHHHCCccccCCCCHHHHHHHHHhcCCCHHHh
Confidence            7899999999999999987765442222344456666666679998643

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).

>TIGR02236 recomb_radA DNA repair and recombination protein RadA

Probab=95.37  E-value=0.11  Score=55.63  Aligned_cols=58  Identities=17%  Similarity=0.324  Sum_probs=42.1

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhhcCCCC----CCCEEEEEEeCCccCHHHHHHHHHHHhCC
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPN----DFDVVIWVVVSKDLQLEKIQEKIGRRIGF  205 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~----~F~~~~wv~~s~~~~~~~~~~~i~~~l~~  205 (863)
                      .-.++-|+|.+|+|||+++.+++... ....    .=..++||+....++...+. ++++.++.
T Consensus        94 ~g~i~ei~G~~g~GKT~l~~~~~~~~-~~~~~~g~~~~~~~yi~te~~f~~~rl~-~~~~~~gl  155 (310)
T TIGR02236        94 TQAITEVFGEFGSGKTQICHQLAVNV-QLPEEKGGLGGKAVYIDTENTFRPERIM-QMAEARGL  155 (310)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHh-cCCcccCCCcceEEEEECCCCCCHHHHH-HHHHHcCC
Confidence            45788999999999999999998775 2110    11378999998888877654 44555544

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.

>PRK12726 flagellar biosynthesis regulator FlhF; Provisional

Probab=95.33  E-value=0.092  Score=56.07  Aligned_cols=90  Identities=20%  Similarity=0.166  Sum_probs=55.4

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCc-cCHHHHHHHHHHHhCCCCccccCCChhHHHHHHHH
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKD-LQLEKIQEKIGRRIGFLDESWKNGSLEDKASDILR  224 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~-~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~  224 (863)
                      +.++++++|+.|+||||++..++.... . .. ..+.+|+.... ......++..++.++.+..  ...+..++...+..
T Consensus       205 ~~~ii~lvGptGvGKTTt~akLA~~l~-~-~g-~~V~lItaDtyR~gAveQLk~yae~lgvpv~--~~~dp~dL~~al~~  279 (407)
T PRK12726        205 NHRIISLIGQTGVGKTTTLVKLGWQLL-K-QN-RTVGFITTDTFRSGAVEQFQGYADKLDVELI--VATSPAELEEAVQY  279 (407)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHH-H-cC-CeEEEEeCCccCccHHHHHHHHhhcCCCCEE--ecCCHHHHHHHHHH
Confidence            467999999999999999999987762 1 22 34666765432 2234556666666665432  23345555554443


Q ss_pred             Hhc-cCcEEEEEeccCC
Q 048126          225 ILS-KKKFLLLLDDIWE  240 (863)
Q Consensus       225 ~l~-~kr~LlVlDdv~~  240 (863)
                      .-. +..=+|++|-.-.
T Consensus       280 l~~~~~~D~VLIDTAGr  296 (407)
T PRK12726        280 MTYVNCVDHILIDTVGR  296 (407)
T ss_pred             HHhcCCCCEEEEECCCC
Confidence            321 3445777887743

>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=95.32  E-value=0.014  Score=46.29  Aligned_cols=23  Identities=39%  Similarity=0.654  Sum_probs=21.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 048126          149 IIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      +|+|.|..|+||||+|+.+.+..
T Consensus         1 ~i~i~G~~gsGKst~~~~l~~~l   23 (69)
T cd02019           1 IIAITGGSGSGKSTVAKKLAEQL   23 (69)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHh
Confidence            47899999999999999999884

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.

>PTZ00301 uridine kinase; Provisional

Probab=95.32  E-value=0.02  Score=56.84  Aligned_cols=25  Identities=40%  Similarity=0.684  Sum_probs=22.8

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          147 VGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ..+|+|.|.+|+||||||+.+.+..
T Consensus         3 ~~iIgIaG~SgSGKTTla~~l~~~l   27 (210)
T PTZ00301          3 CTVIGISGASGSGKSSLSTNIVSEL   27 (210)
T ss_pred             CEEEEEECCCcCCHHHHHHHHHHHH
Confidence            4689999999999999999998776

>PRK12724 flagellar biosynthesis regulator FlhF; Provisional

Probab=95.32  E-value=0.055  Score=58.74  Aligned_cols=58  Identities=17%  Similarity=0.158  Sum_probs=34.5

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCC-ccCHHHHHHHHHHHhCCC
Q 048126          147 VGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSK-DLQLEKIQEKIGRRIGFL  206 (863)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~-~~~~~~~~~~i~~~l~~~  206 (863)
                      ..++.++|++|+||||++.+++... .....+ .+..++... .......++..++.++.+
T Consensus       223 ~~vi~lvGptGvGKTTtaaKLA~~~-~~~~G~-~V~Lit~Dt~R~aA~eQLk~yAe~lgvp  281 (432)
T PRK12724        223 RKVVFFVGPTGSGKTTSIAKLAAKY-FLHMGK-SVSLYTTDNYRIAAIEQLKRYADTMGMP  281 (432)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHH-HHhcCC-eEEEecccchhhhHHHHHHHHHHhcCCC
Confidence            4689999999999999999998754 112222 233333221 112234445555555553

>cd03238 ABC_UvrA The excision repair protein UvrA; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion

Probab=95.24  E-value=0.07  Score=51.35  Aligned_cols=124  Identities=14%  Similarity=0.109  Sum_probs=64.7

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhhcCC--C---CCCC--EEEEEEeCCccCHHHHHHHHHHHhCCCCc---c-ccCCC
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGA--P---NDFD--VVIWVVVSKDLQLEKIQEKIGRRIGFLDE---S-WKNGS  214 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~--~---~~F~--~~~wv~~s~~~~~~~~~~~i~~~l~~~~~---~-~~~~~  214 (863)
                      .-.+++|+|+.|+|||||.+.+..+.-++  .   ..|.  .+.|+  .+        .+.++.++....   . ...-+
T Consensus        20 ~G~~~~l~G~nG~GKSTLl~~il~~~G~v~~~~~~~~~~~~~~~~~--~q--------~~~l~~~~L~~~~~~~~~~~LS   89 (176)
T cd03238          20 LNVLVVVTGVSGSGKSTLVNEGLYASGKARLISFLPKFSRNKLIFI--DQ--------LQFLIDVGLGYLTLGQKLSTLS   89 (176)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhhcCCcEEECCcccccccccEEEE--hH--------HHHHHHcCCCccccCCCcCcCC
Confidence            44689999999999999999986431010  0   0111  12332  22        455666665321   0 01112


Q ss_pred             hh-HHHHHHHHHhccC--cEEEEEeccCCcccc---ccccCCCCC-CCCCcEEEEecCchhhhhcccccceEee
Q 048126          215 LE-DKASDILRILSKK--KFLLLLDDIWERVDL---TKVGVPFPD-PENKSKIVFTTRFLEICGAMKAHEFLKV  281 (863)
Q Consensus       215 ~~-~~~~~l~~~l~~k--r~LlVlDdv~~~~~~---~~~~~~l~~-~~~gs~IivTtR~~~v~~~~~~~~~~~l  281 (863)
                      .. ...-.+...+-.+  +-++++|+.-..-+.   ..+...+.. ...|..||++|.+......  .+.++.+
T Consensus        90 gGq~qrl~laral~~~~~p~llLlDEPt~~LD~~~~~~l~~~l~~~~~~g~tvIivSH~~~~~~~--~d~i~~l  161 (176)
T cd03238          90 GGELQRVKLASELFSEPPGTLFILDEPSTGLHQQDINQLLEVIKGLIDLGNTVILIEHNLDVLSS--ADWIIDF  161 (176)
T ss_pred             HHHHHHHHHHHHHhhCCCCCEEEEeCCcccCCHHHHHHHHHHHHHHHhCCCEEEEEeCCHHHHHh--CCEEEEE
Confidence            12 2223344555566  778889987553221   222111111 1246668888888766532  4455554

Recognition and cleavage of the damaged DNA is a multistep ATP-dependent reaction that requires the UvrA, UvrB, and UvrC proteins. Both UvrA and UvrB are ATPases, with UvrA having two ATP binding sites, which have the characteristic signature of the family of ABC proteins, and UvrB having one ATP binding site that is structurally related to that of helicases.

>cd03223 ABCD_peroxisomal_ALDP Peroxisomal ATP-binding cassette transporter (Pat) is involved in the import of very long-chain fatty acids (VLCFA) into the peroxisome

Probab=95.24  E-value=0.1  Score=49.86  Aligned_cols=125  Identities=13%  Similarity=0.159  Sum_probs=63.7

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhhcCCCCC--C---CEEEEEEeCCccCH--HHHHHHHHHHhCCCCccccCCChhHH
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPND--F---DVVIWVVVSKDLQL--EKIQEKIGRRIGFLDESWKNGSLEDK  218 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~--F---~~~~wv~~s~~~~~--~~~~~~i~~~l~~~~~~~~~~~~~~~  218 (863)
                      .-.+++|+|..|.|||||++.+..........  +   ..+.++  .+....  ..+.+.+.-.   ...  .-..-+..
T Consensus        26 ~Ge~~~i~G~nGsGKSTLl~~l~G~~~~~~G~i~~~~~~~i~~~--~q~~~~~~~tv~~nl~~~---~~~--~LS~G~~~   98 (166)
T cd03223          26 PGDRLLITGPSGTGKSSLFRALAGLWPWGSGRIGMPEGEDLLFL--PQRPYLPLGTLREQLIYP---WDD--VLSGGEQQ   98 (166)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCCCCCCceEEECCCceEEEE--CCCCccccccHHHHhhcc---CCC--CCCHHHHH
Confidence            44689999999999999999998875211111  1   112232  333211  1233332210   110  12222333


Q ss_pred             HHHHHHHhccCcEEEEEeccCCcccc---ccccCCCCCCCCCcEEEEecCchhhhhcccccceEee
Q 048126          219 ASDILRILSKKKFLLLLDDIWERVDL---TKVGVPFPDPENKSKIVFTTRFLEICGAMKAHEFLKV  281 (863)
Q Consensus       219 ~~~l~~~l~~kr~LlVlDdv~~~~~~---~~~~~~l~~~~~gs~IivTtR~~~v~~~~~~~~~~~l  281 (863)
                      .-.+.+.+-.++=++++|+--..-|.   ..+...+...  +..||++|.+.....  ..++++.+
T Consensus        99 rv~laral~~~p~~lllDEPt~~LD~~~~~~l~~~l~~~--~~tiiivsh~~~~~~--~~d~i~~l  160 (166)
T cd03223          99 RLAFARLLLHKPKFVFLDEATSALDEESEDRLYQLLKEL--GITVISVGHRPSLWK--FHDRVLDL  160 (166)
T ss_pred             HHHHHHHHHcCCCEEEEECCccccCHHHHHHHHHHHHHh--CCEEEEEeCChhHHh--hCCEEEEE
Confidence            34455666677788899987543221   1221112111  355778887766543  24445544

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

>KOG3864 consensus Uncharacterized conserved protein [Function unknown]

Probab=95.22  E-value=0.0031  Score=59.80  Aligned_cols=66  Identities=20%  Similarity=0.246  Sum_probs=31.0

Q ss_pred             hhhcCCCceEEEcCCcccccceeccccccccccccccCcccEEEEeccCCCCC--CchhhccCCCcEEEEecccc
Q 048126          687 LACLHNLNKLYVAGRKHLEDFQMTVQRSSVNQLARGFHSLHTVKVGFCFKLKD--LTWLVFAPSLKSIVVLSCCN  759 (863)
Q Consensus       687 l~~~~~L~~L~l~~~~~~~~l~~~~~~~~~~~~~~~l~~L~~L~L~~c~~l~~--l~~l~~l~~L~~L~l~~~~~  759 (863)
                      +..++.|+.|.+.+|..+.+...+.++       ...++|+.|+|++|+++++  +.++..+++|+.|.|.+.+.
T Consensus       121 L~~l~~i~~l~l~~ck~~dD~~L~~l~-------~~~~~L~~L~lsgC~rIT~~GL~~L~~lknLr~L~l~~l~~  188 (221)
T KOG3864|consen  121 LRDLRSIKSLSLANCKYFDDWCLERLG-------GLAPSLQDLDLSGCPRITDGGLACLLKLKNLRRLHLYDLPY  188 (221)
T ss_pred             HhccchhhhheeccccchhhHHHHHhc-------ccccchheeeccCCCeechhHHHHHHHhhhhHHHHhcCchh
Confidence            333445555555555544433333322       1345555555555555544  23444555555555555443

>KOG0728 consensus 26S proteasome regulatory complex, ATPase RPT6 [Posttranslational modification, protein turnover, chaperones]

Probab=95.21  E-value=0.4  Score=47.07  Aligned_cols=146  Identities=16%  Similarity=0.253  Sum_probs=80.4

Q ss_pred             cc-chhHHHHHHHHHhc-------------CCCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHH
Q 048126          128 TV-GLESMFDKVWRCLG-------------EEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLE  193 (863)
Q Consensus       128 ~v-Gr~~~~~~l~~~L~-------------~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~  193 (863)
                      +| |.+..+.+|.+.+.             -.+++-+.++|++|.|||-||++||+.-        .+-|+-||..   +
T Consensus       148 MiGgLd~QIkeIkEVIeLPvKHPELF~aLGIaQPKGvlLygppgtGktLlaraVahht--------~c~firvsgs---e  216 (404)
T KOG0728|consen  148 MIGGLDKQIKEIKEVIELPVKHPELFEALGIAQPKGVLLYGPPGTGKTLLARAVAHHT--------DCTFIRVSGS---E  216 (404)
T ss_pred             HhccHHHHHHHHHHHHhccccCHHHHHhcCCCCCcceEEecCCCCchhHHHHHHHhhc--------ceEEEEechH---H
Confidence            45 45666776666553             1356778899999999999999999765        3456666653   1


Q ss_pred             HHHHHHHHHhCCCCccccCCChhHHHHHHHHHh-ccCcEEEEEeccCCcc----------c------cccccCCCC--CC
Q 048126          194 KIQEKIGRRIGFLDESWKNGSLEDKASDILRIL-SKKKFLLLLDDIWERV----------D------LTKVGVPFP--DP  254 (863)
Q Consensus       194 ~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l-~~kr~LlVlDdv~~~~----------~------~~~~~~~l~--~~  254 (863)
                      -+++-|.+     .        ......+.-.- ..-+.+|..|.++...          +      -.++...+.  ..
T Consensus       217 lvqk~ige-----g--------srmvrelfvmarehapsiifmdeidsigs~r~e~~~ggdsevqrtmlellnqldgfea  283 (404)
T KOG0728|consen  217 LVQKYIGE-----G--------SRMVRELFVMAREHAPSIIFMDEIDSIGSSRVESGSGGDSEVQRTMLELLNQLDGFEA  283 (404)
T ss_pred             HHHHHhhh-----h--------HHHHHHHHHHHHhcCCceEeeecccccccccccCCCCccHHHHHHHHHHHHhcccccc
Confidence            12221110     0        01111111111 2356788888876421          0      001111222  12


Q ss_pred             CCCcEEEEecCchhhh-----hcccccceEeecCCChHHHHHHHHHHh
Q 048126          255 ENKSKIVFTTRFLEIC-----GAMKAHEFLKVECLGPEDAWRLFRENL  297 (863)
Q Consensus       255 ~~gs~IivTtR~~~v~-----~~~~~~~~~~l~~L~~~e~~~lf~~~~  297 (863)
                      .+.-+||++|..-++.     +--..+..++.++-+++.-.++++-+.
T Consensus       284 tknikvimatnridild~allrpgridrkiefp~p~e~ar~~ilkihs  331 (404)
T KOG0728|consen  284 TKNIKVIMATNRIDILDPALLRPGRIDRKIEFPPPNEEARLDILKIHS  331 (404)
T ss_pred             ccceEEEEeccccccccHhhcCCCcccccccCCCCCHHHHHHHHHHhh
Confidence            3567888877655542     212234567777777776667776544

>COG4608 AppF ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]

Probab=95.18  E-value=0.092  Score=52.99  Aligned_cols=125  Identities=18%  Similarity=0.140  Sum_probs=71.7

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCC-----ccCHHHHHHHHHHHhCCCCcccc----CCChh
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSK-----DLQLEKIQEKIGRRIGFLDESWK----NGSLE  216 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~-----~~~~~~~~~~i~~~l~~~~~~~~----~~~~~  216 (863)
                      +-.++++||-.|.||||+++.+..=.    ..-...+++.-.+     .....+...++++.++...+...    .-+-.
T Consensus        38 ~ge~~glVGESG~GKSTlgr~i~~L~----~pt~G~i~f~g~~i~~~~~~~~~~~v~elL~~Vgl~~~~~~ryPhelSGG  113 (268)
T COG4608          38 EGETLGLVGESGCGKSTLGRLILGLE----EPTSGEILFEGKDITKLSKEERRERVLELLEKVGLPEEFLYRYPHELSGG  113 (268)
T ss_pred             CCCEEEEEecCCCCHHHHHHHHHcCc----CCCCceEEEcCcchhhcchhHHHHHHHHHHHHhCCCHHHhhcCCcccCch
Confidence            45799999999999999999998765    2223334433211     12233456666777765432110    11222


Q ss_pred             HH-HHHHHHHhccCcEEEEEeccCCcccc---ccccCCCC--CCCCCcEEEEecCchhhhhccc
Q 048126          217 DK-ASDILRILSKKKFLLLLDDIWERVDL---TKVGVPFP--DPENKSKIVFTTRFLEICGAMK  274 (863)
Q Consensus       217 ~~-~~~l~~~l~~kr~LlVlDdv~~~~~~---~~~~~~l~--~~~~gs~IivTtR~~~v~~~~~  274 (863)
                      ++ .-.+.+.+.-++-++|.|..-...+.   .++...+.  ....|-..+..|-+-.++..+.
T Consensus       114 QrQRi~IARALal~P~liV~DEpvSaLDvSiqaqIlnLL~dlq~~~~lt~lFIsHDL~vv~~is  177 (268)
T COG4608         114 QRQRIGIARALALNPKLIVADEPVSALDVSVQAQILNLLKDLQEELGLTYLFISHDLSVVRYIS  177 (268)
T ss_pred             hhhhHHHHHHHhhCCcEEEecCchhhcchhHHHHHHHHHHHHHHHhCCeEEEEEEEHHhhhhhc
Confidence            22 23466788889999999986443221   11111111  1223556788888877766554

>TIGR00554 panK_bact pantothenate kinase, bacterial type

Probab=95.16  E-value=0.097  Score=54.52  Aligned_cols=27  Identities=30%  Similarity=0.278  Sum_probs=23.1

Q ss_pred             CCccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          145 EQVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       145 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ....+|+|.|..|+||||+|+.+..-.
T Consensus        60 ~~p~IIGIaG~~GSGKSTlar~L~~ll   86 (290)
T TIGR00554        60 KIPYIISIAGSVAVGKSTTARILQALL   86 (290)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHH
Confidence            356799999999999999998876655

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.

>PRK08233 hypothetical protein; Provisional

Probab=95.16  E-value=0.017  Score=56.27  Aligned_cols=25  Identities=40%  Similarity=0.587  Sum_probs=22.9

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          147 VGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ..+|+|.|.+|+||||+|+.++...
T Consensus         3 ~~iI~I~G~~GsGKtTla~~L~~~l   27 (182)
T PRK08233          3 TKIITIAAVSGGGKTTLTERLTHKL   27 (182)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhhC
Confidence            3689999999999999999999876

>PRK09270 nucleoside triphosphate hydrolase domain-containing protein; Reviewed

Probab=95.14  E-value=0.026  Score=57.34  Aligned_cols=27  Identities=33%  Similarity=0.522  Sum_probs=24.6

Q ss_pred             CCccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          145 EQVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       145 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ++..+|+|.|+.|+|||||++.+....
T Consensus        31 ~~~~iigi~G~~GsGKTTl~~~L~~~l   57 (229)
T PRK09270         31 QRRTIVGIAGPPGAGKSTLAEFLEALL   57 (229)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            457799999999999999999999887

>cd01135 V_A-ATPase_B V/A-type ATP synthase (non-catalytic) subunit B

Probab=95.13  E-value=0.083  Score=54.02  Aligned_cols=95  Identities=14%  Similarity=0.194  Sum_probs=59.4

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhhcC--CCCCCCEEEEEEeCCcc-CHHHHHHHHHHHhCCCCc-----cccCCChh-
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKLLG--APNDFDVVIWVVVSKDL-QLEKIQEKIGRRIGFLDE-----SWKNGSLE-  216 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~--~~~~F~~~~wv~~s~~~-~~~~~~~~i~~~l~~~~~-----~~~~~~~~-  216 (863)
                      +-..++|.|-.|+|||+|+..+.+.. .  .+.+-+.++++-+++.. +..++.+.+.+.-.....     +.+..... 
T Consensus        68 ~GQR~gIfgg~GvGKt~L~~~i~~~~-~~~~~~~~~v~V~~~IGeR~rev~e~~~~~~~~~~l~~tv~v~~t~~~~~~~r  146 (276)
T cd01135          68 RGQKIPIFSGSGLPHNELAAQIARQA-GVVGEEENFAVVFAAMGITMEDARFFKDDFEETGALERVVLFLNLANDPTIER  146 (276)
T ss_pred             cCCEEEeecCCCCChhHHHHHHHHhh-hccccCCCCEEEEEEeccccHHHHHHHHHhhhcCCcceEEEEEecCCCCHHHH
Confidence            34578999999999999999998876 2  12335788999988765 356666666553221110     00111111 


Q ss_pred             ----HHHHHHHHHhc---cCcEEEEEeccCCc
Q 048126          217 ----DKASDILRILS---KKKFLLLLDDIWER  241 (863)
Q Consensus       217 ----~~~~~l~~~l~---~kr~LlVlDdv~~~  241 (863)
                          ..+-.+.++++   ++++|+++||+...
T Consensus       147 ~~a~~~a~aiAEyfrd~~g~~VLl~~D~ltr~  178 (276)
T cd01135         147 IITPRMALTTAEYLAYEKGKHVLVILTDMTNY  178 (276)
T ss_pred             HHHHHHHHHHHHHHHhccCCeEEEEEcChhHH
Confidence                12233445553   68999999998654

These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi apparatus and in other coated vesicles in eukaryotes. Archaea have a protein which is similar in sequence to V-ATPases, but functions like an F-ATPase (called A-ATPase). A similar protein is also found in a few bacteria. This subfamily consists of the non-catalytic beta subunit.

>COG0563 Adk Adenylate kinase and related kinases [Nucleotide transport and metabolism]

Probab=95.12  E-value=0.033  Score=53.62  Aligned_cols=23  Identities=43%  Similarity=0.576  Sum_probs=21.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 048126          149 IIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      .|.|.|.+|+||||+|+.+.+..
T Consensus         2 riiilG~pGaGK~T~A~~La~~~   24 (178)
T COG0563           2 RILILGPPGAGKSTLAKKLAKKL   24 (178)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHh
Confidence            47899999999999999999986

>COG4088 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=95.11  E-value=0.013  Score=55.60  Aligned_cols=24  Identities=38%  Similarity=0.537  Sum_probs=21.9

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          148 GIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      +.|.+.|.+|+||||+|++++...
T Consensus         2 pLiIlTGyPgsGKTtfakeLak~L   25 (261)
T COG4088           2 PLIILTGYPGSGKTTFAKELAKEL   25 (261)
T ss_pred             ceEEEecCCCCCchHHHHHHHHHH
Confidence            467889999999999999999887

>PF13481 AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C

Probab=95.11  E-value=0.096  Score=51.58  Aligned_cols=43  Identities=21%  Similarity=0.261  Sum_probs=29.5

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCC-------CEEEEEEeCCc
Q 048126          147 VGIIGLYGMGGVGKTTLLTKINNKLLGAPNDF-------DVVIWVVVSKD  189 (863)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F-------~~~~wv~~s~~  189 (863)
                      -.++.|+|++|+||||++..++.....-...|       ..++|+....+
T Consensus        32 g~l~~i~g~~g~GKT~~~~~l~~~~~~g~~~~g~~~~~~~~Vl~i~~E~~   81 (193)
T PF13481_consen   32 GELTLIAGPPGSGKTTLALQLAAALATGRPFLGELPPRPGRVLYISLEDS   81 (193)
T ss_dssp             TSEEEEEECSTSSHHHHHHHHHHHHHT---TT---------EEEEESSS-
T ss_pred             CeEEEEEeCCCCCHHHHHHHHHHHHHhCCccCCcccccCceEEEEeccCC
Confidence            35889999999999999999988873211111       36788876665

>PRK11823 DNA repair protein RadA; Provisional

Probab=95.11  E-value=0.084  Score=59.07  Aligned_cols=95  Identities=24%  Similarity=0.358  Sum_probs=54.5

Q ss_pred             HHHHHHhcCC--CccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHHHHhCCCCccc---
Q 048126          136 DKVWRCLGEE--QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGRRIGFLDESW---  210 (863)
Q Consensus       136 ~~l~~~L~~~--~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~---  210 (863)
                      .++-+.|..+  .-.++.|.|.+|+|||||+.+++....   ..-..++|++....  ..++... ++.++...+..   
T Consensus        67 ~~LD~~LgGGi~~Gs~~lI~G~pG~GKTtL~lq~a~~~a---~~g~~vlYvs~Ees--~~qi~~r-a~rlg~~~~~l~~~  140 (446)
T PRK11823         67 GELDRVLGGGLVPGSVVLIGGDPGIGKSTLLLQVAARLA---AAGGKVLYVSGEES--ASQIKLR-AERLGLPSDNLYLL  140 (446)
T ss_pred             HHHHHHhcCCccCCEEEEEECCCCCCHHHHHHHHHHHHH---hcCCeEEEEEcccc--HHHHHHH-HHHcCCChhcEEEe
Confidence            4444555432  356899999999999999999988772   22235788876543  3333222 45555432111   


Q ss_pred             cCCChhHHHHHHHHHhccCcEEEEEeccC
Q 048126          211 KNGSLEDKASDILRILSKKKFLLLLDDIW  239 (863)
Q Consensus       211 ~~~~~~~~~~~l~~~l~~kr~LlVlDdv~  239 (863)
                      ...+.+++...+.   +.+.-++|+|.+.
T Consensus       141 ~e~~l~~i~~~i~---~~~~~lVVIDSIq  166 (446)
T PRK11823        141 AETNLEAILATIE---EEKPDLVVIDSIQ  166 (446)
T ss_pred             CCCCHHHHHHHHH---hhCCCEEEEechh
Confidence            1122333333322   2355678888874

>COG0464 SpoVK ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]

Probab=95.07  E-value=0.29  Score=56.11  Aligned_cols=150  Identities=16%  Similarity=0.176  Sum_probs=85.3

Q ss_pred             ccchhHHHHHHHHHhcC-------------CCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHH
Q 048126          128 TVGLESMFDKVWRCLGE-------------EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEK  194 (863)
Q Consensus       128 ~vGr~~~~~~l~~~L~~-------------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~  194 (863)
                      +.|.+..++.+.+.+.-             ...+.+-++|++|.|||.||+++++..   ...|-.+     ...    .
T Consensus       244 iggl~~~k~~l~e~v~~~~~~~e~~~~~~~~~~~giLl~GpPGtGKT~lAkava~~~---~~~fi~v-----~~~----~  311 (494)
T COG0464         244 IGGLEEAKEELKEAIETPLKRPELFRKLGLRPPKGVLLYGPPGTGKTLLAKAVALES---RSRFISV-----KGS----E  311 (494)
T ss_pred             hhcHHHHHHHHHHHHHhHhhChHHHHhcCCCCCCeeEEECCCCCCHHHHHHHHHhhC---CCeEEEe-----eCH----H
Confidence            35666666665555421             245688899999999999999999966   3344222     111    1


Q ss_pred             HHHHHHHHhCCCCccccCCChhHHHHHHHHHhccCcEEEEEeccCCcccc-------------ccccCCCC--CCCCCcE
Q 048126          195 IQEKIGRRIGFLDESWKNGSLEDKASDILRILSKKKFLLLLDDIWERVDL-------------TKVGVPFP--DPENKSK  259 (863)
Q Consensus       195 ~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~~-------------~~~~~~l~--~~~~gs~  259 (863)
                      +...           +...+.......+....+..+..|.+|+++....+             .++...+.  ....+..
T Consensus       312 l~sk-----------~vGesek~ir~~F~~A~~~~p~iiFiDEiDs~~~~r~~~~~~~~~r~~~~lL~~~d~~e~~~~v~  380 (494)
T COG0464         312 LLSK-----------WVGESEKNIRELFEKARKLAPSIIFIDEIDSLASGRGPSEDGSGRRVVGQLLTELDGIEKAEGVL  380 (494)
T ss_pred             Hhcc-----------ccchHHHHHHHHHHHHHcCCCcEEEEEchhhhhccCCCCCchHHHHHHHHHHHHhcCCCccCceE
Confidence            1100           11223333444444555678999999998653211             11222222  1223333


Q ss_pred             EEEecCchhhhh---cc--cccceEeecCCChHHHHHHHHHHhccc
Q 048126          260 IVFTTRFLEICG---AM--KAHEFLKVECLGPEDAWRLFRENLRRD  300 (863)
Q Consensus       260 IivTtR~~~v~~---~~--~~~~~~~l~~L~~~e~~~lf~~~~~~~  300 (863)
                      ||-||-......   ..  .-+..+.++.-+.++..+.|+.+....
T Consensus       381 vi~aTN~p~~ld~a~lR~gRfd~~i~v~~pd~~~r~~i~~~~~~~~  426 (494)
T COG0464         381 VIAATNRPDDLDPALLRPGRFDRLIYVPLPDLEERLEIFKIHLRDK  426 (494)
T ss_pred             EEecCCCccccCHhhcccCccceEeecCCCCHHHHHHHHHHHhccc
Confidence            444444433321   11  234578889999999999999887643

>TIGR02858 spore_III_AA stage III sporulation protein AA

Probab=95.07  E-value=0.11  Score=53.54  Aligned_cols=128  Identities=16%  Similarity=0.064  Sum_probs=67.8

Q ss_pred             HHHHHHHhcC-CCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHHHHhCCCCccc---
Q 048126          135 FDKVWRCLGE-EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGRRIGFLDESW---  210 (863)
Q Consensus       135 ~~~l~~~L~~-~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~---  210 (863)
                      .+.++..+.. .+..-++|+|+.|.|||||.+.++....    .....+++.- ++....+-..+++.......+..   
T Consensus        98 ~~~~l~~l~~~~~~~~~~i~g~~g~GKttl~~~l~~~~~----~~~G~i~~~g-~~v~~~d~~~ei~~~~~~~~q~~~~~  172 (270)
T TIGR02858        98 ADKLLPYLVRNNRVLNTLIISPPQCGKTTLLRDLARILS----TGISQLGLRG-KKVGIVDERSEIAGCVNGVPQHDVGI  172 (270)
T ss_pred             HHHHHHHHHhCCCeeEEEEEcCCCCCHHHHHHHHhCccC----CCCceEEECC-EEeecchhHHHHHHHhcccccccccc
Confidence            4444444443 4457899999999999999999998761    2223333321 11111011123332222111100   


Q ss_pred             --cCCChhHHHHHHHHHhc-cCcEEEEEeccCCccccccccCCCCCCCCCcEEEEecCchhhh
Q 048126          211 --KNGSLEDKASDILRILS-KKKFLLLLDDIWERVDLTKVGVPFPDPENKSKIVFTTRFLEIC  270 (863)
Q Consensus       211 --~~~~~~~~~~~l~~~l~-~kr~LlVlDdv~~~~~~~~~~~~l~~~~~gs~IivTtR~~~v~  270 (863)
                        +..+....+..+...+. ..+=++|+|.+.....+..+...+.   .|..||+||-+..+.
T Consensus       173 r~~v~~~~~k~~~~~~~i~~~~P~villDE~~~~e~~~~l~~~~~---~G~~vI~ttH~~~~~  232 (270)
T TIGR02858       173 RTDVLDGCPKAEGMMMLIRSMSPDVIVVDEIGREEDVEALLEALH---AGVSIIATAHGRDVE  232 (270)
T ss_pred             cccccccchHHHHHHHHHHhCCCCEEEEeCCCcHHHHHHHHHHHh---CCCEEEEEechhHHH
Confidence              00011111223444443 4788999999977665555543332   477799999876553

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.

>KOG2170 consensus ATPase of the AAA+ superfamily [General function prediction only]

Probab=95.07  E-value=0.045  Score=55.42  Aligned_cols=45  Identities=20%  Similarity=0.229  Sum_probs=35.2

Q ss_pred             ccchhHHHHHHHHHhcC-------CCccEEEEEcCCCCcHHHHHHHHHhhhc
Q 048126          128 TVGLESMFDKVWRCLGE-------EQVGIIGLYGMGGVGKTTLLTKINNKLL  172 (863)
Q Consensus       128 ~vGr~~~~~~l~~~L~~-------~~~~vi~I~G~gGiGKTtLa~~v~~~~~  172 (863)
                      ++|-.-.++.|+..+.+       .++-+++.+|..|+||.-+++.+++...
T Consensus        84 lfGQHla~~~Vv~alk~~~~n~~p~KPLvLSfHG~tGTGKN~Va~iiA~n~~  135 (344)
T KOG2170|consen   84 LFGQHLAKQLVVNALKSHWANPNPRKPLVLSFHGWTGTGKNYVAEIIAENLY  135 (344)
T ss_pred             hhchHHHHHHHHHHHHHHhcCCCCCCCeEEEecCCCCCchhHHHHHHHHHHH
Confidence            46766666666666642       3566999999999999999999998873

>PRK05480 uridine/cytidine kinase; Provisional

Probab=95.05  E-value=0.021  Score=57.06  Aligned_cols=27  Identities=41%  Similarity=0.573  Sum_probs=24.3

Q ss_pred             CCccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          145 EQVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       145 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      .+..+|+|.|.+|+||||||+.++...
T Consensus         4 ~~~~iI~I~G~sGsGKTTl~~~l~~~l   30 (209)
T PRK05480          4 KKPIIIGIAGGSGSGKTTVASTIYEEL   30 (209)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            356799999999999999999999876

>PF13671 AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1_A 1RRC_A 1RPZ_A 3ZVM_A 1YJ5_A 3ZVL_A 3U7E_B

Probab=95.05  E-value=0.02  Score=53.23  Aligned_cols=23  Identities=39%  Similarity=0.629  Sum_probs=21.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 048126          149 IIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      +|.++|++|+||||+|+.+....
T Consensus         1 lii~~G~pgsGKSt~a~~l~~~~   23 (143)
T PF13671_consen    1 LIILCGPPGSGKSTLAKRLAKRL   23 (143)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHS
T ss_pred             CEEEECCCCCCHHHHHHHHHHHC
Confidence            58899999999999999999876

...

>COG0468 RecA RecA/RadA recombinase [DNA replication, recombination, and repair]

Probab=95.04  E-value=0.091  Score=54.10  Aligned_cols=89  Identities=21%  Similarity=0.224  Sum_probs=56.8

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHHHH-hCCCCccccCCChhH---HHHH
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGRR-IGFLDESWKNGSLED---KASD  221 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~-l~~~~~~~~~~~~~~---~~~~  221 (863)
                      .-+++=|+|+.|.||||+|.+++-..   +..-..++||+.-..+++..+.. ++.. +..-.- ....+.++   .+..
T Consensus        59 ~g~ItEiyG~~gsGKT~lal~~~~~a---q~~g~~a~fIDtE~~l~p~r~~~-l~~~~~d~l~v-~~~~~~e~q~~i~~~  133 (279)
T COG0468          59 RGRITEIYGPESSGKTTLALQLVANA---QKPGGKAAFIDTEHALDPERAKQ-LGVDLLDNLLV-SQPDTGEQQLEIAEK  133 (279)
T ss_pred             cceEEEEecCCCcchhhHHHHHHHHh---hcCCCeEEEEeCCCCCCHHHHHH-HHHhhhcceeE-ecCCCHHHHHHHHHH
Confidence            55789999999999999999988776   33444889999988888776543 3333 211100 01222232   3334


Q ss_pred             HHHHhccCcEEEEEeccC
Q 048126          222 ILRILSKKKFLLLLDDIW  239 (863)
Q Consensus       222 l~~~l~~kr~LlVlDdv~  239 (863)
                      +......+--|+|+|.|-
T Consensus       134 ~~~~~~~~i~LvVVDSva  151 (279)
T COG0468         134 LARSGAEKIDLLVVDSVA  151 (279)
T ss_pred             HHHhccCCCCEEEEecCc
Confidence            444444445689999884

>PRK07132 DNA polymerase III subunit delta'; Validated

Probab=95.02  E-value=0.94  Score=47.59  Aligned_cols=167  Identities=11%  Similarity=0.068  Sum_probs=91.4

Q ss_pred             HHHHHHHhcCCCc-cEEEEEcCCCCcHHHHHHHHHhhhcC-------CCCCCCEEEEEEe-CCccCHHHHHHHHHHHhCC
Q 048126          135 FDKVWRCLGEEQV-GIIGLYGMGGVGKTTLLTKINNKLLG-------APNDFDVVIWVVV-SKDLQLEKIQEKIGRRIGF  205 (863)
Q Consensus       135 ~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~~~-------~~~~F~~~~wv~~-s~~~~~~~~~~~i~~~l~~  205 (863)
                      ++.+.+.+..++. ++.-++|..|.||+++|..+.+..-.       ...+-+...++.. +....++++. ++.+.+..
T Consensus         5 ~~~l~~~i~~~~l~haYLf~G~eg~gk~~~a~~~a~~l~c~~~~~~~~~~~p~n~~~~d~~g~~i~vd~Ir-~l~~~~~~   83 (299)
T PRK07132          5 IKFLDNSATQNKISHSFLLKSNYNEDIDEKILYFLNKFNNLQITNLNEQELPANIILFDIFDKDLSKSEFL-SAINKLYF   83 (299)
T ss_pred             HHHHHHHHHhCCCCeEEEEeCCCCCCHHHHHHHHHHHHcCcCCCCCCCCCCCcceEEeccCCCcCCHHHHH-HHHHHhcc
Confidence            4455666665555 45668999999999999999887511       0111112233321 1222333332 33333322


Q ss_pred             CCccccCCChhHHHHHHHHHhccCcEEEEEeccCCcc--ccccccCCCCCCCCCcEEEEecCc-hhhhhc-ccccceEee
Q 048126          206 LDESWKNGSLEDKASDILRILSKKKFLLLLDDIWERV--DLTKVGVPFPDPENKSKIVFTTRF-LEICGA-MKAHEFLKV  281 (863)
Q Consensus       206 ~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~--~~~~~~~~l~~~~~gs~IivTtR~-~~v~~~-~~~~~~~~l  281 (863)
                      ..                 .-.+.+=++|+|++....  ....+...+.....++.+|++|.+ ..+... ......+++
T Consensus        84 ~~-----------------~~~~~~KvvII~~~e~m~~~a~NaLLK~LEEPp~~t~~il~~~~~~kll~TI~SRc~~~~f  146 (299)
T PRK07132         84 SS-----------------FVQSQKKILIIKNIEKTSNSLLNALLKTIEEPPKDTYFLLTTKNINKVLPTIVSRCQVFNV  146 (299)
T ss_pred             CC-----------------cccCCceEEEEecccccCHHHHHHHHHHhhCCCCCeEEEEEeCChHhChHHHHhCeEEEEC
Confidence            11                 011466788889986542  233444444444556777765544 333322 233457899


Q ss_pred             cCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCCchhHHHH
Q 048126          282 ECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGLPLALIT  328 (863)
Q Consensus       282 ~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPlai~~  328 (863)
                      .++++++..+.+... + .    +   ++.+..++...+|.--|+..
T Consensus       147 ~~l~~~~l~~~l~~~-~-~----~---~~~a~~~a~~~~~~~~a~~~  184 (299)
T PRK07132        147 KEPDQQKILAKLLSK-N-K----E---KEYNWFYAYIFSNFEQAEKY  184 (299)
T ss_pred             CCCCHHHHHHHHHHc-C-C----C---hhHHHHHHHHcCCHHHHHHH
Confidence            999999998877653 1 1    1   23466666677763344444

>PTZ00035 Rad51 protein; Provisional

Probab=95.02  E-value=0.24  Score=53.14  Aligned_cols=68  Identities=24%  Similarity=0.291  Sum_probs=45.1

Q ss_pred             HHHHHhcC--CCccEEEEEcCCCCcHHHHHHHHHhhhcCC----CCCCCEEEEEEeCCccCHHHHHHHHHHHhCCC
Q 048126          137 KVWRCLGE--EQVGIIGLYGMGGVGKTTLLTKINNKLLGA----PNDFDVVIWVVVSKDLQLEKIQEKIGRRIGFL  206 (863)
Q Consensus       137 ~l~~~L~~--~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~----~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~  206 (863)
                      .+-++|..  ..-.++.|+|..|+|||+|+..++-.. ..    ...=..++||+....++.+++ .+++++++..
T Consensus       106 ~LD~lLgGGi~~G~iteI~G~~GsGKT~l~~~l~~~~-qlp~~~gg~~g~vvyIdtE~~f~~eri-~~ia~~~g~~  179 (337)
T PTZ00035        106 QLDKLLGGGIETGSITELFGEFRTGKTQLCHTLCVTC-QLPIEQGGGEGKVLYIDTEGTFRPERI-VQIAERFGLD  179 (337)
T ss_pred             HHHHHhCCCCCCCeEEEEECCCCCchhHHHHHHHHHh-ccccccCCCCceEEEEEccCCCCHHHH-HHHHHHhCCC
Confidence            34444543  245789999999999999999987654 21    112235779998777777664 4456665543

>PF06745 KaiC: KaiC; InterPro: IPR014774 This entry represents a domain within bacterial and archaeal proteins, most of which are hypothetical

Probab=95.01  E-value=0.035  Score=56.36  Aligned_cols=89  Identities=24%  Similarity=0.252  Sum_probs=53.1

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHHHHhCCCCcc-------------cc-
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGRRIGFLDES-------------WK-  211 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~-------------~~-  211 (863)
                      .-+++.|.|.+|+|||++|.++.....  ++.=+.++||+...+.  ..+.+.+. .++.....             .. 
T Consensus        18 ~gs~~li~G~~GsGKT~l~~q~l~~~~--~~~ge~vlyvs~ee~~--~~l~~~~~-s~g~d~~~~~~~g~l~~~d~~~~~   92 (226)
T PF06745_consen   18 KGSVVLISGPPGSGKTTLALQFLYNGL--KNFGEKVLYVSFEEPP--EELIENMK-SFGWDLEEYEDSGKLKIIDAFPER   92 (226)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHHH--HHHT--EEEEESSS-H--HHHHHHHH-TTTS-HHHHHHTTSEEEEESSGGG
T ss_pred             CCcEEEEEeCCCCCcHHHHHHHHHHhh--hhcCCcEEEEEecCCH--HHHHHHHH-HcCCcHHHHhhcCCEEEEeccccc
Confidence            567999999999999999999765541  1102357888876553  44444432 33321100             00 


Q ss_pred             ----CCChhHHHHHHHHHhcc-CcEEEEEeccC
Q 048126          212 ----NGSLEDKASDILRILSK-KKFLLLLDDIW  239 (863)
Q Consensus       212 ----~~~~~~~~~~l~~~l~~-kr~LlVlDdv~  239 (863)
                          ..+.+.+...+.+.++. +...+|+|.+.
T Consensus        93 ~~~~~~~~~~l~~~i~~~i~~~~~~~vVIDsls  125 (226)
T PF06745_consen   93 IGWSPNDLEELLSKIREAIEELKPDRVVIDSLS  125 (226)
T ss_dssp             ST-TSCCHHHHHHHHHHHHHHHTSSEEEEETHH
T ss_pred             ccccccCHHHHHHHHHHHHHhcCCCEEEEECHH
Confidence                23556666677666654 45788888763

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 ....

>PRK06762 hypothetical protein; Provisional

Probab=94.96  E-value=0.022  Score=54.64  Aligned_cols=25  Identities=32%  Similarity=0.557  Sum_probs=22.7

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          147 VGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ..+|.|.|+.|+||||+|+.+.+..
T Consensus         2 ~~li~i~G~~GsGKST~A~~L~~~l   26 (166)
T PRK06762          2 TTLIIIRGNSGSGKTTIAKQLQERL   26 (166)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHh
Confidence            3689999999999999999999876

>TIGR01650 PD_CobS cobaltochelatase, CobS subunit

Probab=94.96  E-value=1  Score=47.51  Aligned_cols=60  Identities=13%  Similarity=0.153  Sum_probs=39.7

Q ss_pred             ccchhHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHH
Q 048126          128 TVGLESMFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKI  195 (863)
Q Consensus       128 ~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~  195 (863)
                      ++=..+....+...+..+  +.|.|.|.+|+||||+|+.++...   ...   .+-|.++...+..++
T Consensus        47 y~f~~~~~~~vl~~l~~~--~~ilL~G~pGtGKTtla~~lA~~l---~~~---~~rV~~~~~l~~~Dl  106 (327)
T TIGR01650        47 YLFDKATTKAICAGFAYD--RRVMVQGYHGTGKSTHIEQIAARL---NWP---CVRVNLDSHVSRIDL  106 (327)
T ss_pred             ccCCHHHHHHHHHHHhcC--CcEEEEeCCCChHHHHHHHHHHHH---CCC---eEEEEecCCCChhhc
Confidence            443444556677776543  468899999999999999999987   222   235555555444433

This model describes the aerobic cobalamin pathway Pseudomonas denitrificans CobS gene product, which is a cobalt chelatase subunit, with a MW ~37 kDa. The aerobic pathway cobalt chelatase is a heterotrimeric, ATP-dependent enzyme that catalyzes cobalt insertion during cobalamin biosynthesis. The other two subunits are the P. denitrificans CobT (TIGR01651) and CobN (pfam02514 CobN/Magnesium Chelatase) proteins. To avoid potential confusion with the nonhomologous Salmonella typhimurium/E.coli cobS gene product, the P. denitrificans gene symbol is not used in the name of this model.

>PF01583 APS_kinase: Adenylylsulphate kinase; InterPro: IPR002891 Protein phosphorylation, which plays a key role in most cellular activities, is a reversible process mediated by protein kinases and phosphoprotein phosphatases

Probab=94.95  E-value=0.028  Score=52.31  Aligned_cols=35  Identities=31%  Similarity=0.332  Sum_probs=27.1

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEE
Q 048126          148 GIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVV  185 (863)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~  185 (863)
                      .+|.|.|.+|+||||||+.+.....   ..-..+.++.
T Consensus         3 ~vIwltGlsGsGKtTlA~~L~~~L~---~~g~~~~~LD   37 (156)
T PF01583_consen    3 FVIWLTGLSGSGKTTLARALERRLF---ARGIKVYLLD   37 (156)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHHHH---HTTS-EEEEE
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHHH---HcCCcEEEec
Confidence            5899999999999999999999982   2334455554

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 ....

>KOG0729 consensus 26S proteasome regulatory complex, ATPase RPT1 [Posttranslational modification, protein turnover, chaperones]

Probab=94.94  E-value=0.11  Score=51.26  Aligned_cols=43  Identities=23%  Similarity=0.299  Sum_probs=34.3

Q ss_pred             cchhHHHHHHHHHhcC-------------CCccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          129 VGLESMFDKVWRCLGE-------------EQVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       129 vGr~~~~~~l~~~L~~-------------~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      =|-.+.++++.+...-             +..+-|.++|++|.|||-+|++|+|+-
T Consensus       180 ggckeqieklrevve~pll~perfv~lgidppkgvllygppgtgktl~aravanrt  235 (435)
T KOG0729|consen  180 GGCKEQIEKLREVVELPLLHPERFVNLGIDPPKGVLLYGPPGTGKTLCARAVANRT  235 (435)
T ss_pred             cchHHHHHHHHHHHhccccCHHHHhhcCCCCCCceEEeCCCCCchhHHHHHHhccc
Confidence            3677778887776531             346678899999999999999999986

>PF00910 RNA_helicase: RNA helicase; InterPro: IPR000605 Helicases have been classified in 5 superfamilies (SF1-SF5)

Probab=94.93  E-value=0.018  Score=50.42  Aligned_cols=22  Identities=41%  Similarity=0.736  Sum_probs=20.1

Q ss_pred             EEEEcCCCCcHHHHHHHHHhhh
Q 048126          150 IGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       150 i~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      |.|+|.+|+|||++|+.++.+.
T Consensus         1 I~i~G~~G~GKS~l~~~l~~~l   22 (107)
T PF00910_consen    1 IWIYGPPGIGKSTLAKELAKDL   22 (107)
T ss_pred             CEEECCCCCCHHHHHHHHHHHH
Confidence            5699999999999999998877

All of the proteins bind ATP and, consequently, all of them carry the classical Walker A (phosphate-binding loop or P-loop) and Walker B (Mg2+-binding aspartic acid) motifs. Superfamily 3 consists of helicases encoded mainly by small DNA viruses and some large nucleocytoplasmic DNA viruses [, ]. Small viruses are very dependent on the host-cell machinery to replicate. SF3 helicase in small viruses is associated with an origin-binding domain. By pairing a domain that recognises the ori with a helicase, the virus can bypass the host-cell-based regulation pathway and initiate its own replication. The protein binds to the viral ori leading to origin unwinding. Cellular replication proteins are then recruited to the ori and the viral DNA is replicated. In SF3 helicases the Walker A and Walker B motifs are separated by spacers of rather uniform, and relatively short, length. In addition to the A and B motifs this family is characterised by a third motif (C) which resides between the B motif and the C terminus of the conserved region. This motif consists of an Asn residue preceded by a run of hydrophobic residues []. Several structures of SF3 helicases have been solved []. They all possess the same core alpha/beta fold, consisting of a five-stranded parallel beta sheet flanked on both sides by several alpha helices. In contrast to SF1 and SF2 helicases, which have RecA-like core folds, the strand connectivity within the alpha/beta core domain is that of AAA+ proteins []. The SF3 helicase proteins assemble into a hexameric ring. Some proteins known to contain an SF3 helicase domain are listed below: Polyomavirus large T antigen. It initiates DNA unwinding and replication via interactions with the viral origin of replication. Papillomavirus E1 protein. An ATP-dependent DNA helicase required for initiation of viral DNA replication. Parvovirus Rep/NS1 protein, which is also required for the initiation of viral replication. Poxviridae and other large DNA viruses D5 protein. Bacteriophage DNA primase/helicase protein. Bacterial prophage DNA primase/helicase protein. The entry represents the core alpha/beta fold of the SF3 helicase domain found predominantly in DNA viruses.; GO: 0003723 RNA binding, 0003724 RNA helicase activity

>COG1428 Deoxynucleoside kinases [Nucleotide transport and metabolism]

Probab=94.92  E-value=0.022  Score=54.87  Aligned_cols=25  Identities=36%  Similarity=0.505  Sum_probs=23.4

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          147 VGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ..+|+|-||-|+||||||+.++++.
T Consensus         4 ~~~IvI~G~IG~GKSTLa~~La~~l   28 (216)
T COG1428           4 AMVIVIEGMIGAGKSTLAQALAEHL   28 (216)
T ss_pred             ccEEEEecccccCHHHHHHHHHHHh
Confidence            4689999999999999999999998

>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]

Probab=94.90  E-value=0.22  Score=53.35  Aligned_cols=89  Identities=24%  Similarity=0.198  Sum_probs=53.0

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCc-cCHHHHHHHHHHHhCCCCccccCCChhHHHHHHHH
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKD-LQLEKIQEKIGRRIGFLDESWKNGSLEDKASDILR  224 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~-~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~  224 (863)
                      .-++|++||+.||||||-..+++.++ .....=..+..|+...- ....+.++..++-++++..  ...+..++...+..
T Consensus       202 ~~~vi~LVGPTGVGKTTTlAKLAar~-~~~~~~~kVaiITtDtYRIGA~EQLk~Ya~im~vp~~--vv~~~~el~~ai~~  278 (407)
T COG1419         202 QKRVIALVGPTGVGKTTTLAKLAARY-VMLKKKKKVAIITTDTYRIGAVEQLKTYADIMGVPLE--VVYSPKELAEAIEA  278 (407)
T ss_pred             cCcEEEEECCCCCcHHHHHHHHHHHH-HhhccCcceEEEEeccchhhHHHHHHHHHHHhCCceE--EecCHHHHHHHHHH
Confidence            37899999999999998777766666 21233345677765432 2445666777777777653  23344555544443


Q ss_pred             HhccCcEEEEEeccC
Q 048126          225 ILSKKKFLLLLDDIW  239 (863)
Q Consensus       225 ~l~~kr~LlVlDdv~  239 (863)
                       +++.. +|.+|-+.
T Consensus       279 -l~~~d-~ILVDTaG  291 (407)
T COG1419         279 -LRDCD-VILVDTAG  291 (407)
T ss_pred             -hhcCC-EEEEeCCC
Confidence             33343 44446553

>PF06309 Torsin: Torsin; InterPro: IPR010448 This family consists of several eukaryotic torsin proteins

Probab=94.89  E-value=0.042  Score=48.69  Aligned_cols=45  Identities=18%  Similarity=0.249  Sum_probs=33.3

Q ss_pred             CccchhHHHHHHHHHhc----C---CCccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          127 PTVGLESMFDKVWRCLG----E---EQVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       127 ~~vGr~~~~~~l~~~L~----~---~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      .++|-+-..+.|++.+.    .   ++.-|++.+|+.|+|||.+|+.+++..
T Consensus        26 ~l~GQhla~~~v~~ai~~~l~~~~p~KpLVlSfHG~tGtGKn~v~~liA~~l   77 (127)
T PF06309_consen   26 NLFGQHLAVEVVVNAIKGHLANPNPRKPLVLSFHGWTGTGKNFVSRLIAEHL   77 (127)
T ss_pred             HccCcHHHHHHHHHHHHHHHcCCCCCCCEEEEeecCCCCcHHHHHHHHHHHH
Confidence            35666655555555553    2   356699999999999999999998874

Torsion dystonia is an autosomal dominant movement disorder characterised by involuntary, repetitive muscle contractions and twisted postures. The most severe early-onset form of dystonia has been linked to mutations in the human DYT1 (TOR1A) gene encoding a protein termed torsinA. While causative genetic alterations have been identified, the function of torsin proteins and the molecular mechanism underlying dystonia remain unknown. Phylogenetic analysis of the torsin protein family indicates these proteins share distant sequence similarity with the large and diverse family of AAA ATPase, central region containing proteins () proteins. It has been suggested that torsins play a role in effectively managing protein folding and that possible breakdown in a neuroprotective mechanism that is, in part, mediated by torsins may be responsible for the neuronal dysfunction associated with dystonia [].; GO: 0005524 ATP binding, 0051085 chaperone mediated protein folding requiring cofactor

>PRK03839 putative kinase; Provisional

Probab=94.88  E-value=0.022  Score=55.42  Aligned_cols=23  Identities=48%  Similarity=0.680  Sum_probs=21.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 048126          149 IIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      .|.|.|++|+||||+|+.+++..
T Consensus         2 ~I~l~G~pGsGKsT~~~~La~~~   24 (180)
T PRK03839          2 IIAITGTPGVGKTTVSKLLAEKL   24 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            58899999999999999999987

>cd03228 ABCC_MRP_Like The MRP (Mutidrug Resistance Protein)-like transporters are involved in drug, peptide, and lipid export

Probab=94.86  E-value=0.084  Score=50.81  Aligned_cols=126  Identities=18%  Similarity=0.210  Sum_probs=62.7

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCC--ccCHHHHHHHHHHHhCCCCcc--ccC-------CC
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSK--DLQLEKIQEKIGRRIGFLDES--WKN-------GS  214 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~--~~~~~~~~~~i~~~l~~~~~~--~~~-------~~  214 (863)
                      .-.+++|+|..|.|||||.+.++.-. .   .....+++.-..  .......    ...++...+.  ...       -+
T Consensus        27 ~G~~~~l~G~nGsGKstLl~~i~G~~-~---~~~G~i~~~g~~~~~~~~~~~----~~~i~~~~~~~~~~~~t~~e~lLS   98 (171)
T cd03228          27 PGEKVAIVGPSGSGKSTLLKLLLRLY-D---PTSGEILIDGVDLRDLDLESL----RKNIAYVPQDPFLFSGTIRENILS   98 (171)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHcCC-C---CCCCEEEECCEEhhhcCHHHH----HhhEEEEcCCchhccchHHHHhhC
Confidence            44699999999999999999998875 2   223333332110  0011111    1111111000  000       01


Q ss_pred             -hhHHHHHHHHHhccCcEEEEEeccCCcccc---ccccCCCCCCCCCcEEEEecCchhhhhcccccceEee
Q 048126          215 -LEDKASDILRILSKKKFLLLLDDIWERVDL---TKVGVPFPDPENKSKIVFTTRFLEICGAMKAHEFLKV  281 (863)
Q Consensus       215 -~~~~~~~l~~~l~~kr~LlVlDdv~~~~~~---~~~~~~l~~~~~gs~IivTtR~~~v~~~~~~~~~~~l  281 (863)
                       -+...-.+...+-.++-++++|+-...-|.   ..+...+.....+..||++|.+......  +++.+.+
T Consensus        99 ~G~~~rl~la~al~~~p~llllDEP~~gLD~~~~~~l~~~l~~~~~~~tii~~sh~~~~~~~--~d~~~~l  167 (171)
T cd03228          99 GGQRQRIAIARALLRDPPILILDEATSALDPETEALILEALRALAKGKTVIVIAHRLSTIRD--ADRIIVL  167 (171)
T ss_pred             HHHHHHHHHHHHHhcCCCEEEEECCCcCCCHHHHHHHHHHHHHhcCCCEEEEEecCHHHHHh--CCEEEEE
Confidence             111222345556667889999997654321   1221111111124668888888766543  4445444

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.

>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=94.85  E-value=0.093  Score=58.18  Aligned_cols=88  Identities=20%  Similarity=0.204  Sum_probs=50.0

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCcc-CHHHHHHHHHHHhCCCCccccCCChhHHHHHHHHH
Q 048126          147 VGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDL-QLEKIQEKIGRRIGFLDESWKNGSLEDKASDILRI  225 (863)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~-~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~  225 (863)
                      .+++.++|++|+||||++..++... .....-..+..|+....- .....++...+.++.+..  ...+..++...+.+ 
T Consensus       221 ~~~i~~vGptGvGKTTt~~kLA~~~-~~~~~g~~V~li~~D~~r~~a~eqL~~~a~~~~vp~~--~~~~~~~l~~~l~~-  296 (424)
T PRK05703        221 GGVVALVGPTGVGKTTTLAKLAARY-ALLYGKKKVALITLDTYRIGAVEQLKTYAKIMGIPVE--VVYDPKELAKALEQ-  296 (424)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHH-HHhcCCCeEEEEECCccHHHHHHHHHHHHHHhCCceE--ccCCHHhHHHHHHH-
Confidence            3699999999999999999988776 201222356667653321 122334444555555432  22233444444443 


Q ss_pred             hccCcEEEEEeccC
Q 048126          226 LSKKKFLLLLDDIW  239 (863)
Q Consensus       226 l~~kr~LlVlDdv~  239 (863)
                      +. ..=+||+|..-
T Consensus       297 ~~-~~DlVlIDt~G  309 (424)
T PRK05703        297 LR-DCDVILIDTAG  309 (424)
T ss_pred             hC-CCCEEEEeCCC
Confidence            23 34578888763

>TIGR01360 aden_kin_iso1 adenylate kinase, isozyme 1 subfamily

Probab=94.84  E-value=0.024  Score=55.56  Aligned_cols=26  Identities=38%  Similarity=0.374  Sum_probs=23.4

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      +.++|.|+|++|+||||+|+.++...
T Consensus         2 ~~~ii~i~G~~GsGKsTl~~~l~~~~   27 (188)
T TIGR01360         2 KCKIIFIVGGPGSGKGTQCEKIVEKY   27 (188)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            46799999999999999999999765

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.

>TIGR00708 cobA cob(I)alamin adenosyltransferase

Probab=94.83  E-value=0.099  Score=49.57  Aligned_cols=118  Identities=20%  Similarity=0.193  Sum_probs=63.1

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEE--EEEeCCccCHHHHHHHHHHH---hCCCCccccCCChh-----
Q 048126          147 VGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVI--WVVVSKDLQLEKIQEKIGRR---IGFLDESWKNGSLE-----  216 (863)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~--wv~~s~~~~~~~~~~~i~~~---l~~~~~~~~~~~~~-----  216 (863)
                      ...|-|++..|.||||.|.-++-+..  ...+.+.+  |+.-.....-...++.+.-.   .+... .+...+.+     
T Consensus         5 ~Gli~v~~g~GkGKtt~a~g~a~ra~--~~g~~v~ivQFlKg~~~~GE~~~l~~~~~~~~~~g~g~-~~~~~~~~~~~~~   81 (173)
T TIGR00708         5 RGIIIVHTGNGKGKTTAAFGMALRAL--GHGKKVGVIQFIKGAWPNGERAAFEPHGVEFQVMGTGF-TWETQNREADTAI   81 (173)
T ss_pred             ccEEEEECCCCCChHHHHHHHHHHHH--HCCCeEEEEEEecCCcccChHHHHHhcCcEEEECCCCC-eecCCCcHHHHHH
Confidence            46888999999999999999988872  33444322  33333233444444433000   01100 01111111     


Q ss_pred             --HHHHHHHHHhccCc-EEEEEeccCCc-----cccccccCCCCCCCCCcEEEEecCch
Q 048126          217 --DKASDILRILSKKK-FLLLLDDIWER-----VDLTKVGVPFPDPENKSKIVFTTRFL  267 (863)
Q Consensus       217 --~~~~~l~~~l~~kr-~LlVlDdv~~~-----~~~~~~~~~l~~~~~gs~IivTtR~~  267 (863)
                        +.....++.+...+ =++|||.+-..     .+.+++...+.....+..||+|-|+.
T Consensus        82 ~~~~~~~a~~~l~~~~~DlvVLDEi~~A~~~gli~~~~v~~lL~~rp~~~evVlTGR~~  140 (173)
T TIGR00708        82 AKAAWQHAKEMLADPELDLVLLDELTYALKYGYLDVEEVVEALQERPGHQHVIITGRGC  140 (173)
T ss_pred             HHHHHHHHHHHHhcCCCCEEEehhhHHHHHCCCcCHHHHHHHHHhCCCCCEEEEECCCC
Confidence              12223344444444 59999998532     22334444444445567899999985

Alternate name: corrinoid adenosyltransferase.

>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=94.83  E-value=0.13  Score=51.77  Aligned_cols=23  Identities=39%  Similarity=0.515  Sum_probs=21.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 048126          149 IIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      +|+|.|..|+||||+|+.+....
T Consensus         1 IigI~G~sGSGKTTla~~L~~~l   23 (220)
T cd02025           1 IIGIAGSVAVGKSTTARVLQALL   23 (220)
T ss_pred             CEEeeCCCCCCHHHHHHHHHHHH
Confidence            58999999999999999999887

The reaction carried out by this enzyme is a key regulatory point in CoA biosynthesis.

>PRK12597 F0F1 ATP synthase subunit beta; Provisional

Probab=94.82  E-value=0.091  Score=58.20  Aligned_cols=93  Identities=20%  Similarity=0.274  Sum_probs=59.0

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCcc-CHHHHHHHHHHHhCCCCccc----cCCChh----
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDL-QLEKIQEKIGRRIGFLDESW----KNGSLE----  216 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~-~~~~~~~~i~~~l~~~~~~~----~~~~~~----  216 (863)
                      +-..++|.|..|+|||||+.+++....  +.+-+.++++-+++.. .+.++...+...-.......    ...+..    
T Consensus       142 kGQR~gIfa~~G~GKt~Ll~~~~~~~~--~~~~dv~V~~liGER~rEv~ef~~~~~~~~~l~rsvvv~atsd~~~~~R~~  219 (461)
T PRK12597        142 KGGKTGLFGGAGVGKTVLMMELIFNIS--KQHSGSSVFAGVGERSREGHELYHEMKESGVLDKTVMVYGQMNEPPGARMR  219 (461)
T ss_pred             cCCEEEeecCCCCChhHHHHHHHHHHH--hhCCCEEEEEcCCcchHHHHHHHHHHHhcCCcceeEEEecCCCCCHHHHHH
Confidence            446899999999999999999988872  2356788888887654 35566666654322111000    111111    


Q ss_pred             --HHHHHHHHHh---ccCcEEEEEeccCC
Q 048126          217 --DKASDILRIL---SKKKFLLLLDDIWE  240 (863)
Q Consensus       217 --~~~~~l~~~l---~~kr~LlVlDdv~~  240 (863)
                        ..+-.+.+++   +++.+|+++||+..
T Consensus       220 a~~~a~tiAEyfrd~~G~~VLl~~DslTR  248 (461)
T PRK12597        220 VVLTGLTIAEYLRDEEKEDVLLFIDNIFR  248 (461)
T ss_pred             HHHHHHHHHHHHHHhcCCceEEEeccchH
Confidence              1233445555   37899999999954

>TIGR00235 udk uridine kinase

Probab=94.81  E-value=0.024  Score=56.53  Aligned_cols=26  Identities=46%  Similarity=0.560  Sum_probs=23.7

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ...+|+|+|+.|+||||||+.++...
T Consensus         5 ~g~vi~I~G~sGsGKSTl~~~l~~~l   30 (207)
T TIGR00235         5 KGIIIGIGGGSGSGKTTVARKIYEQL   30 (207)
T ss_pred             CeEEEEEECCCCCCHHHHHHHHHHHh
Confidence            45799999999999999999999876

Model contains a number of longer eukaryotic proteins and starts bringing in phosphoribulokinase hits at scores of 160 and below

>TIGR00416 sms DNA repair protein RadA

Probab=94.80  E-value=0.15  Score=57.21  Aligned_cols=97  Identities=25%  Similarity=0.342  Sum_probs=53.9

Q ss_pred             HHHHHHHhcC--CCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHHHHhCCCCccc--
Q 048126          135 FDKVWRCLGE--EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGRRIGFLDESW--  210 (863)
Q Consensus       135 ~~~l~~~L~~--~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~--  210 (863)
                      +.++-+.|..  ..-.++.|.|.+|+|||||+.+++....  +. -..++||+....  ..++.. -+..++...+..  
T Consensus        80 i~~LD~vLgGGi~~GsvilI~G~pGsGKTTL~lq~a~~~a--~~-g~kvlYvs~EEs--~~qi~~-ra~rlg~~~~~l~~  153 (454)
T TIGR00416        80 FGELDRVLGGGIVPGSLILIGGDPGIGKSTLLLQVACQLA--KN-QMKVLYVSGEES--LQQIKM-RAIRLGLPEPNLYV  153 (454)
T ss_pred             cHHHHHHhcCCccCCeEEEEEcCCCCCHHHHHHHHHHHHH--hc-CCcEEEEECcCC--HHHHHH-HHHHcCCChHHeEE
Confidence            4455555543  2457999999999999999999987762  11 135788875443  333322 233444332211  


Q ss_pred             -cCCChhHHHHHHHHHhccCcEEEEEeccCC
Q 048126          211 -KNGSLEDKASDILRILSKKKFLLLLDDIWE  240 (863)
Q Consensus       211 -~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~  240 (863)
                       ...+.+++...+.   +.+.-++|+|.+..
T Consensus       154 ~~e~~~~~I~~~i~---~~~~~~vVIDSIq~  181 (454)
T TIGR00416       154 LSETNWEQICANIE---EENPQACVIDSIQT  181 (454)
T ss_pred             cCCCCHHHHHHHHH---hcCCcEEEEecchh
Confidence             1122333322222   12455788888743

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)).

>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=94.80  E-value=0.09  Score=51.12  Aligned_cols=120  Identities=19%  Similarity=0.254  Sum_probs=64.9

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEE---eCCccCHHHH------HHHHHHHhCCCCcc---cc-C
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVV---VSKDLQLEKI------QEKIGRRIGFLDES---WK-N  212 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~---~s~~~~~~~~------~~~i~~~l~~~~~~---~~-~  212 (863)
                      .-.+++|+|..|.|||||++.++...    ......+++.   +.. .+....      ..++++.+++....   .. -
T Consensus        24 ~G~~~~l~G~nGsGKStLl~~i~G~~----~~~~G~v~~~g~~~~~-~~~~~~~~~i~~~~q~l~~~gl~~~~~~~~~~L   98 (180)
T cd03214          24 AGEIVGILGPNGAGKSTLLKTLAGLL----KPSSGEILLDGKDLAS-LSPKELARKIAYVPQALELLGLAHLADRPFNEL   98 (180)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC----CCCCcEEEECCEECCc-CCHHHHHHHHhHHHHHHHHcCCHhHhcCCcccC
Confidence            44699999999999999999998765    1233344432   221 122111      12245555543210   01 1


Q ss_pred             CChhHHHHHHHHHhccCcEEEEEeccCCccc---cccccCCCCC-CCC-CcEEEEecCchhhh
Q 048126          213 GSLEDKASDILRILSKKKFLLLLDDIWERVD---LTKVGVPFPD-PEN-KSKIVFTTRFLEIC  270 (863)
Q Consensus       213 ~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~---~~~~~~~l~~-~~~-gs~IivTtR~~~v~  270 (863)
                      ..-+...-.+...+-..+-++++|+.-..-|   ...+...+.. ... |.-||++|.+....
T Consensus        99 S~G~~qrl~laral~~~p~llllDEP~~~LD~~~~~~~~~~l~~~~~~~~~tiii~sh~~~~~  161 (180)
T cd03214          99 SGGERQRVLLARALAQEPPILLLDEPTSHLDIAHQIELLELLRRLARERGKTVVMVLHDLNLA  161 (180)
T ss_pred             CHHHHHHHHHHHHHhcCCCEEEEeCCccCCCHHHHHHHHHHHHHHHHhcCCEEEEEeCCHHHH
Confidence            1122233345566777888999999765432   2222222211 112 56788888876553

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.

>PRK12678 transcription termination factor Rho; Provisional

Probab=94.80  E-value=0.052  Score=60.50  Aligned_cols=99  Identities=19%  Similarity=0.194  Sum_probs=54.3

Q ss_pred             HHHHhcC-CCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEE-EEEEeCCccC-HHHHHHHHHHHhCCCCccccCCC
Q 048126          138 VWRCLGE-EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVV-IWVVVSKDLQ-LEKIQEKIGRRIGFLDESWKNGS  214 (863)
Q Consensus       138 l~~~L~~-~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~-~wv~~s~~~~-~~~~~~~i~~~l~~~~~~~~~~~  214 (863)
                      +++++.. ..-....|+|.+|+|||||++.+++...  ..+-++. +++-|.+... +.++.+.+-.++-..  .++...
T Consensus       406 vIDll~PIGkGQR~LIvgpp~aGKTtLL~~IAn~i~--~n~~~~~~ivvLIgERpeEVtdm~rsVkgeVVas--T~D~p~  481 (672)
T PRK12678        406 VIDLIMPIGKGQRGLIVSPPKAGKTTILQNIANAIT--TNNPECHLMVVLVDERPEEVTDMQRSVKGEVIAS--TFDRPP  481 (672)
T ss_pred             eeeeecccccCCEeEEeCCCCCCHHHHHHHHHHHHh--hcCCCeEEEEEEEeCchhhHHHHHHhccceEEEE--CCCCCH
Confidence            4444443 3345788999999999999999999762  2333433 3445555443 334444331111000  111111


Q ss_pred             -----hhHHHHHHHHHh--ccCcEEEEEeccCC
Q 048126          215 -----LEDKASDILRIL--SKKKFLLLLDDIWE  240 (863)
Q Consensus       215 -----~~~~~~~l~~~l--~~kr~LlVlDdv~~  240 (863)
                           ....+-.+.+++  .++.+||++|++..
T Consensus       482 ~~~~~~a~~ai~~Ae~fre~G~dVlillDSlTR  514 (672)
T PRK12678        482 SDHTTVAELAIERAKRLVELGKDVVVLLDSITR  514 (672)
T ss_pred             HHHHHHHHHHHHHHHHHHHcCCCEEEEEeCchH
Confidence                 112222333444  57899999999854

>cd03216 ABC_Carb_Monos_I This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos)

Probab=94.80  E-value=0.048  Score=52.03  Aligned_cols=115  Identities=17%  Similarity=0.183  Sum_probs=61.0

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCC--ccCHHHHHHHHHHHhCCCCccccCCChhHHHHHHH
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSK--DLQLEKIQEKIGRRIGFLDESWKNGSLEDKASDIL  223 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~--~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~  223 (863)
                      .-.+++|+|..|.|||||.+.++...    ......+++.-..  ..+..+..   ...++...   +-..-+...-.+.
T Consensus        25 ~Ge~~~l~G~nGsGKSTLl~~i~G~~----~~~~G~v~~~g~~~~~~~~~~~~---~~~i~~~~---qLS~G~~qrl~la   94 (163)
T cd03216          25 RGEVHALLGENGAGKSTLMKILSGLY----KPDSGEILVDGKEVSFASPRDAR---RAGIAMVY---QLSVGERQMVEIA   94 (163)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC----CCCCeEEEECCEECCcCCHHHHH---hcCeEEEE---ecCHHHHHHHHHH
Confidence            34689999999999999999998765    2334445543111  11111111   11111110   1122223333455


Q ss_pred             HHhccCcEEEEEeccCCccc---cccccCCCCC-CCCCcEEEEecCchhhh
Q 048126          224 RILSKKKFLLLLDDIWERVD---LTKVGVPFPD-PENKSKIVFTTRFLEIC  270 (863)
Q Consensus       224 ~~l~~kr~LlVlDdv~~~~~---~~~~~~~l~~-~~~gs~IivTtR~~~v~  270 (863)
                      ..+-.++-++++|+.-..-|   ...+...+.. ...|.-||++|.+....
T Consensus        95 ral~~~p~illlDEP~~~LD~~~~~~l~~~l~~~~~~~~tiii~sh~~~~~  145 (163)
T cd03216          95 RALARNARLLILDEPTAALTPAEVERLFKVIRRLRAQGVAVIFISHRLDEV  145 (163)
T ss_pred             HHHhcCCCEEEEECCCcCCCHHHHHHHHHHHHHHHHCCCEEEEEeCCHHHH
Confidence            66667788999999765432   1222111211 12356688888876543

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.

>PRK14721 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=94.79  E-value=0.18  Score=55.30  Aligned_cols=88  Identities=23%  Similarity=0.271  Sum_probs=48.7

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCC-ccCHHHHHHHHHHHhCCCCccccCCChhHHHHHHHH
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSK-DLQLEKIQEKIGRRIGFLDESWKNGSLEDKASDILR  224 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~-~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~  224 (863)
                      ...+|+++|..|+||||++..++... ......+.+.+++... .....+.+...++.++.+..  ...+..+....+. 
T Consensus       190 ~g~vi~lvGpnG~GKTTtlakLA~~~-~~~~~~~~v~~i~~d~~rigalEQL~~~a~ilGvp~~--~v~~~~dl~~al~-  265 (420)
T PRK14721        190 QGGVYALIGPTGVGKTTTTAKLAARA-VIRHGADKVALLTTDSYRIGGHEQLRIYGKLLGVSVR--SIKDIADLQLMLH-  265 (420)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHH-HHhcCCCeEEEEecCCcchhHHHHHHHHHHHcCCcee--cCCCHHHHHHHHH-
Confidence            34699999999999999999988764 1122223445554332 12334445566666665542  2223333333332 


Q ss_pred             HhccCcEEEEEecc
Q 048126          225 ILSKKKFLLLLDDI  238 (863)
Q Consensus       225 ~l~~kr~LlVlDdv  238 (863)
                      .++++ -++++|-.
T Consensus       266 ~l~~~-d~VLIDTa  278 (420)
T PRK14721        266 ELRGK-HMVLIDTV  278 (420)
T ss_pred             HhcCC-CEEEecCC
Confidence            34444 34556654

>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=94.78  E-value=0.12  Score=50.64  Aligned_cols=44  Identities=25%  Similarity=0.241  Sum_probs=30.7

Q ss_pred             EEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHH
Q 048126          150 IGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEK  198 (863)
Q Consensus       150 i~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~  198 (863)
                      +.|.|.+|+|||++|.+++....  +. =..++|++...+  ..++.+.
T Consensus         2 ~li~G~~G~GKT~l~~~~~~~~~--~~-g~~v~~~s~e~~--~~~~~~~   45 (187)
T cd01124           2 TLLSGGPGTGKTTFALQFLYAGL--AR-GEPGLYVTLEES--PEELIEN   45 (187)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHH--HC-CCcEEEEECCCC--HHHHHHH
Confidence            67899999999999999877762  22 245778876543  4444433

A related protein is found in archaea.

>COG1121 ZnuC ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]

Probab=94.74  E-value=0.086  Score=53.11  Aligned_cols=122  Identities=21%  Similarity=0.225  Sum_probs=69.4

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhhcCCC----------CCC---CEEEEEEeCCcc------CH--------------
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAP----------NDF---DVVIWVVVSKDL------QL--------------  192 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~----------~~F---~~~~wv~~s~~~------~~--------------  192 (863)
                      .-.+++|+|+.|.|||||.+.+..-....+          ..+   ..+.||+=...+      ++              
T Consensus        29 ~G~~~~iiGPNGaGKSTLlK~iLGll~p~~G~i~~~g~~~~~~~~~~~IgYVPQ~~~~d~~fP~tV~d~V~~g~~~~~g~  108 (254)
T COG1121          29 KGEITALIGPNGAGKSTLLKAILGLLKPSSGEIKIFGKPVRKRRKRLRIGYVPQKSSVDRSFPITVKDVVLLGRYGKKGW  108 (254)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCCcCCcceEEEccccccccccCCeEEEcCcccccCCCCCcCHHHHHHccCcccccc
Confidence            337999999999999999999987431100          011   356676521111      11              


Q ss_pred             --------HHHHHHHHHHhCCCCc---cccCCChhHHH-HHHHHHhccCcEEEEEeccCCc------cccccccCCCCCC
Q 048126          193 --------EKIQEKIGRRIGFLDE---SWKNGSLEDKA-SDILRILSKKKFLLLLDDIWER------VDLTKVGVPFPDP  254 (863)
Q Consensus       193 --------~~~~~~i~~~l~~~~~---~~~~~~~~~~~-~~l~~~l~~kr~LlVlDdv~~~------~~~~~~~~~l~~~  254 (863)
                              .+...+.+++++...-   ....-+-.+.+ -.|.+.|..++=|+|||.--..      ...-++...+.. 
T Consensus       109 ~~~~~~~d~~~v~~aL~~Vgm~~~~~r~i~~LSGGQ~QRV~lARAL~~~p~lllLDEP~~gvD~~~~~~i~~lL~~l~~-  187 (254)
T COG1121         109 FRRLNKKDKEKVDEALERVGMEDLRDRQIGELSGGQKQRVLLARALAQNPDLLLLDEPFTGVDVAGQKEIYDLLKELRQ-  187 (254)
T ss_pred             cccccHHHHHHHHHHHHHcCchhhhCCcccccCcHHHHHHHHHHHhccCCCEEEecCCcccCCHHHHHHHHHHHHHHHH-
Confidence                    1344455555554321   11222333333 3456788899999999975432      223333333322 


Q ss_pred             CCCcEEEEecCchhh
Q 048126          255 ENKSKIVFTTRFLEI  269 (863)
Q Consensus       255 ~~gs~IivTtR~~~v  269 (863)
                       .|.-|+++|-+-..
T Consensus       188 -eg~tIl~vtHDL~~  201 (254)
T COG1121         188 -EGKTVLMVTHDLGL  201 (254)
T ss_pred             -CCCEEEEEeCCcHH
Confidence             28889999988554

>TIGR00390 hslU ATP-dependent protease HslVU, ATPase subunit

Probab=94.73  E-value=0.066  Score=57.86  Aligned_cols=46  Identities=22%  Similarity=0.244  Sum_probs=36.5

Q ss_pred             CCccchhHHHHHHHHHhcCC--------------CccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          126 EPTVGLESMFDKVWRCLGEE--------------QVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~--------------~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ..+||.++.+..+.-.+...              ..+-|.++|++|+|||++|+.++...
T Consensus        12 ~~IiGQ~eAkk~lsvAl~n~~~r~~~~~~~~~e~~p~~ILLiGppG~GKT~lAraLA~~l   71 (441)
T TIGR00390        12 KYIIGQDNAKKSVAIALRNRYRRSQLNEELKDEVTPKNILMIGPTGVGKTEIARRLAKLA   71 (441)
T ss_pred             hhccCHHHHHHHHHHHHHhhhhhhccccccccccCCceEEEECCCCCCHHHHHHHHHHHh
Confidence            35788888888876655421              24678899999999999999999887

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.

>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=94.73  E-value=0.036  Score=57.50  Aligned_cols=88  Identities=22%  Similarity=0.294  Sum_probs=49.1

Q ss_pred             HHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHHHHhCCCCccccCCCh
Q 048126          136 DKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGRRIGFLDESWKNGSL  215 (863)
Q Consensus       136 ~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~~~~~  215 (863)
                      ..+++.+...+ +-+.++|+.|+|||++++...... . ...| .+.-++.+...+...+++.+-..+......      
T Consensus        23 ~~ll~~l~~~~-~pvLl~G~~GtGKT~li~~~l~~l-~-~~~~-~~~~~~~s~~Tts~~~q~~ie~~l~k~~~~------   92 (272)
T PF12775_consen   23 SYLLDLLLSNG-RPVLLVGPSGTGKTSLIQNFLSSL-D-SDKY-LVITINFSAQTTSNQLQKIIESKLEKRRGR------   92 (272)
T ss_dssp             HHHHHHHHHCT-EEEEEESSTTSSHHHHHHHHHHCS-T-TCCE-EEEEEES-TTHHHHHHHHCCCTTECECTTE------
T ss_pred             HHHHHHHHHcC-CcEEEECCCCCchhHHHHhhhccC-C-cccc-ceeEeeccCCCCHHHHHHHHhhcEEcCCCC------
Confidence            44555555544 455799999999999999988765 2 2222 244556666555555443322222110000      


Q ss_pred             hHHHHHHHHHhccCcEEEEEeccC
Q 048126          216 EDKASDILRILSKKKFLLLLDDIW  239 (863)
Q Consensus       216 ~~~~~~l~~~l~~kr~LlVlDdv~  239 (863)
                            ...--.+|+.++.+||+.
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                  000013578888899985

>TIGR00150 HI0065_YjeE ATPase, YjeE family

Probab=94.73  E-value=0.052  Score=49.11  Aligned_cols=38  Identities=29%  Similarity=0.352  Sum_probs=28.7

Q ss_pred             HHHHHHHHhcC--CCccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          134 MFDKVWRCLGE--EQVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       134 ~~~~l~~~L~~--~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      +.+++-+.|..  ..-.+|.+.|.-|+||||+++.++...
T Consensus         7 ~t~~l~~~l~~~l~~~~~i~l~G~lGaGKTtl~~~l~~~l   46 (133)
T TIGR00150         7 AMDKFGKAFAKPLDFGTVVLLKGDLGAGKTTLVQGLLQGL   46 (133)
T ss_pred             HHHHHHHHHHHhCCCCCEEEEEcCCCCCHHHHHHHHHHHc
Confidence            34444444433  244689999999999999999999986

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.

>TIGR03575 selen_PSTK_euk L-seryl-tRNA(Sec) kinase, eukaryotic

Probab=94.72  E-value=0.098  Score=55.66  Aligned_cols=22  Identities=32%  Similarity=0.478  Sum_probs=20.2

Q ss_pred             EEEEcCCCCcHHHHHHHHHhhh
Q 048126          150 IGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       150 i~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      +.+.|++|+||||+++.+.+..
T Consensus         2 ~~l~Gl~GaGKST~~~~l~~~l   23 (340)
T TIGR03575         2 CVLCGLPAAGKSTLARSLSATL   23 (340)
T ss_pred             eEEECCCCCCHHHHHHHHHHHH
Confidence            5789999999999999999887

Members of this protein are L-seryl-tRNA(Sec) kinase. This enzyme is part of a two-step pathway in Eukaryota and Archaea for performing selenocysteine biosynthesis by changing serine misacylated on selenocysteine-tRNA to selenocysteine. This enzyme performs the first step, phosphorylation of the OH group of the serine side chain. This family represents eukaryotic proteins with this activity.

>KOG3347 consensus Predicted nucleotide kinase/nuclear protein involved oxidative stress response [Nucleotide transport and metabolism]

Probab=94.72  E-value=0.044  Score=49.34  Aligned_cols=70  Identities=14%  Similarity=0.173  Sum_probs=40.6

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHHHHhCCCCccccCCChhHHHHHHHHHh
Q 048126          147 VGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGRRIGFLDESWKNGSLEDKASDILRIL  226 (863)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l  226 (863)
                      .+-|.|.|.+|+||||+|..++...     .|   -|+++|+-..-..++...=++..     +..-+.+.+.+.|...+
T Consensus         7 ~PNILvtGTPG~GKstl~~~lae~~-----~~---~~i~isd~vkEn~l~~gyDE~y~-----c~i~DEdkv~D~Le~~m   73 (176)
T KOG3347|consen    7 RPNILVTGTPGTGKSTLAERLAEKT-----GL---EYIEISDLVKENNLYEGYDEEYK-----CHILDEDKVLDELEPLM   73 (176)
T ss_pred             CCCEEEeCCCCCCchhHHHHHHHHh-----CC---ceEehhhHHhhhcchhccccccc-----CccccHHHHHHHHHHHH
Confidence            3567899999999999999999655     22   36666654333333322211111     12234455666665555


Q ss_pred             ccC
Q 048126          227 SKK  229 (863)
Q Consensus       227 ~~k  229 (863)
                      .+.
T Consensus        74 ~~G   76 (176)
T KOG3347|consen   74 IEG   76 (176)
T ss_pred             hcC
Confidence            443

>KOG1532 consensus GTPase XAB1, interacts with DNA repair protein XPA [Replication, recombination and repair]

Probab=94.71  E-value=0.17  Score=50.42  Aligned_cols=62  Identities=24%  Similarity=0.330  Sum_probs=39.1

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEE-------EEeCCccCHHHH--HHHHHHHhCCCCc
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIW-------VVVSKDLQLEKI--QEKIGRRIGFLDE  208 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~w-------v~~s~~~~~~~~--~~~i~~~l~~~~~  208 (863)
                      +...|.++||+|.||||..+.++.... .+..-..++=       +......|+++.  ++...++.++...
T Consensus        18 ~p~~ilVvGMAGSGKTTF~QrL~~hl~-~~~~ppYviNLDPAv~~vpy~aniDIRDtVkYkEvMkqY~LGPN   88 (366)
T KOG1532|consen   18 RPVIILVVGMAGSGKTTFMQRLNSHLH-AKKTPPYVINLDPAVRNVPYPANIDIRDTVKYKEVMKQYQLGPN   88 (366)
T ss_pred             CCcEEEEEecCCCCchhHHHHHHHHHh-hccCCCeEEeCCHHHhcCCCccCCchhhhhhHHHHHHHhCCCCC
Confidence            456888999999999999999988872 2221111221       112334456553  6777888776543

>PRK13765 ATP-dependent protease Lon; Provisional

Probab=94.69  E-value=0.056  Score=62.66  Aligned_cols=75  Identities=12%  Similarity=0.165  Sum_probs=57.2

Q ss_pred             CCccchhHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHHHHhCC
Q 048126          126 EPTVGLESMFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGRRIGF  205 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~  205 (863)
                      +.++|.+..++.+...+...  +.+.++|.+|+||||+|+.+++...  ..+++..+|+.-+ ..+...+++.++.+++.
T Consensus        31 ~~vigq~~a~~~L~~~~~~~--~~~l~~G~~G~GKttla~~l~~~l~--~~~~~~~~~~~np-~~~~~~~~~~v~~~~G~  105 (637)
T PRK13765         31 DQVIGQEHAVEVIKKAAKQR--RHVMMIGSPGTGKSMLAKAMAELLP--KEELQDILVYPNP-EDPNNPKIRTVPAGKGK  105 (637)
T ss_pred             HHcCChHHHHHHHHHHHHhC--CeEEEECCCCCcHHHHHHHHHHHcC--hHhHHHheEeeCC-CcchHHHHHHHHHhcCH
Confidence            45789999888888877654  4688999999999999999998762  3456778887653 33667777777766653

>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=94.68  E-value=0.14  Score=57.21  Aligned_cols=88  Identities=22%  Similarity=0.252  Sum_probs=49.0

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCC-ccCHHHHHHHHHHHhCCCCccccCCChhHHHHHHHHH
Q 048126          147 VGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSK-DLQLEKIQEKIGRRIGFLDESWKNGSLEDKASDILRI  225 (863)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~-~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~  225 (863)
                      ..|++++|+.|+||||++.+++... ..+..-..+..|+... .....+-++..++.++.....  ..+..+....+ ..
T Consensus       256 g~Vi~LvGpnGvGKTTTiaKLA~~~-~~~~G~~kV~LI~~Dt~RigA~EQLr~~AeilGVpv~~--~~~~~Dl~~aL-~~  331 (484)
T PRK06995        256 GGVFALMGPTGVGKTTTTAKLAARC-VMRHGASKVALLTTDSYRIGGHEQLRIYGKILGVPVHA--VKDAADLRLAL-SE  331 (484)
T ss_pred             CcEEEEECCCCccHHHHHHHHHHHH-HHhcCCCeEEEEeCCccchhHHHHHHHHHHHhCCCeec--cCCchhHHHHH-Hh
Confidence            4699999999999999999999876 2222222455555432 123344555566666654321  11222222222 23


Q ss_pred             hccCcEEEEEeccC
Q 048126          226 LSKKKFLLLLDDIW  239 (863)
Q Consensus       226 l~~kr~LlVlDdv~  239 (863)
                      ++++ ..+++|-.-
T Consensus       332 L~d~-d~VLIDTaG  344 (484)
T PRK06995        332 LRNK-HIVLIDTIG  344 (484)
T ss_pred             ccCC-CeEEeCCCC
Confidence            3444 366667654

>PRK00625 shikimate kinase; Provisional

Probab=94.66  E-value=0.026  Score=54.11  Aligned_cols=23  Identities=35%  Similarity=0.372  Sum_probs=21.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 048126          149 IIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      .|.++||+|+||||+++.+++..
T Consensus         2 ~I~LiG~pGsGKTT~~k~La~~l   24 (173)
T PRK00625          2 QIFLCGLPTVGKTSFGKALAKFL   24 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            47899999999999999999886

>cd03246 ABCC_Protease_Secretion This family represents the ABC component of the protease secretion system PrtD, a 60-kDa integral membrane protein sharing 37% identity with HlyB, the ABC component of the alpha-hemolysin secretion pathway, in the C-terminal domain

Probab=94.64  E-value=0.091  Score=50.71  Aligned_cols=26  Identities=31%  Similarity=0.349  Sum_probs=23.0

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      .-.+++|+|..|.|||||++.++.-.
T Consensus        27 ~Ge~~~i~G~nGsGKStLl~~l~G~~   52 (173)
T cd03246          27 PGESLAIIGPSGSGKSTLARLILGLL   52 (173)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhcc
Confidence            34689999999999999999998765

They export degradative enzymes by using a type I protein secretion system and lack an N-terminal signal peptide, but contain a C-terminal secretion signal. The Type I secretion apparatus is made up of three components, an ABC transporter, a membrane fusion protein (MFP), and an outer membrane protein (OMP). For the HlyA transporter complex, HlyB (ABC transporter) and HlyD (MFP) reside in the inner membrane of E. coli. The OMP component is TolC, which is thought to interact with the MFP to form a continuous channel across the periplasm from the cytoplasm to the exterior. HlyB belongs to the family of ABC transporters, which are ubiquitous, ATP-dependent transmembrane pumps or channels. The spectrum of transport substra

>cd02027 APSK Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS)

Probab=94.64  E-value=0.11  Score=48.56  Aligned_cols=23  Identities=39%  Similarity=0.684  Sum_probs=21.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 048126          149 IIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      +|.|+|.+|+||||+|+.+....
T Consensus         1 ~i~i~G~~GsGKSTla~~L~~~l   23 (149)
T cd02027           1 VIWLTGLSGSGKSTIARALEEKL   23 (149)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHH
Confidence            57899999999999999999886

The end-product PAPS is a biologically "activated" sulfate form important for the assimilation of inorganic sulfate.

>PRK08533 flagellar accessory protein FlaH; Reviewed

Probab=94.62  E-value=0.21  Score=50.61  Aligned_cols=53  Identities=19%  Similarity=0.263  Sum_probs=34.7

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHHHHhC
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGRRIG  204 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~  204 (863)
                      .-.++.|.|..|+||||+|.+++....  +.. ..++|++...  +..++.+.+ .+++
T Consensus        23 ~g~~~~i~G~~G~GKTtl~~~~~~~~~--~~g-~~~~yi~~e~--~~~~~~~~~-~~~g   75 (230)
T PRK08533         23 AGSLILIEGDESTGKSILSQRLAYGFL--QNG-YSVSYVSTQL--TTTEFIKQM-MSLG   75 (230)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHH--hCC-CcEEEEeCCC--CHHHHHHHH-HHhC
Confidence            456999999999999999877666541  222 3467776333  445666555 3444

>PRK04040 adenylate kinase; Provisional

Probab=94.62  E-value=0.029  Score=54.71  Aligned_cols=24  Identities=46%  Similarity=0.652  Sum_probs=22.5

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          148 GIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      .+|+|+|++|+||||+++.+....
T Consensus         3 ~~i~v~G~pG~GKtt~~~~l~~~l   26 (188)
T PRK04040          3 KVVVVTGVPGVGKTTVLNKALEKL   26 (188)
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHHh
Confidence            589999999999999999999887

>PRK08927 fliI flagellum-specific ATP synthase; Validated

Probab=94.56  E-value=0.11  Score=57.03  Aligned_cols=91  Identities=19%  Similarity=0.242  Sum_probs=53.7

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccC-HHHHHHHHHHHhCCCCc-----cccCCChh---
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQ-LEKIQEKIGRRIGFLDE-----SWKNGSLE---  216 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~-~~~~~~~i~~~l~~~~~-----~~~~~~~~---  216 (863)
                      .-..++|+|..|+|||||++.++...     ..+.++++-+++... +.++....+..-+....     ..+.....   
T Consensus       157 ~Gqri~I~G~sG~GKTtLL~~I~~~~-----~~d~~v~~~iGER~rEv~ef~~~~l~~~~l~rsvvv~atsd~~~~~r~~  231 (442)
T PRK08927        157 RGQRMGIFAGSGVGKSVLLSMLARNA-----DADVSVIGLIGERGREVQEFLQDDLGPEGLARSVVVVATSDEPALMRRQ  231 (442)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhcc-----CCCEEEEEEEecCcHHHHHHHHHHhhccCceeEEEEEECCCCCHHHHHH
Confidence            45688999999999999999999765     224556666766543 34554444433221110     00111111   


Q ss_pred             --HHHHHHHHHh--ccCcEEEEEeccCCc
Q 048126          217 --DKASDILRIL--SKKKFLLLLDDIWER  241 (863)
Q Consensus       217 --~~~~~l~~~l--~~kr~LlVlDdv~~~  241 (863)
                        ..+-.+.+++  +++.+|+++||+...
T Consensus       232 a~~~a~tiAEyfrd~G~~Vll~~DslTr~  260 (442)
T PRK08927        232 AAYLTLAIAEYFRDQGKDVLCLMDSVTRF  260 (442)
T ss_pred             HHHHHHHHHHHHHHCCCcEEEEEeCcHHH
Confidence              1122344444  478999999999653

>PTZ00088 adenylate kinase 1; Provisional

Probab=94.55  E-value=0.031  Score=56.31  Aligned_cols=23  Identities=39%  Similarity=0.533  Sum_probs=21.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 048126          149 IIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      .|.|.|++|+||||+|+.+++..
T Consensus         8 rIvl~G~PGsGK~T~a~~La~~~   30 (229)
T PTZ00088          8 KIVLFGAPGVGKGTFAEILSKKE   30 (229)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHh
Confidence            38899999999999999999886

>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=94.53  E-value=0.024  Score=50.38  Aligned_cols=28  Identities=39%  Similarity=0.503  Sum_probs=19.6

Q ss_pred             EEEEcCCCCcHHHHHHHHHhhhcCCCCCCCE
Q 048126          150 IGLYGMGGVGKTTLLTKINNKLLGAPNDFDV  180 (863)
Q Consensus       150 i~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~  180 (863)
                      |-|+|.+|+||||+|+.++...   ...|..
T Consensus         2 vLleg~PG~GKT~la~~lA~~~---~~~f~R   29 (131)
T PF07726_consen    2 VLLEGVPGVGKTTLAKALARSL---GLSFKR   29 (131)
T ss_dssp             EEEES---HHHHHHHHHHHHHT---T--EEE
T ss_pred             EeeECCCccHHHHHHHHHHHHc---CCceeE
Confidence            5689999999999999999987   566643

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.

>PRK10416 signal recognition particle-docking protein FtsY; Provisional

Probab=94.52  E-value=0.35  Score=51.38  Aligned_cols=26  Identities=38%  Similarity=0.537  Sum_probs=24.0

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ...+|+++|++|+||||++..++...
T Consensus       113 ~~~vi~lvGpnGsGKTTt~~kLA~~l  138 (318)
T PRK10416        113 KPFVILVVGVNGVGKTTTIGKLAHKY  138 (318)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHH
Confidence            46799999999999999999999887

>PF03205 MobB: Molybdopterin guanine dinucleotide synthesis protein B; PDB: 2F1R_B 1P9N_A 1NP6_B 2NPI_A 1XJC_A

Probab=94.52  E-value=0.052  Score=50.07  Aligned_cols=39  Identities=26%  Similarity=0.384  Sum_probs=29.0

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCC
Q 048126          148 GIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSK  188 (863)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~  188 (863)
                      ++|.|+|..|+|||||++.+.+...  +..+...++.+...
T Consensus         1 pvv~VvG~~~sGKTTl~~~Li~~l~--~~g~~v~~ik~~~~   39 (140)
T PF03205_consen    1 PVVQVVGPKNSGKTTLIRKLINELK--RRGYRVAVIKHTDH   39 (140)
T ss_dssp             -EEEEEESTTSSHHHHHHHHHHHHH--HTT--EEEEEE-ST
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHh--HcCCceEEEEEccC
Confidence            4799999999999999999999983  35666666666554

>PRK05922 type III secretion system ATPase; Validated

Probab=94.49  E-value=0.12  Score=56.67  Aligned_cols=91  Identities=14%  Similarity=0.226  Sum_probs=51.8

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCcc-CHHHHHHHHHHHhCCCCc-----cccCCChh---
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDL-QLEKIQEKIGRRIGFLDE-----SWKNGSLE---  216 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~-~~~~~~~~i~~~l~~~~~-----~~~~~~~~---  216 (863)
                      .-..++|+|..|+|||||++.+....     ..+...++.++... .....+.+..........     ..+.....   
T Consensus       156 ~GqrigI~G~nG~GKSTLL~~Ia~~~-----~~d~gvi~liGerg~ev~eyl~q~~~~~~~~rTVlv~atsd~~~~~r~~  230 (434)
T PRK05922        156 KGQRIGVFSEPGSGKSSLLSTIAKGS-----KSTINVIALIGERGREVREYIEQHKEGLAAQRTIIIASPAHETAPTKVI  230 (434)
T ss_pred             CCcEEEEECCCCCChHHHHHHHhccC-----CCCceEEEEeCCCCchHHHHHHHHHhhccccceEEEEECCCCCHHHHHH
Confidence            44579999999999999999998764     22344444444432 334455444433322110     00111111   


Q ss_pred             --HHHHHHHHHh--ccCcEEEEEeccCCc
Q 048126          217 --DKASDILRIL--SKKKFLLLLDDIWER  241 (863)
Q Consensus       217 --~~~~~l~~~l--~~kr~LlVlDdv~~~  241 (863)
                        ..+-.+.+++  +++++|+++||+...
T Consensus       231 a~~~a~tiAEyfrd~G~~VLl~~DslTR~  259 (434)
T PRK05922        231 AGRAAMTIAEYFRDQGHRVLFIMDSLSRW  259 (434)
T ss_pred             HHHHHHHHHHHHHHcCCCEEEeccchhHH
Confidence              1222344554  479999999999653

>PRK06936 type III secretion system ATPase; Provisional

Probab=94.41  E-value=0.12  Score=56.63  Aligned_cols=91  Identities=20%  Similarity=0.307  Sum_probs=54.8

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccC-HHHHHHHHHHHhCCCCccc----cCCChhH---
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQ-LEKIQEKIGRRIGFLDESW----KNGSLED---  217 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~-~~~~~~~i~~~l~~~~~~~----~~~~~~~---  217 (863)
                      +-..++|.|..|+|||||.+.+++..     .-+.++++-+++... +.++.+..+..-+......    ...+...   
T Consensus       161 ~Gq~~~I~G~sG~GKStLl~~Ia~~~-----~~dv~V~~liGERgrEv~ef~~~~l~~~~l~rtvvv~atsd~p~~~R~~  235 (439)
T PRK06936        161 EGQRMGIFAAAGGGKSTLLASLIRSA-----EVDVTVLALIGERGREVREFIESDLGEEGLRKAVLVVATSDRPSMERAK  235 (439)
T ss_pred             CCCEEEEECCCCCChHHHHHHHhcCC-----CCCEEEEEEEccCcHHHHHHHHHHhcccccceeEEEEECCCCCHHHHHH
Confidence            45689999999999999999999875     235778888877643 4444444333211111000    1111111   


Q ss_pred             ---HHHHHHHHh--ccCcEEEEEeccCCc
Q 048126          218 ---KASDILRIL--SKKKFLLLLDDIWER  241 (863)
Q Consensus       218 ---~~~~l~~~l--~~kr~LlVlDdv~~~  241 (863)
                         .+-.+.+++  +++++|+++||+...
T Consensus       236 a~~~a~tiAEyfrd~G~~Vll~~DslTR~  264 (439)
T PRK06936        236 AGFVATSIAEYFRDQGKRVLLLMDSVTRF  264 (439)
T ss_pred             HHHHHHHHHHHHHHcCCCEEEeccchhHH
Confidence               122234444  579999999999653

>TIGR02030 BchI-ChlI magnesium chelatase ATPase subunit I

Probab=94.41  E-value=0.065  Score=57.25  Aligned_cols=47  Identities=21%  Similarity=0.273  Sum_probs=39.8

Q ss_pred             CCCccchhHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          125 CEPTVGLESMFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       125 ~~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      -..+||.+..+..++-.+.++...-+.|.|..|+|||||++.+..-.
T Consensus         3 f~~ivgq~~~~~al~~~~~~~~~g~vli~G~~G~gKttl~r~~~~~~   49 (337)
T TIGR02030         3 FTAIVGQDEMKLALLLNVIDPKIGGVMVMGDRGTGKSTAVRALAALL   49 (337)
T ss_pred             ccccccHHHHHHHHHHHhcCCCCCeEEEEcCCCCCHHHHHHHHHHhh
Confidence            35679999999888777777667778899999999999999998665

This model represents one of two ATPase subunits of the trimeric magnesium chelatase responsible for insertion of magnesium ion into protoporphyrin IX. This is an essential step in the biosynthesis of both chlorophyll and bacteriochlorophyll. This subunit is found in green plants, photosynthetic algae, cyanobacteria and other photosynthetic bacteria.

>PF00625 Guanylate_kin: Guanylate kinase; InterPro: IPR008144 Guanylate kinase (2

Probab=94.41  E-value=0.057  Score=52.69  Aligned_cols=36  Identities=31%  Similarity=0.446  Sum_probs=30.1

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEE
Q 048126          147 VGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVV  185 (863)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~  185 (863)
                      .++|.|+|+.|+|||||++.+....   ...|..++..+
T Consensus         2 ~r~ivl~Gpsg~GK~~l~~~L~~~~---~~~~~~~v~~T   37 (183)
T PF00625_consen    2 RRPIVLVGPSGSGKSTLAKRLIQEF---PDKFGRVVSHT   37 (183)
T ss_dssp             SSEEEEESSTTSSHHHHHHHHHHHS---TTTEEEEEEEE
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHhc---ccccccceeec
Confidence            4789999999999999999999987   57786555554

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 ....

>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=94.39  E-value=0.069  Score=53.54  Aligned_cols=58  Identities=22%  Similarity=0.226  Sum_probs=36.2

Q ss_pred             HHHHHHHHhcC--CCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCH
Q 048126          134 MFDKVWRCLGE--EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQL  192 (863)
Q Consensus       134 ~~~~l~~~L~~--~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~  192 (863)
                      ...++++.+..  .+..+|+|.|++|+|||||.-.+...++ .+.+=-.++-|.-|.+++-
T Consensus        14 ~~~~ll~~l~~~~g~a~~iGiTG~PGaGKSTli~~l~~~~~-~~g~~VaVlAVDPSSp~tG   73 (266)
T PF03308_consen   14 EARELLKRLYPHTGRAHVIGITGPPGAGKSTLIDALIRELR-ERGKRVAVLAVDPSSPFTG   73 (266)
T ss_dssp             HHHHHHHHHGGGTT-SEEEEEEE-TTSSHHHHHHHHHHHHH-HTT--EEEEEE-GGGGCC-
T ss_pred             HHHHHHHHHHhhcCCceEEEeeCCCCCcHHHHHHHHHHHHh-hcCCceEEEEECCCCCCCC
Confidence            34455555543  4678999999999999999999998883 2222234555555555543

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.

>TIGR00764 lon_rel lon-related putative ATP-dependent protease

Probab=94.36  E-value=0.11  Score=60.33  Aligned_cols=75  Identities=15%  Similarity=0.173  Sum_probs=51.9

Q ss_pred             CCccchhHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHHHHhCC
Q 048126          126 EPTVGLESMFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGRRIGF  205 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~  205 (863)
                      +.++|.+..++.+...+....  -+.++|++|+||||+|+.+++.. . ...|...+++.-+. .+...+++.++.+++.
T Consensus        18 ~~viG~~~a~~~l~~a~~~~~--~~ll~G~pG~GKT~la~~la~~l-~-~~~~~~~~~~~n~~-~~~~~~~~~v~~~~g~   92 (608)
T TIGR00764        18 DQVIGQEEAVEIIKKAAKQKR--NVLLIGEPGVGKSMLAKAMAELL-P-DEELEDILVYPNPE-DPNMPRIVEVPAGEGR   92 (608)
T ss_pred             hhccCHHHHHHHHHHHHHcCC--CEEEECCCCCCHHHHHHHHHHHc-C-chhheeEEEEeCCC-CCchHHHHHHHHhhch
Confidence            567899998888887776543  55599999999999999999887 2 23444444444332 2445567777766653

Members of this family from Pyrococcus horikoshii and Pyrococcus abyssi each contain a predicted intein.

>PRK08149 ATP synthase SpaL; Validated

Probab=94.35  E-value=0.14  Score=56.06  Aligned_cols=91  Identities=15%  Similarity=0.234  Sum_probs=53.0

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCcc-CHHHHHHHHHHHhCCCC-----ccccCCCh----
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDL-QLEKIQEKIGRRIGFLD-----ESWKNGSL----  215 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~-~~~~~~~~i~~~l~~~~-----~~~~~~~~----  215 (863)
                      +-..++|+|..|+|||||++.++...     .-+.+++..+.... ++.++............     ...+....    
T Consensus       150 ~Gq~i~I~G~sG~GKTTLl~~i~~~~-----~~dv~v~g~Ig~rg~ev~e~~~~~l~~~~~~~~~vV~~~sd~p~~~r~~  224 (428)
T PRK08149        150 VGQRMGIFASAGCGKTSLMNMLIEHS-----EADVFVIGLIGERGREVTEFVESLRASSRREKCVLVYATSDFSSVDRCN  224 (428)
T ss_pred             cCCEEEEECCCCCChhHHHHHHhcCC-----CCCeEEEEEEeeCCccHHHHHHHHhhcccccceEEEEECCCCCHHHHHh
Confidence            45689999999999999999998754     22344444444433 45566666655332111     00011111    


Q ss_pred             -hHHHHHHHHHh--ccCcEEEEEeccCCc
Q 048126          216 -EDKASDILRIL--SKKKFLLLLDDIWER  241 (863)
Q Consensus       216 -~~~~~~l~~~l--~~kr~LlVlDdv~~~  241 (863)
                       ...+..+.+++  ++|++||++||+-..
T Consensus       225 a~~~a~tiAE~fr~~G~~Vll~~DslTr~  253 (428)
T PRK08149        225 AALVATTVAEYFRDQGKRVVLFIDSMTRY  253 (428)
T ss_pred             HHHHHHHHHHHHHHcCCCEEEEccchHHH
Confidence             11223334444  479999999998653

>TIGR03878 thermo_KaiC_2 KaiC domain protein, AF_0795 family

Probab=94.30  E-value=0.28  Score=50.72  Aligned_cols=41  Identities=17%  Similarity=0.327  Sum_probs=31.4

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCc
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKD  189 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~  189 (863)
                      .-+++.|.|.+|+|||++|.+++....   ..=..++|++...+
T Consensus        35 ~gs~~lI~G~pGtGKT~l~~qf~~~~a---~~Ge~vlyis~Ee~   75 (259)
T TIGR03878        35 AYSVINITGVSDTGKSLMVEQFAVTQA---SRGNPVLFVTVESP   75 (259)
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHHHH---hCCCcEEEEEecCC
Confidence            457999999999999999999877652   22346788887643

This KaiC domain-containing protein family occurs sporadically across a broad taxonomic range (Euryarchaeota, Aquificae, Dictyoglomi, Epsilonproteobacteria, and Firmicutes), but exclusively in thermophiles.

>PRK05973 replicative DNA helicase; Provisional

Probab=94.30  E-value=0.26  Score=49.61  Aligned_cols=49  Identities=12%  Similarity=0.165  Sum_probs=34.3

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHH
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKI  199 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i  199 (863)
                      .-.++.|.|.+|+|||++|.+++....  +. =..++|++...+  ..++...+
T Consensus        63 ~Gsl~LIaG~PG~GKT~lalqfa~~~a--~~-Ge~vlyfSlEes--~~~i~~R~  111 (237)
T PRK05973         63 PGDLVLLGARPGHGKTLLGLELAVEAM--KS-GRTGVFFTLEYT--EQDVRDRL  111 (237)
T ss_pred             CCCEEEEEeCCCCCHHHHHHHHHHHHH--hc-CCeEEEEEEeCC--HHHHHHHH
Confidence            446899999999999999999877662  22 245777766554  44454443

>TIGR01359 UMP_CMP_kin_fam UMP-CMP kinase family

Probab=94.30  E-value=0.031  Score=54.60  Aligned_cols=23  Identities=30%  Similarity=0.397  Sum_probs=21.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 048126          149 IIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      +|.|+|++|+||||+|+.++...
T Consensus         1 ~i~i~G~pGsGKst~a~~la~~~   23 (183)
T TIGR01359         1 VVFVLGGPGSGKGTQCAKIVENF   23 (183)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHc
Confidence            57899999999999999999876

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.

>KOG1051 consensus Chaperone HSP104 and related ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones]

Probab=94.29  E-value=0.15  Score=60.39  Aligned_cols=102  Identities=17%  Similarity=0.250  Sum_probs=65.4

Q ss_pred             CCccchhHHHHHHHHHhcC------C--CccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHH
Q 048126          126 EPTVGLESMFDKVWRCLGE------E--QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQE  197 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~------~--~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~  197 (863)
                      ..++|-++.+..|.+.+..      +  ....+.+.|+.|+|||-||++++.-.   .+..+..+-|+.|.-      ..
T Consensus       562 ~~V~gQ~eAv~aIa~AI~~sr~gl~~~~~~awflflGpdgvGKt~lAkaLA~~~---Fgse~~~IriDmse~------~e  632 (898)
T KOG1051|consen  562 ERVIGQDEAVAAIAAAIRRSRAGLKDPNPDAWFLFLGPDGVGKTELAKALAEYV---FGSEENFIRLDMSEF------QE  632 (898)
T ss_pred             hhccchHHHHHHHHHHHHhhhcccCCCCCCeEEEEECCCchhHHHHHHHHHHHH---cCCccceEEechhhh------hh
Confidence            3457888888888888753      1  34567889999999999999999877   455555555544432      22


Q ss_pred             HHHHHhCCCCccccCCChhHHHHHHHHHhccCcEE-EEEeccCCc
Q 048126          198 KIGRRIGFLDESWKNGSLEDKASDILRILSKKKFL-LLLDDIWER  241 (863)
Q Consensus       198 ~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~kr~L-lVlDdv~~~  241 (863)
                       +.+.++.+.    .-...+....|-+.++.++|- |+||||...
T Consensus       633 -vskligsp~----gyvG~e~gg~LteavrrrP~sVVLfdeIEkA  672 (898)
T KOG1051|consen  633 -VSKLIGSPP----GYVGKEEGGQLTEAVKRRPYSVVLFEEIEKA  672 (898)
T ss_pred             -hhhccCCCc----ccccchhHHHHHHHHhcCCceEEEEechhhc
Confidence             333333321    111223344677888888874 555999753

>PRK00131 aroK shikimate kinase; Reviewed

Probab=94.22  E-value=0.043  Score=52.98  Aligned_cols=25  Identities=32%  Similarity=0.369  Sum_probs=23.0

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          147 VGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ...|.++|++|+||||+|+.++...
T Consensus         4 ~~~i~l~G~~GsGKstla~~La~~l   28 (175)
T PRK00131          4 GPNIVLIGFMGAGKSTIGRLLAKRL   28 (175)
T ss_pred             CCeEEEEcCCCCCHHHHHHHHHHHh
Confidence            4589999999999999999999987

>COG1936 Predicted nucleotide kinase (related to CMP and AMP kinases) [Nucleotide transport and metabolism]

Probab=94.22  E-value=0.036  Score=51.62  Aligned_cols=20  Identities=40%  Similarity=0.647  Sum_probs=19.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHH
Q 048126          149 IIGLYGMGGVGKTTLLTKIN  168 (863)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~  168 (863)
                      .|+|.|.+|+||||+++.+.
T Consensus         2 ~I~ITGTPGvGKTT~~~~L~   21 (180)
T COG1936           2 LIAITGTPGVGKTTVCKLLR   21 (180)
T ss_pred             eEEEeCCCCCchHHHHHHHH
Confidence            68999999999999999998

>cd03221 ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth

Probab=94.20  E-value=0.15  Score=47.34  Aligned_cols=103  Identities=21%  Similarity=0.295  Sum_probs=54.8

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHHHHhCCCCccccCCChhHHHHHHHHH
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGRRIGFLDESWKNGSLEDKASDILRI  225 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~  225 (863)
                      .-.+++|+|..|.|||||++.+..-. .   .....+|+.-.             ..++...   +-..-+...-.+...
T Consensus        25 ~Ge~~~i~G~nGsGKStLl~~l~G~~-~---~~~G~i~~~~~-------------~~i~~~~---~lS~G~~~rv~lara   84 (144)
T cd03221          25 PGDRIGLVGRNGAGKSTLLKLIAGEL-E---PDEGIVTWGST-------------VKIGYFE---QLSGGEKMRLALAKL   84 (144)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHcCCC-C---CCceEEEECCe-------------EEEEEEc---cCCHHHHHHHHHHHH
Confidence            34689999999999999999998765 2   22333443210             0000000   011112222334555


Q ss_pred             hccCcEEEEEeccCCccc---cccccCCCCCCCCCcEEEEecCchhhh
Q 048126          226 LSKKKFLLLLDDIWERVD---LTKVGVPFPDPENKSKIVFTTRFLEIC  270 (863)
Q Consensus       226 l~~kr~LlVlDdv~~~~~---~~~~~~~l~~~~~gs~IivTtR~~~v~  270 (863)
                      +-.++-++++|+.-..-|   ...+...+...  +..||++|.+.+..
T Consensus        85 l~~~p~illlDEP~~~LD~~~~~~l~~~l~~~--~~til~~th~~~~~  130 (144)
T cd03221          85 LLENPNLLLLDEPTNHLDLESIEALEEALKEY--PGTVILVSHDRYFL  130 (144)
T ss_pred             HhcCCCEEEEeCCccCCCHHHHHHHHHHHHHc--CCEEEEEECCHHHH
Confidence            666777899998754322   22222222111  23577787776554

EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated release of the deacylated tRNA from the E site. The reaction requires ATP hydrolysis. EF-3 contains two ATP nucleotide binding sequence (NBS) motifs. NBSI is sufficient for the intrinsic ATPase activity. NBSII is essential for the ribosome-stimulated functions.

>TIGR02902 spore_lonB ATP-dependent protease LonB

Probab=94.20  E-value=0.077  Score=60.88  Aligned_cols=46  Identities=22%  Similarity=0.268  Sum_probs=38.6

Q ss_pred             CCccchhHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          126 EPTVGLESMFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ++++|.+..++.+...+......-+.|+|..|+|||++|+.+++..
T Consensus        65 ~~iiGqs~~i~~l~~al~~~~~~~vLi~Ge~GtGKt~lAr~i~~~~  110 (531)
T TIGR02902        65 DEIIGQEEGIKALKAALCGPNPQHVIIYGPPGVGKTAAARLVLEEA  110 (531)
T ss_pred             HHeeCcHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHHHHHHHHh
Confidence            3579999999999888766555667899999999999999998753

Members of this protein are LonB, a paralog of the ATP-dependent protease La (LonA, TIGR00763). LonB proteins are found strictly, and almost universally, in endospore-forming bacteria. This protease was shown, in Bacillus subtilis, to be expressed specifically in the forespore, during sporulation, under control of sigma(F). The lonB gene, despite location immediately upstream of lonA, was shown to be monocistronic. LonB appears able to act on sigma(H) for post-translation control, but lonB mutation did not produce an obvious sporulation defect under the conditions tested. Note that additional paralogs of LonA and LonB occur in the Clostridium lineage and this model selects only one per species as the protein that corresponds to LonB in B. subtilis.

>PRK05201 hslU ATP-dependent protease ATP-binding subunit HslU; Provisional

Probab=94.20  E-value=0.11  Score=56.29  Aligned_cols=46  Identities=24%  Similarity=0.255  Sum_probs=37.5

Q ss_pred             CCccchhHHHHHHHHHhcC---------C-----CccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          126 EPTVGLESMFDKVWRCLGE---------E-----QVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~---------~-----~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ..++|.+..+..+..++..         +     ..+-|.++|+.|+|||++|+.++...
T Consensus        15 ~~IiGQe~AkkalavAl~~~~~r~~l~~~~~~e~~~~~ILliGp~G~GKT~LAr~LAk~l   74 (443)
T PRK05201         15 KYIIGQDDAKRAVAIALRNRWRRMQLPEELRDEVTPKNILMIGPTGVGKTEIARRLAKLA   74 (443)
T ss_pred             cccCCHHHHHHHHHHHHHHHHHHhcCCcccccccCCceEEEECCCCCCHHHHHHHHHHHh
Confidence            4578999998888877732         0     14678999999999999999999886

>TIGR03305 alt_F1F0_F1_bet alternate F1F0 ATPase, F1 subunit beta

Probab=94.17  E-value=0.12  Score=56.88  Aligned_cols=94  Identities=23%  Similarity=0.327  Sum_probs=59.0

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccC-HHHHHHHHHHHhCCCCc-----cccCCChh---
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQ-LEKIQEKIGRRIGFLDE-----SWKNGSLE---  216 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~-~~~~~~~i~~~l~~~~~-----~~~~~~~~---  216 (863)
                      +-..++|.|..|+|||+|+.++.... . +.+-+.++|+-+++... +.++.+.+...-.....     +.+.....   
T Consensus       137 kGQr~~Ifg~~G~GKt~l~~~~~~~~-~-~~~~~v~V~~~iGeR~rEv~e~~~~~~~~~~l~rtvvv~~ts~~~~~~r~~  214 (449)
T TIGR03305       137 RGGKAGLFGGAGVGKTVLLTEMIHNM-V-GQHQGVSIFCGIGERCREGEELYREMKEAGVLDNTVMVFGQMNEPPGARFR  214 (449)
T ss_pred             cCCEEEeecCCCCChhHHHHHHHHHH-H-hcCCCEEEEEEeccCcHHHHHHHHHHhhccccceEEEEEeCCCCCHHHHHH
Confidence            44578999999999999999998775 2 23347888988877653 45666666543211110     00111111   


Q ss_pred             --HHHHHHHHHhc---cCcEEEEEeccCCc
Q 048126          217 --DKASDILRILS---KKKFLLLLDDIWER  241 (863)
Q Consensus       217 --~~~~~l~~~l~---~kr~LlVlDdv~~~  241 (863)
                        ..+-.+.++++   ++++|+++||+...
T Consensus       215 ~~~~a~tiAEyfrd~~G~~VLl~~DslTR~  244 (449)
T TIGR03305       215 VGHTALTMAEYFRDDEKQDVLLLIDNIFRF  244 (449)
T ss_pred             HHHHHHHHHHHHHHhcCCceEEEecChHHH
Confidence              12334456654   58999999998653

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.

>PRK05342 clpX ATP-dependent protease ATP-binding subunit ClpX; Provisional

Probab=94.17  E-value=0.13  Score=56.69  Aligned_cols=46  Identities=26%  Similarity=0.209  Sum_probs=35.4

Q ss_pred             CCccchhHHHHHHHHHhcC-------C---------CccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          126 EPTVGLESMFDKVWRCLGE-------E---------QVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~-------~---------~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ..+||.+..++.+...+..       .         ..+.+.++|+.|+|||++|+.++...
T Consensus        71 ~~ViGq~~ak~~l~~av~~~~~r~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~lAr~lA~~l  132 (412)
T PRK05342         71 QYVIGQERAKKVLSVAVYNHYKRLRHGDKKDDDVELQKSNILLIGPTGSGKTLLAQTLARIL  132 (412)
T ss_pred             hHeeChHHHHHHHHHHHHHHHHhhhcccccccccccCCceEEEEcCCCCCHHHHHHHHHHHh
Confidence            3468999988887655421       0         12568899999999999999999876

>COG0467 RAD55 RecA-superfamily ATPases implicated in signal transduction [Signal transduction mechanisms]

Probab=94.16  E-value=0.061  Score=55.83  Aligned_cols=55  Identities=18%  Similarity=0.286  Sum_probs=41.9

Q ss_pred             CCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHHHHhCC
Q 048126          145 EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGRRIGF  205 (863)
Q Consensus       145 ~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~  205 (863)
                      +.-+++.|+|.+|+|||++|.++....   ......++||+....  ...+.+...+ ++.
T Consensus        21 p~g~~~lI~G~pGsGKT~f~~qfl~~~---~~~ge~vlyvs~~e~--~~~l~~~~~~-~g~   75 (260)
T COG0467          21 PRGSVVLITGPPGTGKTIFALQFLYEG---AREGEPVLYVSTEES--PEELLENARS-FGW   75 (260)
T ss_pred             cCCcEEEEEcCCCCcHHHHHHHHHHHH---HhcCCcEEEEEecCC--HHHHHHHHHH-cCC
Confidence            466899999999999999999999887   445788999988765  4444444443 443

>COG1126 GlnQ ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]

Probab=94.16  E-value=0.31  Score=47.37  Aligned_cols=124  Identities=18%  Similarity=0.191  Sum_probs=67.3

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEe-------------------CCccC---------------
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVV-------------------SKDLQ---------------  191 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~-------------------s~~~~---------------  191 (863)
                      .-.|++|+|+.|.|||||.+.+..=. +.   =...+||.-                   -|.|+               
T Consensus        27 ~Gevv~iiGpSGSGKSTlLRclN~LE-~~---~~G~I~i~g~~~~~~~~~~~~R~~vGmVFQ~fnLFPHlTvleNv~lap  102 (240)
T COG1126          27 KGEVVVIIGPSGSGKSTLLRCLNGLE-EP---DSGSITVDGEDVGDKKDILKLRRKVGMVFQQFNLFPHLTVLENVTLAP  102 (240)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHCCc-CC---CCceEEECCEeccchhhHHHHHHhcCeecccccccccchHHHHHHhhh
Confidence            44699999999999999999986543 22   123444421                   12221               


Q ss_pred             ----------HHHHHHHHHHHhCCCCcc----ccCCChhHHHHHHHHHhccCcEEEEEeccCCccccccccCCC---C-C
Q 048126          192 ----------LEKIQEKIGRRIGFLDES----WKNGSLEDKASDILRILSKKKFLLLLDDIWERVDLTKVGVPF---P-D  253 (863)
Q Consensus       192 ----------~~~~~~~i~~~l~~~~~~----~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~~~l---~-~  253 (863)
                                .++...++++.+++.+..    ...+.-++..-.|.+.|.=++=++.||..-+.-|-+-+...+   . -
T Consensus       103 ~~v~~~~k~eA~~~A~~lL~~VGL~~ka~~yP~qLSGGQqQRVAIARALaM~P~vmLFDEPTSALDPElv~EVL~vm~~L  182 (240)
T COG1126         103 VKVKKLSKAEAREKALELLEKVGLADKADAYPAQLSGGQQQRVAIARALAMDPKVMLFDEPTSALDPELVGEVLDVMKDL  182 (240)
T ss_pred             HHHcCCCHHHHHHHHHHHHHHcCchhhhhhCccccCcHHHHHHHHHHHHcCCCCEEeecCCcccCCHHHHHHHHHHHHHH
Confidence                      233444445555543311    011223334445677777788899999987653332221111   1 1


Q ss_pred             CCCCcEEEEecCchhhhhcc
Q 048126          254 PENKSKIVFTTRFLEICGAM  273 (863)
Q Consensus       254 ~~~gs~IivTtR~~~v~~~~  273 (863)
                      ...|--.|+.|-....|...
T Consensus       183 A~eGmTMivVTHEM~FAr~V  202 (240)
T COG1126         183 AEEGMTMIIVTHEMGFAREV  202 (240)
T ss_pred             HHcCCeEEEEechhHHHHHh
Confidence            23465566666665555443

>cd02024 NRK1 Nicotinamide riboside kinase (NRK) is an enzyme involved in the metabolism of nicotinamide adenine dinucleotide (NAD+)

Probab=94.15  E-value=0.035  Score=53.80  Aligned_cols=23  Identities=39%  Similarity=0.615  Sum_probs=21.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 048126          149 IIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      +|+|.|.+|+||||+|+.++...
T Consensus         1 ii~i~G~sgsGKTtla~~l~~~~   23 (187)
T cd02024           1 IVGISGVTNSGKTTLAKLLQRIL   23 (187)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHc
Confidence            58999999999999999999876

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.

>PRK06002 fliI flagellum-specific ATP synthase; Validated

Probab=94.14  E-value=0.13  Score=56.62  Aligned_cols=91  Identities=21%  Similarity=0.222  Sum_probs=49.2

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHHHHh-----CCCCccccCCChh----
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGRRI-----GFLDESWKNGSLE----  216 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l-----~~~~~~~~~~~~~----  216 (863)
                      .-..++|+|..|+|||||++.++...    .....++++.--+.-++.++....+...     ..... .+.....    
T Consensus       164 ~Gqri~I~G~SGsGKTTLL~~Ia~l~----~pd~gvv~liGergrev~e~~~~~l~~~r~rtI~vV~q-sd~~~~~r~~~  238 (450)
T PRK06002        164 AGQRIGIFAGSGVGKSTLLAMLARAD----AFDTVVIALVGERGREVREFLEDTLADNLKKAVAVVAT-SDESPMMRRLA  238 (450)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCC----CCCeeeeeecccCCccHHHHhHHHHHHhhCCeEEEEEc-CCCCHHHHHHH
Confidence            34589999999999999999887654    1222344443223334554444333322     11110 0111111    


Q ss_pred             -HHHHHHHHHh--ccCcEEEEEeccCCc
Q 048126          217 -DKASDILRIL--SKKKFLLLLDDIWER  241 (863)
Q Consensus       217 -~~~~~l~~~l--~~kr~LlVlDdv~~~  241 (863)
                       ..+-.+.+++  +++.+|+++||+...
T Consensus       239 ~~~a~~iAEyfrd~G~~Vll~~DslTr~  266 (450)
T PRK06002        239 PLTATAIAEYFRDRGENVLLIVDSVTRF  266 (450)
T ss_pred             HHHHHHHHHHHHHcCCCEEEeccchHHH
Confidence             1122233444  478999999998653

>KOG0739 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=94.12  E-value=0.23  Score=50.18  Aligned_cols=90  Identities=21%  Similarity=0.297  Sum_probs=57.6

Q ss_pred             CccchhHHHHHHHHHhcC---------C---CccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHH
Q 048126          127 PTVGLESMFDKVWRCLGE---------E---QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEK  194 (863)
Q Consensus       127 ~~vGr~~~~~~l~~~L~~---------~---~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~  194 (863)
                      ++-|.+..++.|.+...-         +   ..+-|.++|++|.||+.||++|+...   ..     -|++||..    +
T Consensus       134 DVAGLE~AKeALKEAVILPIKFPqlFtGkR~PwrgiLLyGPPGTGKSYLAKAVATEA---nS-----TFFSvSSS----D  201 (439)
T KOG0739|consen  134 DVAGLEGAKEALKEAVILPIKFPQLFTGKRKPWRGILLYGPPGTGKSYLAKAVATEA---NS-----TFFSVSSS----D  201 (439)
T ss_pred             hhccchhHHHHHHhheeecccchhhhcCCCCcceeEEEeCCCCCcHHHHHHHHHhhc---CC-----ceEEeehH----H
Confidence            456899999998887631         1   25788999999999999999999886   22     23444433    1


Q ss_pred             HHHHHHHHhCCCCccccCCChhHHHHHHHHHhc-cCcEEEEEeccCC
Q 048126          195 IQEKIGRRIGFLDESWKNGSLEDKASDILRILS-KKKFLLLLDDIWE  240 (863)
Q Consensus       195 ~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~-~kr~LlVlDdv~~  240 (863)
                      +...-   +|         ..+.+...|.+.-+ +|+-+|.+|.++.
T Consensus       202 LvSKW---mG---------ESEkLVknLFemARe~kPSIIFiDEiDs  236 (439)
T KOG0739|consen  202 LVSKW---MG---------ESEKLVKNLFEMARENKPSIIFIDEIDS  236 (439)
T ss_pred             HHHHH---hc---------cHHHHHHHHHHHHHhcCCcEEEeehhhh
Confidence            11111   11         12334444444333 5889999999863

>COG3640 CooC CO dehydrogenase maturation factor [Cell division and chromosome partitioning]

Probab=94.12  E-value=0.092  Score=51.44  Aligned_cols=50  Identities=32%  Similarity=0.525  Sum_probs=33.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHHHHhCCCC
Q 048126          149 IIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGRRIGFLD  207 (863)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~  207 (863)
                      .|+|.|-||+||||+|..++.+.. .++.|+ +.-|+...++++       ..+||...
T Consensus         2 kIaI~GKGG~GKTtiaalll~~l~-~~~~~~-VLvVDaDpd~nL-------~~~LGve~   51 (255)
T COG3640           2 KIAITGKGGVGKTTIAALLLKRLL-SKGGYN-VLVVDADPDSNL-------PEALGVEE   51 (255)
T ss_pred             eEEEecCCCccHHHHHHHHHHHHH-hcCCce-EEEEeCCCCCCh-------HHhcCCCC
Confidence            689999999999999999776662 223243 455666665554       34556554

>TIGR02655 circ_KaiC circadian clock protein KaiC

Probab=94.11  E-value=0.27  Score=55.90  Aligned_cols=98  Identities=19%  Similarity=0.184  Sum_probs=58.9

Q ss_pred             HHHHHHHhcC--CCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHHHHhCCCCccc--
Q 048126          135 FDKVWRCLGE--EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGRRIGFLDESW--  210 (863)
Q Consensus       135 ~~~l~~~L~~--~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~--  210 (863)
                      ++.+-+.|..  ..-+++.|.|.+|+|||||+.+++....   ..=+.++|++.-+.  ..++.+.. +.++.....+  
T Consensus       249 i~~lD~~lgGG~~~gs~~li~G~~G~GKt~l~~~f~~~~~---~~ge~~~y~s~eEs--~~~i~~~~-~~lg~~~~~~~~  322 (484)
T TIGR02655       249 VVRLDEMCGGGFFKDSIILATGATGTGKTLLVSKFLENAC---ANKERAILFAYEES--RAQLLRNA-YSWGIDFEEMEQ  322 (484)
T ss_pred             hHhHHHHhcCCccCCcEEEEECCCCCCHHHHHHHHHHHHH---HCCCeEEEEEeeCC--HHHHHHHH-HHcCCChHHHhh
Confidence            4455555654  2567999999999999999999988762   23346777765543  44555443 4555432110  


Q ss_pred             -----------cCCChhHHHHHHHHHhcc-CcEEEEEecc
Q 048126          211 -----------KNGSLEDKASDILRILSK-KKFLLLLDDI  238 (863)
Q Consensus       211 -----------~~~~~~~~~~~l~~~l~~-kr~LlVlDdv  238 (863)
                                 .....++.+..+.+.+.. +.-.+|+|.+
T Consensus       323 ~g~l~~~~~~p~~~~~~~~~~~i~~~i~~~~~~~vvIDsi  362 (484)
T TIGR02655       323 QGLLKIICAYPESAGLEDHLQIIKSEIADFKPARIAIDSL  362 (484)
T ss_pred             CCcEEEEEcccccCChHHHHHHHHHHHHHcCCCEEEEcCH
Confidence                       111234555555555543 4446777776

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.

>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=94.09  E-value=0.1  Score=53.98  Aligned_cols=25  Identities=32%  Similarity=0.337  Sum_probs=20.2

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHhhhc
Q 048126          148 GIIGLYGMGGVGKTTLLTKINNKLL  172 (863)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~~  172 (863)
                      +.|.|.|.+|+||||+|+.+...+.
T Consensus         2 pLiil~G~P~SGKTt~a~~L~~~~~   26 (270)
T PF08433_consen    2 PLIILCGLPCSGKTTRAKELKKYLE   26 (270)
T ss_dssp             -EEEEE--TTSSHHHHHHHHHHHHH
T ss_pred             EEEEEEcCCCCcHHHHHHHHHHHHH
Confidence            4688999999999999999999873

The Elongator complex has histone acetyltransferase activity. ; PDB: 3ADB_B 3ADC_B 3A4M_B 3A4N_B 3AM1_A 3A4L_B 3ADD_A.

>cd02023 UMPK Uridine monophosphate kinase (UMPK, EC 2

Probab=94.05  E-value=0.036  Score=54.89  Aligned_cols=23  Identities=48%  Similarity=0.702  Sum_probs=21.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 048126          149 IIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      +|+|.|..|+||||+|+.+..-.
T Consensus         1 iigi~G~~GsGKSTl~~~l~~~l   23 (198)
T cd02023           1 IIGIAGGSGSGKTTVAEEIIEQL   23 (198)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHh
Confidence            58999999999999999998765

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.

>TIGR03498 FliI_clade3 flagellar protein export ATPase FliI

Probab=94.05  E-value=0.14  Score=56.21  Aligned_cols=91  Identities=24%  Similarity=0.348  Sum_probs=50.9

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCC-ccCHHHHHHHHHHHhCCCCc-----cccCCChhH--
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSK-DLQLEKIQEKIGRRIGFLDE-----SWKNGSLED--  217 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~-~~~~~~~~~~i~~~l~~~~~-----~~~~~~~~~--  217 (863)
                      .-..++|+|..|+|||||++.++... .   . +..+.+.+.+ .-.+.++.+..+..-+....     ..+......  
T Consensus       139 ~Gq~i~I~G~sG~GKTtLl~~I~~~~-~---~-~~gvi~~iGer~~ev~~~~~~~l~~~~~~~tvvv~atsd~~~~~r~~  213 (418)
T TIGR03498       139 RGQRLGIFAGSGVGKSTLLSMLARNT-D---A-DVVVIALVGERGREVREFLEDDLGEEGLKRSVVVVATSDESPLMRRQ  213 (418)
T ss_pred             CCcEEEEECCCCCChHHHHHHHhCCC-C---C-CEEEEEEEeeechHHHHHHHHhhhccccceeEEEEECCCCCHHHHHH
Confidence            44689999999999999999888765 1   1 2333333333 33345555554433221110     001111111  


Q ss_pred             ---HHHHHHHHh--ccCcEEEEEeccCCc
Q 048126          218 ---KASDILRIL--SKKKFLLLLDDIWER  241 (863)
Q Consensus       218 ---~~~~l~~~l--~~kr~LlVlDdv~~~  241 (863)
                         .+-.+.+++  +++.+||++||+...
T Consensus       214 a~~~a~~iAEyfrd~G~~Vll~~DslTr~  242 (418)
T TIGR03498       214 AAYTATAIAEYFRDQGKDVLLLMDSVTRF  242 (418)
T ss_pred             HHHHHHHHHHHHHHcCCCEEEeccchhHH
Confidence               222344555  478999999998653

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.

>PRK09280 F0F1 ATP synthase subunit beta; Validated

Probab=94.05  E-value=0.17  Score=55.84  Aligned_cols=94  Identities=18%  Similarity=0.265  Sum_probs=58.1

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCcc-CHHHHHHHHHHHhCCCC-----ccccCCChh---
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDL-QLEKIQEKIGRRIGFLD-----ESWKNGSLE---  216 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~-~~~~~~~~i~~~l~~~~-----~~~~~~~~~---  216 (863)
                      +-..++|.|..|+|||||+.+++....  .++=+.++++-+++.. .+.++.+.+...-....     ...+.....   
T Consensus       143 kGQR~gIfa~~GvGKt~Ll~~i~~~~~--~~~~~v~V~~liGER~rEv~efi~~~~~~~~l~rsvvV~atsd~p~~~r~~  220 (463)
T PRK09280        143 KGGKIGLFGGAGVGKTVLIQELINNIA--KEHGGYSVFAGVGERTREGNDLYHEMKESGVLDKTALVFGQMNEPPGARLR  220 (463)
T ss_pred             cCCEEEeecCCCCChhHHHHHHHHHHH--hcCCCEEEEEEeccCcHHHHHHHHHHHhcCCcceeEEEEECCCCCHHHHHH
Confidence            445789999999999999999877662  1222467788887664 35566666665322111     000111111   


Q ss_pred             --HHHHHHHHHh---ccCcEEEEEeccCCc
Q 048126          217 --DKASDILRIL---SKKKFLLLLDDIWER  241 (863)
Q Consensus       217 --~~~~~l~~~l---~~kr~LlVlDdv~~~  241 (863)
                        ..+-.+.+++   +++.+||++||+...
T Consensus       221 a~~~a~tiAEyfrd~~G~~VLll~DslTR~  250 (463)
T PRK09280        221 VALTGLTMAEYFRDVEGQDVLLFIDNIFRF  250 (463)
T ss_pred             HHHHHHHHHHHHHHhcCCceEEEecchHHH
Confidence              1233355666   679999999998653

>PRK06851 hypothetical protein; Provisional

Probab=94.04  E-value=0.64  Score=50.06  Aligned_cols=55  Identities=25%  Similarity=0.251  Sum_probs=39.8

Q ss_pred             cchhHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCc
Q 048126          129 VGLESMFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKD  189 (863)
Q Consensus       129 vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~  189 (863)
                      -|.-.-.+.+.    .+--+++.|.|.+|+|||||++.++....  +..++..++-|-+.+
T Consensus       200 ~G~~s~~~~l~----~~~~~~~~i~G~pG~GKstl~~~i~~~a~--~~G~~v~~~hC~~dP  254 (367)
T PRK06851        200 KGAVDFVPSLT----EGVKNRYFLKGRPGTGKSTMLKKIAKAAE--ERGFDVEVYHCGFDP  254 (367)
T ss_pred             CcHHhhHHhHh----cccceEEEEeCCCCCcHHHHHHHHHHHHH--hCCCeEEEEeCCCCC
Confidence            35444455544    34457899999999999999999999883  556777766665554

>cd01125 repA Hexameric Replicative Helicase RepA

Probab=94.02  E-value=0.32  Score=49.69  Aligned_cols=23  Identities=30%  Similarity=0.518  Sum_probs=20.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 048126          149 IIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      +..|+|++|+|||+||..++-..
T Consensus         3 ~~ll~g~~G~GKS~lal~la~~v   25 (239)
T cd01125           3 VSALVAPGGTGKSSLLLVLALAM   25 (239)
T ss_pred             eeEEEcCCCCCHHHHHHHHHHHH
Confidence            56789999999999999998764

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.

>cd01129 PulE-GspE PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP)

Probab=94.01  E-value=0.18  Score=52.22  Aligned_cols=104  Identities=21%  Similarity=0.219  Sum_probs=58.0

Q ss_pred             cchhHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHHHHhCCCCc
Q 048126          129 VGLESMFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGRRIGFLDE  208 (863)
Q Consensus       129 vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~  208 (863)
                      .|...+..+.+..+......+|.|.|..|.||||+++.+....   ...-..++.+  .++....  +.. ..++..   
T Consensus        62 lg~~~~~~~~l~~~~~~~~GlilisG~tGSGKTT~l~all~~i---~~~~~~iiti--Edp~E~~--~~~-~~q~~v---  130 (264)
T cd01129          62 LGLKPENLEIFRKLLEKPHGIILVTGPTGSGKTTTLYSALSEL---NTPEKNIITV--EDPVEYQ--IPG-INQVQV---  130 (264)
T ss_pred             cCCCHHHHHHHHHHHhcCCCEEEEECCCCCcHHHHHHHHHhhh---CCCCCeEEEE--CCCceec--CCC-ceEEEe---
Confidence            4544444333333333455689999999999999999887765   1111123332  2221110  000 011111   


Q ss_pred             cccCCChhHHHHHHHHHhccCcEEEEEeccCCccccc
Q 048126          209 SWKNGSLEDKASDILRILSKKKFLLLLDDIWERVDLT  245 (863)
Q Consensus       209 ~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~~~  245 (863)
                        ...........++..++..+=.|+++++.+.....
T Consensus       131 --~~~~~~~~~~~l~~~lR~~PD~i~vgEiR~~e~a~  165 (264)
T cd01129         131 --NEKAGLTFARGLRAILRQDPDIIMVGEIRDAETAE  165 (264)
T ss_pred             --CCcCCcCHHHHHHHHhccCCCEEEeccCCCHHHHH
Confidence              11111245667778888888899999998876443

It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which contains an ATP binding site and a tetracysteine motif. This subgroup also includes PillB and HofB.

>COG0465 HflB ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]

Probab=94.00  E-value=0.46  Score=54.05  Aligned_cols=45  Identities=20%  Similarity=0.225  Sum_probs=34.3

Q ss_pred             CccchhHHHHHH---HHHhcCC---------CccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          127 PTVGLESMFDKV---WRCLGEE---------QVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       127 ~~vGr~~~~~~l---~~~L~~~---------~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      +.-|.|+.++++   ++.|.++         -++-+..+|++|.|||.||++++...
T Consensus       151 DVAG~dEakeel~EiVdfLk~p~ky~~lGakiPkGvlLvGpPGTGKTLLAkAvAgEA  207 (596)
T COG0465         151 DVAGVDEAKEELSELVDFLKNPKKYQALGAKIPKGVLLVGPPGTGKTLLAKAVAGEA  207 (596)
T ss_pred             hhcCcHHHHHHHHHHHHHHhCchhhHhcccccccceeEecCCCCCcHHHHHHHhccc
Confidence            346888766655   4555542         24668899999999999999999987

>PRK15453 phosphoribulokinase; Provisional

Probab=93.98  E-value=0.28  Score=50.32  Aligned_cols=26  Identities=27%  Similarity=0.411  Sum_probs=23.6

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      +..+|+|.|.+|+||||+|+.+.+.+
T Consensus         4 k~piI~ItG~SGsGKTTva~~l~~if   29 (290)
T PRK15453          4 KHPIIAVTGSSGAGTTTVKRAFEKIF   29 (290)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            45799999999999999999999776

>PRK06217 hypothetical protein; Validated

Probab=93.97  E-value=0.043  Score=53.51  Aligned_cols=23  Identities=35%  Similarity=0.502  Sum_probs=21.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 048126          149 IIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      .|.|.|.+|+||||+|+++....
T Consensus         3 ~I~i~G~~GsGKSTla~~L~~~l   25 (183)
T PRK06217          3 RIHITGASGSGTTTLGAALAERL   25 (183)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHc
Confidence            58999999999999999999886

>PRK05688 fliI flagellum-specific ATP synthase; Validated

Probab=93.96  E-value=0.19  Score=55.39  Aligned_cols=91  Identities=21%  Similarity=0.295  Sum_probs=52.6

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCcc-CHHHHHHHHHHHhCCCCc-----cccCCChh---
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDL-QLEKIQEKIGRRIGFLDE-----SWKNGSLE---  216 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~-~~~~~~~~i~~~l~~~~~-----~~~~~~~~---  216 (863)
                      .-..++|+|..|+|||||++.+....     ..+.+++..+.... ++..+...+...-+....     ..+.....   
T Consensus       167 ~GqrigI~G~sG~GKSTLl~~I~g~~-----~~dv~V~g~Ig~rg~ev~~~~~~~~~~~~l~rsvvv~atsd~~p~~r~~  241 (451)
T PRK05688        167 RGQRLGLFAGTGVGKSVLLGMMTRFT-----EADIIVVGLIGERGREVKEFIEHILGEEGLKRSVVVASPADDAPLMRLR  241 (451)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCC-----CCCEEEEEEeCcCcHhHHHHHHHHhhcCCccEEEEEEECCCCCHHHHHH
Confidence            44679999999999999999998654     22444444454433 345555555544322110     00111111   


Q ss_pred             --HHHHHHHHHh--ccCcEEEEEeccCCc
Q 048126          217 --DKASDILRIL--SKKKFLLLLDDIWER  241 (863)
Q Consensus       217 --~~~~~l~~~l--~~kr~LlVlDdv~~~  241 (863)
                        ..+..+.+++  +++++||++||+...
T Consensus       242 a~~~a~aiAEyfrd~G~~VLl~~DslTR~  270 (451)
T PRK05688        242 AAMYCTRIAEYFRDKGKNVLLLMDSLTRF  270 (451)
T ss_pred             HHHHHHHHHHHHHHCCCCEEEEecchhHH
Confidence              1122334444  578999999998653

>PF05970 PIF1: PIF1-like helicase; InterPro: IPR010285 This entry represents PIF1 helicase and related proteins

Probab=93.95  E-value=0.14  Score=56.04  Aligned_cols=38  Identities=29%  Similarity=0.365  Sum_probs=31.3

Q ss_pred             HHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          134 MFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       134 ~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ..+.+++.+.......+.|.|.||+|||+|.+++.+..
T Consensus         9 ~~~~v~~~~~~~~~~~~fv~G~~GtGKs~l~~~i~~~~   46 (364)
T PF05970_consen    9 VFDTVIEAIENEEGLNFFVTGPAGTGKSFLIKAIIDYL   46 (364)
T ss_pred             HHHHHHHHHHccCCcEEEEEcCCCCChhHHHHHHHHHh
Confidence            34556666665667789999999999999999999988

The PIF1 helicase inhibits telomerase activity and is cell cycle regulated [, ].

>CHL00081 chlI Mg-protoporyphyrin IX chelatase

Probab=93.95  E-value=0.063  Score=57.35  Aligned_cols=46  Identities=24%  Similarity=0.302  Sum_probs=40.7

Q ss_pred             CCccchhHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          126 EPTVGLESMFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ..+||-++.+..|...+.++...-|.|.|..|+||||+|+.+++-.
T Consensus        17 ~~ivGq~~~k~al~~~~~~p~~~~vli~G~~GtGKs~~ar~~~~~l   62 (350)
T CHL00081         17 TAIVGQEEMKLALILNVIDPKIGGVMIMGDRGTGKSTTIRALVDLL   62 (350)
T ss_pred             HHHhChHHHHHHHHHhccCCCCCeEEEEcCCCCCHHHHHHHHHHHH
Confidence            5579999999999988888888888899999999999999997765

>COG1703 ArgK Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]

Probab=93.95  E-value=0.092  Score=53.41  Aligned_cols=60  Identities=25%  Similarity=0.319  Sum_probs=41.7

Q ss_pred             HHHHHHhcC--CCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHH
Q 048126          136 DKVWRCLGE--EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQ  196 (863)
Q Consensus       136 ~~l~~~L~~--~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~  196 (863)
                      .+++..+..  ++..+|+|.|.+|+|||||.-.+...+ ..+.+--.++-|+-|.+++--.++
T Consensus        38 ~~ll~~l~p~tG~a~viGITG~PGaGKSTli~~L~~~l-~~~G~rVaVlAVDPSSp~TGGsiL   99 (323)
T COG1703          38 RELLRALYPRTGNAHVIGITGVPGAGKSTLIEALGREL-RERGHRVAVLAVDPSSPFTGGSIL   99 (323)
T ss_pred             HHHHHHHhhcCCCCcEEEecCCCCCchHHHHHHHHHHH-HHCCcEEEEEEECCCCCCCCcccc
Confidence            445555543  567899999999999999999998887 333443455666666666544443

>PRK05439 pantothenate kinase; Provisional

Probab=93.94  E-value=0.39  Score=50.46  Aligned_cols=27  Identities=33%  Similarity=0.345  Sum_probs=23.9

Q ss_pred             CCccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          145 EQVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       145 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ...-+|+|.|.+|+||||+|+.+....
T Consensus        84 ~~~~iIgIaG~~gsGKSTla~~L~~~l  110 (311)
T PRK05439         84 KVPFIIGIAGSVAVGKSTTARLLQALL  110 (311)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHH
Confidence            356799999999999999999998865

>PF13245 AAA_19: Part of AAA domain

Probab=93.93  E-value=0.14  Score=41.37  Aligned_cols=26  Identities=31%  Similarity=0.304  Sum_probs=18.9

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      +.+++.|.|++|.|||+++.......
T Consensus         9 ~~~~~vv~g~pGtGKT~~~~~~i~~l   34 (76)
T PF13245_consen    9 GSPLFVVQGPPGTGKTTTLAARIAEL   34 (76)
T ss_pred             hCCeEEEECCCCCCHHHHHHHHHHHH
Confidence            44678889999999995555544443

>PF00158 Sigma54_activat: Sigma-54 interaction domain; InterPro: IPR002078 Some bacterial regulatory proteins activate the expression of genes from promoters recognised by core RNA polymerase associated with the alternative sigma-54 factor

Probab=93.92  E-value=0.25  Score=47.20  Aligned_cols=44  Identities=18%  Similarity=0.192  Sum_probs=32.6

Q ss_pred             ccchhHHHHHHHHHhcC--CCccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          128 TVGLESMFDKVWRCLGE--EQVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       128 ~vGr~~~~~~l~~~L~~--~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      +||....+.++++.+..  ....-|.|+|..|+||+.+|+.+++.-
T Consensus         1 liG~s~~m~~~~~~~~~~a~~~~pVlI~GE~GtGK~~lA~~IH~~s   46 (168)
T PF00158_consen    1 LIGESPAMKRLREQAKRAASSDLPVLITGETGTGKELLARAIHNNS   46 (168)
T ss_dssp             SS--SHHHHHHHHHHHHHTTSTS-EEEECSTTSSHHHHHHHHHHCS
T ss_pred             CEeCCHHHHHHHHHHHHHhCCCCCEEEEcCCCCcHHHHHHHHHHhh
Confidence            47888888888877753  233556699999999999999999865

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 ....

>PTZ00494 tuzin-like protein; Provisional

Probab=93.91  E-value=2.8  Score=45.44  Aligned_cols=162  Identities=17%  Similarity=0.139  Sum_probs=95.6

Q ss_pred             CCccchhHHHHHHHHHhcC---CCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHHHH
Q 048126          126 EPTVGLESMFDKVWRCLGE---EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGRR  202 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~---~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~  202 (863)
                      ..+|.|+.+-..+...|..   ..++++.+.|.-|.||++|.+...... .+     ..++|.+...   ++-++.+.+.
T Consensus       371 ~~~V~R~~eE~~vRqvL~qld~aHPRIvV~TG~~GcGKSslcRsAvrkE-~~-----paV~VDVRg~---EDtLrsVVKA  441 (664)
T PTZ00494        371 AFEVRREDEEALVRSVLTQMAPSHPRIVALAGGSGGGRCVPCRRAVRVE-GV-----ALVHVDVGGT---EDTLRSVVRA  441 (664)
T ss_pred             ccccchhhHHHHHHHHHhhccCCCCcEEEEecCCCCCchHHHHHHHHHc-CC-----CeEEEEecCC---cchHHHHHHH
Confidence            4578998887776666643   578999999999999999999988776 22     3577877654   4567888889


Q ss_pred             hCCCCccccCCChhHHHHHHHH---HhccCcEEEEEeccCCccccccc---cCCCCCCCCCcEEEEecCchhhhhc---c
Q 048126          203 IGFLDESWKNGSLEDKASDILR---ILSKKKFLLLLDDIWERVDLTKV---GVPFPDPENKSKIVFTTRFLEICGA---M  273 (863)
Q Consensus       203 l~~~~~~~~~~~~~~~~~~l~~---~l~~kr~LlVlDdv~~~~~~~~~---~~~l~~~~~gs~IivTtR~~~v~~~---~  273 (863)
                      ++.+.-+.-..-.+-..+....   ...++.=+||+-= .+-..+..+   ...+.....-|+|++----+.+-..   .
T Consensus       442 LgV~nve~CGDlLdFI~ea~~~A~~~~~g~~P~lVlkL-REGssL~RVYnE~vaLacDrRlCHvv~EVplESLT~~n~~L  520 (664)
T PTZ00494        442 LGVSNVEVCGDLLGFVEEAMRGATVKASDGVPFLVMRL-REGSDLGRVYGEVVSLVSDCQACHIVLAVPMKALTPLNVSS  520 (664)
T ss_pred             hCCCChhhhccHHHHHHHHHHHHHHhcCCCCCEEEEEe-ccCCcHHHHHHHHHHHHccchhheeeeechHhhhchhhccC
Confidence            9876532112222222222222   2345555666531 111111111   0011122234667664443333111   1


Q ss_pred             cccceEeecCCChHHHHHHHHHHh
Q 048126          274 KAHEFLKVECLGPEDAWRLFRENL  297 (863)
Q Consensus       274 ~~~~~~~l~~L~~~e~~~lf~~~~  297 (863)
                      .--..|.+++++.++|.++-++..
T Consensus       521 PRLDFy~VPnFSr~QAf~YtqH~l  544 (664)
T PTZ00494        521 RRLDFYCIPPFSRRQAFAYAEHTL  544 (664)
T ss_pred             ccceeEecCCcCHHHHHHHHhccc
Confidence            223468899999999999987764

>PRK00279 adk adenylate kinase; Reviewed

Probab=93.89  E-value=0.21  Score=50.12  Aligned_cols=23  Identities=35%  Similarity=0.323  Sum_probs=21.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 048126          149 IIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      .|.|.|++|+||||+|+.++...
T Consensus         2 ~I~v~G~pGsGKsT~a~~la~~~   24 (215)
T PRK00279          2 RLILLGPPGAGKGTQAKFIAEKY   24 (215)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            47899999999999999999876

>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=93.89  E-value=0.043  Score=51.22  Aligned_cols=23  Identities=39%  Similarity=0.605  Sum_probs=21.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 048126          149 IIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      +|.|.|..|+||||+|+.+....
T Consensus         1 ~I~i~G~~GsGKst~a~~la~~~   23 (147)
T cd02020           1 IIAIDGPAGSGKSTVAKLLAKKL   23 (147)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHh
Confidence            58999999999999999999876

>cd02021 GntK Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate

Probab=93.88  E-value=0.042  Score=51.58  Aligned_cols=23  Identities=35%  Similarity=0.602  Sum_probs=20.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 048126          149 IIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      +|.+.|++|+||||+|+.+....
T Consensus         1 li~l~G~~GsGKST~a~~l~~~~   23 (150)
T cd02021           1 IIVVMGVSGSGKSTVGKALAERL   23 (150)
T ss_pred             CEEEEcCCCCCHHHHHHHHHhhc
Confidence            47899999999999999998865

The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits.

>KOG0735 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=93.88  E-value=1.2  Score=50.75  Aligned_cols=89  Identities=24%  Similarity=0.215  Sum_probs=56.3

Q ss_pred             cchhHHHHHHHHHhcC-------------CCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHH
Q 048126          129 VGLESMFDKVWRCLGE-------------EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKI  195 (863)
Q Consensus       129 vGr~~~~~~l~~~L~~-------------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~  195 (863)
                      -|..+.++-+.+.+.-             ....-|.++|++|.|||-||.+++... .       .-||+|-.+    ++
T Consensus       670 gg~~~~k~~l~~~i~~P~kyp~if~~~plr~~~giLLyGppGcGKT~la~a~a~~~-~-------~~fisvKGP----El  737 (952)
T KOG0735|consen  670 GGLFEAKKVLEEVIEWPSKYPQIFANCPLRLRTGILLYGPPGCGKTLLASAIASNS-N-------LRFISVKGP----EL  737 (952)
T ss_pred             ccHHHHHHHHHHHHhccccchHHHhhCCcccccceEEECCCCCcHHHHHHHHHhhC-C-------eeEEEecCH----HH
Confidence            3555555555555531             123468899999999999999999876 1       235666554    22


Q ss_pred             HHHHHHHhCCCCccccCCChhHHHHHHHHHhccCcEEEEEeccCC
Q 048126          196 QEKIGRRIGFLDESWKNGSLEDKASDILRILSKKKFLLLLDDIWE  240 (863)
Q Consensus       196 ~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~  240 (863)
                      +...   +        +.+++.....+.+.-..|+++|.||..+.
T Consensus       738 L~Ky---I--------GaSEq~vR~lF~rA~~a~PCiLFFDEfdS  771 (952)
T KOG0735|consen  738 LSKY---I--------GASEQNVRDLFERAQSAKPCILFFDEFDS  771 (952)
T ss_pred             HHHH---h--------cccHHHHHHHHHHhhccCCeEEEeccccc
Confidence            2221   2        23334444455555567999999999875

>PTZ00185 ATPase alpha subunit; Provisional

Probab=93.87  E-value=0.23  Score=54.95  Aligned_cols=94  Identities=15%  Similarity=0.131  Sum_probs=54.0

Q ss_pred             CccEEEEEcCCCCcHHHHH-HHHHhhhcCC-----CCCCCEEEEEEeCCccCHHHHHHHHHHHhCCCCcc------ccCC
Q 048126          146 QVGIIGLYGMGGVGKTTLL-TKINNKLLGA-----PNDFDVVIWVVVSKDLQLEKIQEKIGRRIGFLDES------WKNG  213 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa-~~v~~~~~~~-----~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~------~~~~  213 (863)
                      +-..++|.|..|+|||+|| ..+.+.. .+     .++-+.++++-+++...-..-....+++-+.....      .+..
T Consensus       188 RGQR~lIfGd~GtGKTtLAld~IinQ~-~~~~~~~~~~~~v~VyvaIGeR~rEV~ei~~~L~e~GaL~~TvVV~AtAdep  266 (574)
T PTZ00185        188 RGQRELIVGDRQTGKTSIAVSTIINQV-RINQQILSKNAVISIYVSIGQRCSNVARIHRLLRSYGALRYTTVMAATAAEP  266 (574)
T ss_pred             CCCEEEeecCCCCChHHHHHHHHHhhh-hhccccccCCCCEEEEEEeccchHHHHHHHHHHHhcCCccceEEEEECCCCC
Confidence            3457899999999999997 5566664 11     12446788999988764332233333333311110      0111


Q ss_pred             ChhH-----HHHHHHHHh--ccCcEEEEEeccCC
Q 048126          214 SLED-----KASDILRIL--SKKKFLLLLDDIWE  240 (863)
Q Consensus       214 ~~~~-----~~~~l~~~l--~~kr~LlVlDdv~~  240 (863)
                      ...+     ..-.+.+++  +++.+|+|+||+..
T Consensus       267 ~~~r~~Apy~a~tiAEYFrd~GkdVLiv~DDLTr  300 (574)
T PTZ00185        267 AGLQYLAPYSGVTMGEYFMNRGRHCLCVYDDLSK  300 (574)
T ss_pred             HHHHHHHHHHHHHHHHHHHHcCCCEEEEEcCchH
Confidence            1111     112233444  47899999999865

>PRK13407 bchI magnesium chelatase subunit I; Provisional

Probab=93.87  E-value=0.072  Score=56.76  Aligned_cols=46  Identities=24%  Similarity=0.315  Sum_probs=37.0

Q ss_pred             CCccchhHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          126 EPTVGLESMFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ..++|.+..++.+.-.+.+.+..-+.+.|..|+||||+|+.+..-.
T Consensus         8 ~~i~Gq~~~~~~l~~~~~~~~~~~vLl~G~pG~gKT~lar~la~ll   53 (334)
T PRK13407          8 SAIVGQEEMKQAMVLTAIDPGIGGVLVFGDRGTGKSTAVRALAALL   53 (334)
T ss_pred             HHhCCHHHHHHHHHHHHhccCCCcEEEEcCCCCCHHHHHHHHHHHC
Confidence            5679999999887765544455568899999999999999997654

>PRK13947 shikimate kinase; Provisional

Probab=93.87  E-value=0.049  Score=52.43  Aligned_cols=23  Identities=39%  Similarity=0.507  Sum_probs=21.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 048126          149 IIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      -|.|+|++|+||||+|+.+++..
T Consensus         3 ~I~l~G~~GsGKst~a~~La~~l   25 (171)
T PRK13947          3 NIVLIGFMGTGKTTVGKRVATTL   25 (171)
T ss_pred             eEEEEcCCCCCHHHHHHHHHHHh
Confidence            48899999999999999999987

>cd03369 ABCC_NFT1 Domain 2 of NFT1 (New full-length MRP-type transporter 1)

Probab=93.86  E-value=0.35  Score=48.20  Aligned_cols=26  Identities=35%  Similarity=0.463  Sum_probs=22.7

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      .-.+++|.|..|.|||||++.++.-.
T Consensus        33 ~G~~~~i~G~nGsGKSTLl~~l~Gl~   58 (207)
T cd03369          33 AGEKIGIVGRTGAGKSTLILALFRFL   58 (207)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhccc
Confidence            44689999999999999999997654

NFT1 belongs to the MRP (mulrtidrug resisitance-associated protein) family of ABC transporters. Some of the MRP members have five additional transmembrane segments in their N-terminas, but the function of these additional membrane-spanning domains is not clear. The MRP was found in the multidrug-resisting lung cancer cell in which p-glycoprotein was not overexpressed. MRP exports glutathione by drug stimulation, as well as, certain substrates in conjugated forms with anions such as glutathione, glucuronate, and sulfate.

>PRK00889 adenylylsulfate kinase; Provisional

Probab=93.85  E-value=0.06  Score=52.08  Aligned_cols=26  Identities=31%  Similarity=0.468  Sum_probs=23.5

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ...+|+|+|++|+||||+|+.++...
T Consensus         3 ~g~~i~~~G~~GsGKST~a~~la~~l   28 (175)
T PRK00889          3 RGVTVWFTGLSGAGKTTIARALAEKL   28 (175)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            34689999999999999999999887

>PRK05986 cob(I)alamin adenolsyltransferase/cobinamide ATP-dependent adenolsyltransferase; Validated

Probab=93.85  E-value=0.19  Score=48.36  Aligned_cols=118  Identities=19%  Similarity=0.175  Sum_probs=63.3

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCC---ccCHHHHHHHHH--HH--hCCCCccccCCChh--
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSK---DLQLEKIQEKIG--RR--IGFLDESWKNGSLE--  216 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~---~~~~~~~~~~i~--~~--l~~~~~~~~~~~~~--  216 (863)
                      ....|-|+|..|-||||.|.-++-+..  ...+. +..|-.-+   ..+-...+..+-  .-  .+... .+...+.+  
T Consensus        21 ~~g~v~v~~g~GkGKtt~a~g~a~ra~--g~G~~-V~ivQFlKg~~~~GE~~~l~~l~~v~~~~~g~~~-~~~~~~~~e~   96 (191)
T PRK05986         21 EKGLLIVHTGNGKGKSTAAFGMALRAV--GHGKK-VGVVQFIKGAWSTGERNLLEFGGGVEFHVMGTGF-TWETQDRERD   96 (191)
T ss_pred             cCCeEEEECCCCCChHHHHHHHHHHHH--HCCCe-EEEEEEecCCCccCHHHHHhcCCCcEEEECCCCC-cccCCCcHHH
Confidence            347899999999999999999988862  33343 33333222   233344443321  00  01100 01111111  


Q ss_pred             -----HHHHHHHHHhcc-CcEEEEEeccCCc-----cccccccCCCCCCCCCcEEEEecCch
Q 048126          217 -----DKASDILRILSK-KKFLLLLDDIWER-----VDLTKVGVPFPDPENKSKIVFTTRFL  267 (863)
Q Consensus       217 -----~~~~~l~~~l~~-kr~LlVlDdv~~~-----~~~~~~~~~l~~~~~gs~IivTtR~~  267 (863)
                           +.....++.+.. +-=++|||.+-..     .+.+++...+.....+..||+|-|+.
T Consensus        97 ~~~~~~~~~~a~~~l~~~~ydlvVLDEi~~Al~~gli~~eevi~~L~~rp~~~evVlTGR~~  158 (191)
T PRK05986         97 IAAAREGWEEAKRMLADESYDLVVLDELTYALKYGYLDVEEVLEALNARPGMQHVVITGRGA  158 (191)
T ss_pred             HHHHHHHHHHHHHHHhCCCCCEEEEehhhHHHHCCCccHHHHHHHHHcCCCCCEEEEECCCC
Confidence                 122333444444 4459999998543     23344444444445567899999985

>PRK13949 shikimate kinase; Provisional

Probab=93.83  E-value=0.053  Score=51.98  Aligned_cols=24  Identities=42%  Similarity=0.438  Sum_probs=22.0

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          148 GIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      +.|.|+|+.|+||||+++.++...
T Consensus         2 ~~I~liG~~GsGKstl~~~La~~l   25 (169)
T PRK13949          2 ARIFLVGYMGAGKTTLGKALAREL   25 (169)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHc
Confidence            358899999999999999999987

>TIGR02322 phosphon_PhnN phosphonate metabolism protein/1,5-bisphosphokinase (PRPP-forming) PhnN

Probab=93.82  E-value=0.051  Score=52.82  Aligned_cols=24  Identities=38%  Similarity=0.527  Sum_probs=21.8

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          148 GIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      .+++|+|+.|+||||+++.+....
T Consensus         2 ~~~~i~G~sGsGKttl~~~l~~~~   25 (179)
T TIGR02322         2 RLIYVVGPSGAGKDTLLDYARARL   25 (179)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHc
Confidence            478999999999999999998876

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.

>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=93.82  E-value=0.06  Score=52.18  Aligned_cols=23  Identities=43%  Similarity=0.804  Sum_probs=21.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 048126          149 IIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      +|+|.|..|+||||+|+.+....
T Consensus         1 ii~i~G~sgsGKttla~~l~~~l   23 (179)
T cd02028           1 VVGIAGPSGSGKTTFAKKLSNQL   23 (179)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHH
Confidence            58999999999999999999887

7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK).

>TIGR01040 V-ATPase_V1_B V-type (H+)-ATPase V1, B subunit

Probab=93.81  E-value=0.2  Score=55.00  Aligned_cols=94  Identities=14%  Similarity=0.249  Sum_probs=58.0

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhhcCCC--CCCC---------EEEEEEeCCccCHHHHHHHHHHHhCCCCcc-----
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAP--NDFD---------VVIWVVVSKDLQLEKIQEKIGRRIGFLDES-----  209 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~--~~F~---------~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~-----  209 (863)
                      +-..++|.|-.|+|||||+.++++.. ...  ...|         .++++-+++.....+.+...+..-+.....     
T Consensus       140 ~GQRigIfagsGvGKs~L~~~i~~~~-~~~~~~~aD~~~~~~~~~v~V~a~IGerre~~efi~~~l~~~g~l~rtvvv~a  218 (466)
T TIGR01040       140 RGQKIPIFSAAGLPHNEIAAQICRQA-GLVKLPTKDVHDGHEDNFAIVFAAMGVNMETARFFKQDFEENGSMERVCLFLN  218 (466)
T ss_pred             cCCeeeeecCCCCCHHHHHHHHHHhh-ccccccccccccccCCceEEEEEEeeeehHHHHHHHHHHHhcCCcceEEEEEE
Confidence            44578999999999999999999876 210  0012         667888888766666555555554421110     


Q ss_pred             -ccCCChh-----HHHHHHHHHhc---cCcEEEEEeccCC
Q 048126          210 -WKNGSLE-----DKASDILRILS---KKKFLLLLDDIWE  240 (863)
Q Consensus       210 -~~~~~~~-----~~~~~l~~~l~---~kr~LlVlDdv~~  240 (863)
                       .+.....     ..+-.+.++++   ++.+|+++||+..
T Consensus       219 tsd~p~~~R~~a~~~a~tiAEyfr~~~G~~VLl~~DslTr  258 (466)
T TIGR01040       219 LANDPTIERIITPRLALTTAEYLAYQCEKHVLVILTDMSS  258 (466)
T ss_pred             CCCCCHHHHHHHHhhhHHHHHHHHHhcCCcEEEeccChHH
Confidence             0111111     12233556665   5899999999854

This models eukaryotic vacuolar (H+)-ATPase that is responsible for acidifying cellular compartments. This enzyme shares extensive sequence similarity with archaeal ATP synthase.

>COG0396 sufC Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=93.80  E-value=0.28  Score=48.09  Aligned_cols=63  Identities=17%  Similarity=0.255  Sum_probs=39.9

Q ss_pred             HHHHHHHHhccCcEEEEEeccCCccccccccCC---CC-CCCCCcEEEEecCchhhhhcccccceEe
Q 048126          218 KASDILRILSKKKFLLLLDDIWERVDLTKVGVP---FP-DPENKSKIVFTTRFLEICGAMKAHEFLK  280 (863)
Q Consensus       218 ~~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~~~---l~-~~~~gs~IivTtR~~~v~~~~~~~~~~~  280 (863)
                      ...++.+.+--++-+.|||..++--|.+.+...   .. -...|+-+++.|-.+.++.....+.++-
T Consensus       151 KR~EilQ~~~lePkl~ILDE~DSGLDIdalk~V~~~i~~lr~~~~~~liITHy~rll~~i~pD~vhv  217 (251)
T COG0396         151 KRNEILQLLLLEPKLAILDEPDSGLDIDALKIVAEGINALREEGRGVLIITHYQRLLDYIKPDKVHV  217 (251)
T ss_pred             HHHHHHHHHhcCCCEEEecCCCcCccHHHHHHHHHHHHHHhcCCCeEEEEecHHHHHhhcCCCEEEE
Confidence            344555666667889999999876555443211   00 1234677888888888888776555543

>cd00071 GMPK Guanosine monophosphate kinase (GMPK, EC 2

Probab=93.79  E-value=0.052  Score=49.96  Aligned_cols=23  Identities=43%  Similarity=0.706  Sum_probs=20.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 048126          149 IIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      .|+|+|+.|+|||||++.+....
T Consensus         1 ~i~i~GpsGsGKstl~~~L~~~~   23 (137)
T cd00071           1 LIVLSGPSGVGKSTLLKRLLEEF   23 (137)
T ss_pred             CEEEECCCCCCHHHHHHHHHhcC
Confidence            37899999999999999999875

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.

>cd00227 CPT Chloramphenicol (Cm) phosphotransferase (CPT)

Probab=93.76  E-value=0.055  Score=52.34  Aligned_cols=24  Identities=29%  Similarity=0.412  Sum_probs=22.2

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          148 GIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ++|.+.|++|+||||+|+.+....
T Consensus         3 ~~i~l~G~~gsGKst~a~~l~~~~   26 (175)
T cd00227           3 RIIILNGGSSAGKSSIARALQSVL   26 (175)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHhh
Confidence            589999999999999999998876

Cm-inactivating enzyme; modifies the primary (C-3) hydroxyl of the antibiotic. Related structurally to shikimate kinase II.

>PRK09519 recA DNA recombination protein RecA; Reviewed

Probab=93.74  E-value=0.2  Score=59.00  Aligned_cols=95  Identities=16%  Similarity=0.178  Sum_probs=62.0

Q ss_pred             HHHHHhc-C--CCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHHHHhCCCCcc---c
Q 048126          137 KVWRCLG-E--EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGRRIGFLDES---W  210 (863)
Q Consensus       137 ~l~~~L~-~--~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~---~  210 (863)
                      .+-.+|. .  +.-+++-|+|.+|+||||||.+++....   ..=..++||.....++.     ..+++++...+.   .
T Consensus        47 ~LD~lLg~GGip~GsiteI~G~~GsGKTtLal~~~~~a~---~~G~~v~yId~E~t~~~-----~~A~~lGvDl~~llv~  118 (790)
T PRK09519         47 ALDVALGIGGLPRGRVIEIYGPESSGKTTVALHAVANAQ---AAGGVAAFIDAEHALDP-----DYAKKLGVDTDSLLVS  118 (790)
T ss_pred             HHHHhhcCCCccCCeEEEEECCCCCCHHHHHHHHHHHHH---HcCCcEEEECCccchhH-----HHHHHcCCChhHeEEe
Confidence            3444454 2  2467889999999999999988766551   22256789987777664     366777765432   1


Q ss_pred             cCCChhHHHHHHHHHhcc-CcEEEEEeccC
Q 048126          211 KNGSLEDKASDILRILSK-KKFLLLLDDIW  239 (863)
Q Consensus       211 ~~~~~~~~~~~l~~~l~~-kr~LlVlDdv~  239 (863)
                      ...+.++....+.+.++. +--+||+|.+.
T Consensus       119 ~~~~~E~~l~~i~~lv~~~~~~LVVIDSI~  148 (790)
T PRK09519        119 QPDTGEQALEIADMLIRSGALDIVVIDSVA  148 (790)
T ss_pred             cCCCHHHHHHHHHHHhhcCCCeEEEEcchh
Confidence            233445555555555544 56689999985

>PRK15429 formate hydrogenlyase transcriptional activator FhlA; Provisional

Probab=93.73  E-value=0.14  Score=61.23  Aligned_cols=46  Identities=17%  Similarity=0.225  Sum_probs=36.9

Q ss_pred             CCccchhHHHHHHHHHhcC--CCccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          126 EPTVGLESMFDKVWRCLGE--EQVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~--~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ..++|+...+..+.+.+..  ....-|.|+|..|+|||++|+.+++..
T Consensus       376 ~~liG~S~~~~~~~~~~~~~a~~~~pVLI~GE~GTGK~~lA~~ih~~s  423 (686)
T PRK15429        376 GEIIGRSEAMYSVLKQVEMVAQSDSTVLILGETGTGKELIARAIHNLS  423 (686)
T ss_pred             cceeecCHHHHHHHHHHHHHhCCCCCEEEECCCCcCHHHHHHHHHHhc
Confidence            3579999888888776642  334577899999999999999998865

>PF03193 DUF258: Protein of unknown function, DUF258; InterPro: IPR004881 This entry contains Escherichia coli (strain K12) RsgA, which may play a role in 30S ribosomal subunit biogenesis

Probab=93.67  E-value=0.091  Score=49.23  Aligned_cols=36  Identities=22%  Similarity=0.304  Sum_probs=30.4

Q ss_pred             HHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          133 SMFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       133 ~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ..+++|.+++.+   +++.++|..|||||||+..+....
T Consensus        24 ~g~~~l~~~l~~---k~~vl~G~SGvGKSSLiN~L~~~~   59 (161)
T PF03193_consen   24 EGIEELKELLKG---KTSVLLGQSGVGKSSLINALLPEA   59 (161)
T ss_dssp             TTHHHHHHHHTT---SEEEEECSTTSSHHHHHHHHHTSS
T ss_pred             cCHHHHHHHhcC---CEEEEECCCCCCHHHHHHHHHhhc
Confidence            447778887754   799999999999999999998874

RsgA is an unusual circulary permuted GTPase that catalyzes rapid hydrolysis of GTP with a slow catalytic turnover. It is dispensible for viability, but important for overall fitness. The intrinsic GTPase activity is stimulated by the presence of 30S (160-fold increase in kcat) or 70S (96 fold increase in kcat) ribosomes []. The GTPase is inhibited by aminoglycoside antibiotics such as neomycin and paromycin [] streptomycin and spectinomycin []. This inhibition is not due to competition for binding sites on the 30S or 70S ribosome []. ; GO: 0003924 GTPase activity, 0005525 GTP binding; PDB: 2YKR_W 2YV5_A 1T9H_A 2RCN_A 4A2I_V 1U0L_B.

>TIGR01039 atpD ATP synthase, F1 beta subunit

Probab=93.66  E-value=0.21  Score=54.92  Aligned_cols=94  Identities=18%  Similarity=0.262  Sum_probs=58.0

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCcc-CHHHHHHHHHHHhCCCC-----ccccCCChh---
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDL-QLEKIQEKIGRRIGFLD-----ESWKNGSLE---  216 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~-~~~~~~~~i~~~l~~~~-----~~~~~~~~~---  216 (863)
                      +-..++|.|..|+|||||+.++.....  .++=+.++++-+++.. .+.++.+.+...-....     ...+.....   
T Consensus       142 ~GQr~~If~~~G~GKt~L~~~~~~~~~--~~~~~v~V~alIGER~rEv~ef~~~~~~~~~l~rtvvV~atsd~p~~~R~~  219 (461)
T TIGR01039       142 KGGKIGLFGGAGVGKTVLIQELINNIA--KEHGGYSVFAGVGERTREGNDLYHEMKESGVIDKTALVYGQMNEPPGARMR  219 (461)
T ss_pred             cCCEEEeecCCCCChHHHHHHHHHHHH--hcCCCeEEEEEecCCchHHHHHHHHHHhcCCcceeEEEEECCCCCHHHHHH
Confidence            445789999999999999999887751  2223477888887664 35666666654321111     000111111   


Q ss_pred             --HHHHHHHHHh---ccCcEEEEEeccCCc
Q 048126          217 --DKASDILRIL---SKKKFLLLLDDIWER  241 (863)
Q Consensus       217 --~~~~~l~~~l---~~kr~LlVlDdv~~~  241 (863)
                        ..+-.+.+++   +++.+||++||+...
T Consensus       220 a~~~a~tiAEyfrd~~G~~VLll~DslTR~  249 (461)
T TIGR01039       220 VALTGLTMAEYFRDEQGQDVLLFIDNIFRF  249 (461)
T ss_pred             HHHHHHHHHHHHHHhcCCeeEEEecchhHH
Confidence              1233455666   458999999999653

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.

>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=93.65  E-value=0.2  Score=47.40  Aligned_cols=115  Identities=25%  Similarity=0.288  Sum_probs=60.5

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCcc--CHHHHHHHHHHHhCCCCccccCCChhHHHHHHHH
Q 048126          147 VGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDL--QLEKIQEKIGRRIGFLDESWKNGSLEDKASDILR  224 (863)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~--~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~  224 (863)
                      -.+++|+|..|.|||||++.+....    ......+++.-....  .....    ...++...   +...-+...-.+..
T Consensus        25 g~~~~i~G~nGsGKStll~~l~g~~----~~~~G~i~~~~~~~~~~~~~~~----~~~i~~~~---qlS~G~~~r~~l~~   93 (157)
T cd00267          25 GEIVALVGPNGSGKSTLLRAIAGLL----KPTSGEILIDGKDIAKLPLEEL----RRRIGYVP---QLSGGQRQRVALAR   93 (157)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCC----CCCccEEEECCEEcccCCHHHH----HhceEEEe---eCCHHHHHHHHHHH
Confidence            3699999999999999999998765    223444554321111  11111    11122111   11112223333555


Q ss_pred             HhccCcEEEEEeccCCccc---cccccCCCCC-CCCCcEEEEecCchhhhhc
Q 048126          225 ILSKKKFLLLLDDIWERVD---LTKVGVPFPD-PENKSKIVFTTRFLEICGA  272 (863)
Q Consensus       225 ~l~~kr~LlVlDdv~~~~~---~~~~~~~l~~-~~~gs~IivTtR~~~v~~~  272 (863)
                      .+...+-++++|+.....|   ...+...+.. ...+.-|+++|.+......
T Consensus        94 ~l~~~~~i~ilDEp~~~lD~~~~~~l~~~l~~~~~~~~tii~~sh~~~~~~~  145 (157)
T cd00267          94 ALLLNPDLLLLDEPTSGLDPASRERLLELLRELAEEGRTVIIVTHDPELAEL  145 (157)
T ss_pred             HHhcCCCEEEEeCCCcCCCHHHHHHHHHHHHHHHHCCCEEEEEeCCHHHHHH
Confidence            5666778999999865432   1122111111 1124568888877665443

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.

>PF08298 AAA_PrkA: PrkA AAA domain; InterPro: IPR013153 This is entry is found at the N terminus of PrkA proteins - bacterial and archaeal serine kinases approximately 630 residues in length

Probab=93.64  E-value=0.093  Score=55.23  Aligned_cols=46  Identities=24%  Similarity=0.372  Sum_probs=41.0

Q ss_pred             CCccchhHHHHHHHHHhcC------CCccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          126 EPTVGLESMFDKVWRCLGE------EQVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~------~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ..++|.++.++++++.+..      .+-+++.++|+.|.||||||..+.+-.
T Consensus        61 ~~~~G~~~~i~~lV~~fk~AA~g~~~~krIl~L~GPvg~GKSsl~~~Lk~~l  112 (358)
T PF08298_consen   61 DEFYGMEETIERLVNYFKSAAQGLEERKRILLLLGPVGGGKSSLAELLKRGL  112 (358)
T ss_pred             ccccCcHHHHHHHHHHHHHHHhccCccceEEEEECCCCCCHHHHHHHHHHHh
Confidence            3689999999999999853      466899999999999999999999887

PrkA possesses the A-motif of nucleotide-binding proteins and exhibits distant homology to eukaryotic protein kinases []. Note that many of these are hypothetical.

>TIGR01041 ATP_syn_B_arch ATP synthase archaeal, B subunit

Probab=93.63  E-value=0.24  Score=54.98  Aligned_cols=95  Identities=11%  Similarity=0.143  Sum_probs=57.1

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCC--EEEEEEeCCcc-CHHHHHHHHHHHhCCCCc-----cccCCChh-
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFD--VVIWVVVSKDL-QLEKIQEKIGRRIGFLDE-----SWKNGSLE-  216 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~--~~~wv~~s~~~-~~~~~~~~i~~~l~~~~~-----~~~~~~~~-  216 (863)
                      +-..++|.|..|+|||||+.++++.. .....+.  .++++-+++.. .+.++.+.+...-.....     ..+..... 
T Consensus       140 ~GQR~gIfgg~G~GKs~L~~~ia~~~-~ad~~~~~~v~V~~~iGERgrEv~efi~~~~~~~~l~rtvvv~atsd~p~~~R  218 (458)
T TIGR01041       140 RGQKLPIFSGSGLPHNELAAQIARQA-TVRGEESEFAVVFAAMGITYEEANFFMKDFEETGALERAVVFLNLADDPAVER  218 (458)
T ss_pred             cCCEEEeeCCCCCCHHHHHHHHHHhh-cccCCCCceEEEEEEccccchHHHHHHHHHHhcCCcceEEEEEECCCCCHHHH
Confidence            34578999999999999999999876 2211111  66777777664 355666666543221110     00111111 


Q ss_pred             ----HHHHHHHHHhc---cCcEEEEEeccCCc
Q 048126          217 ----DKASDILRILS---KKKFLLLLDDIWER  241 (863)
Q Consensus       217 ----~~~~~l~~~l~---~kr~LlVlDdv~~~  241 (863)
                          -.+..+.++++   ++++||++||+...
T Consensus       219 ~~a~~~a~tiAEyfr~d~G~~VLli~DslTR~  250 (458)
T TIGR01041       219 IVTPRMALTAAEYLAFEKDMHVLVILTDMTNY  250 (458)
T ss_pred             HHHHHHHHHHHHHHHHccCCcEEEEEcChhHH
Confidence                12333556665   68899999998653

Archaeal ATP synthase shares extensive sequence similarity with eukaryotic and prokaryotic V-type (H+)-ATPases.

>PRK14530 adenylate kinase; Provisional

Probab=93.62  E-value=0.058  Score=54.17  Aligned_cols=24  Identities=29%  Similarity=0.376  Sum_probs=21.9

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          148 GIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      +.|.|+|++|+||||+|+.++...
T Consensus         4 ~~I~i~G~pGsGKsT~~~~La~~~   27 (215)
T PRK14530          4 PRILLLGAPGAGKGTQSSNLAEEF   27 (215)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHh
Confidence            368999999999999999999876

>TIGR00073 hypB hydrogenase accessory protein HypB

Probab=93.60  E-value=0.07  Score=53.19  Aligned_cols=32  Identities=28%  Similarity=0.461  Sum_probs=27.6

Q ss_pred             HHhcCCCccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          140 RCLGEEQVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       140 ~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      +.+.+.++++|+++|..|+|||||..++....
T Consensus        15 ~~~~~~~~~~i~~~G~~gsGKTTli~~l~~~~   46 (207)
T TIGR00073        15 ERLDKHGLVVLNFMSSPGSGKTTLIEKLIDNL   46 (207)
T ss_pred             HHhhhcCcEEEEEECCCCCCHHHHHHHHHHHH
Confidence            34445689999999999999999999998875

HypB is implicated in insertion of nickel into the large subunit of NiFe hydrogenases.

>cd01136 ATPase_flagellum-secretory_path_III Flagellum-specific ATPase/type III secretory pathway virulence-related protein

Probab=93.59  E-value=0.33  Score=51.40  Aligned_cols=90  Identities=24%  Similarity=0.312  Sum_probs=51.6

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCc-cCHHHHHHHHHHHhCCCCc-----cccCCChh---
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKD-LQLEKIQEKIGRRIGFLDE-----SWKNGSLE---  216 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~-~~~~~~~~~i~~~l~~~~~-----~~~~~~~~---  216 (863)
                      .-..++|+|..|+|||||++.+.... .    -+..++..+... -++.++.......-+....     ..+.....   
T Consensus        68 ~Gqri~I~G~sG~GKTtLl~~Ia~~~-~----~~~~vi~~iGer~~ev~~~~~~~~~~~~l~rtvvv~~t~d~~~~~r~~  142 (326)
T cd01136          68 KGQRLGIFAGSGVGKSTLLGMIARGT-T----ADVNVIALIGERGREVREFIEKDLGEEGLKRSVVVVATSDESPLLRVK  142 (326)
T ss_pred             CCcEEEEECCCCCChHHHHHHHhCCC-C----CCEEEEEEEecCCccHHHHHHHHHhcCccceEEEEEcCCCCCHHHHHH
Confidence            44688999999999999999998765 1    234444544433 3455555555543322110     00111111   


Q ss_pred             --HHHHHHHHHh--ccCcEEEEEeccCC
Q 048126          217 --DKASDILRIL--SKKKFLLLLDDIWE  240 (863)
Q Consensus       217 --~~~~~l~~~l--~~kr~LlVlDdv~~  240 (863)
                        ..+-.+.+++  ++|.+|+++||+..
T Consensus       143 ~~~~a~~~AEyfr~~g~~Vll~~Dsltr  170 (326)
T cd01136         143 AAYTATAIAEYFRDQGKDVLLLMDSLTR  170 (326)
T ss_pred             HHHHHHHHHHHHHHcCCCeEEEeccchH
Confidence              1122233333  57899999999855

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.

>COG0003 ArsA Predicted ATPase involved in chromosome partitioning [Cell division and chromosome partitioning]

Probab=93.57  E-value=0.1  Score=55.02  Aligned_cols=49  Identities=29%  Similarity=0.327  Sum_probs=34.7

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHH
Q 048126          147 VGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEK  198 (863)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~  198 (863)
                      .+++.+.|.|||||||+|.+.+-...   .....++-|+.....++.+++..
T Consensus         2 ~riv~f~GKGGVGKTT~aaA~A~~lA---~~g~kvLlvStDPAhsL~d~f~~   50 (322)
T COG0003           2 TRIVFFTGKGGVGKTTIAAATAVKLA---ESGKKVLLVSTDPAHSLGDVFDL   50 (322)
T ss_pred             cEEEEEecCCcccHHHHHHHHHHHHH---HcCCcEEEEEeCCCCchHhhhcc
Confidence            47899999999999999999776662   22244777766665555555443

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

Probab=93.57  E-value=0.15  Score=51.85  Aligned_cols=65  Identities=28%  Similarity=0.349  Sum_probs=35.1

Q ss_pred             HHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHhhhcC----CCCCCCEEEEEEeCCccCHHHHHHHHHH
Q 048126          135 FDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLG----APNDFDVVIWVVVSKDLQLEKIQEKIGR  201 (863)
Q Consensus       135 ~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~----~~~~F~~~~wv~~s~~~~~~~~~~~i~~  201 (863)
                      .+.+...+....  +..|+|++|.||||++..+.....+    ....-+..+-++......+..++..+.+
T Consensus         7 ~~Ai~~~~~~~~--~~~i~GpPGTGKT~~l~~~i~~~~~~~~~~~~~~~~~il~~~~sN~avd~~~~~l~~   75 (236)
T PF13086_consen    7 REAIQSALSSNG--ITLIQGPPGTGKTTTLASIIAQLLQRFKSRSADRGKKILVVSPSNAAVDNILERLKK   75 (236)
T ss_dssp             HHHHHHHCTSSE---EEEE-STTSSHHHHHHHHHHHH-------HCCCSS-EEEEESSHHHHHHHHHHHHC
T ss_pred             HHHHHHHHcCCC--CEEEECCCCCChHHHHHHHHHHhccchhhhhhhccccceeecCCchhHHHHHHHHHh
Confidence            344444443332  7889999999999877777666511    0123344455555555455555555544

>cd03281 ABC_MSH5_euk MutS5 homolog in eukaryotes

Probab=93.55  E-value=0.06  Score=53.80  Aligned_cols=24  Identities=21%  Similarity=0.297  Sum_probs=21.3

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHhh
Q 048126          147 VGIIGLYGMGGVGKTTLLTKINNK  170 (863)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~  170 (863)
                      .+++.|+|+.|.||||+.+.+...
T Consensus        29 ~~~~~itGpNg~GKStlLk~i~~~   52 (213)
T cd03281          29 PSIMVITGPNSSGKSVYLKQVALI   52 (213)
T ss_pred             ceEEEEECCCCCChHHHHHHHHHH
Confidence            488999999999999999998743

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=93.54  E-value=0.056  Score=52.55  Aligned_cols=24  Identities=33%  Similarity=0.443  Sum_probs=21.9

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          148 GIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ++|+|+|+.|+||||||+.++...
T Consensus         2 ~ii~l~G~~GsGKsTl~~~L~~~~   25 (180)
T TIGR03263         2 LLIVISGPSGVGKSTLVKALLEED   25 (180)
T ss_pred             cEEEEECCCCCCHHHHHHHHHccC
Confidence            579999999999999999999865

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.

>cd00544 CobU Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU)

Probab=93.52  E-value=0.38  Score=45.92  Aligned_cols=80  Identities=18%  Similarity=0.221  Sum_probs=46.9

Q ss_pred             EEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHHHHhCCCCccccCCChhHHHHHHHHHhcc-
Q 048126          150 IGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGRRIGFLDESWKNGSLEDKASDILRILSK-  228 (863)
Q Consensus       150 i~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~-  228 (863)
                      +.|.|..|+|||++|.++....      ...++|+.-.+.++.+ +.+.|...-......   ....+....+.+.+.. 
T Consensus         2 ~li~G~~~sGKS~~a~~~~~~~------~~~~~y~at~~~~d~e-m~~rI~~H~~~R~~~---w~t~E~~~~l~~~l~~~   71 (169)
T cd00544           2 ILVTGGARSGKSRFAERLAAEL------GGPVTYIATAEAFDDE-MAERIARHRKRRPAH---WRTIETPRDLVSALKEL   71 (169)
T ss_pred             EEEECCCCCCHHHHHHHHHHhc------CCCeEEEEccCcCCHH-HHHHHHHHHHhCCCC---ceEeecHHHHHHHHHhc
Confidence            6789999999999999997652      2357777777766553 444444322222222   2222333334444422 


Q ss_pred             -CcEEEEEeccC
Q 048126          229 -KKFLLLLDDIW  239 (863)
Q Consensus       229 -kr~LlVlDdv~  239 (863)
                       +.-.+++|.+.
T Consensus        72 ~~~~~VLIDclt   83 (169)
T cd00544          72 DPGDVVLIDCLT   83 (169)
T ss_pred             CCCCEEEEEcHh
Confidence             23479999873

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.

>PRK10751 molybdopterin-guanine dinucleotide biosynthesis protein B; Provisional

Probab=93.49  E-value=0.073  Score=50.68  Aligned_cols=26  Identities=35%  Similarity=0.546  Sum_probs=23.8

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ...+++|+|..|+|||||++.+....
T Consensus         5 ~~~ii~ivG~sgsGKTTLi~~li~~l   30 (173)
T PRK10751          5 MIPLLAIAAWSGTGKTTLLKKLIPAL   30 (173)
T ss_pred             CceEEEEECCCCChHHHHHHHHHHHH
Confidence            45699999999999999999999887

>PRK12339 2-phosphoglycerate kinase; Provisional

Probab=93.46  E-value=0.07  Score=52.38  Aligned_cols=25  Identities=32%  Similarity=0.328  Sum_probs=22.8

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          147 VGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ..+|.|.|.+|+||||+|+.++.+.
T Consensus         3 ~~~i~i~G~~G~GKst~a~~l~~~~   27 (197)
T PRK12339          3 STIHFIGGIPGVGKTSISGYIARHR   27 (197)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHhc
Confidence            4589999999999999999999876

>COG3598 RepA RecA-family ATPase [DNA replication, recombination, and repair]

Probab=93.43  E-value=0.27  Score=50.37  Aligned_cols=59  Identities=32%  Similarity=0.405  Sum_probs=38.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhhcCCCCCC-------CEEEEEEeCCcc-CHHHHHHHHHHHhCCCC
Q 048126          149 IIGLYGMGGVGKTTLLTKINNKLLGAPNDF-------DVVIWVVVSKDL-QLEKIQEKIGRRIGFLD  207 (863)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F-------~~~~wv~~s~~~-~~~~~~~~i~~~l~~~~  207 (863)
                      ++.|+|.||+||||++-..+--...-++.|       ..+++|++-... ++-.-++.+..++++..
T Consensus        91 ~~~~~gdsg~GKttllL~l~IalaaG~~lfG~~v~epGkvlyvslEl~re~~L~Rl~~v~a~mgLsP  157 (402)
T COG3598          91 VSILYGDSGVGKTTLLLYLCIALAAGKNLFGNKVKEPGKVLYVSLELYREDILERLEPVRARMGLSP  157 (402)
T ss_pred             eEEEecCCcccHhHHHHHHHHHHHhhHHHhcccccCCCeEEEEEeccChHHHHHHHHHHHHHcCCCh
Confidence            445679999999999987654432222333       367787765432 45556677788887754

>KOG0737 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=93.39  E-value=0.89  Score=47.85  Aligned_cols=49  Identities=31%  Similarity=0.303  Sum_probs=36.8

Q ss_pred             CccchhHHHHHHHHHhcC--------------CCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCC
Q 048126          127 PTVGLESMFDKVWRCLGE--------------EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDF  178 (863)
Q Consensus       127 ~~vGr~~~~~~l~~~L~~--------------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F  178 (863)
                      ++-|.+..++.+.+...-              ...+-|-++|++|.|||-||++++.+.   ...|
T Consensus        93 DIggLe~v~~~L~e~VilPlr~pelF~~g~Ll~p~kGiLL~GPpG~GKTmlAKA~Akea---ga~f  155 (386)
T KOG0737|consen   93 DIGGLEEVKDALQELVILPLRRPELFAKGKLLRPPKGILLYGPPGTGKTMLAKAIAKEA---GANF  155 (386)
T ss_pred             hccchHHHHHHHHHHHhhcccchhhhcccccccCCccceecCCCCchHHHHHHHHHHHc---CCCc
Confidence            345677777777666531              245678899999999999999999987   5556

>cd00464 SK Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants

Probab=93.39  E-value=0.065  Score=50.51  Aligned_cols=22  Identities=45%  Similarity=0.530  Sum_probs=20.5

Q ss_pred             EEEEcCCCCcHHHHHHHHHhhh
Q 048126          150 IGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       150 i~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      |.|+|++|+||||+|+.++...
T Consensus         2 i~l~G~~GsGKstla~~la~~l   23 (154)
T cd00464           2 IVLIGMMGAGKTTVGRLLAKAL   23 (154)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHh
Confidence            6899999999999999999876

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.

>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=93.37  E-value=0.068  Score=47.74  Aligned_cols=22  Identities=36%  Similarity=0.563  Sum_probs=20.4

Q ss_pred             EEEEcCCCCcHHHHHHHHHhhh
Q 048126          150 IGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       150 i~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      |.|+|..|+|||||.+.+....
T Consensus         2 I~V~G~~g~GKTsLi~~l~~~~   23 (119)
T PF08477_consen    2 IVVLGDSGVGKTSLIRRLCGGE   23 (119)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSS
T ss_pred             EEEECcCCCCHHHHHHHHhcCC
Confidence            7899999999999999999876

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.

>KOG3864 consensus Uncharacterized conserved protein [Function unknown]

Probab=93.34  E-value=0.03  Score=53.38  Aligned_cols=37  Identities=14%  Similarity=0.106  Sum_probs=17.5

Q ss_pred             CCCceEEEcCCcccccceeccccccccccccccCcccEEEEeccC
Q 048126          691 HNLNKLYVAGRKHLEDFQMTVQRSSVNQLARGFHSLHTVKVGFCF  735 (863)
Q Consensus       691 ~~L~~L~l~~~~~~~~l~~~~~~~~~~~~~~~l~~L~~L~L~~c~  735 (863)
                      ++|+.|+|++|+.+++-...+.        ..+++|+.|.|.+.+
T Consensus       151 ~~L~~L~lsgC~rIT~~GL~~L--------~~lknLr~L~l~~l~  187 (221)
T KOG3864|consen  151 PSLQDLDLSGCPRITDGGLACL--------LKLKNLRRLHLYDLP  187 (221)
T ss_pred             cchheeeccCCCeechhHHHHH--------HHhhhhHHHHhcCch
Confidence            4555555555555543333332        125555555555543

>cd01132 F1_ATPase_alpha F1 ATP synthase alpha, central domain

Probab=93.34  E-value=0.25  Score=50.64  Aligned_cols=97  Identities=14%  Similarity=0.178  Sum_probs=54.3

Q ss_pred             CccEEEEEcCCCCcHHHHH-HHHHhhhcCCCCCCCEE-EEEEeCCcc-CHHHHHHHHHHHhCCCC-----ccccCCChhH
Q 048126          146 QVGIIGLYGMGGVGKTTLL-TKINNKLLGAPNDFDVV-IWVVVSKDL-QLEKIQEKIGRRIGFLD-----ESWKNGSLED  217 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa-~~v~~~~~~~~~~F~~~-~wv~~s~~~-~~~~~~~~i~~~l~~~~-----~~~~~~~~~~  217 (863)
                      +-..++|.|..|+|||+|| ..+.+..     +-+.+ +++-+.+.. .+.++.+.+.+.-....     ...+......
T Consensus        68 rGQr~~Ifg~~g~GKt~L~l~~i~~~~-----~~~v~~V~~~iGer~~ev~e~~~~~~~~~~~~~tvvv~~t~d~~~~~r  142 (274)
T cd01132          68 RGQRELIIGDRQTGKTAIAIDTIINQK-----GKKVYCIYVAIGQKASTVAQVVKTLEEHGAMEYTIVVAATASDPAPLQ  142 (274)
T ss_pred             cCCEEEeeCCCCCCccHHHHHHHHHhc-----CCCeEEEEEecccchHHHHHHHHHHHhcCccceeEEEEeCCCCchhHH
Confidence            3457899999999999996 5566543     22334 677777664 35566666654321110     0001111111


Q ss_pred             -----HHHHHHHHh--ccCcEEEEEeccCCc-cccccc
Q 048126          218 -----KASDILRIL--SKKKFLLLLDDIWER-VDLTKV  247 (863)
Q Consensus       218 -----~~~~l~~~l--~~kr~LlVlDdv~~~-~~~~~~  247 (863)
                           .+-.+.+++  +++.+|+|+||+... ..+.++
T Consensus       143 ~~a~~~a~aiAE~fr~~G~~Vlvl~DslTr~A~A~rEi  180 (274)
T cd01132         143 YLAPYTGCAMGEYFMDNGKHALIIYDDLSKQAVAYRQM  180 (274)
T ss_pred             HHHHHHHHHHHHHHHHCCCCEEEEEcChHHHHHHHHHH
Confidence                 112233333  478999999999654 234443

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.

>cd01122 GP4d_helicase GP4d_helicase is a homohexameric 5'-3' helicases

Probab=93.33  E-value=0.56  Score=49.03  Aligned_cols=53  Identities=21%  Similarity=0.176  Sum_probs=36.6

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHHHH
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGRR  202 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~  202 (863)
                      .-.++.|.|.+|+||||++.+++....  ..+=..++|++...+  ..++...+...
T Consensus        29 ~g~~~~i~g~~G~GKT~l~~~~~~~~~--~~~g~~vl~iS~E~~--~~~~~~r~~~~   81 (271)
T cd01122          29 KGELIILTAGTGVGKTTFLREYALDLI--TQHGVRVGTISLEEP--VVRTARRLLGQ   81 (271)
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHHHH--HhcCceEEEEEcccC--HHHHHHHHHHH
Confidence            345888999999999999999987762  221246788876553  45555555443

Helicases couple NTP hydrolysis to the unwinding of nucleic acid duplexes into their component strands.

>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=93.31  E-value=0.052  Score=29.63  Aligned_cols=16  Identities=50%  Similarity=0.769  Sum_probs=6.1

Q ss_pred             CCCeEEccCCCccccc
Q 048126          565 SLEHLDLSGTAITHLP  580 (863)
Q Consensus       565 ~L~~L~L~~~~l~~lp  580 (863)
                      +|+.|++++|+++++|
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            4555555555554444

...

>PRK05057 aroK shikimate kinase I; Reviewed

Probab=93.30  E-value=0.078  Score=51.04  Aligned_cols=25  Identities=32%  Similarity=0.345  Sum_probs=22.5

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          147 VGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ...|.|+|+.|+||||+|+.++...
T Consensus         4 ~~~I~liG~~GaGKStl~~~La~~l   28 (172)
T PRK05057          4 KRNIFLVGPMGAGKSTIGRQLAQQL   28 (172)
T ss_pred             CCEEEEECCCCcCHHHHHHHHHHHc
Confidence            3469999999999999999999876

>PRK13975 thymidylate kinase; Provisional

Probab=93.29  E-value=0.072  Score=52.64  Aligned_cols=24  Identities=38%  Similarity=0.491  Sum_probs=22.6

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          148 GIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      .+|+|.|+.|+||||+|+.+++..
T Consensus         3 ~~I~ieG~~GsGKtT~~~~L~~~l   26 (196)
T PRK13975          3 KFIVFEGIDGSGKTTQAKLLAEKL   26 (196)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            479999999999999999999988

>PF03215 Rad17: Rad17 cell cycle checkpoint protein

Probab=93.27  E-value=0.13  Score=58.37  Aligned_cols=53  Identities=28%  Similarity=0.405  Sum_probs=40.9

Q ss_pred             ccchhHHHHHHHHHhcC-----CCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEE
Q 048126          128 TVGLESMFDKVWRCLGE-----EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVV  185 (863)
Q Consensus       128 ~vGr~~~~~~l~~~L~~-----~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~  185 (863)
                      ++--.+-+++|..||..     ...+++.+.|++|+||||.++.+++..     .|+.+-|..
T Consensus        21 LavhkkKv~eV~~wl~~~~~~~~~~~iLlLtGP~G~GKtttv~~La~el-----g~~v~Ew~n   78 (519)
T PF03215_consen   21 LAVHKKKVEEVRSWLEEMFSGSSPKRILLLTGPSGCGKTTTVKVLAKEL-----GFEVQEWIN   78 (519)
T ss_pred             hhccHHHHHHHHHHHHHHhccCCCcceEEEECCCCCCHHHHHHHHHHHh-----CCeeEEecC
Confidence            33445667888888854     235689999999999999999999886     577777864

>PF03266 NTPase_1: NTPase; InterPro: IPR004948 This entry represents a family of nucleoside-triphosphatases which have activity towards ATP, GTP, CTP, TTP and UTP and may hydrolyse nucleoside diphosphates with lower efficiency []

Probab=93.24  E-value=0.093  Score=50.09  Aligned_cols=22  Identities=55%  Similarity=0.679  Sum_probs=19.6

Q ss_pred             EEEEcCCCCcHHHHHHHHHhhh
Q 048126          150 IGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       150 i~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      |.|.|.+|+||||+++.+++..
T Consensus         2 i~iTG~pG~GKTTll~k~i~~l   23 (168)
T PF03266_consen    2 IFITGPPGVGKTTLLKKVIEEL   23 (168)
T ss_dssp             EEEES-TTSSHHHHHHHHHHHH
T ss_pred             EEEECcCCCCHHHHHHHHHHHh
Confidence            6799999999999999999887

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.

>cd01878 HflX HflX subfamily

Probab=93.20  E-value=0.24  Score=49.24  Aligned_cols=27  Identities=22%  Similarity=0.391  Sum_probs=23.4

Q ss_pred             CCccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          145 EQVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       145 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      +....|+|+|.+|+|||||.+.+.+..
T Consensus        39 ~~~~~I~iiG~~g~GKStLl~~l~~~~   65 (204)
T cd01878          39 SGIPTVALVGYTNAGKSTLFNALTGAD   65 (204)
T ss_pred             cCCCeEEEECCCCCCHHHHHHHHhcch
Confidence            455789999999999999999998764

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.

>PF13306 LRR_5: Leucine rich repeats (6 copies); PDB: 3ZYJ_A 3V47_B 3V44_A 3ZYN_A 3ZYO_A 3SB4_A

Probab=93.19  E-value=0.18  Score=45.72  Aligned_cols=104  Identities=21%  Similarity=0.287  Sum_probs=59.5

Q ss_pred             CCCCCccceEEccCCccccccchhhhcCCCccEEEccCCCccccCCccccccCCCCeEEccCCCccccchh-hhcCCCCC
Q 048126          512 TPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAITHLPIE-LQKLVNLK  590 (863)
Q Consensus       512 ~~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~~~l~~lp~~-~~~l~~L~  590 (863)
                      +..|++|+.+.+.. .+..++...|.+++.|+.+.+.++ ....-...+.++.+|+.+.+.. .+..++.. +..+++|+
T Consensus         8 F~~~~~l~~i~~~~-~~~~I~~~~F~~~~~l~~i~~~~~-~~~i~~~~F~~~~~l~~i~~~~-~~~~i~~~~F~~~~~l~   84 (129)
T PF13306_consen    8 FYNCSNLESITFPN-TIKKIGENAFSNCTSLKSINFPNN-LTSIGDNAFSNCKSLESITFPN-NLKSIGDNAFSNCTNLK   84 (129)
T ss_dssp             TTT-TT--EEEETS-T--EE-TTTTTT-TT-SEEEESST-TSCE-TTTTTT-TT-EEEEETS-TT-EE-TTTTTT-TTEC
T ss_pred             HhCCCCCCEEEECC-CeeEeChhhccccccccccccccc-ccccceeeeecccccccccccc-ccccccccccccccccc
Confidence            46778888888875 577788888888888999988875 3322234566777888888865 55555543 56688888


Q ss_pred             EEecCCccccCCCcHHHhhcCCCCcEEEeec
Q 048126          591 CLNLEYMYNLNQFPRLVMSAFSKLQVLRILK  621 (863)
Q Consensus       591 ~L~l~~~~~l~~lp~~~~~~L~~L~~L~l~~  621 (863)
                      .+.+..+  +..++...+.++ +|+.+.+..
T Consensus        85 ~i~~~~~--~~~i~~~~f~~~-~l~~i~~~~  112 (129)
T PF13306_consen   85 NIDIPSN--ITEIGSSSFSNC-NLKEINIPS  112 (129)
T ss_dssp             EEEETTT---BEEHTTTTTT--T--EEE-TT
T ss_pred             ccccCcc--ccEEchhhhcCC-CceEEEECC
Confidence            8888653  566666666676 777777653

>cd02029 PRK_like Phosphoribulokinase-like (PRK-like) is a family of proteins similar to phosphoribulokinase (PRK), the enzyme involved in the Benson-Calvin cycle in chloroplasts or photosynthetic prokaryotes

Probab=93.19  E-value=0.34  Score=49.23  Aligned_cols=23  Identities=26%  Similarity=0.488  Sum_probs=21.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 048126          149 IIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      +|+|.|..|+||||+|+.+....
T Consensus         1 IIgItG~SGSGKTTv~~~l~~~l   23 (277)
T cd02029           1 VIAVTGSSGAGTTTVKRAFEHIF   23 (277)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHH
Confidence            58999999999999999999877

PRK catalyzes the phosphorylation of D-ribulose 5-phosphate to form D-ribulose 1, 5-biphosphate, using ATP and NADPH produced by the primary reactions of photosynthesis.

>PRK00300 gmk guanylate kinase; Provisional

Probab=93.18  E-value=0.073  Score=53.02  Aligned_cols=26  Identities=31%  Similarity=0.378  Sum_probs=23.3

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      .-.+|+|+|+.|+||||||+.++...
T Consensus         4 ~g~~i~i~G~sGsGKstl~~~l~~~~   29 (205)
T PRK00300          4 RGLLIVLSGPSGAGKSTLVKALLERD   29 (205)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhhC
Confidence            34689999999999999999999876

>TIGR01069 mutS2 MutS2 family protein

Probab=93.17  E-value=0.061  Score=64.23  Aligned_cols=190  Identities=19%  Similarity=0.207  Sum_probs=88.0

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHHHHhCCCCccc-cCCChhHHHHHHHH
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGRRIGFLDESW-KNGSLEDKASDILR  224 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~-~~~~~~~~~~~l~~  224 (863)
                      +..++.|+|+.|.||||+.+.+.....-...    .++|++.....+ ..+.++...++....-. ...+...-...+..
T Consensus       321 ~~~~liItGpNg~GKSTlLK~i~~~~l~aq~----G~~Vpa~~~~~~-~~~d~i~~~i~~~~si~~~LStfS~~m~~~~~  395 (771)
T TIGR01069       321 EKRVLAITGPNTGGKTVTLKTLGLLALMFQS----GIPIPANEHSEI-PYFEEIFADIGDEQSIEQNLSTFSGHMKNISA  395 (771)
T ss_pred             CceEEEEECCCCCCchHHHHHHHHHHHHHHh----CCCccCCccccc-cchhheeeecChHhHHhhhhhHHHHHHHHHHH
Confidence            4479999999999999999998765100001    111211111000 00111111111000000 00001111112222


Q ss_pred             Hhc--cCcEEEEEeccCCcccc---c----cccCCCCCCCCCcEEEEecCchhhhhcccccce---EeecCCChHHHHHH
Q 048126          225 ILS--KKKFLLLLDDIWERVDL---T----KVGVPFPDPENKSKIVFTTRFLEICGAMKAHEF---LKVECLGPEDAWRL  292 (863)
Q Consensus       225 ~l~--~kr~LlVlDdv~~~~~~---~----~~~~~l~~~~~gs~IivTtR~~~v~~~~~~~~~---~~l~~L~~~e~~~l  292 (863)
                      .+.  ..+-|+++|..-...+.   .    .+...+.  ..|+.+|+||-..++.........   ..+. ++.+ ... 
T Consensus       396 il~~~~~~sLvLlDE~g~GtD~~eg~ala~aiLe~l~--~~g~~viitTH~~eL~~~~~~~~~v~~~~~~-~d~~-~l~-  470 (771)
T TIGR01069       396 ILSKTTENSLVLFDELGAGTDPDEGSALAISILEYLL--KQNAQVLITTHYKELKALMYNNEGVENASVL-FDEE-TLS-  470 (771)
T ss_pred             HHHhcCCCcEEEecCCCCCCCHHHHHHHHHHHHHHHH--hcCCEEEEECChHHHHHHhcCCCCeEEeEEE-EcCC-CCc-
Confidence            332  47899999998754321   1    1222221  357889999999877443221111   1111 1111 000 


Q ss_pred             HHHHhcccccCCCCChHHHHHHHHHHhCCchhHHHHHHHHhcCCCChhHHHHHHHHHHhc
Q 048126          293 FRENLRRDVLDNHPDIPELARSVAKEYAGLPLALITIGRAMTCKKTTQEWHHAIQILRRS  352 (863)
Q Consensus       293 f~~~~~~~~~~~~~~~~~~~~~i~~~c~glPlai~~~~~~l~~~~~~~~w~~~l~~l~~~  352 (863)
                      |.-++..   .. +. ...|-+|++++ |+|-.+..-|..+.+ ....+...+++.|...
T Consensus       471 p~Ykl~~---G~-~g-~S~a~~iA~~~-Glp~~ii~~A~~~~~-~~~~~~~~li~~L~~~  523 (771)
T TIGR01069       471 PTYKLLK---GI-PG-ESYAFEIAQRY-GIPHFIIEQAKTFYG-EFKEEINVLIEKLSAL  523 (771)
T ss_pred             eEEEECC---CC-CC-CcHHHHHHHHh-CcCHHHHHHHHHHHH-hhHHHHHHHHHHHHHH
Confidence            0000000   00 11 23578888877 788888887877754 3445666666666543

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.

>PF10923 DUF2791: P-loop Domain of unknown function (DUF2791); InterPro: IPR021228 This is a family of proteins found in archaea and bacteria

Probab=93.17  E-value=0.62  Score=50.89  Aligned_cols=77  Identities=29%  Similarity=0.302  Sum_probs=61.6

Q ss_pred             ccchhHHHHHHHHHhc---CCCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCcc-------CHHHHHH
Q 048126          128 TVGLESMFDKVWRCLG---EEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDL-------QLEKIQE  197 (863)
Q Consensus       128 ~vGr~~~~~~l~~~L~---~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~-------~~~~~~~  197 (863)
                      .|||+.+++.|.+-|.   +++..+-.|.|--|.|||.+++.+.+...  .+.| .++.|.+|.+.       ....+++
T Consensus        27 ~VGr~~e~~~l~~~l~~v~~G~s~~kfi~G~YGsGKTf~l~~i~~~A~--~~~f-vvs~v~ls~e~~lh~~~g~~~~~Yr  103 (416)
T PF10923_consen   27 AVGREREIEALDRDLDRVADGGSSFKFIRGEYGSGKTFFLRLIRERAL--EKGF-VVSEVDLSPERPLHGTGGQLEALYR  103 (416)
T ss_pred             eechHHHHHHHHHHHHHHhCCCCeEEEEEeCCCCcHHHHHHHHHHHHH--HcCC-EEEEEecCCCcccccccccHHHHHH
Confidence            3999999999988775   46677889999999999999999998873  4556 57788887743       3557899


Q ss_pred             HHHHHhCCCC
Q 048126          198 KIGRRIGFLD  207 (863)
Q Consensus       198 ~i~~~l~~~~  207 (863)
                      .|++.+....
T Consensus       104 ~l~~nL~t~~  113 (416)
T PF10923_consen  104 ELMRNLSTKT  113 (416)
T ss_pred             HHHHhcCCCC
Confidence            9999987654

Some of the proteins in this family are annotated as being methyl-accepting chemotaxis proteins and ATP/GTP binding proteins.

>COG2019 AdkA Archaeal adenylate kinase [Nucleotide transport and metabolism]

Probab=93.15  E-value=0.083  Score=48.73  Aligned_cols=25  Identities=36%  Similarity=0.509  Sum_probs=21.9

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          147 VGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      .+++.|+|.+|+||||+.+.+....
T Consensus         4 ~kvvvitGVpGvGKTTVl~~~~~~l   28 (189)
T COG2019           4 RKVVVITGVPGVGKTTVLKIALKEL   28 (189)
T ss_pred             ceEEEEEcCCCCChHHHHHHHHHHH
Confidence            5799999999999999998887654

>PRK05917 DNA polymerase III subunit delta'; Validated

Probab=93.15  E-value=2  Score=44.63  Aligned_cols=38  Identities=11%  Similarity=0.144  Sum_probs=30.0

Q ss_pred             HHHHHHHHhcCCCc-cEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          134 MFDKVWRCLGEEQV-GIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       134 ~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      .-+.+...+..+++ +...++|+.|+||+++|..++...
T Consensus         5 ~~~~L~~~i~~~rl~HAyLf~G~~G~Gk~~lA~~~A~~l   43 (290)
T PRK05917          5 AWEALIQRVRDQKVPSAIILHGQDLSNLSARAYELASLI   43 (290)
T ss_pred             HHHHHHHHHHcCCcCeeEeeECCCCCcHHHHHHHHHHHH
Confidence            34567777766654 577799999999999999998776

>COG0488 Uup ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]

Probab=93.15  E-value=1  Score=51.35  Aligned_cols=240  Identities=16%  Similarity=0.073  Sum_probs=0.0

Q ss_pred             HHHHHhhhhchhhHHHHHHHHHHHHHHHHHHHHhhhhhhcCccCCCccCCCchhhhhhHHHHHHHHHHHHHHHhcCCc--
Q 048126           31 ANAENQQMRQLNTVQGWLSRVEAVETEVGELMRDSSQEVDKLCPGGCCSKNCKSSFKFGKRVAKTLQLVNNLMGEGAF--  108 (863)
Q Consensus        31 ~~ae~~~~~~~~~v~~wl~~l~~~~y~~ed~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~i~~~~~~~~~--  108 (863)
                      +.-.+.......+.+.--++.+...-..++.++.+...+.+.       +...+|-+...++.+.............+  
T Consensus       236 ~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~i~r~~~~~~~~-------k~a~sr~k~l~k~~~~~~~~~~~~~~~~~~~  308 (530)
T COG0488         236 SSYLEQKAERLRQEAAAYEKQQKELAKEQEWIRRGKAAASKA-------KKAKSRIKRLEKLEARLAEERPVEEGKPLAF  308 (530)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccchH-------HHHHHHHHHHHHHHhhhhhccccccccccee


Q ss_pred             ccccccCCCCccccCCCCCccchhHHHHHHHHHhcC--CCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEE---
Q 048126          109 DAVAEKVRPPAVDQRPCEPTVGLESMFDKVWRCLGE--EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIW---  183 (863)
Q Consensus       109 ~~~~~~~~~~~~~~~~~~~~vGr~~~~~~l~~~L~~--~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~w---  183 (863)
                      .......+.+...-....-.+|.+.. ..|.+-+.-  ..-..|+|+|+.|+|||||.+.+....   ...=..+.|   
T Consensus       309 ~f~~~~~~~g~~vl~~~~~~~~y~~~-~~l~~~~s~~i~~g~riaiiG~NG~GKSTLlk~l~g~~---~~~~G~v~~g~~  384 (530)
T COG0488         309 RFPPPGKRLGKLVLEFENVSKGYDGG-RLLLKDLSFRIDRGDRIAIVGPNGAGKSTLLKLLAGEL---GPLSGTVKVGET  384 (530)
T ss_pred             eccCCcccCCCeeEEEeccccccCCC-ceeecCceEEecCCCEEEEECCCCCCHHHHHHHHhhhc---ccCCceEEeCCc


Q ss_pred             ----------------------EEeCCccCHHHHHHHHHHHhCCCCccc-----cCCChhHHHHHHHHHhccCcEEEEEe
Q 048126          184 ----------------------VVVSKDLQLEKIQEKIGRRIGFLDESW-----KNGSLEDKASDILRILSKKKFLLLLD  236 (863)
Q Consensus       184 ----------------------v~~s~~~~~~~~~~~i~~~l~~~~~~~-----~~~~~~~~~~~l~~~l~~kr~LlVlD  236 (863)
                                            +.-..+.....-.+..+.+++...+..     .-+.-+...-.+...+-.++-+||||
T Consensus       385 v~igyf~Q~~~~l~~~~t~~d~l~~~~~~~~e~~~r~~L~~f~F~~~~~~~~v~~LSGGEk~Rl~La~ll~~~pNvLiLD  464 (530)
T COG0488         385 VKIGYFDQHRDELDPDKTVLEELSEGFPDGDEQEVRAYLGRFGFTGEDQEKPVGVLSGGEKARLLLAKLLLQPPNLLLLD  464 (530)
T ss_pred             eEEEEEEehhhhcCccCcHHHHHHhhCccccHHHHHHHHHHcCCChHHHhCchhhcCHhHHHHHHHHHHhccCCCEEEEc


Q ss_pred             ccCCccccccc--cCCCCCCCCCcEEEEecCchhhhhcccccceEeecC
Q 048126          237 DIWERVDLTKV--GVPFPDPENKSKIVFTTRFLEICGAMKAHEFLKVEC  283 (863)
Q Consensus       237 dv~~~~~~~~~--~~~l~~~~~gs~IivTtR~~~v~~~~~~~~~~~l~~  283 (863)
                      .--+.-|.+.+  ....-..-.|+ ||+.|-+........ ..++.+.+
T Consensus       465 EPTNhLDi~s~~aLe~aL~~f~Gt-vl~VSHDr~Fl~~va-~~i~~~~~  511 (530)
T COG0488         465 EPTNHLDIESLEALEEALLDFEGT-VLLVSHDRYFLDRVA-TRIWLVED  511 (530)
T ss_pred             CCCccCCHHHHHHHHHHHHhCCCe-EEEEeCCHHHHHhhc-ceEEEEcC

>PRK13948 shikimate kinase; Provisional

Probab=93.10  E-value=0.099  Score=50.58  Aligned_cols=26  Identities=27%  Similarity=0.409  Sum_probs=23.7

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ....|.++|+.|+||||+++.+++..
T Consensus         9 ~~~~I~LiG~~GsGKSTvg~~La~~l   34 (182)
T PRK13948          9 PVTWVALAGFMGTGKSRIGWELSRAL   34 (182)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHc
Confidence            45789999999999999999999886

>PRK14527 adenylate kinase; Provisional

Probab=93.10  E-value=0.09  Score=51.69  Aligned_cols=26  Identities=23%  Similarity=0.393  Sum_probs=23.6

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ...+|.|+|++|+||||+|+.+++..
T Consensus         5 ~~~~i~i~G~pGsGKsT~a~~La~~~   30 (191)
T PRK14527          5 KNKVVIFLGPPGAGKGTQAERLAQEL   30 (191)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            45789999999999999999999876

>COG1124 DppF ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]

Probab=93.09  E-value=0.12  Score=51.17  Aligned_cols=26  Identities=27%  Similarity=0.396  Sum_probs=22.8

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      .-.+++|+|..|.|||||++.++-=.
T Consensus        32 ~Ge~lgivGeSGsGKSTL~r~l~Gl~   57 (252)
T COG1124          32 RGETLGIVGESGSGKSTLARLLAGLE   57 (252)
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHhccc
Confidence            44689999999999999999998654

>PF02374 ArsA_ATPase: Anion-transporting ATPase; PDB: 2WOO_A 3IBG_B 3SJA_A 3H84_B 3SJD_A 3ZS9_A 3A37_A 2WOJ_A 3SJC_B 3A36_B

Probab=93.06  E-value=0.11  Score=54.82  Aligned_cols=45  Identities=27%  Similarity=0.342  Sum_probs=29.7

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHH
Q 048126          148 GIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKI  195 (863)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~  195 (863)
                      +++.+.|-|||||||+|...+-...+  .. ..+.-|+.....++.++
T Consensus         2 r~~~~~GKGGVGKTT~aaA~A~~~A~--~G-~rtLlvS~Dpa~~L~d~   46 (305)
T PF02374_consen    2 RILFFGGKGGVGKTTVAAALALALAR--RG-KRTLLVSTDPAHSLSDV   46 (305)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHHHHHH--TT-S-EEEEESSTTTHHHHH
T ss_pred             eEEEEecCCCCCcHHHHHHHHHHHhh--CC-CCeeEeecCCCccHHHH
Confidence            68899999999999999888777632  12 23555554444333333

...

>PRK05800 cobU adenosylcobinamide kinase/adenosylcobinamide-phosphate guanylyltransferase; Validated

Probab=93.05  E-value=0.36  Score=46.19  Aligned_cols=84  Identities=14%  Similarity=0.187  Sum_probs=46.8

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHHHHhCCCCccccC-CChhHHHHHHHHHh
Q 048126          148 GIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGRRIGFLDESWKN-GSLEDKASDILRIL  226 (863)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~~-~~~~~~~~~l~~~l  226 (863)
                      .++.|.|.+|+||||+|..++... .  .   .++++.-...+ ..++.+.|..........|.. ....++...+....
T Consensus         2 ~~ili~G~~~sGKS~~a~~l~~~~-~--~---~~~~iat~~~~-~~e~~~ri~~h~~~R~~~w~t~E~~~~l~~~i~~~~   74 (170)
T PRK05800          2 MLILVTGGARSGKSRFAERLAAQS-G--L---QVLYIATAQPF-DDEMAARIAHHRQRRPAHWQTVEEPLDLAELLRADA   74 (170)
T ss_pred             CEEEEECCCCccHHHHHHHHHHHc-C--C---CcEeCcCCCCC-hHHHHHHHHHHHhcCCCCCeEecccccHHHHHHhhc
Confidence            368899999999999999998775 1  1   23444444433 334555555444333322211 11223444444433


Q ss_pred             ccCcEEEEEeccC
Q 048126          227 SKKKFLLLLDDIW  239 (863)
Q Consensus       227 ~~kr~LlVlDdv~  239 (863)
                      .+ .-++++|.+.
T Consensus        75 ~~-~~~VlID~Lt   86 (170)
T PRK05800         75 AP-GRCVLVDCLT   86 (170)
T ss_pred             CC-CCEEEehhHH
Confidence            33 3378889873

>TIGR01313 therm_gnt_kin carbohydrate kinase, thermoresistant glucokinase family

Probab=93.04  E-value=0.065  Score=51.14  Aligned_cols=22  Identities=32%  Similarity=0.647  Sum_probs=20.0

Q ss_pred             EEEEcCCCCcHHHHHHHHHhhh
Q 048126          150 IGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       150 i~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      |.++|+.|+||||+|+.+....
T Consensus         1 i~l~G~~GsGKSTla~~l~~~l   22 (163)
T TIGR01313         1 FVLMGVAGSGKSTIASALAHRL   22 (163)
T ss_pred             CEEECCCCCCHHHHHHHHHHhc
Confidence            4689999999999999999876

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.

>TIGR00176 mobB molybdopterin-guanine dinucleotide biosynthesis protein MobB

Probab=93.04  E-value=0.11  Score=48.76  Aligned_cols=33  Identities=24%  Similarity=0.443  Sum_probs=25.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEE
Q 048126          149 IIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIW  183 (863)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~w  183 (863)
                      |++|+|+.|+|||||+..+.... + ...+...+.
T Consensus         1 vi~i~G~~gsGKTtl~~~l~~~l-~-~~G~~V~vi   33 (155)
T TIGR00176         1 VLQIVGPKNSGKTTLIERLVKAL-K-ARGYRVATI   33 (155)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHH-H-hcCCeEEEE
Confidence            58899999999999999999987 2 234544433

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.

>PRK03846 adenylylsulfate kinase; Provisional

Probab=92.96  E-value=0.094  Score=51.87  Aligned_cols=27  Identities=22%  Similarity=0.418  Sum_probs=24.4

Q ss_pred             CCccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          145 EQVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       145 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ....+|+|+|++|+||||+|+.+....
T Consensus        22 ~~~~~i~i~G~~GsGKSTla~~l~~~l   48 (198)
T PRK03846         22 HKGVVLWFTGLSGSGKSTVAGALEEAL   48 (198)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHH
Confidence            456799999999999999999999876

>COG0529 CysC Adenylylsulfate kinase and related kinases [Inorganic ion transport and metabolism]

Probab=92.94  E-value=0.16  Score=47.50  Aligned_cols=29  Identities=28%  Similarity=0.511  Sum_probs=25.7

Q ss_pred             cCCCccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          143 GEEQVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       143 ~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ...+..+|.+.|..|.||||+|.+++...
T Consensus        19 ~~~~~~viW~TGLSGsGKSTiA~ale~~L   47 (197)
T COG0529          19 KGQKGAVIWFTGLSGSGKSTIANALEEKL   47 (197)
T ss_pred             hCCCCeEEEeecCCCCCHHHHHHHHHHHH
Confidence            34566799999999999999999999987

>PRK13946 shikimate kinase; Provisional

Probab=92.93  E-value=0.095  Score=51.14  Aligned_cols=25  Identities=28%  Similarity=0.418  Sum_probs=22.9

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          147 VGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      .+.|.++|+.|+||||+++.+++..
T Consensus        10 ~~~I~l~G~~GsGKsti~~~LA~~L   34 (184)
T PRK13946         10 KRTVVLVGLMGAGKSTVGRRLATML   34 (184)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHc
Confidence            3579999999999999999999987

>cd01134 V_A-ATPase_A V/A-type ATP synthase catalytic subunit A

Probab=92.92  E-value=0.88  Score=48.19  Aligned_cols=58  Identities=22%  Similarity=0.274  Sum_probs=41.2

Q ss_pred             HHHHhcC-CCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccC-HHHHHHHHH
Q 048126          138 VWRCLGE-EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQ-LEKIQEKIG  200 (863)
Q Consensus       138 l~~~L~~-~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~-~~~~~~~i~  200 (863)
                      +++.+.. .+-..++|.|..|+|||+|++++++..     +-+.++++-+.+..+ +.++++++-
T Consensus       147 vID~l~Pi~kGqr~~I~G~~G~GKT~L~~~Iak~~-----~~dvvVyv~iGERg~Ev~e~l~ef~  206 (369)
T cd01134         147 VLDTLFPVVKGGTAAIPGPFGCGKTVIQQSLSKYS-----NSDIVIYVGCGERGNEMTEVLEEFP  206 (369)
T ss_pred             hhhccccccCCCEEEEECCCCCChHHHHHHHHhCC-----CCCEEEEEEeCCChHHHHHHHHHHH
Confidence            3444432 344589999999999999999999865     235788998887643 455666553

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.

>PRK07594 type III secretion system ATPase SsaN; Validated

Probab=92.92  E-value=0.28  Score=53.94  Aligned_cols=92  Identities=22%  Similarity=0.283  Sum_probs=52.8

Q ss_pred             CCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCc-cCHHHHHHHHHHHhCCCC-----ccccCCChhH-
Q 048126          145 EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKD-LQLEKIQEKIGRRIGFLD-----ESWKNGSLED-  217 (863)
Q Consensus       145 ~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~-~~~~~~~~~i~~~l~~~~-----~~~~~~~~~~-  217 (863)
                      ..-..++|+|..|+|||||++.+.+..     +.+..+++.+.+. ..+.+...+....-....     ...+...... 
T Consensus       153 ~~GqrigI~G~sG~GKSTLL~~I~~~~-----~~d~~vi~~iGeRgrEv~efl~~~~~~~~~~rtv~vv~tsd~p~~~r~  227 (433)
T PRK07594        153 GEGQRVGIFSAPGVGKSTLLAMLCNAP-----DADSNVLVLIGERGREVREFIDFTLSEETRKRCVIVVATSDRPALERV  227 (433)
T ss_pred             CCCCEEEEECCCCCCccHHHHHhcCCC-----CCCEEEEEEECCCchHHHHHHHHhhccCCcceEEEEEECCCCCHHHHH
Confidence            345689999999999999999988754     3344566666554 334455555432110000     0001111111 


Q ss_pred             ----HHHHHHHHh--ccCcEEEEEeccCCc
Q 048126          218 ----KASDILRIL--SKKKFLLLLDDIWER  241 (863)
Q Consensus       218 ----~~~~l~~~l--~~kr~LlVlDdv~~~  241 (863)
                          .+-.+.+++  +++++||++||+...
T Consensus       228 ~a~~~a~tiAEyfrd~G~~VLl~~Dsltr~  257 (433)
T PRK07594        228 RALFVATTIAEFFRDNGKRVVLLADSLTRY  257 (433)
T ss_pred             HHHHHHHHHHHHHHHCCCcEEEEEeCHHHH
Confidence                122334444  478999999999653

>PF13521 AAA_28: AAA domain; PDB: 1LW7_A

Probab=92.89  E-value=0.081  Score=50.48  Aligned_cols=21  Identities=33%  Similarity=0.469  Sum_probs=17.6

Q ss_pred             EEEEcCCCCcHHHHHHHHHhh
Q 048126          150 IGLYGMGGVGKTTLLTKINNK  170 (863)
Q Consensus       150 i~I~G~gGiGKTtLa~~v~~~  170 (863)
                      |+|.|..|+|||||++.+...
T Consensus         2 I~i~G~~stGKTTL~~~L~~~   22 (163)
T PF13521_consen    2 IVITGGPSTGKTTLIEALAAR   22 (163)
T ss_dssp             EEEE--TTSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHc
Confidence            789999999999999999865

>PRK10078 ribose 1,5-bisphosphokinase; Provisional

Probab=92.89  E-value=0.083  Score=51.68  Aligned_cols=24  Identities=33%  Similarity=0.541  Sum_probs=21.5

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          148 GIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      .++.|+|+.|+|||||++.++...
T Consensus         3 ~~i~l~G~sGsGKsTl~~~l~~~~   26 (186)
T PRK10078          3 KLIWLMGPSGSGKDSLLAALRQRE   26 (186)
T ss_pred             cEEEEECCCCCCHHHHHHHHhccC
Confidence            478999999999999999997765

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	863
3rfs_A	272	Design Of A Binding Scaffold Based On Variable Lymp		3e-06
3rfj_A	279	Design Of A Binding Scaffold Based On Variable Lymp		1e-04

>pdb|3RFS|A Chain A, Design Of A Binding Scaffold Based On Variable Lymphocyte Receptors Of Jawless Vertebrates By Module Engineering Length = 272

Iteration: 1
 Score = 51.2 bits (121), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 40/137 (29%), Positives = 68/137 (49%), Gaps = 4/137 (2%)
Query: 490 IQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSN 549
           IQ   NVR ++L  NK+ ++S      +L  L L+ N L+ +    F  + +L+   +  
Sbjct: 59  IQYLPNVRYLALGGNKLHDISALKELTNLTYLILTGNQLQSLPNGVFDKLTNLKELVLVE 118
Query: 550 NHLLWKLPSGI-STLVSLEHLDLSGTAITHLPIEL-QKLVNLKCLNLEYMYNLNQFPRLV 607
           N  L  LP G+   L +L +L+L+   +  LP  +  KL NL  L+L Y   L   P  V
Sbjct: 119 NQ-LQSLPDGVFDKLTNLTYLNLAHNQLQSLPKGVFDKLTNLTELDLSY-NQLQSLPEGV 176
Query: 608 MSAFSKLQVLRILKSNV 624
               ++L+ LR+ ++ +
Sbjct: 177 FDKLTQLKDLRLYQNQL 193

>pdb|3RFJ|A Chain A, Design Of A Binding Scaffold Based On Variable Lymphocyte Receptors Of Jawless Vertebrates By Module Engineering Length = 279

Iteration: 1
 Score = 45.4 bits (106), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 42/136 (30%), Positives = 63/136 (46%), Gaps = 7/136 (5%)
Query: 490 IQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSN 549
           IQ   NVR ++L  NK+ ++S      +L  L L+ N L+ +    F  + +L+   +  
Sbjct: 59  IQYLPNVRYLALGGNKLHDISALKELTNLTYLILTGNQLQSLPNGVFDKLTNLKELVLVE 118
Query: 550 NHLLWKLPSGI-STLVSLEHLDLSGTAITHLPIEL-QKLVNLKCLNLEYMYNLNQFPRLV 607
           N  L  LP G+   L +L +L L    +  LP  +  KL NL  L+L+     NQ   L 
Sbjct: 119 NQ-LQSLPDGVFDKLTNLTYLYLYHNQLQSLPKGVFDKLTNLTRLDLDN----NQLQSLP 173
Query: 608 MSAFSKLQVLRILKSN 623
              F KL  L+ L  N
Sbjct: 174 EGVFDKLTQLKQLSLN 189

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	863
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	8e-56
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	4e-54
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-41
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-06
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	5e-20
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	1e-12
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	9e-09
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	1e-06
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	1e-06
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	4e-06
3sfz_A	1249	APAF-1, apoptotic peptidase activating factor 1; a	7e-20
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	9e-19
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	2e-14
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	8e-14
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	7e-13
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	6e-08
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	7e-18
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	4e-14
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	2e-13
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	6e-13
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	3e-08
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	3e-17
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	2e-10
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	1e-08
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	5e-06
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	4e-16
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	7e-16
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	9e-14
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	6e-12
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	4e-07
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	2e-04
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	4e-16
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	4e-14
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	2e-10
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	8e-10
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	1e-05
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	6e-16
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	8e-15
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	4e-11
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	5e-11
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	6e-16
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	1e-15
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	2e-14
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	1e-11
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	1e-15
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	2e-14
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	1e-13
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	2e-04
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	3e-15
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	4e-14
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	3e-13
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	2e-11
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	5e-15
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	8e-14
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	2e-05
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	6e-15
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	7e-15
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	9e-14
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	2e-11
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	1e-07
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	3e-07
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	8e-04
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	1e-14
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	1e-14
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	1e-13
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	1e-12
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	5e-10
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	3e-09
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	1e-14
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	9e-13
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	8e-11
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	1e-14
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	4e-14
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	7e-14
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	3e-13
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	2e-09
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	2e-14
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	1e-11
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	9e-11
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	2e-05
1o6v_A	466	Internalin A; bacterial infection, extracellular r	2e-14
1o6v_A	466	Internalin A; bacterial infection, extracellular r	4e-14
1o6v_A	466	Internalin A; bacterial infection, extracellular r	3e-13
1o6v_A	466	Internalin A; bacterial infection, extracellular r	4e-13
1o6v_A	466	Internalin A; bacterial infection, extracellular r	4e-07
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	3e-14
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	2e-11
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	4e-10
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	8e-06
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	3e-14
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	3e-14
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	5e-14
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	9e-14
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	3e-14
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	3e-13
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	2e-12
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	3e-14
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	3e-13
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	1e-12
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	9e-09
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	7e-06
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	2e-05
2xot_A	361	Amphoterin-induced protein 1; cell adhesion, neuro	5e-14
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	6e-14
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	8e-14
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	8e-11
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	8e-10
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	9e-06
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	5e-05
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	7e-14
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	2e-13
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	1e-11
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	3e-07
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	7e-14
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	1e-13
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	4e-05
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	2e-13
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	2e-13
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	4e-13
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	4e-13
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	1e-12
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	9e-11
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	2e-13
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	3e-13
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	3e-13
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	2e-13
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	3e-09
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	3e-09
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	2e-07
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	4e-13
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	2e-08
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	1e-05
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	5e-05
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	7e-04
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	6e-13
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	1e-12
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	6e-12
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	9e-08
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	9e-13
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	5e-12
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	5e-10
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	4e-08
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	9e-13
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	2e-10
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	6e-10
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	6e-07
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	2e-12
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	5e-11
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	7e-10
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	2e-05
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	3e-12
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	1e-11
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	2e-11
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	1e-04
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	3e-12
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	4e-12
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	8e-11
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	8e-09
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	1e-06
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	4e-12
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	8e-10
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	1e-09
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	1e-09
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	3e-09
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	4e-08
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	2e-07
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	1e-06
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	5e-12
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	7e-12
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	1e-11
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	2e-11
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	2e-08
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	1e-05
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	9e-12
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	5e-11
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	5e-05
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	5e-11
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	8e-11
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	9e-09
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	7e-07
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	3e-05
2o6q_A	270	Variable lymphocyte receptor A; leucine-rich repea	9e-11
2o6q_A	270	Variable lymphocyte receptor A; leucine-rich repea	2e-10
1ds9_A	198	Outer arm dynein; leucine-rich repeat, beta-BETA-a	1e-10
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	2e-10
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	1e-09
2v9t_B	220	SLIT homolog 2 protein N-product; structural prote	2e-10
2v9t_B	220	SLIT homolog 2 protein N-product; structural prote	5e-06
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	3e-10
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	3e-09
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	8e-06
2ell_A	168	Acidic leucine-rich nuclear phosphoprotein 32 FAM	1e-09
2ell_A	168	Acidic leucine-rich nuclear phosphoprotein 32 FAM	1e-08
2v70_A	220	SLIT-2, SLIT homolog 2 protein N-product; neurogen	3e-09
2v70_A	220	SLIT-2, SLIT homolog 2 protein N-product; neurogen	2e-06
1wwl_A	312	Monocyte differentiation antigen CD14; LPS, immune	3e-09
1wwl_A	312	Monocyte differentiation antigen CD14; LPS, immune	1e-07
1wwl_A	312	Monocyte differentiation antigen CD14; LPS, immune	5e-06
1wwl_A	312	Monocyte differentiation antigen CD14; LPS, immune	5e-06
1wwl_A	312	Monocyte differentiation antigen CD14; LPS, immune	8e-06
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	4e-09
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	3e-07
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	2e-06
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	6e-06
3m19_A	251	Variable lymphocyte receptor A diversity region; a	6e-09
1a9n_A	176	U2A', U2A'; complex (nuclear protein/RNA), RNA, sn	9e-09
1a9n_A	176	U2A', U2A'; complex (nuclear protein/RNA), RNA, sn	1e-07
2ifg_A	347	High affinity nerve growth factor receptor; TRK, T	1e-08
2ifg_A	347	High affinity nerve growth factor receptor; TRK, T	7e-06
2je0_A	149	Acidic leucine-rich nuclear phosphoprotein 32 FAM	1e-08
2je0_A	149	Acidic leucine-rich nuclear phosphoprotein 32 FAM	1e-05
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	7e-08
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	4e-06
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	9e-06
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	8e-08
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	6e-07
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	3e-07
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	2e-05
2o6s_A	208	Variable lymphocyte receptor B; leucine-rich repea	3e-06
2o6s_A	208	Variable lymphocyte receptor B; leucine-rich repea	2e-04
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	4e-06
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	1e-04
3rfs_A	272	Internalin B, repeat modules, variable lymphocyte	4e-06
2wfh_A	193	SLIT homolog 2 protein C-product; developmental pr	2e-05
3rw6_A	267	Nuclear RNA export factor 1; retroviral constituti	4e-05
3e4g_A	176	ATP synthase subunit S, mitochondrial; leucine-ric	1e-04
3e6j_A	229	Variable lymphocyte receptor diversity region; var	2e-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 =  200 bits (511), Expect = 8e-56
 Identities = 48/346 (13%), Positives = 113/346 (32%), Gaps = 33/346 (9%)

Query: 142 LGEEQVGIIGLYGMGGVGKTTLLTKI-NNKLLGAPNDFDVVIWVVVSKDL--QLEKIQEK 198
           + +     + L+G  G GK+ + ++  +        ++D ++W+  S         +   
Sbjct: 147 MCDLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINYDSIVWLKDSGTAPKSTFDLFTD 206

Query: 199 IGRRIGFLDESWKNGSLEDKASDILRI------LSKKKFLLLLDDIWERVDLTKVGVPFP 252
           I   +   D+     S+E   S +L+       + +   L + DD+ +   +        
Sbjct: 207 ILLMLKSEDDLLNFPSVEHVTSVVLKRMICNALIDRPNTLFVFDDVVQEETI------RW 260

Query: 253 DPENKSKIVFTTRFLEICGAMKAH-EFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPEL 311
             E + + + TTR +EI  A     EF++V  L  ++ +                   ++
Sbjct: 261 AQELRLRCLVTTRDVEISNAASQTCEFIEVTSLEIDECYDFLEAYGMPM--PVGEKEEDV 318

Query: 312 ARSVAKEYAGLPLALITIGRAMTCKKTTQEWHHAIQILRRS-----SSEFPGMGKEVYPL 366
                +  +G P  L+   ++    KT ++       L            P   K +   
Sbjct: 319 LNKTIELSSGNPATLMMFFKSC-EPKTFEKMAQLNNKLESRGLVGVECITPYSYKSLAMA 377

Query: 367 LKFSYDSLPDDTIRSCFLYCGLFPEDYRIRKSELIDCWIGEGFLDQYDRSGAYNEGYYII 426
           L+   + L D+  RS   +  + P    I           +   ++ ++    +E    +
Sbjct: 378 LQRCVEVLSDE-DRSALAFAVVMPPGVDIPVKLWSCVIPVDICSNEEEQLD--DEVADRL 434

Query: 427 GILLHACLLEEEEGDIAEEKSGEHVVKMHDVIRDMVLWIACKIEKE 472
             L     L      ++ ++      K+  +I   +  +       
Sbjct: 435 KRLSKRGAL------LSGKRMPVLTFKIDHIIHMFLKHVVDAQTIA 474

>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 =  197 bits (502), Expect = 4e-54
 Identities = 85/505 (16%), Positives = 169/505 (33%), Gaps = 55/505 (10%)

Query: 90  KRVAKTLQLVNNLMGEGAFDAVAEKVRP----PAVDQRPCEPTVGLESMFDKVWRCL--G 143
             +   + +V++  G+ +   +   VR       V QRP    V  + + + + + L   
Sbjct: 85  ALLHDGIPVVSSSSGKDSVSGITSYVRTVLCEGGVPQRPVV-FVTRKKLVNAIQQKLSKL 143

Query: 144 EEQVGIIGLYGMGGVGKTTLLTKI-NNKLLGAPNDFDVVIWVVVSKD---LQLEKIQEKI 199
           + + G + ++GM G GK+ L  +   +  L        V WV V K      L K+Q   
Sbjct: 144 KGEPGWVTIHGMAGCGKSVLAAEAVRDHSLLEGCFPGGVHWVSVGKQDKSGLLMKLQNLC 203

Query: 200 GRRIGFLDESWKNGSLEDKASDILR---ILSKKKFLLLLDDIWERVDLTKVGVPFPDPEN 256
            R       S +     ++A D LR   +    + LL+LDD+W+   L K        ++
Sbjct: 204 TRLDQDESFSQRLPLNIEEAKDRLRILMLRKHPRSLLILDDVWDSWVL-KAF------DS 256

Query: 257 KSKIVFTTRFLEICGAMKAHEFL--KVECLGPEDAWRLFRENLRRDVLDNHPDIPELARS 314
           + +I+ TTR   +  ++   +++      LG E    +    +         D+PE A S
Sbjct: 257 QCQILLTTRDKSVTDSVMGPKYVVPVESSLGKEKGLEILSLFVNMK----KADLPEQAHS 312

Query: 315 VAKEYAGLPLALITIGRAMTCKKTTQEWHHAI---QILRRSSSEFPGMGKEVYPLLKFSY 371
           + KE  G PL +  IG  +       E++      +  +R         + +   +  S 
Sbjct: 313 IIKECKGSPLVVSLIGALLRDFPNRWEYYLKQLQNKQFKRIRKSSSYDYEALDEAMSISV 372

Query: 372 DSLPDDTIRSCFLYCGLFPEDYRIRKSELIDCWIGEGFL-DQYDRSGAYNEGYYIIGILL 430
           + L +D I+  +    +  +D ++    L   W  E    +         E        +
Sbjct: 373 EMLRED-IKDYYTDLSILQKDVKVPTKVLCILWDMETEEVEDI-----LQE-------FV 419

Query: 431 HACLLEEEEGDIAEEKSGEHVVKMHDVIRDMVLWIACK-IEKEKENFLVHAGLGLTEAPE 489
           +  LL        +         +HD+  D +    C  ++   +  +          P 
Sbjct: 420 NKSLLFC------DRNGKSFRYYLHDLQVDFLTEKNCSQLQDLHKKIITQ--FQRYHQPH 471

Query: 490 IQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDN--SLKMIAGDFFQFMPSLRVFNM 547
             +      M        +++       L +L  S +    K         +     +  
Sbjct: 472 TLSPDQEDCMYWYNFLAYHMASAKMHKELCALMFSLDWIKAKTELVGPAHLIHEFVEYRH 531

Query: 548 SNNHLLWKLPSGISTLVSLEHLDLS 572
             +     +       +SL    L 
Sbjct: 532 ILDEKDCAVSENFQEFLSLNGHLLG 556

>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 =  163 bits (413), Expect = 2e-41
 Identities = 87/561 (15%), Positives = 181/561 (32%), Gaps = 117/561 (20%)

Query: 57  EVGELMRD--SSQEVDKLCPGGCCSKNCKSSFKFGKRVAKTLQLVNNLMGEGA------- 107
           +V ++ +   S +E+D +           +   F   ++K  ++V   + E         
Sbjct: 37  DVQDMPKSILSKEEIDHIIMSK--DAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFL 94

Query: 108 FDAVAEKVRPPA------VDQRPCEPTVGLESMFDK--VWR---------CLGEEQVG-I 149
              +  + R P+      ++QR  +       +F K  V R          L E +    
Sbjct: 95  MSPIKTEQRQPSMMTRMYIEQR--DRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKN 152

Query: 150 IGLYGMGGVGKTTL-LTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGRRIGFLDE 208
           + + G+ G GKT + L    +  +    DF +  W+ +      E + E + + +  +D 
Sbjct: 153 VLIDGVLGSGKTWVALDVCLSYKVQCKMDFKI-FWLNLKNCNSPETVLEMLQKLLYQIDP 211

Query: 209 SWKNGS---------LEDKASDILRILSKKKF---LLLLDDIWERVDLTKVGVPFPDPEN 256
           +W + S         +    +++ R+L  K +   LL+L ++       K    F     
Sbjct: 212 NWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNA----KAWNAF---NL 264

Query: 257 KSKIVFTTRFLEICGAMKA----HEFLKVECLG--PEDAWRLFRENLRRDVLDNHPDIPE 310
             KI+ TTRF ++   + A    H  L    +   P++   L  + L         D+P 
Sbjct: 265 SCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRP----QDLPR 320

Query: 311 LARSVAKEYAGLPLALITIGRAMTCKKTTQEWHHAIQILRRSSSEFPGMGKEVYPLLKFS 370
              +        P  L  I  ++      ++        +  + +      ++  +++ S
Sbjct: 321 EVLT------TNPRRLSIIAESI------RDGLATWDNWKHVNCD------KLTTIIESS 362

Query: 371 YDSLPDDTIRSCFLYCGLFPEDYRIRKSELIDCWIG------EGFLDQYDRSGAYNEGYY 424
            + L     R  F    +FP    I    L   W           +++  +     +   
Sbjct: 363 LNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPK 422

Query: 425 IIGILLHACLLEEEEGDIAEEKSGEHVVKMHDVIRDMVLWIACKIEKEKEN-------FL 477
              I + +  LE        +   E+   +H  I D    I    + +          F 
Sbjct: 423 ESTISIPSIYLE-------LKVKLENEYALHRSIVDHYN-IPKTFDSDDLIPPYLDQYFY 474

Query: 478 VHAGLGLTEAPEIQNWRNVRRMSL----MKNKIENLSETPTCP-HLLSLFL--------- 523
            H G  L      +     R + L    ++ KI + S        +L+            
Sbjct: 475 SHIGHHLKNIEHPERMTLFRMVFLDFRFLEQKIRHDSTAWNASGSILNTLQQLKFYKPYI 534

Query: 524 --SDNSLKMIAGDFFQFMPSL 542
             +D   + +      F+P +
Sbjct: 535 CDNDPKYERLVNAILDFLPKI 555

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

 Score = 50.6 bits (120), Expect = 2e-06
 Identities = 68/425 (16%), Positives = 136/425 (32%), Gaps = 114/425 (26%)

Query: 446 KSGEHVVKMHDVIRDMVLWIACKIEKEKENFLVHAGLGLTEAPEIQNW-RNVRRMSLMKN 504
           ++GEH  +  D++           +   +NF         +  ++Q+  +++    L K 
Sbjct: 10  ETGEHQYQYKDILSVFE-------DAFVDNF---------DCKDVQDMPKSI----LSKE 49

Query: 505 KIENLSETPTCPH----LLSLFLSDNSLKMIAGDFFQFMPSLRV---FNMSNNHLLWKLP 557
           +I+++  +         L    LS    + +   F +    LR+   F MS      + P
Sbjct: 50  EIDHIIMSKDAVSGTLRLFWTLLSKQ--EEMVQKFVE--EVLRINYKFLMSPIKTEQRQP 105

Query: 558 SGISTLVSLEHLDL--SGTAITHLPIE-LQKLVNLKCLNLEYMYNLNQFPRLV---MSAF 611
           S ++ +   +   L           +  LQ  + L+    + +  L     ++   +   
Sbjct: 106 SMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLR----QALLELRPAKNVLIDGVLGS 161

Query: 612 SK----LQVLRILKSNVLFG--------GHQFLVEELMGM----------------KHLM 643
            K    L V    K               +    E ++ M                 H  
Sbjct: 162 GKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSS 221

Query: 644 ALTITLKSW-EALQELLISQELQRCTQSLFLRCFNDSKSLDIFCLACLHNLNKLYVAGR- 701
            + + + S    L+ LL S+  + C   L L    ++K+ + F L+C     K+ +  R 
Sbjct: 222 NIKLRIHSIQAELRRLLKSKPYENCL--LVLLNVQNAKAWNAFNLSC-----KILLTTRF 274

Query: 702 KHLEDF--QMTVQRSSVNQLARGFHSLHTVKVGFCF------KLKDLTWLVFAPSLKSIV 753
           K + DF    T    S++  +          +          + +DL        + +  
Sbjct: 275 KQVTDFLSAATTTHISLDHHSMTLTPDEVKSL---LLKYLDCRPQDL-----PREVLTTN 326

Query: 754 VLSCCNMEQIIKAEKLSQLHHHPER-KKSVFAKLQFL---SLENL-----RNLCCINWEA 804
                    II AE +       +  K     KL  +   SL  L     R +    ++ 
Sbjct: 327 PRRLS----II-AESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKM----FDR 377

Query: 805 LA-FP 808
           L+ FP
Sbjct: 378 LSVFP 382

>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 = 94.0 bits (234), Expect = 5e-20
 Identities = 58/309 (18%), Positives = 109/309 (35%), Gaps = 48/309 (15%)

Query: 494 RNVRRMSLMKNKIENLSET--PTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNH 551
             ++ + L  NKI  +       C +L  L L  + +  I GD F  + SL   ++S+NH
Sbjct: 26  AAMKSLDLSFNKITYIGHGDLRACANLQVLILKSSRINTIEGDAFYSLGSLEHLDLSDNH 85

Query: 552 LLWKLPSG-ISTLVSLEHLDLSGTAITHLPI--ELQKLVNLKCLNLEYMYNLNQFPRLVM 608
            L  L S     L SL++L+L G     L +      L NL+ L +  +   ++  R+  
Sbjct: 86  -LSSLSSSWFGPLSSLKYLNLMGNPYQTLGVTSLFPNLTNLQTLRIGNVETFSEIRRIDF 144

Query: 609 SAFSKLQVLRILKSNVLFGGHQFLVEELMGMKHLMALTITLKSWEALQELLISQELQRCT 668
           +  + L  L  +K+  L                        +S ++++++          
Sbjct: 145 AGLTSLNELE-IKALSLR-------------------NYQSQSLKSIRDI---------- 174

Query: 669 QSLFLRCFNDSKSLDIFCLACLHNLNKLYVAGRKHLEDFQMTVQRSSVNQLARGFHSLHT 728
             L L   ++S  L       L ++  L       L D  +   + S   +      +  
Sbjct: 175 HHLTLH-LSESAFLLEIFADILSSVRYLE------LRDTNLARFQFSPLPVDEVSSPMK- 226

Query: 729 VKVGFCFKLKDLTWLVFAPSLKSIVVLSCCNMEQIIKAEKLSQLHHHPERKKSVFAKLQF 788
                 F+   LT   F   LK +  +   +  +      L+ L      +  V ++L  
Sbjct: 227 ---KLAFRGSVLTDESFNELLKLLRYILELSEVEFDDC-TLNGLGDFNPSESDVVSELGK 282

Query: 789 LSLENLRNL 797
           +    +R L
Sbjct: 283 VETVTIRRL 291

>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 = 70.1 bits (172), Expect = 1e-12
 Identities = 30/170 (17%), Positives = 62/170 (36%), Gaps = 33/170 (19%)

Query: 475 NFLVHAGLGLTEAPEIQNWRNVRRMSLMKNKIENLSETP----TCPHLLSLFLSDNSLKM 530
           N +V     L  +     W +++ + L +N + ++ +T     T  +L SL +S N+   
Sbjct: 344 NLMVE--EYLKNSACKGAWPSLQTLVLSQNHLRSMQKTGEILLTLKNLTSLDISRNTFHP 401

Query: 531 IAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAITHLPIELQKLV--- 587
           +          +R  N+S+  +   + + I    +LE LD+S   +    + L +L    
Sbjct: 402 MPDSCQW-PEKMRFLNLSSTGIR-VVKTCI--PQTLEVLDVSNNNLDSFSLFLPRLQELY 457

Query: 588 ----------------NLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRILK 621
                            L  + +      NQ   +    F +L  L+ + 
Sbjct: 458 ISRNKLKTLPDASLFPVLLVMKISR----NQLKSVPDGIFDRLTSLQKIW 503

>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 = 57.8 bits (140), Expect = 9e-09
 Identities = 27/110 (24%), Positives = 45/110 (40%), Gaps = 12/110 (10%)

Query: 488 PEIQNWRNVRRMSLMKNKIENLSETPTC--PHLLSLFLSDNSLKMIAGDFFQFMPSLRVF 545
              Q    +R ++L    I  +    TC    L  L +S+N+L      F  F+P L+  
Sbjct: 404 DSCQWPEKMRFLNLSSTGIRVV---KTCIPQTLEVLDVSNNNLD----SFSLFLPRLQEL 456

Query: 546 NMSNNHLLWKLPSGISTLVSLEHLDLSGTAITHLPIE-LQKLVNLKCLNL 594
            +S N L   LP   S    L  + +S   +  +P     +L +L+ + L
Sbjct: 457 YISRNKLK-TLPDA-SLFPVLLVMKISRNQLKSVPDGIFDRLTSLQKIWL 504

>2z81_A CD282 antigen, TOLL-like receptor 2, variable lymphocyte recepto; TLR2, PAM3CSK4, lipopeptide, innate immunity, cytoplasmic VE glycoprotein; HET: NAG BMA MAN PCJ; 1.80A {Mus musculus} PDB: 2z82_A* 3a7c_A* 3a79_A* 3a7b_A* 2z7x_A* Length = 549

 Score = 50.9 bits (122), Expect = 1e-06
 Identities = 16/136 (11%), Positives = 36/136 (26%), Gaps = 5/136 (3%)

Query: 484 LTEAPEIQNWRNVRRMSL-MKNKIENLSETP--TCPHLLSLFLSDNSLKMIAGDFFQFMP 540
           L       N  N++ + +        +          L  L +   SL+       + + 
Sbjct: 113 LGVTSLFPNLTNLQTLRIGNVETFSEIRRIDFAGLTSLNELEIKALSLRNYQSQSLKSIR 172

Query: 541 SLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAITHLPIE-LQKLVNLKCLNLEYMYN 599
            +    +  +   + L      L S+ +L+L  T +       L        +       
Sbjct: 173 DIHHLTLHLSESAFLLEIFADILSSVRYLELRDTNLARFQFSPLPVDEVSSPMKKLAF-R 231

Query: 600 LNQFPRLVMSAFSKLQ 615
            +       +   KL 
Sbjct: 232 GSVLTDESFNELLKLL 247

>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 = 50.9 bits (122), Expect = 1e-06
 Identities = 14/58 (24%), Positives = 28/58 (48%)

Query: 495 NVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHL 552
            ++ + + +NK++ L +    P LL + +S N LK +    F  + SL+   +  N  
Sbjct: 452 RLQELYISRNKLKTLPDASLFPVLLVMKISRNQLKSVPDGIFDRLTSLQKIWLHTNPW 509

>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 = 49.3 bits (118), Expect = 4e-06
 Identities = 22/81 (27%), Positives = 36/81 (44%), Gaps = 6/81 (7%)

Query: 494 RNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLL 553
           + +  + +  N +++ S     P L  L++S N LK +        P L V  +S N L 
Sbjct: 431 QTLEVLDVSNNNLDSFSLFL--PRLQELYISRNKLKTLPDASL--FPVLLVMKISRNQLK 486

Query: 554 WKLPSGI-STLVSLEHLDLSG 573
             +P GI   L SL+ + L  
Sbjct: 487 -SVPDGIFDRLTSLQKIWLHT 506

>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 = 94.5 bits (235), Expect = 7e-20
 Identities = 85/475 (17%), Positives = 157/475 (33%), Gaps = 70/475 (14%)

Query: 139 WRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDF-DVVIWVVVSKDLQ---LEK 194
                  + G + +YGM G GK+ L  +           F   V WV + K  +   L K
Sbjct: 139 KLWKLNGEPGWVTIYGMAGCGKSVLAAEAVRDHSLLEGCFSGGVHWVSIGKQDKSGLLMK 198

Query: 195 IQEKIGRRIGFLDESWKNGSLEDKASDILRILSKKKF---LLLLDDIWERVDLTKVGVPF 251
           +Q    R       S +     ++A D LR+L  +K    LL+LDD+W+   L       
Sbjct: 199 LQNLCMRLDQEESFSQRLPLNIEEAKDRLRVLMLRKHPRSLLILDDVWDPWVLKAFD--- 255

Query: 252 PDPENKSKIVFTTRFLEICGAMKAHEF-LKVE-CLGPEDAWRLFRENLRRDVLDNHPDIP 309
               N+ +I+ TTR   +  ++   +  + VE  LG E    +    +         D+P
Sbjct: 256 ----NQCQILLTTRDKSVTDSVMGPKHVVPVESGLGREKGLEILSLFVNMKK----EDLP 307

Query: 310 ELARSVAKEYAGLPLALITIGRAMTCKKTTQEWHHAIQILRRSSSEFPGMGKEVYP---- 365
             A S+ KE  G PL +  IG A+      +  ++  Q+  +            Y     
Sbjct: 308 AEAHSIIKECKGSPLVVSLIG-ALLRDFPNRWAYYLRQLQNKQFKRIRKSSSYDYEALDE 366

Query: 366 LLKFSYDSLPDDTIRSCFLYCGLFPEDYRIRKSELIDCW-IGEGFLDQYDRSGAYNEGYY 424
            +  S + L +D I+  +    +  +D ++    L   W +    ++             
Sbjct: 367 AMSISVEMLRED-IKDYYTDLSILQKDVKVPTKVLCVLWDLETEEVED------------ 413

Query: 425 IIGILLHACLLEEEEGDIAEEKSGEHVVKMHDVIRDMVL-----WIACKIEKEKENFLVH 479
           I+   ++  LL                  +HD+  D +       +     K    F  +
Sbjct: 414 ILQEFVNKSLLFC------NRNGKSFCYYLHDLQVDFLTEKNRSQLQDLHRKMVTQFQRY 467

Query: 480 AGLG--LTEAPEIQNWRNVRRMSLMKNK--------------IENLSETPTCPHLLSLFL 523
                   +  +   W N     +                  I+  +E     HL+  F+
Sbjct: 468 YQPHTLSPDQEDCMYWYNFLAYHMASANMHKELCALMFSLDWIKAKTELVGPAHLIHEFV 527

Query: 524 SDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAITH 578
           +   +  +         + + F   N HLL + P     +V L   +   + +  
Sbjct: 528 AYRHI--LDEKDCAVCENFQEFLSLNGHLLGRQPFPN--IVQLGLCEPETSEVYR 578

>3o6n_A APL1; leucine-rich repeat, protein binding; HET: NAG; 1.85A {Anopheles gambiae} Length = 390

 Score = 88.6 bits (220), Expect = 9e-19
 Identities = 31/126 (24%), Positives = 52/126 (41%), Gaps = 5/126 (3%)

Query: 494 RNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLL 553
             +  + L  N + + +     P L+ + LS N L+ I    F  M  L    +SNN  L
Sbjct: 226 VELTILKLQHNNLTDTAWLLNYPGLVEVDLSYNELEKIMYHPFVKMQRLERLYISNNR-L 284

Query: 554 WKLPSGISTLVSLEHLDLSGTAITHLPIELQKLVNLKCLNLEYMYNLNQFPRLVMSAFSK 613
             L      + +L+ LDLS   + H+     +   L+ L L++    N    L +S    
Sbjct: 285 VALNLYGQPIPTLKVLDLSHNHLLHVERNQPQFDRLENLYLDH----NSIVTLKLSTHHT 340

Query: 614 LQVLRI 619
           L+ L +
Sbjct: 341 LKNLTL 346

>3o6n_A APL1; leucine-rich repeat, protein binding; HET: NAG; 1.85A {Anopheles gambiae} Length = 390

 Score = 75.1 bits (185), Expect = 2e-14
 Identities = 29/115 (25%), Positives = 52/115 (45%), Gaps = 6/115 (5%)

Query: 484 LTEAPEIQNWRNVRRMSLMKNKIENLSET--PTCPHLLSLFLSDNSLKMIAGDFFQFMPS 541
           LT+   + N+  +  + L  N++E +          L  L++S+N L  +       +P+
Sbjct: 238 LTDTAWLLNYPGLVEVDLSYNELEKIMYHPFVKMQRLERLYISNNRLVALNLYGQP-IPT 296

Query: 542 LRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAITHLPIELQKLVNLKCLNLEY 596
           L+V ++S+NHLL  +         LE+L L   +I  L +       LK L L +
Sbjct: 297 LKVLDLSHNHLL-HVERNQPQFDRLENLYLDHNSIVTLKLST--HHTLKNLTLSH 348

>3o6n_A APL1; leucine-rich repeat, protein binding; HET: NAG; 1.85A {Anopheles gambiae} Length = 390

 Score = 73.2 bits (180), Expect = 8e-14
 Identities = 56/363 (15%), Positives = 111/363 (30%), Gaps = 88/363 (24%)

Query: 494 RNVRRMSLMKNKIENLSET--PTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNH 551
             ++++ +  N I  L        P L  L L  N L  +    F   P L   +MSNN+
Sbjct: 93  HTIQKLYMGFNAIRYLPPHVFQNVPLLTVLVLERNDLSSLPRGIFHNTPKLTTLSMSNNN 152

Query: 552 LLWKLPSGI-STLVSLEHLDLSGTAITHLPI-----------------ELQKLVNLKCLN 593
           L  ++         SL++L LS   +TH+ +                  L   + ++ L+
Sbjct: 153 LE-RIEDDTFQATTSLQNLQLSSNRLTHVDLSLIPSLFHANVSYNLLSTLAIPIAVEELD 211

Query: 594 LEYMYNLNQFPRLVMSAFSKLQVLRILKSNVLFGGHQFLVEELMGMKHLMALTITLKSWE 653
             +    N    +      +L +L+ L+ N L                            
Sbjct: 212 ASH----NSINVVRGPVNVELTILK-LQHNNL---------------------TDTAWLL 245

Query: 654 ALQELLISQELQRCTQSLFLRCFNDSKSLDIFCLACLHNLNKLYVAGRKHLEDFQMTVQR 713
               L            + L  +N+ + +       +  L +LY++            + 
Sbjct: 246 NYPGL----------VEVDLS-YNELEKIMYHPFVKMQRLERLYISNN----------RL 284

Query: 714 SSVNQLARGFHSLHTVKVGFCFKLKDLTWLVFA-PSLKSIVVLSCCNMEQIIKAEKLSQL 772
            ++N   +   +L  + +     L  +         L+++  L   ++  +         
Sbjct: 285 VALNLYGQPIPTLKVLDLSHN-HLLHVERNQPQFDRLENL-YLDHNSIVTL--------- 333

Query: 773 HHHPERKKSVFAKLQFLSLENLRNLCCINWEALAFPNLKEIRVEGCPKLFKLPLDSNSAK 832
                 K S    L+ L+L +    C  N     F N+    V+   +  K+        
Sbjct: 334 ------KLSTHHTLKNLTLSHNDWDC--NSLRALFRNVARPAVDDADQHCKIDYQLEHGL 385

Query: 833 GCK 835
            CK
Sbjct: 386 CCK 388

>3o6n_A APL1; leucine-rich repeat, protein binding; HET: NAG; 1.85A {Anopheles gambiae} Length = 390

 Score = 70.5 bits (173), Expect = 7e-13
 Identities = 16/107 (14%), Positives = 40/107 (37%), Gaps = 7/107 (6%)

Query: 516 PHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGI-STLVSLEHLDLSGT 574
            +   +   +++++ +          + + N+++  +  ++ +   +   +++ L +   
Sbjct: 45  NNQKIVTFKNSTMRKLPAALLDSFRQVELLNLNDLQIE-EIDTYAFAYAHTIQKLYMGFN 103

Query: 575 AITHLPIE-LQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRIL 620
           AI +LP    Q +  L  L LE     N    L    F     L  L
Sbjct: 104 AIRYLPPHVFQNVPLLTVLVLER----NDLSSLPRGIFHNTPKLTTL 146

>3o6n_A APL1; leucine-rich repeat, protein binding; HET: NAG; 1.85A {Anopheles gambiae} Length = 390

 Score = 55.1 bits (133), Expect = 6e-08
 Identities = 16/113 (14%), Positives = 40/113 (35%), Gaps = 7/113 (6%)

Query: 510 SETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGI-STLVSLEH 568
           S          + +   +  +  G     + + ++    N+ +  KLP+ +  +   +E 
Sbjct: 15  SNLQYDCVFYDVHIDMQTQDVYFGFEDITLNNQKIVTFKNSTMR-KLPAALLDSFRQVEL 73

Query: 569 LDLSGTAITHLPIE-LQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRIL 620
           L+L+   I  +          ++ L + +    N    L    F  + +L +L
Sbjct: 74  LNLNDLQIEEIDTYAFAYAHTIQKLYMGF----NAIRYLPPHVFQNVPLLTVL 122

>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 = 87.3 bits (216), Expect = 7e-18
 Identities = 31/126 (24%), Positives = 52/126 (41%), Gaps = 5/126 (3%)

Query: 494 RNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLL 553
             +  + L  N + + +     P L+ + LS N L+ I    F  M  L    +SNN  L
Sbjct: 232 VELTILKLQHNNLTDTAWLLNYPGLVEVDLSYNELEKIMYHPFVKMQRLERLYISNNR-L 290

Query: 554 WKLPSGISTLVSLEHLDLSGTAITHLPIELQKLVNLKCLNLEYMYNLNQFPRLVMSAFSK 613
             L      + +L+ LDLS   + H+     +   L+ L L++    N    L +S    
Sbjct: 291 VALNLYGQPIPTLKVLDLSHNHLLHVERNQPQFDRLENLYLDH----NSIVTLKLSTHHT 346

Query: 614 LQVLRI 619
           L+ L +
Sbjct: 347 LKNLTL 352

>3oja_B Anopheles plasmodium-responsive leucine-rich REPE 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae} Length = 597

 Score = 75.3 bits (185), Expect = 4e-14
 Identities = 30/115 (26%), Positives = 53/115 (46%), Gaps = 6/115 (5%)

Query: 484 LTEAPEIQNWRNVRRMSLMKNKIENLSETP--TCPHLLSLFLSDNSLKMIAGDFFQFMPS 541
           LT+   + N+  +  + L  N++E +   P      L  L++S+N L  +       +P+
Sbjct: 244 LTDTAWLLNYPGLVEVDLSYNELEKIMYHPFVKMQRLERLYISNNRLVALNLYGQP-IPT 302

Query: 542 LRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAITHLPIELQKLVNLKCLNLEY 596
           L+V ++S+NHLL  +         LE+L L   +I  L +       LK L L +
Sbjct: 303 LKVLDLSHNHLLH-VERNQPQFDRLENLYLDHNSIVTLKLST--HHTLKNLTLSH 354

>3oja_B Anopheles plasmodium-responsive leucine-rich REPE 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae} Length = 597

 Score = 72.7 bits (178), Expect = 2e-13
 Identities = 32/152 (21%), Positives = 57/152 (37%), Gaps = 26/152 (17%)

Query: 494 RNVRRMSLMKNKIENLSETP--TCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNH 551
             ++++ +  N I  L        P L  L L  N L  +    F   P L   +MSNN+
Sbjct: 99  HTIQKLYMGFNAIRYLPPHVFQNVPLLTVLVLERNDLSSLPRGIFHNTPKLTTLSMSNNN 158

Query: 552 LLWKLPSGI-STLVSLEHLDLSGTAITHLPI-----------------ELQKLVNLKCLN 593
           L  ++         SL++L LS   +TH+ +                  L   + ++ L+
Sbjct: 159 LE-RIEDDTFQATTSLQNLQLSSNRLTHVDLSLIPSLFHANVSYNLLSTLAIPIAVEELD 217

Query: 594 LEYMYNLNQFPRLVMSAFSKLQVLRILKSNVL 625
             +    N    +      +L +L+ L+ N L
Sbjct: 218 ASH----NSINVVRGPVNVELTILK-LQHNNL 244

>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 = 71.5 bits (175), Expect = 6e-13
 Identities = 17/109 (15%), Positives = 41/109 (37%), Gaps = 7/109 (6%)

Query: 514 TCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGI-STLVSLEHLDLS 572
           T  +   +   +++++ +          + + N+++  +  ++ +   +   +++ L + 
Sbjct: 49  TLNNQKIVTFKNSTMRKLPAALLDSFRQVELLNLNDLQIE-EIDTYAFAYAHTIQKLYMG 107

Query: 573 GTAITHLPIE-LQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRIL 620
             AI +LP    Q +  L  L LE     N    L    F     L  L
Sbjct: 108 FNAIRYLPPHVFQNVPLLTVLVLER----NDLSSLPRGIFHNTPKLTTL 152

>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 = 56.5 bits (136), Expect = 3e-08
 Identities = 19/128 (14%), Positives = 42/128 (32%), Gaps = 20/128 (15%)

Query: 508 NLSETPTCPHLLS--------LFLSDNSLKMIAGDFFQF-----MPSLRVFNMSNNHLLW 554
             +  P  P                D  + M   D +       + + ++    N+ +  
Sbjct: 6   RYNVKPRQPEYKCIDSNLQYDCVFYDVHIDMQTQDVYFGFEDITLNNQKIVTFKNSTMR- 64

Query: 555 KLPSGI-STLVSLEHLDLSGTAITHLPIE-LQKLVNLKCLNLEYMYNLNQFPRLVMSAFS 612
           KLP+ +  +   +E L+L+   I  +          ++ L + +    N    L    F 
Sbjct: 65  KLPAALLDSFRQVELLNLNDLQIEEIDTYAFAYAHTIQKLYMGF----NAIRYLPPHVFQ 120

Query: 613 KLQVLRIL 620
            + +L +L
Sbjct: 121 NVPLLTVL 128

>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 = 82.4 bits (204), Expect = 3e-17
 Identities = 29/132 (21%), Positives = 52/132 (39%), Gaps = 9/132 (6%)

Query: 494 RNVRRMSLMKNKIENLSETPT---CPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNN 550
             +  +    + ++ +SE        +L+ L +S    ++     F  + SL V  M+ N
Sbjct: 101 EQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDISHTHTRVAFNGIFNGLSSLEVLKMAGN 160

Query: 551 HLLWKLPSGI-STLVSLEHLDLSGTAITHLPIE-LQKLVNLKCLNLEYMYNLNQFPRLVM 608
                    I + L +L  LDLS   +  L       L +L+ LN+ +    N F  L  
Sbjct: 161 SFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMSH----NNFFSLDT 216

Query: 609 SAFSKLQVLRIL 620
             +  L  L++L
Sbjct: 217 FPYKCLNSLQVL 228

>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 = 62.0 bits (151), Expect = 2e-10
 Identities = 25/108 (23%), Positives = 44/108 (40%), Gaps = 7/108 (6%)

Query: 516 PHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWK-LPSGI-STLVSLEHLDLSG 573
                L L  N L+ +    F  +  L   ++S+N L +K   S       SL++LDLS 
Sbjct: 28  SSATRLELESNKLQSLPHGVFDKLTQLTKLSLSSNGLSFKGCCSQSDFGTTSLKYLDLSF 87

Query: 574 TAITHLPIELQKLVNLKCLNLEYMYNLNQFPRLV-MSAFSKLQVLRIL 620
             +  +      L  L+ L+ ++    +   ++   S F  L+ L  L
Sbjct: 88  NGVITMSSNFLGLEQLEHLDFQH----SNLKQMSEFSVFLSLRNLIYL 131

>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 = 56.6 bits (137), Expect = 1e-08
 Identities = 30/107 (28%), Positives = 46/107 (42%), Gaps = 7/107 (6%)

Query: 495 NVRRMSLMKNK-IENLSET--PTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNH 551
           ++  + +  N   EN          +L  L LS   L+ ++   F  + SL+V NMS+N+
Sbjct: 151 SLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMSHNN 210

Query: 552 LLWKLPSGI-STLVSLEHLDLSGTAITHLPIE-LQKLV-NLKCLNLE 595
               L +     L SL+ LD S   I     + LQ    +L  LNL 
Sbjct: 211 FF-SLDTFPYKCLNSLQVLDYSLNHIMTSKKQELQHFPSSLAFLNLT 256

>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 = 48.5 bits (116), Expect = 5e-06
 Identities = 21/84 (25%), Positives = 38/84 (45%), Gaps = 5/84 (5%)

Query: 494 RNVRRMSLMKNKIENLSET--PTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNH 551
           RN+  + L + ++E LS T   +   L  L +S N+   +    ++ + SL+V + S NH
Sbjct: 175 RNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMSHNNFFSLDTFPYKCLNSLQVLDYSLNH 234

Query: 552 LLWKLPSGI--STLVSLEHLDLSG 573
            +             SL  L+L+ 
Sbjct: 235 -IMTSKKQELQHFPSSLAFLNLTQ 257

>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 = 81.7 bits (202), Expect = 4e-16
 Identities = 57/358 (15%), Positives = 131/358 (36%), Gaps = 46/358 (12%)

Query: 494 RNVRRMSLMKNKIENLSET--PTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNH 551
             ++ + L + +I+ + +    +  HL +L L+ N ++ +A   F  + SL+       +
Sbjct: 52  PELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNPIQSLALGAFSGLSSLQKLVAVETN 111

Query: 552 LLWKLPSG-ISTLVSLEHLDLSGTAITHLPI--ELQKLVNLKCLNLEYMYNLNQFPRLVM 608
           L   L +  I  L +L+ L+++   I    +      L NL+ L+L      N+   +  
Sbjct: 112 L-ASLENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSS----NKIQSIYC 166

Query: 609 SAFSKLQVLRI------LKSNVLFG-----GHQFLVEELMGMKHLMALTITLKSWEALQE 657
           +    L  + +      L  N +         +  + +L    +  +L +     + L  
Sbjct: 167 TDLRVLHQMPLLNLSLDLSLNPMNFIQPGAFKEIRLHKLTLRNNFDSLNVMKTCIQGLAG 226

Query: 658 LLISQELQRCTQSLFLRCFNDSKSLDIFCLACLHNLNKLYVAGRKHLEDFQMTVQRSSVN 717
           L +          L L  F +  +L+ F  + L  L  L       +E+F++      ++
Sbjct: 227 LEV--------HRLVLGEFRNEGNLEKFDKSALEGLCNLT------IEEFRLAYLDYYLD 272

Query: 718 QLARGFHSLHTVKVGFCF--KLKDLTWLVFAPSLKSIVVLSC-CNMEQIIKAEKLSQLHH 774
            +   F+ L  V         ++ +    +    + + +++C       +K + L +L  
Sbjct: 273 DIIDLFNCLTNVSSFSLVSVTIERVKDFSYNFGWQHLELVNCKFGQFPTLKLKSLKRLTF 332

Query: 775 HPERKKSVFA-----KLQFLSLEN--LRNLCCINWEALAFPNLKEIRVEGCPKLFKLP 825
              +  + F+      L+FL L    L    C +       +LK + +     +  + 
Sbjct: 333 TSNKGGNAFSEVDLPSLEFLDLSRNGLSFKGCCSQSDFGTTSLKYLDLSFN-GVITMS 389

>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 = 80.9 bits (200), Expect = 7e-16
 Identities = 28/138 (20%), Positives = 51/138 (36%), Gaps = 9/138 (6%)

Query: 488 PEIQNWRNVRRMSLMKNKIENLSETPT---CPHLLSLFLSDNSLKMIAGDFFQFMPSLRV 544
                   +  +    + ++ +SE        +L+ L +S    ++     F  + SL V
Sbjct: 390 SNFLGLEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDISHTHTRVAFNGIFNGLSSLEV 449

Query: 545 FNMSNNHLLWKLPSGI-STLVSLEHLDLSGTAITHLPIE-LQKLVNLKCLNLEYMYNLNQ 602
             M+ N         I + L +L  LDLS   +  L       L +L+ LN+      NQ
Sbjct: 450 LKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMAS----NQ 505

Query: 603 FPRLVMSAFSKLQVLRIL 620
              +    F +L  L+ +
Sbjct: 506 LKSVPDGIFDRLTSLQKI 523

>2z63_A TOLL-like receptor 4, variable lymphocyte recepto; TLR4, MD-2, LPS, immune system; HET: NAG FUL; 2.00A {Homo sapiens} Length = 570

 Score = 74.0 bits (182), Expect = 9e-14
 Identities = 51/298 (17%), Positives = 101/298 (33%), Gaps = 31/298 (10%)

Query: 508 NLSETPTC--PHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVS 565
           N  + P        +L LS N L+ +    F   P L+V ++S   +         +L  
Sbjct: 18  NFYKIPDNLPFSTKNLDLSFNPLRHLGSYSFFSFPELQVLDLSRCEIQTIEDGAYQSLSH 77

Query: 566 LEHLDLSGTAITHLPIE-LQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRILK--S 622
           L  L L+G  I  L +     L +L+ L             L       L+ L+ L    
Sbjct: 78  LSTLILTGNPIQSLALGAFSGLSSLQKLVAVE----TNLASLENFPIGHLKTLKELNVAH 133

Query: 623 NVLFGGHQFLVEELMGMKHLMALTITLKSWEALQELLIS--QELQRCTQSLFLRCFNDSK 680
           N++      L E    + +L  L ++    +++    +    ++     SL L   N   
Sbjct: 134 NLIQSFK--LPEYFSNLTNLEHLDLSSNKIQSIYCTDLRVLHQMPLLNLSLDLSL-NPMN 190

Query: 681 SLDIFCLACLHNLNKLYVAGRKHLEDFQMTVQRSSVNQLAR-GFHSLHTVKVGFCFKLKD 739
            +       +  L+KL +          + V ++ +  LA    H L   +      L+ 
Sbjct: 191 FIQPGAFKEI-RLHKLTLRNNF----DSLNVMKTCIQGLAGLEVHRLVLGEFRNEGNLEK 245

Query: 740 LTWLVFAPSLKSIVVLSCCNMEQIIKAEKLSQLHHHPERKKSVFAKLQFLSLENLRNL 797
                    L ++ +             +L+ L ++ +    +F  L  +S  +L ++
Sbjct: 246 FDKSAL-EGLCNLTIEEF----------RLAYLDYYLDDIIDLFNCLTNVSSFSLVSV 292

>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 = 68.2 bits (167), Expect = 6e-12
 Identities = 38/227 (16%), Positives = 69/227 (30%), Gaps = 21/227 (9%)

Query: 481 GLGLTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFMP 540
            + +    +       + + L+  K            L  L  + N            +P
Sbjct: 291 SVTIERVKDFSYNFGWQHLELVNCKFGQFPTLK-LKSLKRLTFTSNKGGNA--FSEVDLP 347

Query: 541 SLRVFNMSNNHLLWK--LPSGISTLVSLEHLDLSGTAITHLPIELQKLVNLKCLNLEYMY 598
           SL   ++S N L +K           SL++LDLS   +  +      L  L+ L+ ++  
Sbjct: 348 SLEFLDLSRNGLSFKGCCSQSDFGTTSLKYLDLSFNGVITMSSNFLGLEQLEHLDFQH-- 405

Query: 599 NLNQFPRLV-MSAFSKLQVLRIL--KSNVLFGGHQFLVEELMGMKHLMALTITLKSWEAL 655
             +   ++   S F  L+ L  L                   G+  L  L +   +  + 
Sbjct: 406 --SNLKQMSEFSVFLSLRNLIYLDISHTHT---RVAFNGIFNGLSSLEVLKM---AGNSF 457

Query: 656 QELLISQELQRCT--QSLFLRCFNDSKSLDIFCLACLHNLNKLYVAG 700
           QE  +            L L      + L       L +L  L +A 
Sbjct: 458 QENFLPDIFTELRNLTFLDLS-QCQLEQLSPTAFNSLSSLQVLNMAS 503

>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 = 52.4 bits (126), Expect = 4e-07
 Identities = 21/87 (24%), Positives = 37/87 (42%), Gaps = 5/87 (5%)

Query: 491 QNWRNVRRMSLMKNKIENLSET---PTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNM 547
               ++  + +  N  +            +L  L LS   L+ ++   F  + SL+V NM
Sbjct: 442 NGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNM 501

Query: 548 SNNHLLWKLPSGI-STLVSLEHLDLSG 573
           ++N L   +P GI   L SL+ + L  
Sbjct: 502 ASNQLK-SVPDGIFDRLTSLQKIWLHT 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 = 43.9 bits (104), Expect = 2e-04
 Identities = 16/65 (24%), Positives = 28/65 (43%), Gaps = 2/65 (3%)

Query: 490 IQNWRNVRRMSLMKNKIENLSETP--TCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNM 547
               RN+  + L + ++E LS T   +   L  L ++ N LK +    F  + SL+   +
Sbjct: 466 FTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMASNQLKSVPDGIFDRLTSLQKIWL 525

Query: 548 SNNHL 552
             N  
Sbjct: 526 HTNPW 530

>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 = 80.9 bits (200), Expect = 4e-16
 Identities = 41/144 (28%), Positives = 63/144 (43%), Gaps = 10/144 (6%)

Query: 481 GLGLTEAPEIQNWRNVRRMSLMKNKIENLSET--PTCPHLLSLFLSDNSLKMIAGDFFQF 538
                  PE       R + L KN+I+ L++    + PHL  L L++N +  +    F  
Sbjct: 20  RKRFVAVPEGIP-TETRLLDLGKNRIKTLNQDEFASFPHLEELELNENIVSAVEPGAFNN 78

Query: 539 MPSLRVFNMSNNHLLWKLPSGI-STLVSLEHLDLSGTAITHLPIEL-QKLVNLKCLNLEY 596
           + +LR   + +N L   +P G+ + L +L  LD+S   I  L   + Q L NLK L +  
Sbjct: 79  LFNLRTLGLRSNRLK-LIPLGVFTGLSNLTKLDISENKIVILLDYMFQDLYNLKSLEVGD 137

Query: 597 MYNLNQFPRLVMSAFSKLQVLRIL 620
               N    +   AFS L  L  L
Sbjct: 138 ----NDLVYISHRAFSGLNSLEQL 157

>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 = 74.8 bits (184), Expect = 4e-14
 Identities = 26/133 (19%), Positives = 56/133 (42%), Gaps = 7/133 (5%)

Query: 491 QNWRNVRRMSLMKNKIENLSET--PTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMS 548
               ++ +++L K  + ++          L+ L L   ++  I    F+ +  L+V  +S
Sbjct: 149 SGLNSLEQLTLEKCNLTSIPTEALSHLHGLIVLRLRHLNINAIRDYSFKRLYRLKVLEIS 208

Query: 549 NNHLLWKLPSGISTLVSLEHLDLSGTAITHLPIE-LQKLVNLKCLNLEYMYNLNQFPRLV 607
           +   L  +       ++L  L ++   +T +P   ++ LV L+ LNL Y    N    + 
Sbjct: 209 HWPYLDTMTPNCLYGLNLTSLSITHCNLTAVPYLAVRHLVYLRFLNLSY----NPISTIE 264

Query: 608 MSAFSKLQVLRIL 620
            S   +L  L+ +
Sbjct: 265 GSMLHELLRLQEI 277

>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 = 63.2 bits (154), Expect = 2e-10
 Identities = 28/130 (21%), Positives = 48/130 (36%), Gaps = 7/130 (5%)

Query: 494 RNVRRMSLMKNKIENLSET--PTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNH 551
            N+ ++ + +NKI  L +       +L SL + DN L  I+   F  + SL    +   +
Sbjct: 104 SNLTKLDISENKIVILLDYMFQDLYNLKSLEVGDNDLVYISHRAFSGLNSLEQLTLEKCN 163

Query: 552 LLWKLPSGISTLVSLEHLDLSGTAITHLPIE-LQKLVNLKCLNLEYMYNLNQFPRLVMSA 610
           L       +S L  L  L L    I  +     ++L  LK L + +      +   +   
Sbjct: 164 LTSIPTEALSHLHGLIVLRLRHLNINAIRDYSFKRLYRLKVLEISH----WPYLDTMTPN 219

Query: 611 FSKLQVLRIL 620
                 L  L
Sbjct: 220 CLYGLNLTSL 229

>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 = 61.3 bits (149), Expect = 8e-10
 Identities = 23/112 (20%), Positives = 40/112 (35%), Gaps = 5/112 (4%)

Query: 487 APEIQNWRNVRRMSLMKNKIENLSET--PTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRV 544
            P      N+  +S+    +  +         +L  L LS N +  I G     +  L+ 
Sbjct: 217 TPNCLYGLNLTSLSITHCNLTAVPYLAVRHLVYLRFLNLSYNPISTIEGSMLHELLRLQE 276

Query: 545 FNMSNNHLLWKLPSGI-STLVSLEHLDLSGTAITHLPIEL-QKLVNLKCLNL 594
             +     L  +       L  L  L++SG  +T L   +   + NL+ L L
Sbjct: 277 IQLVGGQ-LAVVEPYAFRGLNYLRVLNVSGNQLTTLEESVFHSVGNLETLIL 327

>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 = 47.4 bits (113), Expect = 1e-05
 Identities = 12/72 (16%), Positives = 26/72 (36%), Gaps = 8/72 (11%)

Query: 491 QNWRNVRRMSLMKNKIENLSETP--TCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMS 548
                ++ + L+  ++  +         +L  L +S N L  +    F  + +L    + 
Sbjct: 269 HELLRLQEIQLVGGQLAVVEPYAFRGLNYLRVLNVSGNQLTTLEESVFHSVGNLETLILD 328

Query: 549 NN------HLLW 554
           +N       LLW
Sbjct: 329 SNPLACDCRLLW 340

>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 = 78.8 bits (195), Expect = 6e-16
 Identities = 42/254 (16%), Positives = 76/254 (29%), Gaps = 29/254 (11%)

Query: 468 KIEKEKENFLVHAGLGLTEAPEIQNWRNVRRMSLMKNKIENLSETP------TCPHLLSL 521
                   +  H               N     +       L  T       T P  ++L
Sbjct: 27  PYHDVLSQWQRHYNADRNRWHSAWRQANSNNPQIETRTGRALKATADLLEDATQPGRVAL 86

Query: 522 FLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAITHLPI 581
            L    L       F+ +  L+   +    L+ +LP  +     LE L L+   +  LP 
Sbjct: 87  ELRSVPLPQFPDQAFR-LSHLQHMTIDAAGLM-ELPDTMQQFAGLETLTLARNPLRALPA 144

Query: 582 ELQKLVNLKCLNLEYMYNLNQFPR-----LVMSAFSKLQVLRILK--SNVLFGGHQFLVE 634
            +  L  L+ L++     L + P              L  L+ L+     +    + L  
Sbjct: 145 SIASLNRLRELSIRACPELTELPEPLASTDASGEHQGLVNLQSLRLEWTGI----RSLPA 200

Query: 635 ELMGMKHLMALTITLKSWEALQELLISQELQRCT--QSLFLRCFNDSKSL-DIFCLACLH 691
            +  +++L +L I       L  L     +      + L LR     ++   IF      
Sbjct: 201 SIANLQNLKSLKI---RNSPLSAL--GPAIHHLPKLEELDLRGCTALRNYPPIFG--GRA 253

Query: 692 NLNKLYVAGRKHLE 705
            L +L +    +L 
Sbjct: 254 PLKRLILKDCSNLL 267

>4fcg_A Uncharacterized protein; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, LRR, N- and C-terminal helices; 2.00A {Xanthomonas campestris PV} Length = 328

 Score = 75.4 bits (186), Expect = 8e-15
 Identities = 29/139 (20%), Positives = 57/139 (41%), Gaps = 7/139 (5%)

Query: 484 LTEAPEIQNWRNVRRMSLMKNKIENL-SETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSL 542
              + E Q   N++ + L    I +L +      +L SL + ++ L  +       +P L
Sbjct: 173 TDASGEHQGLVNLQSLRLEWTGIRSLPASIANLQNLKSLKIRNSPLSALGPAIHH-LPKL 231

Query: 543 RVFNMSNNHLLWKLPSGISTLVSLEHLDLSG-TAITHLPIELQKLVNLKCLNLEYMYNLN 601
              ++     L   P        L+ L L   + +  LP+++ +L  L+ L+L    NL+
Sbjct: 232 EELDLRGCTALRNYPPIFGGRAPLKRLILKDCSNLLTLPLDIHRLTQLEKLDLRGCVNLS 291

Query: 602 QFPRLVMSAFSKLQVLRIL 620
           + P    S  ++L    I+
Sbjct: 292 RLP----SLIAQLPANCII 306

>4fcg_A Uncharacterized protein; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, LRR, N- and C-terminal helices; 2.00A {Xanthomonas campestris PV} Length = 328

 Score = 64.2 bits (157), Expect = 4e-11
 Identities = 26/127 (20%), Positives = 45/127 (35%), Gaps = 5/127 (3%)

Query: 484 LTEAP-EIQNWRNVRRMSLMKNKIENLSET-PTCPHLLSLFLSD-NSLKMIAGDFFQFMP 540
           +   P  I N +N++ + +  + +  L       P L  L L    +L+     F     
Sbjct: 195 IRSLPASIANLQNLKSLKIRNSPLSALGPAIHHLPKLEELDLRGCTALRNYPPIFGG-RA 253

Query: 541 SLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSG-TAITHLPIELQKLVNLKCLNLEYMYN 599
            L+   + +   L  LP  I  L  LE LDL G   ++ LP  + +L     + +     
Sbjct: 254 PLKRLILKDCSNLLTLPLDIHRLTQLEKLDLRGCVNLSRLPSLIAQLPANCIILVPPHLQ 313

Query: 600 LNQFPRL 606
                  
Sbjct: 314 AQLDQHR 320

>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 = 63.8 bits (156), Expect = 5e-11
 Identities = 56/344 (16%), Positives = 101/344 (29%), Gaps = 87/344 (25%)

Query: 489 EIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQF-MPSLRVFNM 547
            +  W+  R  +  +N+  +        +      +  +LK  A        P      +
Sbjct: 31  VLSQWQ--RHYNADRNRWHSAWRQANSNNPQIETRTGRALKATADLLEDATQPGRVALEL 88

Query: 548 SNNHLLWKLPSGISTLVSLEHLDLSGTAITHLPIELQKLVNLKCLNLEYMYNLNQFPRLV 607
            +  L  + P     L  L+H+ +    +  LP  +Q+   L+ L L     L   P   
Sbjct: 89  RSVPLP-QFPDQAFRLSHLQHMTIDAAGLMELPDTMQQFAGLETLTLARN-PLRALP--- 143

Query: 608 MSAFSKLQVLRILKSNVLFGGHQFLVEELMGMKHLMALTITLKSWEALQELLISQELQRC 667
            ++ + L  LR L               +     L  L   L S +A  E      LQ  
Sbjct: 144 -ASIASLNRLRELS--------------IRACPELTELPEPLASTDASGEHQGLVNLQS- 187

Query: 668 TQSLFLRCFNDSKSL--DIFCLACLHNLNKLYVAGRKHLEDFQMTVQRSSVNQLARGFHS 725
              L L      +SL   I  L  L +L          + +  ++    +++ L      
Sbjct: 188 ---LRLEW-TGIRSLPASIANLQNLKSLK---------IRNSPLSALGPAIHHL----PK 230

Query: 726 LHTVKVGFCFKLKDLTWLVFAPS----LKSIVVLSCCNMEQIIKAEKLSQLHHHPERKKS 781
           L  + +  C  L++       P        +  L   +          S L   P     
Sbjct: 231 LEELDLRGCTALRNY------PPIFGGRAPLKRLILKD---------CSNLLTLPL---- 271

Query: 782 VFAKLQFLSLENLRNLCCINWEALAFPNLKEIRVEGCPKLFKLP 825
                    +  L  L             +++ + GC  L +LP
Sbjct: 272 --------DIHRLTQL-------------EKLDLRGCVNLSRLP 294

>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 = 81.2 bits (201), Expect = 6e-16
 Identities = 27/138 (19%), Positives = 51/138 (36%), Gaps = 9/138 (6%)

Query: 488 PEIQNWRNVRRMSLMKNKIENLSETPT---CPHLLSLFLSDNSLKMIAGDFFQFMPSLRV 544
                   ++ +    + ++ ++E         LL L +S  + K+     F  + SL  
Sbjct: 393 ANFMGLEELQHLDFQHSTLKRVTEFSAFLSLEKLLYLDISYTNTKIDFDGIFLGLTSLNT 452

Query: 545 FNMSNNHLLWKLPSGI-STLVSLEHLDLSGTAITHLPIE-LQKLVNLKCLNLEYMYNLNQ 602
             M+ N       S + +   +L  LDLS   +  +       L  L+ LN+ +    N 
Sbjct: 453 LKMAGNSFKDNTLSNVFANTTNLTFLDLSKCQLEQISWGVFDTLHRLQLLNMSH----NN 508

Query: 603 FPRLVMSAFSKLQVLRIL 620
              L  S +++L  L  L
Sbjct: 509 LLFLDSSHYNQLYSLSTL 526

>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 = 80.1 bits (198), Expect = 1e-15
 Identities = 60/391 (15%), Positives = 127/391 (32%), Gaps = 68/391 (17%)

Query: 494 RNVRRMSLMKNKIENLSET--PTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNH 551
            + + + L  N ++ L          L  L LS   ++ I    +  +  L    ++ N 
Sbjct: 32  SSTKNIDLSFNPLKILKSYSFSNFSELQWLDLSRCEIETIEDKAWHGLHHLSNLILTGNP 91

Query: 552 LLWKLPSGISTLVSLEHLDLSGTAITHLP-IELQKLVNLKCLNLEYMYNLNQFPRL-VMS 609
           +    P   S L SLE+L    T +  L    + +L+ LK LN+ +    N      + +
Sbjct: 92  IQSFSPGSFSGLTSLENLVAVETKLASLESFPIGQLITLKKLNVAH----NFIHSCKLPA 147

Query: 610 AFSKLQVLRIL--KSNVLFGGHQFLVEELMGMKHLMALTITLKSWEALQELLISQELQRC 667
            FS L  L  +    N +       V +L  ++    + ++L     +    I     + 
Sbjct: 148 YFSNLTNLVHVDLSYNYI---QTITVNDLQFLRENPQVNLSLD----MSLNPIDFIQDQA 200

Query: 668 -----TQSLFLRCFNDSKSLDIFCLACLHNLNKLYVAGRKHLEDFQMTV---------QR 713
                   L LR   +S ++   CL  L  L+   +   +  ++  + +           
Sbjct: 201 FQGIKLHELTLRGNFNSSNIMKTCLQNLAGLHVHRLILGEFKDERNLEIFEPSIMEGLCD 260

Query: 714 SSVNQLARGFHSLHTVKVGFCFKLKDLTWL-------------VFAPSLKSIVVLSCCNM 760
            ++++    + +  +  +     L +++ +                   +S+  +  C +
Sbjct: 261 VTIDEFRLTYTNDFSDDIVKFHCLANVSAMSLAGVSIKYLEDVPKHFKWQSL-SIIRCQL 319

Query: 761 EQIIKAEKLSQLHH--------HPERKKSVFAKLQFLSLEN--LRNLCCINWEALAFPNL 810
           +Q      L  L              KK     L +L L    L    C ++  L   +L
Sbjct: 320 KQFP-TLDLPFLKSLTLTMNKGSISFKKVALPSLSYLDLSRNALSFSGCCSYSDLGTNSL 378

Query: 811 KEIRV------------EGCPKLFKLPLDSN 829
           + + +             G  +L  L    +
Sbjct: 379 RHLDLSFNGAIIMSANFMGLEELQHLDFQHS 409

>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 = 76.2 bits (188), Expect = 2e-14
 Identities = 29/135 (21%), Positives = 49/135 (36%), Gaps = 9/135 (6%)

Query: 491 QNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFM--PSLRVFNMS 548
            +   ++ ++L  NK     +    P L  L LS N+L       +  +   SLR  ++S
Sbjct: 325 LDLPFLKSLTLTMNKGSISFKKVALPSLSYLDLSRNALSFSGCCSYSDLGTNSLRHLDLS 384

Query: 549 NNHLLWKLPSGISTLVSLEHLDLSGTAITHLP--IELQKLVNLKCLNLEYMYNLNQFPRL 606
            N  +  + +    L  L+HLD   + +  +        L  L  L++ Y          
Sbjct: 385 FNGAII-MSANFMGLEELQHLDFQHSTLKRVTEFSAFLSLEKLLYLDISY----TNTKID 439

Query: 607 VMSAFSKLQVLRILK 621
               F  L  L  LK
Sbjct: 440 FDGIFLGLTSLNTLK 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 = 67.4 bits (165), Expect = 1e-11
 Identities = 28/95 (29%), Positives = 43/95 (45%), Gaps = 4/95 (4%)

Query: 504 NKIENLSETPT---CPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGI 560
           N  ++ + +       +L  L LS   L+ I+   F  +  L++ NMS+N+LL+   S  
Sbjct: 458 NSFKDNTLSNVFANTTNLTFLDLSKCQLEQISWGVFDTLHRLQLLNMSHNNLLFLDSSHY 517

Query: 561 STLVSLEHLDLSGTAITHLPIELQK-LVNLKCLNL 594
           + L SL  LD S   I      LQ    +L   NL
Sbjct: 518 NQLYSLSTLDCSFNRIETSKGILQHFPKSLAFFNL 552

>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 = 80.1 bits (198), Expect = 1e-15
 Identities = 36/176 (20%), Positives = 68/176 (38%), Gaps = 13/176 (7%)

Query: 481 GLGLTEAPEIQNWRNVRRMSLMKNKIENLSET--PTCPHLLSLFLSDNSLKMIAGDFFQF 538
            LGL E P      +   +    N +  +  T      +L  L L+   +  I  D FQ 
Sbjct: 21  NLGLNEIPGTLP-NSTECLEFSFNVLPTIQNTTFSRLINLTFLDLTRCQIYWIHEDTFQS 79

Query: 539 MPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAITHL-PIELQKLVNLKCLNLEYM 597
              L    ++ N L++   + +S   +L+HL    T I+ +  I L     L+ L L   
Sbjct: 80  QHRLDTLVLTANPLIFMAETALSGPKALKHLFFIQTGISSIDFIPLHNQKTLESLYLGS- 138

Query: 598 YNLNQFPRLVMSAFSKLQVLRIL--KSNVLFGGHQFLVEELMGMKHLMALTITLKS 651
              N    + +      + L++L  ++N +   H    E++  ++    L++ L  
Sbjct: 139 ---NHISSIKLPKGFPTEKLKVLDFQNNAI---HYLSKEDMSSLQQATNLSLNLNG 188

>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 = 76.2 bits (188), Expect = 2e-14
 Identities = 28/144 (19%), Positives = 57/144 (39%), Gaps = 12/144 (8%)

Query: 490 IQNWRNVRRMSLMKNKIENLSETPT---CPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFN 546
            +    +  + L   +++             L  L LS + L + +   F  +P+L+  N
Sbjct: 396 FKECPQLELLDLAFTRLKVKDAQSPFQNLHLLKVLNLSHSLLDISSEQLFDGLPALQHLN 455

Query: 547 MSNNHLLW---KLPSGISTLVSLEHLDLSGTAITHLPIE-LQKLVNLKCLNLEYMYNLNQ 602
           +  NH      +  + + TL  LE L LS   ++ +       L  +  ++L +    N+
Sbjct: 456 LQGNHFPKGNIQKTNSLQTLGRLEILVLSFCDLSSIDQHAFTSLKMMNHVDLSH----NR 511

Query: 603 FPRLVMSAFSKLQVLRI-LKSNVL 625
                + A S L+ + + L SN +
Sbjct: 512 LTSSSIEALSHLKGIYLNLASNHI 535

>3t6q_A CD180 antigen; protein-protein complex, leucine rich repeat, MD-2 related L recognition, receptor, innate immunity, glycosylation, IMMU; HET: NAG BMA MAN; 1.90A {Mus musculus} PDB: 3b2d_A* 3rg1_A* Length = 606

 Score = 73.5 bits (181), Expect = 1e-13
 Identities = 42/240 (17%), Positives = 73/240 (30%), Gaps = 33/240 (13%)

Query: 490 IQNWRNVRRMSLMKNKIENLSETPT---CPHLLSLFLSDNSLKMI--AGDFFQFMPSLRV 544
             N+ ++  +S+  N       T       +L  L LS + ++         + +  L+ 
Sbjct: 321 ASNFPSLTHLSIKGNTKRLELGTGCLENLENLRELDLSHDDIETSDCCNLQLRNLSHLQS 380

Query: 545 FNMSNNHLLWKLPSGISTLVSLEHLDLSGTAITHLPIE--LQKLVNLKCLNLEYMYNLNQ 602
            N+S N  L            LE LDL+ T +     +   Q L  LK LNL +    + 
Sbjct: 381 LNLSYNEPLSLKTEAFKECPQLELLDLAFTRLKVKDAQSPFQNLHLLKVLNLSH----SL 436

Query: 603 FPRLVMSAFSKLQVLRILK--SNVLFGGHQFLVEELMGMKHLMALTI-----------TL 649
                   F  L  L+ L    N    G+      L  +  L  L +             
Sbjct: 437 LDISSEQLFDGLPALQHLNLQGNHFPKGNIQKTNSLQTLGRLEILVLSFCDLSSIDQHAF 496

Query: 650 KSWEALQELL--------ISQELQRCTQSLFLRC-FNDSKSLDIFCLACLHNLNKLYVAG 700
            S + +  +          S E     + ++L    N    +    L  L     + +  
Sbjct: 497 TSLKMMNHVDLSHNRLTSSSIEALSHLKGIYLNLASNHISIILPSLLPILSQQRTINLRQ 556

>3t6q_A CD180 antigen; protein-protein complex, leucine rich repeat, MD-2 related L recognition, receptor, innate immunity, glycosylation, IMMU; HET: NAG BMA MAN; 1.90A {Mus musculus} PDB: 3b2d_A* 3rg1_A* Length = 606

 Score = 44.2 bits (105), Expect = 2e-04
 Identities = 11/60 (18%), Positives = 24/60 (40%), Gaps = 1/60 (1%)

Query: 494 RNVRRMSLMKNKIENLSETP-TCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHL 552
           + +  + L  N++ + S    +    + L L+ N + +I       +   R  N+  N L
Sbjct: 500 KMMNHVDLSHNRLTSSSIEALSHLKGIYLNLASNHISIILPSLLPILSQQRTINLRQNPL 559

>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 = 75.4 bits (186), Expect = 5e-15
 Identities = 35/145 (24%), Positives = 51/145 (35%), Gaps = 11/145 (7%)

Query: 481 GLGLTEAPE-IQNWRNVRRMSLMKNKIENLSET--PTCPHLLSLFLSDNSLKMIAGDFFQ 537
             GL   P  I      +R+ L  N+I ++       C +L  L+L  N L  I    F 
Sbjct: 20  QQGLQAVPVGIP--AASQRIFLHGNRISHVPAASFRACRNLTILWLHSNVLARIDAAAFT 77

Query: 538 FMPSLRVFNMSNNHLLWKLPSGI-STLVSLEHLDLSGTAITHLPIE-LQKLVNLKCLNLE 595
            +  L   ++S+N  L  +       L  L  L L    +  L     + L  L+ L L+
Sbjct: 78  GLALLEQLDLSDNAQLRSVDPATFHGLGRLHTLHLDRCGLQELGPGLFRGLAALQYLYLQ 137

Query: 596 YMYNLNQFPRLVMSAFSKLQVLRIL 620
                N    L    F  L  L  L
Sbjct: 138 D----NALQALPDDTFRDLGNLTHL 158

>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 = 71.9 bits (177), Expect = 8e-14
 Identities = 29/131 (22%), Positives = 51/131 (38%), Gaps = 9/131 (6%)

Query: 494 RNVRRMSLMKNKIENLSET--PTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNH 551
             +  + L +  ++ L          L  L+L DN+L+ +  D F+ + +L    +  N 
Sbjct: 105 GRLHTLHLDRCGLQELGPGLFRGLAALQYLYLQDNALQALPDDTFRDLGNLTHLFLHGNR 164

Query: 552 LLWKLPSGI-STLVSLEHLDLSGTAITHLPIE-LQKLVNLKCLNLEYMYNLNQFPRLVMS 609
            +  +P      L SL+ L L    + H+     + L  L  L L      N    L   
Sbjct: 165 -ISSVPERAFRGLHSLDRLLLHQNRVAHVHPHAFRDLGRLMTLYLFA----NNLSALPTE 219

Query: 610 AFSKLQVLRIL 620
           A + L+ L+ L
Sbjct: 220 ALAPLRALQYL 230

>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 = 46.1 bits (110), Expect = 2e-05
 Identities = 10/72 (13%), Positives = 31/72 (43%), Gaps = 8/72 (11%)

Query: 491 QNWRNVRRMSLMKNKIENLSETP--TCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMS 548
           +   ++ R+ L +N++ ++          L++L+L  N+L  +  +    + +L+   ++
Sbjct: 174 RGLHSLDRLLLHQNRVAHVHPHAFRDLGRLMTLYLFANNLSALPTEALAPLRALQYLRLN 233

Query: 549 NN------HLLW 554
           +N          
Sbjct: 234 DNPWVCDCRARP 245

>1ziw_A TOLL-like receptor 3; innate immunity, immune system; HET: NDG NAG; 2.10A {Homo sapiens} PDB: 2a0z_A* 3cig_A* 3ciy_A* Length = 680

 Score = 78.1 bits (193), Expect = 6e-15
 Identities = 62/356 (17%), Positives = 116/356 (32%), Gaps = 59/356 (16%)

Query: 494 RNVRRMSLMKNKIENLSETP--TCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNH 551
            N+  ++L  N++  L          L SL +  N++  +  +  Q +P L+V N+ +N 
Sbjct: 25  TNITVLNLTHNQLRRLPAANFTRYSQLTSLDVGFNTISKLEPELCQKLPMLKVLNLQHNE 84

Query: 552 LLWKLPSGISTLVSLEHLDLSGTAITHL-PIELQKLVNLKCLNLEYMYNLNQFPRLVMSA 610
           L        +   +L  L L   +I  +      K  NL  L+L +    N      +  
Sbjct: 85  LSQLSDKTFAFCTNLTELHLMSNSIQKIKNNPFVKQKNLITLDLSH----NGLSSTKLGT 140

Query: 611 FSKLQVLRI--LKSNVLFGGHQFLVEELMGMKHLMALTITLKSWEALQELLISQELQRCT 668
             +L+ L+   L +N +    Q L  E + +              +L++L +S       
Sbjct: 141 QVQLENLQELLLSNNKI----QALKSEELDIFANS----------SLKKLELS------- 179

Query: 669 QSLFLRCFNDSKSLDIFCLACLHNLNKLYVAG----RKHLEDFQMTVQRSSVNQLARGFH 724
                   N  K     C   +  L  L++          E   + +  +S+  L+    
Sbjct: 180 -------SNQIKEFSPGCFHAIGRLFGLFLNNVQLGPSLTEKLCLELANTSIRNLSLSNS 232

Query: 725 SLHTVKVGFCFKLKDLTWLVFAPSLKSIVVLSCCNMEQIIKAE--KLSQLH-------HH 775
            L T        LK         +L  +  LS  N+  +       L QL        + 
Sbjct: 233 QLSTTSNTTFLGLKW-------TNLTML-DLSYNNLNVVGNDSFAWLPQLEYFFLEYNNI 284

Query: 776 PERKKSVFAKLQFLSLENL-RNLCCINWEALAFPNLKEIRVEGCPKLFKLPLDSNS 830
                     L  +   NL R+    +    + P + +   +    L  L ++ N 
Sbjct: 285 QHLFSHSLHGLFNVRYLNLKRSFTKQSISLASLPKIDDFSFQWLKCLEHLNMEDND 340

>1ziw_A TOLL-like receptor 3; innate immunity, immune system; HET: NDG NAG; 2.10A {Homo sapiens} PDB: 2a0z_A* 3cig_A* 3ciy_A* Length = 680

 Score = 77.7 bits (192), Expect = 7e-15
 Identities = 48/272 (17%), Positives = 86/272 (31%), Gaps = 32/272 (11%)

Query: 486 EAPEIQNWRNVRRMSLMKNKIENLSET--PTCPHLLSLFLSDNSLKMIAGDFFQFMPSLR 543
           E    Q    ++ ++L  N++  LS+     C +L  L L  NS++ I  + F    +L 
Sbjct: 65  EPELCQKLPMLKVLNLQHNELSQLSDKTFAFCTNLTELHLMSNSIQKIKNNPFVKQKNLI 124

Query: 544 VFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAITHLPIELQKLVNLKCLNLEYMY-NLNQ 602
             ++S+N L          L +L+ L LS   I  L  E   L      +L+ +  + NQ
Sbjct: 125 TLDLSHNGLSSTKLGTQVQLENLQELLLSNNKIQALKSEE--LDIFANSSLKKLELSSNQ 182

Query: 603 FPRLVMSAFSKLQVLRIL--KSNVLFGGHQFLVEELMGMKHLMAL-------------TI 647
                   F  +  L  L   +  L       +   +    +  L             T 
Sbjct: 183 IKEFSPGCFHAIGRLFGLFLNNVQLGPSLTEKLCLELANTSIRNLSLSNSQLSTTSNTTF 242

Query: 648 TLKSWEALQEL---------LISQELQRCT--QSLFLRCFNDSKSLDIFCLACLHNLNKL 696
               W  L  L         + +         +  FL  +N+ + L    L  L N+  L
Sbjct: 243 LGLKWTNLTMLDLSYNNLNVVGNDSFAWLPQLEYFFLE-YNNIQHLFSHSLHGLFNVRYL 301

Query: 697 YVAGRKHLEDFQMTVQRSSVNQLARGFHSLHT 728
            +      +   +       +   +    L  
Sbjct: 302 NLKRSFTKQSISLASLPKIDDFSFQWLKCLEH 333

>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 = 74.3 bits (183), Expect = 9e-14
 Identities = 41/213 (19%), Positives = 75/213 (35%), Gaps = 18/213 (8%)

Query: 497 RRMSLMKNKIENLSET--PTCPHLLSLFLSDNSLK-MIAGDFFQFMPSLRVFNMSNNHLL 553
             ++L KNKI  +         HL  L L  N +   + G  ++ + ++    +S N  L
Sbjct: 384 HILNLTKNKISKIESDAFSWLGHLEVLDLGLNEIGQELTGQEWRGLENIFEIYLSYNKYL 443

Query: 554 WKLPSGISTLVSLEHLDLSG---TAITHLPIELQKLVNLKCLNLEYMYNLNQFPRLVMSA 610
               +  + + SL+ L L       +   P   Q L NL  L+L    N+      ++  
Sbjct: 444 QLTRNSFALVPSLQRLMLRRVALKNVDSSPSPFQPLRNLTILDLSNN-NIANINDDMLEG 502

Query: 611 FSKLQVLRI----LKSNVLFGGHQFLVEELMGMKHLMALTITLKSWEALQELLISQELQR 666
             KL++L +    L            +  L G+ HL  L +         E +  +  + 
Sbjct: 503 LEKLEILDLQHNNLARLWKHANPGGPIYFLKGLSHLHILNL---ESNGFDE-IPVEVFKD 558

Query: 667 CT--QSLFLRCFNDSKSLDIFCLACLHNLNKLY 697
               + + L   N+  +L         +L  L 
Sbjct: 559 LFELKIIDLG-LNNLNTLPASVFNNQVSLKSLN 590

>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 = 66.6 bits (163), Expect = 2e-11
 Identities = 26/126 (20%), Positives = 49/126 (38%), Gaps = 16/126 (12%)

Query: 490 IQNWRNVRRMSLMKNKIENLSETPT----------CPHLLSLFLSDNSLKMIAGDFFQFM 539
           ++    +  + L  N +  L +               HL  L L  N    I  + F+ +
Sbjct: 500 LEGLEKLEILDLQHNNLARLWKHANPGGPIYFLKGLSHLHILNLESNGFDEIPVEVFKDL 559

Query: 540 PSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAITHLPIEL--QKLVNLKCLNLEYM 597
             L++ ++  N+L     S  +  VSL+ L+L    IT +  ++      NL  L++ + 
Sbjct: 560 FELKIIDLGLNNLNTLPASVFNNQVSLKSLNLQKNLITSVEKKVFGPAFRNLTELDMRF- 618

Query: 598 YNLNQF 603
              N F
Sbjct: 619 ---NPF 621

>1ziw_A TOLL-like receptor 3; innate immunity, immune system; HET: NDG NAG; 2.10A {Homo sapiens} PDB: 2a0z_A* 3cig_A* 3ciy_A* Length = 680

 Score = 54.6 bits (132), Expect = 1e-07
 Identities = 14/89 (15%), Positives = 32/89 (35%), Gaps = 5/89 (5%)

Query: 489 EIQNWRNVRRMSLMKNKIENLSET--PTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFN 546
            ++   ++  ++L  N  + +          L  + L  N+L  +    F    SL+  N
Sbjct: 531 FLKGLSHLHILNLESNGFDEIPVEVFKDLFELKIIDLGLNNLNTLPASVFNNQVSLKSLN 590

Query: 547 MSNNHLLWKLPSGI--STLVSLEHLDLSG 573
           +  N  +  +   +      +L  LD+  
Sbjct: 591 LQKNL-ITSVEKKVFGPAFRNLTELDMRF 618

>1ziw_A TOLL-like receptor 3; innate immunity, immune system; HET: NDG NAG; 2.10A {Homo sapiens} PDB: 2a0z_A* 3cig_A* 3ciy_A* Length = 680

 Score = 53.1 bits (128), Expect = 3e-07
 Identities = 17/81 (20%), Positives = 35/81 (43%), Gaps = 8/81 (9%)

Query: 541 SLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAITHL-PIELQKLVNLKCLNLEYMYN 599
           S  V + S+   L ++P  + T  ++  L+L+   +  L      +   L  L++ +   
Sbjct: 5   SHEVADCSHLK-LTQVPDDLPT--NITVLNLTHNQLRRLPAANFTRYSQLTSLDVGF--- 58

Query: 600 LNQFPRLVMSAFSKLQVLRIL 620
            N   +L      KL +L++L
Sbjct: 59  -NTISKLEPELCQKLPMLKVL 78

>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 = 42.3 bits (100), Expect = 8e-04
 Identities = 40/190 (21%), Positives = 64/190 (33%), Gaps = 47/190 (24%)

Query: 564 VSLEHLDLSGTAITHLPIELQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRIL--K 621
           VS E  D S   +T +P +L    N+  LNL +    NQ  RL  + F++   L  L   
Sbjct: 4   VSHEVADCSHLKLTQVPDDL--PTNITVLNLTH----NQLRRLPAANFTRYSQLTSLDVG 57

Query: 622 SNVLFGGHQFLVEELMGMKHLMALTIT---LKSWEALQELLISQELQRCT--QSLFLRCF 676
            N +    +   E    +  L  L +    L         L  +    CT    L L   
Sbjct: 58  FNTI---SKLEPELCQKLPMLKVLNLQHNELSQ-------LSDKTFAFCTNLTELHLM-S 106

Query: 677 NDSKSLDIFCLACLHNLNKLYVAGRKHLEDFQMTVQRSSVNQLARGFHSLHTVKVGFCFK 736
           N  + +         NL  L ++                 N        L + K+G   +
Sbjct: 107 NSIQKIKNNPFVKQKNLITLDLSH----------------NG-------LSSTKLGTQVQ 143

Query: 737 LKDLTWLVFA 746
           L++L  L+ +
Sbjct: 144 LENLQELLLS 153

>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 = 75.7 bits (187), Expect = 1e-14
 Identities = 25/137 (18%), Positives = 50/137 (36%), Gaps = 10/137 (7%)

Query: 484 LTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLR 543
           +T+    +   ++ ++ +   K+ ++       +L  L L+ N +  I       +  L 
Sbjct: 34  VTDVVTQEELESITKLVVAGEKVASIQGIEYLTNLEYLNLNGNQITDI--SPLSNLVKLT 91

Query: 544 VFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAITHLPIELQKLVNLKCLNLEYMYNLNQF 603
              +  N +     S +  L +L  L L+   I+ +   L  L  +  LNL      N  
Sbjct: 92  NLYIGTNKI--TDISALQNLTNLRELYLNEDNISDIS-PLANLTKMYSLNLGA----NHN 144

Query: 604 PRLVMSAFSKLQVLRIL 620
              + S  S +  L  L
Sbjct: 145 LSDL-SPLSNMTGLNYL 160

>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 = 74.9 bits (185), Expect = 1e-14
 Identities = 23/138 (16%), Positives = 53/138 (38%), Gaps = 10/138 (7%)

Query: 483 GLTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSL 542
            +     I+   N+  ++L  N+I ++S       L +L++  N +  I     Q + +L
Sbjct: 55  KVASIQGIEYLTNLEYLNLNGNQITDISPLSNLVKLTNLYIGTNKITDI--SALQNLTNL 112

Query: 543 RVFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAITHLPIELQKLVNLKCLNLEYMYNLNQ 602
           R   ++ +++     S ++ L  +  L+L           L  +  L  L +      ++
Sbjct: 113 RELYLNEDNI--SDISPLANLTKMYSLNLGANHNLSDLSPLSNMTGLNYLTVTE----SK 166

Query: 603 FPRLVMSAFSKLQVLRIL 620
              +  +  + L  L  L
Sbjct: 167 VKDV--TPIANLTDLYSL 182

>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 = 72.2 bits (178), Expect = 1e-13
 Identities = 22/113 (19%), Positives = 42/113 (37%), Gaps = 3/113 (2%)

Query: 484 LTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLR 543
           +T+   + N   +  + +  N+I +++       L  L +  N +  I       +  L 
Sbjct: 233 ITDLSPLANLSQLTWLEIGTNQISDINAVKDLTKLKMLNVGSNQISDI--SVLNNLSQLN 290

Query: 544 VFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAITHLPIELQKLVNLKCLNLEY 596
              ++NN L  +    I  L +L  L LS   IT +   L  L  +   +   
Sbjct: 291 SLFLNNNQLGNEDMEVIGGLTNLTTLFLSQNHITDIR-PLASLSKMDSADFAN 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 = 69.1 bits (170), Expect = 1e-12
 Identities = 40/223 (17%), Positives = 86/223 (38%), Gaps = 30/223 (13%)

Query: 484 LTEAPEIQNWRNVRRMSLMKN-KIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSL 542
           +++   + N   +  ++L  N  + +LS       L  L ++++ +K +       +  L
Sbjct: 122 ISDISPLANLTKMYSLNLGANHNLSDLSPLSNMTGLNYLTVTESKVKDVTP--IANLTDL 179

Query: 543 RVFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAITHLPIELQKLVNLKCLNLEYMYNLNQ 602
              +++ N +  +  S +++L SL +       IT +   +  +  L  L +      N+
Sbjct: 180 YSLSLNYNQI--EDISPLASLTSLHYFTAYVNQITDIT-PVANMTRLNSLKIGN----NK 232

Query: 603 FPRLVMSAFSKLQVLRILK--SNVLFGGHQFLVEELMGMKHLMALTIT---LKSWEALQE 657
              L  S  + L  L  L+  +N +       +  +  +  L  L +    +     L  
Sbjct: 233 ITDL--SPLANLSQLTWLEIGTNQISD-----INAVKDLTKLKMLNVGSNQISDISVLNN 285

Query: 658 LLISQELQRCTQSLFLRCFNDSKSLDIFCLACLHNLNKLYVAG 700
           L    +L     SLFL   N   + D+  +  L NL  L+++ 
Sbjct: 286 L---SQLN----SLFLN-NNQLGNEDMEVIGGLTNLTTLFLSQ 320

>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 = 61.0 bits (149), Expect = 5e-10
 Identities = 26/121 (21%), Positives = 46/121 (38%), Gaps = 11/121 (9%)

Query: 500 SLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSG 559
           + +   I  +         +   L   S+  +     + + S+    ++   +      G
Sbjct: 6   ATLPAPINQIFPDADLAEGIRAVLQKASVTDV--VTQEELESITKLVVAGEKV--ASIQG 61

Query: 560 ISTLVSLEHLDLSGTAITHLPIELQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRI 619
           I  L +LE+L+L+G  IT +   L  LV L  L +      N+   +  SA   L  LR 
Sbjct: 62  IEYLTNLEYLNLNGNQITDIS-PLSNLVKLTNLYIGT----NKITDI--SALQNLTNLRE 114

Query: 620 L 620
           L
Sbjct: 115 L 115

>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 = 3e-09
 Identities = 17/95 (17%), Positives = 44/95 (46%), Gaps = 2/95 (2%)

Query: 483 GLTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSL 542
            +++   +++   ++ +++  N+I ++S       L SLFL++N L     +    + +L
Sbjct: 254 QISDINAVKDLTKLKMLNVGSNQISDISVLNNLSQLNSLFLNNNQLGNEDMEVIGGLTNL 313

Query: 543 RVFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAIT 577
               +S NH+       +++L  ++  D +   I 
Sbjct: 314 TTLFLSQNHI--TDIRPLASLSKMDSADFANQVIK 346

>3j0a_A TOLL-like receptor 5; membrane protein, leucine-rich repeat, asymmetric homodimer, glycoprotein, immune system; HET: NAG FUC; 26.00A {Homo sapiens} Length = 844

 Score = 77.2 bits (190), Expect = 1e-14
 Identities = 70/350 (20%), Positives = 122/350 (34%), Gaps = 59/350 (16%)

Query: 481 GLGLTEAPEIQNWRNVRRMSLMKNKIENLSET--PTCPHLLSLFLSDNSLKM-IAGDFFQ 537
              LT+ P  Q      R+ L  N I  ++ +  P    L  L L      + I  + F+
Sbjct: 13  FCNLTQVP--QVLNTTERLLLSFNYIRTVTASSFPFLEQLQLLELGSQYTPLTIDKEAFR 70

Query: 538 FMPSLRVFNMSNNHLLWKLPSGI-STLVSLEHLDLSGTAITHLPIE---LQKLVNLKCLN 593
            +P+LR+ ++ ++ + + L       L  L  L L    ++   ++    + L  L  L+
Sbjct: 71  NLPNLRILDLGSSKI-YFLHPDAFQGLFHLFELRLYFCGLSDAVLKDGYFRNLKALTRLD 129

Query: 594 LEYMYNLNQFPRLVMS-AFSKLQVLRIL--KSNVLFGGHQFLVEELMGMKHLMALTITLK 650
           L      NQ   L +  +F KL  L+ +   SN +         EL  ++          
Sbjct: 130 LSK----NQIRSLYLHPSFGKLNSLKSIDFSSNQI---FLVCEHELEPLQGK-------- 174

Query: 651 SWEALQELLISQ-ELQRCTQSLFLRCFNDSKSLDIFCLACLHNLNKLYVAGRKHLEDFQM 709
               L    ++   L       + +C N  +++ +  L    N   + + G     +F  
Sbjct: 175 ---TLSFFSLAANSLYSRVSVDWGKCMNPFRNMVLEILDVSGNGWTVDITG-----NFSN 226

Query: 710 TVQRSSVNQLARGFHSLHTVKVGFCFKLKDLTWLVFAPSLKSIVV---LSCCNMEQIIKA 766
            + +S    L    H +     GF   +KD     FA   +S V    LS   +  +   
Sbjct: 227 AISKSQAFSLILA-HHIMGAGFGFH-NIKDPDQNTFAGLARSSVRHLDLSHGFVFSL--- 281

Query: 767 EKLSQLHHHPERKKSVFAKLQFLSLENLRNLCCINW-EALAFPNLKEIRV 815
                          VF  L+ L + NL     IN     AF  L  ++V
Sbjct: 282 ------------NSRVFETLKDLKVLNLAY-NKINKIADEAFYGLDNLQV 318

>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 = 71.4 bits (175), Expect = 9e-13
 Identities = 55/349 (15%), Positives = 110/349 (31%), Gaps = 39/349 (11%)

Query: 494 RNVRRMSLMKNKIENLSET--PTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNH 551
           ++++ ++L  NKI  +++       +L  L LS N L  +    F  +P +   ++  NH
Sbjct: 290 KDLKVLNLAYNKINKIADEAFYGLDNLQVLNLSYNLLGELYSSNFYGLPKVAYIDLQKNH 349

Query: 552 LLWKLPSGISTLVSLEHLDLSGTAITHLPIELQKLVNLKCLNLEYMYNLNQFPRLVMSAF 611
           +          L  L+ LDL   A+T +      + ++  + L     L   P++ ++  
Sbjct: 350 IAIIQDQTFKFLEKLQTLDLRDNALTTIHF----IPSIPDIFLSGN-KLVTLPKINLT-- 402

Query: 612 SKLQVLRILKSNVLFGGHQFLVEELMGMKHLMALTITLKSWEALQELLISQELQRCT--Q 669
               ++  L  N L          L+ + HL  L +   +          Q        +
Sbjct: 403 --ANLIH-LSENRLENLDILYF--LLRVPHLQILIL---NQNRFSSCSGDQTPSENPSLE 454

Query: 670 SLFLRC----FNDSKSLDIFCLACLHNLNKLYVAGRKHLEDFQMTVQRSSVNQLARGFHS 725
            LFL            L       L +L  LY+    +L              +     +
Sbjct: 455 QLFLGENMLQLAWETELCWDVFEGLSHLQVLYLNH-NYLNSLP--------PGVFSHLTA 505

Query: 726 LHTVKVGFCFKLKDLTWLVFAPSLKSIVVLSCCNMEQIIKAEKLSQLHHHPERKKSVFAK 785
           L  + +    +L  L+      +L+ + +    N       +    L            +
Sbjct: 506 LRGLSLNSN-RLTVLSHNDLPANLEILDISR--NQLLAPNPDVFVSLSVLDITHNKFICE 562

Query: 786 LQFLSLENLRNLCCINWEALAFPNLKEIRVEGCPKLFKLPLDSNSAKGC 834
            +  +  N  N   +           +I          + L S S +GC
Sbjct: 563 CELSTFINWLNHTNVTIA----GPPADIYCVYPDSFSGVSLFSLSTEGC 607

>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 = 64.8 bits (158), Expect = 8e-11
 Identities = 31/140 (22%), Positives = 50/140 (35%), Gaps = 14/140 (10%)

Query: 489 EIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMI-AGDFFQFMPSLRVFNM 547
            I    ++  + L  NK+  L +         + LS+N L+ +    F   +P L++  +
Sbjct: 376 TIHFIPSIPDIFLSGNKLVTLPKINLT--ANLIHLSENRLENLDILYFLLRVPHLQILIL 433

Query: 548 SNNHLLWKLPSGI-STLVSLEHLDLSGTAITHLPIE------LQKLVNLKCLNLEYMYNL 600
           + N           S   SLE L L    +             + L +L+ L L +    
Sbjct: 434 NQNRFSSCSGDQTPSENPSLEQLFLGENMLQLAWETELCWDVFEGLSHLQVLYLNH---- 489

Query: 601 NQFPRLVMSAFSKLQVLRIL 620
           N    L    FS L  LR L
Sbjct: 490 NYLNSLPPGVFSHLTALRGL 509

>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 = 76.6 bits (189), Expect = 1e-14
 Identities = 55/301 (18%), Positives = 101/301 (33%), Gaps = 37/301 (12%)

Query: 508 NLSETPTC--PHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVS 565
           N  + P        +L LS N L+ +    F   P L+V ++S   +         +L  
Sbjct: 18  NFYKIPDNLPFSTKNLDLSFNPLRHLGSYSFFSFPELQVLDLSRCEIQTIEDGAYQSLSH 77

Query: 566 LEHLDLSGTAITHLPIE-LQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRILK--S 622
           L  L L+G  I  L +     L +L+ L             L       L+ L+ L    
Sbjct: 78  LSTLILTGNPIQSLALGAFSGLSSLQKLVAVE----TNLASLENFPIGHLKTLKELNVAH 133

Query: 623 NVLFGGHQFLVEELMGMKHLMALT-----ITLKSWEALQELLISQELQRCTQSLFLRCFN 677
           N++      L E    + +L  L      I       L+ L    ++     SL L   N
Sbjct: 134 NLIQSFK--LPEYFSNLTNLEHLDLSSNKIQSIYCTDLRVL---HQMPLLNLSLDLS-LN 187

Query: 678 DSKSLDIFCLACLHNLNKLYVAGRKHLEDFQMTVQRSSVNQLAR-GFHSLHTVKVGFCFK 736
               +       +  L+KL +          + V ++ +  LA    H L   +      
Sbjct: 188 PMNFIQPGAFKEI-RLHKLTLRNNF----DSLNVMKTCIQGLAGLEVHRLVLGEFRNEGN 242

Query: 737 LKDLTWLVFAPSLKSIVVLSCCNMEQIIKAEKLSQLHHHPERKKSVFAKLQFLSLENLRN 796
           L+         +L+ +  L+           +L+ L ++ +    +F  L  +S  +L +
Sbjct: 243 LEKFD----KSALEGLCNLTIEEF-------RLAYLDYYLDDIIDLFNCLTNVSSFSLVS 291

Query: 797 L 797
           +
Sbjct: 292 V 292

>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 = 75.1 bits (185), Expect = 4e-14
 Identities = 57/378 (15%), Positives = 126/378 (33%), Gaps = 53/378 (14%)

Query: 488 PEIQNWRNVRRMSLMKNKIENLSET--PTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVF 545
               ++  ++ + L + +I+ + +    +  HL +L L+ N ++ +A   F  + SL+  
Sbjct: 46  YSFFSFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNPIQSLALGAFSGLSSLQKL 105

Query: 546 NMSNNHLLWKLPSGISTLVSLEHLDLSGTAITHLPI--ELQKLVNLKCLNLEYMYNLNQF 603
                +L       I  L +L+ L+++   I    +      L NL+ L+L      N+ 
Sbjct: 106 VAVETNLASLENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSS----NKI 161

Query: 604 PRLVMSAFSKLQVLRILK-----SNVLFGGHQFLVEELMGMKHL------MALTITLKSW 652
             +  +    L  + +L      S       Q    + + +  L       +L +     
Sbjct: 162 QSIYCTDLRVLHQMPLLNLSLDLSLNPMNFIQPGAFKEIRLHKLTLRNNFDSLNVMKTCI 221

Query: 653 EALQELLISQELQRCTQSLFLRCFNDSKSLDIFCLACLHNLNKLYVAGRKHLEDFQMTVQ 712
           + L  L +          L L  F +  +L+ F  + L  L  L +   +      +   
Sbjct: 222 QGLAGLEV--------HRLVLGEFRNEGNLEKFDKSALEGLCNLTI---EEFRLAYLDYY 270

Query: 713 RSSVNQLARGFHSLHTVKVGFCFKLKDLTWLVFAPSLKSIVVLSCCNMEQIIKA--EKLS 770
              +  L     ++ +  +     ++ +    +    + +  L  C   Q      + L 
Sbjct: 271 LDDIIDLFNCLTNVSSFSLVSV-TIERVKDFSYNFGWQHL-ELVNCKFGQFPTLKLKSLK 328

Query: 771 QLHHHPERKKSVFA-----KLQFLSLEN--LRNLCCINWEALAFPNLKEIRV-------- 815
           +L     +  + F+      L+FL L    L    C +       +LK + +        
Sbjct: 329 RLTFTSNKGGNAFSEVDLPSLEFLDLSRNGLSFKGCCSQSDFGTTSLKYLDLSFNGVITM 388

Query: 816 ----EGCPKLFKLPLDSN 829
                G  +L  L    +
Sbjct: 389 SSNFLGLEQLEHLDFQHS 406

>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 = 74.3 bits (183), Expect = 7e-14
 Identities = 25/143 (17%), Positives = 48/143 (33%), Gaps = 9/143 (6%)

Query: 483 GLTEAPEIQNWRNVRRMSLMKNKIENLSET--PTCPHLLSLFLSDNSLK-MIAGDFFQFM 539
            ++E     + RN+  + +                  L  L ++ NS +     D F  +
Sbjct: 410 QMSEFSVFLSLRNLIYLDISHTHTRVAFNGIFNGLSSLEVLKMAGNSFQENFLPDIFTEL 469

Query: 540 PSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAITHLPIE-LQKLVNLKCLNLEYMY 598
            +L   ++S   L    P+  ++L SL+ L++S      L     + L +L+ L+     
Sbjct: 470 RNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMSHNNFFSLDTFPYKCLNSLQVLDYSL-- 527

Query: 599 NLNQFPRLVMSAFSKLQV-LRIL 620
             N                L  L
Sbjct: 528 --NHIMTSKKQELQHFPSSLAFL 548

>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 = 72.4 bits (178), Expect = 3e-13
 Identities = 36/161 (22%), Positives = 60/161 (37%), Gaps = 13/161 (8%)

Query: 491 QNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQF--MPSLRVFNMS 548
              ++++R++   NK  N       P L  L LS N L              SL+  ++S
Sbjct: 322 LKLKSLKRLTFTSNKGGNAFSEVDLPSLEFLDLSRNGLSFKGCCSQSDFGTTSLKYLDLS 381

Query: 549 NNHLLWKLPSGISTLVSLEHLDLSGTAITHLPIE--LQKLVNLKCLNLEYMYNLNQFPRL 606
            N ++  + S    L  LEHLD   + +  +        L NL  L++ +          
Sbjct: 382 FNGVI-TMSSNFLGLEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDISH----THTRVA 436

Query: 607 VMSAFSKLQVLRILK--SNVLFGGHQFLVEELMGMKHLMAL 645
               F+ L  L +LK   N       FL +    +++L  L
Sbjct: 437 FNGIFNGLSSLEVLKMAGNSFQEN--FLPDIFTELRNLTFL 475

>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 = 60.4 bits (147), Expect = 2e-09
 Identities = 28/91 (30%), Positives = 39/91 (42%), Gaps = 6/91 (6%)

Query: 515 CPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGT 574
             +L  L LS   L+ ++   F  + SL+V NMS+N+           L SL+ LD S  
Sbjct: 469 LRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMSHNNFFSLDTFPYKCLNSLQVLDYSLN 528

Query: 575 AITHLPIE-LQKLV-NLKCLNLEYMYNLNQF 603
            I     + LQ    +L  LNL      N F
Sbjct: 529 HIMTSKKQELQHFPSSLAFLNLTQ----NDF 555

>3zyj_A Leucine-rich repeat-containing protein 4C; cell adhesion, synapse; HET: NAG BMA MAN; 3.25A {Homo sapiens} Length = 440

 Score = 75.6 bits (186), Expect = 2e-14
 Identities = 30/131 (22%), Positives = 54/131 (41%), Gaps = 10/131 (7%)

Query: 494 RNVRRMSLMKNKIENLSE---TPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNN 550
            N+  + L  N++  +           L  L+L +N ++ I    F  +PSLR  ++   
Sbjct: 112 ANLNTLELFDNRLTTIPNGAFVYL-SKLKELWLRNNPIESIPSYAFNRIPSLRRLDLGEL 170

Query: 551 HLLWKLPSGI-STLVSLEHLDLSGTAITHLPIELQKLVNLKCLNLEYMYNLNQFPRLVMS 609
             L  +  G    L +L +L+L+   +  +P  L  L+ L  L+L      N    +   
Sbjct: 171 KRLSYISEGAFEGLSNLRYLNLAMCNLREIP-NLTPLIKLDELDLSG----NHLSAIRPG 225

Query: 610 AFSKLQVLRIL 620
           +F  L  L+ L
Sbjct: 226 SFQGLMHLQKL 236

>3zyj_A Leucine-rich repeat-containing protein 4C; cell adhesion, synapse; HET: NAG BMA MAN; 3.25A {Homo sapiens} Length = 440

 Score = 66.3 bits (162), Expect = 1e-11
 Identities = 40/197 (20%), Positives = 74/197 (37%), Gaps = 32/197 (16%)

Query: 516 PHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGI-STLVSLEHLDLSGT 574
            +   L L +N +++I  + F+ +  L +  +S NH +  +  G  + L +L  L+L   
Sbjct: 64  TNTRLLNLHENQIQIIKVNSFKHLRHLEILQLSRNH-IRTIEIGAFNGLANLNTLELFDN 122

Query: 575 AITHLPIE-LQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRILKSNVLFGGHQFLV 633
            +T +P      L  LK L L      N    +   AF+++  LR L             
Sbjct: 123 RLTTIPNGAFVYLSKLKELWLRN----NPIESIPSYAFNRIPSLRRL------------- 165

Query: 634 EELMGMKHLMALTI-TLKSWEALQELLIS-------QELQRCT--QSLFLRCFNDSKSLD 683
            +L  +K L  ++    +    L+ L ++         L        L L   N   ++ 
Sbjct: 166 -DLGELKRLSYISEGAFEGLSNLRYLNLAMCNLREIPNLTPLIKLDELDLS-GNHLSAIR 223

Query: 684 IFCLACLHNLNKLYVAG 700
                 L +L KL++  
Sbjct: 224 PGSFQGLMHLQKLWMIQ 240

>3zyj_A Leucine-rich repeat-containing protein 4C; cell adhesion, synapse; HET: NAG BMA MAN; 3.25A {Homo sapiens} Length = 440

 Score = 64.0 bits (156), Expect = 9e-11
 Identities = 24/102 (23%), Positives = 43/102 (42%), Gaps = 1/102 (0%)

Query: 494 RNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLL 553
            N+R ++L    +  +        L  L LS N L  I    FQ +  L+   M  + + 
Sbjct: 185 SNLRYLNLAMCNLREIPNLTPLIKLDELDLSGNHLSAIRPGSFQGLMHLQKLWMIQSQIQ 244

Query: 554 WKLPSGISTLVSLEHLDLSGTAITHLPIE-LQKLVNLKCLNL 594
               +    L SL  ++L+   +T LP +    L +L+ ++L
Sbjct: 245 VIERNAFDNLQSLVEINLAHNNLTLLPHDLFTPLHHLERIHL 286

>3zyj_A Leucine-rich repeat-containing protein 4C; cell adhesion, synapse; HET: NAG BMA MAN; 3.25A {Homo sapiens} Length = 440

 Score = 47.1 bits (112), Expect = 2e-05
 Identities = 12/72 (16%), Positives = 35/72 (48%), Gaps = 8/72 (11%)

Query: 491 QNWRNVRRMSLMKNKIENLSETP--TCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMS 548
           Q   +++++ +++++I+ +          L+ + L+ N+L ++  D F  +  L   ++ 
Sbjct: 228 QGLMHLQKLWMIQSQIQVIERNAFDNLQSLVEINLAHNNLTLLPHDLFTPLHHLERIHLH 287

Query: 549 NN------HLLW 554
           +N       +LW
Sbjct: 288 HNPWNCNCDILW 299

>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 = 75.4 bits (186), Expect = 2e-14
 Identities = 76/354 (21%), Positives = 136/354 (38%), Gaps = 56/354 (15%)

Query: 484 LTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLR 543
           +T+     +   V  +   +  I+++       +L  +  S+N L  I     + +  L 
Sbjct: 36  VTDTVSQTDLDQVTTLQADRLGIKSIDGVEYLNNLTQINFSNNQLTDI--TPLKNLTKLV 93

Query: 544 VFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAITHLPIELQKLVNLKCLNLEYMYNLNQF 603
              M+NN +     + ++ L +L  L L    IT +   L+ L NL  L L      N  
Sbjct: 94  DILMNNNQI--ADITPLANLTNLTGLTLFNNQITDID-PLKNLTNLNRLELSS----NTI 146

Query: 604 PRLVMSAFSKLQVLRILKSNVLFGGHQFLVEELMGMKHLMALTIT---LKSWEALQELLI 660
             +  SA S L  L+ L     FG     ++ L  +  L  L I+   +     L +L  
Sbjct: 147 SDI--SALSGLTSLQQL----SFGNQVTDLKPLANLTTLERLDISSNKVSDISVLAKL-- 198

Query: 661 SQELQRCTQSLFLRCFNDSKSLDIFCLACLHNLNKLYVAGRKHLEDFQMTVQRSSVNQLA 720
              L    +SL      +++  DI  L  L NL++L + G   L+D        ++  L 
Sbjct: 199 -TNL----ESLIA---TNNQISDITPLGILTNLDELSLNG-NQLKDI------GTLASL- 242

Query: 721 RGFHSLHTVKVGFCFKLKDLTWLVFAPSLKSIVVLSCCNMEQIIKAEKLSQLHHHPERKK 780
               +L  + +    ++ +L  L     L  +  L    +  I     L+ L        
Sbjct: 243 ---TNLTDLDLANN-QISNLAPLSGLTKLTEL-KLGANQISNISPLAGLTAL-------T 290

Query: 781 SVFA---KLQFLS-LENLRNLCCINWEALAFPNLKEIR-VEGCPKLFKLPLDSN 829
           ++     +L+ +S + NL+NL  +    L F N+ +I  V    KL +L   +N
Sbjct: 291 NLELNENQLEDISPISNLKNLTYLT---LYFNNISDISPVSSLTKLQRLFFYNN 341

>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 = 75.0 bits (185), Expect = 4e-14
 Identities = 27/137 (19%), Positives = 55/137 (40%), Gaps = 11/137 (8%)

Query: 484 LTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLR 543
           ++    +     +  + L  N+I N+S       L +L L++N L+ I       + +L 
Sbjct: 255 ISNLAPLSGLTKLTELKLGANQISNISPLAGLTALTNLELNENQLEDI--SPISNLKNLT 312

Query: 544 VFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAITHLPIELQKLVNLKCLNLEYMYNLNQF 603
              +  N++     S +S+L  L+ L      ++ +   L  L N+  L+  +    NQ 
Sbjct: 313 YLTLYFNNI--SDISPVSSLTKLQRLFFYNNKVSDVS-SLANLTNINWLSAGH----NQI 365

Query: 604 PRLVMSAFSKLQVLRIL 620
             L  +  + L  +  L
Sbjct: 366 SDL--TPLANLTRITQL 380

>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 = 71.9 bits (177), Expect = 3e-13
 Identities = 45/255 (17%), Positives = 93/255 (36%), Gaps = 52/255 (20%)

Query: 483 GLTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSL 542
           G+     ++   N+ +++   N++ +++       L+ + +++N +  I       + +L
Sbjct: 57  GIKSIDGVEYLNNLTQINFSNNQLTDITPLKNLTKLVDILMNNNQIADITP--LANLTNL 114

Query: 543 RVFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAITHLPIELQKLVNLKCLNL-------- 594
               + NN +       +  L +L  L+LS   I+ +   L  L +L+ L+         
Sbjct: 115 TGLTLFNNQI--TDIDPLKNLTNLNRLELSSNTISDIS-ALSGLTSLQQLSFGNQVTDLK 171

Query: 595 --EYMYNL-------NQFPRLVMSAFSKLQVLRIL--KSNVLFGGHQFLVEELMGMKHLM 643
               +  L       N+   +  S  +KL  L  L   +N +       +  L  + +L 
Sbjct: 172 PLANLTTLERLDISSNKVSDI--SVLAKLTNLESLIATNNQISD-----ITPLGILTNLD 224

Query: 644 ALTI---------TLKSWEALQELLISQ-------ELQRCT--QSLFLRCFNDSKSLDIF 685
            L++         TL S   L +L ++         L   T    L L     ++  +I 
Sbjct: 225 ELSLNGNQLKDIGTLASLTNLTDLDLANNQISNLAPLSGLTKLTELKL---GANQISNIS 281

Query: 686 CLACLHNLNKLYVAG 700
            LA L  L  L +  
Sbjct: 282 PLAGLTALTNLELNE 296

>1o6v_A Internalin A; bacterial infection, extracellular recognition, cell WALL attached, leucine rich repeat; 1.5A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 PDB: 1o6s_A* 1o6t_A 2omz_A 2omy_A 2omw_A 2omv_A 2omt_A 2omx_A 2omu_A Length = 466

 Score = 71.5 bits (176), Expect = 4e-13
 Identities = 23/136 (16%), Positives = 51/136 (37%), Gaps = 6/136 (4%)

Query: 484 LTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLR 543
           L +   I N +N+  ++L  N I ++S   +   L  LF  +N +  +       + ++ 
Sbjct: 299 LEDISPISNLKNLTYLTLYFNNISDISPVSSLTKLQRLFFYNNKVSDV--SSLANLTNIN 356

Query: 544 VFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAITHLPIELQKLVNLKCLNLEYMYNLNQF 603
             +  +N +     + ++ L  +  L L+  A T+ P+  +  V++   N          
Sbjct: 357 WLSAGHNQI--SDLTPLANLTRITQLGLNDQAWTNAPVNYKANVSI--PNTVKNVTGALI 412

Query: 604 PRLVMSAFSKLQVLRI 619
               +S         I
Sbjct: 413 APATISDGGSYTEPDI 428

>1o6v_A Internalin A; bacterial infection, extracellular recognition, cell WALL attached, leucine rich repeat; 1.5A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 PDB: 1o6s_A* 1o6t_A 2omz_A 2omy_A 2omw_A 2omv_A 2omt_A 2omx_A 2omu_A Length = 466

 Score = 52.7 bits (127), Expect = 4e-07
 Identities = 15/97 (15%), Positives = 36/97 (37%), Gaps = 2/97 (2%)

Query: 484 LTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLR 543
           +++   + N  N+  +S   N+I +L+       +  L L+D +      ++   +    
Sbjct: 343 VSDVSSLANLTNINWLSAGHNQISDLTPLANLTRITQLGLNDQAWTNAPVNYKANVSIPN 402

Query: 544 VFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAITHLP 580
                   L+   P+ IS   S    D++    ++  
Sbjct: 403 TVKNVTGALI--APATISDGGSYTEPDITWNLPSYTN 437

>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 = 75.2 bits (185), Expect = 3e-14
 Identities = 32/130 (24%), Positives = 55/130 (42%), Gaps = 8/130 (6%)

Query: 494 RNVRRMSLMKNKIENL-SETPTC-PHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNH 551
            ++  + L  N +  + S        L  L+L +N ++ I    F  +PSL   ++    
Sbjct: 123 ASLNTLELFDNWLTVIPSGAFEYLSKLRELWLRNNPIESIPSYAFNRVPSLMRLDLGELK 182

Query: 552 LLWKLPSGI-STLVSLEHLDLSGTAITHLPIELQKLVNLKCLNLEYMYNLNQFPRLVMSA 610
            L  +  G    L +L++L+L    I  +P  L  LV L+ L +      N FP +   +
Sbjct: 183 KLEYISEGAFEGLFNLKYLNLGMCNIKDMP-NLTPLVGLEELEMSG----NHFPEIRPGS 237

Query: 611 FSKLQVLRIL 620
           F  L  L+ L
Sbjct: 238 FHGLSSLKKL 247

>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 = 66.3 bits (162), Expect = 2e-11
 Identities = 41/191 (21%), Positives = 77/191 (40%), Gaps = 20/191 (10%)

Query: 516 PHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGI-STLVSLEHLDLSGT 574
            +   L L +N+++MI  D F+ +  L V  +  N  + ++  G  + L SL  L+L   
Sbjct: 75  SNTRYLNLMENNIQMIQADTFRHLHHLEVLQLGRNS-IRQIEVGAFNGLASLNTLELFDN 133

Query: 575 AITHLPIE-LQKLVNLKCLNLEYMYNLNQFPRLVMSAFS---KLQVLRILKSNVLFGGHQ 630
            +T +P    + L  L+ L L      N    +   AF+    L  L + +   L    +
Sbjct: 134 WLTVIPSGAFEYLSKLRELWLRN----NPIESIPSYAFNRVPSLMRLDLGELKKL----E 185

Query: 631 FLVEE-LMGMKHLMALTITLKSWEALQELLISQELQRCTQSLFLRCFNDSKSLDIFCLAC 689
           ++ E    G+ +L  L + + + + +  L     L+     L +   N    +       
Sbjct: 186 YISEGAFEGLFNLKYLNLGMCNIKDMPNLTPLVGLEE----LEMS-GNHFPEIRPGSFHG 240

Query: 690 LHNLNKLYVAG 700
           L +L KL+V  
Sbjct: 241 LSSLKKLWVMN 251

>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 = 62.1 bits (151), Expect = 4e-10
 Identities = 23/101 (22%), Positives = 43/101 (42%), Gaps = 1/101 (0%)

Query: 495 NVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLW 554
           N++ ++L    I+++        L  L +S N    I    F  + SL+   + N+ +  
Sbjct: 197 NLKYLNLGMCNIKDMPNLTPLVGLEELEMSGNHFPEIRPGSFHGLSSLKKLWVMNSQVSL 256

Query: 555 KLPSGISTLVSLEHLDLSGTAITHLPIE-LQKLVNLKCLNL 594
              +    L SL  L+L+   ++ LP +    L  L  L+L
Sbjct: 257 IERNAFDGLASLVELNLAHNNLSSLPHDLFTPLRYLVELHL 297

>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 = 48.2 bits (115), Expect = 8e-06
 Identities = 12/72 (16%), Positives = 31/72 (43%), Gaps = 8/72 (11%)

Query: 491 QNWRNVRRMSLMKNKIENLSETP--TCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMS 548
               +++++ +M +++  +          L+ L L+ N+L  +  D F  +  L   ++ 
Sbjct: 239 HGLSSLKKLWVMNSQVSLIERNAFDGLASLVELNLAHNNLSSLPHDLFTPLRYLVELHLH 298

Query: 549 NN------HLLW 554
           +N       +LW
Sbjct: 299 HNPWNCDCDILW 310

>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 = 75.1 bits (185), Expect = 3e-14
 Identities = 53/382 (13%), Positives = 104/382 (27%), Gaps = 78/382 (20%)

Query: 473 KENFLVHAGLGLTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIA 532
                    +  T+    +    +  +    + I +++       L  L  + N++  + 
Sbjct: 21  ASEVAAAFEMQATDTISEEQLATLTSLDCHNSSITDMTGIEKLTGLTKLICTSNNITTL- 79

Query: 533 GDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAITHLPIELQKLVNLKCL 592
            D  Q   +L      +N L   L   ++ L  L +L+     +T L +   +   L  L
Sbjct: 80  -DLSQ-NTNLTYLACDSNKLT-NLD--VTPLTKLTYLNCDTNKLTKLDV--SQNPLLTYL 132

Query: 593 NLEYMYNLNQFPRLVMSAFSKLQVLRILKSNVLFGGHQFLVEELMGMKHLMAL------- 645
           N       N    + +S  ++L  L    +  +         ++     L  L       
Sbjct: 133 NCAR----NTLTEIDVSHNTQLTELDCHLNKKI------TKLDVTPQTQLTTLDCSFNKI 182

Query: 646 -TITLKSWEALQELLISQ------ELQRCT--QSLFLRCFNDSKSLDIFCLACLHNLNKL 696
             + +   + L  L          +L +      L     N    +D+     L  L   
Sbjct: 183 TELDVSQNKLLNRLNCDTNNITKLDLNQNIQLTFLDCS-SNKLTEIDV---TPLTQLTYF 238

Query: 697 YVAGRKHLEDFQMTVQRSSVNQL----ARGFHSLHTVKVGFCFKLKDLTWLVFAPSLKSI 752
                             SVN L          L T+       L ++           +
Sbjct: 239 DC----------------SVNPLTELDVSTLSKLTTLHCIQT-DLLEID----LTHNTQL 277

Query: 753 VVLSCCNMEQIIKAE--KLSQLHHHPERKKSVFA---KLQFLSLENLRNLCCINWEALAF 807
           +        +I + +    +QL         +      +  L L     L  +    L  
Sbjct: 278 IYFQAEGCRKIKELDVTHNTQL-------YLLDCQAAGITELDLSQNPKLVYLY---LNN 327

Query: 808 PNLKEIRVEGCPKLFKLPLDSN 829
             L E+ V    KL  L   + 
Sbjct: 328 TELTELDVSHNTKLKSLSCVNA 349

>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 = 3e-14
 Identities = 23/142 (16%), Positives = 46/142 (32%), Gaps = 6/142 (4%)

Query: 484 LTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLR 543
           +  A    +   +  ++L  N I ++        L +L LS N L  +  +F      + 
Sbjct: 159 VNFAELAASSDTLEHLNLQYNFIYDVKGQVVFAKLKTLDLSSNKLAFMGPEFQS-AAGVT 217

Query: 544 VFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAITHLPIELQKLVNLKCLNLEYMYNLNQF 603
             ++ NN L+  +   +    +LEH DL G       +      N +   +         
Sbjct: 218 WISLRNNKLV-LIEKALRFSQNLEHFDLRGNGFHCGTLRDFFSKNQRVQTV----AKQTV 272

Query: 604 PRLVMSAFSKLQVLRILKSNVL 625
            +L      +  V  +      
Sbjct: 273 KKLTGQNEEECTVPTLGHYGAY 294

>3o53_A Protein LRIM1, AGAP006348-PA; leucine-rich repeat, protein binding; HET: NAG; 2.00A {Anopheles gambiae} Length = 317

 Score = 72.7 bits (179), Expect = 5e-14
 Identities = 25/138 (18%), Positives = 53/138 (38%), Gaps = 13/138 (9%)

Query: 490 IQNWRNVRRMSLMKNKIENLSETP--TCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNM 547
            QN    +   +  + ++    +   +  ++  L LS N L  I+         L + N+
Sbjct: 6   KQNGNRYKIEKVTDSSLKQALASLRQSAWNVKELDLSGNPLSQISAADLAPFTKLELLNL 65

Query: 548 SNNHLLWKLPSGISTLVSLEHLDLSGTAITHLPIELQKLVNLKCLNLEYMYNLNQFPRLV 607
           S+N L  +    + +L +L  LDL+   +  L        +++ L+       N   R+ 
Sbjct: 66  SSNVLY-ETLD-LESLSTLRTLDLNNNYVQELL----VGPSIETLHAAN----NNISRVS 115

Query: 608 MSAFSKLQVLRILKSNVL 625
            S     + +  L +N +
Sbjct: 116 CSRGQGKKNIY-LANNKI 132

>3o53_A Protein LRIM1, AGAP006348-PA; leucine-rich repeat, protein binding; HET: NAG; 2.00A {Anopheles gambiae} Length = 317

 Score = 72.3 bits (178), Expect = 9e-14
 Identities = 24/141 (17%), Positives = 52/141 (36%), Gaps = 11/141 (7%)

Query: 489 EIQNWRNVRRMSLMKNKIENLSE---TPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVF 545
           +      V+ + L  N+I+ ++      +   L  L L  N +  + G        L+  
Sbjct: 139 DEGCRSRVQYLDLKLNEIDTVNFAELAASSDTLEHLNLQYNFIYDVKGQVV--FAKLKTL 196

Query: 546 NMSNNHLLWKLPSGISTLVSLEHLDLSGTAITHLPIELQKLVNLKCLNLEYMYNLNQFPR 605
           ++S+N L   +     +   +  + L    +  +   L+   NL+  +L      N F  
Sbjct: 197 DLSSNKLA-FMGPEFQSAAGVTWISLRNNKLVLIEKALRFSQNLEHFDLRG----NGFHC 251

Query: 606 L-VMSAFSKLQVLRILKSNVL 625
             +   FSK Q ++ +    +
Sbjct: 252 GTLRDFFSKNQRVQTVAKQTV 272

>2ft3_A Biglycan; proteoglycan, dimer interface, structural protein, signaling; HET: NAG FLC; 3.40A {Bos taurus} Length = 332

 Score = 73.5 bits (181), Expect = 3e-14
 Identities = 28/136 (20%), Positives = 53/136 (38%), Gaps = 12/136 (8%)

Query: 494 RNVRRMSLMKNKIENLSET--PTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNH 551
             +  + L  NKI+ +          L  L L  N ++MI      F+P+LR  ++ NN 
Sbjct: 193 ETLNELHLDHNKIQAIELEDLLRYSKLYRLGLGHNQIRMIENGSLSFLPTLRELHLDNNK 252

Query: 552 LLWKLPSGISTLVSLEHLDLSGTAITHLPIE-------LQKLVNLKCLNLEYMYNLNQFP 604
           L  ++P+G+  L  L+ + L    IT + +          K      ++L    N   + 
Sbjct: 253 LS-RVPAGLPDLKLLQVVYLHTNNITKVGVNDFCPVGFGVKRAYYNGISLF--NNPVPYW 309

Query: 605 RLVMSAFSKLQVLRIL 620
            +  + F  +     +
Sbjct: 310 EVQPATFRCVTDRLAI 325

>2ft3_A Biglycan; proteoglycan, dimer interface, structural protein, signaling; HET: NAG FLC; 3.40A {Bos taurus} Length = 332

 Score = 70.8 bits (174), Expect = 3e-13
 Identities = 25/129 (19%), Positives = 53/129 (41%), Gaps = 10/129 (7%)

Query: 494 RNVRRMSLMKNKIENL-SETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHL 552
           R ++++ + KN +  +    P    L+ L + DN ++ +    F  + ++    M  N L
Sbjct: 102 RKLQKLYISKNHLVEIPPNLP--SSLVELRIHDNRIRKVPKGVFSGLRNMNCIEMGGNPL 159

Query: 553 -LWKLPSGISTLVSLEHLDLSGTAITHLPIELQKLVNLKCLNLEYMYNLNQFPRLVMSAF 611
                  G    + L +L +S   +T +P +L     L  L+L++    N+   + +   
Sbjct: 160 ENSGFEPGAFDGLKLNYLRISEAKLTGIPKDL--PETLNELHLDH----NKIQAIELEDL 213

Query: 612 SKLQVLRIL 620
            +   L  L
Sbjct: 214 LRYSKLYRL 222

>2ft3_A Biglycan; proteoglycan, dimer interface, structural protein, signaling; HET: NAG FLC; 3.40A {Bos taurus} Length = 332

 Score = 68.5 bits (168), Expect = 2e-12
 Identities = 38/151 (25%), Positives = 58/151 (38%), Gaps = 14/151 (9%)

Query: 481 GLGLTEAPE-IQNWRNVRRMSLMKNKIENLSET--PTCPHLLSLFLSDNSLKMIAGDFFQ 537
            LGL   P+ I    +   + L  N I  L +       HL +L L +N +  I    F 
Sbjct: 42  DLGLKAVPKEIS--PDTTLLDLQNNDISELRKDDFKGLQHLYALVLVNNKISKIHEKAFS 99

Query: 538 FMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAITHLPIE-LQKLVNLKCLNLEY 596
            +  L+   +S NHL+ ++P       SL  L +    I  +P      L N+ C+ +  
Sbjct: 100 PLRKLQKLYISKNHLV-EIPPN--LPSSLVELRIHDNRIRKVPKGVFSGLRNMNCIEMG- 155

Query: 597 MYNLNQFPRLVMSAFS--KLQVLRILKSNVL 625
             N  +       AF   KL  LR +    L
Sbjct: 156 -GNPLENSGFEPGAFDGLKLNYLR-ISEAKL 184

>4ecn_A Leucine-rich repeat protein; leucine-rich repeats, DUF4458 domain, protein binding, extra protein, structural genomics; 2.80A {Bacteroides thetaiotaomicron} Length = 876

 Score = 75.7 bits (186), Expect = 3e-14
 Identities = 27/160 (16%), Positives = 57/160 (35%), Gaps = 14/160 (8%)

Query: 474 ENFLVHAGLGLTEAPEIQNWRNVRRMSLMKNKIENL--SETPTCPHLLSLFLSDNSLKMI 531
            N +   G  ++ + +     N   ++L  N+I+        T   + ++ LS+N +  I
Sbjct: 653 YNKIGSEGRNISCSMDDYKGINASTVTLSYNEIQKFPTELFATGSPISTIILSNNLMTSI 712

Query: 532 -------AGDFFQFMPSLRVFNMSNNHLLWKLPSGI--STLVSLEHLDLSGTAITHLPIE 582
                      ++    L   ++  N L   L      +TL  L ++D+S    +  P +
Sbjct: 713 PENSLKPKDGNYKNTYLLTTIDLRFNKLT-SLSDDFRATTLPYLSNMDVSYNCFSSFPTQ 771

Query: 583 LQKLVNLKCLNLEYMYNL--NQFPRLVMSAFSKLQVLRIL 620
                 LK   + +  +   N+  R   +  +    L  L
Sbjct: 772 PLNSSQLKAFGIRHQRDAEGNRILRQWPTGITTCPSLIQL 811

>4ecn_A Leucine-rich repeat protein; leucine-rich repeats, DUF4458 domain, protein binding, extra protein, structural genomics; 2.80A {Bacteroides thetaiotaomicron} Length = 876

 Score = 73.0 bits (179), Expect = 3e-13
 Identities = 26/142 (18%), Positives = 51/142 (35%), Gaps = 16/142 (11%)

Query: 488 PEIQNWRNVRRMSLMKNKIENLSETPTC---PHLLSLFLSDNSLKMIAGDFFQFMPSLRV 544
              +N   +  + L  NK+ +LS+       P+L ++ +S N               L+ 
Sbjct: 722 GNYKNTYLLTTIDLRFNKLTSLSDDFRATTLPYLSNMDVSYNCFSSFPTQPLN-SSQLKA 780

Query: 545 FN------MSNNHLLWKLPSGISTLVSLEHLDLSGTAITHLPIELQKLVNLKCLNLEYMY 598
           F          N +L + P+GI+T  SL  L +    I  +  +L     L  L++    
Sbjct: 781 FGIRHQRDAEGNRILRQWPTGITTCPSLIQLQIGSNDIRKVDEKL--TPQLYILDIAD-- 836

Query: 599 NLNQFPRLVMSAFSKLQVLRIL 620
             N    + +++        + 
Sbjct: 837 --NPNISIDVTSVCPYIEAGMY 856

>4ecn_A Leucine-rich repeat protein; leucine-rich repeats, DUF4458 domain, protein binding, extra protein, structural genomics; 2.80A {Bacteroides thetaiotaomicron} Length = 876

 Score = 70.7 bits (173), Expect = 1e-12
 Identities = 20/160 (12%), Positives = 44/160 (27%), Gaps = 19/160 (11%)

Query: 473 KENFLVHAGLGLTEAP-EIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMI 531
           K+  + +    +T     IQ    ++ +    +                           
Sbjct: 426 KDTQIGNLTNRITFISKAIQRLTKLQIIYFANSPFTYD---NIAVDWEDANSDYAKQYEN 482

Query: 532 AGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSG----------TAITHLPI 581
               +  +  L    + N   + +LP  +  L  L+ L+++              T L  
Sbjct: 483 EELSWSNLKDLTDVELYNCPNMTQLPDFLYDLPELQSLNIACNRGISAAQLKADWTRLAD 542

Query: 582 ELQKLVNLKCLNLEYMYNLNQFPRLVMSA-FSKLQVLRIL 620
           +      ++   + Y    N       SA   K+  L +L
Sbjct: 543 DEDTGPKIQIFYMGY----NNLEEFPASASLQKMVKLGLL 578

>4ecn_A Leucine-rich repeat protein; leucine-rich repeats, DUF4458 domain, protein binding, extra protein, structural genomics; 2.80A {Bacteroides thetaiotaomicron} Length = 876

 Score = 58.3 bits (141), Expect = 9e-09
 Identities = 44/419 (10%), Positives = 97/419 (23%), Gaps = 127/419 (30%)

Query: 488 PEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLF--LSDNSLKM-IAGDFFQFMPSLRV 544
             I     ++ +S   +             L         + ++M     F  +   L +
Sbjct: 341 DAIGQLTELKVLSFGTHSETVSGRLFGDEELTPDMSEERKHRIRMHYKKMFLDYDQRLNL 400

Query: 545 FNMSNNHL----------------------------LWKLPSGISTLVSLEHLDLSGTAI 576
            ++  + +                            +  +   I  L  L+ +  + +  
Sbjct: 401 SDLLQDAINRNPEMKPIKKDSRISLKDTQIGNLTNRITFISKAIQRLTKLQIIYFANSPF 460

Query: 577 THLPIE--------------------LQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQV 616
           T+  I                        L +L  + L    N+ Q P   +    +LQ 
Sbjct: 461 TYDNIAVDWEDANSDYAKQYENEELSWSNLKDLTDVELYNCPNMTQLPD-FLYDLPELQS 519

Query: 617 L-----RILKSNVLFGGHQFLVEELMGMKHLMALTITLKSWEALQELLISQELQRCT--Q 669
           L     R + +  L      L ++      +    +    +  L+E   S  LQ+     
Sbjct: 520 LNIACNRGISAAQLKADWTRLADDEDTGPKIQIFYM---GYNNLEEFPASASLQKMVKLG 576

Query: 670 SLFLRCFNDSKSLDIFCLACLHNLNKLYVAGRKHLEDFQMTVQRSSVNQLARGFHSLHTV 729
            L     N  + L+ F       L  L +                  NQ       +  +
Sbjct: 577 LLDCV-HNKVRHLEAFG--TNVKLTDLKLDY----------------NQ-------IEEI 610

Query: 730 KVGFCFKLKDLTWLVFAPSLKSIVVLSCCNMEQIIKAEKLSQLHHHPERKKSVFAKLQFL 789
              FC     +  L            S   ++ I        ++            +  +
Sbjct: 611 PEDFCAFTDQVEGL----------GFSHNKLKYIPNIFNAKSVYV-----------MGSV 649

Query: 790 SLEN-----LRNLCCINWEALAFPNLKEIRVEG-------------CPKLFKLPLDSNS 830
                           + +     N   + +                  +  + L +N 
Sbjct: 650 DFSYNKIGSEGRNISCSMDDYKGINASTVTLSYNEIQKFPTELFATGSPISTIILSNNL 708

>4ecn_A Leucine-rich repeat protein; leucine-rich repeats, DUF4458 domain, protein binding, extra protein, structural genomics; 2.80A {Bacteroides thetaiotaomicron} Length = 876

 Score = 48.7 bits (116), Expect = 7e-06
 Identities = 50/346 (14%), Positives = 92/346 (26%), Gaps = 91/346 (26%)

Query: 515 CPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSG--------------- 559
              +  L L+    K    D    +  L+V +   +                        
Sbjct: 322 NGRVTGLSLAGFGAKGRVPDAIGQLTELKVLSFGTHSETVSGRLFGDEELTPDMSEERKH 381

Query: 560 ----------ISTLVSLEHLDLSGTAITHLPIELQKLVNLKCLNLEYMYNLNQFPRLVM- 608
                     +     L   DL   AI   P E++ +     ++L+     N   R+   
Sbjct: 382 RIRMHYKKMFLDYDQRLNLSDLLQDAINRNP-EMKPIKKDSRISLKDTQIGNLTNRITFI 440

Query: 609 -SAFSKLQVLRILK--SNVLFGGHQFLVEELMGMKHLMALTITLKSWEALQELLISQELQ 665
             A  +L  L+I+   ++     +  +  E     +         SW  L++L       
Sbjct: 441 SKAIQRLTKLQIIYFANSPFTYDNIAVDWEDANSDYAKQYENEELSWSNLKDL------- 493

Query: 666 RCTQSLFLRCFNDSKSLDIFCLACLHNLNKLYVAGRKHLEDFQMTVQRSSVNQLARGFHS 725
                + L    +   L    L  L  L  L +A                 N+      S
Sbjct: 494 ---TDVELYNCPNMTQLPD-FLYDLPELQSLNIAC----------------NRG----IS 529

Query: 726 LHTVKVGFCFKLKDLTWLVFAPSLKSIVVLSCCNMEQIIKAEKLSQLHHHPERKKSVFAK 785
              +K  +     D       P ++    +   N+E+   +  L ++            K
Sbjct: 530 AAQLKADWTRLADDEDTG---PKIQIF-YMGYNNLEEFPASASLQKMV-----------K 574

Query: 786 LQFLSLENLRNLCCINWEALAFPNLKEIR-VEGCPKLFKLPLDSNS 830
           L  L   +  N             ++ +       KL  L LD N 
Sbjct: 575 LGLLDCVH--N------------KVRHLEAFGTNVKLTDLKLDYNQ 606

>4ecn_A Leucine-rich repeat protein; leucine-rich repeats, DUF4458 domain, protein binding, extra protein, structural genomics; 2.80A {Bacteroides thetaiotaomicron} Length = 876

 Score = 47.6 bits (113), Expect = 2e-05
 Identities = 37/303 (12%), Positives = 81/303 (26%), Gaps = 38/303 (12%)

Query: 533 GDFFQFMPSLRVFNMSNNHLLWKLPSGIS--TLVSLEHLDLSGTAIT-HLPIELQKLVNL 589
                       +N +    +W    G+       +  L L+G      +P  + +L  L
Sbjct: 290 SGTINNTIHSLNWNFNKELDMWGDQPGVDLDNNGRVTGLSLAGFGAKGRVPDAIGQLTEL 349

Query: 590 KCLNLEYMYNLNQFPRLVMSAFSKLQVLRILKSNVLFGGHQFLVEELMGMKHLMALTITL 649
           K L+    ++     RL         +    K  +     +  ++    +     L   +
Sbjct: 350 KVLSFGT-HSETVSGRLFGDEELTPDMSEERKHRIRMHYKKMFLDYDQRLNLSDLLQDAI 408

Query: 650 KSWEALQELLISQELQRCTQSLFLRCFNDSKSLDIFCLACLHNLNKLYVAGRKHLEDFQM 709
                ++ +     +     +      N    +    +  L  L  +Y A         +
Sbjct: 409 NRNPEMKPIKKDSRIS-LKDTQIGNLTNRITFIS-KAIQRLTKLQIIYFANSP-FTYDNI 465

Query: 710 TVQRSSVNQLARGFHSLHTVKVGFCFKLKDLTWLVFAPSLKSIVVLSCCNMEQIIKAEKL 769
            V     N      +    +       LKDLT +           L  C     +  + L
Sbjct: 466 AVDWEDANSDYAKQYENEELSWS---NLKDLTDV----------ELYNCPNMTQL-PDFL 511

Query: 770 SQLHHHPERKKSVFAKLQFLSLE--NLRNLCCINWEALAFPNLKEIRVEGCPKLFKLPLD 827
             L            +LQ L++      +   +  +     +      +  PK+    + 
Sbjct: 512 YDLP-----------ELQSLNIACNRGISAAQLKADWTRLADD----EDTGPKIQIFYMG 556

Query: 828 SNS 830
            N+
Sbjct: 557 YNN 559

>2xot_A Amphoterin-induced protein 1; cell adhesion, neuronal protein, neurite growth regulation; HET: NAG BMA; 2.00A {Mus musculus} Length = 361

 Score = 73.3 bits (180), Expect = 5e-14
 Identities = 41/178 (23%), Positives = 67/178 (37%), Gaps = 15/178 (8%)

Query: 480 AGLGLTEAPE-IQNWRNVRRMSLMKNKIENLSETPTC---PHLLSLFLSDNSLKMIAGDF 535
           +   L   P+ +        + L  N +  L    T     +L SL LS N L  I+ + 
Sbjct: 26  SKQQLPNVPQSLP--SYTALLDLSHNNLSRLRAEWTPTRLTNLHSLLLSHNHLNFISSEA 83

Query: 536 FQFMPSLRVFNMSNNHLLWKLPSGI-STLVSLEHLDLSGTAITHLPIE-LQKLVNLKCLN 593
           F  +P+LR  ++S+NHL   L   + S L +LE L L    I  +     + +  L+ L 
Sbjct: 84  FVPVPNLRYLDLSSNHLH-TLDEFLFSDLQALEVLLLYNNHIVVVDRNAFEDMAQLQKLY 142

Query: 594 LEYMYNLNQFPRLVMSAFSKLQVLRILKSNVLFGG--HQFLVEELMGMKHLMALTITL 649
           L      NQ  R  +        L  L    L      +  + +L  +   +   + L
Sbjct: 143 LSQ----NQISRFPVELIKDGNKLPKLMLLDLSSNKLKKLPLTDLQKLPAWVKNGLYL 196

>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 = 74.7 bits (184), Expect = 6e-14
 Identities = 30/152 (19%), Positives = 55/152 (36%), Gaps = 16/152 (10%)

Query: 478 VHAGLGLTEAPEIQNWRNVRRMSLMKNKIENLSETP---TCPHLLSLFLSDNSLKMIAGD 534
           +       E    +N   +  + L  NK+  LS+     T P+L+ + LS NS       
Sbjct: 472 IPKNSLKDENENFKNTYLLTSIDLRFNKLTKLSDDFRATTLPYLVGIDLSYNSFSKFPTQ 531

Query: 535 FFQFMPSLRVFNMSN------NHLLWKLPSGISTLVSLEHLDLSGTAITHLPIELQKLVN 588
                 +L+ F + N      N  L + P GI+   SL  L +    I  +  ++    N
Sbjct: 532 PLN-SSTLKGFGIRNQRDAQGNRTLREWPEGITLCPSLTQLQIGSNDIRKVNEKI--TPN 588

Query: 589 LKCLNLEYMYNLNQFPRLVMSAFSKLQVLRIL 620
           +  L+++     N    + +S         + 
Sbjct: 589 ISVLDIKD----NPNISIDLSYVCPYIEAGMY 616

>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 = 74.3 bits (183), Expect = 8e-14
 Identities = 26/149 (17%), Positives = 51/149 (34%), Gaps = 16/149 (10%)

Query: 483 GLTEAPEIQNWRNVRRMSLMKNKIENLSETPT-CPHLLSLFLSDNSLKMIAGDFFQFMPS 541
                  +Q  + +  +  + N++E           L SL L+ N +  I  +F  F   
Sbjct: 319 TFPVETSLQKMKKLGMLECLYNQLEGKLPAFGSEIKLASLNLAYNQITEIPANFCGFTEQ 378

Query: 542 LRVFNMSNNHLLWKLPS--GISTLVSLEHLDLSG--------TAITHLPIELQKLVNLKC 591
           +   + ++N L   +P+     ++  +  +D S              L     K +N+  
Sbjct: 379 VENLSFAHNKLK-YIPNIFDAKSVSVMSAIDFSYNEIGSVDGKNFDPLDPTPFKGINVSS 437

Query: 592 LNLEYMYNLNQFPRLVMSAFSKLQVLRIL 620
           +NL      NQ  +     FS    L  +
Sbjct: 438 INLSN----NQISKFPKELFSTGSPLSSI 462

>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 = 8e-11
 Identities = 17/147 (11%), Positives = 44/147 (29%), Gaps = 21/147 (14%)

Query: 488 PEIQNWRNVRRMSLMKNKIENLSET-PT----CPHLLSLFLSDNSLKMIAGDFFQF---- 538
            +  N +++  + +            PT     P +  + ++ N           +    
Sbjct: 243 LKWDNLKDLTDVEVYNC---PNLTKLPTFLKALPEMQLINVACNRGISGEQLKDDWQALA 299

Query: 539 ----MPSLRVFNMSNNHLLW-KLPSGISTLVSLEHLDLSGTAITHLPIELQKLVNLKCLN 593
                  +++  +  N+L    + + +  +  L  L+     +          + L  LN
Sbjct: 300 DAPVGEKIQIIYIGYNNLKTFPVETSLQKMKKLGMLECLYNQLEGKLPAFGSEIKLASLN 359

Query: 594 LEYMYNLNQFPRLVMSAFSKLQVLRIL 620
           L Y    NQ   +  +     + +  L
Sbjct: 360 LAY----NQITEIPANFCGFTEQVENL 382

>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 = 61.6 bits (150), Expect = 8e-10
 Identities = 9/144 (6%), Positives = 33/144 (22%), Gaps = 12/144 (8%)

Query: 488 PEIQNWRNVRRMSLMKNKIE------NLSETPTCPHLLSLFLSDNSL--KMIAGDFFQFM 539
             I     +  ++L  +  +                               +  D  +  
Sbjct: 99  DAIGQLTELEVLALGSHGEKVNERLFGPKGISANMSDEQKQKMRMHYQKTFVDYDPREDF 158

Query: 540 PSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAITHLPIELQKLVNLKCLNLEYMYN 599
             L    ++++     +       +    +      IT +   + +L  L+   +     
Sbjct: 159 SDLIKDCINSDPQQKSIKKSSRITLKDTQIGQLSNNITFVSKAVMRLTKLRQFYMGN--- 215

Query: 600 LNQFPRLVMSAFSKLQVLRILKSN 623
            + F    +    + +     +  
Sbjct: 216 -SPFVAENICEAWENENSEYAQQY 238

>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 = 48.5 bits (116), Expect = 9e-06
 Identities = 18/142 (12%), Positives = 41/142 (28%), Gaps = 17/142 (11%)

Query: 541 SLRVFNMSNNHLLWKLPSGISTLVSLEHLDLS-----GTAITHLPIELQKLVNLKCLNLE 595
            +   ++       ++P  I  L  LE L L             P  +   ++ +     
Sbjct: 82  RVTGLSLEGFGASGRVPDAIGQLTELEVLALGSHGEKVNERLFGPKGISANMSDEQKQKM 141

Query: 596 YMYNLNQFP-RLVMSAFSKLQVLRILKSNVLFGGHQFLVEELMGMKHLMALTITLKSWEA 654
            M+    F        FS L     + S+      +      +    +  L+  +     
Sbjct: 142 RMHYQKTFVDYDPREDFSDLIKD-CINSDPQQKSIKKSSRITLKDTQIGQLSNNITF--- 197

Query: 655 LQELLISQELQRCT--QSLFLR 674
                +S+ + R T  +  ++ 
Sbjct: 198 -----VSKAVMRLTKLRQFYMG 214

>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 = 45.8 bits (109), Expect = 5e-05
 Identities = 12/94 (12%), Positives = 30/94 (31%), Gaps = 11/94 (11%)

Query: 488 PEIQNWRNVRRMSLMKNKIE---NLSET-PT----CPHLLSLFLSDNSLKMIAGDFFQFM 539
            +  N   ++   +   +           P     CP L  L +  N ++ +     +  
Sbjct: 530 TQPLNSSTLKGFGIRNQRDAQGNRTLREWPEGITLCPSLTQLQIGSNDIRKV---NEKIT 586

Query: 540 PSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSG 573
           P++ V ++ +N  +    S +   +      L  
Sbjct: 587 PNISVLDIKDNPNISIDLSYVCPYIEAGMYMLFY 620

>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 = 74.4 bits (182), Expect = 7e-14
 Identities = 39/235 (16%), Positives = 80/235 (34%), Gaps = 51/235 (21%)

Query: 490 IQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSN 549
              +    + +L K  + +         +  +  +++ +K + G   Q++P++    ++ 
Sbjct: 17  DDAFAETIKDNLKKKSVTDAVTQNELNSIDQIIANNSDIKSVQG--IQYLPNVTKLFLNG 74

Query: 550 NHLLWKLPSGISTLVSLEHLDLSGTAITHLPIELQKLVNLKCLNLEY-----MYNLNQFP 604
           N L       ++ L +L  L L    I  L   L+ L  LK L+LE+     +  L   P
Sbjct: 75  NKL--TDIKPLTNLKNLGWLFLDENKIKDLS-SLKDLKKLKSLSLEHNGISDINGLVHLP 131

Query: 605 RLV-----------MSAFSKLQVLRIL--KSNVLFGGHQFLVEELMGMKHLMALTIT--- 648
           +L            ++  S+L  L  L  + N +       +  L G+  L  L ++   
Sbjct: 132 QLESLYLGNNKITDITVLSRLTKLDTLSLEDNQISD-----IVPLAGLTKLQNLYLSKNH 186

Query: 649 ------LKSWEALQELLISQELQRCTQSLFLRCFNDSKSLDIFCLACLHNLNKLY 697
                 L   + L  L +                 +  +  I   + L   N + 
Sbjct: 187 ISDLRALAGLKNLDVLELF--------------SQECLNKPINHQSNLVVPNTVK 227

>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 = 73.2 bits (179), Expect = 2e-13
 Identities = 30/140 (21%), Positives = 60/140 (42%), Gaps = 9/140 (6%)

Query: 484 LTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLR 543
           + +   +++ + ++ +SL  N I +++     P L SL+L +N +  I       +  L 
Sbjct: 99  IKDLSSLKDLKKLKSLSLEHNGISDINGLVHLPQLESLYLGNNKITDI--TVLSRLTKLD 156

Query: 544 VFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAITHLPIELQKLVNLKCLNLEYMYNLNQF 603
             ++ +N +       ++ L  L++L LS   I+ L   L  L NL  L L       + 
Sbjct: 157 TLSLEDNQI--SDIVPLAGLTKLQNLYLSKNHISDLR-ALAGLKNLDVLELFS----QEC 209

Query: 604 PRLVMSAFSKLQVLRILKSN 623
               ++  S L V   +K+ 
Sbjct: 210 LNKPINHQSNLVVPNTVKNT 229

>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 = 67.4 bits (164), Expect = 1e-11
 Identities = 43/219 (19%), Positives = 77/219 (35%), Gaps = 37/219 (16%)

Query: 501 LMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGI 560
            +   I+ +         +   L   S+          + S+     +N+ +  K   GI
Sbjct: 6   TVSTPIKQIFPDDAFAETIKDNLKKKSVTDA--VTQNELNSIDQIIANNSDI--KSVQGI 61

Query: 561 STLVSLEHLDLSGTAITHLPIELQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRIL 620
             L ++  L L+G  +T +   L  L NL  L L+     N+   L  S+   L+ L+ L
Sbjct: 62  QYLPNVTKLFLNGNKLTDIK-PLTNLKNLGWLFLDE----NKIKDL--SSLKDLKKLKSL 114

Query: 621 KSNVLFGGHQF-LVEELMGMKHLMALTI---------TLKSWEALQELLIS-------QE 663
                   +    +  L+ +  L +L +          L     L  L +          
Sbjct: 115 S----LEHNGISDINGLVHLPQLESLYLGNNKITDITVLSRLTKLDTLSLEDNQISDIVP 170

Query: 664 LQRCT--QSLFLRCFNDSKSLDIFCLACLHNLNKLYVAG 700
           L   T  Q+L+L   + +   D+  LA L NL+ L +  
Sbjct: 171 LAGLTKLQNLYL---SKNHISDLRALAGLKNLDVLELFS 206

>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 = 53.2 bits (127), Expect = 3e-07
 Identities = 19/117 (16%), Positives = 46/117 (39%), Gaps = 3/117 (2%)

Query: 483 GLTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSL 542
            +T+   +     +  +SL  N+I ++        L +L+LS N +  +       + +L
Sbjct: 142 KITDITVLSRLTKLDTLSLEDNQISDIVPLAGLTKLQNLYLSKNHISDLRA--LAGLKNL 199

Query: 543 RVFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAITHLPIELQKLVNLKCLNLEYMYN 599
            V  + +   L K  +  S LV    +  +  ++   P  +    + +  N+++   
Sbjct: 200 DVLELFSQECLNKPINHQSNLVVPNTVKNTDGSLVT-PEIISDDGDYEKPNVKWHLP 255

>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 = 74.1 bits (182), Expect = 7e-14
 Identities = 30/212 (14%), Positives = 68/212 (32%), Gaps = 14/212 (6%)

Query: 489 EIQNWRNVRRMSLMKNKIENLSE---TPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVF 545
           +      V+ + L  N+I+ ++      +   L  L L  N +  + G        L+  
Sbjct: 139 DEGCRSRVQYLDLKLNEIDTVNFAELAASSDTLEHLNLQYNFIYDVKGQVV--FAKLKTL 196

Query: 546 NMSNNHLLWKLPSGISTLVSLEHLDLSGTAITHLPIELQKLVNLKCLNLEYMYNLNQFPR 605
           ++S+N L + +     +   +  + L    +  +   L+   NL+  +L      N F  
Sbjct: 197 DLSSNKLAF-MGPEFQSAAGVTWISLRNNKLVLIEKALRFSQNLEHFDLRG----NGFHC 251

Query: 606 L-VMSAFSKLQVLRILKSNVL--FGGHQFLVEELMGMKHLMALTITLKSWEALQELLISQ 662
             +   FSK Q ++ +    +    G       +  + H  A             L+  +
Sbjct: 252 GTLRDFFSKNQRVQTVAKQTVKKLTGQNEEECTVPTLGHYGAYCCEDLPAPFADRLIALK 311

Query: 663 ELQRCTQSLFLRCFNDSKSLDIFCLACLHNLN 694
             +    S       +    +    A    ++
Sbjct: 312 RKEHALLSGQGSET-ERLECERENQARQREID 342

>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 = 73.0 bits (179), Expect = 1e-13
 Identities = 25/138 (18%), Positives = 54/138 (39%), Gaps = 13/138 (9%)

Query: 490 IQNWRNVRRMSLMKNKIENLSETP--TCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNM 547
            QN    +   +  + ++    +   +  ++  L LS N L  I+         L + N+
Sbjct: 6   KQNGNRYKIEKVTDSSLKQALASLRQSAWNVKELDLSGNPLSQISAADLAPFTKLELLNL 65

Query: 548 SNNHLLWKLPSGISTLVSLEHLDLSGTAITHLPIELQKLVNLKCLNLEYMYNLNQFPRLV 607
           S+N L  +    + +L +L  LDL+   +  L +      +++ L+       N   R+ 
Sbjct: 66  SSNVLY-ETLD-LESLSTLRTLDLNNNYVQELLV----GPSIETLHAAN----NNISRVS 115

Query: 608 MSAFSKLQVLRILKSNVL 625
            S     + +  L +N +
Sbjct: 116 CSRGQGKKNIY-LANNKI 132

>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 = 46.0 bits (109), Expect = 4e-05
 Identities = 10/97 (10%), Positives = 24/97 (24%), Gaps = 1/97 (1%)

Query: 499 MSLMKNKIENL-SETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLP 557
           +S   ++ E L  E         +       + +         +          L  ++ 
Sbjct: 318 LSGQGSETERLECERENQARQREIDALKEQYRTVIDQVTLRKQAKITLEQKKKALDEQVS 377

Query: 558 SGISTLVSLEHLDLSGTAITHLPIELQKLVNLKCLNL 594
           +G      L+           L    ++   L+ L  
Sbjct: 378 NGRRAHAELDGTLQQAVGQIELQHATEEQSPLQLLRA 414

>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 = 71.3 bits (175), Expect = 2e-13
 Identities = 43/213 (20%), Positives = 86/213 (40%), Gaps = 29/213 (13%)

Query: 492 NWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNH 551
              N  +++  K+ + +         + +L      +  I G   Q++ +L    + +N 
Sbjct: 17  ALANAIKIAAGKSNVTDTVTQADLDGITTLSAFGTGVTTIEG--VQYLNNLIGLELKDNQ 74

Query: 552 LLWKLPSGISTLVSLEHLDLSGTAITHLPIELQKLVNLKCLNLEYMYNLNQFPRL-VMSA 610
           +     + +  L  +  L+LSG  + ++   +  L ++K L+L       Q   +  ++ 
Sbjct: 75  I--TDLAPLKNLTKITELELSGNPLKNVS-AIAGLQSIKTLDLTS----TQITDVTPLAG 127

Query: 611 FSKLQVLRILKSNVLFGGHQFLVEELMGMKHLMALTIT---LKSWEALQELLISQELQRC 667
            S LQVL  L  N +       +  L G+ +L  L+I    +     L  L    +L   
Sbjct: 128 LSNLQVL-YLDLNQITN-----ISPLAGLTNLQYLSIGNAQVSDLTPLANL---SKL--- 175

Query: 668 TQSLFLRCFNDSKSLDIFCLACLHNLNKLYVAG 700
             +L     +D+K  DI  LA L NL ++++  
Sbjct: 176 -TTLKA---DDNKISDISPLASLPNLIEVHLKN 204

>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 = 70.9 bits (174), Expect = 2e-13
 Identities = 25/137 (18%), Positives = 55/137 (40%), Gaps = 11/137 (8%)

Query: 484 LTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLR 543
           L     I   ++++ + L   +I +++      +L  L+L  N +  I+      + +L+
Sbjct: 97  LKNVSAIAGLQSIKTLDLTSTQITDVTPLAGLSNLQVLYLDLNQITNISP--LAGLTNLQ 154

Query: 544 VFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAITHLPIELQKLVNLKCLNLEYMYNLNQF 603
             ++ N  +     + ++ L  L  L      I+ +   L  L NL  ++L+     NQ 
Sbjct: 155 YLSIGNAQV--SDLTPLANLSKLTTLKADDNKISDIS-PLASLPNLIEVHLKN----NQI 207

Query: 604 PRLVMSAFSKLQVLRIL 620
             +  S  +    L I+
Sbjct: 208 SDV--SPLANTSNLFIV 222

>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 = 70.1 bits (172), Expect = 4e-13
 Identities = 23/140 (16%), Positives = 51/140 (36%), Gaps = 9/140 (6%)

Query: 484 LTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLR 543
           +T+   +    N++ + L  N+I N+S      +L  L + +  +  +       +  L 
Sbjct: 119 ITDVTPLAGLSNLQVLYLDLNQITNISPLAGLTNLQYLSIGNAQVSDL--TPLANLSKLT 176

Query: 544 VFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAITHLPIELQKLVNLKCLNLEYMYNLNQF 603
                +N +     S +++L +L  + L    I+ +   L    NL  + L         
Sbjct: 177 TLKADDNKI--SDISPLASLPNLIEVHLKNNQISDVS-PLANTSNLFIVTLTN----QTI 229

Query: 604 PRLVMSAFSKLQVLRILKSN 623
               +   + L V  ++K  
Sbjct: 230 TNQPVFYNNNLVVPNVVKGP 249

>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 = 70.1 bits (172), Expect = 4e-13
 Identities = 38/208 (18%), Positives = 76/208 (36%), Gaps = 37/208 (17%)

Query: 483 GLTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSL 542
           G+T    +Q   N+  + L  N+I +L+       +  L LS N LK ++      + S+
Sbjct: 52  GVTTIEGVQYLNNLIGLELKDNQITDLAPLKNLTKITELELSGNPLKNVSA--IAGLQSI 109

Query: 543 RVFNMSNNHL-----LWKLP---------------SGISTLVSLEHLDLSGTAITHLPIE 582
           +  ++++  +     L  L                S ++ L +L++L +    ++ L   
Sbjct: 110 KTLDLTSTQITDVTPLAGLSNLQVLYLDLNQITNISPLAGLTNLQYLSIGNAQVSDLT-P 168

Query: 583 LQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRILKSNVLFGGHQFLVEELMGMKHL 642
           L  L  L  L  +     N+   +  S  + L  L  +    L       V  L    +L
Sbjct: 169 LANLSKLTTLKADD----NKISDI--SPLASLPNLIEVH---LKNNQISDVSPLANTSNL 219

Query: 643 MAL-----TITLKSWEALQELLISQELQ 665
             +     TIT +       L++   ++
Sbjct: 220 FIVTLTNQTITNQPVFYNNNLVVPNVVK 247

>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 = 68.9 bits (169), Expect = 1e-12
 Identities = 33/137 (24%), Positives = 58/137 (42%), Gaps = 11/137 (8%)

Query: 484 LTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLR 543
           +T+     +   +  +S     +  +       +L+ L L DN +  +     + +  + 
Sbjct: 31  VTDTVTQADLDGITTLSAFGTGVTTIEGVQYLNNLIGLELKDNQITDL--APLKNLTKIT 88

Query: 544 VFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAITHLPIELQKLVNLKCLNLEYMYNLNQF 603
              +S N L  K  S I+ L S++ LDL+ T IT +   L  L NL+ L L+     NQ 
Sbjct: 89  ELELSGNPL--KNVSAIAGLQSIKTLDLTSTQITDVT-PLAGLSNLQVLYLDL----NQI 141

Query: 604 PRLVMSAFSKLQVLRIL 620
             +  S  + L  L+ L
Sbjct: 142 TNI--SPLAGLTNLQYL 156

>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 = 63.2 bits (154), Expect = 9e-11
 Identities = 22/121 (18%), Positives = 49/121 (40%), Gaps = 6/121 (4%)

Query: 484 LTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLR 543
           +T    +    N++ +S+   ++ +L+       L +L   DN +  I       +P+L 
Sbjct: 141 ITNISPLAGLTNLQYLSIGNAQVSDLTPLANLSKLTTLKADDNKISDI--SPLASLPNLI 198

Query: 544 VFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAITHLPIELQKLVNLKCLNLEYMYNLNQF 603
             ++ NN +   + S ++   +L  + L+   IT+ P+      NL   N+    +    
Sbjct: 199 EVHLKNNQIS-DV-SPLANTSNLFIVTLTNQTITNQPVFYNN--NLVVPNVVKGPSGAPI 254

Query: 604 P 604
            
Sbjct: 255 A 255

>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 = 71.6 bits (176), Expect = 2e-13
 Identities = 27/130 (20%), Positives = 56/130 (43%), Gaps = 11/130 (8%)

Query: 494 RNVRRMSLMKNKIENL-SETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHL 552
             + R+ L KN+++ L  + P    L  L + +N +  +    F  +  + V  +  N L
Sbjct: 100 VKLERLYLSKNQLKELPEKMP--KTLQELRVHENEITKVRKSVFNGLNQMIVVELGTNPL 157

Query: 553 -LWKLPSGI-STLVSLEHLDLSGTAITHLPIELQKLVNLKCLNLEYMYNLNQFPRLVMSA 610
               + +G    +  L ++ ++ T IT +P  L    +L  L+L+     N+  ++  ++
Sbjct: 158 KSSGIENGAFQGMKKLSYIRIADTNITTIPQGL--PPSLTELHLDG----NKITKVDAAS 211

Query: 611 FSKLQVLRIL 620
              L  L  L
Sbjct: 212 LKGLNNLAKL 221

>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 = 71.2 bits (175), Expect = 3e-13
 Identities = 28/136 (20%), Positives = 54/136 (39%), Gaps = 12/136 (8%)

Query: 494 RNVRRMSLMKNKIENLSET--PTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNH 551
            ++  + L  NKI  +         +L  L LS NS+  +        P LR  +++NN 
Sbjct: 192 PSLTELHLDGNKITKVDAASLKGLNNLAKLGLSFNSISAVDNGSLANTPHLRELHLNNNK 251

Query: 552 LLWKLPSGISTLVSLEHLDLSGTAITHLPIE-------LQKLVNLKCLNLEYMYNLNQFP 604
           L+ K+P G++    ++ + L    I+ +            K  +   ++L    N  Q+ 
Sbjct: 252 LV-KVPGGLADHKYIQVVYLHNNNISAIGSNDFCPPGYNTKKASYSGVSLF--SNPVQYW 308

Query: 605 RLVMSAFSKLQVLRIL 620
            +  S F  + V   +
Sbjct: 309 EIQPSTFRCVYVRAAV 324

>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 = 71.2 bits (175), Expect = 3e-13
 Identities = 30/144 (20%), Positives = 56/144 (38%), Gaps = 11/144 (7%)

Query: 481 GLGLTEAPE-IQNWRNVRRMSLMKNKIENLSET--PTCPHLLSLFLSDNSLKMIAGDFFQ 537
            LGL + P+ +    +   + L  NKI  + +       +L +L L +N +  I+   F 
Sbjct: 40  DLGLEKVPKDLP--PDTALLDLQNNKITEIKDGDFKNLKNLHTLILINNKISKISPGAFA 97

Query: 538 FMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAITHLPIE-LQKLVNLKCLNLEY 596
            +  L    +S N L  +LP       +L+ L +    IT +       L  +  + L  
Sbjct: 98  PLVKLERLYLSKNQLK-ELPEK--MPKTLQELRVHENEITKVRKSVFNGLNQMIVVELG- 153

Query: 597 MYNLNQFPRLVMSAFSKLQVLRIL 620
             N  +   +   AF  ++ L  +
Sbjct: 154 -TNPLKSSGIENGAFQGMKKLSYI 176

>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 = 72.3 bits (178), Expect = 2e-13
 Identities = 35/171 (20%), Positives = 58/171 (33%), Gaps = 23/171 (13%)

Query: 495 NVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLW 554
           ++  ++   N++E L E    P L +++  +NSLK           SL      NN L  
Sbjct: 174 SLEFIAAGNNQLEELPELQNLPFLTAIYADNNSLK----KLPDLPLSLESIVAGNNIL-- 227

Query: 555 KLPSGISTLVSLEHLDLSGTAITHLPIELQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKL 614
           +    +  L  L  +      +  LP     L  L   +      L   P L       L
Sbjct: 228 EELPELQNLPFLTTIYADNNLLKTLPDLPPSLEALNVRDN----YLTDLPEL----PQSL 279

Query: 615 QVLRILKSNVLFGGHQFLVEELMGMKHLMA----LTITLKSWEALQELLIS 661
             L +   N+       L E    + +L A    +        +L+EL +S
Sbjct: 280 TFLDVS-ENIF----SGLSELPPNLYYLNASSNEIRSLCDLPPSLEELNVS 325

>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 = 59.2 bits (144), Expect = 3e-09
 Identities = 20/153 (13%), Positives = 47/153 (30%), Gaps = 32/153 (20%)

Query: 484 LTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLR 543
           +    +     ++  +++  NK+  L   P  P L  L  S N L  +     +   +L+
Sbjct: 309 IRSLCD--LPPSLEELNVSNNKLIELPALP--PRLERLIASFNHLAEVP----ELPQNLK 360

Query: 544 VFNMSNNHLLWKLPSGISTLV----------------SLEHLDLSGTAITHLPIELQKLV 587
             ++  N L  + P    ++                 +L+ L +    +   P   + + 
Sbjct: 361 QLHVEYNPLR-EFPDIPESVEDLRMNSHLAEVPELPQNLKQLHVETNPLREFPDIPESVE 419

Query: 588 NLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRIL 620
           +L+  +        +       A      L   
Sbjct: 420 DLRMNS-------ERVVDPYEFAHETTDKLEDD 445

>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 = 59.2 bits (144), Expect = 3e-09
 Identities = 33/137 (24%), Positives = 54/137 (39%), Gaps = 20/137 (14%)

Query: 484 LTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLR 543
           L E PE+QN   +  +    N ++ L + P  P L +L + DN L  +         SL 
Sbjct: 227 LEELPELQNLPFLTTIYADNNLLKTLPDLP--PSLEALNVRDNYLTDLPELP----QSLT 280

Query: 544 VFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAITHLPIELQKLVNLKCLNLEYMYN-LNQ 602
             ++S N     L        +L +L+ S   I  L        +L+ LN+    N L +
Sbjct: 281 FLDVSENIFS-GLSELPP---NLYYLNASSNEIRSLCDLPP---SLEELNVS--NNKLIE 331

Query: 603 FPRLVMSAFSKLQVLRI 619
            P    +   +L+ L  
Sbjct: 332 LP----ALPPRLERLIA 344

>1jl5_A Outer protein YOPM; leucine-rich repeat, molecular pathogenesis, effector protein, virulence factor, toxin; 2.10A {Yersinia pestis} SCOP: c.10.2.6 PDB: 1g9u_A Length = 454

 Score = 53.1 bits (128), Expect = 2e-07
 Identities = 27/137 (19%), Positives = 45/137 (32%), Gaps = 22/137 (16%)

Query: 484 LTEAP-EIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSL 542
           LTE P E +N ++        ++ E            +    + ++  +     +     
Sbjct: 23  LTEMPVEAENVKSKTEYYNAWSEWERN------APPGNGEQREMAVSRLRDCLDR---QA 73

Query: 543 RVFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAITHLPIELQKLVNLKCLNLEYMYNLNQ 602
               ++N  L   LP        LE L  S  ++T LP   Q L +L   N     NL  
Sbjct: 74  HELELNNLGLS-SLPELPP---HLESLVASCNSLTELPELPQSLKSLLVDNN----NLKA 125

Query: 603 FPRLVMSAFSKLQVLRI 619
              L       L+ L +
Sbjct: 126 LSDL----PPLLEYLGV 138

>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 = 69.7 bits (171), Expect = 4e-13
 Identities = 36/129 (27%), Positives = 56/129 (43%), Gaps = 8/129 (6%)

Query: 494 RNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLL 553
             + +++L + ++  L    T P L +L LS N L+ +     Q +P+L V ++S N L 
Sbjct: 55  TRLTQLNLDRAELTKLQVDGTLPVLGTLDLSHNQLQSLPL-LGQTLPALTVLDVSFNRLT 113

Query: 554 WKLPSGI-STLVSLEHLDLSGTAITHLPIEL-QKLVNLKCLNLEYMYNLNQFPRLVMSAF 611
             LP G    L  L+ L L G  +  LP  L      L+ L+L      N    L     
Sbjct: 114 -SLPLGALRGLGELQELYLKGNELKTLPPGLLTPTPKLEKLSLAN----NNLTELPAGLL 168

Query: 612 SKLQVLRIL 620
           + L+ L  L
Sbjct: 169 NGLENLDTL 177

>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 = 55.9 bits (135), Expect = 2e-08
 Identities = 29/100 (29%), Positives = 40/100 (40%), Gaps = 6/100 (6%)

Query: 521 LFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAITHLP 580
           L LS+N L   +         L   N+    L  KL     TL  L  LDLS   +  LP
Sbjct: 36  LHLSENLLYTFSLATLMPYTRLTQLNLDRAELT-KLQVD-GTLPVLGTLDLSHNQLQSLP 93

Query: 581 IELQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRIL 620
           +  Q L  L  L++ +    N+   L + A   L  L+ L
Sbjct: 94  LLGQTLPALTVLDVSF----NRLTSLPLGALRGLGELQEL 129

>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 = 47.0 bits (112), Expect = 1e-05
 Identities = 23/103 (22%), Positives = 44/103 (42%), Gaps = 4/103 (3%)

Query: 495 NVRRMSLMKNKIENLSET--PTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHL 552
            +  + +  N++ +L          L  L+L  N LK +        P L   +++NN+ 
Sbjct: 101 ALTVLDVSFNRLTSLPLGALRGLGELQELYLKGNELKTLPPGLLTPTPKLEKLSLANNN- 159

Query: 553 LWKLPSGI-STLVSLEHLDLSGTAITHLPIELQKLVNLKCLNL 594
           L +LP+G+ + L +L+ L L   ++  +P        L    L
Sbjct: 160 LTELPAGLLNGLENLDTLLLQENSLYTIPKGFFGSHLLPFAFL 202

>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 = 45.1 bits (107), Expect = 5e-05
 Identities = 23/114 (20%), Positives = 36/114 (31%), Gaps = 16/114 (14%)

Query: 513 PTCP-----HLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGI-STLVSL 566
           P C        L +     +L  +  D         + ++S N L              L
Sbjct: 2   PICEVSKVASHLEVNCDKRNLTALPPDLP---KDTTILHLSENLLY-TFSLATLMPYTRL 57

Query: 567 EHLDLSGTAITHLPIELQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRIL 620
             L+L    +T L ++   L  L  L+L +    NQ   L       L  L +L
Sbjct: 58  TQLNLDRAELTKLQVD-GTLPVLGTLDLSH----NQLQSLP-LLGQTLPALTVL 105

>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 = 41.6 bits (98), Expect = 7e-04
 Identities = 20/82 (24%), Positives = 34/82 (41%), Gaps = 5/82 (6%)

Query: 495 NVRRMSLMKNKIENLSE---TPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNH 551
            ++ + L  N+++ L     TPT P L  L L++N+L  +       + +L    +  N 
Sbjct: 125 ELQELYLKGNELKTLPPGLLTPT-PKLEKLSLANNNLTELPAGLLNGLENLDTLLLQENS 183

Query: 552 LLWKLPSGISTLVSLEHLDLSG 573
           L   +P G      L    L G
Sbjct: 184 LY-TIPKGFFGSHLLPFAFLHG 204

>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 = 69.3 bits (170), Expect = 6e-13
 Identities = 42/190 (22%), Positives = 77/190 (40%), Gaps = 23/190 (12%)

Query: 483 GLTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSL 542
            +     IQ   NV ++ L  NK+ ++       +L  LFL +N +K ++    + +  L
Sbjct: 57  DIKSVQGIQYLPNVTKLFLNGNKLTDIKPLANLKNLGWLFLDENKVKDLSS--LKDLKKL 114

Query: 543 RVFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAITHLPIELQKLVNLKCLNLEYMYNLNQ 602
           +  ++ +N +     +G+  L  LE L L    IT + + L +L  L  L+LE     NQ
Sbjct: 115 KSLSLEHNGI--SDINGLVHLPQLESLYLGNNKITDITV-LSRLTKLDTLSLED----NQ 167

Query: 603 FPRLVMSAFSKLQVLRIL--KSNVLFGGHQFLVEELMGMKHLMAL-----TITLKSWEAL 655
              +     + L  L+ L    N +       +  L G+K+L  L         K     
Sbjct: 168 ISDI--VPLAGLTKLQNLYLSKNHISD-----LRALAGLKNLDVLELFSQECLNKPINHQ 220

Query: 656 QELLISQELQ 665
             L++   ++
Sbjct: 221 SNLVVPNTVK 230

>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 = 68.2 bits (167), Expect = 1e-12
 Identities = 41/214 (19%), Positives = 83/214 (38%), Gaps = 31/214 (14%)

Query: 492 NWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNH 551
            +    + +L K  + +         +  +  +++ +K + G   Q++P++    ++ N 
Sbjct: 22  AFAETIKDNLKKKSVTDAVTQNELNSIDQIIANNSDIKSVQG--IQYLPNVTKLFLNGNK 79

Query: 552 LLWKLPSGISTLVSLEHLDLSGTAITHLPIELQKLVNLKCLNLEYMYNLNQFPRLVMSAF 611
           L       ++ L +L  L L    +  L   L+ L  LK L+LE+    N    +  +  
Sbjct: 80  L--TDIKPLANLKNLGWLFLDENKVKDLS-SLKDLKKLKSLSLEH----NGISDI--NGL 130

Query: 612 SKLQVLRIL--KSNVLFGGHQFLVEELMGMKHLMALTIT---LKSWEALQELLISQELQR 666
             L  L  L   +N +       +  L  +  L  L++    +     L  L    +L  
Sbjct: 131 VHLPQLESLYLGNNKITD-----ITVLSRLTKLDTLSLEDNQISDIVPLAGL---TKL-- 180

Query: 667 CTQSLFLRCFNDSKSLDIFCLACLHNLNKLYVAG 700
             Q+L+L   + +   D+  LA L NL+ L +  
Sbjct: 181 --QNLYL---SKNHISDLRALAGLKNLDVLELFS 209

>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 = 66.2 bits (162), Expect = 6e-12
 Identities = 29/137 (21%), Positives = 55/137 (40%), Gaps = 11/137 (8%)

Query: 484 LTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLR 543
           +T+A       ++ ++    + I+++      P++  LFL+ N L  I       + +L 
Sbjct: 36  VTDAVTQNELNSIDQIIANNSDIKSVQGIQYLPNVTKLFLNGNKLTDIKP--LANLKNLG 93

Query: 544 VFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAITHLPIELQKLVNLKCLNLEYMYNLNQF 603
              +  N +  K  S +  L  L+ L L    I+ +   L  L  L+ L L      N+ 
Sbjct: 94  WLFLDENKV--KDLSSLKDLKKLKSLSLEHNGISDIN-GLVHLPQLESLYLGN----NKI 146

Query: 604 PRLVMSAFSKLQVLRIL 620
             +  +  S+L  L  L
Sbjct: 147 TDI--TVLSRLTKLDTL 161

>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 = 53.5 bits (129), Expect = 9e-08
 Identities = 30/147 (20%), Positives = 61/147 (41%), Gaps = 9/147 (6%)

Query: 483 GLTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSL 542
            +T+   +     +  +SL  N+I ++        L +L+LS N +  +       + +L
Sbjct: 145 KITDITVLSRLTKLDTLSLEDNQISDIVPLAGLTKLQNLYLSKNHISDLRA--LAGLKNL 202

Query: 543 RVFNMSNNHLLWKLPSGISTLVSLEHL-DLSGTAITHLPIELQKLVNLKCLNLEYMYNLN 601
            V  + +   L K  +  S LV    + +  G+ +T  P  +    + +  N++  ++L 
Sbjct: 203 DVLELFSQECLNKPINHQSNLVVPNTVKNTDGSLVT--PEIISDDGDYEKPNVK--WHLP 258

Query: 602 QFPRLVMSAFSKLQVLRILKSNVLFGG 628
           +F   V   F   Q + I K+   F G
Sbjct: 259 EFTNEVSFIFY--QPVTIGKAKARFHG 283

>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 = 70.7 bits (173), Expect = 9e-13
 Identities = 45/303 (14%), Positives = 103/303 (33%), Gaps = 21/303 (6%)

Query: 494 RNVRRMSLMKNKIENLSET--PTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNH 551
           +    +++ +N I  L  +   +   L  L +S N ++ +    F+F   L   ++S+N 
Sbjct: 21  QKTTILNISQNYISELWTSDILSLSKLRILIISHNRIQYLDISVFKFNQELEYLDLSHNK 80

Query: 552 LLWKLPSGISTLVSLEHLDLSGTAITHLPI--ELQKLVNLKCLNLEYMYNLNQFPRLVMS 609
            L K+       V+L+HLDLS  A   LPI  E   +  LK L L          +  + 
Sbjct: 81  -LVKISCH--PTVNLKHLDLSFNAFDALPICKEFGNMSQLKFLGLST----THLEKSSVL 133

Query: 610 AFSKLQVLRILKSNVLFGGHQFLVEELMGMKHLMALTITLKSWEALQELLISQELQRCTQ 669
             + L + ++L   ++ G      E+  G++     ++ +              L    +
Sbjct: 134 PIAHLNISKVL---LVLGETYGEKEDPEGLQDFNTESLHIVF---PTNKEFHFILDVSVK 187

Query: 670 SLFLRCFNDSKSLDIFCLACLHNLNKLYVAGRKHLEDFQMTVQRSSVNQLARGFHSLHTV 729
           ++     ++ K +               +     L +  +    ++ N   R    +   
Sbjct: 188 TVANLELSNIKCVLEDNKCSYFLSILAKLQTNPKLSNLTLNNIETTWNSFIRILQLVWHT 247

Query: 730 KVGFCFKLKDLTWLVFAPSLKSIVVLSCCNMEQI-IKAEKLSQLHHHPERKKSVFAKLQF 788
            V + F + ++   +           S  +++ + I                 +F+ +  
Sbjct: 248 TV-WYFSISNVK--LQGQLDFRDFDYSGTSLKALSIHQVVSDVFGFPQSYIYEIFSNMNI 304

Query: 789 LSL 791
            + 
Sbjct: 305 KNF 307

>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 = 68.4 bits (167), Expect = 5e-12
 Identities = 31/137 (22%), Positives = 54/137 (39%), Gaps = 15/137 (10%)

Query: 491 QNWRNVRRMSLMKNKIENLSETPTCPHLLS----LFLSDNSLKMI-AGDFFQFMPSLRVF 545
            +   +  + L  N+++ LS+       +     L +S NS+          +  SL   
Sbjct: 345 GHLTELETLILQMNQLKELSKIAEMTTQMKSLQQLDISQNSVSYDEKKGDCSWTKSLLSL 404

Query: 546 NMSNNHLLWKLPSGIST--LVSLEHLDLSGTAITHLPIELQKLVNLKCLNLEYMYNLNQF 603
           NMS+N     L   I       ++ LDL    I  +P ++ KL  L+ LN+      NQ 
Sbjct: 405 NMSSN----ILTDTIFRCLPPRIKVLDLHSNKIKSIPKQVVKLEALQELNVAS----NQL 456

Query: 604 PRLVMSAFSKLQVLRIL 620
             +    F +L  L+ +
Sbjct: 457 KSVPDGIFDRLTSLQKI 473

>2z7x_B TOLL-like receptor 1, variable lymphocyte recepto; TLR2, TLR1, lipopeptide, innate immunity, glycoPro immune response, inflammatory response, leucine-rich repeat membrane, receptor; HET: NAG NDG MAN BMA PCJ; 2.10A {Homo sapiens} Length = 520

 Score = 61.8 bits (150), Expect = 5e-10
 Identities = 22/130 (16%), Positives = 46/130 (35%), Gaps = 11/130 (8%)

Query: 495 NVRRMSLMKNKIENLSETP--TCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHL 552
           N+   +   +    +           L L  S+N L     +    +  L    +  N L
Sbjct: 301 NMNIKNFTVSGTRMVHMLCPSKISPFLHLDFSNNLLTDTVFENCGHLTELETLILQMNQL 360

Query: 553 --LWKLPSGISTLVSLEHLDLSGTAITHLPIE--LQKLVNLKCLNLEYMYNLNQFPRLVM 608
             L K+    + + SL+ LD+S  ++++   +       +L  LN+      N     + 
Sbjct: 361 KELSKIAEMTTQMKSLQQLDISQNSVSYDEKKGDCSWTKSLLSLNMSS----NILTDTIF 416

Query: 609 SAF-SKLQVL 617
                +++VL
Sbjct: 417 RCLPPRIKVL 426

>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 = 56.0 bits (135), Expect = 4e-08
 Identities = 18/105 (17%), Positives = 32/105 (30%), Gaps = 10/105 (9%)

Query: 521 LFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGI-STLVSLEHLDLSGTAITHL 579
              + +  +M+       +      + SNN LL          L  LE L L    +  L
Sbjct: 305 KNFTVSGTRMVHMLCPSKISPFLHLDFSNN-LLTDTVFENCGHLTELETLILQMNQLKEL 363

Query: 580 PIE---LQKLVNLKCLNLEYMYNLNQFPRLVMS-AFSKLQVLRIL 620
                   ++ +L+ L++      N           S  + L  L
Sbjct: 364 SKIAEMTTQMKSLQQLDISQ----NSVSYDEKKGDCSWTKSLLSL 404

>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 = 70.9 bits (173), Expect = 9e-13
 Identities = 24/133 (18%), Positives = 43/133 (32%), Gaps = 7/133 (5%)

Query: 489 EIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMS 548
               + +VR + L    +  L        +  L LS N L+ +       +  L V   S
Sbjct: 436 LKMEYADVRVLHLAHKDLTVLCHLEQLLLVTHLDLSHNRLRAL-PPALAALRCLEVLQAS 494

Query: 549 NNHLLWKLPSGISTLVSLEHLDLSGTAITHLP--IELQKLVNLKCLNLEY--MYNLNQFP 604
           +N L  +   G++ L  L+ L L    +        L     L  LNL+   +       
Sbjct: 495 DNAL--ENVDGVANLPRLQELLLCNNRLQQSAAIQPLVSCPRLVLLNLQGNSLCQEEGIQ 552

Query: 605 RLVMSAFSKLQVL 617
             +      +  +
Sbjct: 553 ERLAEMLPSVSSI 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 = 63.2 bits (153), Expect = 2e-10
 Identities = 27/128 (21%), Positives = 47/128 (36%), Gaps = 4/128 (3%)

Query: 464 WIACKIEKEKENFLVHAGLGLTEAPEIQNWRNVRRMSLMKNKIENLSET-PTCPHLLSLF 522
               K+E      L  A   LT    ++    V  + L  N++  L         L  L 
Sbjct: 433 NSVLKMEYADVRVLHLAHKDLTVLCHLEQLLLVTHLDLSHNRLRALPPALAALRCLEVLQ 492

Query: 523 LSDNSLKMIAGDFFQFMPSLRVFNMSNNHLL-WKLPSGISTLVSLEHLDLSGTAITHLPI 581
            SDN+L+ + G     +P L+   + NN L        + +   L  L+L G ++     
Sbjct: 493 ASDNALENVDG--VANLPRLQELLLCNNRLQQSAAIQPLVSCPRLVLLNLQGNSLCQEEG 550

Query: 582 ELQKLVNL 589
             ++L  +
Sbjct: 551 IQERLAEM 558

>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 = 6e-10
 Identities = 32/158 (20%), Positives = 63/158 (39%), Gaps = 13/158 (8%)

Query: 468 KIEKEKENFLVHAGLGLTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNS 527
            +  EKE     + L   +        ++R   L++N +           +  L L+   
Sbjct: 397 PLLYEKETLQYFSTLKAVDPMRAAYLDDLRSKFLLENSVL----KMEYADVRVLHLAHKD 452

Query: 528 LKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAITHLPIELQKLV 587
           L ++     + +  +   ++S+N L   LP  ++ L  LE L  S  A+ ++   +  L 
Sbjct: 453 LTVLCH--LEQLLLVTHLDLSHNRLR-ALPPALAALRCLEVLQASDNALENVD-GVANLP 508

Query: 588 NLKCLNLEYMYN-LNQFPRL-VMSAFSKLQVLRILKSN 623
            L+ L L    N L Q   +  + +  +L +L  L+ N
Sbjct: 509 RLQELLLC--NNRLQQSAAIQPLVSCPRLVLL-NLQGN 543

>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 = 52.1 bits (124), Expect = 6e-07
 Identities = 23/129 (17%), Positives = 44/129 (34%), Gaps = 10/129 (7%)

Query: 494 RNVRRMSLMKNKIENLS--ETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNH 551
           R +  +   K  ++  S  +         L    +   +           +RV ++++  
Sbjct: 393 RALDPLLYEKETLQYFSTLKAVDPMRAAYLDDLRSKFLLENSVLKMEYADVRVLHLAHKD 452

Query: 552 LLWKLPSGISTLVSLEHLDLSGTAITHLPIELQKLVNLKCLNLEYMYNLNQFPRLVMSAF 611
           L   +   +  L+ + HLDLS   +  LP  L  L  L+ L        N    +     
Sbjct: 453 L--TVLCHLEQLLLVTHLDLSHNRLRALPPALAALRCLEVLQASD----NALENV--DGV 504

Query: 612 SKLQVLRIL 620
           + L  L+ L
Sbjct: 505 ANLPRLQEL 513

>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 = 67.3 bits (165), Expect = 2e-12
 Identities = 32/137 (23%), Positives = 60/137 (43%), Gaps = 7/137 (5%)

Query: 495 NVRRMSLMKNKIENL-SETPT-CPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHL 552
           ++  + L  N I++L     +    L  L   + +L  +       + +L+  N+++N +
Sbjct: 77  HLSTLILTGNPIQSLALGAFSGLSSLQKLVAVETNLASLENFPIGHLKTLKELNVAHNLI 136

Query: 553 LWKLPS-GI-STLVSLEHLDLSGTAITHLPIE-LQKLVNLKCLNLEYMYNLNQFPRLVMS 609
                     S L +LEHLDLS   I  +    L+ L  +  LNL    +LN    +   
Sbjct: 137 Q-SFKLPEYFSNLTNLEHLDLSSNKIQSIYCTDLRVLHQMPLLNLSLDLSLNPMNFIQPG 195

Query: 610 AFSKLQVLRI-LKSNVL 625
           AF ++++  + L +N L
Sbjct: 196 AFKEIRLKELALDTNQL 212

>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 = 63.5 bits (155), Expect = 5e-11
 Identities = 32/131 (24%), Positives = 50/131 (38%), Gaps = 10/131 (7%)

Query: 495 NVRRMSLMKNKIENLSET--PTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHL 552
           + + + L  N + +L      + P L  L LS   ++ I    +Q +  L    ++ N +
Sbjct: 29  STKNLDLSFNPLRHLGSYSFFSFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNPI 88

Query: 553 LWKLPSGI-STLVSLEHLDLSGTAITHLPIEL-QKLVNLKCLNLEYMYNLNQFPRL-VMS 609
              L  G  S L SL+ L    T +  L       L  LK LN+ +    N      +  
Sbjct: 89  Q-SLALGAFSGLSSLQKLVAVETNLASLENFPIGHLKTLKELNVAH----NLIQSFKLPE 143

Query: 610 AFSKLQVLRIL 620
            FS L  L  L
Sbjct: 144 YFSNLTNLEHL 154

>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 = 60.0 bits (146), Expect = 7e-10
 Identities = 23/108 (21%), Positives = 45/108 (41%), Gaps = 8/108 (7%)

Query: 516 PHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGI-STLVSLEHLDLSGT 574
            HL +L L+ N ++ +A   F  + SL+       +L   L +     L +L+ L+++  
Sbjct: 76  SHLSTLILTGNPIQSLALGAFSGLSSLQKLVAVETNLA-SLENFPIGHLKTLKELNVAHN 134

Query: 575 AITHLPIE--LQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRIL 620
            I    +      L NL+ L+L      N+   +  +    L  + +L
Sbjct: 135 LIQSFKLPEYFSNLTNLEHLDLSS----NKIQSIYCTDLRVLHQMPLL 178

>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 = 46.1 bits (110), Expect = 2e-05
 Identities = 19/108 (17%), Positives = 46/108 (42%), Gaps = 9/108 (8%)

Query: 495 NVRRMSLMKNKIENLSETPTCPHLLSL---FLSDNSLKMIAGDFFQFMPSLRVFN----M 547
            ++ +++  N I++        +L +L    LS N ++ I     + +  + + N    +
Sbjct: 125 TLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNKIQSIYCTDLRVLHQMPLLNLSLDL 184

Query: 548 SNNHLLWKLPSGISTLVSLEHLDLSGTAITHLPIE-LQKLVNLKCLNL 594
           S N + + +  G    + L+ L L    +  +P     +L +L+ + L
Sbjct: 185 SLNPMNF-IQPGAFKEIRLKELALDTNQLKSVPDGIFDRLTSLQKIWL 231

>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 = 65.8 bits (161), Expect = 3e-12
 Identities = 18/127 (14%), Positives = 45/127 (35%), Gaps = 8/127 (6%)

Query: 495 NVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLW 554
           ++  ++L    + +L+      ++  L +++             + +L    +    +  
Sbjct: 45  SLTYITLANINVTDLTGIEYAHNIKDLTINNIHATNYNP--ISGLSNLERLRIMGKDVTS 102

Query: 555 KLPSGISTLVSLEHLDLSGTAITHLPIE-LQKLVNLKCLNLEYMYNLNQFPRLVMSAFSK 613
                +S L SL  LD+S +A     +  +  L  +  ++L Y   +       +     
Sbjct: 103 DKIPNLSGLTSLTLLDISHSAHDDSILTKINTLPKVNSIDLSYNGAITD-----IMPLKT 157

Query: 614 LQVLRIL 620
           L  L+ L
Sbjct: 158 LPELKSL 164

>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 = 63.8 bits (156), Expect = 1e-11
 Identities = 26/139 (18%), Positives = 55/139 (39%), Gaps = 8/139 (5%)

Query: 483 GLTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSL 542
            +T+   I+   N++ +++      N +      +L  L +    +          + SL
Sbjct: 55  NVTDLTGIEYAHNIKDLTINNIHATNYNPISGLSNLERLRIMGKDVTSDKIPNLSGLTSL 114

Query: 543 RVFNMSNNHLLWKLPSGISTLVSLEHLDLSG-TAITHLPIELQKLVNLKCLNLEYMYNLN 601
            + ++S++     + + I+TL  +  +DLS   AIT +   L+ L  LK LN+++    +
Sbjct: 115 TLLDISHSAHDDSILTKINTLPKVNSIDLSYNGAITDIM-PLKTLPELKSLNIQF----D 169

Query: 602 QFPRLVMSAFSKLQVLRIL 620
                          L  L
Sbjct: 170 GVHDY--RGIEDFPKLNQL 186

>4ezg_A Putative uncharacterized protein; internalin-A, leucine-rich repeat protein, structural genomi center for structural genomics, JCSG; HET: MSE; 1.50A {Listeria monocytogenes} Length = 197

 Score = 63.4 bits (155), Expect = 2e-11
 Identities = 34/212 (16%), Positives = 75/212 (35%), Gaps = 45/212 (21%)

Query: 492 NWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNH 551
            ++      L ++   N++E      L  + L++ ++  + G   ++  +++   ++N H
Sbjct: 21  TFKAYLNGLLGQSSTANITEA-QMNSLTYITLANINVTDLTG--IEYAHNIKDLTINNIH 77

Query: 552 LLWKLPSGISTLVSLEHLDLSGTAITHLPIE-LQKLVNLKCLNLEYMYNLNQFPRLVMSA 610
                 + IS L +LE L + G  +T   I  L  L +L  L++ +    +     +++ 
Sbjct: 78  A--TNYNPISGLSNLERLRIMGKDVTSDKIPNLSGLTSLTLLDISH----SAHDDSILTK 131

Query: 611 FSKLQVLRIL--KSNVLFGGHQFLVEELMGMKHLMALTITLKSWEALQELLISQELQRCT 668
            + L  +  +    N         + ++M +K L  L                       
Sbjct: 132 INTLPKVNSIDLSYN-------GAITDIMPLKTLPELK---------------------- 162

Query: 669 QSLFLRCFNDSKSLDIFCLACLHNLNKLYVAG 700
            SL +         D   +     LN+LY   
Sbjct: 163 -SLNI---QFDGVHDYRGIEDFPKLNQLYAFS 190

>4ezg_A Putative uncharacterized protein; internalin-A, leucine-rich repeat protein, structural genomi center for structural genomics, JCSG; HET: MSE; 1.50A {Listeria monocytogenes} Length = 197

 Score = 43.0 bits (102), Expect = 1e-04
 Identities = 16/111 (14%), Positives = 38/111 (34%), Gaps = 13/111 (11%)

Query: 473 KENFLVHAGLGLTEAPEIQNWRNVRRMSLMKNKIENLSETP--TCPHLLSLFLSDN---- 526
           +   ++   +   + P +    ++  + +  +  ++   T   T P + S+ LS N    
Sbjct: 91  ERLRIMGKDVTSDKIPNLSGLTSLTLLDISHSAHDDSILTKINTLPKVNSIDLSYNGAIT 150

Query: 527 SLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAIT 577
            +  +       +P L+  N+  + +      GI     L  L      I 
Sbjct: 151 DIMPLKT-----LPELKSLNIQFDGV--HDYRGIEDFPKLNQLYAFSQTIG 194

>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 = 67.8 bits (166), Expect = 3e-12
 Identities = 36/131 (27%), Positives = 54/131 (41%), Gaps = 9/131 (6%)

Query: 495 NVRRMSLMKNKIENLSET--PTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHL 552
            V+ + L  N+I  +S +    C +L +L L+ N +  I  D F  + SL   ++S N+L
Sbjct: 53  AVKSLDLSNNRITYISNSDLQRCVNLQALVLTSNGINTIEEDSFSSLGSLEHLDLSYNYL 112

Query: 553 LWKLPSGI-STLVSLEHLDLSGTAITHLP--IELQKLVNLKCLNLEYMYNLNQFPRLVMS 609
              L S     L SL  L+L G     L        L  L+ L +  M    +  R    
Sbjct: 113 S-NLSSSWFKPLSSLTFLNLLGNPYKTLGETSLFSHLTKLQILRVGNMDTFTKIQR---K 168

Query: 610 AFSKLQVLRIL 620
            F+ L  L  L
Sbjct: 169 DFAGLTFLEEL 179

>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 = 67.5 bits (165), Expect = 4e-12
 Identities = 21/136 (15%), Positives = 47/136 (34%), Gaps = 11/136 (8%)

Query: 495 NVRRMSLMKNKIENLSETPT---CPHLLSLFLSDN-SLKMIAGDFFQFMPSLRVFNMSNN 550
           ++  ++L+ N  + L ET        L  L + +  +   I    F  +  L    +  +
Sbjct: 125 SLTFLNLLGNPYKTLGETSLFSHLTKLQILRVGNMDTFTKIQRKDFAGLTFLEELEIDAS 184

Query: 551 HLLWKLPSGI-STLVSLEHLDLSGTAITHLP-IELQKLVNLKCLNLEYMY----NLNQFP 604
             L         ++ ++ HL L       L  I +    +++CL L        + ++  
Sbjct: 185 D-LQSYEPKSLKSIQNVSHLILHMKQHILLLEIFVDVTSSVECLELRDTDLDTFHFSELS 243

Query: 605 RLVMSAFSKLQVLRIL 620
               ++  K    R +
Sbjct: 244 TGETNSLIKKFTFRNV 259

>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 = 63.6 bits (155), Expect = 8e-11
 Identities = 14/136 (10%), Positives = 46/136 (33%), Gaps = 11/136 (8%)

Query: 494 RNVRRMSLMKNKIENLSET--PTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNH 551
             +  + +  + +++       +  ++  L L      ++   F     S+    + +  
Sbjct: 174 TFLEELEIDASDLQSYEPKSLKSIQNVSHLILHMKQHILLLEIFVDVTSSVECLELRDTD 233

Query: 552 LLW----KLPSGIST----LVSLEHLDLSGTAITHLPIELQKLVNLKCLNLEYMYNLNQF 603
           L      +L +G +       +  ++ ++  ++  +   L ++  L  L       L   
Sbjct: 234 LDTFHFSELSTGETNSLIKKFTFRNVKITDESLFQVMKLLNQISGLLELEFSRN-QLKSV 292

Query: 604 PRLVMSAFSKLQVLRI 619
           P  +    + LQ + +
Sbjct: 293 PDGIFDRLTSLQKIWL 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 = 57.4 bits (139), Expect = 8e-09
 Identities = 34/108 (31%), Positives = 53/108 (49%), Gaps = 8/108 (7%)

Query: 516 PHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGI-STLVSLEHLDLSGT 574
             + SL LS+N +  I+    Q   +L+   +++N +   +     S+L SLEHLDLS  
Sbjct: 52  EAVKSLDLSNNRITYISNSDLQRCVNLQALVLTSNGIN-TIEEDSFSSLGSLEHLDLSYN 110

Query: 575 AITHLPIEL-QKLVNLKCLNLEYMYNLNQFPRLV-MSAFSKLQVLRIL 620
            +++L     + L +L  LNL      N +  L   S FS L  L+IL
Sbjct: 111 YLSNLSSSWFKPLSSLTFLNLLG----NPYKTLGETSLFSHLTKLQIL 154

>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 = 50.9 bits (122), Expect = 1e-06
 Identities = 15/112 (13%), Positives = 33/112 (29%), Gaps = 8/112 (7%)

Query: 515 CPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGI-STLVSLEHLDLSG 573
              L  L +  + L+       + + ++    +        L         S+E L+L  
Sbjct: 173 LTFLEELEIDASDLQSYEPKSLKSIQNVSHLILHMKQH-ILLLEIFVDVTSSVECLELRD 231

Query: 574 TAITHLPI-ELQKLVNLKCLNLEYMYNL----NQFPRLVMSAFSKLQVLRIL 620
           T +      EL        +      N+        ++ M   +++  L  L
Sbjct: 232 TDLDTFHFSELSTGETNSLIKKFTFRNVKITDESLFQV-MKLLNQISGLLEL 282

>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 = 69.2 bits (170), Expect = 4e-12
 Identities = 31/119 (26%), Positives = 48/119 (40%), Gaps = 13/119 (10%)

Query: 515 CPHLLSLFLSDNSLK-MIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSG 573
           C  L+SL LS N L   I       +  LR   +  N L  ++P  +  + +LE L L  
Sbjct: 417 CSELVSLHLSFNYLSGTIPSSLGS-LSKLRDLKLWLNMLEGEIPQELMYVKTLETLILDF 475

Query: 574 TAIT-HLPIELQKLVNLKCLNLEYMYNLNQF----PRLVMSAFSKLQVLRILKSNVLFG 627
             +T  +P  L    NL  ++L      N+     P+  +     L +L  L +N   G
Sbjct: 476 NDLTGEIPSGLSNCTNLNWISLSN----NRLTGEIPK-WIGRLENLAIL-KLSNNSFSG 528

>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 = 61.5 bits (150), Expect = 8e-10
 Identities = 35/149 (23%), Positives = 61/149 (40%), Gaps = 14/149 (9%)

Query: 488 PEIQNWRNVRRMSLMKN----KIENLSETPTCPHLLSLFLSDNSL-KMIAGDFFQFMPSL 542
              +   ++  + L +N     +  L+   +C  L  L +S N+L           + SL
Sbjct: 94  SGFKCSASLTSLDLSRNSLSGPVTTLTSLGSCSGLKFLNVSSNTLDFPGKVSGGLKLNSL 153

Query: 543 RVFNMSNNHLLWKLPSGI---STLVSLEHLDLSGTAITHLPIELQKLVNLKCLNLEYMYN 599
            V ++S N +      G         L+HL +SG  I+   +++ + VNL+ L++    N
Sbjct: 154 EVLDLSANSISGANVVGWVLSDGCGELKHLAISGNKISG-DVDVSRCVNLEFLDVSSN-N 211

Query: 600 LN-QFPRLVMSAFSKLQVLRILKSNVLFG 627
            +   P L     S LQ L  +  N L G
Sbjct: 212 FSTGIPFL--GDCSALQHLD-ISGNKLSG 237

>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 = 60.7 bits (148), Expect = 1e-09
 Identities = 30/120 (25%), Positives = 48/120 (40%), Gaps = 17/120 (14%)

Query: 515 CPHLLSLFLSDNSLKMIAGD--FFQFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLS 572
           C +L  L +S N+    +    F     +L+  ++S N L       IST   L+ L++S
Sbjct: 199 CVNLEFLDVSSNNF---STGIPFLGDCSALQHLDISGNKLSGDFSRAISTCTELKLLNIS 255

Query: 573 GTAIT-HLPIELQKLVNLKCLNLEYMYNLNQF----PRLVMSAFSKLQVLRILKSNVLFG 627
                  +P     L +L+ L+L      N+F    P  +  A   L  L  L  N  +G
Sbjct: 256 SNQFVGPIPPL--PLKSLQYLSLAE----NKFTGEIPDFLSGACDTLTGLD-LSGNHFYG 308

>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 = 60.7 bits (148), Expect = 1e-09
 Identities = 31/142 (21%), Positives = 52/142 (36%), Gaps = 20/142 (14%)

Query: 490 IQNWRNVRRMSLMKNKIE--------NLSETPTCPHLLSLFLSDNSL--KMIAGDFFQFM 539
           +   R ++ + L  N+          NLS       LL+L LS N+    ++        
Sbjct: 339 LLKMRGLKVLDLSFNEFSGELPESLTNLS-----ASLLTLDLSSNNFSGPILPNLCQNPK 393

Query: 540 PSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAIT-HLPIELQKLVNLKCLNLEYMY 598
            +L+   + NN    K+P  +S    L  L LS   ++  +P  L  L  L+ L L    
Sbjct: 394 NTLQELYLQNNGFTGKIPPTLSNCSELVSLHLSFNYLSGTIPSSLGSLSKLRDLKLWL-- 451

Query: 599 NLNQFPRLVMSAFSKLQVLRIL 620
             N     +      ++ L  L
Sbjct: 452 --NMLEGEIPQELMYVKTLETL 471

>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 = 59.9 bits (146), Expect = 3e-09
 Identities = 34/150 (22%), Positives = 56/150 (37%), Gaps = 16/150 (10%)

Query: 488 PEIQNWRNVRRMSLMKNKIE-NLSETPTCPHLLSLFLSDNSLKMIAGDFFQF--MPSLRV 544
             + +   +  + L  + I  ++S       L SL LS NSL               L+ 
Sbjct: 71  SSLLSLTGLESLFLSNSHINGSVSGFKCSASLTSLDLSRNSLSGPVTTLTSLGSCSGLKF 130

Query: 545 FNMSNNHLLWKLP-SGISTLVSLEHLDLSGTAIT-HLPIELQKLVNLKCLNLEYMY-NLN 601
            N+S+N L +    SG   L SLE LDLS  +I+    +            L+++  + N
Sbjct: 131 LNVSSNTLDFPGKVSGGLKLNSLEVLDLSANSISGANVVGWVLSDGCG--ELKHLAISGN 188

Query: 602 QF----PRLVMSAFSKLQVLRILKSNVLFG 627
           +         +S    L+ L  + SN    
Sbjct: 189 KISGDVD---VSRCVNLEFLD-VSSNNFST 214

>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 = 56.1 bits (136), Expect = 4e-08
 Identities = 28/135 (20%), Positives = 46/135 (34%), Gaps = 8/135 (5%)

Query: 517 HLLSLFLSDNSLKMIAG---DFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSG 573
            + S+ LS   L +           +  L    +SN+H+   +        SL  LDLS 
Sbjct: 51  KVTSIDLSSKPLNVGFSAVSSSLLSLTGLESLFLSNSHINGSVSG-FKCSASLTSLDLSR 109

Query: 574 TAIT-HLP--IELQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRILKSNVLFGGHQ 630
            +++  +     L     LK LN+                 + L+VL  L +N + G + 
Sbjct: 110 NSLSGPVTTLTSLGSCSGLKFLNVSSNTLDFPGKVSGGLKLNSLEVLD-LSANSISGANV 168

Query: 631 FLVEELMGMKHLMAL 645
                  G   L  L
Sbjct: 169 VGWVLSDGCGELKHL 183

>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 = 53.8 bits (130), Expect = 2e-07
 Identities = 29/154 (18%), Positives = 52/154 (33%), Gaps = 28/154 (18%)

Query: 515 CPHLLSLFLSDNSLKMIAGDF---FQFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDL 571
           C +L  + LS+N L    G+       + +L +  +SNN     +P+ +    SL  LDL
Sbjct: 489 CTNLNWISLSNNRLT---GEIPKWIGRLENLAILKLSNNSFSGNIPAELGDCRSLIWLDL 545

Query: 572 SGTAIT-HLPIELQKLVNLKCLN------------------LEYMYNLNQFPRLVMSAFS 612
           +       +P  + K       N                       NL +F  +     +
Sbjct: 546 NTNLFNGTIPAAMFKQSGKIAANFIAGKRYVYIKNDGMKKECHGAGNLLEFQGIRSEQLN 605

Query: 613 KLQVLRILK-SNVLFGGHQFLVEELMGMKHLMAL 645
           +L        ++ ++GGH            +M L
Sbjct: 606 RLSTRNPCNITSRVYGGH--TSPTFDNNGSMMFL 637

>3rgz_A Protein brassinosteroid insensitive 1; phytohormone, leucine-rich RE receptor-like kinases, leucine-rich repeat; HET: NAG BLD; 2.28A {Arabidopsis thaliana} PDB: 3rgx_A* 3riz_A* 3rj0_A* Length = 768

 Score = 51.4 bits (124), Expect = 1e-06
 Identities = 21/130 (16%), Positives = 40/130 (30%), Gaps = 19/130 (14%)

Query: 501 LMKNKIEN--LSETPTCPHLLSLFLSDNSLKM---IAGDFFQFMPSLRVFNMSNNHLLWK 555
           +  N I                   + N L+     +    +   +    N+++      
Sbjct: 565 IAANFIAGKRYVYIKNDGMKKECHGAGNLLEFQGIRSEQLNRL-STRNPCNITSRVYGGH 623

Query: 556 LPSGISTLVSLEHLDLSGTAIT-HLPIELQKLVNLKCLNLEYMYNLNQF----PRLVMSA 610
                    S+  LD+S   ++ ++P E+  +  L  LNL +    N      P      
Sbjct: 624 TSPTFDNNGSMMFLDMSYNMLSGYIPKEIGSMPYLFILNLGH----NDISGSIP----DE 675

Query: 611 FSKLQVLRIL 620
              L+ L IL
Sbjct: 676 VGDLRGLNIL 685

>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 = 68.2 bits (167), Expect = 5e-12
 Identities = 23/135 (17%), Positives = 44/135 (32%), Gaps = 11/135 (8%)

Query: 492 NWRNVRRMSLMKNKIENLSETP----TCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNM 547
           +       S      ++             + +  LS + +  +    F     L    +
Sbjct: 247 SNSYNMGSSFGHTNFKDPDNFTFKGLEASGVKTCDLSKSKIFALLKSVFSHFTDLEQLTL 306

Query: 548 SNNHLLWKLPSGI-STLVSLEHLDLSGTAITHLPIEL-QKLVNLKCLNLEYMYNLNQFPR 605
           + N +  K+       L  L  L+LS   +  +   + + L  L+ L+L Y    N    
Sbjct: 307 AQNEIN-KIDDNAFWGLTHLLKLNLSQNFLGSIDSRMFENLDKLEVLDLSY----NHIRA 361

Query: 606 LVMSAFSKLQVLRIL 620
           L   +F  L  L+ L
Sbjct: 362 LGDQSFLGLPNLKEL 376

>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 = 67.5 bits (165), Expect = 7e-12
 Identities = 38/130 (29%), Positives = 55/130 (42%), Gaps = 9/130 (6%)

Query: 495 NVRRMSLMKNKIENLSET--PTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHL 552
            V+   L K+KI  L ++       L  L L+ N +  I  + F  +  L   N+S N  
Sbjct: 276 GVKTCDLSKSKIFALLKSVFSHFTDLEQLTLAQNEINKIDDNAFWGLTHLLKLNLSQNF- 334

Query: 553 LWKLPSGI-STLVSLEHLDLSGTAITHLPIEL-QKLVNLKCLNLEYMYNLNQFPRLVMSA 610
           L  + S +   L  LE LDLS   I  L  +    L NLK L L+     NQ   +    
Sbjct: 335 LGSIDSRMFENLDKLEVLDLSYNHIRALGDQSFLGLPNLKELALDT----NQLKSVPDGI 390

Query: 611 FSKLQVLRIL 620
           F +L  L+ +
Sbjct: 391 FDRLTSLQKI 400

>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 = 66.7 bits (163), Expect = 1e-11
 Identities = 26/116 (22%), Positives = 39/116 (33%), Gaps = 5/116 (4%)

Query: 508 NLSETPTCP-HLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGI-STLVS 565
            L + P  P H+  + LS NS+  +    F  +  L+   +        + +     L S
Sbjct: 21  GLHQVPELPAHVNYVDLSLNSIAELNETSFSRLQDLQFLKVEQQTPGLVIRNNTFRGLSS 80

Query: 566 LEHLDLSGTAITHLPIE-LQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRIL 620
           L  L L       L       L NL+ L L           L  + F  L  L +L
Sbjct: 81  LIILKLDYNQFLQLETGAFNGLANLEVLTL--TQCNLDGAVLSGNFFKPLTSLEML 134

>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 = 65.9 bits (161), Expect = 2e-11
 Identities = 46/300 (15%), Positives = 90/300 (30%), Gaps = 51/300 (17%)

Query: 481 GLGLTEAPEIQNWRNVRRMSLMKNKIENLSET--PTCPHLLSLFLSDNSLKM-IAGDFFQ 537
             GL + PE+    +V  + L  N I  L+ET       L  L +   +  + I  + F+
Sbjct: 19  NRGLHQVPELPA--HVNYVDLSLNSIAELNETSFSRLQDLQFLKVEQQTPGLVIRNNTFR 76

Query: 538 FMPSLRVFNMSNNHLLWKLPSGI-STLVSLEHLDLSGTAITHLPIE---LQKLVNLKCL- 592
            + SL +  +  N  L +L +G  + L +LE L L+   +    +     + L +L+ L 
Sbjct: 77  GLSSLIILKLDYNQFL-QLETGAFNGLANLEVLTLTQCNLDGAVLSGNFFKPLTSLEMLV 135

Query: 593 -------------------NLEYMY-NLNQFPRLVMSAFSKLQVLRI----LKSNVLFGG 628
                                  +    N+   +        Q        L S  L   
Sbjct: 136 LRDNNIKKIQPASFFLNMRRFHVLDLTFNKVKSICEEDLLNFQGKHFTLLRLSSITLQDM 195

Query: 629 HQFLVEELM-----GMKHLMALTITLKSWEALQELLISQELQRCTQSLFLRCFNDSKSLD 683
           +++ +             +  L ++   ++          +   T+   L   N      
Sbjct: 196 NEYWLGWEKCGNPFKNTSITTLDLSGNGFKESMAKRFFDAIA-GTKIQSLILSNSYNMGS 254

Query: 684 IFCLACLHNLNKLYVAGRKHLEDFQMTVQRSSVNQLARGFHSLHTVKVGFCFKLKDLTWL 743
            F      + +     G   LE   +     S +++         +         DL  L
Sbjct: 255 SFGHTNFKDPDNFTFKG---LEASGVKTCDLSKSKIF-------ALLKSVFSHFTDLEQL 304

>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 = 57.1 bits (138), Expect = 2e-08
 Identities = 27/105 (25%), Positives = 49/105 (46%), Gaps = 5/105 (4%)

Query: 495 NVRRMSLMKNKIENLSET--PTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHL 552
           ++ +++L +N+I  + +       HLL L LS N L  I    F+ +  L V ++S NH 
Sbjct: 300 DLEQLTLAQNEINKIDDNAFWGLTHLLKLNLSQNFLGSIDSRMFENLDKLEVLDLSYNH- 358

Query: 553 LWKLPSGI-STLVSLEHLDLSGTAITHLPIE-LQKLVNLKCLNLE 595
           +  L       L +L+ L L    +  +P     +L +L+ + L 
Sbjct: 359 IRALGDQSFLGLPNLKELALDTNQLKSVPDGIFDRLTSLQKIWLH 403

>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 = 47.4 bits (113), Expect = 1e-05
 Identities = 19/82 (23%), Positives = 38/82 (46%), Gaps = 4/82 (4%)

Query: 495 NVRRMSLMKNKIENLSETP--TCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHL 552
           ++ +++L +N + ++          L  L LS N ++ +    F  +P+L+   +  N L
Sbjct: 324 HLLKLNLSQNFLGSIDSRMFENLDKLEVLDLSYNHIRALGDQSFLGLPNLKELALDTNQL 383

Query: 553 LWKLPSGI-STLVSLEHLDLSG 573
              +P GI   L SL+ + L  
Sbjct: 384 -KSVPDGIFDRLTSLQKIWLHT 404

>1xeu_A Internalin C; cellular invasion, leucine-rich repeat, cell invasion; 2.05A {Listeria monocytogenes} Length = 263

 Score = 65.4 bits (160), Expect = 9e-12
 Identities = 42/200 (21%), Positives = 81/200 (40%), Gaps = 28/200 (14%)

Query: 504 NKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTL 563
             I  +   P   + +   L   S+  +     + +  ++ FN  N+++  +  +G+   
Sbjct: 7   TPINQVFPDPGLANAVKQNLGKQSVTDLVS--QKELSGVQNFNGDNSNI--QSLAGMQFF 62

Query: 564 VSLEHLDLSGTAITHLPIELQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRILKSN 623
            +L+ L LS   I+ L   L+ L  L+ L++      N+   L     + L  L  L +N
Sbjct: 63  TNLKELHLSHNQISDLS-PLKDLTKLEELSVNR----NRLKNLNGIPSACLSRL-FLDNN 116

Query: 624 VLFGGHQFLVEELMGMKHLMALTIT---LKSWEALQELLISQELQRCTQSLFLRCFNDSK 680
            L        + L+ +K+L  L+I    LKS   L  L    +L    + L L   + ++
Sbjct: 117 ELRD-----TDSLIHLKNLEILSIRNNKLKSIVMLGFL---SKL----EVLDL---HGNE 161

Query: 681 SLDIFCLACLHNLNKLYVAG 700
             +   L  L  +N + + G
Sbjct: 162 ITNTGGLTRLKKVNWIDLTG 181

>1xeu_A Internalin C; cellular invasion, leucine-rich repeat, cell invasion; 2.05A {Listeria monocytogenes} Length = 263

 Score = 63.1 bits (154), Expect = 5e-11
 Identities = 34/188 (18%), Positives = 69/188 (36%), Gaps = 20/188 (10%)

Query: 483 GLTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSL 542
            +T+    +    V+  +   + I++L+      +L  L LS N +  ++    + +  L
Sbjct: 30  SVTDLVSQKELSGVQNFNGDNSNIQSLAGMQFFTNLKELHLSHNQISDLSP--LKDLTKL 87

Query: 543 RVFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAITHLPIELQKLVNLKCLNLEYMYNLNQ 602
              +++ N L  K  +GI +   L  L L    +      L  L NL+ L++      N+
Sbjct: 88  EELSVNRNRL--KNLNGIPSA-CLSRLFLDNNELRDTD-SLIHLKNLEILSIRN----NK 139

Query: 603 FPRLVMSAFSKLQVLRILKSNVLFGGHQFLVEELMGMKHLMAL-----TITLKSWEALQE 657
              +       L  L +L    L G        L  +K +  +         +  +   E
Sbjct: 140 LKSI--VMLGFLSKLEVLD---LHGNEITNTGGLTRLKKVNWIDLTGQKCVNEPVKYQPE 194

Query: 658 LLISQELQ 665
           L I+  ++
Sbjct: 195 LYITNTVK 202

>1xeu_A Internalin C; cellular invasion, leucine-rich repeat, cell invasion; 2.05A {Listeria monocytogenes} Length = 263

 Score = 45.0 bits (107), Expect = 5e-05
 Identities = 20/146 (13%), Positives = 53/146 (36%), Gaps = 9/146 (6%)

Query: 484 LTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLR 543
           L +   + + +N+  +S+  NK++++        L  L L  N +          +  + 
Sbjct: 118 LRDTDSLIHLKNLEILSIRNNKLKSIVMLGFLSKLEVLDLHGNEITNT--GGLTRLKKVN 175

Query: 544 VFNMSNNHLLWKLPSGISTLVSLEHL-DLSGTAITHLPIELQKLVNLKCLNLEYMYNLNQ 602
             +++    + +       L     + D  G  I+  P  +    +    +   ++ L  
Sbjct: 176 WIDLTGQKCVNEPVKYQPELYITNTVKDPDGRWIS--PYYISNGGSYV--DGCVLWELPV 231

Query: 603 FPRLVMSAFSKLQVLRILKSNVLFGG 628
           +   V   FS  + + + ++  +F G
Sbjct: 232 YTDEVSYKFS--EYINVGETEAIFDG 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 = 64.9 bits (158), Expect = 5e-11
 Identities = 44/209 (21%), Positives = 75/209 (35%), Gaps = 17/209 (8%)

Query: 495 NVRRMSLMKNKIENLSET--PTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHL 552
             + +SL +N I  L          L  L LS N ++ +    F F   L   ++S+N  
Sbjct: 53  RTKALSLSQNSISELRMPDISFLSELRVLRLSHNRIRSLDFHVFLFNQDLEYLDVSHNR- 111

Query: 553 LWKLPSGISTLVSLEHLDLSGTAITHLPI--ELQKLVNLKCLNLEYMYNLNQFPRLVMSA 610
           L  +      + SL HLDLS      LP+  E   L  L  L L       +F +L +  
Sbjct: 112 LQNISCC--PMASLRHLDLSFNDFDVLPVCKEFGNLTKLTFLGLSA----AKFRQLDLLP 165

Query: 611 FSKLQV----LRILKSNVLFGGHQFLVEELMGMKHLMALTITLKSWEALQELLISQELQR 666
            + L +    L ++  ++  G  + L      + HL+    +L S +    +     LQ 
Sbjct: 166 VAHLHLSCILLDLVSYHIKGGETESLQIPNTTVLHLVFHPNSLFSVQVNMSVNALGHLQ- 224

Query: 667 CTQSLFLRCFNDSKSLDIFCLACLHNLNK 695
              ++ L   N  + +             
Sbjct: 225 -LSNIKLNDENCQRLMTFLSELTRGPTLL 252

>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 = 64.5 bits (157), Expect = 8e-11
 Identities = 28/137 (20%), Positives = 54/137 (39%), Gaps = 15/137 (10%)

Query: 492 NWRNVRRMSLMKNKIENLSETPTCP-HLLSLFLSDNSLK----MIAGDFFQFMPSLRVFN 546
             + ++ + L +N ++N  +      ++ SL   D SL             +  S+ V N
Sbjct: 375 TLKRLQTLILQRNGLKNFFKVALMTKNMSSLETLDVSLNSLNSHAYDRTCAWAESILVLN 434

Query: 547 MSNNHLLWKLPSGI--STLVSLEHLDLSGTAITHLPIELQKLVNLKCLNLEYMYNLNQFP 604
           +S+N     L   +       ++ LDL    I  +P ++  L  L+ LN+      NQ  
Sbjct: 435 LSSN----MLTGSVFRCLPPKVKVLDLHNNRIMSIPKDVTHLQALQELNV----ASNQLK 486

Query: 605 RLVMSAFSKLQVLRILK 621
            +    F +L  L+ + 
Sbjct: 487 SVPDGVFDRLTSLQYIW 503

>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 = 58.0 bits (140), Expect = 9e-09
 Identities = 29/107 (27%), Positives = 47/107 (43%), Gaps = 9/107 (8%)

Query: 516 PHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGI-STLVSLEHLDLSGT 574
           P   +L LS NS+  +      F+  LRV  +S+N  +  L   +      LE+LD+S  
Sbjct: 52  PRTKALSLSQNSISELRMPDISFLSELRVLRLSHNR-IRSLDFHVFLFNQDLEYLDVSHN 110

Query: 575 AITHLPIELQKLVNLKCLNLEYMYNLNQFPRL-VMSAFSKLQVLRIL 620
            + ++      + +L+ L+L +    N F  L V   F  L  L  L
Sbjct: 111 RLQNISC--CPMASLRHLDLSF----NDFDVLPVCKEFGNLTKLTFL 151

>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 = 51.8 bits (124), Expect = 7e-07
 Identities = 23/113 (20%), Positives = 34/113 (30%), Gaps = 6/113 (5%)

Query: 517 HLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAI 576
            +    LS +    I         S    N + N     +  G STL  L+ L L    +
Sbjct: 330 EMNIKMLSISDTPFIHMVCPPSPSSFTFLNFTQNVFTDSVFQGCSTLKRLQTLILQRNGL 389

Query: 577 THLPIELQKLVNLKCLNLEYMYNLNQFPRLVMSAF----SKLQVLRILKSNVL 625
            +         N+  L    +  LN                + VL  L SN+L
Sbjct: 390 KNFFKVALMTKNMSSLETLDVS-LNSLNSHAYDRTCAWAESILVLN-LSSNML 440

>3a79_B TLR6, VLRB.59, TOLL-like receptor 6, variable lymphocyte recepto; diacyl lipopeptide, innate immunity, Leu repeat, cell membrane, cytoplasmic vesicle; HET: PXS NAG BMA NDG; 2.90A {Mus musculus} Length = 562

 Score = 46.8 bits (111), Expect = 3e-05
 Identities = 21/130 (16%), Positives = 39/130 (30%), Gaps = 11/130 (8%)

Query: 495 NVRRMSLMKNKIENLSETPT--CPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHL 552
            +    L  +    +             L  + N            +  L+   +  N L
Sbjct: 330 EMNIKMLSISDTPFIHMVCPPSPSSFTFLNFTQNVFTDSVFQGCSTLKRLQTLILQRNGL 389

Query: 553 --LWKLPSGISTLVSLEHLDLSGTAITHLPIEL--QKLVNLKCLNLEYMYNLNQFPRLVM 608
              +K+      + SLE LD+S  ++     +       ++  LNL      N     V 
Sbjct: 390 KNFFKVALMTKNMSSLETLDVSLNSLNSHAYDRTCAWAESILVLNLSS----NMLTGSVF 445

Query: 609 SAF-SKLQVL 617
                K++VL
Sbjct: 446 RCLPPKVKVL 455

>2o6q_A Variable lymphocyte receptor A; leucine-rich repeat protein, LRR, immune system; 2.50A {Eptatretus burgeri} Length = 270

 Score = 62.7 bits (153), Expect = 9e-11
 Identities = 36/130 (27%), Positives = 59/130 (45%), Gaps = 9/130 (6%)

Query: 495 NVRRMSLMKNKIENLSET--PTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHL 552
           + +++ L  NK+ +L          L  L+L+DN L+ +    F+ + +L    +++N  
Sbjct: 38  DTKKLDLQSNKLSSLPSKAFHRLTKLRLLYLNDNKLQTLPAGIFKELKNLETLWVTDNK- 96

Query: 553 LWKLPSGI-STLVSLEHLDLSGTAITHLPIEL-QKLVNLKCLNLEYMYNLNQFPRLVMSA 610
           L  LP G+   LV+L  L L    +  LP  +   L  L  L+L Y    N+   L    
Sbjct: 97  LQALPIGVFDQLVNLAELRLDRNQLKSLPPRVFDSLTKLTYLSLGY----NELQSLPKGV 152

Query: 611 FSKLQVLRIL 620
           F KL  L+ L
Sbjct: 153 FDKLTSLKEL 162

>2o6q_A Variable lymphocyte receptor A; leucine-rich repeat protein, LRR, immune system; 2.50A {Eptatretus burgeri} Length = 270

 Score = 61.5 bits (150), Expect = 2e-10
 Identities = 37/131 (28%), Positives = 59/131 (45%), Gaps = 9/131 (6%)

Query: 494 RNVRRMSLMKNKIENLSE-TPTC-PHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNH 551
             +R + L  NK++ L         +L +L+++DN L+ +    F  + +L    +  N 
Sbjct: 61  TKLRLLYLNDNKLQTLPAGIFKELKNLETLWVTDNKLQALPIGVFDQLVNLAELRLDRNQ 120

Query: 552 LLWKLPSGI-STLVSLEHLDLSGTAITHLPIEL-QKLVNLKCLNLEYMYNLNQFPRLVMS 609
           L   LP  +  +L  L +L L    +  LP  +  KL +LK L L      NQ  R+   
Sbjct: 121 LK-SLPPRVFDSLTKLTYLSLGYNELQSLPKGVFDKLTSLKELRLYN----NQLKRVPEG 175

Query: 610 AFSKLQVLRIL 620
           AF KL  L+ L
Sbjct: 176 AFDKLTELKTL 186

>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 = 60.5 bits (147), Expect = 1e-10
 Identities = 29/108 (26%), Positives = 45/108 (41%), Gaps = 5/108 (4%)

Query: 490 IQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSN 549
           +   +  + ++L  N IE +S      +L  L L  N +K I         +L    +S 
Sbjct: 44  LSTLKACKHLALSTNNIEKISSLSGMENLRILSLGRNLIKKIEN-LDAVADTLEELWISY 102

Query: 550 NHLLWKLPSGISTLVSLEHLDLSGTAITHLPI--ELQKLVNLKCLNLE 595
           N +     SGI  LV+L  L +S   IT+     +L  L  L+ L L 
Sbjct: 103 NQI--ASLSGIEKLVNLRVLYMSNNKITNWGEIDKLAALDKLEDLLLA 148

>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 = 63.4 bits (154), Expect = 2e-10
 Identities = 70/362 (19%), Positives = 106/362 (29%), Gaps = 63/362 (17%)

Query: 477 LVHAGLGLTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFF 536
           L      LT  P + +   + ++ +  N++ +L   P  P L  L +SDN L  +     
Sbjct: 106 LSIFSNPLTHLPALPS--GLCKLWIFGNQLTSLPVLP--PGLQELSVSDNQLASLPALP- 160

Query: 537 QFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAITHLPIELQKLVNLKCLNLEY 596
                L      NN L   LP   S    L+ L +S   +  LP    +L  L   N   
Sbjct: 161 ---SELCKLWAYNNQL-TSLPMLPS---GLQELSVSDNQLASLPTLPSELYKLWAYNN-- 211

Query: 597 MYNLNQFPRLVMSAFSKLQVLRILKSNVLFGGHQFLVEELMGMKHLMALTITLKSWEALQ 656
              L   P L     S L+ L I+  N L      L      +K LM     L S     
Sbjct: 212 --RLTSLPALP----SGLKEL-IVSGNRL----TSLPVLPSELKELMVSGNRLTS----- 255

Query: 657 ELLISQELQRCTQSLFLRCFNDSKSLDIFCLACLHNLNKLYVAG-----RKHLEDFQMTV 711
              +         SL +   N    L    L  L +   + + G     R      ++T 
Sbjct: 256 ---LPMLPSGLL-SLSVYR-NQLTRLP-ESLIHLSSETTVNLEGNPLSERTLQALREITS 309

Query: 712 QRSSVNQLARGFHSLHTV-KVGFCFKLKDLTWLVFAPSLKSIVVLSCCNMEQIIKAEKLS 770
                  + R   +  +  +      L    WLV A   +           Q   A+  S
Sbjct: 310 APGYSGPIIRFDMAGASAPRETRALHLAAADWLVPAREGEPAPADRWHMFGQEDNADAFS 369

Query: 771 QL----------HHHPERKKSVFAKLQFLS-LENLRNL----------CCINWEALAFPN 809
                             K  + + L  L+  E LR             C +        
Sbjct: 370 LFLDRLSETENFIKDAGFKAQISSWLAQLAEDEALRANTFAMATEATSSCEDRVTFFLHQ 429

Query: 810 LK 811
           +K
Sbjct: 430 MK 431

>3g06_A SSPH2 (leucine-rich repeat protein); E3 ubiquitin ligase, leucine rich repeat domain, type three effector, salmonella virulence factor; 1.90A {Salmonella typhimurium} Length = 622

 Score = 60.7 bits (147), Expect = 1e-09
 Identities = 25/131 (19%), Positives = 44/131 (33%), Gaps = 17/131 (12%)

Query: 491 QNWRNVRRMSLMKNKIENLSETPTC--PHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMS 548
             WR        + +   + +   C       L + ++ L  +          +    + 
Sbjct: 13  SAWRRAAPAEESRGRAAVVQKMRACLNNGNAVLNVGESGLTTLPDCLPA---HITTLVIP 69

Query: 549 NNHLLWKLPSGISTLVSLEHLDLSGTAITHLPIELQKLVNLKCLNLEYMYNLNQFPRLVM 608
           +N+L   LP+       L  L++SG  +T LP+    L+ L   +      L   P L  
Sbjct: 70  DNNLT-SLPALPP---ELRTLEVSGNQLTSLPVLPPGLLELSIFSN----PLTHLPAL-- 119

Query: 609 SAFSKLQVLRI 619
              S L  L I
Sbjct: 120 --PSGLCKLWI 128

>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 = 60.4 bits (147), Expect = 2e-10
 Identities = 34/102 (33%), Positives = 48/102 (47%), Gaps = 7/102 (6%)

Query: 521 LFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGI-STLVSLEHLDLSGTAITHL 579
           + L  N++K+I    F     LR  ++SNN  + +L       L SL  L L G  IT L
Sbjct: 37  IRLEQNTIKVIPPGAFSPYKKLRRIDLSNNQ-ISELAPDAFQGLRSLNSLVLYGNKITEL 95

Query: 580 PIEL-QKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRIL 620
           P  L + L +L+ L L    N N+   L + AF  L  L +L
Sbjct: 96  PKSLFEGLFSLQLLLL----NANKINCLRVDAFQDLHNLNLL 133

>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 = 47.3 bits (113), Expect = 5e-06
 Identities = 22/105 (20%), Positives = 43/105 (40%), Gaps = 5/105 (4%)

Query: 494 RNVRRMSLMKNKIENLSET--PTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNH 551
           + +RR+ L  N+I  L+         L SL L  N +  +    F+ + SL++  ++ N 
Sbjct: 56  KKLRRIDLSNNQISELAPDAFQGLRSLNSLVLYGNKITELPKSLFEGLFSLQLLLLNANK 115

Query: 552 LLWKLPSGI-STLVSLEHLDLSGTAITHLPIE-LQKLVNLKCLNL 594
            +  L       L +L  L L    +  +       L  ++ ++L
Sbjct: 116 -INCLRVDAFQDLHNLNLLSLYDNKLQTIAKGTFSPLRAIQTMHL 159

>3cvr_A Invasion plasmid antigen; leucine rich repeat and alpha fold, ligase; 2.80A {Shigella flexneri 2A} Length = 571

 Score = 62.7 bits (152), Expect = 3e-10
 Identities = 25/141 (17%), Positives = 45/141 (31%), Gaps = 20/141 (14%)

Query: 484 LTEAPE--IQNWRNVRRMSLMKNKIENLSETP---TCPHLLSLFLSDNSLKMIAGDFFQF 538
           ++         W    + +L                      L L+  +L  +  +    
Sbjct: 22  ISGTYADYFSAWDKWEKQALPGENRNEAVSLLKECLINQFSELQLNRLNLSSLPDNLP-- 79

Query: 539 MPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAITHLPIELQKLVNLKCLNLEYMY 598
            P + V  ++ N L+  LP   +   SLE+LD     ++ LP     L +L   N     
Sbjct: 80  -PQITVLEITQNALI-SLPELPA---SLEYLDACDNRLSTLPELPASLKHLDVDN----- 129

Query: 599 NLNQFPRLVMSAFSKLQVLRI 619
             NQ   L     + L+ +  
Sbjct: 130 --NQLTML-PELPALLEYINA 147

>3cvr_A Invasion plasmid antigen; leucine rich repeat and alpha fold, ligase; 2.80A {Shigella flexneri 2A} Length = 571

 Score = 59.6 bits (144), Expect = 3e-09
 Identities = 36/190 (18%), Positives = 67/190 (35%), Gaps = 15/190 (7%)

Query: 484 LTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLR 543
           L+  PE     +++ + +  N++  L E P    L  +   +N L M+     +   SL 
Sbjct: 112 LSTLPE--LPASLKHLDVDNNQLTMLPELPA--LLEYINADNNQLTMLP----ELPTSLE 163

Query: 544 VFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAITHLPIELQKLVNLKCLNLEYMYNLNQF 603
           V ++ NN L   LP       SLE LD+S   +  LP    +  + +   + +    N+ 
Sbjct: 164 VLSVRNNQL-TFLPELPE---SLEALDVSTNLLESLPAVPVRNHHSEETEIFFRCRENRI 219

Query: 604 PRL--VMSAFSKLQVLRILKSNVLFGGHQFLVEELMGMKHLMALTITLKSWEALQELLIS 661
             +   + +      + IL+ N L    +  + +           I     +  Q  L  
Sbjct: 220 THIPENILSLDPTCTI-ILEDNPLSSRIRESLSQQTAQPDYHGPRIYFSMSDGQQNTLHR 278

Query: 662 QELQRCTQSL 671
                 T   
Sbjct: 279 PLADAVTAWF 288

>3cvr_A Invasion plasmid antigen; leucine rich repeat and alpha fold, ligase; 2.80A {Shigella flexneri 2A} Length = 571

 Score = 48.4 bits (115), Expect = 8e-06
 Identities = 33/193 (17%), Positives = 62/193 (32%), Gaps = 53/193 (27%)

Query: 499 MSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQ--------------------- 537
           MS+M     N S        LS     N++     D+F                      
Sbjct: 1   MSIMLPINNNFS--------LSQNSFYNTISGTYADYFSAWDKWEKQALPGENRNEAVSL 52

Query: 538 ----FMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAITHLPIELQKLVNLKCLN 593
                +       ++  +L   LP  +     +  L+++  A+  LP     L  L   +
Sbjct: 53  LKECLINQFSELQLNRLNL-SSLPDNLPP--QITVLEITQNALISLPELPASLEYLDACD 109

Query: 594 LEYMYNLNQFPRLVMSAFSKLQVLRILKSNVLFGGHQFLVEELMGMKHLMA----LTITL 649
                 L+  P L     + L+ L  + +N L      L E    ++++ A    LT+  
Sbjct: 110 N----RLSTLPEL----PASLKHLD-VDNNQL----TMLPELPALLEYINADNNQLTMLP 156

Query: 650 KSWEALQELLISQ 662
           +   +L+ L +  
Sbjct: 157 ELPTSLEVLSVRN 169

>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 = 57.1 bits (138), Expect = 1e-09
 Identities = 33/117 (28%), Positives = 51/117 (43%), Gaps = 8/117 (6%)

Query: 505 KIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLV 564
           KIE L+      +L  L L +  L  ++      +P L+   +S N +   L      L 
Sbjct: 40  KIEGLTAE--FVNLEFLSLINVGLISVSN--LPKLPKLKKLELSENRIFGGLDMLAEKLP 95

Query: 565 SLEHLDLSGTAITHLP--IELQKLVNLKCLNLEY--MYNLNQFPRLVMSAFSKLQVL 617
           +L HL+LSG  +  +     L+KL  LK L+L    + NLN +   V     +L  L
Sbjct: 96  NLTHLNLSGNKLKDISTLEPLKKLECLKSLDLFNCEVTNLNDYRESVFKLLPQLTYL 152

>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 = 54.4 bits (131), Expect = 1e-08
 Identities = 24/88 (27%), Positives = 40/88 (45%), Gaps = 1/88 (1%)

Query: 494 RNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHL- 552
            N+  +SL+   + ++S  P  P L  L LS+N +        + +P+L   N+S N L 
Sbjct: 49  VNLEFLSLINVGLISVSNLPKLPKLKKLELSENRIFGGLDMLAEKLPNLTHLNLSGNKLK 108

Query: 553 LWKLPSGISTLVSLEHLDLSGTAITHLP 580
                  +  L  L+ LDL    +T+L 
Sbjct: 109 DISTLEPLKKLECLKSLDLFNCEVTNLN 136

>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 = 57.4 bits (139), Expect = 3e-09
 Identities = 24/103 (23%), Positives = 47/103 (45%), Gaps = 8/103 (7%)

Query: 521 LFLSDNSLKMI-AGDFFQFMPSLRVFNMSNNHLLWKLPSGI-STLVSLEHLDLSGTAITH 578
           L L++N   ++ A   F+ +P LR  N SNN +   +  G       +  + L+   + +
Sbjct: 37  LRLNNNEFTVLEATGIFKKLPQLRKINFSNNKI-TDIEEGAFEGASGVNEILLTSNRLEN 95

Query: 579 LPIEL-QKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRIL 620
           +  ++ + L +LK L L      N+   +   +F  L  +R+L
Sbjct: 96  VQHKMFKGLESLKTLMLRS----NRITCVGNDSFIGLSSVRLL 134

>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 = 48.5 bits (116), Expect = 2e-06
 Identities = 23/108 (21%), Positives = 46/108 (42%), Gaps = 5/108 (4%)

Query: 491 QNWRNVRRMSLMKNKIENLSET--PTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMS 548
           +    +R+++   NKI ++ E        +  + L+ N L+ +    F+ + SL+   + 
Sbjct: 54  KKLPQLRKINFSNNKITDIEEGAFEGASGVNEILLTSNRLENVQHKMFKGLESLKTLMLR 113

Query: 549 NNHLLWKLPSGI-STLVSLEHLDLSGTAITHLPIE-LQKLVNLKCLNL 594
           +N  +  + +     L S+  L L    IT +       L +L  LNL
Sbjct: 114 SNR-ITCVGNDSFIGLSSVRLLSLYDNQITTVAPGAFDTLHSLSTLNL 160

>1wwl_A Monocyte differentiation antigen CD14; LPS, immune system; HET: NAG; 2.50A {Mus musculus} Length = 312

 Score = 58.4 bits (141), Expect = 3e-09
 Identities = 28/158 (17%), Positives = 53/158 (33%), Gaps = 17/158 (10%)

Query: 473 KENFLVHAGLGLTEAPEIQNWRNVRRMSLMKNKIENLSETP------TCPHLLSLFLSDN 526
           K   +  A        +++ +  +  + L  N                 P L  L L + 
Sbjct: 152 KVLSIAQAHSLNFSCEQVRVFPALSTLDLSDNPELGERGLISALCPLKFPTLQVLALRNA 211

Query: 527 SLKMIAGDF---FQFMPSLRVFNMSNNHLLWKLPSGI-STLVSLEHLDLSGTAITHLPIE 582
            ++  +G           L+  ++S+N L     +        L  L+LS T +  +P  
Sbjct: 212 GMETPSGVCSALAAARVQLQGLDLSHNSLRDAAGAPSCDWPSQLNSLNLSFTGLKQVPKG 271

Query: 583 LQKLVNLKCLNLEYMYN-LNQFPRLVMSAFSKLQVLRI 619
           L     L  L+L   YN L++ P        ++  L +
Sbjct: 272 L--PAKLSVLDLS--YNRLDRNPSP--DELPQVGNLSL 303

>1wwl_A Monocyte differentiation antigen CD14; LPS, immune system; HET: NAG; 2.50A {Mus musculus} Length = 312

 Score = 53.4 bits (128), Expect = 1e-07
 Identities = 24/135 (17%), Positives = 41/135 (30%), Gaps = 37/135 (27%)

Query: 516 PHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKL-------PSGISTLVSL-- 566
           P L  L ++       + +  +  P+L   ++S+N  L +        P    TL  L  
Sbjct: 149 PGLKVLSIAQAHSLNFSCEQVRVFPALSTLDLSDNPELGERGLISALCPLKFPTLQVLAL 208

Query: 567 ----------------------EHLDLSGTAITHLPIEL--QKLVNLKCLNLEYMYNLNQ 602
                                 + LDLS  ++              L  LNL +      
Sbjct: 209 RNAGMETPSGVCSALAAARVQLQGLDLSHNSLRDAAGAPSCDWPSQLNSLNLSF----TG 264

Query: 603 FPRLVMSAFSKLQVL 617
             ++     +KL VL
Sbjct: 265 LKQVPKGLPAKLSVL 279

>1wwl_A Monocyte differentiation antigen CD14; LPS, immune system; HET: NAG; 2.50A {Mus musculus} Length = 312

 Score = 48.4 bits (115), Expect = 5e-06
 Identities = 26/198 (13%), Positives = 50/198 (25%), Gaps = 36/198 (18%)

Query: 508 NLSETPTCPHLLSLFLSDNSLKM-IAGDFFQF--MPSLRVFNMSNNHLLWKLPSGIS--T 562
             ++      L  L +    +   I     +   +  L+   + N  +    P  +   T
Sbjct: 60  QFTDIIKSLSLKRLTVRAARIPSRILFGALRVLGISGLQELTLENLEVTGTAPPPLLEAT 119

Query: 563 LVSLEHLDLSGTAITHLPIELQKLVNLKCLNLEYMY----NLNQFPRLVMSAFSKLQVLR 618
              L  L+L   +       L +L       L+ +     +   F    +  F  L  L 
Sbjct: 120 GPDLNILNLRNVSWATRDAWLAELQQWLKPGLKVLSIAQAHSLNFSCEQVRVFPALSTLD 179

Query: 619 ILKSNVLFGGHQFLVEELMGMKHLMALTITLKSWEALQELLISQELQRCTQSLFLRCFND 678
            L  N   G               +   +    +  LQ L +                  
Sbjct: 180 -LSDNPELGERG------------LISALCPLKFPTLQVLALRN--------------AG 212

Query: 679 SKSLDIFCLACLHNLNKL 696
            ++    C A      +L
Sbjct: 213 METPSGVCSALAAARVQL 230

>1wwl_A Monocyte differentiation antigen CD14; LPS, immune system; HET: NAG; 2.50A {Mus musculus} Length = 312

 Score = 48.4 bits (115), Expect = 5e-06
 Identities = 25/164 (15%), Positives = 44/164 (26%), Gaps = 13/164 (7%)

Query: 493 WRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSL--KMIAGDFFQFMPSLRVFNMSNN 550
              VR   +    +           L  L L +  +             P L + N+ N 
Sbjct: 72  RLTVRAARIPSRILFGALRVLGISGLQELTLENLEVTGTAPPPLLEATGPDLNILNLRNV 131

Query: 551 HLLWKLPSGISTLV-----SLEHLDLSGTAITHLPIEL-QKLVNLKCLNLEY---MYNLN 601
                  + ++ L       L+ L ++     +   E  +    L  L+L     +    
Sbjct: 132 SWA-TRDAWLAELQQWLKPGLKVLSIAQAHSLNFSCEQVRVFPALSTLDLSDNPELGERG 190

Query: 602 QFPRLVMSAFSKLQVLRILKSNVLFGGHQFLVEELMGMKHLMAL 645
               L    F  LQVL  L++  +                L  L
Sbjct: 191 LISALCPLKFPTLQVL-ALRNAGMETPSGVCSALAAARVQLQGL 233

>1wwl_A Monocyte differentiation antigen CD14; LPS, immune system; HET: NAG; 2.50A {Mus musculus} Length = 312

 Score = 47.6 bits (113), Expect = 8e-06
 Identities = 24/131 (18%), Positives = 40/131 (30%), Gaps = 28/131 (21%)

Query: 474 ENFLVHAGLGLTEAPEIQNWRNVRRMSLMKNKIENLSETP-----TCPHLLSLFLSDNSL 528
           +N  +    GL  A     +  ++ ++L    +E  S            L  L LS NSL
Sbjct: 182 DNPEL-GERGLISALCPLKFPTLQVLALRNAGMETPSGVCSALAAARVQLQGLDLSHNSL 240

Query: 529 K-MIAGDFFQFMPSLRVFNMSNNHLLWKLPSGIS--------------------TLVSLE 567
           +         +   L   N+S   L  ++P G+                      L  + 
Sbjct: 241 RDAAGAPSCDWPSQLNSLNLSFTGL-KQVPKGLPAKLSVLDLSYNRLDRNPSPDELPQVG 299

Query: 568 HLDLSGTAITH 578
           +L L G     
Sbjct: 300 NLSLKGNPFLD 310

>2xwt_C Thyrotropin receptor; signaling protein-immune system complex, GPCR, graves' disea autoimmunity, receptor-autoantibody complex; HET: NAG BMA MAN; 1.90A {Homo sapiens} PDB: 3g04_C* Length = 239

 Score = 56.9 bits (138), Expect = 4e-09
 Identities = 27/117 (23%), Positives = 52/117 (44%), Gaps = 7/117 (5%)

Query: 508 NLSETPTCP-HLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGI-STLVS 565
           ++   P+ P    +L L +  L+ I    F  +P++    +S +  L +L S     L  
Sbjct: 22  DIQRIPSLPPSTQTLKLIETHLRTIPSHAFSNLPNISRIYVSIDVTLQQLESHSFYNLSK 81

Query: 566 LEHLDLSGT-AITHLPIE-LQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRIL 620
           + H+++  T  +T++  + L++L  LK L +     L  FP L  +      +  IL
Sbjct: 82  VTHIEIRNTRNLTYIDPDALKELPLLKFLGIFNT-GLKMFPDL--TKVYSTDIFFIL 135

>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 = 51.5 bits (124), Expect = 3e-07
 Identities = 23/103 (22%), Positives = 39/103 (37%), Gaps = 10/103 (9%)

Query: 504 NKIENLSE---TPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGI 560
             + ++        C   L+L L +N    + G  F     L    ++ N  L  +    
Sbjct: 141 PYMTSIPVNAFQGLCNETLTLKLYNNGFTSVQGYAFN-GTKLDAVYLNKNKYLTVIDKDA 199

Query: 561 -STLVS-LEHLDLSGTAITHLPIE-LQKLVNLKCLNLEYMYNL 600
              + S    LD+S T++T LP + L+ L  L   N    + L
Sbjct: 200 FGGVYSGPSLLDVSQTSVTALPSKGLEHLKELIARNT---WTL 239

>2xwt_C Thyrotropin receptor; signaling protein-immune system complex, GPCR, graves' disea autoimmunity, receptor-autoantibody complex; HET: NAG BMA MAN; 1.90A {Homo sapiens} PDB: 3g04_C* Length = 239

 Score = 49.2 bits (118), Expect = 2e-06
 Identities = 15/135 (11%), Positives = 41/135 (30%), Gaps = 13/135 (9%)

Query: 494 RNVRRMSLMKNKIENLSETPTCPHLLSLF---LSDNS-LKMIAGDFFQFMPS-LRVFNMS 548
             ++ + +    ++   +          F   ++DN  +  I  + FQ + +      + 
Sbjct: 105 PLLKFLGIFNTGLKMFPDLTKVYSTDIFFILEITDNPYMTSIPVNAFQGLCNETLTLKLY 164

Query: 549 NNHLLWKLPSGISTLVSLEHLDLSG-TAITHLPIE-LQKLVN-LKCLNLEYMYNLNQFPR 605
           NN     +         L+ + L+    +T +  +    + +    L++           
Sbjct: 165 NNGF-TSVQGYAFNGTKLDAVYLNKNKYLTVIDKDAFGGVYSGPSLLDVSQ----TSVTA 219

Query: 606 LVMSAFSKLQVLRIL 620
           L       L+ L   
Sbjct: 220 LPSKGLEHLKELIAR 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 = 47.3 bits (113), Expect = 6e-06
 Identities = 21/136 (15%), Positives = 39/136 (28%), Gaps = 14/136 (10%)

Query: 494 RNVRRMSLMKNKIENLSETPT-----CPHLLSLFLSDNSLKMI-AGDFFQFMPSLRVFNM 547
             V  + +   +  NL+          P L  L + +  LKM              +  +
Sbjct: 80  SKVTHIEIRNTR--NLTYIDPDALKELPLLKFLGIFNTGLKMFPDLTKVYSTDIFFILEI 137

Query: 548 SNNHLLWKLPSGI-STLVS-LEHLDLSGTAITHLPIELQKLVNLKCLNLEYMYNLNQFPR 605
           ++N  +  +P      L +    L L     T +         L  + L     L    +
Sbjct: 138 TDNPYMTSIPVNAFQGLCNETLTLKLYNNGFTSVQGYAFNGTKLDAVYLNKNKYLTVIDK 197

Query: 606 LVMSAFSKL-QVLRIL 620
               AF  +     +L
Sbjct: 198 ---DAFGGVYSGPSLL 210

>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 = 56.6 bits (137), Expect = 6e-09
 Identities = 36/131 (27%), Positives = 54/131 (41%), Gaps = 9/131 (6%)

Query: 494 RNVRRMSLMKNKIENLSET--PTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNH 551
            +  ++ L    +  LS+        L  L L  N L+ ++   F  +  L    ++NN 
Sbjct: 35  ADTEKLDLQSTGLATLSDATFRGLTKLTWLNLDYNQLQTLSAGVFDDLTELGTLGLANNQ 94

Query: 552 LLWKLPSGI-STLVSLEHLDLSGTAITHLPIEL-QKLVNLKCLNLEYMYNLNQFPRLVMS 609
           L   LP G+   L  L+ L L G  +  LP  +  +L  LK L L      NQ   +   
Sbjct: 95  LA-SLPLGVFDHLTQLDKLYLGGNQLKSLPSGVFDRLTKLKELRLNT----NQLQSIPAG 149

Query: 610 AFSKLQVLRIL 620
           AF KL  L+ L
Sbjct: 150 AFDKLTNLQTL 160

>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 = 54.7 bits (132), Expect = 9e-09
 Identities = 25/130 (19%), Positives = 41/130 (31%), Gaps = 10/130 (7%)

Query: 499 MSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPS 558
           + L    IE  ++         L L    + +I       +      + S+N +  KL  
Sbjct: 2   VKLTAELIEQAAQYTNAVRDRELDLRGYKIPVIEN-LGATLDQFDAIDFSDNEIR-KL-D 58

Query: 559 GISTLVSLEHLDLSGTAITHL-PIELQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVL 617
           G   L  L+ L ++   I  +     Q L +L  L L      N    L       L  L
Sbjct: 59  GFPLLRRLKTLLVNNNRICRIGEGLDQALPDLTELILTN----NSLVEL--GDLDPLASL 112

Query: 618 RILKSNVLFG 627
           + L    +  
Sbjct: 113 KSLTYLCILR 122

>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 = 51.6 bits (124), Expect = 1e-07
 Identities = 21/104 (20%), Positives = 40/104 (38%), Gaps = 2/104 (1%)

Query: 494 RNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHL- 552
                +    N+I  L   P    L +L +++N +  I     Q +P L    ++NN L 
Sbjct: 42  DQFDAIDFSDNEIRKLDGFPLLRRLKTLLVNNNRICRIGEGLDQALPDLTELILTNNSLV 101

Query: 553 LWKLPSGISTLVSLEHLDLSGTAITHLPIELQKLVNLKCLNLEY 596
                  +++L SL +L +    +T+     +  V  K   +  
Sbjct: 102 ELGDLDPLASLKSLTYLCILRNPVTNKK-HYRLYVIYKVPQVRV 144

>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 = 57.1 bits (137), Expect = 1e-08
 Identities = 18/94 (19%), Positives = 39/94 (41%), Gaps = 1/94 (1%)

Query: 503 KNKIENLSETPTCPHLLSLFLSDN-SLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGIS 561
              +++L   P   +L  L++ +   L+ +     + +  LR   +  + L +  P    
Sbjct: 18  DGALDSLHHLPGAENLTELYIENQQHLQHLELRDLRGLGELRNLTIVKSGLRFVAPDAFH 77

Query: 562 TLVSLEHLDLSGTAITHLPIELQKLVNLKCLNLE 595
               L  L+LS  A+  L  +  + ++L+ L L 
Sbjct: 78  FTPRLSRLNLSFNALESLSWKTVQGLSLQELVLS 111

>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 = 48.2 bits (114), Expect = 7e-06
 Identities = 23/95 (24%), Positives = 41/95 (43%), Gaps = 5/95 (5%)

Query: 483 GLTEAPE-IQNWRNVRRMSLMKNK-IENLSET--PTCPHLLSLFLSDNSLKMIAGDFFQF 538
           G  ++   +    N+  + +   + +++L          L +L +  + L+ +A D F F
Sbjct: 19  GALDSLHHLPGAENLTELYIENQQHLQHLELRDLRGLGELRNLTIVKSGLRFVAPDAFHF 78

Query: 539 MPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSG 573
            P L   N+S N L   L       +SL+ L LSG
Sbjct: 79  TPRLSRLNLSFNALES-LSWKTVQGLSLQELVLSG 112

>2je0_A Acidic leucine-rich nuclear phosphoprotein 32 FAM member A; nuclear protein; 2.40A {Homo sapiens} PDB: 2je1_A Length = 149

 Score = 53.5 bits (129), Expect = 1e-08
 Identities = 23/113 (20%), Positives = 45/113 (39%), Gaps = 2/113 (1%)

Query: 470 EKEKENFLVHAGLGLTEAPEIQNW-RNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSL 528
              KE  L ++     +   + +    +  +S +   + +++  P    L  L LSDN +
Sbjct: 17  SDVKELVLDNSRSNEGKLEGLTDEFEELEFLSTINVGLTSIANLPKLNKLKKLELSDNRV 76

Query: 529 KMIAGDFFQFMPSLRVFNMSNNHL-LWKLPSGISTLVSLEHLDLSGTAITHLP 580
                   +  P+L   N+S N +        +  L +L+ LDL    +T+L 
Sbjct: 77  SGGLEVLAEKCPNLTHLNLSGNKIKDLSTIEPLKKLENLKSLDLFNCEVTNLN 129

>2je0_A Acidic leucine-rich nuclear phosphoprotein 32 FAM member A; nuclear protein; 2.40A {Homo sapiens} PDB: 2je1_A Length = 149

 Score = 45.1 bits (107), Expect = 1e-05
 Identities = 23/123 (18%), Positives = 42/123 (34%), Gaps = 8/123 (6%)

Query: 502 MKNKIENLSETPTCPHLLSLFLSDNSLKMIAG-DFFQFMPSLRVFNMSNNHLLWKLPSGI 560
           M  +I       T   +  L L ++                L   +  N  L   + + +
Sbjct: 3   MGRRIHLELRNRTPSDVKELVLDNSRSNEGKLEGLTDEFEELEFLSTINVGLT-SI-ANL 60

Query: 561 STLVSLEHLDLSGTAITHL-PIELQKLVNLKCLNLEY--MYNLNQFPRLVMSAFSKLQVL 617
             L  L+ L+LS   ++    +  +K  NL  LNL    + +L+    L       L+ L
Sbjct: 61  PKLNKLKKLELSDNRVSGGLEVLAEKCPNLTHLNLSGNKIKDLSTIEPL--KKLENLKSL 118

Query: 618 RIL 620
            + 
Sbjct: 119 DLF 121

>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 = 7e-08
 Identities = 26/119 (21%), Positives = 44/119 (36%), Gaps = 14/119 (11%)

Query: 517 HLLSLFLSDNSLK-MIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGTA 575
           +L  + LS N L+   +  F     + +  +++ N L + L   +    +L  LDL    
Sbjct: 198 NLAFVDLSRNMLEGDASVLFGS-DKNTQKIHLAKNSLAFDLGK-VGLSKNLNGLDLRNNR 255

Query: 576 IT-HLPIELQKLVNLKCLNLEYMYNLNQF----PRLVMSAFSKLQVLRILKSNVLFGGH 629
           I   LP  L +L  L  LN+ +    N      P+       +  V     +  L G  
Sbjct: 256 IYGTLPQGLTQLKFLHSLNVSF----NNLCGEIPQG--GNLQRFDVSAYANNKCLCGSP 308

>1ogq_A PGIP-2, polygalacturonase inhibiting protein; inhibitor; HET: NAG; 1.7A {Phaseolus vulgaris} SCOP: c.10.2.8 Length = 313

 Score = 48.7 bits (117), Expect = 4e-06
 Identities = 20/94 (21%), Positives = 37/94 (39%), Gaps = 12/94 (12%)

Query: 515 CPHLLSLFLSDNSLKMIAG---DFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDL 571
              L  L+++  ++   +G   DF   + +L   + S N L   LP  IS+L +L  +  
Sbjct: 100 LTQLHYLYITHTNV---SGAIPDFLSQIKTLVTLDFSYNALSGTLPPSISSLPNLVGITF 156

Query: 572 SGTAIT-HLPIELQKLVNL-KCLNLEYMYNLNQF 603
            G  I+  +P        L   + +      N+ 
Sbjct: 157 DGNRISGAIPDSYGSFSKLFTSMTISR----NRL 186

>1ogq_A PGIP-2, polygalacturonase inhibiting protein; inhibitor; HET: NAG; 1.7A {Phaseolus vulgaris} SCOP: c.10.2.8 Length = 313

 Score = 47.5 bits (114), Expect = 9e-06
 Identities = 26/144 (18%), Positives = 52/144 (36%), Gaps = 27/144 (18%)

Query: 488 PEIQNWRNVRRMSLMKNK--------IENLSETPTCPHLLSLFLSDNSLK-MIAGDFFQF 538
           P I +  N+  ++   N+          + S+  T     S+ +S N L   I   F   
Sbjct: 143 PSISSLPNLVGITFDGNRISGAIPDSYGSFSKLFT-----SMTISRNRLTGKIPPTFANL 197

Query: 539 MPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAIT-HLPIELQKLVNLKCLNLEYM 597
             +L   ++S N L         +  + + + L+  ++   L  ++    NL  L+L   
Sbjct: 198 --NLAFVDLSRNMLEGDASVLFGSDKNTQKIHLAKNSLAFDLG-KVGLSKNLNGLDL--- 251

Query: 598 YNLNQF----PRLVMSAFSKLQVL 617
              N+     P+  ++    L  L
Sbjct: 252 -RNNRIYGTLPQ-GLTQLKFLHSL 273

>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 = 54.1 bits (130), Expect = 8e-08
 Identities = 26/142 (18%), Positives = 51/142 (35%), Gaps = 15/142 (10%)

Query: 508 NLSETPTC--PHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGI-STLV 564
            ++E P+    + + L      L++I    F     L    +S N +L  + + + S L 
Sbjct: 20  KVTEIPSDLPRNAIELRFVLTKLRVIQKGAFSGFGDLEKIEISQNDVLEVIEADVFSNLP 79

Query: 565 SLEHLDLSGT-AITHLPIE-LQKLVNLKCLNLEYMYN-LNQFPRLVMSAFSKLQVLRILK 621
            L  + +     + ++  E  Q L NL+ L +      +   P +      +  +L I  
Sbjct: 80  KLHEIRIEKANNLLYINPEAFQNLPNLQYLLIS--NTGIKHLPDVHKIHSLQKVLLDIQD 137

Query: 622 SNVL-------FGGHQFLVEEL 636
           +  +       F G  F    L
Sbjct: 138 NINIHTIERNSFVGLSFESVIL 159

>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 = 51.4 bits (123), Expect = 6e-07
 Identities = 18/121 (14%), Positives = 34/121 (28%), Gaps = 7/121 (5%)

Query: 504 NKIENLSET--PTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGIS 561
           N +  ++       P+L  L +S+  +K +            + ++ +N  +  +     
Sbjct: 90  NNLLYINPEAFQNLPNLQYLLISNTGIKHLPDVHKIHSLQKVLLDIQDNINIHTIERNSF 149

Query: 562 T--LVSLEHLDLSGTAITHLPIELQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRI 619
                    L L+   I  +         L    L    N N    L    F       I
Sbjct: 150 VGLSFESVILWLNKNGIQEIHNSAFNGTQL--DELNLSDN-NNLEELPNDVFHGASGPVI 206

Query: 620 L 620
           L
Sbjct: 207 L 207

>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 = 53.0 bits (127), Expect = 3e-07
 Identities = 47/377 (12%), Positives = 114/377 (30%), Gaps = 68/377 (18%)

Query: 494 RNVRRMSLMKNKIENLSE------TPTCPHLLSLFLS-------DNSLKMIAGDFFQFMP 540
           RN++ + L ++ ++++S         T   L+SL +S        ++L+ +        P
Sbjct: 156 RNLKELDLRESDVDDVSGHWLSHFPDTYTSLVSLNISCLASEVSFSALERLV----TRCP 211

Query: 541 SLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSG-------TAITHLPIELQKLVNLKCLN 593
           +L+   ++    L KL + +     LE L   G          + L + L     L+CL+
Sbjct: 212 NLKSLKLNRAVPLEKLATLLQRAPQLEELGTGGYTAEVRPDVYSGLSVALSGCKELRCLS 271

Query: 594 LEYMYNLNQFPRLVMSAFSKLQVLRILKSNVLFGGHQFLVEELMGMKHL-MALTITLKSW 652
             +       P +  S  S+L  L +  + V       L+ +   ++ L +   I     
Sbjct: 272 GFWDAVPAYLPAVY-SVCSRLTTLNLSYATVQSYDLVKLLCQCPKLQRLWVLDYIEDAGL 330

Query: 653 EALQEL---LISQELQRCTQSLFLRCFNDS--------------KSLDIFC--------- 686
           E L      L    +      +       +              +S+  FC         
Sbjct: 331 EVLASTCKDLRELRVFPSEPFVMEPNVALTEQGLVSVSMGCPKLESVLYFCRQMTNAALI 390

Query: 687 --LACLHNLNKLYVAGRKHLEDFQMTVQRS--SVNQLARGFHSLHTVKVGFCFKLKDLTW 742
                  N+ +  +   +      +T++        +      L  + +      K   +
Sbjct: 391 TIARNRPNMTRFRLCIIEPKAPDYLTLEPLDIGFGAIVEHCKDLRRLSLSGLLTDKVFEY 450

Query: 743 LVFAPSLKSIVVLSCCNMEQIIKAEKLSQLHHHPERKKSVFAKLQFLSLENLRNLC-CIN 801
           +        ++ ++            +  +    +        L+ L + +       + 
Sbjct: 451 IGTYAKKMEMLSVAFAG----DSDLGMHHVLSGCDS-------LRKLEIRDCPFGDKALL 499

Query: 802 WEALAFPNLKEIRVEGC 818
             A     ++ + +  C
Sbjct: 500 ANASKLETMRSLWMSSC 516

>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 = 47.2 bits (112), Expect = 2e-05
 Identities = 56/373 (15%), Positives = 116/373 (31%), Gaps = 77/373 (20%)

Query: 515 CPHLLSLFLS-----DNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVS---- 565
              L  + L      D+ L++IA    +   + +V  +S+         G++ + +    
Sbjct: 104 YTWLEEIRLKRMVVTDDCLELIA----KSFKNFKVLVLSSCEGFS--TDGLAAIAATCRN 157

Query: 566 LEHLDLSGTAITHLPIE-----------LQKLV---------------------NLKCLN 593
           L+ LDL  + +  +              L  L                      NLK L 
Sbjct: 158 LKELDLRESDVDDVSGHWLSHFPDTYTSLVSLNISCLASEVSFSALERLVTRCPNLKSLK 217

Query: 594 LEYMYNLNQFPRLVMSAFSKLQVLRI--LKSNVLFGGHQFLVEELMGMKHLMALT----I 647
           L     L +   L+  A  +L+ L      + V    +  L   L G K L  L+     
Sbjct: 218 LNRAVPLEKLATLLQRA-PQLEELGTGGYTAEVRPDVYSGLSVALSGCKELRCLSGFWDA 276

Query: 648 TLKSWEALQELL-----------------ISQELQRCT--QSLFLRCFNDSKSLDIFCLA 688
                 A+  +                  + + L +C   Q L++  + +   L++    
Sbjct: 277 VPAYLPAVYSVCSRLTTLNLSYATVQSYDLVKLLCQCPKLQRLWVLDYIEDAGLEVLAST 336

Query: 689 CLHNLNKLYVAGRKHL-EDFQMTVQRSSVNQLARGFHSLHTVKVGFCFKLKDLTWLVFAP 747
           C  +L +L V   +    +  + +    +  ++ G   L +V + FC ++ +   +  A 
Sbjct: 337 C-KDLRELRVFPSEPFVMEPNVALTEQGLVSVSMGCPKLESV-LYFCRQMTNAALITIAR 394

Query: 748 SLKSIVVLSCCNMEQIIKAEKLSQLHHHPERK-KSVFAKLQFLSLENLRNLCCINWEALA 806
           +  ++     C +E         +               L+ LSL  L       +    
Sbjct: 395 NRPNMTRFRLCIIEPKAPDYLTLEPLDIGFGAIVEHCKDLRRLSLSGLLTDKVFEYIGTY 454

Query: 807 FPNLKEIRVEGCP 819
              ++ + V    
Sbjct: 455 AKKMEMLSVAFAG 467

>2o6s_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 1.50A {Eptatretus burgeri} Length = 208

 Score = 47.7 bits (114), Expect = 3e-06
 Identities = 36/103 (34%), Positives = 47/103 (45%), Gaps = 7/103 (6%)

Query: 520 SLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGI-STLVSLEHLDLSGTAITH 578
            L L  NSLK +    F  + SL    +  N L   LP+G+ + L SL +L+LS   +  
Sbjct: 32  YLDLETNSLKSLPNGVFDELTSLTQLYLGGNKLQ-SLPNGVFNKLTSLTYLNLSTNQLQS 90

Query: 579 LPIEL-QKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRIL 620
           LP  +  KL  LK L L      NQ   L    F KL  L+ L
Sbjct: 91  LPNGVFDKLTQLKELALNT----NQLQSLPDGVFDKLTQLKDL 129

>2o6s_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 1.50A {Eptatretus burgeri} Length = 208

 Score = 42.4 bits (100), Expect = 2e-04
 Identities = 35/125 (28%), Positives = 52/125 (41%), Gaps = 9/125 (7%)

Query: 497 RRMSLMKNKIENLSETP--TCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLW 554
             + L  N +++L          L  L+L  N L+ +    F  + SL   N+S N L  
Sbjct: 31  TYLDLETNSLKSLPNGVFDELTSLTQLYLGGNKLQSLPNGVFNKLTSLTYLNLSTNQLQ- 89

Query: 555 KLPSGI-STLVSLEHLDLSGTAITHLPIEL-QKLVNLKCLNLEYMYNLNQFPRLVMSAFS 612
            LP+G+   L  L+ L L+   +  LP  +  KL  LK L L      NQ   +    F 
Sbjct: 90  SLPNGVFDKLTQLKELALNTNQLQSLPDGVFDKLTQLKDLRL----YQNQLKSVPDGVFD 145

Query: 613 KLQVL 617
           +L  L
Sbjct: 146 RLTSL 150

>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 = 49.2 bits (117), Expect = 4e-06
 Identities = 54/330 (16%), Positives = 113/330 (34%), Gaps = 51/330 (15%)

Query: 515 CPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSG- 573
           C  L+S+ + D  +  + G FF+   +L  F   + +    +P     LV    L   G 
Sbjct: 219 CRSLVSVKVGDFEILELVG-FFKAAANLEEFCGGSLNEDIGMPEKYMNLVFPRKLCRLGL 277

Query: 574 TAIT--HLPIELQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRILKSNVLFGGHQF 631
           + +    +PI       ++ L+L Y     +    ++     L+VL   ++ +   G + 
Sbjct: 278 SYMGPNEMPILFPFAAQIRKLDLLYALLETEDHCTLIQKCPNLEVLE-TRNVIGDRGLEV 336

Query: 632 LVEELMGMKHL-MALTITLKSWEALQELLISQEL----QRCT--QSLFLRCFN-DSKSLD 683
           L +    +K L +      +  E  + L+  + L    Q C   + + +   +  ++SL+
Sbjct: 337 LAQYCKQLKRLRIERGADEQGMEDEEGLVSQRGLIALAQGCQELEYMAVYVSDITNESLE 396

Query: 684 IFCLAC--LHNLNKLYVAGRKHLEDFQMTVQRSSVNQLARGFHSLHTVKVGF-CFKLKDL 740
                   L +   + +   + + D  +    + V  L  G   L           L DL
Sbjct: 397 SIGTYLKNLCDFRLVLLDREERITDLPL---DNGVRSLLIGCKKLRRFAFYLRQGGLTDL 453

Query: 741 TWLVFAPSLKSI--VVLSCCN-----MEQIIKAEKLSQLHHHPERKKSVFAKLQFLSLEN 793
                     ++  ++L         + +  +                    LQ L +  
Sbjct: 454 GLSYIGQYSPNVRWMLLGYVGESDEGLMEFSRGCP----------------NLQKLEMRG 497

Query: 794 LRNLCCINWEALA-----FPNLKEIRVEGC 818
               CC +  A+A      P+L+ + V+G 
Sbjct: 498 ----CCFSERAIAAAVTKLPSLRYLWVQGY 523

>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 = 44.5 bits (105), Expect = 1e-04
 Identities = 41/343 (11%), Positives = 104/343 (30%), Gaps = 58/343 (16%)

Query: 515 CPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVS----LEHLD 570
            P+L SL L                P   +FN+   +    +   ++ + +    L+ + 
Sbjct: 72  FPNLRSLKLKGK-------------PRAAMFNLIPENWGGYVTPWVTEISNNLRQLKSVH 118

Query: 571 LSGTAITHLPIELQKLVNLKCLNLEYMYNLNQFPRL-------VMSAFSKLQVLRILKSN 623
                ++ L  +L +L   +  +LE +  L++           +++   K++ L + +S+
Sbjct: 119 FRRMIVSDL--DLDRLAKARADDLETL-KLDKCSGFTTDGLLSIVTHCRKIKTLLMEESS 175

Query: 624 VLFGGHQFLVEELMGMKHLMALTITLKSWEALQELLISQELQRCTQSLFLRCFNDSKSLD 683
                 ++L E       L  L   +  +  +    +    + C   + ++  +      
Sbjct: 176 FSEKDGKWLHELAQHNTSLEVLNFYMTEFAKISPKDLETIARNCRSLVSVKVGDFEILEL 235

Query: 684 IFCLACLHNLNKLYVAGRKHLEDFQMTVQRSSVNQLARGFHSLHTVKVGFCF--KLKDLT 741
           +       NL        +      +        +           ++G  +    +   
Sbjct: 236 VGFFKAAANL--------EEFCGGSLNEDIGMPEKYMNLVFPRKLCRLGLSYMGPNEMPI 287

Query: 742 WLVFAPSLKSIVVLSCCNMEQIIKAEKLSQLHHHPERKKSVFAKLQFLSLENLRNLCCIN 801
              FA  ++ +  L       +   +  + +   P         L+ L   N+     + 
Sbjct: 288 LFPFAAQIRKLD-LLYA---LLETEDHCTLIQKCP--------NLEVLETRNVIGDRGLE 335

Query: 802 WEALAFPNLKEIRVEGCPKLFKLPLDSNS---------AKGCK 835
             A     LK +R+E       +  +            A+GC+
Sbjct: 336 VLAQYCKQLKRLRIERGADEQGMEDEEGLVSQRGLIALAQGCQ 378

>3rfs_A Internalin B, repeat modules, variable lymphocyte B; LRR, protein binding, plasma; 1.70A {Listeria monocytogenes} PDB: 3rfj_A Length = 272

 Score = 48.1 bits (115), Expect = 4e-06
 Identities = 36/140 (25%), Positives = 61/140 (43%), Gaps = 9/140 (6%)

Query: 483 GLTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSL 542
            +T+A       ++ ++    + I+++      P++  L L  N L  I+    + + +L
Sbjct: 30  SVTDAVTQNELNSIDQIIANNSDIKSVQGIQYLPNVRYLALGGNKLHDIS--ALKELTNL 87

Query: 543 RVFNMSNNHLLWKLPSGI-STLVSLEHLDLSGTAITHLPIEL-QKLVNLKCLNLEYMYNL 600
               ++ N L   LP+G+   L +L+ L L    +  LP  +  KL NL  LNL +    
Sbjct: 88  TYLILTGNQLQ-SLPNGVFDKLTNLKELVLVENQLQSLPDGVFDKLTNLTYLNLAH---- 142

Query: 601 NQFPRLVMSAFSKLQVLRIL 620
           NQ   L    F KL  L  L
Sbjct: 143 NQLQSLPKGVFDKLTNLTEL 162

>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 = 2e-05
 Identities = 23/100 (23%), Positives = 42/100 (42%), Gaps = 8/100 (8%)

Query: 520 SLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGI-STLVSLEHLDLSGTAITH 578
            L+L  N   ++  +   +   L + ++SNN +   L +   S +  L  L LS   +  
Sbjct: 35  ELYLDGNQFTLVPKELSNYK-HLTLIDLSNNRIS-TLSNQSFSNMTQLLTLILSYNRLRC 92

Query: 579 LPIEL-QKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVL 617
           +P      L +L+ L+L    + N    +   AF+ L  L
Sbjct: 93  IPPRTFDGLKSLRLLSL----HGNDISVVPEGAFNDLSAL 128

>3rw6_A Nuclear RNA export factor 1; retroviral constitutive transport element (CTE), RNA recogni motif (RRM); HET: GTP CCC; 2.30A {Homo sapiens} PDB: 3rw7_A 1koo_A 1koh_A 1ft8_A 1fo1_A Length = 267

 Score = 45.4 bits (107), Expect = 4e-05
 Identities = 29/116 (25%), Positives = 46/116 (39%), Gaps = 22/116 (18%)

Query: 493 WRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAG--DFFQFMPSLRVFNMSNN 550
              + R S M   +  + E    P LLSL LS+N L  +       Q  P+L++ N+S N
Sbjct: 149 DVVLNRRSCMAATLRIIEEN--IPELLSLNLSNNRLYRLDDMSSIVQKAPNLKILNLSGN 206

Query: 551 HL-----LWKLPSGISTLVSLEHLDLSGTAITHLPIE--------LQKLVNLKCLN 593
            L     L K+       + LE L L G ++     +         ++   L  L+
Sbjct: 207 ELKSERELDKI-----KGLKLEELWLDGNSLCDTFRDQSTYISAIRERFPKLLRLD 257

>3e4g_A ATP synthase subunit S, mitochondrial; leucine-rich repeat, CF0, hydrogen ION transport, inner membrane, ION transport, membrane, mitochondrion; 0.96A {Bos taurus} PDB: 3e3z_A 3dze_A 3e2j_A Length = 176

 Score = 42.9 bits (101), Expect = 1e-04
 Identities = 18/112 (16%), Positives = 43/112 (38%), Gaps = 7/112 (6%)

Query: 515 CPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHL-----LWKLPSGISTLVSLEHL 569
              + ++  +D+ +  I  D  + +  +    +   H      L +L    +   S+  +
Sbjct: 60  KYKIQAIDATDSCIMSIGFDHMEGLQYVEKIRLCKCHYIEDGCLERLSQLENLQKSMLEM 119

Query: 570 DLSG-TAITHLPIE-LQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRI 619
           ++     +T   I  L    NLK L L  +  + +  ++V +  + L  L +
Sbjct: 120 EIISCGNVTDKGIIALHHFRNLKYLFLSDLPGVKEKEKIVQAFKTSLPSLEL 171

>3e6j_A Variable lymphocyte receptor diversity region; variable lymphocyte receptors, VLR, leucine-rich repeat, LRR adaptive immunity, immune system; HET: DR2; 1.67A {Petromyzon marinus} Length = 229

 Score = 42.8 bits (101), Expect = 2e-04
 Identities = 26/89 (29%), Positives = 42/89 (47%), Gaps = 7/89 (7%)

Query: 520 SLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGI-STLVSLEHLDLSGTAITH 578
            L+L DN +  +    F  + +L+   + +N L   LP G+  +L  L  LDL    +T 
Sbjct: 44  ILYLHDNQITKLEPGVFDSLINLKELYLGSNQLG-ALPVGVFDSLTQLTVLDLGTNQLTV 102

Query: 579 LPIEL-QKLVNLKCLNLEYMYNLNQFPRL 606
           LP  +  +LV+LK L +      N+   L
Sbjct: 103 LPSAVFDRLVHLKELFMCC----NKLTEL 127

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	863
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	100.0
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	100.0
3sfz_A	1249	APAF-1, apoptotic peptidase activating factor 1; a	100.0
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	100.0
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	99.92
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	99.91
1o6v_A	466	Internalin A; bacterial infection, extracellular r	99.9
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	99.9
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	99.9
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	99.9
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	99.89
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	99.89
1o6v_A	466	Internalin A; bacterial infection, extracellular r	99.89
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	99.89
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	99.89
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	99.88
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	99.88
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	99.88
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	99.88
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	99.88
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	99.88
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	99.87
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	99.87
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	99.87
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	99.87
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	99.87
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	99.87
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	99.87
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	99.86
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	99.86
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	99.86
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	99.86
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	99.86
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	99.85
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	99.85
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	99.85
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	99.84
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	99.84
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	99.84
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	99.83
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	99.83
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	99.83
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	99.83
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	99.82
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	99.81
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	99.8
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	99.8
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	99.79
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	99.79
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	99.79
4g8a_A	635	TOLL-like receptor 4; leucine rich repeat MD-2 rel	99.78
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	99.77
4g8a_A	635	TOLL-like receptor 4; leucine rich repeat MD-2 rel	99.77
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	99.75
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	99.75
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	99.75
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	99.74
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	99.74
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	99.74
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	99.74
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	99.74
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	99.73
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	99.73
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	99.73
1wwl_A	312	Monocyte differentiation antigen CD14; LPS, immune	99.72
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	99.71
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	99.7
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	99.68
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	99.68
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	99.68
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	99.68
1z7x_W	461	Ribonuclease inhibitor; leucine-rich repeat, enzym	99.67
1z7x_W	461	Ribonuclease inhibitor; leucine-rich repeat, enzym	99.67
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	99.66
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	99.66
2ast_B	336	S-phase kinase-associated protein 2; SCF-substrate	99.64
2qen_A	350	Walker-type ATPase; unknown function; HET: ADP; 2.	99.64
1wwl_A	312	Monocyte differentiation antigen CD14; LPS, immune	99.63
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	99.63
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	99.62
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	99.62
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	99.62
3rfs_A	272	Internalin B, repeat modules, variable lymphocyte	99.62
2ast_B	336	S-phase kinase-associated protein 2; SCF-substrate	99.62
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	99.62
1w5s_A	412	Origin recognition complex subunit 2 ORC2; replica	99.62
2fna_A	357	Conserved hypothetical protein; structural genomic	99.61
2o6q_A	270	Variable lymphocyte receptor A; leucine-rich repea	99.61
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	99.6
2o6q_A	270	Variable lymphocyte receptor A; leucine-rich repea	99.6
2ca6_A	386	RAN GTPase-activating protein 1; GAP, GTPase activ	99.59
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	99.58
3rfs_A	272	Internalin B, repeat modules, variable lymphocyte	99.58
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	99.58
3goz_A	362	Leucine-rich repeat-containing protein; LEGL7, NES	99.56
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	99.55
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	99.55
4glp_A	310	Monocyte differentiation antigen CD14; alpha beta	99.54
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	99.54
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	99.53
3m19_A	251	Variable lymphocyte receptor A diversity region; a	99.53
3m19_A	251	Variable lymphocyte receptor A diversity region; a	99.53
2ca6_A	386	RAN GTPase-activating protein 1; GAP, GTPase activ	99.51
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	99.5
3goz_A	362	Leucine-rich repeat-containing protein; LEGL7, NES	99.48
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	99.48
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	99.47
3e6j_A	229	Variable lymphocyte receptor diversity region; var	99.47
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	99.46
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	99.45
2v9t_B	220	SLIT homolog 2 protein N-product; structural prote	99.45
4glp_A	310	Monocyte differentiation antigen CD14; alpha beta	99.43
2v9t_B	220	SLIT homolog 2 protein N-product; structural prote	99.42
2v70_A	220	SLIT-2, SLIT homolog 2 protein N-product; neurogen	99.4
2v70_A	220	SLIT-2, SLIT homolog 2 protein N-product; neurogen	99.4
2o6s_A	208	Variable lymphocyte receptor B; leucine-rich repea	99.4
2qby_B	384	CDC6 homolog 3, cell division control protein 6 ho	99.4
3e6j_A	229	Variable lymphocyte receptor diversity region; var	99.38
2ell_A	168	Acidic leucine-rich nuclear phosphoprotein 32 FAM	99.38
2je0_A	149	Acidic leucine-rich nuclear phosphoprotein 32 FAM	99.37
2xot_A	361	Amphoterin-induced protein 1; cell adhesion, neuro	99.37
1a9n_A	176	U2A', U2A'; complex (nuclear protein/RNA), RNA, sn	99.36
2v1u_A	387	Cell division control protein 6 homolog; DNA repli	99.36
2o6s_A	208	Variable lymphocyte receptor B; leucine-rich repea	99.35
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	99.35
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	99.32
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	99.32
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	99.31
2xot_A	361	Amphoterin-induced protein 1; cell adhesion, neuro	99.3
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	99.28
2wfh_A	193	SLIT homolog 2 protein C-product; developmental pr	99.27
2o6r_A	177	Variable lymphocyte receptor B; leucine-rich repea	99.27
1a9n_A	176	U2A', U2A'; complex (nuclear protein/RNA), RNA, sn	99.26
1w8a_A	192	SLIT protein; signaling protein, secreted protein,	99.26
2ell_A	168	Acidic leucine-rich nuclear phosphoprotein 32 FAM	99.25
2je0_A	149	Acidic leucine-rich nuclear phosphoprotein 32 FAM	99.22
1njg_A	250	DNA polymerase III subunit gamma; rossman-like fol	99.2
4b8c_D	727	Glucose-repressible alcohol dehydrogenase transcr	99.18
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	99.15
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	99.13
2chg_A	226	Replication factor C small subunit; DNA-binding pr	99.12
4b8c_D	727	Glucose-repressible alcohol dehydrogenase transcr	99.11
2wfh_A	193	SLIT homolog 2 protein C-product; developmental pr	99.1
1w8a_A	192	SLIT protein; signaling protein, secreted protein,	99.09
1ds9_A	198	Outer arm dynein; leucine-rich repeat, beta-BETA-a	99.08
1ds9_A	198	Outer arm dynein; leucine-rich repeat, beta-BETA-a	99.07
2o6r_A	177	Variable lymphocyte receptor B; leucine-rich repea	99.07
3sb4_A	329	Hypothetical leucine rich repeat protein; LRR, rig	99.03
2r9u_A	174	Variable lymphocyte receptor; adaptive immunity, V	99.02
2r9u_A	174	Variable lymphocyte receptor; adaptive immunity, V	99.02
3g39_A	170	Variable lymphocyte receptor VLRB.2D; antibody, X-	99.01
3g39_A	170	Variable lymphocyte receptor VLRB.2D; antibody, X-	99.0
3qfl_A	115	MLA10; coiled-coil, (CC) domain, NLRS, nucleotide-	98.96
1sxj_B	323	Activator 1 37 kDa subunit; clamp loader, processi	98.94
1hqc_A	324	RUVB; extended AAA-ATPase domain, complex with nuc	98.9
3sb4_A	329	Hypothetical leucine rich repeat protein; LRR, rig	98.77
1iqp_A	327	RFCS; clamp loader, extended AAA-ATPase domain, co	98.77
4fdw_A	401	Leucine rich hypothetical protein; putative cell s	98.72
2ifg_A	347	High affinity nerve growth factor receptor; TRK, T	98.71
3un9_A	372	NLR family member X1; leucine rich repeat (LRR), a	98.68
3te6_A	318	Regulatory protein SIR3; heterochromatin, gene sil	98.66
2ifg_A	347	High affinity nerve growth factor receptor; TRK, T	98.63
2chq_A	319	Replication factor C small subunit; DNA-binding pr	98.59
3un9_A	372	NLR family member X1; leucine rich repeat (LRR), a	98.57
1jr3_A	373	DNA polymerase III subunit gamma; processivity, pr	98.57
4fdw_A	401	Leucine rich hypothetical protein; putative cell s	98.55
1jbk_A	195	CLPB protein; beta barrel, chaperone; 1.80A {Esche	98.48
3bos_A	242	Putative DNA replication factor; P-loop containing	98.44
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	98.33
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	98.29
1sxj_A	516	Activator 1 95 kDa subunit; clamp loader, processi	98.29
2z4s_A	440	Chromosomal replication initiator protein DNAA; AA	98.29
1sxj_D	353	Activator 1 41 kDa subunit; clamp loader, processi	98.27
3pvs_A	447	Replication-associated recombination protein A; ma	98.26
3pfi_A	338	Holliday junction ATP-dependent DNA helicase RUVB;	98.26
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	98.17
3e4g_A	176	ATP synthase subunit S, mitochondrial; leucine-ric	98.16
1sxj_E	354	Activator 1 40 kDa subunit; clamp loader, processi	98.16
3syl_A	309	Protein CBBX; photosynthesis, rubisco activase, AA	98.14
3uk6_A	368	RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding	98.11
3u61_B	324	DNA polymerase accessory protein 44; AAA+, ATP hyd	98.09
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	98.09
4fs7_A	394	Uncharacterized protein; leucine-rich repeats, pro	98.08
2ra8_A	362	Uncharacterized protein Q64V53_bacfr; WGR domain,	98.08
2ra8_A	362	Uncharacterized protein Q64V53_bacfr; WGR domain,	98.08
3d8b_A	357	Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, s	98.07
3e4g_A	176	ATP synthase subunit S, mitochondrial; leucine-ric	98.04
1a5t_A	334	Delta prime, HOLB; zinc finger, DNA replication; 2	98.01
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	98.01
2p65_A	187	Hypothetical protein PF08_0063; CLPB, malaria, str	98.0
1l8q_A	324	Chromosomal replication initiator protein DNAA; AA	97.98
1io0_A	185	Tropomodulin; LRR protein, right-handed super-heli	97.97
2qp9_X	355	Vacuolar protein sorting-associated protein 4; ATP	97.96
1sxj_C	340	Activator 1 40 kDa subunit; clamp loader, processi	97.96
3vfd_A	389	Spastin; ATPase, microtubule severing, hydrolase;	97.93
2zan_A	444	Vacuolar protein sorting-associating protein 4B; S	97.93
3rw6_A	267	Nuclear RNA export factor 1; retroviral constituti	97.93
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	97.92
4fs7_A	394	Uncharacterized protein; leucine-rich repeats, pro	97.89
4gt6_A	394	Cell surface protein; leucine rich repeats, putati	97.87
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	97.81
3pxg_A	468	Negative regulator of genetic competence CLPC/MEC;	97.79
2gno_A	305	DNA polymerase III, gamma subunit-related protein;	97.76
1in4_A	334	RUVB, holliday junction DNA helicase RUVB; AAA+-cl	97.75
1io0_A	185	Tropomodulin; LRR protein, right-handed super-heli	97.74
2w58_A	202	DNAI, primosome component (helicase loader); ATP-b	97.69
4b4t_J	405	26S protease regulatory subunit 8 homolog; hydrola	97.65
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	97.62
2r62_A	268	Cell division protease FTSH homolog; ATPase domain	97.61
3n70_A	145	Transport activator; sigma-54, ntpase, PSI, MCSG,	97.61
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	97.59
4b4t_L	437	26S protease subunit RPT4; hydrolase, AAA-atpases,	97.56
3rw6_A	267	Nuclear RNA export factor 1; retroviral constituti	97.54
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	97.52
4b4t_H	467	26S protease regulatory subunit 7 homolog; hydrola	97.51
4gt6_A	394	Cell surface protein; leucine rich repeats, putati	97.5
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	97.49
4b4t_I	437	26S protease regulatory subunit 4 homolog; hydrola	97.48
3hu3_A	489	Transitional endoplasmic reticulum ATPase; VCP, tr	97.48
1ofh_A	310	ATP-dependent HSL protease ATP-binding subunit HSL	97.47
4b4t_K	428	26S protease regulatory subunit 6B homolog; hydrol	97.45
2ce7_A	476	Cell division protein FTSH; metalloprotease; HET:	97.34
4b4t_M	434	26S protease regulatory subunit 6A; hydrolase, AAA	97.34
4fcw_A	311	Chaperone protein CLPB; AAA domain; HET: ADP; 2.35	97.33
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	97.33
2bjv_A	265	PSP operon transcriptional activator; AAA, transcr	97.23
2c9o_A	456	RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-	97.16
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	97.05
1ojl_A	304	Transcriptional regulatory protein ZRAR; response	97.01
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	96.97
2kjq_A	149	DNAA-related protein; solution structure, NESG, st	96.96
4h09_A	379	Hypothetical leucine rich repeat protein; two LRR_	96.89
3m6a_A	543	ATP-dependent protease LA 1; alpha, beta, ATP-bind	96.83
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	96.82
2dhr_A	499	FTSH; AAA+ protein, hexameric Zn metalloprotease,	96.81
3co5_A	143	Putative two-component system transcriptional RES	96.81
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	96.72
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	96.61
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	96.57
3hr8_A	356	Protein RECA; alpha and beta proteins (A/B, A+B),	96.54
2vhj_A	331	Ntpase P4, P4; non- hydrolysable ATP analogue, hyd	96.47
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	96.46
2cvh_A	220	DNA repair and recombination protein RADB; filamen	96.39
1n0w_A	243	DNA repair protein RAD51 homolog 1; DNA repair, ho	96.28
3lw7_A	179	Adenylate kinase related protein (ADKA-like); AMP,	96.23
2z43_A	324	DNA repair and recombination protein RADA; archaea	96.12
2qgz_A	308	Helicase loader, putative primosome component; str	96.03
1v5w_A	343	DMC1, meiotic recombination protein DMC1/LIM15 hom	96.03
1u94_A	356	RECA protein, recombinase A; homologous recombinat	96.03
2b8t_A	223	Thymidine kinase; deoxyribonucleoside kinase, zinc	96.02
1jr3_D	343	DNA polymerase III, delta subunit; processivity, p	96.01
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	95.95
3io5_A	333	Recombination and repair protein; storage dimer, i	95.95
1xp8_A	366	RECA protein, recombinase A; recombination, radior	95.93
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	95.85
2zr9_A	349	Protein RECA, recombinase A; recombination, RECA m	95.81
3dm5_A	443	SRP54, signal recognition 54 kDa protein; protein-	95.81
1g5t_A	196	COB(I)alamin adenosyltransferase; P-loop protein,	95.79
4h09_A	379	Hypothetical leucine rich repeat protein; two LRR_	95.74
1rz3_A	201	Hypothetical protein rbstp0775; MCSG, structural g	95.54
2w0m_A	235	SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus	95.45
2px0_A	296	Flagellar biosynthesis protein FLHF; SRP GTPase, f	95.4
2i1q_A	322	DNA repair and recombination protein RADA; ATPase,	95.38
2xxa_A	433	Signal recognition particle protein; protein trans	95.22
3c8u_A	208	Fructokinase; YP_612366.1, putative fructose trans	95.14
3ice_A	422	Transcription termination factor RHO; transcriptio	95.1
3lda_A	400	DNA repair protein RAD51; DNA binding protein, ATP	95.1
2ck3_D	482	ATP synthase subunit beta\, mitochondrial; hydrola	94.95
3kb2_A	173	SPBC2 prophage-derived uncharacterized protein YOR	94.93
2orw_A	184	Thymidine kinase; TMTK, TP4A, transferase; HET: 4T	94.89
3e70_C	328	DPA, signal recognition particle receptor; FTSY, S	94.86
1j8m_F	297	SRP54, signal recognition 54 kDa protein; signalin	94.85
1qhx_A	178	CPT, protein (chloramphenicol phosphotransferase);	94.85
1vma_A	306	Cell division protein FTSY; TM0570, structural gen	94.74
3kl4_A	433	SRP54, signal recognition 54 kDa protein; signal r	94.72
2ffh_A	425	Protein (FFH); SRP54, signal recognition particle,	94.7
2ga8_A	359	Hypothetical 39.9 kDa protein; YFR007W, YFH7, unkn	94.63
1pzn_A	349	RAD51, DNA repair and recombination protein RAD51,	94.62
3vaa_A	199	Shikimate kinase, SK; structural genomics, center	94.61
2hf9_A	226	Probable hydrogenase nickel incorporation protein	94.59
1pgv_A	197	TMD-1, tropomodulin TMD-1; structural genomics, PS	94.55
2r44_A	331	Uncharacterized protein; putative ATPase, structur	94.53
3bh0_A	315	DNAB-like replicative helicase; ATPase, replicatio	94.46
2yvu_A	186	Probable adenylyl-sulfate kinase; transferase, str	94.43
3trf_A	185	Shikimate kinase, SK; amino acid biosynthesis, tra	94.42
1fx0_B	498	ATP synthase beta chain; latent ATPase, thermal st	94.41
1sky_E	473	F1-ATPase, F1-ATP synthase; F1FO ATP synthase, alp	94.39
2dr3_A	247	UPF0273 protein PH0284; RECA superfamily ATPase, h	94.3
1kag_A	173	SKI, shikimate kinase I; transferase, structural g	94.29
1ly1_A	181	Polynucleotide kinase; PNK, phosphatase, transfera	94.29
1kgd_A	180	CASK, peripheral plasma membrane CASK; maguk, guan	94.29
1zp6_A	191	Hypothetical protein ATU3015; alpha-beta protein.,	94.28
3hws_A	363	ATP-dependent CLP protease ATP-binding subunit CL;	94.22
2wsm_A	221	Hydrogenase expression/formation protein (HYPB); m	94.21
3uie_A	200	Adenylyl-sulfate kinase 1, chloroplastic; rossmann	94.15
3t61_A	202	Gluconokinase; PSI-biology, structural genomics, p	94.12
1nks_A	194	Adenylate kinase; thermophilic, transferase; HET:	94.09
4eun_A	200	Thermoresistant glucokinase; putative sugar kinase	94.08
1kht_A	192	Adenylate kinase; phosphotransferase, signaling pr	94.0
2rhm_A	193	Putative kinase; P-loop containing nucleoside trip	94.0
1odf_A	290	YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser	93.98
1um8_A	376	ATP-dependent CLP protease ATP-binding subunit CL;	93.97
3iij_A	180	Coilin-interacting nuclear ATPase protein; alpha a	93.95
4a1f_A	338	DNAB helicase, replicative DNA helicase; hydrolase	93.9
1ex7_A	186	Guanylate kinase; substrate-induced FIT, domain mo	93.88
3nbx_X	500	ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structu	93.83
1via_A	175	Shikimate kinase; structural genomics, transferase	93.82
1knq_A	175	Gluconate kinase; ALFA/beta structure, transferase	93.8
3rfe_A	130	Platelet glycoprotein IB beta chain; platelet surf	93.79
2jaq_A	205	Deoxyguanosine kinase; transferase, deoxyribonucle	93.78
2bbw_A	246	Adenylate kinase 4, AK4; nucleotide kinase, nucleo	93.76
2c95_A	196	Adenylate kinase 1; transferase, AP4A, nucleotide	93.74
2ze6_A	253	Isopentenyl transferase; crown GALL tumor, cytokin	93.74
1zuh_A	168	Shikimate kinase; alpha-beta protein, transferase;	93.73
3tau_A	208	Guanylate kinase, GMP kinase; structural genomics,	93.73
3rfe_A	130	Platelet glycoprotein IB beta chain; platelet surf	93.72
2j37_W	504	Signal recognition particle 54 kDa protein (SRP54)	93.71
1y63_A	184	LMAJ004144AAA protein; structural genomics, protei	93.7
3tr0_A	205	Guanylate kinase, GMP kinase; purines, pyrimidines	93.7
1g8p_A	350	Magnesium-chelatase 38 kDa subunit; parallel beta	93.68
2qor_A	204	Guanylate kinase; phosphotransferase, purine metab	93.68
1pgv_A	197	TMD-1, tropomodulin TMD-1; structural genomics, PS	93.65
2bdt_A	189	BH3686; alpha-beta protein, structural genomics, P	93.62
1tev_A	196	UMP-CMP kinase; ploop, NMP binding region, LID reg	93.59
1ukz_A	203	Uridylate kinase; transferase; HET: ADP AMP; 1.90A	93.58
2iyv_A	184	Shikimate kinase, SK; transferase, aromatic amino	93.54
3a00_A	186	Guanylate kinase, GMP kinase; domain movement, dim	93.52
1ye8_A	178	Protein THEP1, hypothetical UPF0334 kinase-like pr	93.52
3umf_A	217	Adenylate kinase; rossmann fold, transferase; 2.05	93.5
1uf9_A	203	TT1252 protein; P-loop, nucleotide binding domain,	93.5
2if2_A	204	Dephospho-COA kinase; alpha-beta protein, structur	93.49
1tue_A	212	Replication protein E1; helicase, replication, E1E	93.47
3fwy_A	314	Light-independent protochlorophyllide reductase I	93.46
2bwj_A	199	Adenylate kinase 5; phosphoryl transfer reaction,	93.43
1cke_A	227	CK, MSSA, protein (cytidine monophosphate kinase);	93.43
1e6c_A	173	Shikimate kinase; phosphoryl transfer, ADP, shikim	93.4
2j41_A	207	Guanylate kinase; GMP, GMK, transferase, ATP-bindi	93.36
3cm0_A	186	Adenylate kinase; ATP-binding, cytoplasm, nucleoti	93.35
3asz_A	211	Uridine kinase; cytidine phosphorylation, transfer	93.34
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	93.29
3a4m_A	260	L-seryl-tRNA(SEC) kinase; P-loop motif, walker A m	93.26
1gvn_B	287	Zeta; postsegregational killing system, plasmid; 1	93.24
2plr_A	213	DTMP kinase, probable thymidylate kinase; TMP-bind	93.23
2vli_A	183	Antibiotic resistance protein; transferase, tunica	93.23
2qt1_A	207	Nicotinamide riboside kinase 1; non-protein kinase	93.23
4gp7_A	171	Metallophosphoesterase; polynucleotide kinase phos	93.18
1jjv_A	206	Dephospho-COA kinase; P-loop nucleotide-binding fo	93.17
2pt5_A	168	Shikimate kinase, SK; aromatic amino acid biosynth	93.17
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	93.16
1lvg_A	198	Guanylate kinase, GMP kinase; transferase; HET: AD	93.16
3ney_A	197	55 kDa erythrocyte membrane protein; structural ge	93.16
3l0o_A	427	Transcription termination factor RHO; helicase, RH	93.14
2cdn_A	201	Adenylate kinase; phosphoryl transfer, associative	93.13
1xjc_A	169	MOBB protein homolog; structural genomics, midwest	93.12
1qf9_A	194	UMP/CMP kinase, protein (uridylmonophosphate/cytid	93.11
1g41_A	444	Heat shock protein HSLU; AAA-ATPase, CLPY, ATP-dep	93.11
2pbr_A	195	DTMP kinase, thymidylate kinase; transferase, nucl	93.06
3tlx_A	243	Adenylate kinase 2; structural genomics, structura	93.06
2grj_A	192	Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosp	93.02
1ls1_A	295	Signal recognition particle protein; FFH, SRP54, S	92.96
2wwf_A	212	Thymidilate kinase, putative; transferase, malaria	92.9
1zd8_A	227	GTP:AMP phosphotransferase mitochondrial; ATP:AMP	92.9
1zu4_A	320	FTSY; GTPase, signal recognition particle, SRP, re	92.83
1nn5_A	215	Similar to deoxythymidylate kinase (thymidylate K;	92.83
1aky_A	220	Adenylate kinase; ATP:AMP phosphotransferase, myok	92.8
2yhs_A	503	FTSY, cell division protein FTSY; cell cycle, prot	92.76
3fb4_A	216	Adenylate kinase; psychrophIle, phosphotransferase	92.72
3tqc_A	321	Pantothenate kinase; biosynthesis of cofactors, pr	92.67
1znw_A	207	Guanylate kinase, GMP kinase; ATP:GMP-phosphotrans	92.66
1zak_A	222	Adenylate kinase; ATP:AMP-phosphotransferase, tran	92.66
4a74_A	231	DNA repair and recombination protein RADA; hydrola	92.65
4e22_A	252	Cytidylate kinase; P-loop, CMP/ATP binding, transf	92.64
1uj2_A	252	Uridine-cytidine kinase 2; alpha/beta mononucleoti	92.63
1htw_A	158	HI0065; nucleotide-binding fold, structural genomi	92.63
2z0h_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	92.62
2p5t_B	253	PEZT; postsegregational killing system, phosphoryl	92.58
1gtv_A	214	TMK, thymidylate kinase; transferase, transferase	92.54
3dl0_A	216	Adenylate kinase; phosphotransferase, zinc coordin	92.53
3aez_A	312	Pantothenate kinase; transferase, homodimer, COA b	92.49
2jeo_A	245	Uridine-cytidine kinase 1; UCK, transferase, ATP-b	92.49
3jvv_A	356	Twitching mobility protein; hexameric P-loop ATPas	92.48
2v54_A	204	DTMP kinase, thymidylate kinase; nucleotide biosyn	92.48
1z6g_A	218	Guanylate kinase; structural genomics, SGC, struct	92.45
2r6a_A	454	DNAB helicase, replicative helicase; replication,	92.4
1rj9_A	304	FTSY, signal recognition protein; SRP-GTPase domai	92.31
1s96_A	219	Guanylate kinase, GMP kinase; E.coli, dimer, SAD,	92.1
2v3c_C	432	SRP54, signal recognition 54 kDa protein; nucleoti	92.06
2pez_A	179	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	92.05
3sr0_A	206	Adenylate kinase; phosphoryl transfer analogue, AL	92.04
1m7g_A	211	Adenylylsulfate kinase; APS kinase, transferase, s	92.01
3oaa_A	513	ATP synthase subunit alpha; rossmann fold, hydrola	91.99
2i3b_A	189	HCR-ntpase, human cancer-related ntpase; AAA, ross	91.96
3vr4_D	465	V-type sodium ATPase subunit D; V-ATPase, rotary m	91.95
2f1r_A	171	Molybdopterin-guanine dinucleotide biosynthesis pr	91.95
3mfy_A	588	V-type ATP synthase alpha chain; A-type ATP syntha	91.91
3nwj_A	250	ATSK2; P loop, shikimate, nucleoside monophosphate	91.86
3r20_A	233	Cytidylate kinase; structural genomics, seattle st	91.86
2f6r_A	281	COA synthase, bifunctional coenzyme A synthase; 18	91.86
3p32_A	355	Probable GTPase RV1496/MT1543; structural genomics	91.8
1vht_A	218	Dephospho-COA kinase; structural genomics, transfe	91.77
3ake_A	208	Cytidylate kinase; CMP kinase, CMP complex, open c	91.76
3be4_A	217	Adenylate kinase; malaria, cryptosporidium parvum	91.75
3d3q_A	340	TRNA delta(2)-isopentenylpyrophosphate transferase	91.75
1e4v_A	214	Adenylate kinase; transferase(phosphotransferase);	91.66
2xb4_A	223	Adenylate kinase; ATP-binding, nucleotide-binding,	91.66
3end_A	307	Light-independent protochlorophyllide reductase ir	91.66
4akg_A	2695	Glutathione S-transferase class-MU 26 kDa isozyme	91.65
1ak2_A	233	Adenylate kinase isoenzyme-2; nucleoside monophosp	91.63
3k1j_A	604	LON protease, ATP-dependent protease LON; ATP-bind	91.6
2onk_A	240	Molybdate/tungstate ABC transporter, ATP-binding p	91.53
1np6_A	174	Molybdopterin-guanine dinucleotide biosynthesis pr	91.53
2ehv_A	251	Hypothetical protein PH0186; KAIC, RECA ATPase, un	91.5
1sq5_A	308	Pantothenate kinase; P-loop, transferase; HET: PAU	91.42
3b9q_A	302	Chloroplast SRP receptor homolog, alpha subunit CP	91.4
3lnc_A	231	Guanylate kinase, GMP kinase; ALS collaborative cr	91.35
2og2_A	359	Putative signal recognition particle receptor; nuc	91.3
3crm_A	323	TRNA delta(2)-isopentenylpyrophosphate transferase	91.28
3a8t_A	339	Adenylate isopentenyltransferase; rossmann fold pr	91.24
3exa_A	322	TRNA delta(2)-isopentenylpyrophosphate transferase	91.21
3bgw_A	444	DNAB-like replicative helicase; ATPase, replicatio	91.17
1q57_A	503	DNA primase/helicase; dntpase, DNA replication, tr	91.04
2qe7_A	502	ATP synthase subunit alpha; blockage of ATP hydrol	91.02
2pcj_A	224	ABC transporter, lipoprotein-releasing system ATP-	90.98
3tif_A	235	Uncharacterized ABC transporter ATP-binding prote;	90.92
1cr0_A	296	DNA primase/helicase; RECA-type protein fold, tran	90.85
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	90.75
4eaq_A	229	DTMP kinase, thymidylate kinase; structural genomi	90.72
3io3_A	348	DEHA2D07832P; chaperone, membrane traffic, ATPase;	90.69
1nlf_A	279	Regulatory protein REPA; replicative DNA helicase	90.67
3b85_A	208	Phosphate starvation-inducible protein; PHOH2, ATP	90.66
3iqw_A	334	Tail-anchored protein targeting factor GET3; ATPas	90.52
1yrb_A	262	ATP(GTP)binding protein; GTPase, P-loop, rossman f	90.5
2r9v_A	515	ATP synthase subunit alpha; TM1612, structural gen	90.5
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	90.47
3foz_A	316	TRNA delta(2)-isopentenylpyrophosphate transferas;	90.45
2cbz_A	237	Multidrug resistance-associated protein 1; ABC pro	90.44
2dyk_A	161	GTP-binding protein; GTPase, ribosome-binding prot	90.38
3lv8_A	236	DTMP kinase, thymidylate kinase; structural genomi	90.32
2d2e_A	250	SUFC protein; ABC-ATPase, SUF protein, 310-helix,	90.32
1a7j_A	290	Phosphoribulokinase; transferase, calvin cycle; 2.	90.31
3gfo_A	275	Cobalt import ATP-binding protein CBIO 1; structur	90.29
1b0u_A	262	Histidine permease; ABC transporter, transport pro	90.27
2r8r_A	228	Sensor protein; KDPD, PFAM02702, MCSG, structural	90.25
2c61_A	469	A-type ATP synthase non-catalytic subunit B; hydro	90.22
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	90.21
1ji0_A	240	ABC transporter; ATP binding protein, structural g	90.16
2zu0_C	267	Probable ATP-dependent transporter SUFC; iron-sulf	90.13
2wji_A	165	Ferrous iron transport protein B homolog; membrane	90.09
3gqb_B	464	V-type ATP synthase beta chain; A3B3, V-ATPase, AT	90.09
2pze_A	229	Cystic fibrosis transmembrane conductance regulat;	90.07
1sgw_A	214	Putative ABC transporter; structural genomics, P p	90.04
2olj_A	263	Amino acid ABC transporter; ABC domain, ATPase, hy	90.03
4g1u_C	266	Hemin import ATP-binding protein HMUV; membrane tr	90.03
3vr4_A	600	V-type sodium ATPase catalytic subunit A; V-ATPase	90.01
3zvl_A	416	Bifunctional polynucleotide phosphatase/kinase; hy	90.01
1ltq_A	301	Polynucleotide kinase; phosphatase, alpha/beta, P-	90.0
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	90.0
1g6h_A	257	High-affinity branched-chain amino acid transport	89.96
3hjn_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	89.95
2ged_A	193	SR-beta, signal recognition particle receptor beta	89.93
2q6t_A	444	DNAB replication FORK helicase; hydrolase; 2.90A {	89.93
4tmk_A	213	Protein (thymidylate kinase); ATP:DTMP phosphotran	89.88
1q3t_A	236	Cytidylate kinase; nucleotide monophosphate kinase	89.82
2v9p_A	305	Replication protein E1; AAA+ molecular motor, DNA	89.82
2ff7_A	247	Alpha-hemolysin translocation ATP-binding protein	89.81
2qmh_A	205	HPR kinase/phosphorylase; V267F mutation, ATP-bind	89.78
1vpl_A	256	ABC transporter, ATP-binding protein; TM0544, stru	89.76
2ocp_A	241	DGK, deoxyguanosine kinase; protein-nucleotide com	89.72
1mv5_A	243	LMRA, multidrug resistance ABC transporter ATP-bin	89.7
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	89.68
2qi9_C	249	Vitamin B12 import ATP-binding protein BTUD; inner	89.58
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	89.57
2ghi_A	260	Transport protein; multidrug resistance protein, M	89.54
2eyu_A	261	Twitching motility protein PILT; pilus retraction	89.47
2ixe_A	271	Antigen peptide transporter 1; ABC ATPase, hydrola	89.47
2nq2_C	253	Hypothetical ABC transporter ATP-binding protein H	89.34
2yz2_A	266	Putative ABC transporter ATP-binding protein TM_0;	89.33
1g8f_A	511	Sulfate adenylyltransferase; alpha-beta protein, b	89.27
3sop_A	270	Neuronal-specific septin-3; hydrolase; HET: GDP; 2	89.25
2ihy_A	279	ABC transporter, ATP-binding protein; ATPase, ABC	89.25
2wjg_A	188	FEOB, ferrous iron transport protein B homolog; me	89.23
1svm_A	377	Large T antigen; AAA+ fold, viral protein; HET: AT	89.22
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	89.21
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	89.11
4gzl_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	89.06
2ck3_A	510	ATP synthase subunit alpha\, mitochondrial; hydrol	89.05
3eph_A	409	TRNA isopentenyltransferase; transferase, alternat	89.04
4edh_A	213	DTMP kinase, thymidylate kinase; structural genomi	89.03
1cp2_A	269	CP2, nitrogenase iron protein; oxidoreductase; 1.9	89.02
1zj6_A	187	ADP-ribosylation factor-like protein 5; ARL, GTP-b	89.01
1u0j_A	267	DNA replication protein; AAA+ protein, P-loop atpa	88.94
3upu_A	459	ATP-dependent DNA helicase DDA; RECA-like domain,	88.93
1fx0_A	507	ATP synthase alpha chain; latent ATPase, thermal s	88.73
4hlc_A	205	DTMP kinase, thymidylate kinase; TMK, MRSA, pipiri	88.7
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	88.63
2vp4_A	230	Deoxynucleoside kinase; ATP-binding, DNA synthesis	88.62
3gmt_A	230	Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucle	88.56
2orv_A	234	Thymidine kinase; TP4A (P1-(5'-adenosyl)P4-(5'- (2	88.53
1p9r_A	418	General secretion pathway protein E; bacterial typ	88.5
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	88.49

>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*

Probab=100.00  E-value=3e-48  Score=446.95  Aligned_cols=312  Identities=16%  Similarity=0.153  Sum_probs=251.0

Q ss_pred             cchhHHHHHHHHHhcCC---CccEEEEEcCCCCcHHHHHHHHHh--hhcCCCCCCCEEEEEEeCCcc--CHHHHHHHHHH
Q 048126          129 VGLESMFDKVWRCLGEE---QVGIIGLYGMGGVGKTTLLTKINN--KLLGAPNDFDVVIWVVVSKDL--QLEKIQEKIGR  201 (863)
Q Consensus       129 vGr~~~~~~l~~~L~~~---~~~vi~I~G~gGiGKTtLa~~v~~--~~~~~~~~F~~~~wv~~s~~~--~~~~~~~~i~~  201 (863)
                      |||+.++++|.++|..+   ..++|+|+||||+||||||+++|+  +. +++.+|+.++||++++.+  ++..++..|+.
T Consensus       131 ~GR~~~~~~l~~~L~~~~~~~~~vv~I~G~gGvGKTtLA~~v~~~~~~-~~~~~F~~~~wv~vs~~~~~~~~~~~~~il~  209 (549)
T 2a5y_B          131 YIREYHVDRVIKKLDEMCDLDSFFLFLHGRAGSGKSVIASQALSKSDQ-LIGINYDSIVWLKDSGTAPKSTFDLFTDILL  209 (549)
T ss_dssp             CCCHHHHHHHHHHHHHHTTSSSEEEEEECSTTSSHHHHHHHHHHHCSS-TBTTTBSEEEEEECCCCSTTHHHHHHHHHHH
T ss_pred             CCchHHHHHHHHHHhcccCCCceEEEEEcCCCCCHHHHHHHHHHhhhH-HHhccCCcEEEEEECCCCCCCHHHHHHHHHH
Confidence            69999999999999653   689999999999999999999998  44 568899999999999985  78999999999


Q ss_pred             HhCCCCc-----cccCCChhHHHHHHHHHhccC-cEEEEEeccCCccccccccCCCCCCCCCcEEEEecCchhhhhccc-
Q 048126          202 RIGFLDE-----SWKNGSLEDKASDILRILSKK-KFLLLLDDIWERVDLTKVGVPFPDPENKSKIVFTTRFLEICGAMK-  274 (863)
Q Consensus       202 ~l~~~~~-----~~~~~~~~~~~~~l~~~l~~k-r~LlVlDdv~~~~~~~~~~~~l~~~~~gs~IivTtR~~~v~~~~~-  274 (863)
                      +++....     .....+.+++...+++.++++ ||||||||||+...+ .+.     ..+||+||||||+..++..++ 
T Consensus       210 ~l~~~~~~~~~~~~~~~~~~~l~~~l~~~L~~~kr~LlVLDdv~~~~~~-~~~-----~~~gs~ilvTTR~~~v~~~~~~  283 (549)
T 2a5y_B          210 MLKSEDDLLNFPSVEHVTSVVLKRMICNALIDRPNTLFVFDDVVQEETI-RWA-----QELRLRCLVTTRDVEISNAASQ  283 (549)
T ss_dssp             HHTTTSCCTTCCCCTTCCHHHHHHHHHHHHTTSTTEEEEEEEECCHHHH-HHH-----HHTTCEEEEEESBGGGGGGCCS
T ss_pred             HHhcCcccccccccccccHHHHHHHHHHHHcCCCcEEEEEECCCCchhh-ccc-----ccCCCEEEEEcCCHHHHHHcCC
Confidence            9986531     112234456788999999996 999999999997654 111     127999999999999988776 


Q ss_pred             ccceEeecCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCCchhHHHHHHHHhcCCCChhHHHHHHHHHHhcCC
Q 048126          275 AHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGLPLALITIGRAMTCKKTTQEWHHAIQILRRSSS  354 (863)
Q Consensus       275 ~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPlai~~~~~~l~~~~~~~~w~~~l~~l~~~~~  354 (863)
                      ...+|+|++|+.+|||+||.+.++...  .++++.+++++|+++|+|+|||++++|+.|+.+ +   |+.+ +.+.+..+
T Consensus       284 ~~~~~~l~~L~~~ea~~Lf~~~a~~~~--~~~~~~~~~~~I~~~c~GlPLAl~~~g~~l~~~-~---w~~~-~~l~~~l~  356 (549)
T 2a5y_B          284 TCEFIEVTSLEIDECYDFLEAYGMPMP--VGEKEEDVLNKTIELSSGNPATLMMFFKSCEPK-T---FEKM-AQLNNKLE  356 (549)
T ss_dssp             CEEEEECCCCCHHHHHHHHHHTSCCCC----CHHHHHHHHHHHHHTTCHHHHHHHHTTCCSS-S---HHHH-HHHHHHHH
T ss_pred             CCeEEECCCCCHHHHHHHHHHHhcCCC--CchhHHHHHHHHHHHhCCChHHHHHHHHHhccc-h---HHHH-HHhHHHhh
Confidence            446799999999999999999987643  246788899999999999999999999999764 2   4433 44443322


Q ss_pred             CCCCCcchhhhhhhhhcCCCCchhhHHHHh-----------HhccCCCCccccHHhHHHHHHhc--CCCCCcc-cchhhh
Q 048126          355 EFPGMGKEVYPLLKFSYDSLPDDTIRSCFL-----------YCGLFPEDYRIRKSELIDCWIGE--GFLDQYD-RSGAYN  420 (863)
Q Consensus       355 ~~~~~~~~~~~~l~~sy~~L~~~~~k~cfl-----------~~~~fp~~~~i~~~~li~~w~a~--g~i~~~~-~~~~~~  420 (863)
                      ...  ...+..++.+||++||. ++|.||+           |||+||+++.|+    +++|+|+  ||+...+ ....++
T Consensus       357 ~~~--~~~i~~~l~~Sy~~L~~-~lk~~f~~Ls~~er~l~~~ls~fp~~~~i~----i~~w~a~~~G~i~~~~~~~~~~~  429 (549)
T 2a5y_B          357 SRG--LVGVECITPYSYKSLAM-ALQRCVEVLSDEDRSALAFAVVMPPGVDIP----VKLWSCVIPVDICSNEEEQLDDE  429 (549)
T ss_dssp             HHC--SSTTCCCSSSSSSSHHH-HHHHHHHTSCHHHHHHTTGGGSSCTTCCEE----HHHHHHHSCC-------CCCTHH
T ss_pred             ccc--HHHHHHHHhcccccccH-HHHHHHhccchhhhhHhhheeeeCCCCeee----eeeeeeeccceeccCCCCCCHHH
Confidence            111  24688999999999999 8999999           999999999999    8899999  9998765 455666


Q ss_pred             hHHHHHHHHHHhccccccccccccccccceEEeehhHHHHHHHHHHhh
Q 048126          421 EGYYIIGILLHACLLEEEEGDIAEEKSGEHVVKMHDVIRDMVLWIACK  468 (863)
Q Consensus       421 ~~~~~~~~L~~~sll~~~~~~~~~~~~~~~~~~mHdli~d~a~~~~~~  468 (863)
                      .++ |+++|+++||+++...      +...+|+|||+||++|++++.+
T Consensus       430 ~~~-~l~~L~~rsLl~~~~~------~~~~~~~mHdlv~~~a~~~~~~  470 (549)
T 2a5y_B          430 VAD-RLKRLSKRGALLSGKR------MPVLTFKIDHIIHMFLKHVVDA  470 (549)
T ss_dssp             HHH-HHHHTTTBSSCSEEEC------SSSCEEECCHHHHHHHHTTSCT
T ss_pred             HHH-HHHHHHHcCCeeEecC------CCceEEEeChHHHHHHHHHHHH
Confidence            666 9999999999998752      1356899999999999988754

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

Probab=100.00  E-value=6.5e-40  Score=379.01  Aligned_cols=286  Identities=19%  Similarity=0.264  Sum_probs=230.0

Q ss_pred             CccchhHHHHHHHHHhcC-CCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCE-EEEEEeCCccCHHHHHHHHHHHhC
Q 048126          127 PTVGLESMFDKVWRCLGE-EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDV-VIWVVVSKDLQLEKIQEKIGRRIG  204 (863)
Q Consensus       127 ~~vGr~~~~~~l~~~L~~-~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~-~~wv~~s~~~~~~~~~~~i~~~l~  204 (863)
                      ..|||+.++++|.++|.. +..++|+|+||||+||||||+++|++. +++.+|+. ++|+++++.++...++..|+..++
T Consensus       129 ~~VGRe~eLeeL~elL~~~d~~RVV~IvGmGGIGKTTLAk~Vy~d~-rV~~~Fd~gV~WVsVs~~~d~~~IL~~Ll~lL~  207 (1221)
T 1vt4_I          129 YNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSY-KVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLY  207 (1221)
T ss_dssp             SCCCCHHHHHHHHHHHHHCCSSCEEEECCSTTSSHHHHHHHHHHHC-HHHHHHSSCEEEEECCCSSSHHHHHHHHHHHHH
T ss_pred             CCCCcHHHHHHHHHHHhccCCCeEEEEEcCCCccHHHHHHHHHHhh-HHHHhCCCcEEEEEeCCCCCHHHHHHHHHHHHh
Confidence            359999999999999975 568999999999999999999999875 45678986 999999999998888888877543


Q ss_pred             CCCccc----c-----CCChhHHHHHHHHHh---ccCcEEEEEeccCCccccccccCCCCCCCCCcEEEEecCchhhhhc
Q 048126          205 FLDESW----K-----NGSLEDKASDILRIL---SKKKFLLLLDDIWERVDLTKVGVPFPDPENKSKIVFTTRFLEICGA  272 (863)
Q Consensus       205 ~~~~~~----~-----~~~~~~~~~~l~~~l---~~kr~LlVlDdv~~~~~~~~~~~~l~~~~~gs~IivTtR~~~v~~~  272 (863)
                      ......    .     ..+.++....+++.+   .+||+||||||||+...|+.+.       +||+||||||++.++..
T Consensus       208 ~i~~~~~~~~d~~~~ip~~leeL~e~Lr~lL~~l~~KRvLLVLDDVwd~eqLe~f~-------pGSRILVTTRd~~Va~~  280 (1221)
T 1vt4_I          208 QIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFN-------LSCKILLTTRFKQVTDF  280 (1221)
T ss_dssp             HHCSSSTTTSCCCSSHHHHHHHHHHHHHHHHHHSTTSSCEEEEESCCCHHHHHHHH-------SSCCEEEECSCSHHHHH
T ss_pred             hcCcccccccccccCCCCCHHHHHHHHHHHHHhhcCCCEEEEEeCcChHHHHHhhC-------CCeEEEEeccChHHHHh
Confidence            211000    0     012344566677765   6799999999999988887652       68999999999999865


Q ss_pred             ccccceEeec------CCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCCchhHHHHHHHHhcCC-CChhHHHHH
Q 048126          273 MKAHEFLKVE------CLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGLPLALITIGRAMTCK-KTTQEWHHA  345 (863)
Q Consensus       273 ~~~~~~~~l~------~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPlai~~~~~~l~~~-~~~~~w~~~  345 (863)
                      +.....+.++      +|+.+|||+||.+.+...       ..++..+|   |+|+||||+++|+.|+++ .+..+|...
T Consensus       281 l~g~~vy~LeL~d~dL~LS~eEA~eLF~~~~g~~-------~eeL~~eI---CgGLPLALkLaGs~Lr~k~~s~eeW~~~  350 (1221)
T 1vt4_I          281 LSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCR-------PQDLPREV---LTTNPRRLSIIAESIRDGLATWDNWKHV  350 (1221)
T ss_dssp             HHHHSSCEEEECSSSSCCCHHHHHHHHHHHHCCC-------TTTHHHHH---CCCCHHHHHHHHHHHHHSCSSHHHHHHC
T ss_pred             cCCCeEEEecCccccCCcCHHHHHHHHHHHcCCC-------HHHHHHHH---hCCCHHHHHHHHHHHhCCCCCHHHHhcC
Confidence            5544466777      999999999999985321       22334444   999999999999999986 367788752


Q ss_pred             HHHHHhcCCCCCCCcchhhhhhhhhcCCCCchhh-HHHHhHhccCCCCccccHHhHHHHHHhcCCCCCcccchhhhhHHH
Q 048126          346 IQILRRSSSEFPGMGKEVYPLLKFSYDSLPDDTI-RSCFLYCGLFPEDYRIRKSELIDCWIGEGFLDQYDRSGAYNEGYY  424 (863)
Q Consensus       346 l~~l~~~~~~~~~~~~~~~~~l~~sy~~L~~~~~-k~cfl~~~~fp~~~~i~~~~li~~w~a~g~i~~~~~~~~~~~~~~  424 (863)
                                   ..+.+..+|.+||+.||+ +. |.||+|||+||+++.|+++.++.+|+++|          ++.+..
T Consensus       351 -------------~~~~I~aaLelSYd~Lp~-eelK~cFL~LAIFPed~~I~~elLa~LW~aeG----------eedAe~  406 (1221)
T 1vt4_I          351 -------------NCDKLTTIIESSLNVLEP-AEYRKMFDRLSVFPPSAHIPTILLSLIWFDVI----------KSDVMV  406 (1221)
T ss_dssp             -------------SCHHHHHHHHHHHHHSCT-THHHHHHHHTTSSCTTSCEEHHHHHHHHCSSC----------SHHHHH
T ss_pred             -------------ChhHHHHHHHHHHHhCCH-HHHHHHHHHHhCCCCCCCCCHHHHHHHhcCCC----------HHHHHH
Confidence                         125799999999999999 77 99999999999999999999999999987          235788


Q ss_pred             HHHHHHHhccccccccccccccccceEEeehhHHHHHH
Q 048126          425 IIGILLHACLLEEEEGDIAEEKSGEHVVKMHDVIRDMV  462 (863)
Q Consensus       425 ~~~~L~~~sll~~~~~~~~~~~~~~~~~~mHdli~d~a  462 (863)
                      ++++|+++||++...        ....|+|||++++++
T Consensus       407 ~L~eLvdRSLLq~d~--------~~~rYrMHDLllELr  436 (1221)
T 1vt4_I          407 VVNKLHKYSLVEKQP--------KESTISIPSIYLELK  436 (1221)
T ss_dssp             HHHHHHTSSSSSBCS--------SSSEEBCCCHHHHHH
T ss_pred             HHHHHHhhCCEEEeC--------CCCEEEehHHHHHHh
Confidence            999999999999853        156899999999865

>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*

Probab=100.00  E-value=6e-38  Score=401.08  Aligned_cols=313  Identities=20%  Similarity=0.262  Sum_probs=254.2

Q ss_pred             CCCccchhHHHHHHHHHhc--CCCccEEEEEcCCCCcHHHHHHHHHhhhcCCCC-CCCEEEEEEeCCccC--HHHHHHHH
Q 048126          125 CEPTVGLESMFDKVWRCLG--EEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPN-DFDVVIWVVVSKDLQ--LEKIQEKI  199 (863)
Q Consensus       125 ~~~~vGr~~~~~~l~~~L~--~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~-~F~~~~wv~~s~~~~--~~~~~~~i  199 (863)
                      ...||||+.++++|.++|.  +++.++|+|+||||+||||||+++|++.+.... .|+.++||++++..+  ....+..+
T Consensus       123 ~~~~vgR~~~~~~l~~~l~~~~~~~~~v~i~G~gG~GKTtLa~~~~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~  202 (1249)
T 3sfz_A          123 PVIFVTRKKLVHAIQQKLWKLNGEPGWVTIYGMAGCGKSVLAAEAVRDHSLLEGCFSGGVHWVSIGKQDKSGLLMKLQNL  202 (1249)
T ss_dssp             CSSCCCCHHHHHHHHHHHHTTTTSCEEEEEECSTTSSHHHHHHHHTCCHHHHTTTSTTCEEEEECCSCCHHHHHHHHHHH
T ss_pred             CceeccHHHHHHHHHHHHhhccCCCCEEEEEeCCCCCHHHHHHHHhcChhHHHhhCCCeEEEEEECCcCchHHHHHHHHH
Confidence            3569999999999999995  357899999999999999999999998522234 456888999998543  44557777


Q ss_pred             HHHhCCCCcc--ccCCChhHHHHHHHHHhccC--cEEEEEeccCCccccccccCCCCCCCCCcEEEEecCchhhhhc-cc
Q 048126          200 GRRIGFLDES--WKNGSLEDKASDILRILSKK--KFLLLLDDIWERVDLTKVGVPFPDPENKSKIVFTTRFLEICGA-MK  274 (863)
Q Consensus       200 ~~~l~~~~~~--~~~~~~~~~~~~l~~~l~~k--r~LlVlDdv~~~~~~~~~~~~l~~~~~gs~IivTtR~~~v~~~-~~  274 (863)
                      +..+......  ....+.+++...++..+.++  ||||||||||+...|..+       .+||+||||||++.++.. ++
T Consensus       203 ~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~LlvlDd~~~~~~~~~~-------~~~~~ilvTtR~~~~~~~~~~  275 (1249)
T 3sfz_A          203 CMRLDQEESFSQRLPLNIEEAKDRLRVLMLRKHPRSLLILDDVWDPWVLKAF-------DNQCQILLTTRDKSVTDSVMG  275 (1249)
T ss_dssp             HHHHTTTCTTCSSCCSSHHHHHHHHHHHTSSSSCSCEEEEESCCCHHHHTTT-------CSSCEEEEEESSTTTTTTCCS
T ss_pred             HHHhhhhcccccCCCCCHHHHHHHHHHHHhccCCCEEEEEecCCCHHHHHhh-------cCCCEEEEEcCCHHHHHhhcC
Confidence            7777654321  12345677888899999887  999999999998777664       468999999999999854 45


Q ss_pred             ccceEeecC-CChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCCchhHHHHHHHHhcCCCChhHHHHHHHHHHhcC
Q 048126          275 AHEFLKVEC-LGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGLPLALITIGRAMTCKKTTQEWHHAIQILRRSS  353 (863)
Q Consensus       275 ~~~~~~l~~-L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPlai~~~~~~l~~~~~~~~w~~~l~~l~~~~  353 (863)
                      ....+.+.+ |+++||++||...++..    .+.+.+++++|+++|+|+||||+++|+.|+.+.  ..|..+++.+....
T Consensus       276 ~~~~~~~~~~l~~~~a~~l~~~~~~~~----~~~~~~~~~~i~~~~~glPLal~~~~~~l~~~~--~~~~~~l~~l~~~~  349 (1249)
T 3sfz_A          276 PKHVVPVESGLGREKGLEILSLFVNMK----KEDLPAEAHSIIKECKGSPLVVSLIGALLRDFP--NRWAYYLRQLQNKQ  349 (1249)
T ss_dssp             CBCCEECCSSCCHHHHHHHHHHHHTSC----STTCCTHHHHHHHHTTTCHHHHHHHHHHHHHSS--SCHHHHHHHHHSCC
T ss_pred             CceEEEecCCCCHHHHHHHHHHhhCCC----hhhCcHHHHHHHHHhCCCHHHHHHHHHHhhcCh--hHHHHHHHHHhhhh
Confidence            667889986 99999999999988543    345567899999999999999999999998744  47999999997764


Q ss_pred             CCC-CC----CcchhhhhhhhhcCCCCchhhHHHHhHhccCCCCccccHHhHHHHHHhcCCCCCcccchhhhhHHHHHHH
Q 048126          354 SEF-PG----MGKEVYPLLKFSYDSLPDDTIRSCFLYCGLFPEDYRIRKSELIDCWIGEGFLDQYDRSGAYNEGYYIIGI  428 (863)
Q Consensus       354 ~~~-~~----~~~~~~~~l~~sy~~L~~~~~k~cfl~~~~fp~~~~i~~~~li~~w~a~g~i~~~~~~~~~~~~~~~~~~  428 (863)
                      +.. ..    ..+.+..++.+||+.||+ ++|.||+|||+||+++.|+++.++.+|.++           ++.++.++++
T Consensus       350 ~~~~~~~~~~~~~~~~~~l~~s~~~L~~-~~~~~~~~l~~f~~~~~i~~~~~~~~~~~~-----------~~~~~~~l~~  417 (1249)
T 3sfz_A          350 FKRIRKSSSYDYEALDEAMSISVEMLRE-DIKDYYTDLSILQKDVKVPTKVLCVLWDLE-----------TEEVEDILQE  417 (1249)
T ss_dssp             CCCSSCTTCTTHHHHHHHHHHHHHTSCT-TTHHHHHHGGGSCTTCCEEHHHHHHHHTCC-----------HHHHHHHHHH
T ss_pred             hhhcccccccchHHHHHHHHHHHHhCCH-HHHHHHHHhCccCCCCeeCHHHHHHHhCCC-----------HHHHHHHHHH
Confidence            321 11    114689999999999999 899999999999999999999999999665           3667889999


Q ss_pred             HHHhccccccccccccccccceEEeehhHHHHHHHHHHhh
Q 048126          429 LLHACLLEEEEGDIAEEKSGEHVVKMHDVIRDMVLWIACK  468 (863)
Q Consensus       429 L~~~sll~~~~~~~~~~~~~~~~~~mHdli~d~a~~~~~~  468 (863)
                      |+++||++...      ++...+|+||++||++|+..+.+
T Consensus       418 L~~~sl~~~~~------~~~~~~~~~h~l~~~~~~~~~~~  451 (1249)
T 3sfz_A          418 FVNKSLLFCNR------NGKSFCYYLHDLQVDFLTEKNRS  451 (1249)
T ss_dssp             HHHTTSCEEEE------SSSSEEEECCHHHHHHHHHHTGG
T ss_pred             HHhccceEEec------CCCceEEEecHHHHHHHHhhhhH
Confidence            99999998754      22356799999999999988654

>1z6t_A APAF-1, apoptotic protease activating factor 1; caspase activation, ADP, nucleotide binding, CARD, apoptosis; HET: ADP; 2.21A {Homo sapiens}

Probab=100.00  E-value=4.2e-35  Score=343.19  Aligned_cols=306  Identities=20%  Similarity=0.281  Sum_probs=238.2

Q ss_pred             CCccchhHHHHHHHHHhcC--CCccEEEEEcCCCCcHHHHHHHHHhhhcCC-CCCC-CEEEEEEeCCccCHHHHHH---H
Q 048126          126 EPTVGLESMFDKVWRCLGE--EQVGIIGLYGMGGVGKTTLLTKINNKLLGA-PNDF-DVVIWVVVSKDLQLEKIQE---K  198 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~--~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~-~~~F-~~~~wv~~s~~~~~~~~~~---~  198 (863)
                      ..||||+.++++|.++|..  ++.++|+|+||||+||||||++++++. ++ ..+| +.++|++++.. +...+..   .
T Consensus       124 ~~~vGR~~~l~~L~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~-~~~~~~f~~~v~wv~~~~~-~~~~~~~~l~~  201 (591)
T 1z6t_A          124 VVFVTRKKLVNAIQQKLSKLKGEPGWVTIHGMAGCGKSVLAAEAVRDH-SLLEGCFPGGVHWVSVGKQ-DKSGLLMKLQN  201 (591)
T ss_dssp             SSCCCCHHHHHHHHHHHTTSTTSCEEEEEECCTTSSHHHHHHHHHCCH-HHHHHHCTTCEEEEEEESC-CHHHHHHHHHH
T ss_pred             CeecccHHHHHHHHHHHhcccCCCceEEEEcCCCCCHHHHHHHHHhch-hHHHhhCCCceEEEECCCC-chHHHHHHHHH
Confidence            5799999999999999973  467899999999999999999999875 33 4678 58999999876 3333333   3


Q ss_pred             HHHHhCCCC--ccccCCChhHHHHHHHHHhcc--CcEEEEEeccCCccccccccCCCCCCCCCcEEEEecCchhhhhccc
Q 048126          199 IGRRIGFLD--ESWKNGSLEDKASDILRILSK--KKFLLLLDDIWERVDLTKVGVPFPDPENKSKIVFTTRFLEICGAMK  274 (863)
Q Consensus       199 i~~~l~~~~--~~~~~~~~~~~~~~l~~~l~~--kr~LlVlDdv~~~~~~~~~~~~l~~~~~gs~IivTtR~~~v~~~~~  274 (863)
                      ++..++...  ......+.+.....+.+.+.+  +++||||||||+...+..+       .+|++||||||+..++..+.
T Consensus       202 l~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~LLVLDdv~~~~~l~~l-------~~~~~ilvTsR~~~~~~~~~  274 (591)
T 1z6t_A          202 LCTRLDQDESFSQRLPLNIEEAKDRLRILMLRKHPRSLLILDDVWDSWVLKAF-------DSQCQILLTTRDKSVTDSVM  274 (591)
T ss_dssp             HHHHHCSSCCSCSSCCCSHHHHHHHHHHHHHHTCTTCEEEEEEECCHHHHHTT-------CSSCEEEEEESCGGGGTTCC
T ss_pred             HHHHhccccccccCCCCCHHHHHHHHHHHHccCCCCeEEEEeCCCCHHHHHHh-------cCCCeEEEECCCcHHHHhcC
Confidence            344554211  111334566777888888877  7899999999987655543       45899999999998876544


Q ss_pred             ccceEee---cCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCCchhHHHHHHHHhcCCCChhHHHHHHHHHHh
Q 048126          275 AHEFLKV---ECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGLPLALITIGRAMTCKKTTQEWHHAIQILRR  351 (863)
Q Consensus       275 ~~~~~~l---~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPlai~~~~~~l~~~~~~~~w~~~l~~l~~  351 (863)
                       ...+.+   ++|+.+|+++||...++...    +...+.+.+|+++|+|+|+|+..+|+.++.+  ...|..+++.+..
T Consensus       275 -~~~~~v~~l~~L~~~ea~~L~~~~~~~~~----~~~~~~~~~i~~~~~G~PLal~~~a~~l~~~--~~~w~~~l~~l~~  347 (591)
T 1z6t_A          275 -GPKYVVPVESSLGKEKGLEILSLFVNMKK----ADLPEQAHSIIKECKGSPLVVSLIGALLRDF--PNRWEYYLKQLQN  347 (591)
T ss_dssp             -SCEEEEECCSSCCHHHHHHHHHHHHTSCG----GGSCTHHHHHHHHHTTCHHHHHHHHHHHHHS--TTCHHHHHHHHHS
T ss_pred             -CCceEeecCCCCCHHHHHHHHHHHhCCCc----ccccHHHHHHHHHhCCCcHHHHHHHHHHhcC--chhHHHHHHHHHH
Confidence             234444   58999999999999887532    2234578999999999999999999999864  3479999998876


Q ss_pred             cCCC-C----CCCcchhhhhhhhhcCCCCchhhHHHHhHhccCCCCccccHHhHHHHHHhcCCCCCcccchhhhhHHHHH
Q 048126          352 SSSE-F----PGMGKEVYPLLKFSYDSLPDDTIRSCFLYCGLFPEDYRIRKSELIDCWIGEGFLDQYDRSGAYNEGYYII  426 (863)
Q Consensus       352 ~~~~-~----~~~~~~~~~~l~~sy~~L~~~~~k~cfl~~~~fp~~~~i~~~~li~~w~a~g~i~~~~~~~~~~~~~~~~  426 (863)
                      .... +    ......+..++.+||+.||+ +.|.||++||+||+++.|+.+.++..|.++           .+.+..++
T Consensus       348 ~~~~~~~~~~~~~~~~l~~~l~~s~~~L~~-~~~~~l~~la~f~~~~~i~~~~l~~l~~~~-----------~~~~~~~l  415 (591)
T 1z6t_A          348 KQFKRIRKSSSYDYEALDEAMSISVEMLRE-DIKDYYTDLSILQKDVKVPTKVLCILWDME-----------TEEVEDIL  415 (591)
T ss_dssp             CCCCCSSCCCSSCCHHHHHHHHHHHHTSCT-TTHHHHHHGGGCCTTCCEEHHHHHHHHTCC-----------HHHHHHHH
T ss_pred             hHHHHhhhccccchHHHHHHHHHHHHhCCH-HHHHHHHHccccCCCCccCHHHHHHHhccC-----------HHHHHHHH
Confidence            5322 1    11124788999999999999 799999999999999999999999999654           24567889


Q ss_pred             HHHHHhccccccccccccccccceEEeehhHHHHHHHHH
Q 048126          427 GILLHACLLEEEEGDIAEEKSGEHVVKMHDVIRDMVLWI  465 (863)
Q Consensus       427 ~~L~~~sll~~~~~~~~~~~~~~~~~~mHdli~d~a~~~  465 (863)
                      ++|+++||++...      ++....|+||+++|++++..
T Consensus       416 ~~L~~~~Ll~~~~------~~~~~~~~~H~lv~~~~~~~  448 (591)
T 1z6t_A          416 QEFVNKSLLFCDR------NGKSFRYYLHDLQVDFLTEK  448 (591)
T ss_dssp             HHHHHTTSSEEEE------ETTEEEEECCHHHHHHHHHH
T ss_pred             HHHHhCcCeEEec------CCCccEEEEcHHHHHHHHhh
Confidence            9999999998643      12256899999999999877

>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}

Probab=99.92  E-value=1e-24  Score=237.39  Aligned_cols=308  Identities=16%  Similarity=0.146  Sum_probs=243.5

Q ss_pred             CcccccccceEEEEeccccccccccCCCCCccceEEccCCccccccchhhhcCCCccEEEccCCCccccCCccccccCCC
Q 048126          487 APEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSL  566 (863)
Q Consensus       487 ~~~~~~~~~lr~L~l~~~~~~~l~~~~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L  566 (863)
                      ......++++++|++.++.+..++.+..+++|++|++++|.++.+++  +.++++|++|++++| .+..+| .+.++++|
T Consensus        37 ~~~~~~l~~L~~L~l~~~~i~~~~~~~~~~~L~~L~l~~n~i~~~~~--~~~l~~L~~L~L~~n-~i~~~~-~~~~l~~L  112 (347)
T 4fmz_A           37 VVTQEELESITKLVVAGEKVASIQGIEYLTNLEYLNLNGNQITDISP--LSNLVKLTNLYIGTN-KITDIS-ALQNLTNL  112 (347)
T ss_dssp             EECHHHHTTCSEEECCSSCCCCCTTGGGCTTCCEEECCSSCCCCCGG--GTTCTTCCEEECCSS-CCCCCG-GGTTCTTC
T ss_pred             cccchhcccccEEEEeCCccccchhhhhcCCccEEEccCCccccchh--hhcCCcCCEEEccCC-cccCch-HHcCCCcC
Confidence            34456778999999999999988888999999999999999988876  889999999999999 455565 68999999


Q ss_pred             CeEEccCCCccccchhhhcCCCCCEEecCCccccCCCcHHHhhcCCCCcEEEeeccccccCchhhHHHHHcCCccCceEE
Q 048126          567 EHLDLSGTAITHLPIELQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRILKSNVLFGGHQFLVEELMGMKHLMALT  646 (863)
Q Consensus       567 ~~L~L~~~~l~~lp~~~~~l~~L~~L~l~~~~~l~~lp~~~~~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~~L~  646 (863)
                      ++|++++|.++.+|. +..+++|++|++++|..+..++.  +..+++|++|++.+|.....      ..+..+++|+.|+
T Consensus       113 ~~L~l~~n~i~~~~~-~~~l~~L~~L~l~~n~~~~~~~~--~~~l~~L~~L~l~~~~~~~~------~~~~~l~~L~~L~  183 (347)
T 4fmz_A          113 RELYLNEDNISDISP-LANLTKMYSLNLGANHNLSDLSP--LSNMTGLNYLTVTESKVKDV------TPIANLTDLYSLS  183 (347)
T ss_dssp             SEEECTTSCCCCCGG-GTTCTTCCEEECTTCTTCCCCGG--GTTCTTCCEEECCSSCCCCC------GGGGGCTTCSEEE
T ss_pred             CEEECcCCcccCchh-hccCCceeEEECCCCCCcccccc--hhhCCCCcEEEecCCCcCCc------hhhccCCCCCEEE
Confidence            999999999999887 89999999999999977777765  88999999999999877543      1277899999999


Q ss_pred             EEEcChHHHHHHhhhhhhhhcceeeeeccccCCCcccccchhhcCCCceEEEcCCcccccceeccccccccccccccCcc
Q 048126          647 ITLKSWEALQELLISQELQRCTQSLFLRCFNDSKSLDIFCLACLHNLNKLYVAGRKHLEDFQMTVQRSSVNQLARGFHSL  726 (863)
Q Consensus       647 l~~~~~~~~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~l~~~~~~~~~~~~~~~l~~L  726 (863)
                      ++.+....+..    ....++|+.|.+.++.-....   .+..+++|++|++++|.... +++ .         ..+++|
T Consensus       184 l~~n~l~~~~~----~~~l~~L~~L~l~~n~l~~~~---~~~~~~~L~~L~l~~n~l~~-~~~-~---------~~l~~L  245 (347)
T 4fmz_A          184 LNYNQIEDISP----LASLTSLHYFTAYVNQITDIT---PVANMTRLNSLKIGNNKITD-LSP-L---------ANLSQL  245 (347)
T ss_dssp             CTTSCCCCCGG----GGGCTTCCEEECCSSCCCCCG---GGGGCTTCCEEECCSSCCCC-CGG-G---------TTCTTC
T ss_pred             ccCCccccccc----ccCCCccceeecccCCCCCCc---hhhcCCcCCEEEccCCccCC-Ccc-h---------hcCCCC
Confidence            98777654443    223458899998886433222   27788999999999985443 322 2         358999


Q ss_pred             cEEEEeccCCCCCCchhhccCCCcEEEEeccccchhhccccccccccCCCCCCCCcCCccceeccCCCccccccccCCCC
Q 048126          727 HTVKVGFCFKLKDLTWLVFAPSLKSIVVLSCCNMEQIIKAEKLSQLHHHPERKKSVFAKLQFLSLENLRNLCCINWEALA  806 (863)
Q Consensus       727 ~~L~L~~c~~l~~l~~l~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~~~p~L~~L~l~~~~~L~~i~~~~~~  806 (863)
                      ++|++++| .++.++.+..+++|+.|++++|. ++.+              ..+..+++|+.|++++|.--...+.....
T Consensus       246 ~~L~l~~n-~l~~~~~~~~l~~L~~L~l~~n~-l~~~--------------~~~~~l~~L~~L~L~~n~l~~~~~~~l~~  309 (347)
T 4fmz_A          246 TWLEIGTN-QISDINAVKDLTKLKMLNVGSNQ-ISDI--------------SVLNNLSQLNSLFLNNNQLGNEDMEVIGG  309 (347)
T ss_dssp             CEEECCSS-CCCCCGGGTTCTTCCEEECCSSC-CCCC--------------GGGGGCTTCSEEECCSSCCCGGGHHHHHT
T ss_pred             CEEECCCC-ccCCChhHhcCCCcCEEEccCCc-cCCC--------------hhhcCCCCCCEEECcCCcCCCcChhHhhc
Confidence            99999998 67788888999999999999974 4443              13567899999999997543333333456


Q ss_pred             CCCcceEeecCCCCCCCCCCCCCCCCCCceEEEccc
Q 048126          807 FPNLKEIRVEGCPKLFKLPLDSNSAKGCKVVIKGEE  842 (863)
Q Consensus       807 ~p~L~~L~i~~C~~L~~lp~~~~~~~L~~l~i~~~~  842 (863)
                      +|+|+.|++++|+ ++.+|.....++|+.+++.+++
T Consensus       310 l~~L~~L~L~~n~-l~~~~~~~~l~~L~~L~l~~N~  344 (347)
T 4fmz_A          310 LTNLTTLFLSQNH-ITDIRPLASLSKMDSADFANQV  344 (347)
T ss_dssp             CTTCSEEECCSSS-CCCCGGGGGCTTCSEESSSCC-
T ss_pred             cccCCEEEccCCc-cccccChhhhhccceeehhhhc
Confidence            8999999999985 7777653334889999887663

>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}

Probab=99.91  E-value=5.5e-23  Score=223.74  Aligned_cols=297  Identities=15%  Similarity=0.165  Sum_probs=235.5

Q ss_pred             EEEEcCCCcccCcccccccceEEEEeccccccccccCCCCCccceEEccCCccccccchhhhcCCCccEEEccCCCcccc
Q 048126          476 FLVHAGLGLTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWK  555 (863)
Q Consensus       476 ~~~~~~~~~~~~~~~~~~~~lr~L~l~~~~~~~l~~~~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~  555 (863)
                      .+...+......+.+..+++++.|++++|.+..++.+..+++|++|++++|.++.++.  +.++++|++|++++|. +..
T Consensus        48 ~L~l~~~~i~~~~~~~~~~~L~~L~l~~n~i~~~~~~~~l~~L~~L~L~~n~i~~~~~--~~~l~~L~~L~l~~n~-i~~  124 (347)
T 4fmz_A           48 KLVVAGEKVASIQGIEYLTNLEYLNLNGNQITDISPLSNLVKLTNLYIGTNKITDISA--LQNLTNLRELYLNEDN-ISD  124 (347)
T ss_dssp             EEECCSSCCCCCTTGGGCTTCCEEECCSSCCCCCGGGTTCTTCCEEECCSSCCCCCGG--GTTCTTCSEEECTTSC-CCC
T ss_pred             EEEEeCCccccchhhhhcCCccEEEccCCccccchhhhcCCcCCEEEccCCcccCchH--HcCCCcCCEEECcCCc-ccC
Confidence            3444555556667788889999999999999988888999999999999999988753  8999999999999994 556


Q ss_pred             CCccccccCCCCeEEccCCCccccchhhhcCCCCCEEecCCccccCCCcHHHhhcCCCCcEEEeeccccccCchhhHHHH
Q 048126          556 LPSGISTLVSLEHLDLSGTAITHLPIELQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRILKSNVLFGGHQFLVEE  635 (863)
Q Consensus       556 lp~~i~~l~~L~~L~L~~~~l~~lp~~~~~l~~L~~L~l~~~~~l~~lp~~~~~~L~~L~~L~l~~~~~~~~~~~~~~~~  635 (863)
                      +|. +..+++|++|++++|.....+..+..+++|++|++++| .+..++.  +..+++|++|++.+|.+...      ..
T Consensus       125 ~~~-~~~l~~L~~L~l~~n~~~~~~~~~~~l~~L~~L~l~~~-~~~~~~~--~~~l~~L~~L~l~~n~l~~~------~~  194 (347)
T 4fmz_A          125 ISP-LANLTKMYSLNLGANHNLSDLSPLSNMTGLNYLTVTES-KVKDVTP--IANLTDLYSLSLNYNQIEDI------SP  194 (347)
T ss_dssp             CGG-GTTCTTCCEEECTTCTTCCCCGGGTTCTTCCEEECCSS-CCCCCGG--GGGCTTCSEEECTTSCCCCC------GG
T ss_pred             chh-hccCCceeEEECCCCCCcccccchhhCCCCcEEEecCC-CcCCchh--hccCCCCCEEEccCCccccc------cc
Confidence            665 89999999999999955444456999999999999999 5677776  78999999999999877532      12


Q ss_pred             HcCCccCceEEEEEcChHHHHHHhhhhhhhhcceeeeeccccCCCcccccchhhcCCCceEEEcCCcccccceecccccc
Q 048126          636 LMGMKHLMALTITLKSWEALQELLISQELQRCTQSLFLRCFNDSKSLDIFCLACLHNLNKLYVAGRKHLEDFQMTVQRSS  715 (863)
Q Consensus       636 l~~L~~L~~L~l~~~~~~~~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~l~~~~~~~~  715 (863)
                      +..+++|+.|+++.+.......    ....++|+.|+++++.-....   .+..+++|+.|++++|.... +  ...   
T Consensus       195 ~~~l~~L~~L~l~~n~l~~~~~----~~~~~~L~~L~l~~n~l~~~~---~~~~l~~L~~L~l~~n~l~~-~--~~~---  261 (347)
T 4fmz_A          195 LASLTSLHYFTAYVNQITDITP----VANMTRLNSLKIGNNKITDLS---PLANLSQLTWLEIGTNQISD-I--NAV---  261 (347)
T ss_dssp             GGGCTTCCEEECCSSCCCCCGG----GGGCTTCCEEECCSSCCCCCG---GGTTCTTCCEEECCSSCCCC-C--GGG---
T ss_pred             ccCCCccceeecccCCCCCCch----hhcCCcCCEEEccCCccCCCc---chhcCCCCCEEECCCCccCC-C--hhH---
Confidence            7888999999998877654433    233468999999987543322   27788999999999985433 2  222   


Q ss_pred             ccccccccCcccEEEEeccCCCCCCchhhccCCCcEEEEeccccchhhccccccccccCCCCCCCCcCCccceeccCCCc
Q 048126          716 VNQLARGFHSLHTVKVGFCFKLKDLTWLVFAPSLKSIVVLSCCNMEQIIKAEKLSQLHHHPERKKSVFAKLQFLSLENLR  795 (863)
Q Consensus       716 ~~~~~~~l~~L~~L~L~~c~~l~~l~~l~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~~~p~L~~L~l~~~~  795 (863)
                           ..+++|++|++++| .++.++.+..+++|+.|++++|. +....            +..+..+|+|+.|++++|+
T Consensus       262 -----~~l~~L~~L~l~~n-~l~~~~~~~~l~~L~~L~L~~n~-l~~~~------------~~~l~~l~~L~~L~L~~n~  322 (347)
T 4fmz_A          262 -----KDLTKLKMLNVGSN-QISDISVLNNLSQLNSLFLNNNQ-LGNED------------MEVIGGLTNLTTLFLSQNH  322 (347)
T ss_dssp             -----TTCTTCCEEECCSS-CCCCCGGGGGCTTCSEEECCSSC-CCGGG------------HHHHHTCTTCSEEECCSSS
T ss_pred             -----hcCCCcCEEEccCC-ccCCChhhcCCCCCCEEECcCCc-CCCcC------------hhHhhccccCCEEEccCCc
Confidence                 35899999999998 68888889999999999999975 44331            1245678999999999986


Q ss_pred             cccccccCCCCCCCcceEeecCCC
Q 048126          796 NLCCINWEALAFPNLKEIRVEGCP  819 (863)
Q Consensus       796 ~L~~i~~~~~~~p~L~~L~i~~C~  819 (863)
                       ++.++. ...+++|+.|++++|+
T Consensus       323 -l~~~~~-~~~l~~L~~L~l~~N~  344 (347)
T 4fmz_A          323 -ITDIRP-LASLSKMDSADFANQV  344 (347)
T ss_dssp             -CCCCGG-GGGCTTCSEESSSCC-
T ss_pred             -cccccC-hhhhhccceeehhhhc
Confidence             666544 5678999999999874

>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

Probab=99.90  E-value=1.1e-22  Score=230.41  Aligned_cols=312  Identities=16%  Similarity=0.219  Sum_probs=181.0

Q ss_pred             EEcCCCcccCcccccccceEEEEeccccccccccCCCCCccceEEccCCccccccchhhhcCCCccEEEccCCCccccCC
Q 048126          478 VHAGLGLTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLP  557 (863)
Q Consensus       478 ~~~~~~~~~~~~~~~~~~lr~L~l~~~~~~~l~~~~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~lp  557 (863)
                      ...+......+.+..+++++.|++++|.+..++.+..+++|++|++++|.+..+++  +.++++|++|++++| .+..+|
T Consensus        52 ~l~~~~i~~l~~~~~l~~L~~L~Ls~n~l~~~~~~~~l~~L~~L~l~~n~l~~~~~--~~~l~~L~~L~L~~n-~l~~~~  128 (466)
T 1o6v_A           52 QADRLGIKSIDGVEYLNNLTQINFSNNQLTDITPLKNLTKLVDILMNNNQIADITP--LANLTNLTGLTLFNN-QITDID  128 (466)
T ss_dssp             ECCSSCCCCCTTGGGCTTCCEEECCSSCCCCCGGGTTCTTCCEEECCSSCCCCCGG--GTTCTTCCEEECCSS-CCCCCG
T ss_pred             ecCCCCCccCcchhhhcCCCEEECCCCccCCchhhhccccCCEEECCCCccccChh--hcCCCCCCEEECCCC-CCCCCh
Confidence            33444455566677788888888888888887778888888888888888887776  788888888888888 444555


Q ss_pred             ccccccCCCCeEEccCCCccccchhhhcCCCCCEEecCCccccCCCcHHHhhcCCCCcEEEeeccccccCchhhHHHHHc
Q 048126          558 SGISTLVSLEHLDLSGTAITHLPIELQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRILKSNVLFGGHQFLVEELM  637 (863)
Q Consensus       558 ~~i~~l~~L~~L~L~~~~l~~lp~~~~~l~~L~~L~l~~~~~l~~lp~~~~~~L~~L~~L~l~~~~~~~~~~~~~~~~l~  637 (863)
                      . ++++++|++|++++|.+..+|. +..+++|++|++++  .+..++.  ++++++|++|++.+|.....      ..+.
T Consensus       129 ~-~~~l~~L~~L~l~~n~l~~~~~-~~~l~~L~~L~l~~--~~~~~~~--~~~l~~L~~L~l~~n~l~~~------~~l~  196 (466)
T 1o6v_A          129 P-LKNLTNLNRLELSSNTISDISA-LSGLTSLQQLSFGN--QVTDLKP--LANLTTLERLDISSNKVSDI------SVLA  196 (466)
T ss_dssp             G-GTTCTTCSEEEEEEEEECCCGG-GTTCTTCSEEEEEE--SCCCCGG--GTTCTTCCEEECCSSCCCCC------GGGG
T ss_pred             H-HcCCCCCCEEECCCCccCCChh-hccCCcccEeecCC--cccCchh--hccCCCCCEEECcCCcCCCC------hhhc
Confidence            4 7888888888888888777653 55566655555542  2233333  45555556665555544321      1244


Q ss_pred             CCccCceEEEEEcChHHHHHHhhhhhhhhcceeeeeccccCCCcccccc----------------------hhhcCCCce
Q 048126          638 GMKHLMALTITLKSWEALQELLISQELQRCTQSLFLRCFNDSKSLDIFC----------------------LACLHNLNK  695 (863)
Q Consensus       638 ~L~~L~~L~l~~~~~~~~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~~~----------------------l~~~~~L~~  695 (863)
                      .+++|+.|+++.+.......    ....++|+.|+++++.-.. .  ..                      +..+++|+.
T Consensus       197 ~l~~L~~L~l~~n~l~~~~~----~~~l~~L~~L~l~~n~l~~-~--~~l~~l~~L~~L~l~~n~l~~~~~~~~l~~L~~  269 (466)
T 1o6v_A          197 KLTNLESLIATNNQISDITP----LGILTNLDELSLNGNQLKD-I--GTLASLTNLTDLDLANNQISNLAPLSGLTKLTE  269 (466)
T ss_dssp             GCTTCSEEECCSSCCCCCGG----GGGCTTCCEEECCSSCCCC-C--GGGGGCTTCSEEECCSSCCCCCGGGTTCTTCSE
T ss_pred             cCCCCCEEEecCCccccccc----ccccCCCCEEECCCCCccc-c--hhhhcCCCCCEEECCCCccccchhhhcCCCCCE
Confidence            45555555555444322211    1112344444444432111 1  12                      334444555


Q ss_pred             EEEcCCcccccceeccccccccccccccCcccEEEEeccCCCCCCchhhccCCCcEEEEeccccchhhccccccccccCC
Q 048126          696 LYVAGRKHLEDFQMTVQRSSVNQLARGFHSLHTVKVGFCFKLKDLTWLVFAPSLKSIVVLSCCNMEQIIKAEKLSQLHHH  775 (863)
Q Consensus       696 L~l~~~~~~~~l~~~~~~~~~~~~~~~l~~L~~L~L~~c~~l~~l~~l~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~  775 (863)
                      |++++|.... +++          ...+++|+.|++++| .++.++.++.+++|+.|++++|. +..+.           
T Consensus       270 L~l~~n~l~~-~~~----------~~~l~~L~~L~L~~n-~l~~~~~~~~l~~L~~L~L~~n~-l~~~~-----------  325 (466)
T 1o6v_A          270 LKLGANQISN-ISP----------LAGLTALTNLELNEN-QLEDISPISNLKNLTYLTLYFNN-ISDIS-----------  325 (466)
T ss_dssp             EECCSSCCCC-CGG----------GTTCTTCSEEECCSS-CCSCCGGGGGCTTCSEEECCSSC-CSCCG-----------
T ss_pred             EECCCCccCc-ccc----------ccCCCccCeEEcCCC-cccCchhhcCCCCCCEEECcCCc-CCCch-----------
Confidence            5554442221 111          123566666666665 45555556666666666666653 33221           


Q ss_pred             CCCCCCcCCccceeccCCCccccccccCCCCCCCcceEeecCCCCCCCCCCCCCCCCCCceEEEcc
Q 048126          776 PERKKSVFAKLQFLSLENLRNLCCINWEALAFPNLKEIRVEGCPKLFKLPLDSNSAKGCKVVIKGE  841 (863)
Q Consensus       776 ~~~~~~~~p~L~~L~l~~~~~L~~i~~~~~~~p~L~~L~i~~C~~L~~lp~~~~~~~L~~l~i~~~  841 (863)
                         ....+++|+.|++++| .+..++ ....+++|+.|++++| +++.++.....++|+.+.+.++
T Consensus       326 ---~~~~l~~L~~L~l~~n-~l~~~~-~l~~l~~L~~L~l~~n-~l~~~~~~~~l~~L~~L~l~~n  385 (466)
T 1o6v_A          326 ---PVSSLTKLQRLFFYNN-KVSDVS-SLANLTNINWLSAGHN-QISDLTPLANLTRITQLGLNDQ  385 (466)
T ss_dssp             ---GGGGCTTCCEEECCSS-CCCCCG-GGTTCTTCCEEECCSS-CCCBCGGGTTCTTCCEEECCCE
T ss_pred             ---hhccCccCCEeECCCC-ccCCch-hhccCCCCCEEeCCCC-ccCccchhhcCCCCCEEeccCC
Confidence               1445677777777765 444443 3445677777777766 3444433222266776666654

>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}

Probab=99.90  E-value=5.9e-23  Score=233.81  Aligned_cols=290  Identities=21%  Similarity=0.248  Sum_probs=169.7

Q ss_pred             cceEEEEeccccccccc--cCCCCCccceEEccCCccccccchhhhcCCCccEEEccCCCccccCCc-cccccCCCCeEE
Q 048126          494 RNVRRMSLMKNKIENLS--ETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPS-GISTLVSLEHLD  570 (863)
Q Consensus       494 ~~lr~L~l~~~~~~~l~--~~~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~-~i~~l~~L~~L~  570 (863)
                      ++++.|++++|.+..++  .+..+++|++|++++|.+..+++..|.++++|++|+|++|. +..+|. .++++++|++|+
T Consensus        32 ~~l~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~i~~~~~~~~~~l~~L~~L~L~~n~-l~~~~~~~~~~l~~L~~L~  110 (477)
T 2id5_A           32 TETRLLDLGKNRIKTLNQDEFASFPHLEELELNENIVSAVEPGAFNNLFNLRTLGLRSNR-LKLIPLGVFTGLSNLTKLD  110 (477)
T ss_dssp             TTCSEEECCSSCCCEECTTTTTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECCSSC-CCSCCTTSSTTCTTCCEEE
T ss_pred             CCCcEEECCCCccceECHhHccCCCCCCEEECCCCccCEeChhhhhCCccCCEEECCCCc-CCccCcccccCCCCCCEEE
Confidence            45666777666666553  34566667777777666666655556666677777776663 334443 456666677777


Q ss_pred             ccCCCcccc-chhhhcCCCCCEEecCCccccCCCcHHHhhcCCCCcEEEeeccccccCchhhHHHHHcCCccCceEEEEE
Q 048126          571 LSGTAITHL-PIELQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRILKSNVLFGGHQFLVEELMGMKHLMALTITL  649 (863)
Q Consensus       571 L~~~~l~~l-p~~~~~l~~L~~L~l~~~~~l~~lp~~~~~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~  649 (863)
                      |++|.+..+ |..+.++++|++|++++| .+..++...+..+++|++|++.+|.+...    ....+.++++|+.|++..
T Consensus       111 Ls~n~i~~~~~~~~~~l~~L~~L~l~~n-~l~~~~~~~~~~l~~L~~L~l~~n~l~~~----~~~~l~~l~~L~~L~l~~  185 (477)
T 2id5_A          111 ISENKIVILLDYMFQDLYNLKSLEVGDN-DLVYISHRAFSGLNSLEQLTLEKCNLTSI----PTEALSHLHGLIVLRLRH  185 (477)
T ss_dssp             CTTSCCCEECTTTTTTCTTCCEEEECCT-TCCEECTTSSTTCTTCCEEEEESCCCSSC----CHHHHTTCTTCCEEEEES
T ss_pred             CCCCccccCChhHccccccCCEEECCCC-ccceeChhhccCCCCCCEEECCCCcCccc----ChhHhcccCCCcEEeCCC
Confidence            776666644 445666667777777666 34444433356666677776666655421    233455666666666654


Q ss_pred             cChHHHHHHhhhhhhhhcceeeeeccccCCCcccccchhhcCCCceEEEcCCcccccceeccccccccccccccCcccEE
Q 048126          650 KSWEALQELLISQELQRCTQSLFLRCFNDSKSLDIFCLACLHNLNKLYVAGRKHLEDFQMTVQRSSVNQLARGFHSLHTV  729 (863)
Q Consensus       650 ~~~~~~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~l~~~~~~~~~~~~~~~l~~L~~L  729 (863)
                      +...                           ......+..+++|+.|++++|..+..+++....         ..+|++|
T Consensus       186 n~i~---------------------------~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~---------~~~L~~L  229 (477)
T 2id5_A          186 LNIN---------------------------AIRDYSFKRLYRLKVLEISHWPYLDTMTPNCLY---------GLNLTSL  229 (477)
T ss_dssp             CCCC---------------------------EECTTCSCSCTTCCEEEEECCTTCCEECTTTTT---------TCCCSEE
T ss_pred             CcCc---------------------------EeChhhcccCcccceeeCCCCccccccCccccc---------CccccEE
Confidence            4322                           111123455667777777776665544333321         3467777


Q ss_pred             EEeccCCCCCCc--hhhccCCCcEEEEeccccchhhccccccccccCCCCCCCCcCCccceeccCCCcccccc-ccCCCC
Q 048126          730 KVGFCFKLKDLT--WLVFAPSLKSIVVLSCCNMEQIIKAEKLSQLHHHPERKKSVFAKLQFLSLENLRNLCCI-NWEALA  806 (863)
Q Consensus       730 ~L~~c~~l~~l~--~l~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~~~p~L~~L~l~~~~~L~~i-~~~~~~  806 (863)
                      +|++| .++.+|  .+..+++|+.|+|+++. ++.+.            ...+..+++|+.|+|+++ .+..+ +.....
T Consensus       230 ~l~~n-~l~~~~~~~~~~l~~L~~L~Ls~n~-l~~~~------------~~~~~~l~~L~~L~L~~n-~l~~~~~~~~~~  294 (477)
T 2id5_A          230 SITHC-NLTAVPYLAVRHLVYLRFLNLSYNP-ISTIE------------GSMLHELLRLQEIQLVGG-QLAVVEPYAFRG  294 (477)
T ss_dssp             EEESS-CCCSCCHHHHTTCTTCCEEECCSSC-CCEEC------------TTSCTTCTTCCEEECCSS-CCSEECTTTBTT
T ss_pred             ECcCC-cccccCHHHhcCccccCeeECCCCc-CCccC------------hhhccccccCCEEECCCC-ccceECHHHhcC
Confidence            77776 455665  35567777777777643 43331            224556677777777764 34443 333445


Q ss_pred             CCCcceEeecCCCCCCCCCCCCC-C-CCCCceEEEcc
Q 048126          807 FPNLKEIRVEGCPKLFKLPLDSN-S-AKGCKVVIKGE  841 (863)
Q Consensus       807 ~p~L~~L~i~~C~~L~~lp~~~~-~-~~L~~l~i~~~  841 (863)
                      +++|+.|++++| +++.+|.... . ++|+.+.+.++
T Consensus       295 l~~L~~L~L~~N-~l~~~~~~~~~~l~~L~~L~l~~N  330 (477)
T 2id5_A          295 LNYLRVLNVSGN-QLTTLEESVFHSVGNLETLILDSN  330 (477)
T ss_dssp             CTTCCEEECCSS-CCSCCCGGGBSCGGGCCEEECCSS
T ss_pred             cccCCEEECCCC-cCceeCHhHcCCCcccCEEEccCC
Confidence            677777777765 6666665432 2 56666666543

>4ecn_A Leucine-rich repeat protein; leucine-rich repeats, DUF4458 domain, protein binding, extra protein, structural genomics; 2.80A {Bacteroides thetaiotaomicron}

Probab=99.90  E-value=1.7e-23  Score=249.92  Aligned_cols=327  Identities=13%  Similarity=0.146  Sum_probs=222.5

Q ss_pred             cccccccceEEEEeccccccc------------------cccC-C--CCCccceEEccCCccccccchhhhcCCCccEEE
Q 048126          488 PEIQNWRNVRRMSLMKNKIEN------------------LSET-P--TCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFN  546 (863)
Q Consensus       488 ~~~~~~~~lr~L~l~~~~~~~------------------l~~~-~--~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~  546 (863)
                      +.+..+++|+.|++++|.+.+                  +|.. .  .+++|++|++++|.+....+..|.++++|++|+
T Consensus       442 ~~l~~L~~L~~L~Ls~N~Lsg~~i~~~~~~~s~n~~~g~iP~~l~f~~L~~L~~L~Ls~N~l~~~iP~~l~~L~~L~~L~  521 (876)
T 4ecn_A          442 KAIQRLTKLQIIYFANSPFTYDNIAVDWEDANSDYAKQYENEELSWSNLKDLTDVELYNCPNMTQLPDFLYDLPELQSLN  521 (876)
T ss_dssp             GGGGGCTTCCEEEEESCCCCGGGBSSSCSCTTSHHHHHHTTSCCCGGGCTTCCEEEEESCTTCCSCCGGGGGCSSCCEEE
T ss_pred             HHHhcCCCCCEEECcCCcCCCCcccccccccccccccccCChhhhhccCCCCCEEECcCCCCCccChHHHhCCCCCCEEE
Confidence            356778889999999988877                  6543 4  788999999998876554445688899999999


Q ss_pred             ccCCC-ccc-cCCccccccC-------CCCeEEccCCCccccch--hhhcCCCCCEEecCCccccCCCcHHHhhcCCCCc
Q 048126          547 MSNNH-LLW-KLPSGISTLV-------SLEHLDLSGTAITHLPI--ELQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQ  615 (863)
Q Consensus       547 L~~~~-~~~-~lp~~i~~l~-------~L~~L~L~~~~l~~lp~--~~~~l~~L~~L~l~~~~~l~~lp~~~~~~L~~L~  615 (863)
                      |++|. +.+ .+|..++++.       +|++|++++|.++.+|.  .++++++|++|++++| .+..+| . ++.+++|+
T Consensus       522 Ls~N~~lsg~~iP~~i~~L~~~~~~l~~L~~L~Ls~N~L~~ip~~~~l~~L~~L~~L~Ls~N-~l~~lp-~-~~~L~~L~  598 (876)
T 4ecn_A          522 IACNRGISAAQLKADWTRLADDEDTGPKIQIFYMGYNNLEEFPASASLQKMVKLGLLDCVHN-KVRHLE-A-FGTNVKLT  598 (876)
T ss_dssp             CTTCTTSCHHHHHHHHHHHHHCTTTTTTCCEEECCSSCCCBCCCHHHHTTCTTCCEEECTTS-CCCBCC-C-CCTTSEES
T ss_pred             CcCCCCcccccchHHHHhhhhcccccCCccEEEeeCCcCCccCChhhhhcCCCCCEEECCCC-Ccccch-h-hcCCCcce
Confidence            99986 555 6887777766       89999999888888888  8888888999998888 456788 3 78888888


Q ss_pred             EEEeeccccccCchhhHHHHHcCCcc-CceEEEEEcChHHHHHHhhhhhhhhcceeeeeccccC----------------
Q 048126          616 VLRILKSNVLFGGHQFLVEELMGMKH-LMALTITLKSWEALQELLISQELQRCTQSLFLRCFND----------------  678 (863)
Q Consensus       616 ~L~l~~~~~~~~~~~~~~~~l~~L~~-L~~L~l~~~~~~~~~~l~~~~~~~~~L~~L~l~~~~~----------------  678 (863)
                      +|++.+|.+..     .+..+.++++ |+.|+++.+....++....... .++|+.|.++++.-                
T Consensus       599 ~L~Ls~N~l~~-----lp~~l~~l~~~L~~L~Ls~N~L~~lp~~~~~~~-~~~L~~L~Ls~N~l~g~ip~l~~~l~~~~~  672 (876)
T 4ecn_A          599 DLKLDYNQIEE-----IPEDFCAFTDQVEGLGFSHNKLKYIPNIFNAKS-VYVMGSVDFSYNKIGSEGRNISCSMDDYKG  672 (876)
T ss_dssp             EEECCSSCCSC-----CCTTSCEECTTCCEEECCSSCCCSCCSCCCTTC-SSCEEEEECCSSCTTTTSSSCSSCTTTCCC
T ss_pred             EEECcCCcccc-----chHHHhhccccCCEEECcCCCCCcCchhhhccc-cCCCCEEECcCCcCCCccccchhhhccccC
Confidence            88888877652     3344666777 8888887766543322111000 01255555544322                


Q ss_pred             ------------CCcccccchhhcCCCceEEEcCCcccccceeccccccccccccccCcccEEEEeccCCCCCCc-hhh-
Q 048126          679 ------------SKSLDIFCLACLHNLNKLYVAGRKHLEDFQMTVQRSSVNQLARGFHSLHTVKVGFCFKLKDLT-WLV-  744 (863)
Q Consensus       679 ------------~~~~~~~~l~~~~~L~~L~l~~~~~~~~l~~~~~~~~~~~~~~~l~~L~~L~L~~c~~l~~l~-~l~-  744 (863)
                                  ...++...+..+++|+.|++++|... .++...... .......+++|+.|+|++| .++.+| .+. 
T Consensus       673 ~~L~~L~Ls~N~L~~lp~~~~~~l~~L~~L~Ls~N~L~-~ip~~~~~~-~~~~l~nl~~L~~L~Ls~N-~L~~lp~~l~~  749 (876)
T 4ecn_A          673 INASTVTLSYNEIQKFPTELFATGSPISTIILSNNLMT-SIPENSLKP-KDGNYKNTYLLTTIDLRFN-KLTSLSDDFRA  749 (876)
T ss_dssp             CCEEEEECCSSCCCSCCHHHHHTTCCCSEEECCSCCCS-CCCTTSSSC-TTSCCTTGGGCCEEECCSS-CCCCCCGGGST
T ss_pred             CCcCEEEccCCcCCccCHHHHccCCCCCEEECCCCcCC-ccChHHhcc-ccccccccCCccEEECCCC-CCccchHHhhh
Confidence                        11222122334567777777766433 333322210 0000123448999999988 566666 343 


Q ss_pred             -ccCCCcEEEEeccccchhhccccccccccCCCCCCCCcCCccceeccCCCc------cccccccCCCCCCCcceEeecC
Q 048126          745 -FAPSLKSIVVLSCCNMEQIIKAEKLSQLHHHPERKKSVFAKLQFLSLENLR------NLCCINWEALAFPNLKEIRVEG  817 (863)
Q Consensus       745 -~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~~~p~L~~L~l~~~~------~L~~i~~~~~~~p~L~~L~i~~  817 (863)
                       .+++|+.|+|+++. +..+             +..+..+++|+.|+|++++      -...++.....+++|+.|++++
T Consensus       750 ~~l~~L~~L~Ls~N~-L~~l-------------p~~l~~L~~L~~L~Ls~N~~ls~N~l~~~ip~~l~~L~~L~~L~Ls~  815 (876)
T 4ecn_A          750 TTLPYLSNMDVSYNC-FSSF-------------PTQPLNSSQLKAFGIRHQRDAEGNRILRQWPTGITTCPSLIQLQIGS  815 (876)
T ss_dssp             TTCTTCCEEECCSSC-CSSC-------------CCGGGGCTTCCEEECCCCBCTTCCBCCCCCCTTGGGCSSCCEEECCS
T ss_pred             ccCCCcCEEEeCCCC-CCcc-------------chhhhcCCCCCEEECCCCCCcccccccccChHHHhcCCCCCEEECCC
Confidence             78899999998854 4444             3456688999999997733      3445666666799999999999


Q ss_pred             CCCCCCCCCCCCCCCCCceEEEccc
Q 048126          818 CPKLFKLPLDSNSAKGCKVVIKGEE  842 (863)
Q Consensus       818 C~~L~~lp~~~~~~~L~~l~i~~~~  842 (863)
                      | ++..+|.... ++|+.++|++++
T Consensus       816 N-~L~~Ip~~l~-~~L~~LdLs~N~  838 (876)
T 4ecn_A          816 N-DIRKVDEKLT-PQLYILDIADNP  838 (876)
T ss_dssp             S-CCCBCCSCCC-SSSCEEECCSCT
T ss_pred             C-CCCccCHhhc-CCCCEEECCCCC
Confidence            7 5688998754 789999998775

>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*

Probab=99.90  E-value=6.6e-23  Score=238.00  Aligned_cols=164  Identities=24%  Similarity=0.334  Sum_probs=118.2

Q ss_pred             CcccCcccccccceEEEEeccccccccc--cCCCCCccceEEccCCccccccchhhhcCCCccEEEccCCCccccCCccc
Q 048126          483 GLTEAPEIQNWRNVRRMSLMKNKIENLS--ETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGI  560 (863)
Q Consensus       483 ~~~~~~~~~~~~~lr~L~l~~~~~~~l~--~~~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i  560 (863)
                      ..+.+|.. -.+++++|++++|.+..++  .+..+++|++|++++|.+..+++..|.++++|++|+|++|.+.+..|..+
T Consensus        16 ~l~~ip~~-~~~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~   94 (549)
T 2z81_A           16 SFTSIPSG-LTAAMKSLDLSFNKITYIGHGDLRACANLQVLILKSSRINTIEGDAFYSLGSLEHLDLSDNHLSSLSSSWF   94 (549)
T ss_dssp             CCSSCCSC-CCTTCCEEECCSSCCCEECSSTTSSCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECTTSCCCSCCHHHH
T ss_pred             cccccccc-CCCCccEEECcCCccCccChhhhhcCCcccEEECCCCCcCccChhhccccccCCEEECCCCccCccCHHHh
Confidence            44444432 2267888999888887663  35788889999999888888887778888899999999885554445558


Q ss_pred             cccCCCCeEEccCCCccc--cchhhhcCCCCCEEecCCccccCCCcHHHhhcCCCCcEEEeeccccccCchhhHHHHHcC
Q 048126          561 STLVSLEHLDLSGTAITH--LPIELQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRILKSNVLFGGHQFLVEELMG  638 (863)
Q Consensus       561 ~~l~~L~~L~L~~~~l~~--lp~~~~~l~~L~~L~l~~~~~l~~lp~~~~~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~  638 (863)
                      +++++|++|++++|.++.  .|..++++++|++|++++|..+..+|...++++++|++|++.+|.+...    .+..+..
T Consensus        95 ~~l~~L~~L~Ls~n~l~~~~~~~~~~~l~~L~~L~L~~n~~~~~~~~~~~~~l~~L~~L~L~~n~l~~~----~~~~l~~  170 (549)
T 2z81_A           95 GPLSSLKYLNLMGNPYQTLGVTSLFPNLTNLQTLRIGNVETFSEIRRIDFAGLTSLNELEIKALSLRNY----QSQSLKS  170 (549)
T ss_dssp             TTCTTCCEEECTTCCCSSSCSSCSCTTCTTCCEEEEEESSSCCEECTTTTTTCCEEEEEEEEETTCCEE----CTTTTTT
T ss_pred             ccCCCCcEEECCCCcccccchhhhhhccCCccEEECCCCccccccCHhhhhcccccCeeeccCCccccc----Chhhhhc
Confidence            888899999999888874  4667888888999998888656777754578888888888887766531    2233444


Q ss_pred             CccCceEEEEEcC
Q 048126          639 MKHLMALTITLKS  651 (863)
Q Consensus       639 L~~L~~L~l~~~~  651 (863)
                      +++|+.|++..+.
T Consensus       171 l~~L~~L~l~~n~  183 (549)
T 2z81_A          171 IRDIHHLTLHLSE  183 (549)
T ss_dssp             CSEEEEEEEECSB
T ss_pred             cccCceEecccCc
Confidence            4444444444433

>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*

Probab=99.89  E-value=2.4e-22  Score=227.42  Aligned_cols=338  Identities=17%  Similarity=0.184  Sum_probs=240.4

Q ss_pred             EEEEcCCCcccCcccccccceEEEEecccccccc--ccCCCCCccceEEccCCccc-cccchhhhcCCCccEEEccCCCc
Q 048126          476 FLVHAGLGLTEAPEIQNWRNVRRMSLMKNKIENL--SETPTCPHLLSLFLSDNSLK-MIAGDFFQFMPSLRVFNMSNNHL  552 (863)
Q Consensus       476 ~~~~~~~~~~~~~~~~~~~~lr~L~l~~~~~~~l--~~~~~~~~L~~L~l~~~~l~-~~~~~~~~~l~~L~~L~L~~~~~  552 (863)
                      .+.+.+.+.+.+|.+  .+++++|++++|.+..+  ..+..+++|++|++++|.+. .+++..|.++++|++|+|++|.+
T Consensus        14 ~~~c~~~~l~~lp~l--~~~l~~L~Ls~n~i~~~~~~~~~~l~~L~~L~L~~n~~~~~i~~~~~~~l~~L~~L~Ls~n~l   91 (455)
T 3v47_A           14 NAICINRGLHQVPEL--PAHVNYVDLSLNSIAELNETSFSRLQDLQFLKVEQQTPGLVIRNNTFRGLSSLIILKLDYNQF   91 (455)
T ss_dssp             EEECCSSCCSSCCCC--CTTCCEEECCSSCCCEECTTTTSSCTTCCEEECCCCSTTCEECTTTTTTCTTCCEEECTTCTT
T ss_pred             ccCcCCCCcccCCCC--CCccCEEEecCCccCcCChhHhccCccccEEECcCCcccceECcccccccccCCEEeCCCCcc
Confidence            344445556666652  36899999999999876  34689999999999999876 67677799999999999999977


Q ss_pred             cccCCccccccCCCCeEEccCCCccc-cchh--hhcCCCCCEEecCCccccCCC-cHHHhhcCCCCcEEEeeccccccCc
Q 048126          553 LWKLPSGISTLVSLEHLDLSGTAITH-LPIE--LQKLVNLKCLNLEYMYNLNQF-PRLVMSAFSKLQVLRILKSNVLFGG  628 (863)
Q Consensus       553 ~~~lp~~i~~l~~L~~L~L~~~~l~~-lp~~--~~~l~~L~~L~l~~~~~l~~l-p~~~~~~L~~L~~L~l~~~~~~~~~  628 (863)
                      .+..|..++++++|++|++++|.++. +|..  +.++++|++|++++|. +..+ |...++++++|++|++.+|.+....
T Consensus        92 ~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~~~l~~L~~L~L~~n~-l~~~~~~~~~~~l~~L~~L~L~~n~l~~~~  170 (455)
T 3v47_A           92 LQLETGAFNGLANLEVLTLTQCNLDGAVLSGNFFKPLTSLEMLVLRDNN-IKKIQPASFFLNMRRFHVLDLTFNKVKSIC  170 (455)
T ss_dssp             CEECTTTTTTCTTCCEEECTTSCCBTHHHHSSTTTTCTTCCEEECCSSB-CCSCCCCGGGGGCTTCCEEECTTCCBSCCC
T ss_pred             CccChhhccCcccCCEEeCCCCCCCccccCcccccCcccCCEEECCCCc-cCccCcccccCCCCcccEEeCCCCcccccC
Confidence            66678999999999999999999985 4554  8999999999999994 4555 5555789999999999988765421


Q ss_pred             hhhHHH-------------------------------HHcCCccCceEEEEEcChHHHH-HHhhhhhhhhcceeeeeccc
Q 048126          629 HQFLVE-------------------------------ELMGMKHLMALTITLKSWEALQ-ELLISQELQRCTQSLFLRCF  676 (863)
Q Consensus       629 ~~~~~~-------------------------------~l~~L~~L~~L~l~~~~~~~~~-~l~~~~~~~~~L~~L~l~~~  676 (863)
                      .. ...                               .+..+++|+.|+++.+...... ..........+++.|.+.++
T Consensus       171 ~~-~l~~l~~~~L~~L~l~~n~l~~~~~~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~~~~~~~~~~L~~L~l~~~  249 (455)
T 3v47_A          171 EE-DLLNFQGKHFTLLRLSSITLQDMNEYWLGWEKCGNPFKNTSITTLDLSGNGFKESMAKRFFDAIAGTKIQSLILSNS  249 (455)
T ss_dssp             TT-TSGGGTTCEEEEEECTTCBCTTCSTTCTTHHHHCCTTTTCEEEEEECTTSCCCHHHHHHHHHHTTTCCEEEEECTTC
T ss_pred             hh-hhhccccccccccccccCcccccchhhccccccccccccceeeeEecCCCcccccchhhhhccccccceeeEeeccc
Confidence            11 111                               1223466777777766543211 11111111247777777765


Q ss_pred             cCCCc---------ccccchhh--cCCCceEEEcCCcccccceeccccccccccccccCcccEEEEeccCCCCCCc--hh
Q 048126          677 NDSKS---------LDIFCLAC--LHNLNKLYVAGRKHLEDFQMTVQRSSVNQLARGFHSLHTVKVGFCFKLKDLT--WL  743 (863)
Q Consensus       677 ~~~~~---------~~~~~l~~--~~~L~~L~l~~~~~~~~l~~~~~~~~~~~~~~~l~~L~~L~L~~c~~l~~l~--~l  743 (863)
                      .....         .....+..  .++|+.|++++|.... ..+.++        ..+++|++|+|++| .+..++  .+
T Consensus       250 ~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~n~l~~-~~~~~~--------~~l~~L~~L~Ls~n-~l~~~~~~~~  319 (455)
T 3v47_A          250 YNMGSSFGHTNFKDPDNFTFKGLEASGVKTCDLSKSKIFA-LLKSVF--------SHFTDLEQLTLAQN-EINKIDDNAF  319 (455)
T ss_dssp             TTTSCCTTCCSSCCCCTTTTGGGTTSCCCEEECCSSCCCE-ECTTTT--------TTCTTCCEEECTTS-CCCEECTTTT
T ss_pred             cccccccchhhhccCcccccccccccCceEEEecCccccc-cchhhc--------ccCCCCCEEECCCC-cccccChhHh
Confidence            32111         01111221  3689999999875443 334433        34899999999998 455543  57


Q ss_pred             hccCCCcEEEEeccccchhhccccccccccCCCCCCCCcCCccceeccCCCcccccc-ccCCCCCCCcceEeecCCCCCC
Q 048126          744 VFAPSLKSIVVLSCCNMEQIIKAEKLSQLHHHPERKKSVFAKLQFLSLENLRNLCCI-NWEALAFPNLKEIRVEGCPKLF  822 (863)
Q Consensus       744 ~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~~~p~L~~L~l~~~~~L~~i-~~~~~~~p~L~~L~i~~C~~L~  822 (863)
                      +.+++|+.|+++++. ++.+.            +..+..+++|+.|+|+++ .++.+ +.....+++|+.|++++| +++
T Consensus       320 ~~l~~L~~L~Ls~N~-l~~~~------------~~~~~~l~~L~~L~Ls~N-~l~~~~~~~~~~l~~L~~L~L~~N-~l~  384 (455)
T 3v47_A          320 WGLTHLLKLNLSQNF-LGSID------------SRMFENLDKLEVLDLSYN-HIRALGDQSFLGLPNLKELALDTN-QLK  384 (455)
T ss_dssp             TTCTTCCEEECCSSC-CCEEC------------GGGGTTCTTCCEEECCSS-CCCEECTTTTTTCTTCCEEECCSS-CCS
T ss_pred             cCcccCCEEECCCCc-cCCcC------------hhHhcCcccCCEEECCCC-cccccChhhccccccccEEECCCC-ccc
Confidence            789999999999964 44442            235678999999999997 45555 445667999999999985 889


Q ss_pred             CCCCCCC-C-CCCCceEEEccc
Q 048126          823 KLPLDSN-S-AKGCKVVIKGEE  842 (863)
Q Consensus       823 ~lp~~~~-~-~~L~~l~i~~~~  842 (863)
                      .+|.... . ++|+.+++.+++
T Consensus       385 ~~~~~~~~~l~~L~~L~l~~N~  406 (455)
T 3v47_A          385 SVPDGIFDRLTSLQKIWLHTNP  406 (455)
T ss_dssp             CCCTTTTTTCTTCCEEECCSSC
T ss_pred             cCCHhHhccCCcccEEEccCCC
Confidence            9887553 3 899999998653

>3o6n_A APL1; leucine-rich repeat, protein binding; HET: NAG; 1.85A {Anopheles gambiae}

Probab=99.89  E-value=6.3e-23  Score=227.01  Aligned_cols=304  Identities=14%  Similarity=0.169  Sum_probs=241.7

Q ss_pred             ccccceEEEEecccccccccc--CCCCCccceEEccCCccccccchhhhcCCCccEEEccCCCccccCCccccccCCCCe
Q 048126          491 QNWRNVRRMSLMKNKIENLSE--TPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSLEH  568 (863)
Q Consensus       491 ~~~~~lr~L~l~~~~~~~l~~--~~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~  568 (863)
                      ..+++++.+++.++.+..++.  +..+++|++|++++|.+..+++..|..+++|++|+|++|.+.+..|..++++++|++
T Consensus        42 ~~l~~l~~l~l~~~~l~~l~~~~~~~l~~L~~L~L~~n~i~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~  121 (390)
T 3o6n_A           42 ITLNNQKIVTFKNSTMRKLPAALLDSFRQVELLNLNDLQIEEIDTYAFAYAHTIQKLYMGFNAIRYLPPHVFQNVPLLTV  121 (390)
T ss_dssp             GGGCCCSEEEEESCEESEECTHHHHHCCCCSEEECTTSCCCEECTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCE
T ss_pred             cccCCceEEEecCCchhhCChhHhcccccCcEEECCCCcccccChhhccCCCCcCEEECCCCCCCcCCHHHhcCCCCCCE
Confidence            345789999999999988876  478999999999999999998878999999999999999666556777899999999


Q ss_pred             EEccCCCccccchh-hhcCCCCCEEecCCccccCCCcHHHhhcCCCCcEEEeeccccccCchhhHHHHHcCCccCceEEE
Q 048126          569 LDLSGTAITHLPIE-LQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRILKSNVLFGGHQFLVEELMGMKHLMALTI  647 (863)
Q Consensus       569 L~L~~~~l~~lp~~-~~~l~~L~~L~l~~~~~l~~lp~~~~~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~~L~l  647 (863)
                      |++++|.++.+|.. +.++++|++|++++| .+..++...++.+++|++|++.+|.+...       .+..+++|+.|++
T Consensus       122 L~L~~n~l~~l~~~~~~~l~~L~~L~L~~n-~l~~~~~~~~~~l~~L~~L~l~~n~l~~~-------~~~~l~~L~~L~l  193 (390)
T 3o6n_A          122 LVLERNDLSSLPRGIFHNTPKLTTLSMSNN-NLERIEDDTFQATTSLQNLQLSSNRLTHV-------DLSLIPSLFHANV  193 (390)
T ss_dssp             EECCSSCCCCCCTTTTTTCTTCCEEECCSS-CCCBCCTTTTSSCTTCCEEECCSSCCSBC-------CGGGCTTCSEEEC
T ss_pred             EECCCCccCcCCHHHhcCCCCCcEEECCCC-ccCccChhhccCCCCCCEEECCCCcCCcc-------ccccccccceeec
Confidence            99999999999987 589999999999998 56777665688999999999999887542       2566888999999


Q ss_pred             EEcChHHHHHHhhhhhhhhcceeeeeccccCCCcccccchhhcCCCceEEEcCCcccccceeccccccccccccccCccc
Q 048126          648 TLKSWEALQELLISQELQRCTQSLFLRCFNDSKSLDIFCLACLHNLNKLYVAGRKHLEDFQMTVQRSSVNQLARGFHSLH  727 (863)
Q Consensus       648 ~~~~~~~~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~l~~~~~~~~~~~~~~~l~~L~  727 (863)
                      +.+....+       ....+|+.|+++++.- ...+   ....++|+.|++++|.... .  .++        ..+++|+
T Consensus       194 ~~n~l~~~-------~~~~~L~~L~l~~n~l-~~~~---~~~~~~L~~L~l~~n~l~~-~--~~l--------~~l~~L~  251 (390)
T 3o6n_A          194 SYNLLSTL-------AIPIAVEELDASHNSI-NVVR---GPVNVELTILKLQHNNLTD-T--AWL--------LNYPGLV  251 (390)
T ss_dssp             CSSCCSEE-------ECCSSCSEEECCSSCC-CEEE---CCCCSSCCEEECCSSCCCC-C--GGG--------GGCTTCS
T ss_pred             cccccccc-------CCCCcceEEECCCCee-eecc---ccccccccEEECCCCCCcc-c--HHH--------cCCCCcc
Confidence            87654432       2335889999987543 2222   1235799999999985443 2  232        3589999


Q ss_pred             EEEEeccCCCCCC--chhhccCCCcEEEEeccccchhhccccccccccCCCCCCCCcCCccceeccCCCccccccccCCC
Q 048126          728 TVKVGFCFKLKDL--TWLVFAPSLKSIVVLSCCNMEQIIKAEKLSQLHHHPERKKSVFAKLQFLSLENLRNLCCINWEAL  805 (863)
Q Consensus       728 ~L~L~~c~~l~~l--~~l~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~~~p~L~~L~l~~~~~L~~i~~~~~  805 (863)
                      +|+|++| .++.+  ..++.+++|+.|+++++. ++.+             +.....+|+|+.|+++++ .++.++....
T Consensus       252 ~L~Ls~n-~l~~~~~~~~~~l~~L~~L~L~~n~-l~~~-------------~~~~~~l~~L~~L~L~~n-~l~~~~~~~~  315 (390)
T 3o6n_A          252 EVDLSYN-ELEKIMYHPFVKMQRLERLYISNNR-LVAL-------------NLYGQPIPTLKVLDLSHN-HLLHVERNQP  315 (390)
T ss_dssp             EEECCSS-CCCEEESGGGTTCSSCCEEECCSSC-CCEE-------------ECSSSCCTTCCEEECCSS-CCCCCGGGHH
T ss_pred             EEECCCC-cCCCcChhHccccccCCEEECCCCc-Cccc-------------CcccCCCCCCCEEECCCC-cceecCcccc
Confidence            9999998 45554  357789999999999954 5554             234567999999999997 6777776666


Q ss_pred             CCCCcceEeecCCCCCCCCCCCCCCCCCCceEEEccc
Q 048126          806 AFPNLKEIRVEGCPKLFKLPLDSNSAKGCKVVIKGEE  842 (863)
Q Consensus       806 ~~p~L~~L~i~~C~~L~~lp~~~~~~~L~~l~i~~~~  842 (863)
                      .+++|+.|++++| +++.+|.. ..++|+.+++.+++
T Consensus       316 ~l~~L~~L~L~~N-~i~~~~~~-~~~~L~~L~l~~N~  350 (390)
T 3o6n_A          316 QFDRLENLYLDHN-SIVTLKLS-THHTLKNLTLSHND  350 (390)
T ss_dssp             HHTTCSEEECCSS-CCCCCCCC-TTCCCSEEECCSSC
T ss_pred             ccCcCCEEECCCC-ccceeCch-hhccCCEEEcCCCC
Confidence            7899999999997 68888843 23889999998754

>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

Probab=99.89  E-value=1.2e-22  Score=230.20  Aligned_cols=314  Identities=18%  Similarity=0.177  Sum_probs=222.4

Q ss_pred             ccccceEEEEeccccccccccCCCCCccceEEccCCccccccchhhhcCCCccEEEccCCCccccCCccccccCCCCeEE
Q 048126          491 QNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLD  570 (863)
Q Consensus       491 ~~~~~lr~L~l~~~~~~~l~~~~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~  570 (863)
                      ..+++++.|++.++.+..++.+..+++|++|++++|.+..+++  +.++++|++|++++|. +..+|. ++++++|++|+
T Consensus        43 ~~l~~l~~L~l~~~~i~~l~~~~~l~~L~~L~Ls~n~l~~~~~--~~~l~~L~~L~l~~n~-l~~~~~-~~~l~~L~~L~  118 (466)
T 1o6v_A           43 TDLDQVTTLQADRLGIKSIDGVEYLNNLTQINFSNNQLTDITP--LKNLTKLVDILMNNNQ-IADITP-LANLTNLTGLT  118 (466)
T ss_dssp             HHHHTCCEEECCSSCCCCCTTGGGCTTCCEEECCSSCCCCCGG--GTTCTTCCEEECCSSC-CCCCGG-GTTCTTCCEEE
T ss_pred             hHhccccEEecCCCCCccCcchhhhcCCCEEECCCCccCCchh--hhccccCCEEECCCCc-cccChh-hcCCCCCCEEE
Confidence            3467899999999999999888999999999999999999886  8999999999999995 445555 99999999999


Q ss_pred             ccCCCccccchhhhcCCCCCEEecCCccccCCCcHHHhhcCCCCcEEEeeccccccCchhhHHHHHcCCccCceEEEEEc
Q 048126          571 LSGTAITHLPIELQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRILKSNVLFGGHQFLVEELMGMKHLMALTITLK  650 (863)
Q Consensus       571 L~~~~l~~lp~~~~~l~~L~~L~l~~~~~l~~lp~~~~~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~  650 (863)
                      +++|.++.+|. +.++++|++|++++| .+..+|.  ++.+++|++|++.++ ...      ...+.++++|+.|+++.+
T Consensus       119 L~~n~l~~~~~-~~~l~~L~~L~l~~n-~l~~~~~--~~~l~~L~~L~l~~~-~~~------~~~~~~l~~L~~L~l~~n  187 (466)
T 1o6v_A          119 LFNNQITDIDP-LKNLTNLNRLELSSN-TISDISA--LSGLTSLQQLSFGNQ-VTD------LKPLANLTTLERLDISSN  187 (466)
T ss_dssp             CCSSCCCCCGG-GTTCTTCSEEEEEEE-EECCCGG--GTTCTTCSEEEEEES-CCC------CGGGTTCTTCCEEECCSS
T ss_pred             CCCCCCCCChH-HcCCCCCCEEECCCC-ccCCChh--hccCCcccEeecCCc-ccC------chhhccCCCCCEEECcCC
Confidence            99999999986 999999999999999 5677875  889999999999642 221      123889999999999988


Q ss_pred             ChHHHHHHhhhhhhhhcceeeeeccccCCCcccccchhhcCCCceEEEcCCcccccceeccccccccccccccCcccEEE
Q 048126          651 SWEALQELLISQELQRCTQSLFLRCFNDSKSLDIFCLACLHNLNKLYVAGRKHLEDFQMTVQRSSVNQLARGFHSLHTVK  730 (863)
Q Consensus       651 ~~~~~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~l~~~~~~~~~~~~~~~l~~L~~L~  730 (863)
                      ....++.    ....++|+.|.++++.-....+   +..+++|+.|++++|.... + + .+        ..+++|+.|+
T Consensus       188 ~l~~~~~----l~~l~~L~~L~l~~n~l~~~~~---~~~l~~L~~L~l~~n~l~~-~-~-~l--------~~l~~L~~L~  249 (466)
T 1o6v_A          188 KVSDISV----LAKLTNLESLIATNNQISDITP---LGILTNLDELSLNGNQLKD-I-G-TL--------ASLTNLTDLD  249 (466)
T ss_dssp             CCCCCGG----GGGCTTCSEEECCSSCCCCCGG---GGGCTTCCEEECCSSCCCC-C-G-GG--------GGCTTCSEEE
T ss_pred             cCCCChh----hccCCCCCEEEecCCccccccc---ccccCCCCEEECCCCCccc-c-h-hh--------hcCCCCCEEE
Confidence            7655432    2234689999999875433322   6678999999999875332 2 1 11        2356666666


Q ss_pred             EeccCCCCCCchhhccCCCcEEEEeccccchhhccccccccc--------cCCCCCCCCcCCccceeccCCCcccccccc
Q 048126          731 VGFCFKLKDLTWLVFAPSLKSIVVLSCCNMEQIIKAEKLSQL--------HHHPERKKSVFAKLQFLSLENLRNLCCINW  802 (863)
Q Consensus       731 L~~c~~l~~l~~l~~l~~L~~L~l~~~~~l~~i~~~~~~~~~--------~~~~~~~~~~~p~L~~L~l~~~~~L~~i~~  802 (863)
                      +++| .+..++.+..+++|+.|++++|. +..+........+        .......+..+++|+.|++++| .+..+..
T Consensus       250 l~~n-~l~~~~~~~~l~~L~~L~l~~n~-l~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~l~~L~~L~L~~n-~l~~~~~  326 (466)
T 1o6v_A          250 LANN-QISNLAPLSGLTKLTELKLGANQ-ISNISPLAGLTALTNLELNENQLEDISPISNLKNLTYLTLYFN-NISDISP  326 (466)
T ss_dssp             CCSS-CCCCCGGGTTCTTCSEEECCSSC-CCCCGGGTTCTTCSEEECCSSCCSCCGGGGGCTTCSEEECCSS-CCSCCGG
T ss_pred             CCCC-ccccchhhhcCCCCCEEECCCCc-cCccccccCCCccCeEEcCCCcccCchhhcCCCCCCEEECcCC-cCCCchh
Confidence            6665 34555555666666666666543 2222110000000        0000012456777888888776 3444433


Q ss_pred             CCCCCCCcceEeecCCCCCCCCCCCCCCCCCCceEEEccc
Q 048126          803 EALAFPNLKEIRVEGCPKLFKLPLDSNSAKGCKVVIKGEE  842 (863)
Q Consensus       803 ~~~~~p~L~~L~i~~C~~L~~lp~~~~~~~L~~l~i~~~~  842 (863)
                       ...+++|+.|++++| +++.+|.....++|+.+++.+++
T Consensus       327 -~~~l~~L~~L~l~~n-~l~~~~~l~~l~~L~~L~l~~n~  364 (466)
T 1o6v_A          327 -VSSLTKLQRLFFYNN-KVSDVSSLANLTNINWLSAGHNQ  364 (466)
T ss_dssp             -GGGCTTCCEEECCSS-CCCCCGGGTTCTTCCEEECCSSC
T ss_pred             -hccCccCCEeECCCC-ccCCchhhccCCCCCEEeCCCCc
Confidence             446788888888876 67777643334788888887653

>4eco_A Uncharacterized protein; leucine-rich repeats, protein binding, structural genomics, center for structural genomics, JCSG; 2.70A {Bacteroides eggerthii dsm 20697}

Probab=99.89  E-value=1.5e-23  Score=246.42  Aligned_cols=327  Identities=13%  Similarity=0.151  Sum_probs=198.9

Q ss_pred             ccccccceEEEEeccccccc------------------cccC-C--CCCccceEEccCCccccccchhhhcCCCccEEEc
Q 048126          489 EIQNWRNVRRMSLMKNKIEN------------------LSET-P--TCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNM  547 (863)
Q Consensus       489 ~~~~~~~lr~L~l~~~~~~~------------------l~~~-~--~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L  547 (863)
                      .+..+++++.|++++|.+.+                  +|.. .  ++++|++|++++|.+....+..|+++++|++|+|
T Consensus       201 ~l~~l~~L~~L~Ls~n~l~~~~~~~~~~~~~~~~~~~~ip~~l~~~~l~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~L  280 (636)
T 4eco_A          201 AVMRLTKLRQFYMGNSPFVAENICEAWENENSEYAQQYKTEDLKWDNLKDLTDVEVYNCPNLTKLPTFLKALPEMQLINV  280 (636)
T ss_dssp             GGGGCTTCCEEEEESCCCCGGGBSSSCSCTTSHHHHHHTTSCCCGGGCTTCCEEEEECCTTCSSCCTTTTTCSSCCEEEC
T ss_pred             HHhcccCCCEEECcCCccccccccccccccccchhcccCchhhhhcccCCCCEEEecCCcCCccChHHHhcCCCCCEEEC
Confidence            35566677777777777666                  5443 4  5777777777777655444444677777777777


Q ss_pred             cCCC-ccc-cCCcccccc------CCCCeEEccCCCccccch--hhhcCCCCCEEecCCccccCCCcHHHhhcCCCCcEE
Q 048126          548 SNNH-LLW-KLPSGISTL------VSLEHLDLSGTAITHLPI--ELQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVL  617 (863)
Q Consensus       548 ~~~~-~~~-~lp~~i~~l------~~L~~L~L~~~~l~~lp~--~~~~l~~L~~L~l~~~~~l~~lp~~~~~~L~~L~~L  617 (863)
                      ++|. +.+ .+|..++++      ++|++|++++|.++.+|.  .++++++|++|++++|.....+| . ++.+++|++|
T Consensus       281 s~n~~l~~~~lp~~~~~L~~~~~l~~L~~L~L~~n~l~~ip~~~~l~~l~~L~~L~L~~N~l~g~ip-~-~~~l~~L~~L  358 (636)
T 4eco_A          281 ACNRGISGEQLKDDWQALADAPVGEKIQIIYIGYNNLKTFPVETSLQKMKKLGMLECLYNQLEGKLP-A-FGSEIKLASL  358 (636)
T ss_dssp             TTCTTSCHHHHHHHHHHHHHSGGGGTCCEEECCSSCCSSCCCHHHHTTCTTCCEEECCSCCCEEECC-C-CEEEEEESEE
T ss_pred             cCCCCCccccchHHHHhhhccccCCCCCEEECCCCcCCccCchhhhccCCCCCEEeCcCCcCccchh-h-hCCCCCCCEE
Confidence            7775 444 567666665      677777777777777776  67777777777777763222666 2 6666666666


Q ss_pred             EeeccccccCchhhHHHHHcCCcc-CceEEEEEcChHHHHHHhhhh-----------------------h-------hhh
Q 048126          618 RILKSNVLFGGHQFLVEELMGMKH-LMALTITLKSWEALQELLISQ-----------------------E-------LQR  666 (863)
Q Consensus       618 ~l~~~~~~~~~~~~~~~~l~~L~~-L~~L~l~~~~~~~~~~l~~~~-----------------------~-------~~~  666 (863)
                      ++.+|.+..     .+..+.++++ |+.|+++.+....++......                       .       ...
T Consensus       359 ~L~~N~l~~-----lp~~l~~l~~~L~~L~Ls~N~l~~lp~~~~~~~l~~L~~L~Ls~N~l~~~~p~~l~~~~~~~~~~~  433 (636)
T 4eco_A          359 NLAYNQITE-----IPANFCGFTEQVENLSFAHNKLKYIPNIFDAKSVSVMSAIDFSYNEIGSVDGKNFDPLDPTPFKGI  433 (636)
T ss_dssp             ECCSSEEEE-----CCTTSEEECTTCCEEECCSSCCSSCCSCCCTTCSSCEEEEECCSSCTTTTTTCSSCTTCSSCCCCC
T ss_pred             ECCCCcccc-----ccHhhhhhcccCcEEEccCCcCcccchhhhhcccCccCEEECcCCcCCCcchhhhcccccccccCC
Confidence            666665431     2233555555 666666555443222110000                       0       112


Q ss_pred             cceeeeeccccCCCcccccchhhcCCCceEEEcCCcccccceeccccccccccccccCcccEEEEeccCCCCCCc-hhh-
Q 048126          667 CTQSLFLRCFNDSKSLDIFCLACLHNLNKLYVAGRKHLEDFQMTVQRSSVNQLARGFHSLHTVKVGFCFKLKDLT-WLV-  744 (863)
Q Consensus       667 ~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~l~~~~~~~~~~~~~~~l~~L~~L~L~~c~~l~~l~-~l~-  744 (863)
                      +|+.|+++++.- ..++...+..+++|++|++++|... .++...+.. .......+++|+.|+|++| .++.+| .+. 
T Consensus       434 ~L~~L~Ls~N~l-~~lp~~~~~~l~~L~~L~Ls~N~l~-~i~~~~~~~-~~~~~~~l~~L~~L~Ls~N-~l~~lp~~~~~  509 (636)
T 4eco_A          434 NVSSINLSNNQI-SKFPKELFSTGSPLSSINLMGNMLT-EIPKNSLKD-ENENFKNTYLLTSIDLRFN-KLTKLSDDFRA  509 (636)
T ss_dssp             CEEEEECCSSCC-CSCCTHHHHTTCCCSEEECCSSCCS-BCCSSSSEE-TTEECTTGGGCCEEECCSS-CCCBCCGGGST
T ss_pred             CCCEEECcCCcc-CcCCHHHHccCCCCCEEECCCCCCC-CcCHHHhcc-ccccccccCCccEEECcCC-cCCccChhhhh
Confidence            455555554332 2222222344677777777776443 333332210 0000112338889999887 466666 343 


Q ss_pred             -ccCCCcEEEEeccccchhhccccccccccCCCCCCCCcCCccceeccCC------CccccccccCCCCCCCcceEeecC
Q 048126          745 -FAPSLKSIVVLSCCNMEQIIKAEKLSQLHHHPERKKSVFAKLQFLSLEN------LRNLCCINWEALAFPNLKEIRVEG  817 (863)
Q Consensus       745 -~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~~~p~L~~L~l~~------~~~L~~i~~~~~~~p~L~~L~i~~  817 (863)
                       .+++|+.|+|+++. ++.+             +..+..+++|+.|+|++      +.-...++.....+++|+.|++++
T Consensus       510 ~~l~~L~~L~Ls~N~-l~~i-------------p~~~~~l~~L~~L~Ls~N~~ls~N~l~~~~p~~l~~l~~L~~L~Ls~  575 (636)
T 4eco_A          510 TTLPYLVGIDLSYNS-FSKF-------------PTQPLNSSTLKGFGIRNQRDAQGNRTLREWPEGITLCPSLTQLQIGS  575 (636)
T ss_dssp             TTCTTCCEEECCSSC-CSSC-------------CCGGGGCSSCCEEECCSCBCTTCCBCCCCCCTTGGGCSSCCEEECCS
T ss_pred             ccCCCcCEEECCCCC-CCCc-------------ChhhhcCCCCCEEECCCCcccccCcccccChHHHhcCCCCCEEECCC
Confidence             78899999998854 4444             34566789999999964      333455666667789999999988


Q ss_pred             CCCCCCCCCCCCCCCCCceEEEccc
Q 048126          818 CPKLFKLPLDSNSAKGCKVVIKGEE  842 (863)
Q Consensus       818 C~~L~~lp~~~~~~~L~~l~i~~~~  842 (863)
                      | +++.+|.... ++|+.+++++++
T Consensus       576 N-~l~~ip~~~~-~~L~~L~Ls~N~  598 (636)
T 4eco_A          576 N-DIRKVNEKIT-PNISVLDIKDNP  598 (636)
T ss_dssp             S-CCCBCCSCCC-TTCCEEECCSCT
T ss_pred             C-cCCccCHhHh-CcCCEEECcCCC
Confidence            7 5688997654 889999998764

>4eco_A Uncharacterized protein; leucine-rich repeats, protein binding, structural genomics, center for structural genomics, JCSG; 2.70A {Bacteroides eggerthii dsm 20697}

Probab=99.89  E-value=4.6e-23  Score=242.26  Aligned_cols=236  Identities=13%  Similarity=0.122  Sum_probs=168.4

Q ss_pred             CCCCCccceEEccCCcccc------------------ccchhhh--cCCCccEEEccCCCccccCCccccccCCCCeEEc
Q 048126          512 TPTCPHLLSLFLSDNSLKM------------------IAGDFFQ--FMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDL  571 (863)
Q Consensus       512 ~~~~~~L~~L~l~~~~l~~------------------~~~~~~~--~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L  571 (863)
                      +.++++|++|++++|.+++                  +|.. ++  ++++|++|+|++|.+.+.+|..++++++|++|++
T Consensus       202 l~~l~~L~~L~Ls~n~l~~~~~~~~~~~~~~~~~~~~ip~~-l~~~~l~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~L  280 (636)
T 4eco_A          202 VMRLTKLRQFYMGNSPFVAENICEAWENENSEYAQQYKTED-LKWDNLKDLTDVEVYNCPNLTKLPTFLKALPEMQLINV  280 (636)
T ss_dssp             GGGCTTCCEEEEESCCCCGGGBSSSCSCTTSHHHHHHTTSC-CCGGGCTTCCEEEEECCTTCSSCCTTTTTCSSCCEEEC
T ss_pred             HhcccCCCEEECcCCccccccccccccccccchhcccCchh-hhhcccCCCCEEEecCCcCCccChHHHhcCCCCCEEEC
Confidence            4678999999999999888                  7765 66  8999999999999888899999999999999999


Q ss_pred             cCCC-cc--ccchhhhcC------CCCCEEecCCccccCCCcH-HHhhcCCCCcEEEeeccccccCchhhHHHHHcCCcc
Q 048126          572 SGTA-IT--HLPIELQKL------VNLKCLNLEYMYNLNQFPR-LVMSAFSKLQVLRILKSNVLFGGHQFLVEELMGMKH  641 (863)
Q Consensus       572 ~~~~-l~--~lp~~~~~l------~~L~~L~l~~~~~l~~lp~-~~~~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~  641 (863)
                      ++|. ++  .+|..++++      ++|++|++++| .+..+|. ..++++++|++|++.+|.+.+.    .+ .+..+++
T Consensus       281 s~n~~l~~~~lp~~~~~L~~~~~l~~L~~L~L~~n-~l~~ip~~~~l~~l~~L~~L~L~~N~l~g~----ip-~~~~l~~  354 (636)
T 4eco_A          281 ACNRGISGEQLKDDWQALADAPVGEKIQIIYIGYN-NLKTFPVETSLQKMKKLGMLECLYNQLEGK----LP-AFGSEIK  354 (636)
T ss_dssp             TTCTTSCHHHHHHHHHHHHHSGGGGTCCEEECCSS-CCSSCCCHHHHTTCTTCCEEECCSCCCEEE----CC-CCEEEEE
T ss_pred             cCCCCCccccchHHHHhhhccccCCCCCEEECCCC-cCCccCchhhhccCCCCCEEeCcCCcCccc----hh-hhCCCCC
Confidence            9997 88  489988887      99999999998 5668887 2388999999999998887632    23 6788899


Q ss_pred             CceEEEEEcChHHHHHHhhhhhhhhc-ceeeeeccccCCCcccccchhh--cCCCceEEEcCCcccccceeccccccccc
Q 048126          642 LMALTITLKSWEALQELLISQELQRC-TQSLFLRCFNDSKSLDIFCLAC--LHNLNKLYVAGRKHLEDFQMTVQRSSVNQ  718 (863)
Q Consensus       642 L~~L~l~~~~~~~~~~l~~~~~~~~~-L~~L~l~~~~~~~~~~~~~l~~--~~~L~~L~l~~~~~~~~l~~~~~~~~~~~  718 (863)
                      |+.|+++.+....++   ......++ |+.|+++++.-. .++ ..+..  +++|+.|++++|...... +..+.+. ..
T Consensus       355 L~~L~L~~N~l~~lp---~~l~~l~~~L~~L~Ls~N~l~-~lp-~~~~~~~l~~L~~L~Ls~N~l~~~~-p~~l~~~-~~  427 (636)
T 4eco_A          355 LASLNLAYNQITEIP---ANFCGFTEQVENLSFAHNKLK-YIP-NIFDAKSVSVMSAIDFSYNEIGSVD-GKNFDPL-DP  427 (636)
T ss_dssp             ESEEECCSSEEEECC---TTSEEECTTCCEEECCSSCCS-SCC-SCCCTTCSSCEEEEECCSSCTTTTT-TCSSCTT-CS
T ss_pred             CCEEECCCCcccccc---HhhhhhcccCcEEEccCCcCc-ccc-hhhhhcccCccCEEECcCCcCCCcc-hhhhccc-cc
Confidence            999999877665332   22222345 899999886543 332 22333  348889999887554322 2221100 00


Q ss_pred             cccccCcccEEEEeccCCCCCCch--hhccCCCcEEEEeccccchhh
Q 048126          719 LARGFHSLHTVKVGFCFKLKDLTW--LVFAPSLKSIVVLSCCNMEQI  763 (863)
Q Consensus       719 ~~~~l~~L~~L~L~~c~~l~~l~~--l~~l~~L~~L~l~~~~~l~~i  763 (863)
                      ..-.+++|++|+|++| .++.+|.  +..+++|+.|+++++. ++.+
T Consensus       428 ~~~~~~~L~~L~Ls~N-~l~~lp~~~~~~l~~L~~L~Ls~N~-l~~i  472 (636)
T 4eco_A          428 TPFKGINVSSINLSNN-QISKFPKELFSTGSPLSSINLMGNM-LTEI  472 (636)
T ss_dssp             SCCCCCCEEEEECCSS-CCCSCCTHHHHTTCCCSEEECCSSC-CSBC
T ss_pred             ccccCCCCCEEECcCC-ccCcCCHHHHccCCCCCEEECCCCC-CCCc
Confidence            0013557888888876 4556653  3357778888877743 4433

>4ecn_A Leucine-rich repeat protein; leucine-rich repeats, DUF4458 domain, protein binding, extra protein, structural genomics; 2.80A {Bacteroides thetaiotaomicron}

Probab=99.88  E-value=1e-22  Score=243.14  Aligned_cols=229  Identities=13%  Similarity=0.155  Sum_probs=156.9

Q ss_pred             CCCCCccceEEccCCcccc------------------ccchh-hhcCCCccEEEccCCCccccCCccccccCCCCeEEcc
Q 048126          512 TPTCPHLLSLFLSDNSLKM------------------IAGDF-FQFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLS  572 (863)
Q Consensus       512 ~~~~~~L~~L~l~~~~l~~------------------~~~~~-~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~  572 (863)
                      +.++++|++|+|++|.++.                  +|+.+ |.++++|++|+|++|.+.+.+|..+++|++|++|+|+
T Consensus       444 l~~L~~L~~L~Ls~N~Lsg~~i~~~~~~~s~n~~~g~iP~~l~f~~L~~L~~L~Ls~N~l~~~iP~~l~~L~~L~~L~Ls  523 (876)
T 4ecn_A          444 IQRLTKLQIIYFANSPFTYDNIAVDWEDANSDYAKQYENEELSWSNLKDLTDVELYNCPNMTQLPDFLYDLPELQSLNIA  523 (876)
T ss_dssp             GGGCTTCCEEEEESCCCCGGGBSSSCSCTTSHHHHHHTTSCCCGGGCTTCCEEEEESCTTCCSCCGGGGGCSSCCEEECT
T ss_pred             HhcCCCCCEEECcCCcCCCCcccccccccccccccccCChhhhhccCCCCCEEECcCCCCCccChHHHhCCCCCCEEECc
Confidence            4678889999999998887                  77663 3489999999999987788889889999999999999


Q ss_pred             CCC-ccc--cchhhhcCC-------CCCEEecCCccccCCCcH-HHhhcCCCCcEEEeeccccccCchhhHHHHHcCCcc
Q 048126          573 GTA-ITH--LPIELQKLV-------NLKCLNLEYMYNLNQFPR-LVMSAFSKLQVLRILKSNVLFGGHQFLVEELMGMKH  641 (863)
Q Consensus       573 ~~~-l~~--lp~~~~~l~-------~L~~L~l~~~~~l~~lp~-~~~~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~  641 (863)
                      +|+ ++.  +|..+++++       +|++|++++| .+..+|. ..++++++|++|++.+|.+..     .+ .++++++
T Consensus       524 ~N~~lsg~~iP~~i~~L~~~~~~l~~L~~L~Ls~N-~L~~ip~~~~l~~L~~L~~L~Ls~N~l~~-----lp-~~~~L~~  596 (876)
T 4ecn_A          524 CNRGISAAQLKADWTRLADDEDTGPKIQIFYMGYN-NLEEFPASASLQKMVKLGLLDCVHNKVRH-----LE-AFGTNVK  596 (876)
T ss_dssp             TCTTSCHHHHHHHHHHHHHCTTTTTTCCEEECCSS-CCCBCCCHHHHTTCTTCCEEECTTSCCCB-----CC-CCCTTSE
T ss_pred             CCCCcccccchHHHHhhhhcccccCCccEEEeeCC-cCCccCChhhhhcCCCCCEEECCCCCccc-----ch-hhcCCCc
Confidence            997 774  888777766       8999999988 5568887 238889999999998887652     22 6788888


Q ss_pred             CceEEEEEcChHHHHHHhhhhhhhhc-ceeeeeccccCCCcccccchhhc--CCCceEEEcCCcccccceeccccccccc
Q 048126          642 LMALTITLKSWEALQELLISQELQRC-TQSLFLRCFNDSKSLDIFCLACL--HNLNKLYVAGRKHLEDFQMTVQRSSVNQ  718 (863)
Q Consensus       642 L~~L~l~~~~~~~~~~l~~~~~~~~~-L~~L~l~~~~~~~~~~~~~l~~~--~~L~~L~l~~~~~~~~l~~~~~~~~~~~  718 (863)
                      |+.|+++.+....++   ......++ |+.|.++++.-. .++ ..+..+  ++|+.|++++|.....+ +.+...   .
T Consensus       597 L~~L~Ls~N~l~~lp---~~l~~l~~~L~~L~Ls~N~L~-~lp-~~~~~~~~~~L~~L~Ls~N~l~g~i-p~l~~~---l  667 (876)
T 4ecn_A          597 LTDLKLDYNQIEEIP---EDFCAFTDQVEGLGFSHNKLK-YIP-NIFNAKSVYVMGSVDFSYNKIGSEG-RNISCS---M  667 (876)
T ss_dssp             ESEEECCSSCCSCCC---TTSCEECTTCCEEECCSSCCC-SCC-SCCCTTCSSCEEEEECCSSCTTTTS-SSCSSC---T
T ss_pred             ceEEECcCCccccch---HHHhhccccCCEEECcCCCCC-cCc-hhhhccccCCCCEEECcCCcCCCcc-ccchhh---h
Confidence            999998877765333   22222345 888888886533 332 223333  34888888887543321 111100   0


Q ss_pred             cccccCcccEEEEeccCCCCCCch--hhccCCCcEEEEecc
Q 048126          719 LARGFHSLHTVKVGFCFKLKDLTW--LVFAPSLKSIVVLSC  757 (863)
Q Consensus       719 ~~~~l~~L~~L~L~~c~~l~~l~~--l~~l~~L~~L~l~~~  757 (863)
                      ....+++|+.|+|++| .+..+|.  +..+++|+.|+|+++
T Consensus       668 ~~~~~~~L~~L~Ls~N-~L~~lp~~~~~~l~~L~~L~Ls~N  707 (876)
T 4ecn_A          668 DDYKGINASTVTLSYN-EIQKFPTELFATGSPISTIILSNN  707 (876)
T ss_dssp             TTCCCCCEEEEECCSS-CCCSCCHHHHHTTCCCSEEECCSC
T ss_pred             ccccCCCcCEEEccCC-cCCccCHHHHccCCCCCEEECCCC
Confidence            0012346777777776 4555552  235677777777764

>2z63_A TOLL-like receptor 4, variable lymphocyte recepto; TLR4, MD-2, LPS, immune system; HET: NAG FUL; 2.00A {Homo sapiens}

Probab=99.88  E-value=3.5e-22  Score=233.11  Aligned_cols=162  Identities=11%  Similarity=-0.001  Sum_probs=92.2

Q ss_pred             hcceeeeeccccCCCccc-ccchhhcCCCceEEEcCCcccccceecccccc-------------cc---ccccccCcccE
Q 048126          666 RCTQSLFLRCFNDSKSLD-IFCLACLHNLNKLYVAGRKHLEDFQMTVQRSS-------------VN---QLARGFHSLHT  728 (863)
Q Consensus       666 ~~L~~L~l~~~~~~~~~~-~~~l~~~~~L~~L~l~~~~~~~~l~~~~~~~~-------------~~---~~~~~l~~L~~  728 (863)
                      ++|+.|+++++.-..... ...+..+++|++|++++|.... +++......             ..   .....+++|++
T Consensus       347 ~~L~~L~l~~n~l~~~~~~~~~~~~~~~L~~L~l~~n~l~~-~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~  425 (570)
T 2z63_A          347 PSLEFLDLSRNGLSFKGCCSQSDFGTTSLKYLDLSFNGVIT-MSSNFLGLEQLEHLDFQHSNLKQMSEFSVFLSLRNLIY  425 (570)
T ss_dssp             TTCCEEECCSSCCBEEEEEEHHHHTCSCCCEEECCSCSEEE-EEEEEETCTTCCEEECTTSEEESCTTSCTTTTCTTCCE
T ss_pred             CCCCEEeCcCCccCccccccccccccCccCEEECCCCcccc-ccccccccCCCCEEEccCCccccccchhhhhcCCCCCE
Confidence            456666665543211110 1345567788888887764332 222211100             00   01133556666


Q ss_pred             EEEeccCCCCCCc-hhhccCCCcEEEEeccccchhhccccccccccCCCCCCCCcCCccceeccCCCcccccc-ccCCCC
Q 048126          729 VKVGFCFKLKDLT-WLVFAPSLKSIVVLSCCNMEQIIKAEKLSQLHHHPERKKSVFAKLQFLSLENLRNLCCI-NWEALA  806 (863)
Q Consensus       729 L~L~~c~~l~~l~-~l~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~~~p~L~~L~l~~~~~L~~i-~~~~~~  806 (863)
                      |++++|......+ .+..+++|+.|++++|......+            +..+..+++|+.|++++|. ++.+ +.....
T Consensus       426 L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~------------p~~~~~l~~L~~L~l~~n~-l~~~~~~~~~~  492 (570)
T 2z63_A          426 LDISHTHTRVAFNGIFNGLSSLEVLKMAGNSFQENFL------------PDIFTELRNLTFLDLSQCQ-LEQLSPTAFNS  492 (570)
T ss_dssp             EECTTSCCEECCTTTTTTCTTCCEEECTTCEEGGGEE------------CSCCTTCTTCCEEECTTSC-CCEECTTTTTT
T ss_pred             EeCcCCcccccchhhhhcCCcCcEEECcCCcCccccc------------hhhhhcccCCCEEECCCCc-cccCChhhhhc
Confidence            6666653222222 34456666666666654211110            3456788999999999874 4554 555667


Q ss_pred             CCCcceEeecCCCCCCCCCCCC-CC-CCCCceEEEccc
Q 048126          807 FPNLKEIRVEGCPKLFKLPLDS-NS-AKGCKVVIKGEE  842 (863)
Q Consensus       807 ~p~L~~L~i~~C~~L~~lp~~~-~~-~~L~~l~i~~~~  842 (863)
                      +++|+.|++++| +++.+|... .. ++|+.+++.+++
T Consensus       493 l~~L~~L~l~~n-~l~~~~~~~~~~l~~L~~L~l~~N~  529 (570)
T 2z63_A          493 LSSLQVLNMASN-QLKSVPDGIFDRLTSLQKIWLHTNP  529 (570)
T ss_dssp             CTTCCEEECCSS-CCSCCCTTTTTTCTTCCEEECCSSC
T ss_pred             ccCCCEEeCCCC-cCCCCCHHHhhcccCCcEEEecCCc
Confidence            899999999987 788887643 33 889999998643

>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*

Probab=99.88  E-value=1.9e-22  Score=237.17  Aligned_cols=343  Identities=18%  Similarity=0.129  Sum_probs=217.3

Q ss_pred             EEEcCCCcccCcccccccceEEEEecccccccccc--CCCCCccceEEccCCccccccchhhhcCCCccEEEccCCCccc
Q 048126          477 LVHAGLGLTEAPEIQNWRNVRRMSLMKNKIENLSE--TPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLW  554 (863)
Q Consensus       477 ~~~~~~~~~~~~~~~~~~~lr~L~l~~~~~~~l~~--~~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~  554 (863)
                      +.+.+.+.+.+|.. -.++++.|++++|.+..++.  +.++++|++|++++|.++.+++..|.++++|++|+|++|.+.+
T Consensus        16 ~~c~~~~l~~ip~~-~~~~l~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~i~~~~~~~l~~L~~L~Ls~n~l~~   94 (606)
T 3vq2_A           16 YQCMDQKLSKVPDD-IPSSTKNIDLSFNPLKILKSYSFSNFSELQWLDLSRCEIETIEDKAWHGLHHLSNLILTGNPIQS   94 (606)
T ss_dssp             EECTTSCCSSCCTT-SCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECTTCCCCEECTTTTTTCTTCCEEECTTCCCCC
T ss_pred             eEccCCCcccCCCC-CCCCcCEEECCCCCcCEeChhhccCCccCcEEeCCCCcccccCHHHhhchhhcCEeECCCCcccc
Confidence            44445556666542 22689999999999987754  6889999999999999999988889999999999999996665


Q ss_pred             cCCccccccCCCCeEEccCCCccccc-hhhhcCCCCCEEecCCccccC--CCcHHHhhcCCCCcEEEeeccccccCchhh
Q 048126          555 KLPSGISTLVSLEHLDLSGTAITHLP-IELQKLVNLKCLNLEYMYNLN--QFPRLVMSAFSKLQVLRILKSNVLFGGHQF  631 (863)
Q Consensus       555 ~lp~~i~~l~~L~~L~L~~~~l~~lp-~~~~~l~~L~~L~l~~~~~l~--~lp~~~~~~L~~L~~L~l~~~~~~~~~~~~  631 (863)
                      ..|..++++++|++|++++|.++.+| ..++++++|++|++++|. +.  .+|.. ++++++|++|++.+|.+.... ..
T Consensus        95 ~~p~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~-l~~~~lp~~-~~~l~~L~~L~Ls~n~l~~~~-~~  171 (606)
T 3vq2_A           95 FSPGSFSGLTSLENLVAVETKLASLESFPIGQLITLKKLNVAHNF-IHSCKLPAY-FSNLTNLVHVDLSYNYIQTIT-VN  171 (606)
T ss_dssp             CCTTSSTTCTTCCEEECTTSCCCCSSSSCCTTCTTCCEEECCSSC-CCCCCCCGG-GGTCTTCCEEECCSSCCCEEC-TT
T ss_pred             cChhhcCCcccCCEEEccCCccccccccccCCCCCCCEEeCCCCc-ccceechHh-HhhcCCCCEEEccCCcceecC-hh
Confidence            56889999999999999999998876 679999999999999984 44  46775 889999999999988765321 11


Q ss_pred             HHHHHcCC------------------------ccCceEEEEEcChH--HHHHHhhhhhhhhcceeeeec-----------
Q 048126          632 LVEELMGM------------------------KHLMALTITLKSWE--ALQELLISQELQRCTQSLFLR-----------  674 (863)
Q Consensus       632 ~~~~l~~L------------------------~~L~~L~l~~~~~~--~~~~l~~~~~~~~~L~~L~l~-----------  674 (863)
                      .+..+.++                        .+|+.|+++.+...  ..+...   ...+.++.+.+.           
T Consensus       172 ~~~~l~~L~~~l~~L~l~~n~l~~~~~~~~~~~~L~~L~L~~n~~~~~~~~~~~---~~l~~L~~l~l~~~~~~~~~~l~  248 (606)
T 3vq2_A          172 DLQFLRENPQVNLSLDMSLNPIDFIQDQAFQGIKLHELTLRGNFNSSNIMKTCL---QNLAGLHVHRLILGEFKDERNLE  248 (606)
T ss_dssp             TTHHHHHCTTCCCEEECTTCCCCEECTTTTTTCEEEEEEEESCCSCHHHHHHHH---HTTTTCEEEEEEEECCTTSCCCS
T ss_pred             hhhhhhccccccceeeccCCCcceeCcccccCceeeeeeccCCccchhHHHHHh---ccccccccccccccccccCCccc
Confidence            12222222                        25666777665432  111111   111223322221           


Q ss_pred             ---------------------cccCCCcccccchhhcCCCceEEEcCCcccccceeccccccccccccccCcccEEEEec
Q 048126          675 ---------------------CFNDSKSLDIFCLACLHNLNKLYVAGRKHLEDFQMTVQRSSVNQLARGFHSLHTVKVGF  733 (863)
Q Consensus       675 ---------------------~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~l~~~~~~~~~~~~~~~l~~L~~L~L~~  733 (863)
                                           ..+...... ..+..+++|+.|+++++.. +.++  .+        ..+++|++|++++
T Consensus       249 ~~~~~~~~~l~~l~l~~l~l~~~~~~~~~~-~~~~~l~~L~~L~l~~~~~-~~l~--~l--------~~~~~L~~L~l~~  316 (606)
T 3vq2_A          249 IFEPSIMEGLCDVTIDEFRLTYTNDFSDDI-VKFHCLANVSAMSLAGVSI-KYLE--DV--------PKHFKWQSLSIIR  316 (606)
T ss_dssp             CCCGGGGTTGGGSEEEEEEECCCTTCCGGG-GSCGGGTTCSEEEEESCCC-CCCC--CC--------CTTCCCSEEEEES
T ss_pred             ccChHHhhhhhhccHhheeccccccccccc-cccccCCCCCEEEecCccc-hhhh--hc--------cccccCCEEEccc
Confidence                                 111111111 1255677888888877654 3232  22        2367778888877


Q ss_pred             cCCCCCCchhhccCCCcEEEEeccccchhhccccc--cccc-------cCC--CCCCCCcCCccceeccCCCcccccccc
Q 048126          734 CFKLKDLTWLVFAPSLKSIVVLSCCNMEQIIKAEK--LSQL-------HHH--PERKKSVFAKLQFLSLENLRNLCCINW  802 (863)
Q Consensus       734 c~~l~~l~~l~~l~~L~~L~l~~~~~l~~i~~~~~--~~~~-------~~~--~~~~~~~~p~L~~L~l~~~~~L~~i~~  802 (863)
                      |. +..+|.+ .+++|+.|+++++..+..+.....  ...+       ...  .+.....+++|+.|+++++. +..++.
T Consensus       317 n~-l~~lp~~-~l~~L~~L~l~~n~~~~~~~~~~l~~L~~L~ls~n~l~~~~~~~~~~~~~~~L~~L~L~~n~-l~~~~~  393 (606)
T 3vq2_A          317 CQ-LKQFPTL-DLPFLKSLTLTMNKGSISFKKVALPSLSYLDLSRNALSFSGCCSYSDLGTNSLRHLDLSFNG-AIIMSA  393 (606)
T ss_dssp             CC-CSSCCCC-CCSSCCEEEEESCSSCEECCCCCCTTCCEEECCSSCEEEEEECCHHHHCCSCCCEEECCSCS-EEEECC
T ss_pred             cc-CcccccC-CCCccceeeccCCcCccchhhccCCCCCEEECcCCccCCCcchhhhhccCCcccEeECCCCc-cccchh
Confidence            74 4666655 677777777777643332200000  0000       000  01233456777777777753 555665


Q ss_pred             CCCCCCCcceEeecCCCCCCCCCC--CCCC-CCCCceEEEccc
Q 048126          803 EALAFPNLKEIRVEGCPKLFKLPL--DSNS-AKGCKVVIKGEE  842 (863)
Q Consensus       803 ~~~~~p~L~~L~i~~C~~L~~lp~--~~~~-~~L~~l~i~~~~  842 (863)
                      ....+++|+.|++++| ++..++.  .... ++|+.+++.++.
T Consensus       394 ~~~~l~~L~~L~l~~n-~l~~~~~~~~~~~l~~L~~L~l~~n~  435 (606)
T 3vq2_A          394 NFMGLEELQHLDFQHS-TLKRVTEFSAFLSLEKLLYLDISYTN  435 (606)
T ss_dssp             CCTTCTTCCEEECTTS-EEESTTTTTTTTTCTTCCEEECTTSC
T ss_pred             hccCCCCCCeeECCCC-ccCCccChhhhhccccCCEEECcCCC
Confidence            5566788888888876 4444332  2222 788888887654

>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}

Probab=99.88  E-value=2.3e-22  Score=235.08  Aligned_cols=303  Identities=14%  Similarity=0.169  Sum_probs=240.1

Q ss_pred             cccceEEEEecccccccccc--CCCCCccceEEccCCccccccchhhhcCCCccEEEccCCCccccCCccccccCCCCeE
Q 048126          492 NWRNVRRMSLMKNKIENLSE--TPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHL  569 (863)
Q Consensus       492 ~~~~lr~L~l~~~~~~~l~~--~~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L  569 (863)
                      .+++++.+++.++.+..+|.  +..+++|++|++++|.+..+++..|..+++|++|+|++|.+.+..|..++++++|++|
T Consensus        49 ~l~~l~~l~l~~~~l~~lp~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L  128 (597)
T 3oja_B           49 TLNNQKIVTFKNSTMRKLPAALLDSFRQVELLNLNDLQIEEIDTYAFAYAHTIQKLYMGFNAIRYLPPHVFQNVPLLTVL  128 (597)
T ss_dssp             GGCCCSEEEESSCEESEECTHHHHHCCCCSEEECTTSCCCEECTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEE
T ss_pred             cCCCceEEEeeCCCCCCcCHHHHccCCCCcEEECCCCCCCCCChHHhcCCCCCCEEECCCCcCCCCCHHHHcCCCCCCEE
Confidence            45789999999999988876  4789999999999999999998789999999999999997666566678999999999


Q ss_pred             EccCCCccccchh-hhcCCCCCEEecCCccccCCCcHHHhhcCCCCcEEEeeccccccCchhhHHHHHcCCccCceEEEE
Q 048126          570 DLSGTAITHLPIE-LQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRILKSNVLFGGHQFLVEELMGMKHLMALTIT  648 (863)
Q Consensus       570 ~L~~~~l~~lp~~-~~~l~~L~~L~l~~~~~l~~lp~~~~~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~~L~l~  648 (863)
                      +|++|.++.+|.. ++++++|++|++++| .+..++...++++++|++|++.+|.+...       .+..+++|+.|+++
T Consensus       129 ~L~~n~l~~l~~~~~~~l~~L~~L~Ls~N-~l~~~~~~~~~~l~~L~~L~L~~N~l~~~-------~~~~l~~L~~L~l~  200 (597)
T 3oja_B          129 VLERNDLSSLPRGIFHNTPKLTTLSMSNN-NLERIEDDTFQATTSLQNLQLSSNRLTHV-------DLSLIPSLFHANVS  200 (597)
T ss_dssp             ECCSSCCCCCCTTTTTTCTTCCEEECCSS-CCCBCCTTTTTTCTTCCEEECTTSCCSBC-------CGGGCTTCSEEECC
T ss_pred             EeeCCCCCCCCHHHhccCCCCCEEEeeCC-cCCCCChhhhhcCCcCcEEECcCCCCCCc-------Chhhhhhhhhhhcc
Confidence            9999999999887 589999999999999 56677665589999999999999887642       25668889999988


Q ss_pred             EcChHHHHHHhhhhhhhhcceeeeeccccCCCcccccchhhcCCCceEEEcCCcccccceeccccccccccccccCcccE
Q 048126          649 LKSWEALQELLISQELQRCTQSLFLRCFNDSKSLDIFCLACLHNLNKLYVAGRKHLEDFQMTVQRSSVNQLARGFHSLHT  728 (863)
Q Consensus       649 ~~~~~~~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~l~~~~~~~~~~~~~~~l~~L~~  728 (863)
                      .+....+       ..+.+|+.|+++++.- ...+.   ...++|+.|++++|....   +.++        ..+++|+.
T Consensus       201 ~n~l~~l-------~~~~~L~~L~ls~n~l-~~~~~---~~~~~L~~L~L~~n~l~~---~~~l--------~~l~~L~~  258 (597)
T 3oja_B          201 YNLLSTL-------AIPIAVEELDASHNSI-NVVRG---PVNVELTILKLQHNNLTD---TAWL--------LNYPGLVE  258 (597)
T ss_dssp             SSCCSEE-------ECCTTCSEEECCSSCC-CEEEC---SCCSCCCEEECCSSCCCC---CGGG--------GGCTTCSE
T ss_pred             cCccccc-------cCCchhheeeccCCcc-ccccc---ccCCCCCEEECCCCCCCC---Chhh--------ccCCCCCE
Confidence            7655432       2345789999988643 22221   123789999999986443   2332        35899999


Q ss_pred             EEEeccCCCCCC--chhhccCCCcEEEEeccccchhhccccccccccCCCCCCCCcCCccceeccCCCccccccccCCCC
Q 048126          729 VKVGFCFKLKDL--TWLVFAPSLKSIVVLSCCNMEQIIKAEKLSQLHHHPERKKSVFAKLQFLSLENLRNLCCINWEALA  806 (863)
Q Consensus       729 L~L~~c~~l~~l--~~l~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~~~p~L~~L~l~~~~~L~~i~~~~~~  806 (863)
                      |+|++|. +..+  ..++.+++|+.|+|+++. +..+             +.....+|+|+.|+|+++ .+..++.....
T Consensus       259 L~Ls~N~-l~~~~~~~~~~l~~L~~L~Ls~N~-l~~l-------------~~~~~~l~~L~~L~Ls~N-~l~~i~~~~~~  322 (597)
T 3oja_B          259 VDLSYNE-LEKIMYHPFVKMQRLERLYISNNR-LVAL-------------NLYGQPIPTLKVLDLSHN-HLLHVERNQPQ  322 (597)
T ss_dssp             EECCSSC-CCEEESGGGTTCSSCCEEECTTSC-CCEE-------------ECSSSCCTTCCEEECCSS-CCCCCGGGHHH
T ss_pred             EECCCCc-cCCCCHHHhcCccCCCEEECCCCC-CCCC-------------CcccccCCCCcEEECCCC-CCCccCccccc
Confidence            9999984 5544  357889999999999954 5544             234567999999999996 56677776677


Q ss_pred             CCCcceEeecCCCCCCCCCCCCCCCCCCceEEEccc
Q 048126          807 FPNLKEIRVEGCPKLFKLPLDSNSAKGCKVVIKGEE  842 (863)
Q Consensus       807 ~p~L~~L~i~~C~~L~~lp~~~~~~~L~~l~i~~~~  842 (863)
                      +++|+.|++++| +++.+|... .++|+.+.+.+++
T Consensus       323 l~~L~~L~L~~N-~l~~~~~~~-~~~L~~L~l~~N~  356 (597)
T 3oja_B          323 FDRLENLYLDHN-SIVTLKLST-HHTLKNLTLSHND  356 (597)
T ss_dssp             HTTCSEEECCSS-CCCCCCCCT-TCCCSEEECCSSC
T ss_pred             CCCCCEEECCCC-CCCCcChhh-cCCCCEEEeeCCC
Confidence            999999999997 688887432 3899999998754

>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*

Probab=99.88  E-value=3e-22  Score=241.05  Aligned_cols=323  Identities=17%  Similarity=0.156  Sum_probs=197.3

Q ss_pred             cccccceEEEEeccccccc-cccCCCCCccceEEccCCccccccchhhhcCCCccEEEccCCCccccCCccccccCCCCe
Q 048126          490 IQNWRNVRRMSLMKNKIEN-LSETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSLEH  568 (863)
Q Consensus       490 ~~~~~~lr~L~l~~~~~~~-l~~~~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~  568 (863)
                      ...+++++.|++++|.+.. ++.+..+++|++|++++|.+....+..+.++++|++|++++|.+.+..|..  .+++|++
T Consensus       196 ~~~l~~L~~L~Ls~n~l~~~~~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~l~~L~~L~Ls~n~l~~~~~~~--~l~~L~~  273 (768)
T 3rgz_A          196 VSRCVNLEFLDVSSNNFSTGIPFLGDCSALQHLDISGNKLSGDFSRAISTCTELKLLNISSNQFVGPIPPL--PLKSLQY  273 (768)
T ss_dssp             CTTCTTCCEEECCSSCCCSCCCBCTTCCSCCEEECCSSCCCSCHHHHTTTCSSCCEEECCSSCCEESCCCC--CCTTCCE
T ss_pred             cccCCcCCEEECcCCcCCCCCcccccCCCCCEEECcCCcCCCcccHHHhcCCCCCEEECCCCcccCccCcc--ccCCCCE
Confidence            3566778888888887755 345677888888888888777665566778888888888888665555543  6777777


Q ss_pred             EEccCCCcc-ccchhhhcC-CCCCEEecCCccccCCCcHHHhhcCCCCcEEEeeccccccCchhhHHHHHcCCccCceEE
Q 048126          569 LDLSGTAIT-HLPIELQKL-VNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRILKSNVLFGGHQFLVEELMGMKHLMALT  646 (863)
Q Consensus       569 L~L~~~~l~-~lp~~~~~l-~~L~~L~l~~~~~l~~lp~~~~~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~~L~  646 (863)
                      |++++|.++ .+|..+..+ ++|++|++++|.....+|.. ++++++|++|++.+|...+.   .....+.++++|+.|+
T Consensus       274 L~L~~n~l~~~ip~~~~~~~~~L~~L~Ls~n~l~~~~p~~-~~~l~~L~~L~L~~n~l~~~---ip~~~l~~l~~L~~L~  349 (768)
T 3rgz_A          274 LSLAENKFTGEIPDFLSGACDTLTGLDLSGNHFYGAVPPF-FGSCSLLESLALSSNNFSGE---LPMDTLLKMRGLKVLD  349 (768)
T ss_dssp             EECCSSEEEESCCCCSCTTCTTCSEEECCSSEEEECCCGG-GGGCTTCCEEECCSSEEEEE---CCHHHHTTCTTCCEEE
T ss_pred             EECcCCccCCccCHHHHhhcCcCCEEECcCCcCCCccchH-HhcCCCccEEECCCCcccCc---CCHHHHhcCCCCCEEe
Confidence            777777766 667666654 77777777777443355554 67777777777777765421   1122366777777777


Q ss_pred             EEEcChH-H----HHHHhh------------------hh--hhhhcceeeeeccccCCCcccccchhhcCCCceEEEcCC
Q 048126          647 ITLKSWE-A----LQELLI------------------SQ--ELQRCTQSLFLRCFNDSKSLDIFCLACLHNLNKLYVAGR  701 (863)
Q Consensus       647 l~~~~~~-~----~~~l~~------------------~~--~~~~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~~  701 (863)
                      ++.+... .    +..+..                  ..  ...++|+.|.+.++.-... ....+..+++|+.|++++|
T Consensus       350 Ls~n~l~~~~p~~l~~l~~~L~~L~Ls~N~l~~~~~~~~~~~~~~~L~~L~L~~n~l~~~-~p~~l~~l~~L~~L~Ls~N  428 (768)
T 3rgz_A          350 LSFNEFSGELPESLTNLSASLLTLDLSSNNFSGPILPNLCQNPKNTLQELYLQNNGFTGK-IPPTLSNCSELVSLHLSFN  428 (768)
T ss_dssp             CCSSEEEECCCTTHHHHTTTCSEEECCSSEEEEECCTTTTCSTTCCCCEEECCSSEEEEE-CCGGGGGCTTCCEEECCSS
T ss_pred             CcCCccCccccHHHHhhhcCCcEEEccCCCcCCCcChhhhhcccCCccEEECCCCccccc-cCHHHhcCCCCCEEECcCC
Confidence            7655432 1    111100                  00  0012344444444321111 1123555666666666665


Q ss_pred             cccccceeccccccccccccccCcccEEEEeccCCCCCCc-hhhccCCCcEEEEeccccchhhccccccccccCCCCCCC
Q 048126          702 KHLEDFQMTVQRSSVNQLARGFHSLHTVKVGFCFKLKDLT-WLVFAPSLKSIVVLSCCNMEQIIKAEKLSQLHHHPERKK  780 (863)
Q Consensus       702 ~~~~~l~~~~~~~~~~~~~~~l~~L~~L~L~~c~~l~~l~-~l~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~  780 (863)
                      ..... .+..+        ..+++|+.|+|++|.....+| .++.+++|+.|++++|.....+             +..+
T Consensus       429 ~l~~~-~p~~l--------~~l~~L~~L~L~~n~l~~~~p~~~~~l~~L~~L~L~~N~l~~~~-------------p~~l  486 (768)
T 3rgz_A          429 YLSGT-IPSSL--------GSLSKLRDLKLWLNMLEGEIPQELMYVKTLETLILDFNDLTGEI-------------PSGL  486 (768)
T ss_dssp             EEESC-CCGGG--------GGCTTCCEEECCSSCCCSCCCGGGGGCTTCCEEECCSSCCCSCC-------------CGGG
T ss_pred             cccCc-ccHHH--------hcCCCCCEEECCCCcccCcCCHHHcCCCCceEEEecCCcccCcC-------------CHHH
Confidence            43322 22222        236677777777764333343 4566777777777775422222             3356


Q ss_pred             CcCCccceeccCCCccccccccCCCCCCCcceEeecCCCCCCCCCCCCCC-CCCCceEEEcc
Q 048126          781 SVFAKLQFLSLENLRNLCCINWEALAFPNLKEIRVEGCPKLFKLPLDSNS-AKGCKVVIKGE  841 (863)
Q Consensus       781 ~~~p~L~~L~l~~~~~L~~i~~~~~~~p~L~~L~i~~C~~L~~lp~~~~~-~~L~~l~i~~~  841 (863)
                      ..+++|+.|+|+++.-...++...+.+++|+.|++++|.-...+|..+.. ++|+.+++.++
T Consensus       487 ~~l~~L~~L~L~~N~l~~~~p~~~~~l~~L~~L~L~~N~l~~~~p~~l~~l~~L~~L~Ls~N  548 (768)
T 3rgz_A          487 SNCTNLNWISLSNNRLTGEIPKWIGRLENLAILKLSNNSFSGNIPAELGDCRSLIWLDLNTN  548 (768)
T ss_dssp             GGCTTCCEEECCSSCCCSCCCGGGGGCTTCCEEECCSSCCEEECCGGGGGCTTCCEEECCSS
T ss_pred             hcCCCCCEEEccCCccCCcCChHHhcCCCCCEEECCCCcccCcCCHHHcCCCCCCEEECCCC
Confidence            67788888888887655566666667888888888887544467765554 77888887755

>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*

Probab=99.88  E-value=1.1e-21  Score=230.70  Aligned_cols=347  Identities=16%  Similarity=0.145  Sum_probs=216.2

Q ss_pred             EEEEcCCCcccCcccccccceEEEEeccccccccc--cCCCCCccceEEccCCccccccchhhhcCCCccEEEccCCCcc
Q 048126          476 FLVHAGLGLTEAPEIQNWRNVRRMSLMKNKIENLS--ETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLL  553 (863)
Q Consensus       476 ~~~~~~~~~~~~~~~~~~~~lr~L~l~~~~~~~l~--~~~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~  553 (863)
                      .+.+.+.+...+|.. -.+.++.|++++|.+..++  .+..+++|++|++++|.+..+++..|.++++|++|+|++|.+.
T Consensus        16 ~~~c~~~~l~~iP~~-l~~~l~~L~Ls~n~i~~~~~~~~~~l~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~Ls~n~l~   94 (606)
T 3t6q_A           16 TYNCENLGLNEIPGT-LPNSTECLEFSFNVLPTIQNTTFSRLINLTFLDLTRCQIYWIHEDTFQSQHRLDTLVLTANPLI   94 (606)
T ss_dssp             EEECTTSCCSSCCTT-SCTTCCEEECTTCCCSEECTTTSTTCTTCSEEECTTCCCCEECTTTTTTCTTCCEEECTTCCCS
T ss_pred             eEECCCCCcccCcCC-CCCcCcEEEccCCccCcCChhHhccCccceEEECCCCccceeChhhccCccccCeeeCCCCccc
Confidence            344445555555532 1247999999999998874  4689999999999999999888888999999999999999777


Q ss_pred             ccCCccccccCCCCeEEccCCCcccc-chhhhcCCCCCEEecCCccccCCCcHHHhhcCCCCcEEEeeccccccCchhhH
Q 048126          554 WKLPSGISTLVSLEHLDLSGTAITHL-PIELQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRILKSNVLFGGHQFL  632 (863)
Q Consensus       554 ~~lp~~i~~l~~L~~L~L~~~~l~~l-p~~~~~l~~L~~L~l~~~~~l~~lp~~~~~~L~~L~~L~l~~~~~~~~~~~~~  632 (863)
                      +..|..++++++|++|++++|.++.+ |..++++++|++|++++| .+..++...+..+++|++|++.+|.+..    ..
T Consensus        95 ~~~~~~~~~l~~L~~L~L~~n~i~~l~~~~~~~l~~L~~L~L~~n-~l~~~~~~~~~~l~~L~~L~L~~n~l~~----~~  169 (606)
T 3t6q_A           95 FMAETALSGPKALKHLFFIQTGISSIDFIPLHNQKTLESLYLGSN-HISSIKLPKGFPTEKLKVLDFQNNAIHY----LS  169 (606)
T ss_dssp             EECTTTTSSCTTCCEEECTTSCCSCGGGSCCTTCTTCCEEECCSS-CCCCCCCCTTCCCTTCCEEECCSSCCCE----EC
T ss_pred             ccChhhhcccccccEeeccccCcccCCcchhccCCcccEEECCCC-cccccCcccccCCcccCEEEcccCcccc----cC
Confidence            77788999999999999999999987 567999999999999998 4565531114559999999999987753    24


Q ss_pred             HHHHcCCccCc--eEEEEEcChHHHHHHhhhh------------------------------------------------
Q 048126          633 VEELMGMKHLM--ALTITLKSWEALQELLISQ------------------------------------------------  662 (863)
Q Consensus       633 ~~~l~~L~~L~--~L~l~~~~~~~~~~l~~~~------------------------------------------------  662 (863)
                      +..++.+++|+  .|+++.+.......-....                                                
T Consensus       170 ~~~~~~l~~L~~l~L~l~~n~l~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~l~~~~l~~l~~~~~~~~~~~~i~~~~~~  249 (606)
T 3t6q_A          170 KEDMSSLQQATNLSLNLNGNDIAGIEPGAFDSAVFQSLNFGGTQNLLVIFKGLKNSTIQSLWLGTFEDMDDEDISPAVFE  249 (606)
T ss_dssp             HHHHHTTTTCCSEEEECTTCCCCEECTTTTTTCEEEEEECTTCSCHHHHHHHTTTCEEEEEECCCCTTSCCCCCCGGGGG
T ss_pred             hhhhhhhcccceeEEecCCCccCccChhHhhhccccccccCCchhHHHHhhhccccchhheechhhccccccccChhHhc
Confidence            55677777887  5555444322111000000                                                


Q ss_pred             hh-hhcceeeeeccccCCCcccccchhhcCCCceEEEcCCcccccceeccccccccccccccCcccEEEEeccCCCCCCc
Q 048126          663 EL-QRCTQSLFLRCFNDSKSLDIFCLACLHNLNKLYVAGRKHLEDFQMTVQRSSVNQLARGFHSLHTVKVGFCFKLKDLT  741 (863)
Q Consensus       663 ~~-~~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~l~~~~~~~~~~~~~~~l~~L~~L~L~~c~~l~~l~  741 (863)
                      .+ ..+++.|.+.++. ........+..+++|++|++++|.. +.++...         ..+++|++|++++| .+..++
T Consensus       250 ~l~~~~L~~L~l~~n~-l~~~~~~~~~~l~~L~~L~l~~n~l-~~lp~~l---------~~l~~L~~L~l~~n-~l~~~~  317 (606)
T 3t6q_A          250 GLCEMSVESINLQKHY-FFNISSNTFHCFSGLQELDLTATHL-SELPSGL---------VGLSTLKKLVLSAN-KFENLC  317 (606)
T ss_dssp             GGGGSEEEEEECTTCC-CSSCCTTTTTTCTTCSEEECTTSCC-SCCCSSC---------CSCTTCCEEECTTC-CCSBGG
T ss_pred             hhhcCceeEEEeecCc-cCccCHHHhccccCCCEEeccCCcc-CCCChhh---------cccccCCEEECccC-CcCcCc
Confidence            00 0145555555532 2333334466677888888887643 3333222         23566666666665 333332


Q ss_pred             --hhhccCCCcEEEEeccccchhhcccccc-----cc-------ccCCC--CCCCCcCCccceeccCCCccccccccCCC
Q 048126          742 --WLVFAPSLKSIVVLSCCNMEQIIKAEKL-----SQ-------LHHHP--ERKKSVFAKLQFLSLENLRNLCCINWEAL  805 (863)
Q Consensus       742 --~l~~l~~L~~L~l~~~~~l~~i~~~~~~-----~~-------~~~~~--~~~~~~~p~L~~L~l~~~~~L~~i~~~~~  805 (863)
                        .++.+++|+.|+++++.....+....+.     ..       .....  +..+..+++|+.|+++++.-....+....
T Consensus       318 ~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~  397 (606)
T 3t6q_A          318 QISASNFPSLTHLSIKGNTKRLELGTGCLENLENLRELDLSHDDIETSDCCNLQLRNLSHLQSLNLSYNEPLSLKTEAFK  397 (606)
T ss_dssp             GGCGGGCTTCSEEECCSCSSCCBCCSSTTTTCTTCCEEECCSSCCCEEEESTTTTTTCTTCCEEECCSCSCEEECTTTTT
T ss_pred             hhhhhccCcCCEEECCCCCcccccchhhhhccCcCCEEECCCCccccccCcchhcccCCCCCEEECCCCcCCcCCHHHhc
Confidence              3455666666666654322111110000     00       00000  12355667777777776533222233445


Q ss_pred             CCCCcceEeecCCCCCCCC-CCC-CCC-CCCCceEEEcc
Q 048126          806 AFPNLKEIRVEGCPKLFKL-PLD-SNS-AKGCKVVIKGE  841 (863)
Q Consensus       806 ~~p~L~~L~i~~C~~L~~l-p~~-~~~-~~L~~l~i~~~  841 (863)
                      .+++|+.|++++| +++.. |.. ... ++|+.+++.++
T Consensus       398 ~l~~L~~L~l~~n-~l~~~~~~~~~~~l~~L~~L~l~~n  435 (606)
T 3t6q_A          398 ECPQLELLDLAFT-RLKVKDAQSPFQNLHLLKVLNLSHS  435 (606)
T ss_dssp             TCTTCSEEECTTC-CEECCTTCCTTTTCTTCCEEECTTC
T ss_pred             CCccCCeEECCCC-cCCCcccchhhhCcccCCEEECCCC
Confidence            5777888888776 44433 322 222 77888887765

>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*

Probab=99.87  E-value=1.2e-21  Score=230.24  Aligned_cols=136  Identities=15%  Similarity=0.128  Sum_probs=107.3

Q ss_pred             ccccccceEEEEeccccccccc--cCCCCCccceEEccCCccccccchhhhcCCCccEEEccCCCccccCCccccccCCC
Q 048126          489 EIQNWRNVRRMSLMKNKIENLS--ETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSL  566 (863)
Q Consensus       489 ~~~~~~~lr~L~l~~~~~~~l~--~~~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L  566 (863)
                      .+..+++++.|++++|.+..+.  .+..+++|++|++++|.+..+++..|+++++|++|++++|.+.+..|..++++++|
T Consensus        52 ~~~~l~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~n~i~~l~~~~~~~l~~L  131 (606)
T 3t6q_A           52 TFSRLINLTFLDLTRCQIYWIHEDTFQSQHRLDTLVLTANPLIFMAETALSGPKALKHLFFIQTGISSIDFIPLHNQKTL  131 (606)
T ss_dssp             TSTTCTTCSEEECTTCCCCEECTTTTTTCTTCCEEECTTCCCSEECTTTTSSCTTCCEEECTTSCCSCGGGSCCTTCTTC
T ss_pred             HhccCccceEEECCCCccceeChhhccCccccCeeeCCCCcccccChhhhcccccccEeeccccCcccCCcchhccCCcc
Confidence            4677888999999999887663  35788999999999998888877778899999999999995554446778899999


Q ss_pred             CeEEccCCCccccc-hhhhcCCCCCEEecCCccccCCCcHHHhhcCCCCc--EEEeeccccc
Q 048126          567 EHLDLSGTAITHLP-IELQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQ--VLRILKSNVL  625 (863)
Q Consensus       567 ~~L~L~~~~l~~lp-~~~~~l~~L~~L~l~~~~~l~~lp~~~~~~L~~L~--~L~l~~~~~~  625 (863)
                      ++|++++|.++.++ +.+..+++|++|++++| .+..++...++.+++|+  .|++.+|.+.
T Consensus       132 ~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n-~l~~~~~~~~~~l~~L~~l~L~l~~n~l~  192 (606)
T 3t6q_A          132 ESLYLGSNHISSIKLPKGFPTEKLKVLDFQNN-AIHYLSKEDMSSLQQATNLSLNLNGNDIA  192 (606)
T ss_dssp             CEEECCSSCCCCCCCCTTCCCTTCCEEECCSS-CCCEECHHHHHTTTTCCSEEEECTTCCCC
T ss_pred             cEEECCCCcccccCcccccCCcccCEEEcccC-cccccChhhhhhhcccceeEEecCCCccC
Confidence            99999999888762 34445889999999988 55666655578888888  7777766543

>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}

Probab=99.87  E-value=1.8e-21  Score=224.19  Aligned_cols=343  Identities=16%  Similarity=0.178  Sum_probs=209.6

Q ss_pred             EEEEcCCCcccCcccccccceEEEEeccccccccc--cCCCCCccceEEccCCccccccchhhhcCCCccEEEccCCCcc
Q 048126          476 FLVHAGLGLTEAPEIQNWRNVRRMSLMKNKIENLS--ETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLL  553 (863)
Q Consensus       476 ~~~~~~~~~~~~~~~~~~~~lr~L~l~~~~~~~l~--~~~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~  553 (863)
                      .+...+...+.+|.... +++++|++++|.+..++  .+..+++|++|++++|.++.+++..|.++++|++|+|++|. +
T Consensus         4 ~l~ls~n~l~~ip~~~~-~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~N~-l   81 (520)
T 2z7x_B            4 LVDRSKNGLIHVPKDLS-QKTTILNISQNYISELWTSDILSLSKLRILIISHNRIQYLDISVFKFNQELEYLDLSHNK-L   81 (520)
T ss_dssp             EEECTTSCCSSCCCSCC-TTCSEEECCSSCCCCCCHHHHTTCTTCCEEECCSSCCCEEEGGGGTTCTTCCEEECCSSC-C
T ss_pred             eEecCCCCccccccccc-ccccEEECCCCcccccChhhccccccccEEecCCCccCCcChHHhhcccCCCEEecCCCc-e
Confidence            34444445555553222 78999999999988774  36889999999999999998877778999999999999994 4


Q ss_pred             ccCCccccccCCCCeEEccCCCccc--cchhhhcCCCCCEEecCCccccCCCcHHHhhcCCCC--cEEEeecccc--ccC
Q 048126          554 WKLPSGISTLVSLEHLDLSGTAITH--LPIELQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKL--QVLRILKSNV--LFG  627 (863)
Q Consensus       554 ~~lp~~i~~l~~L~~L~L~~~~l~~--lp~~~~~l~~L~~L~l~~~~~l~~lp~~~~~~L~~L--~~L~l~~~~~--~~~  627 (863)
                      ..+|..  .+++|++|++++|.++.  +|..++++++|++|++++|. +..   ..+..+++|  ++|++.+|.+  ...
T Consensus        82 ~~lp~~--~l~~L~~L~L~~N~l~~~~~p~~~~~l~~L~~L~L~~n~-l~~---~~~~~l~~L~L~~L~l~~n~l~~~~~  155 (520)
T 2z7x_B           82 VKISCH--PTVNLKHLDLSFNAFDALPICKEFGNMSQLKFLGLSTTH-LEK---SSVLPIAHLNISKVLLVLGETYGEKE  155 (520)
T ss_dssp             CEEECC--CCCCCSEEECCSSCCSSCCCCGGGGGCTTCCEEEEEESS-CCG---GGGGGGTTSCEEEEEEEECTTTTSSC
T ss_pred             eecCcc--ccCCccEEeccCCccccccchhhhccCCcceEEEecCcc-cch---hhccccccceeeEEEeeccccccccc
Confidence            578876  89999999999999885  57889999999999999873 332   225566666  7777766654  100


Q ss_pred             c----------------------------------------------------hhhHHHHHcCC----------------
Q 048126          628 G----------------------------------------------------HQFLVEELMGM----------------  639 (863)
Q Consensus       628 ~----------------------------------------------------~~~~~~~l~~L----------------  639 (863)
                      .                                                    ....+..+..+                
T Consensus       156 ~~~~l~~l~~~~l~l~l~~n~~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~l~~~  235 (520)
T 2z7x_B          156 DPEGLQDFNTESLHIVFPTNKEFHFILDVSVKTVANLELSNIKCVLEDNKCSYFLSILAKLQTNPKLSNLTLNNIETTWN  235 (520)
T ss_dssp             CTTTTTTCCEEEEEEECCSSSCCCCCCCCCCTTCSEEEECCEEECCSTTTTHHHHHHHHGGGGCTTCCEEEEEEEEEEHH
T ss_pred             ccccccccccceEEEEeccCcchhhhhhhhhhcccceeeccccccccccccceeecchhhhccccchhhccccccccCHH
Confidence            0                                                    00001112222                


Q ss_pred             -----------ccCceEEEEEcChH-HHHHHh----------------------------hhhhhhhcceeeeeccccCC
Q 048126          640 -----------KHLMALTITLKSWE-ALQELL----------------------------ISQELQRCTQSLFLRCFNDS  679 (863)
Q Consensus       640 -----------~~L~~L~l~~~~~~-~~~~l~----------------------------~~~~~~~~L~~L~l~~~~~~  679 (863)
                                 ++|+.|+++.+... .++...                            .......+|+.|.++++.-.
T Consensus       236 ~~~~~~~~~~~~~L~~L~l~~n~l~~~~p~~~~~~~~~~l~~L~~l~l~~n~~~~p~~~~~~~~~~~~L~~L~l~~n~l~  315 (520)
T 2z7x_B          236 SFIRILQLVWHTTVWYFSISNVKLQGQLDFRDFDYSGTSLKALSIHQVVSDVFGFPQSYIYEIFSNMNIKNFTVSGTRMV  315 (520)
T ss_dssp             HHHHHHHHHHTSSCSEEEEEEEEEESCCCCCCCCCCSCCCCEEEEEEEEECCCCSCTHHHHHHHHTCCCSEEEEESSCCC
T ss_pred             HHHHHHHHhhhCcccEEEeecccccCccccchhhcccccCceeEeccccccceecchhhhhcccccCceeEEEcCCCccc
Confidence                       24555555544322 111000                            00000023555555554321


Q ss_pred             CcccccchhhcCCCceEEEcCCcccccceeccccccccccccccCcccEEEEeccCCCCCCc----hhhccCCCcEEEEe
Q 048126          680 KSLDIFCLACLHNLNKLYVAGRKHLEDFQMTVQRSSVNQLARGFHSLHTVKVGFCFKLKDLT----WLVFAPSLKSIVVL  755 (863)
Q Consensus       680 ~~~~~~~l~~~~~L~~L~l~~~~~~~~l~~~~~~~~~~~~~~~l~~L~~L~L~~c~~l~~l~----~l~~l~~L~~L~l~  755 (863)
                      . ..  ....+++|++|++++|.....+ +.++        ..+++|++|+|++| .++.++    .++.+++|+.|+++
T Consensus       316 ~-~~--~~~~l~~L~~L~Ls~n~l~~~~-~~~~--------~~l~~L~~L~L~~N-~l~~l~~~~~~~~~l~~L~~L~Ls  382 (520)
T 2z7x_B          316 H-ML--CPSKISPFLHLDFSNNLLTDTV-FENC--------GHLTELETLILQMN-QLKELSKIAEMTTQMKSLQQLDIS  382 (520)
T ss_dssp             C-CC--CCSSCCCCCEEECCSSCCCTTT-TTTC--------CCCSSCCEEECCSS-CCCBHHHHHHHHTTCTTCCEEECC
T ss_pred             c-cc--chhhCCcccEEEeECCccChhh-hhhh--------ccCCCCCEEEccCC-ccCccccchHHHhhCCCCCEEECC
Confidence            1 11  1245677888888776543322 2222        23667777777776 444432    25566777777777


Q ss_pred             ccccchh-hccccccc--c---ccCCC----CCCCCcC-CccceeccCCCccccccccCCCCCCCcceEeecCCCCCCCC
Q 048126          756 SCCNMEQ-IIKAEKLS--Q---LHHHP----ERKKSVF-AKLQFLSLENLRNLCCINWEALAFPNLKEIRVEGCPKLFKL  824 (863)
Q Consensus       756 ~~~~l~~-i~~~~~~~--~---~~~~~----~~~~~~~-p~L~~L~l~~~~~L~~i~~~~~~~p~L~~L~i~~C~~L~~l  824 (863)
                      ++. +.. +....+..  .   +....    ......+ ++|+.|+++++ +++.++.....+++|+.|++++| +++.+
T Consensus       383 ~N~-l~~~l~~~~~~~l~~L~~L~Ls~N~l~~~~~~~l~~~L~~L~Ls~N-~l~~ip~~~~~l~~L~~L~L~~N-~l~~l  459 (520)
T 2z7x_B          383 QNS-VSYDEKKGDCSWTKSLLSLNMSSNILTDTIFRCLPPRIKVLDLHSN-KIKSIPKQVVKLEALQELNVASN-QLKSV  459 (520)
T ss_dssp             SSC-CBCCGGGCSCCCCTTCCEEECCSSCCCGGGGGSCCTTCCEEECCSS-CCCCCCGGGGGCTTCCEEECCSS-CCCCC
T ss_pred             CCc-CCcccccchhccCccCCEEECcCCCCCcchhhhhcccCCEEECCCC-cccccchhhhcCCCCCEEECCCC-cCCcc
Confidence            644 332 32110000  0   00000    0011122 68899999886 67778776678999999999997 88899


Q ss_pred             CCC-CCC-CCCCceEEEccc
Q 048126          825 PLD-SNS-AKGCKVVIKGEE  842 (863)
Q Consensus       825 p~~-~~~-~~L~~l~i~~~~  842 (863)
                      |.. ... ++|+.+++.+++
T Consensus       460 ~~~~~~~l~~L~~L~l~~N~  479 (520)
T 2z7x_B          460 PDGIFDRLTSLQKIWLHTNP  479 (520)
T ss_dssp             CTTTTTTCTTCCEEECCSSC
T ss_pred             CHHHhccCCcccEEECcCCC
Confidence            976 333 889999988654

>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}

Probab=99.87  E-value=1.9e-21  Score=221.36  Aligned_cols=276  Identities=18%  Similarity=0.170  Sum_probs=214.5

Q ss_pred             ccccccceEEEEeccccccccc--cCCCCCccceEEccCCccccccchhhhcCCCccEEEccCCCccccCCccccccCCC
Q 048126          489 EIQNWRNVRRMSLMKNKIENLS--ETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSL  566 (863)
Q Consensus       489 ~~~~~~~lr~L~l~~~~~~~l~--~~~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L  566 (863)
                      .+..+++++.|++++|.+..+.  .+..+++|++|++++|.++.++...|.++++|++|+|++|.+....|..+.++++|
T Consensus        51 ~~~~l~~L~~L~L~~n~i~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~Ls~n~i~~~~~~~~~~l~~L  130 (477)
T 2id5_A           51 EFASFPHLEELELNENIVSAVEPGAFNNLFNLRTLGLRSNRLKLIPLGVFTGLSNLTKLDISENKIVILLDYMFQDLYNL  130 (477)
T ss_dssp             TTTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECCSSCCCSCCTTSSTTCTTCCEEECTTSCCCEECTTTTTTCTTC
T ss_pred             HccCCCCCCEEECCCCccCEeChhhhhCCccCCEEECCCCcCCccCcccccCCCCCCEEECCCCccccCChhHccccccC
Confidence            4677889999999999988763  46889999999999999999999889999999999999997777778899999999


Q ss_pred             CeEEccCCCcccc-chhhhcCCCCCEEecCCccccCCCcHHHhhcCCCCcEEEeeccccccCchhhHHHHHcCCccCceE
Q 048126          567 EHLDLSGTAITHL-PIELQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRILKSNVLFGGHQFLVEELMGMKHLMAL  645 (863)
Q Consensus       567 ~~L~L~~~~l~~l-p~~~~~l~~L~~L~l~~~~~l~~lp~~~~~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~~L  645 (863)
                      ++|++++|.+..+ |..+..+++|++|++++| .+..+|...+..+++|+.|++.+|.+...    ....+..+++|+.|
T Consensus       131 ~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n-~l~~~~~~~l~~l~~L~~L~l~~n~i~~~----~~~~~~~l~~L~~L  205 (477)
T 2id5_A          131 KSLEVGDNDLVYISHRAFSGLNSLEQLTLEKC-NLTSIPTEALSHLHGLIVLRLRHLNINAI----RDYSFKRLYRLKVL  205 (477)
T ss_dssp             CEEEECCTTCCEECTTSSTTCTTCCEEEEESC-CCSSCCHHHHTTCTTCCEEEEESCCCCEE----CTTCSCSCTTCCEE
T ss_pred             CEEECCCCccceeChhhccCCCCCCEEECCCC-cCcccChhHhcccCCCcEEeCCCCcCcEe----ChhhcccCccccee
Confidence            9999999999876 457999999999999999 67888887789999999999999877532    23457788999999


Q ss_pred             EEEEcChHHHHHHhhhhhhhhcceeeeeccccCCCcccccchhhcCCCceEEEcCCcccccceeccccccccccccccCc
Q 048126          646 TITLKSWEALQELLISQELQRCTQSLFLRCFNDSKSLDIFCLACLHNLNKLYVAGRKHLEDFQMTVQRSSVNQLARGFHS  725 (863)
Q Consensus       646 ~l~~~~~~~~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~l~~~~~~~~~~~~~~~l~~  725 (863)
                      +++.+...  ..+........+|+.|+++++. .+..+...+..+++|+.|++++|. ++.+.+..+        ..+++
T Consensus       206 ~l~~~~~~--~~~~~~~~~~~~L~~L~l~~n~-l~~~~~~~~~~l~~L~~L~Ls~n~-l~~~~~~~~--------~~l~~  273 (477)
T 2id5_A          206 EISHWPYL--DTMTPNCLYGLNLTSLSITHCN-LTAVPYLAVRHLVYLRFLNLSYNP-ISTIEGSML--------HELLR  273 (477)
T ss_dssp             EEECCTTC--CEECTTTTTTCCCSEEEEESSC-CCSCCHHHHTTCTTCCEEECCSSC-CCEECTTSC--------TTCTT
T ss_pred             eCCCCccc--cccCcccccCccccEEECcCCc-ccccCHHHhcCccccCeeECCCCc-CCccChhhc--------ccccc
Confidence            99875421  1111111112378889998864 344444457778999999999875 333433333        34789


Q ss_pred             ccEEEEeccCCCCCCc--hhhccCCCcEEEEeccccchhhccccccccccCCCCCCCCcCCccceeccCCCc
Q 048126          726 LHTVKVGFCFKLKDLT--WLVFAPSLKSIVVLSCCNMEQIIKAEKLSQLHHHPERKKSVFAKLQFLSLENLR  795 (863)
Q Consensus       726 L~~L~L~~c~~l~~l~--~l~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~~~p~L~~L~l~~~~  795 (863)
                      |++|+|++| .+..++  .+..+++|+.|+|+++ .++.+.            ...+..+++|+.|+|++++
T Consensus       274 L~~L~L~~n-~l~~~~~~~~~~l~~L~~L~L~~N-~l~~~~------------~~~~~~l~~L~~L~l~~N~  331 (477)
T 2id5_A          274 LQEIQLVGG-QLAVVEPYAFRGLNYLRVLNVSGN-QLTTLE------------ESVFHSVGNLETLILDSNP  331 (477)
T ss_dssp             CCEEECCSS-CCSEECTTTBTTCTTCCEEECCSS-CCSCCC------------GGGBSCGGGCCEEECCSSC
T ss_pred             CCEEECCCC-ccceECHHHhcCcccCCEEECCCC-cCceeC------------HhHcCCCcccCEEEccCCC
Confidence            999999987 455543  4667899999999985 455442            2345678899999998754

>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}

Probab=99.87  E-value=1.1e-20  Score=219.61  Aligned_cols=346  Identities=18%  Similarity=0.174  Sum_probs=216.0

Q ss_pred             cEEEEcCCCcccCcccccccceEEEEeccccccccc--cCCCCCccceEEccCCccccccchhhhcCCCccEEEccCCCc
Q 048126          475 NFLVHAGLGLTEAPEIQNWRNVRRMSLMKNKIENLS--ETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHL  552 (863)
Q Consensus       475 ~~~~~~~~~~~~~~~~~~~~~lr~L~l~~~~~~~l~--~~~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~  552 (863)
                      ..+...+...+.+|... .++++.|++++|.+..++  .+..+++|++|++++|.++.+++..|.++++|++|+|++|. 
T Consensus        34 ~~l~ls~~~L~~ip~~~-~~~L~~L~Ls~N~i~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls~N~-  111 (562)
T 3a79_B           34 SMVDYSNRNLTHVPKDL-PPRTKALSLSQNSISELRMPDISFLSELRVLRLSHNRIRSLDFHVFLFNQDLEYLDVSHNR-  111 (562)
T ss_dssp             CEEECTTSCCCSCCTTS-CTTCCEEECCSSCCCCCCGGGTTTCTTCCEEECCSCCCCEECTTTTTTCTTCCEEECTTSC-
T ss_pred             cEEEcCCCCCccCCCCC-CCCcCEEECCCCCccccChhhhccCCCccEEECCCCCCCcCCHHHhCCCCCCCEEECCCCc-
Confidence            34555555566655422 268999999999988875  46889999999999999998888888999999999999994 


Q ss_pred             cccCCccccccCCCCeEEccCCCccccc--hhhhcCCCCCEEecCCccccCCCcHHHhhcCCCC--cEEEeecccc--cc
Q 048126          553 LWKLPSGISTLVSLEHLDLSGTAITHLP--IELQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKL--QVLRILKSNV--LF  626 (863)
Q Consensus       553 ~~~lp~~i~~l~~L~~L~L~~~~l~~lp--~~~~~l~~L~~L~l~~~~~l~~lp~~~~~~L~~L--~~L~l~~~~~--~~  626 (863)
                      +..+|..  .+++|++|++++|.++.+|  ..++++++|++|++++| .+...+   +..+++|  ++|++.+|.+  ..
T Consensus       112 l~~lp~~--~l~~L~~L~Ls~N~l~~l~~p~~~~~l~~L~~L~L~~n-~l~~~~---~~~l~~L~L~~L~L~~n~l~~~~  185 (562)
T 3a79_B          112 LQNISCC--PMASLRHLDLSFNDFDVLPVCKEFGNLTKLTFLGLSAA-KFRQLD---LLPVAHLHLSCILLDLVSYHIKG  185 (562)
T ss_dssp             CCEECSC--CCTTCSEEECCSSCCSBCCCCGGGGGCTTCCEEEEECS-BCCTTT---TGGGTTSCEEEEEEEESSCCCCS
T ss_pred             CCccCcc--ccccCCEEECCCCCccccCchHhhcccCcccEEecCCC-ccccCc---hhhhhhceeeEEEeecccccccc
Confidence            5578876  8999999999999998764  78999999999999987 444322   5556666  9999888765  11


Q ss_pred             Cc--------------------------------------------------hhhHHHHHcCCccCceEEEEEcChH--H
Q 048126          627 GG--------------------------------------------------HQFLVEELMGMKHLMALTITLKSWE--A  654 (863)
Q Consensus       627 ~~--------------------------------------------------~~~~~~~l~~L~~L~~L~l~~~~~~--~  654 (863)
                      ..                                                  ....+..+..+++|+.|++..+...  .
T Consensus       186 ~~~~~l~~l~~~~l~l~l~~n~~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~l~~~~~~l~~l~~L~~L~L~~~~l~~~~  265 (562)
T 3a79_B          186 GETESLQIPNTTVLHLVFHPNSLFSVQVNMSVNALGHLQLSNIKLNDENCQRLMTFLSELTRGPTLLNVTLQHIETTWKC  265 (562)
T ss_dssp             SSCCEEEECCEEEEEEEECSSSCCCCCCEEEESSEEEEEEEEEECCSTTHHHHHHHHHHHHSCSSCEEEEEEEEEECHHH
T ss_pred             cCcccccccCcceEEEEecCccchhhhhhhcccccceEEEecccccccccchHHHHHHHHhccCcceEEEecCCcCcHHH
Confidence            10                                                  0011223334444444444332221  1


Q ss_pred             HHHHhhhhhhhhcceeeeeccccCCCccccc-------------------------------------------------
Q 048126          655 LQELLISQELQRCTQSLFLRCFNDSKSLDIF-------------------------------------------------  685 (863)
Q Consensus       655 ~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~~-------------------------------------------------  685 (863)
                      +..+.... ...+|+.|+++++.-...++..                                                 
T Consensus       266 ~~~~~~~~-~~~~L~~L~l~~n~l~~~ip~~~~~~~~~~L~~L~~~~~~~~~~~~p~~~~~~~~~~~~L~~L~l~~n~~~  344 (562)
T 3a79_B          266 SVKLFQFF-WPRPVEYLNIYNLTITERIDREEFTYSETALKSLMIEHVKNQVFLFSKEALYSVFAEMNIKMLSISDTPFI  344 (562)
T ss_dssp             HHHHHHHH-TTSSEEEEEEEEEEECSCCCCCCCCCCSCSCCEEEEEEEEECCCSSCHHHHHHHHHTCCCSEEEEESSCCC
T ss_pred             HHHHHHhh-hcccccEEEEeccEeeccccchhhhcccccchheehhhcccceeecChhhhhhhhccCcceEEEccCCCcc
Confidence            11111111 1126677777665321111100                                                 


Q ss_pred             ---chhhcCCCceEEEcCCcccccceeccccccccccccccCcccEEEEeccCCCCCCch----hhccCCCcEEEEeccc
Q 048126          686 ---CLACLHNLNKLYVAGRKHLEDFQMTVQRSSVNQLARGFHSLHTVKVGFCFKLKDLTW----LVFAPSLKSIVVLSCC  758 (863)
Q Consensus       686 ---~l~~~~~L~~L~l~~~~~~~~l~~~~~~~~~~~~~~~l~~L~~L~L~~c~~l~~l~~----l~~l~~L~~L~l~~~~  758 (863)
                         ....+++|++|++++|.... ..+..+        ..+++|+.|+|++| .++.++.    ++.+++|+.|+++++.
T Consensus       345 ~~~~~~~l~~L~~L~l~~n~l~~-~~~~~~--------~~l~~L~~L~L~~N-~l~~~~~~~~~~~~l~~L~~L~l~~N~  414 (562)
T 3a79_B          345 HMVCPPSPSSFTFLNFTQNVFTD-SVFQGC--------STLKRLQTLILQRN-GLKNFFKVALMTKNMSSLETLDVSLNS  414 (562)
T ss_dssp             CCCCCSSCCCCCEEECCSSCCCT-TTTTTC--------CSCSSCCEEECCSS-CCCBTTHHHHTTTTCTTCCEEECTTSC
T ss_pred             cccCccCCCCceEEECCCCcccc-chhhhh--------cccCCCCEEECCCC-CcCCcccchhhhcCCCCCCEEECCCCc
Confidence               00344566666666654332 112222        34677778877776 5555442    4567777777777754


Q ss_pred             cchh-hccccccc-----cccC----CCCCCCCcC-CccceeccCCCccccccccCCCCCCCcceEeecCCCCCCCCCCC
Q 048126          759 NMEQ-IIKAEKLS-----QLHH----HPERKKSVF-AKLQFLSLENLRNLCCINWEALAFPNLKEIRVEGCPKLFKLPLD  827 (863)
Q Consensus       759 ~l~~-i~~~~~~~-----~~~~----~~~~~~~~~-p~L~~L~l~~~~~L~~i~~~~~~~p~L~~L~i~~C~~L~~lp~~  827 (863)
                       ++. +....+.+     .+..    ........+ ++|+.|+++++ +++.++.....+++|+.|+++++ +++.+|..
T Consensus       415 -l~~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~l~~~L~~L~L~~N-~l~~ip~~~~~l~~L~~L~L~~N-~l~~l~~~  491 (562)
T 3a79_B          415 -LNSHAYDRTCAWAESILVLNLSSNMLTGSVFRCLPPKVKVLDLHNN-RIMSIPKDVTHLQALQELNVASN-QLKSVPDG  491 (562)
T ss_dssp             -CBSCCSSCCCCCCTTCCEEECCSSCCCGGGGSSCCTTCSEEECCSS-CCCCCCTTTTSSCCCSEEECCSS-CCCCCCTT
T ss_pred             -CCCccChhhhcCcccCCEEECCCCCCCcchhhhhcCcCCEEECCCC-cCcccChhhcCCCCCCEEECCCC-CCCCCCHH
Confidence             333 21110000     0000    000111233 68899999886 77788877778999999999885 78899986


Q ss_pred             -CCC-CCCCceEEEccc
Q 048126          828 -SNS-AKGCKVVIKGEE  842 (863)
Q Consensus       828 -~~~-~~L~~l~i~~~~  842 (863)
                       ... ++|+.+++.+++
T Consensus       492 ~~~~l~~L~~L~l~~N~  508 (562)
T 3a79_B          492 VFDRLTSLQYIWLHDNP  508 (562)
T ss_dssp             STTTCTTCCCEECCSCC
T ss_pred             HHhcCCCCCEEEecCCC
Confidence             333 889999988654

>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}

Probab=99.87  E-value=6.9e-21  Score=219.29  Aligned_cols=144  Identities=19%  Similarity=0.225  Sum_probs=121.0

Q ss_pred             EEEEeccccccccccCCCCCccceEEccCCccccccchhhhcCCCccEEEccCCCccccCCccccccCCCCeEEccCCCc
Q 048126          497 RRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAI  576 (863)
Q Consensus       497 r~L~l~~~~~~~l~~~~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~~~l  576 (863)
                      +.+++++|.+..+|.... ++|++|++++|.+..+++..|.++++|++|+|++|.+.+..|..++++++|++|++++|.+
T Consensus         3 ~~l~ls~n~l~~ip~~~~-~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~N~l   81 (520)
T 2z7x_B            3 FLVDRSKNGLIHVPKDLS-QKTTILNISQNYISELWTSDILSLSKLRILIISHNRIQYLDISVFKFNQELEYLDLSHNKL   81 (520)
T ss_dssp             CEEECTTSCCSSCCCSCC-TTCSEEECCSSCCCCCCHHHHTTCTTCCEEECCSSCCCEEEGGGGTTCTTCCEEECCSSCC
T ss_pred             ceEecCCCCccccccccc-ccccEEECCCCcccccChhhccccccccEEecCCCccCCcChHHhhcccCCCEEecCCCce
Confidence            578999999998876433 8999999999999999988899999999999999976666688999999999999999999


Q ss_pred             cccchhhhcCCCCCEEecCCccccCC--CcHHHhhcCCCCcEEEeeccccccCchhhHHHHHcCCccC--ceEEEEEcCh
Q 048126          577 THLPIELQKLVNLKCLNLEYMYNLNQ--FPRLVMSAFSKLQVLRILKSNVLFGGHQFLVEELMGMKHL--MALTITLKSW  652 (863)
Q Consensus       577 ~~lp~~~~~l~~L~~L~l~~~~~l~~--lp~~~~~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L--~~L~l~~~~~  652 (863)
                      +.+|..  .+++|++|++++| .+..  +|.. ++++++|++|++.+|.+...       .+..+++|  +.|+++.+..
T Consensus        82 ~~lp~~--~l~~L~~L~L~~N-~l~~~~~p~~-~~~l~~L~~L~L~~n~l~~~-------~~~~l~~L~L~~L~l~~n~l  150 (520)
T 2z7x_B           82 VKISCH--PTVNLKHLDLSFN-AFDALPICKE-FGNMSQLKFLGLSTTHLEKS-------SVLPIAHLNISKVLLVLGET  150 (520)
T ss_dssp             CEEECC--CCCCCSEEECCSS-CCSSCCCCGG-GGGCTTCCEEEEEESSCCGG-------GGGGGTTSCEEEEEEEECTT
T ss_pred             eecCcc--ccCCccEEeccCC-ccccccchhh-hccCCcceEEEecCcccchh-------hccccccceeeEEEeecccc
Confidence            999987  8999999999999 4454  5665 89999999999999887531       24445555  7777776554

>3bz5_A Internalin-J, INLJ; leucine rich repeat (LRR), cysteine ladder, asparagine ladder, virulence factor, solenoid, cell WALL; 2.70A {Listeria monocytogenes}

Probab=99.87  E-value=2e-21  Score=218.41  Aligned_cols=307  Identities=16%  Similarity=0.162  Sum_probs=215.9

Q ss_pred             cCcccccccceEEEEeccccccccccCCCCCccceEEccCCccccccchhhhcCCCccEEEccCCCccccCCccccccCC
Q 048126          486 EAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVS  565 (863)
Q Consensus       486 ~~~~~~~~~~lr~L~l~~~~~~~l~~~~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~  565 (863)
                      ....+..+++++.|++++|.+.+++.+..+++|++|++++|.++.++   ++.+++|++|++++|. +..+|  ++++++
T Consensus        34 ~~~~~~~l~~L~~L~Ls~n~l~~~~~l~~l~~L~~L~Ls~n~l~~~~---~~~l~~L~~L~Ls~N~-l~~~~--~~~l~~  107 (457)
T 3bz5_A           34 DTISEEQLATLTSLDCHNSSITDMTGIEKLTGLTKLICTSNNITTLD---LSQNTNLTYLACDSNK-LTNLD--VTPLTK  107 (457)
T ss_dssp             SEEEHHHHTTCCEEECCSSCCCCCTTGGGCTTCSEEECCSSCCSCCC---CTTCTTCSEEECCSSC-CSCCC--CTTCTT
T ss_pred             cccChhHcCCCCEEEccCCCcccChhhcccCCCCEEEccCCcCCeEc---cccCCCCCEEECcCCC-Cceee--cCCCCc
Confidence            33456678899999999999988888889999999999999988875   7889999999999995 44555  889999


Q ss_pred             CCeEEccCCCccccchhhhcCCCCCEEecCCccccCCCcHHHhhcCCCCcEEEeeccccccCchhhHHHHHcCCccCceE
Q 048126          566 LEHLDLSGTAITHLPIELQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRILKSNVLFGGHQFLVEELMGMKHLMAL  645 (863)
Q Consensus       566 L~~L~L~~~~l~~lp~~~~~l~~L~~L~l~~~~~l~~lp~~~~~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~~L  645 (863)
                      |++|++++|.++.+|  ++.+++|++|++++| .++.+|   ++.+++|++|++.+|.....    .  .+..+++|+.|
T Consensus       108 L~~L~L~~N~l~~l~--~~~l~~L~~L~l~~N-~l~~l~---l~~l~~L~~L~l~~n~~~~~----~--~~~~l~~L~~L  175 (457)
T 3bz5_A          108 LTYLNCDTNKLTKLD--VSQNPLLTYLNCARN-TLTEID---VSHNTQLTELDCHLNKKITK----L--DVTPQTQLTTL  175 (457)
T ss_dssp             CCEEECCSSCCSCCC--CTTCTTCCEEECTTS-CCSCCC---CTTCTTCCEEECTTCSCCCC----C--CCTTCTTCCEE
T ss_pred             CCEEECCCCcCCeec--CCCCCcCCEEECCCC-ccceec---cccCCcCCEEECCCCCcccc----c--ccccCCcCCEE
Confidence            999999999999886  889999999999998 567675   67899999999988865432    1  36778899999


Q ss_pred             EEEEcChHHHHHHhhhhhhhhcceeeeeccccCCCcccccchhhcCCCceEEEcCCcccccceeccccccccccccccCc
Q 048126          646 TITLKSWEALQELLISQELQRCTQSLFLRCFNDSKSLDIFCLACLHNLNKLYVAGRKHLEDFQMTVQRSSVNQLARGFHS  725 (863)
Q Consensus       646 ~l~~~~~~~~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~l~~~~~~~~~~~~~~~l~~  725 (863)
                      +++.+....++     ....++|+.|.++++.- +..   .+..+++|+.|++++|.... ++  .         ..+++
T Consensus       176 ~ls~n~l~~l~-----l~~l~~L~~L~l~~N~l-~~~---~l~~l~~L~~L~Ls~N~l~~-ip--~---------~~l~~  234 (457)
T 3bz5_A          176 DCSFNKITELD-----VSQNKLLNRLNCDTNNI-TKL---DLNQNIQLTFLDCSSNKLTE-ID--V---------TPLTQ  234 (457)
T ss_dssp             ECCSSCCCCCC-----CTTCTTCCEEECCSSCC-SCC---CCTTCTTCSEEECCSSCCSC-CC--C---------TTCTT
T ss_pred             ECCCCccceec-----cccCCCCCEEECcCCcC-Cee---ccccCCCCCEEECcCCcccc-cC--c---------cccCC
Confidence            99888766543     22345888888887543 333   26678899999998875433 32  2         34788


Q ss_pred             ccEEEEeccCCCCCCchhhccCCCcEEEEeccccchhhccccccccccCCCCCCCCcCCccceeccCCCccccccccC--
Q 048126          726 LHTVKVGFCFKLKDLTWLVFAPSLKSIVVLSCCNMEQIIKAEKLSQLHHHPERKKSVFAKLQFLSLENLRNLCCINWE--  803 (863)
Q Consensus       726 L~~L~L~~c~~l~~l~~l~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~~~p~L~~L~l~~~~~L~~i~~~--  803 (863)
                      |+.|++++| .++.+| .+.+++|+.|++++ +.++.+..... ...   .......+++|+.|++++|+.+..++..  
T Consensus       235 L~~L~l~~N-~l~~~~-~~~l~~L~~L~l~~-n~L~~L~l~~n-~~~---~~~~~~~l~~L~~L~Ls~n~~l~~l~~~~~  307 (457)
T 3bz5_A          235 LTYFDCSVN-PLTELD-VSTLSKLTTLHCIQ-TDLLEIDLTHN-TQL---IYFQAEGCRKIKELDVTHNTQLYLLDCQAA  307 (457)
T ss_dssp             CSEEECCSS-CCSCCC-CTTCTTCCEEECTT-CCCSCCCCTTC-TTC---CEEECTTCTTCCCCCCTTCTTCCEEECTTC
T ss_pred             CCEEEeeCC-cCCCcC-HHHCCCCCEEeccC-CCCCEEECCCC-ccC---CcccccccccCCEEECCCCcccceeccCCC
Confidence            999999987 566665 56677777777665 33444311100 000   0112356788888888888766665531  


Q ss_pred             ------CCCCCCcceEeecCCCCCCCCCCCCCCCCCCceEEEc
Q 048126          804 ------ALAFPNLKEIRVEGCPKLFKLPLDSNSAKGCKVVIKG  840 (863)
Q Consensus       804 ------~~~~p~L~~L~i~~C~~L~~lp~~~~~~~L~~l~i~~  840 (863)
                            ...+|+|+.|+++++ +++.+|+. ..++|+.+++.+
T Consensus       308 ~L~~L~l~~~~~L~~L~L~~N-~l~~l~l~-~l~~L~~L~l~~  348 (457)
T 3bz5_A          308 GITELDLSQNPKLVYLYLNNT-ELTELDVS-HNTKLKSLSCVN  348 (457)
T ss_dssp             CCSCCCCTTCTTCCEEECTTC-CCSCCCCT-TCTTCSEEECCS
T ss_pred             cceEechhhcccCCEEECCCC-cccccccc-cCCcCcEEECCC
Confidence                  223455555555543 45555421 126666666654

>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*

Probab=99.87  E-value=1.5e-21  Score=229.35  Aligned_cols=157  Identities=20%  Similarity=0.253  Sum_probs=113.0

Q ss_pred             ccccccceEEEEeccccccccc--cCCCCCccceEEccCCccccccchhhhcCCCccEEEccCCCccccCCccccccCCC
Q 048126          489 EIQNWRNVRRMSLMKNKIENLS--ETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSL  566 (863)
Q Consensus       489 ~~~~~~~lr~L~l~~~~~~~l~--~~~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L  566 (863)
                      .+..++++++|++++|.+..++  .+..+++|++|++++|.++.+++..|+++++|++|++++|.+.+..|..++++++|
T Consensus        51 ~~~~l~~L~~L~Ls~n~l~~i~~~~~~~l~~L~~L~Ls~n~l~~~~p~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L  130 (606)
T 3vq2_A           51 SFSNFSELQWLDLSRCEIETIEDKAWHGLHHLSNLILTGNPIQSFSPGSFSGLTSLENLVAVETKLASLESFPIGQLITL  130 (606)
T ss_dssp             TTTTCTTCCEEECTTCCCCEECTTTTTTCTTCCEEECTTCCCCCCCTTSSTTCTTCCEEECTTSCCCCSSSSCCTTCTTC
T ss_pred             hccCCccCcEEeCCCCcccccCHHHhhchhhcCEeECCCCcccccChhhcCCcccCCEEEccCCccccccccccCCCCCC
Confidence            4667788999999988887763  35788899999999998888877778889999999999985554444778889999


Q ss_pred             CeEEccCCCcc--ccchhhhcCCCCCEEecCCccccCCCcHHHhhcCC---------------------------CCcEE
Q 048126          567 EHLDLSGTAIT--HLPIELQKLVNLKCLNLEYMYNLNQFPRLVMSAFS---------------------------KLQVL  617 (863)
Q Consensus       567 ~~L~L~~~~l~--~lp~~~~~l~~L~~L~l~~~~~l~~lp~~~~~~L~---------------------------~L~~L  617 (863)
                      ++|++++|.++  .+|..++++++|++|++++| .+..++...++.++                           +|+.|
T Consensus       131 ~~L~L~~n~l~~~~lp~~~~~l~~L~~L~Ls~n-~l~~~~~~~~~~l~~L~~~l~~L~l~~n~l~~~~~~~~~~~~L~~L  209 (606)
T 3vq2_A          131 KKLNVAHNFIHSCKLPAYFSNLTNLVHVDLSYN-YIQTITVNDLQFLRENPQVNLSLDMSLNPIDFIQDQAFQGIKLHEL  209 (606)
T ss_dssp             CEEECCSSCCCCCCCCGGGGTCTTCCEEECCSS-CCCEECTTTTHHHHHCTTCCCEEECTTCCCCEECTTTTTTCEEEEE
T ss_pred             CEEeCCCCcccceechHhHhhcCCCCEEEccCC-cceecChhhhhhhhccccccceeeccCCCcceeCcccccCceeeee
Confidence            99999998887  47888889999999998887 44544433233333                           44555


Q ss_pred             EeeccccccCchhhHHHHHcCCccCceEEEEE
Q 048126          618 RILKSNVLFGGHQFLVEELMGMKHLMALTITL  649 (863)
Q Consensus       618 ~l~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~  649 (863)
                      ++.+|....   ...+..+.++++|+.+.+..
T Consensus       210 ~L~~n~~~~---~~~~~~~~~l~~L~~l~l~~  238 (606)
T 3vq2_A          210 TLRGNFNSS---NIMKTCLQNLAGLHVHRLIL  238 (606)
T ss_dssp             EEESCCSCH---HHHHHHHHTTTTCEEEEEEE
T ss_pred             eccCCccch---hHHHHHhccccccccccccc
Confidence            555544321   23455566677666666543

>3o6n_A APL1; leucine-rich repeat, protein binding; HET: NAG; 1.85A {Anopheles gambiae}

Probab=99.86  E-value=3.2e-21  Score=213.26  Aligned_cols=295  Identities=17%  Similarity=0.204  Sum_probs=228.9

Q ss_pred             EEEEcCCCcccCcc--cccccceEEEEeccccccccc--cCCCCCccceEEccCCccccccchhhhcCCCccEEEccCCC
Q 048126          476 FLVHAGLGLTEAPE--IQNWRNVRRMSLMKNKIENLS--ETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNH  551 (863)
Q Consensus       476 ~~~~~~~~~~~~~~--~~~~~~lr~L~l~~~~~~~l~--~~~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~  551 (863)
                      .+...+......+.  +..+++++.|++.+|.+..++  .+..+++|++|++++|.+..+++..|.++++|++|+|++| 
T Consensus        49 ~l~l~~~~l~~l~~~~~~~l~~L~~L~L~~n~i~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n-  127 (390)
T 3o6n_A           49 IVTFKNSTMRKLPAALLDSFRQVELLNLNDLQIEEIDTYAFAYAHTIQKLYMGFNAIRYLPPHVFQNVPLLTVLVLERN-  127 (390)
T ss_dssp             EEEEESCEESEECTHHHHHCCCCSEEECTTSCCCEECTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSS-
T ss_pred             EEEecCCchhhCChhHhcccccCcEEECCCCcccccChhhccCCCCcCEEECCCCCCCcCCHHHhcCCCCCCEEECCCC-
Confidence            34444444444443  467789999999999998774  4688999999999999999999888999999999999999 


Q ss_pred             ccccCCcc-ccccCCCCeEEccCCCccccch-hhhcCCCCCEEecCCccccCCCcHHHhhcCCCCcEEEeeccccccCch
Q 048126          552 LLWKLPSG-ISTLVSLEHLDLSGTAITHLPI-ELQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRILKSNVLFGGH  629 (863)
Q Consensus       552 ~~~~lp~~-i~~l~~L~~L~L~~~~l~~lp~-~~~~l~~L~~L~l~~~~~l~~lp~~~~~~L~~L~~L~l~~~~~~~~~~  629 (863)
                      .+..+|.. ++++++|++|++++|.++.++. .+..+++|++|++++| .++.++   ++.+++|++|++.++....   
T Consensus       128 ~l~~l~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~n-~l~~~~---~~~l~~L~~L~l~~n~l~~---  200 (390)
T 3o6n_A          128 DLSSLPRGIFHNTPKLTTLSMSNNNLERIEDDTFQATTSLQNLQLSSN-RLTHVD---LSLIPSLFHANVSYNLLST---  200 (390)
T ss_dssp             CCCCCCTTTTTTCTTCCEEECCSSCCCBCCTTTTSSCTTCCEEECCSS-CCSBCC---GGGCTTCSEEECCSSCCSE---
T ss_pred             ccCcCCHHHhcCCCCCcEEECCCCccCccChhhccCCCCCCEEECCCC-cCCccc---cccccccceeecccccccc---
Confidence            45577766 5899999999999999998754 5899999999999998 556665   5688999999999886643   


Q ss_pred             hhHHHHHcCCccCceEEEEEcChHHHHHHhhhhhhhhcceeeeeccccCCCcccccchhhcCCCceEEEcCCccccccee
Q 048126          630 QFLVEELMGMKHLMALTITLKSWEALQELLISQELQRCTQSLFLRCFNDSKSLDIFCLACLHNLNKLYVAGRKHLEDFQM  709 (863)
Q Consensus       630 ~~~~~~l~~L~~L~~L~l~~~~~~~~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~l~~  709 (863)
                            +...++|+.|+++.+....++.     ...++|+.|.+.++.-.. .  ..+..+++|+.|++++|.. +.+.+
T Consensus       201 ------~~~~~~L~~L~l~~n~l~~~~~-----~~~~~L~~L~l~~n~l~~-~--~~l~~l~~L~~L~Ls~n~l-~~~~~  265 (390)
T 3o6n_A          201 ------LAIPIAVEELDASHNSINVVRG-----PVNVELTILKLQHNNLTD-T--AWLLNYPGLVEVDLSYNEL-EKIMY  265 (390)
T ss_dssp             ------EECCSSCSEEECCSSCCCEEEC-----CCCSSCCEEECCSSCCCC-C--GGGGGCTTCSEEECCSSCC-CEEES
T ss_pred             ------cCCCCcceEEECCCCeeeeccc-----cccccccEEECCCCCCcc-c--HHHcCCCCccEEECCCCcC-CCcCh
Confidence                  3455689999998776554321     223589999998865433 2  4578899999999999854 33444


Q ss_pred             ccccccccccccccCcccEEEEeccCCCCCCch-hhccCCCcEEEEeccccchhhccccccccccCCCCCCCCcCCccce
Q 048126          710 TVQRSSVNQLARGFHSLHTVKVGFCFKLKDLTW-LVFAPSLKSIVVLSCCNMEQIIKAEKLSQLHHHPERKKSVFAKLQF  788 (863)
Q Consensus       710 ~~~~~~~~~~~~~l~~L~~L~L~~c~~l~~l~~-l~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~~~p~L~~  788 (863)
                      ..+        ..+++|++|+|++| .++.++. ...+|+|+.|+++++. ++.+             +.....+++|+.
T Consensus       266 ~~~--------~~l~~L~~L~L~~n-~l~~~~~~~~~l~~L~~L~L~~n~-l~~~-------------~~~~~~l~~L~~  322 (390)
T 3o6n_A          266 HPF--------VKMQRLERLYISNN-RLVALNLYGQPIPTLKVLDLSHNH-LLHV-------------ERNQPQFDRLEN  322 (390)
T ss_dssp             GGG--------TTCSSCCEEECCSS-CCCEEECSSSCCTTCCEEECCSSC-CCCC-------------GGGHHHHTTCSE
T ss_pred             hHc--------cccccCCEEECCCC-cCcccCcccCCCCCCCEEECCCCc-ceec-------------CccccccCcCCE
Confidence            443        34899999999998 5666653 4578999999999974 5544             224567899999


Q ss_pred             eccCCCccccccccCCCCCCCcceEeecCCC
Q 048126          789 LSLENLRNLCCINWEALAFPNLKEIRVEGCP  819 (863)
Q Consensus       789 L~l~~~~~L~~i~~~~~~~p~L~~L~i~~C~  819 (863)
                      |++++++ ++.++  ...+++|+.|+++++|
T Consensus       323 L~L~~N~-i~~~~--~~~~~~L~~L~l~~N~  350 (390)
T 3o6n_A          323 LYLDHNS-IVTLK--LSTHHTLKNLTLSHND  350 (390)
T ss_dssp             EECCSSC-CCCCC--CCTTCCCSEEECCSSC
T ss_pred             EECCCCc-cceeC--chhhccCCEEEcCCCC
Confidence            9999964 66665  4568999999999864

>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*

Probab=99.86  E-value=9.1e-22  Score=236.79  Aligned_cols=284  Identities=14%  Similarity=0.031  Sum_probs=130.4

Q ss_pred             CCccEEEccCCCccccCCccccccCCCCeEEccCCCcc-ccchhhhcCCCCCEEecCCccccCCCcHHHhhcCCCCcEEE
Q 048126          540 PSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAIT-HLPIELQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLR  618 (863)
Q Consensus       540 ~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~~~l~-~lp~~~~~l~~L~~L~l~~~~~l~~lp~~~~~~L~~L~~L~  618 (863)
                      ++|++|++++|.+.+.+|..++++++|++|++++|.++ .+|..++++++|+.|++++|.....+|.. +..+++|++|+
T Consensus       394 ~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~L~~n~l~~~~p~~-~~~l~~L~~L~  472 (768)
T 3rgz_A          394 NTLQELYLQNNGFTGKIPPTLSNCSELVSLHLSFNYLSGTIPSSLGSLSKLRDLKLWLNMLEGEIPQE-LMYVKTLETLI  472 (768)
T ss_dssp             CCCCEEECCSSEEEEECCGGGGGCTTCCEEECCSSEEESCCCGGGGGCTTCCEEECCSSCCCSCCCGG-GGGCTTCCEEE
T ss_pred             CCccEEECCCCccccccCHHHhcCCCCCEEECcCCcccCcccHHHhcCCCCCEEECCCCcccCcCCHH-HcCCCCceEEE
Confidence            34444444444333344455555555555555555444 44445555555555555555332234443 44555555555


Q ss_pred             eeccccccCchhhHHHHHcCCccCceEEEEEcChHHHHHHhhhhhhhhcceeeeeccccCCCcccccchhhcCCCceEEE
Q 048126          619 ILKSNVLFGGHQFLVEELMGMKHLMALTITLKSWEALQELLISQELQRCTQSLFLRCFNDSKSLDIFCLACLHNLNKLYV  698 (863)
Q Consensus       619 l~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~~~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l  698 (863)
                      +.+|.+...    .+..+.++++|+.|+++.+.....  ++......++|+.|+++++.-....+ ..+..+++|+.|++
T Consensus       473 L~~N~l~~~----~p~~l~~l~~L~~L~L~~N~l~~~--~p~~~~~l~~L~~L~L~~N~l~~~~p-~~l~~l~~L~~L~L  545 (768)
T 3rgz_A          473 LDFNDLTGE----IPSGLSNCTNLNWISLSNNRLTGE--IPKWIGRLENLAILKLSNNSFSGNIP-AELGDCRSLIWLDL  545 (768)
T ss_dssp             CCSSCCCSC----CCGGGGGCTTCCEEECCSSCCCSC--CCGGGGGCTTCCEEECCSSCCEEECC-GGGGGCTTCCEEEC
T ss_pred             ecCCcccCc----CCHHHhcCCCCCEEEccCCccCCc--CChHHhcCCCCCEEECCCCcccCcCC-HHHcCCCCCCEEEC
Confidence            555544321    233345555555555554443210  01111122355555555543222221 33455566666666


Q ss_pred             cCCcccccceecccccc-------------------------------------------------------------cc
Q 048126          699 AGRKHLEDFQMTVQRSS-------------------------------------------------------------VN  717 (863)
Q Consensus       699 ~~~~~~~~l~~~~~~~~-------------------------------------------------------------~~  717 (863)
                      ++|.....++..+....                                                             ..
T Consensus       546 s~N~l~g~ip~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~l~~~~~~g~~~  625 (768)
T 3rgz_A          546 NTNLFNGTIPAAMFKQSGKIAANFIAGKRYVYIKNDGMKKECHGAGNLLEFQGIRSEQLNRLSTRNPCNITSRVYGGHTS  625 (768)
T ss_dssp             CSSEEESBCCGGGGTTTTCBCCSTTCSCEEEEEECCSCCTTCCSSEEEEECTTCCGGGGGGGGGTCCSCTTSCEEEEECC
T ss_pred             CCCccCCcCChHHhcccchhhhhccccccccccccccccccccccccccccccccchhhhccccccccccccceecccCc
Confidence            65543322222111000                                                             00


Q ss_pred             ccccccCcccEEEEeccCCCCCCc-hhhccCCCcEEEEeccccchhhccccccccccCCCCCCCCcCCccceeccCCCcc
Q 048126          718 QLARGFHSLHTVKVGFCFKLKDLT-WLVFAPSLKSIVVLSCCNMEQIIKAEKLSQLHHHPERKKSVFAKLQFLSLENLRN  796 (863)
Q Consensus       718 ~~~~~l~~L~~L~L~~c~~l~~l~-~l~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~~~p~L~~L~l~~~~~  796 (863)
                      .....+++|+.|+|++|.--..+| .++.+++|+.|+|+++.....+             +..++.+++|+.|+|+++.-
T Consensus       626 ~~~~~l~~L~~LdLs~N~l~g~ip~~l~~l~~L~~L~Ls~N~l~g~i-------------p~~l~~L~~L~~LdLs~N~l  692 (768)
T 3rgz_A          626 PTFDNNGSMMFLDMSYNMLSGYIPKEIGSMPYLFILNLGHNDISGSI-------------PDEVGDLRGLNILDLSSNKL  692 (768)
T ss_dssp             CSCSSSBCCCEEECCSSCCBSCCCGGGGGCTTCCEEECCSSCCCSCC-------------CGGGGGCTTCCEEECCSSCC
T ss_pred             hhhhccccccEEECcCCcccccCCHHHhccccCCEEeCcCCccCCCC-------------ChHHhCCCCCCEEECCCCcc
Confidence            011224556666666653222333 4556666666666664322222             23455566666666666543


Q ss_pred             ccccccCCCCCCCcceEeecCCCCCCCCCCCCCCCCCCceEEEccccc
Q 048126          797 LCCINWEALAFPNLKEIRVEGCPKLFKLPLDSNSAKGCKVVIKGEENW  844 (863)
Q Consensus       797 L~~i~~~~~~~p~L~~L~i~~C~~L~~lp~~~~~~~L~~l~i~~~~~~  844 (863)
                      -..+|.....+++|+.|++++|+--..+|.+....++....+.|++.+
T Consensus       693 ~g~ip~~l~~l~~L~~L~ls~N~l~g~iP~~~~~~~~~~~~~~gN~~L  740 (768)
T 3rgz_A          693 DGRIPQAMSALTMLTEIDLSNNNLSGPIPEMGQFETFPPAKFLNNPGL  740 (768)
T ss_dssp             EECCCGGGGGCCCCSEEECCSSEEEEECCSSSSGGGSCGGGGCSCTEE
T ss_pred             cCcCChHHhCCCCCCEEECcCCcccccCCCchhhccCCHHHhcCCchh
Confidence            335555555566666666666533333554433333333434444333

>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}

Probab=99.86  E-value=2.2e-21  Score=226.67  Aligned_cols=281  Identities=17%  Similarity=0.201  Sum_probs=223.1

Q ss_pred             cccccceEEEEeccccccccc--cCCCCCccceEEccCCccccccchhhhcCCCccEEEccCCCccccCCcc-ccccCCC
Q 048126          490 IQNWRNVRRMSLMKNKIENLS--ETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSG-ISTLVSL  566 (863)
Q Consensus       490 ~~~~~~lr~L~l~~~~~~~l~--~~~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~-i~~l~~L  566 (863)
                      +..+++++.|++++|.+..++  .+..+++|++|++++|.+..+++..|+++++|++|+|++|. +..+|.. ++++++|
T Consensus        71 ~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~-l~~l~~~~~~~l~~L  149 (597)
T 3oja_B           71 LDSFRQVELLNLNDLQIEEIDTYAFAYAHTIQKLYMGFNAIRYLPPHVFQNVPLLTVLVLERND-LSSLPRGIFHNTPKL  149 (597)
T ss_dssp             HHHCCCCSEEECTTSCCCEECTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSC-CCCCCTTTTTTCTTC
T ss_pred             HccCCCCcEEECCCCCCCCCChHHhcCCCCCCEEECCCCcCCCCCHHHHcCCCCCCEEEeeCCC-CCCCCHHHhccCCCC
Confidence            456789999999999998875  46899999999999999999999989999999999999995 4466655 5899999


Q ss_pred             CeEEccCCCccccch-hhhcCCCCCEEecCCccccCCCcHHHhhcCCCCcEEEeeccccccCchhhHHHHHcCCccCceE
Q 048126          567 EHLDLSGTAITHLPI-ELQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRILKSNVLFGGHQFLVEELMGMKHLMAL  645 (863)
Q Consensus       567 ~~L~L~~~~l~~lp~-~~~~l~~L~~L~l~~~~~l~~lp~~~~~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~~L  645 (863)
                      ++|+|++|.++.+|+ .++++++|++|++++| .+..++   ++.+++|++|++.+|.+..         +....+|+.|
T Consensus       150 ~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~N-~l~~~~---~~~l~~L~~L~l~~n~l~~---------l~~~~~L~~L  216 (597)
T 3oja_B          150 TTLSMSNNNLERIEDDTFQATTSLQNLQLSSN-RLTHVD---LSLIPSLFHANVSYNLLST---------LAIPIAVEEL  216 (597)
T ss_dssp             CEEECCSSCCCBCCTTTTTTCTTCCEEECTTS-CCSBCC---GGGCTTCSEEECCSSCCSE---------EECCTTCSEE
T ss_pred             CEEEeeCCcCCCCChhhhhcCCcCcEEECcCC-CCCCcC---hhhhhhhhhhhcccCcccc---------ccCCchhhee
Confidence            999999999997765 6999999999999998 567776   5678999999999886643         3456789999


Q ss_pred             EEEEcChHHHHHHhhhhhhhhcceeeeeccccCCCcccccchhhcCCCceEEEcCCcccccceeccccccccccccccCc
Q 048126          646 TITLKSWEALQELLISQELQRCTQSLFLRCFNDSKSLDIFCLACLHNLNKLYVAGRKHLEDFQMTVQRSSVNQLARGFHS  725 (863)
Q Consensus       646 ~l~~~~~~~~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~l~~~~~~~~~~~~~~~l~~  725 (863)
                      +++.+....++.     ...++|+.|.++++.-..   ...+..+++|+.|++++|... .+.+..+        ..+++
T Consensus       217 ~ls~n~l~~~~~-----~~~~~L~~L~L~~n~l~~---~~~l~~l~~L~~L~Ls~N~l~-~~~~~~~--------~~l~~  279 (597)
T 3oja_B          217 DASHNSINVVRG-----PVNVELTILKLQHNNLTD---TAWLLNYPGLVEVDLSYNELE-KIMYHPF--------VKMQR  279 (597)
T ss_dssp             ECCSSCCCEEEC-----SCCSCCCEEECCSSCCCC---CGGGGGCTTCSEEECCSSCCC-EEESGGG--------TTCSS
T ss_pred             eccCCccccccc-----ccCCCCCEEECCCCCCCC---ChhhccCCCCCEEECCCCccC-CCCHHHh--------cCccC
Confidence            998776543321     223589999998875433   245788899999999997544 3444443        34899


Q ss_pred             ccEEEEeccCCCCCCch-hhccCCCcEEEEeccccchhhccccccccccCCCCCCCCcCCccceeccCCCccccccccCC
Q 048126          726 LHTVKVGFCFKLKDLTW-LVFAPSLKSIVVLSCCNMEQIIKAEKLSQLHHHPERKKSVFAKLQFLSLENLRNLCCINWEA  804 (863)
Q Consensus       726 L~~L~L~~c~~l~~l~~-l~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~~~p~L~~L~l~~~~~L~~i~~~~  804 (863)
                      |+.|+|++| .+..+|. .+.+|+|+.|+|++|. +..+             +..+..+|+|+.|+|+++. +..++  .
T Consensus       280 L~~L~Ls~N-~l~~l~~~~~~l~~L~~L~Ls~N~-l~~i-------------~~~~~~l~~L~~L~L~~N~-l~~~~--~  341 (597)
T 3oja_B          280 LERLYISNN-RLVALNLYGQPIPTLKVLDLSHNH-LLHV-------------ERNQPQFDRLENLYLDHNS-IVTLK--L  341 (597)
T ss_dssp             CCEEECTTS-CCCEEECSSSCCTTCCEEECCSSC-CCCC-------------GGGHHHHTTCSEEECCSSC-CCCCC--C
T ss_pred             CCEEECCCC-CCCCCCcccccCCCCcEEECCCCC-CCcc-------------CcccccCCCCCEEECCCCC-CCCcC--h
Confidence            999999998 5666663 4568999999999965 4444             2345679999999999964 55554  4


Q ss_pred             CCCCCcceEeecCCC
Q 048126          805 LAFPNLKEIRVEGCP  819 (863)
Q Consensus       805 ~~~p~L~~L~i~~C~  819 (863)
                      ..+++|+.|+++++|
T Consensus       342 ~~~~~L~~L~l~~N~  356 (597)
T 3oja_B          342 STHHTLKNLTLSHND  356 (597)
T ss_dssp             CTTCCCSEEECCSSC
T ss_pred             hhcCCCCEEEeeCCC
Confidence            568999999999875

>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}

Probab=99.86  E-value=1.2e-20  Score=219.12  Aligned_cols=118  Identities=25%  Similarity=0.290  Sum_probs=94.9

Q ss_pred             EEEcCCCcccCc--ccccccceEEEEeccccccccc--cCCCCCccceEEccCCccccccchhhhcCCCccEEEccCCCc
Q 048126          477 LVHAGLGLTEAP--EIQNWRNVRRMSLMKNKIENLS--ETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHL  552 (863)
Q Consensus       477 ~~~~~~~~~~~~--~~~~~~~lr~L~l~~~~~~~l~--~~~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~  552 (863)
                      +...+......+  .+..+++++.|++++|.+..++  .+..+++|++|++++|.++.+|..   .+++|++|++++|.+
T Consensus        57 L~Ls~N~i~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~lp~~---~l~~L~~L~Ls~N~l  133 (562)
T 3a79_B           57 LSLSQNSISELRMPDISFLSELRVLRLSHNRIRSLDFHVFLFNQDLEYLDVSHNRLQNISCC---PMASLRHLDLSFNDF  133 (562)
T ss_dssp             EECCSSCCCCCCGGGTTTCTTCCEEECCSCCCCEECTTTTTTCTTCCEEECTTSCCCEECSC---CCTTCSEEECCSSCC
T ss_pred             EECCCCCccccChhhhccCCCccEEECCCCCCCcCCHHHhCCCCCCCEEECCCCcCCccCcc---ccccCCEEECCCCCc
Confidence            333444444443  5778899999999999998873  368899999999999999998875   799999999999965


Q ss_pred             cc-cCCccccccCCCCeEEccCCCccccchhhhcCCCC--CEEecCCccc
Q 048126          553 LW-KLPSGISTLVSLEHLDLSGTAITHLPIELQKLVNL--KCLNLEYMYN  599 (863)
Q Consensus       553 ~~-~lp~~i~~l~~L~~L~L~~~~l~~lp~~~~~l~~L--~~L~l~~~~~  599 (863)
                      .+ ..|..++++++|++|++++|.++..  .+..+++|  ++|++++|..
T Consensus       134 ~~l~~p~~~~~l~~L~~L~L~~n~l~~~--~~~~l~~L~L~~L~L~~n~l  181 (562)
T 3a79_B          134 DVLPVCKEFGNLTKLTFLGLSAAKFRQL--DLLPVAHLHLSCILLDLVSY  181 (562)
T ss_dssp             SBCCCCGGGGGCTTCCEEEEECSBCCTT--TTGGGTTSCEEEEEEEESSC
T ss_pred             cccCchHhhcccCcccEEecCCCccccC--chhhhhhceeeEEEeecccc
Confidence            44 3468999999999999999998753  45666666  9999999843

>2ft3_A Biglycan; proteoglycan, dimer interface, structural protein, signaling; HET: NAG FLC; 3.40A {Bos taurus}

Probab=99.86  E-value=1.8e-21  Score=210.12  Aligned_cols=296  Identities=15%  Similarity=0.115  Sum_probs=204.3

Q ss_pred             cceEEEEeccccccccccCCCCCccceEEccCCccccccchhhhcCCCccEEEccCCCccccCCccccccCCCCeEEccC
Q 048126          494 RNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSG  573 (863)
Q Consensus       494 ~~lr~L~l~~~~~~~l~~~~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~  573 (863)
                      .+++.++++++.+..+|.. -.++|++|++++|.+..+++..|.++++|++|+|++|.+.+..|..++++++|++|++++
T Consensus        33 c~l~~l~~~~~~l~~ip~~-~~~~l~~L~l~~n~i~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~  111 (332)
T 2ft3_A           33 CHLRVVQCSDLGLKAVPKE-ISPDTTLLDLQNNDISELRKDDFKGLQHLYALVLVNNKISKIHEKAFSPLRKLQKLYISK  111 (332)
T ss_dssp             EETTEEECCSSCCSSCCSC-CCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCCEECGGGSTTCTTCCEEECCS
T ss_pred             ccCCEEECCCCCccccCCC-CCCCCeEEECCCCcCCccCHhHhhCCCCCcEEECCCCccCccCHhHhhCcCCCCEEECCC
Confidence            3678899999888877653 247899999999999999887799999999999999976666688999999999999999


Q ss_pred             CCccccchhhhcCCCCCEEecCCccccCCCcHHHhhcCCCCcEEEeeccccccCchhhHHHHHcCCccCceEEEEEcChH
Q 048126          574 TAITHLPIELQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRILKSNVLFGGHQFLVEELMGMKHLMALTITLKSWE  653 (863)
Q Consensus       574 ~~l~~lp~~~~~l~~L~~L~l~~~~~l~~lp~~~~~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~  653 (863)
                      |.++.+|..+.  ++|++|++++| .+..+|...+.++++|++|++.+|.+...  ...+..+..+ +|+.|+++.+...
T Consensus       112 n~l~~l~~~~~--~~L~~L~l~~n-~i~~~~~~~~~~l~~L~~L~l~~n~l~~~--~~~~~~~~~l-~L~~L~l~~n~l~  185 (332)
T 2ft3_A          112 NHLVEIPPNLP--SSLVELRIHDN-RIRKVPKGVFSGLRNMNCIEMGGNPLENS--GFEPGAFDGL-KLNYLRISEAKLT  185 (332)
T ss_dssp             SCCCSCCSSCC--TTCCEEECCSS-CCCCCCSGGGSSCSSCCEEECCSCCCBGG--GSCTTSSCSC-CCSCCBCCSSBCS
T ss_pred             CcCCccCcccc--ccCCEEECCCC-ccCccCHhHhCCCccCCEEECCCCccccC--CCCcccccCC-ccCEEECcCCCCC
Confidence            99999998776  89999999998 66788877689999999999999877421  1223445555 7888888776654


Q ss_pred             HHHHHhhhhhhhhcceeeeeccccCCCcccccchhhcCCCceEEEcCCcccccceeccccccccccccccCcccEEEEec
Q 048126          654 ALQELLISQELQRCTQSLFLRCFNDSKSLDIFCLACLHNLNKLYVAGRKHLEDFQMTVQRSSVNQLARGFHSLHTVKVGF  733 (863)
Q Consensus       654 ~~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~l~~~~~~~~~~~~~~~l~~L~~L~L~~  733 (863)
                      .++.     ...++|+.|+++++. ........+..+++|+.|++++|.. +.+.+..+        ..+++|++|+|++
T Consensus       186 ~l~~-----~~~~~L~~L~l~~n~-i~~~~~~~l~~l~~L~~L~L~~N~l-~~~~~~~~--------~~l~~L~~L~L~~  250 (332)
T 2ft3_A          186 GIPK-----DLPETLNELHLDHNK-IQAIELEDLLRYSKLYRLGLGHNQI-RMIENGSL--------SFLPTLRELHLDN  250 (332)
T ss_dssp             SCCS-----SSCSSCSCCBCCSSC-CCCCCTTSSTTCTTCSCCBCCSSCC-CCCCTTGG--------GGCTTCCEEECCS
T ss_pred             ccCc-----cccCCCCEEECCCCc-CCccCHHHhcCCCCCCEEECCCCcC-CcCChhHh--------hCCCCCCEEECCC
Confidence            4321     122577788877653 3333334566778888888887643 33333332        2477888888888


Q ss_pred             cCCCCCCc-hhhccCCCcEEEEeccccchhhccccccccccCCCCCCCCcCCccceeccCCCccc--cccccCCCCCCCc
Q 048126          734 CFKLKDLT-WLVFAPSLKSIVVLSCCNMEQIIKAEKLSQLHHHPERKKSVFAKLQFLSLENLRNL--CCINWEALAFPNL  810 (863)
Q Consensus       734 c~~l~~l~-~l~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~~~p~L~~L~l~~~~~L--~~i~~~~~~~p~L  810 (863)
                      | .++.+| .+..+++|+.|+++++ .++.+....+.+.      .....+++|+.|++.+++..  ...+.....+++|
T Consensus       251 N-~l~~lp~~l~~l~~L~~L~l~~N-~l~~~~~~~~~~~------~~~~~~~~l~~L~l~~N~~~~~~~~~~~~~~l~~L  322 (332)
T 2ft3_A          251 N-KLSRVPAGLPDLKLLQVVYLHTN-NITKVGVNDFCPV------GFGVKRAYYNGISLFNNPVPYWEVQPATFRCVTDR  322 (332)
T ss_dssp             S-CCCBCCTTGGGCTTCCEEECCSS-CCCBCCTTSSSCS------SCCSSSCCBSEEECCSSSSCGGGSCGGGGTTBCCS
T ss_pred             C-cCeecChhhhcCccCCEEECCCC-CCCccChhHcccc------ccccccccccceEeecCcccccccCcccccccchh
Confidence            7 455665 4677788888888874 3555432111110      01123567777777776532  1112223346667


Q ss_pred             ceEeecCCC
Q 048126          811 KEIRVEGCP  819 (863)
Q Consensus       811 ~~L~i~~C~  819 (863)
                      +.|++.++.
T Consensus       323 ~~l~l~~n~  331 (332)
T 2ft3_A          323 LAIQFGNYK  331 (332)
T ss_dssp             TTEEC----
T ss_pred             hhhhccccc
Confidence            777776653

>3j0a_A TOLL-like receptor 5; membrane protein, leucine-rich repeat, asymmetric homodimer, glycoprotein, immune system; HET: NAG FUC; 26.00A {Homo sapiens}

Probab=99.85  E-value=2.3e-20  Score=227.04  Aligned_cols=334  Identities=14%  Similarity=0.168  Sum_probs=213.1

Q ss_pred             cEEEEcCCCcccCcccccccceEEEEeccccccccc--cCCCCCccceEEccCC-ccccccchhhhcCCCccEEEccCCC
Q 048126          475 NFLVHAGLGLTEAPEIQNWRNVRRMSLMKNKIENLS--ETPTCPHLLSLFLSDN-SLKMIAGDFFQFMPSLRVFNMSNNH  551 (863)
Q Consensus       475 ~~~~~~~~~~~~~~~~~~~~~lr~L~l~~~~~~~l~--~~~~~~~L~~L~l~~~-~l~~~~~~~~~~l~~L~~L~L~~~~  551 (863)
                      ..+.+.+.+.+.+|.  ..++++.|++++|.+..+.  .+..+++|++|++++| .+..+++..|.++++|++|+|++|.
T Consensus         7 ~~~dcs~~~L~~vP~--lp~~l~~LdLs~N~i~~i~~~~~~~l~~L~~LdLs~n~~~~~i~~~~f~~L~~L~~L~Ls~N~   84 (844)
T 3j0a_A            7 RIAFYRFCNLTQVPQ--VLNTTERLLLSFNYIRTVTASSFPFLEQLQLLELGSQYTPLTIDKEAFRNLPNLRILDLGSSK   84 (844)
T ss_dssp             EEEEESCCCSSCCCS--SCTTCCEEEEESCCCCEECSSSCSSCCSCSEEEECTTCCCCEECTTTTSSCTTCCEEECTTCC
T ss_pred             eEEEccCCCCCCCCC--CCCCcCEEECCCCcCCccChhHCcccccCeEEeCCCCCCccccCHHHhcCCCCCCEEECCCCc
Confidence            345556667777776  5579999999999998763  4689999999999999 5557767779999999999999997


Q ss_pred             ccccCCccccccCCCCeEEccCCCccc-cchh--hhcCCCCCEEecCCccccCCC-cHHHhhcCCCCcEEEeeccccccC
Q 048126          552 LLWKLPSGISTLVSLEHLDLSGTAITH-LPIE--LQKLVNLKCLNLEYMYNLNQF-PRLVMSAFSKLQVLRILKSNVLFG  627 (863)
Q Consensus       552 ~~~~lp~~i~~l~~L~~L~L~~~~l~~-lp~~--~~~l~~L~~L~l~~~~~l~~l-p~~~~~~L~~L~~L~l~~~~~~~~  627 (863)
                      +.+..|..++++++|++|+|++|.++. +|..  ++++++|++|++++|. +..+ |...++++++|++|++.+|.+...
T Consensus        85 l~~~~p~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~~L~~L~~L~Ls~N~-l~~~~~~~~~~~L~~L~~L~Ls~N~i~~~  163 (844)
T 3j0a_A           85 IYFLHPDAFQGLFHLFELRLYFCGLSDAVLKDGYFRNLKALTRLDLSKNQ-IRSLYLHPSFGKLNSLKSIDFSSNQIFLV  163 (844)
T ss_dssp             CCEECTTSSCSCSSCCCEECTTCCCSSCCSTTCCCSSCSSCCEEEEESCC-CCCCCCCGGGGTCSSCCEEEEESSCCCCC
T ss_pred             CcccCHhHccCCcccCEeeCcCCCCCcccccCccccccCCCCEEECCCCc-ccccccchhHhhCCCCCEEECCCCcCCee
Confidence            777779999999999999999999985 5665  8999999999999994 4444 333489999999999999877542


Q ss_pred             chhhHHHHHcCCccCceEEEEEcChHHHHHH--hhhh--hhhhcceeeeeccccCCCc----------------------
Q 048126          628 GHQFLVEELMGMKHLMALTITLKSWEALQEL--LISQ--ELQRCTQSLFLRCFNDSKS----------------------  681 (863)
Q Consensus       628 ~~~~~~~~l~~L~~L~~L~l~~~~~~~~~~l--~~~~--~~~~~L~~L~l~~~~~~~~----------------------  681 (863)
                      . ...+..+.. ++|+.|+++.+........  ....  -....|+.|+++++.-...                      
T Consensus       164 ~-~~~l~~l~~-~~L~~L~L~~n~l~~~~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~~~~~l~~~~l~~L~l~~~  241 (844)
T 3j0a_A          164 C-EHELEPLQG-KTLSFFSLAANSLYSRVSVDWGKCMNPFRNMVLEILDVSGNGWTVDITGNFSNAISKSQAFSLILAHH  241 (844)
T ss_dssp             C-SGGGHHHHH-CSSCCCEECCSBSCCCCCCCCCSSSCTTTTCCBSEEBCSSCCSSTTTTSGGGGTSCSCCBSEEECCSS
T ss_pred             C-HHHcccccC-CccceEECCCCccccccccchhhcCCccccCceeEEecCCCcCchhHHHHHHhhcCcccccceecccc
Confidence            1 112222211 5677777776543221000  0000  0001366666665421100                      


Q ss_pred             -------------ccccchhh--cCCCceEEEcCCcccccceeccccccccccccccCcccEEEEeccCCCCCCc--hhh
Q 048126          682 -------------LDIFCLAC--LHNLNKLYVAGRKHLEDFQMTVQRSSVNQLARGFHSLHTVKVGFCFKLKDLT--WLV  744 (863)
Q Consensus       682 -------------~~~~~l~~--~~~L~~L~l~~~~~~~~l~~~~~~~~~~~~~~~l~~L~~L~L~~c~~l~~l~--~l~  744 (863)
                                   .....+..  .++|+.|++++|... .+.+..+        ..+++|+.|+|++| .+..++  .+.
T Consensus       242 ~~~~~~~~~~l~~~~~~~f~~l~~~~L~~L~Ls~n~l~-~~~~~~~--------~~l~~L~~L~L~~n-~i~~~~~~~~~  311 (844)
T 3j0a_A          242 IMGAGFGFHNIKDPDQNTFAGLARSSVRHLDLSHGFVF-SLNSRVF--------ETLKDLKVLNLAYN-KINKIADEAFY  311 (844)
T ss_dssp             CCBCSSSCSSSTTGGGTTTTTTTTSCCCEEECTTCCCC-EECSCCS--------SSCCCCCEEEEESC-CCCEECTTTTT
T ss_pred             cccccccccccCCCChhhhhccccCCccEEECCCCccc-ccChhhh--------hcCCCCCEEECCCC-cCCCCChHHhc
Confidence                         00011111  257777777776433 2333332        34677777777776 344432  356


Q ss_pred             ccCCCcEEEEeccccchhhccccccccccCCCCCCCCcCCccceeccCCCccccccccC-CCCCCCcceEeecCCCCCCC
Q 048126          745 FAPSLKSIVVLSCCNMEQIIKAEKLSQLHHHPERKKSVFAKLQFLSLENLRNLCCINWE-ALAFPNLKEIRVEGCPKLFK  823 (863)
Q Consensus       745 ~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~~~p~L~~L~l~~~~~L~~i~~~-~~~~p~L~~L~i~~C~~L~~  823 (863)
                      .+++|++|+++++. ++.+.            +..+..+++|+.|+++++ .+..++.. ...+++|+.|++++| .++.
T Consensus       312 ~l~~L~~L~Ls~N~-l~~~~------------~~~~~~l~~L~~L~L~~N-~i~~~~~~~~~~l~~L~~L~Ls~N-~l~~  376 (844)
T 3j0a_A          312 GLDNLQVLNLSYNL-LGELY------------SSNFYGLPKVAYIDLQKN-HIAIIQDQTFKFLEKLQTLDLRDN-ALTT  376 (844)
T ss_dssp             TCSSCCEEEEESCC-CSCCC------------SCSCSSCTTCCEEECCSC-CCCCCCSSCSCSCCCCCEEEEETC-CSCC
T ss_pred             CCCCCCEEECCCCC-CCccC------------HHHhcCCCCCCEEECCCC-CCCccChhhhcCCCCCCEEECCCC-CCCc
Confidence            67777777777753 33331            234556667777777664 44444432 334666666666664 4555


Q ss_pred             CCCCCCCCCCCceEEEcc
Q 048126          824 LPLDSNSAKGCKVVIKGE  841 (863)
Q Consensus       824 lp~~~~~~~L~~l~i~~~  841 (863)
                      +|.   .++|+.+.+.++
T Consensus       377 i~~---~~~L~~L~l~~N  391 (844)
T 3j0a_A          377 IHF---IPSIPDIFLSGN  391 (844)
T ss_dssp             CSS---CCSCSEEEEESC
T ss_pred             ccC---CCCcchhccCCC
Confidence            443   244555555543

>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*

Probab=99.85  E-value=6.6e-21  Score=215.60  Aligned_cols=311  Identities=13%  Similarity=0.093  Sum_probs=219.4

Q ss_pred             cccccccceEEEEecccccc-ccc--cCCCCCccceEEccCCccccccchhhhcCCCccEEEccCCCccccCCcc--ccc
Q 048126          488 PEIQNWRNVRRMSLMKNKIE-NLS--ETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSG--IST  562 (863)
Q Consensus       488 ~~~~~~~~lr~L~l~~~~~~-~l~--~~~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~--i~~  562 (863)
                      ..+..+++++.|++++|.+. .++  .+..+++|++|++++|.+..+++..|.++++|++|+|++|.+.+..|..  +++
T Consensus        48 ~~~~~l~~L~~L~L~~n~~~~~i~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~~~  127 (455)
T 3v47_A           48 TSFSRLQDLQFLKVEQQTPGLVIRNNTFRGLSSLIILKLDYNQFLQLETGAFNGLANLEVLTLTQCNLDGAVLSGNFFKP  127 (455)
T ss_dssp             TTTSSCTTCCEEECCCCSTTCEECTTTTTTCTTCCEEECTTCTTCEECTTTTTTCTTCCEEECTTSCCBTHHHHSSTTTT
T ss_pred             hHhccCccccEEECcCCcccceECcccccccccCCEEeCCCCccCccChhhccCcccCCEEeCCCCCCCccccCcccccC
Confidence            34677889999999998775 332  3578899999999999988887777899999999999999665545554  888


Q ss_pred             cCCCCeEEccCCCcccc-chh-hhcCCCCCEEecCCccccCCCcHHHhhc------------------------------
Q 048126          563 LVSLEHLDLSGTAITHL-PIE-LQKLVNLKCLNLEYMYNLNQFPRLVMSA------------------------------  610 (863)
Q Consensus       563 l~~L~~L~L~~~~l~~l-p~~-~~~l~~L~~L~l~~~~~l~~lp~~~~~~------------------------------  610 (863)
                      +++|++|++++|.++.+ |.. +.++++|++|++++|. +..++...+..                              
T Consensus       128 l~~L~~L~L~~n~l~~~~~~~~~~~l~~L~~L~L~~n~-l~~~~~~~l~~l~~~~L~~L~l~~n~l~~~~~~~~~~~~~~  206 (455)
T 3v47_A          128 LTSLEMLVLRDNNIKKIQPASFFLNMRRFHVLDLTFNK-VKSICEEDLLNFQGKHFTLLRLSSITLQDMNEYWLGWEKCG  206 (455)
T ss_dssp             CTTCCEEECCSSBCCSCCCCGGGGGCTTCCEEECTTCC-BSCCCTTTSGGGTTCEEEEEECTTCBCTTCSTTCTTHHHHC
T ss_pred             cccCCEEECCCCccCccCcccccCCCCcccEEeCCCCc-ccccChhhhhccccccccccccccCcccccchhhccccccc
Confidence            99999999999998876 544 7899999999999884 34443322333                              


Q ss_pred             ----CCCCcEEEeeccccccCchhhHHHHHcCCccCceEEEEEcChHHH----------HHHhhhhhhhhcceeeeeccc
Q 048126          611 ----FSKLQVLRILKSNVLFGGHQFLVEELMGMKHLMALTITLKSWEAL----------QELLISQELQRCTQSLFLRCF  676 (863)
Q Consensus       611 ----L~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~~~----------~~l~~~~~~~~~L~~L~l~~~  676 (863)
                          +++|++|++.+|.+.... ..........++|+.|+++.+.....          ..........++|+.|+++++
T Consensus       207 ~~~~~~~L~~L~Ls~n~l~~~~-~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~n  285 (455)
T 3v47_A          207 NPFKNTSITTLDLSGNGFKESM-AKRFFDAIAGTKIQSLILSNSYNMGSSFGHTNFKDPDNFTFKGLEASGVKTCDLSKS  285 (455)
T ss_dssp             CTTTTCEEEEEECTTSCCCHHH-HHHHHHHTTTCCEEEEECTTCTTTSCCTTCCSSCCCCTTTTGGGTTSCCCEEECCSS
T ss_pred             cccccceeeeEecCCCcccccc-hhhhhccccccceeeEeeccccccccccchhhhccCcccccccccccCceEEEecCc
Confidence                367888998888765321 11222333447888888765432110          000000011257999999886


Q ss_pred             cCCCcccccchhhcCCCceEEEcCCcccccceeccccccccccccccCcccEEEEeccCCCCCCc--hhhccCCCcEEEE
Q 048126          677 NDSKSLDIFCLACLHNLNKLYVAGRKHLEDFQMTVQRSSVNQLARGFHSLHTVKVGFCFKLKDLT--WLVFAPSLKSIVV  754 (863)
Q Consensus       677 ~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~l~~~~~~~~~~~~~~~l~~L~~L~L~~c~~l~~l~--~l~~l~~L~~L~l  754 (863)
                      .- .......+..+++|+.|++++|... .+.+..+        ..+++|++|+|++| .++.++  .++.+++|+.|+|
T Consensus       286 ~l-~~~~~~~~~~l~~L~~L~Ls~n~l~-~~~~~~~--------~~l~~L~~L~Ls~N-~l~~~~~~~~~~l~~L~~L~L  354 (455)
T 3v47_A          286 KI-FALLKSVFSHFTDLEQLTLAQNEIN-KIDDNAF--------WGLTHLLKLNLSQN-FLGSIDSRMFENLDKLEVLDL  354 (455)
T ss_dssp             CC-CEECTTTTTTCTTCCEEECTTSCCC-EECTTTT--------TTCTTCCEEECCSS-CCCEECGGGGTTCTTCCEEEC
T ss_pred             cc-cccchhhcccCCCCCEEECCCCccc-ccChhHh--------cCcccCCEEECCCC-ccCCcChhHhcCcccCCEEEC
Confidence            53 3333355788899999999997644 3444343        34899999999998 556553  4678999999999


Q ss_pred             eccccchhhccccccccccCCCCCCCCcCCccceeccCCCccccccccCC-CCCCCcceEeecCCCCCCCCC
Q 048126          755 LSCCNMEQIIKAEKLSQLHHHPERKKSVFAKLQFLSLENLRNLCCINWEA-LAFPNLKEIRVEGCPKLFKLP  825 (863)
Q Consensus       755 ~~~~~l~~i~~~~~~~~~~~~~~~~~~~~p~L~~L~l~~~~~L~~i~~~~-~~~p~L~~L~i~~C~~L~~lp  825 (863)
                      +++. ++.+.            +..+..+++|++|+|+++ .++.++... ..+++|+.|++++++---..|
T Consensus       355 s~N~-l~~~~------------~~~~~~l~~L~~L~L~~N-~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~  412 (455)
T 3v47_A          355 SYNH-IRALG------------DQSFLGLPNLKELALDTN-QLKSVPDGIFDRLTSLQKIWLHTNPWDCSCP  412 (455)
T ss_dssp             CSSC-CCEEC------------TTTTTTCTTCCEEECCSS-CCSCCCTTTTTTCTTCCEEECCSSCBCCCTT
T ss_pred             CCCc-ccccC------------hhhccccccccEEECCCC-ccccCCHhHhccCCcccEEEccCCCcccCCC
Confidence            9964 44442            346778999999999995 677777643 568999999999875443344

>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*

Probab=99.85  E-value=1.6e-20  Score=202.66  Aligned_cols=295  Identities=16%  Similarity=0.133  Sum_probs=203.6

Q ss_pred             cceEEEEeccccccccccCCCCCccceEEccCCccccccchhhhcCCCccEEEccCCCccccCCccccccCCCCeEEccC
Q 048126          494 RNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSG  573 (863)
Q Consensus       494 ~~lr~L~l~~~~~~~l~~~~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~  573 (863)
                      .+++.++++++.+..+|.. -.++|++|++++|.++.+++..|.++++|++|+|++|.+.+..|..++++++|++|++++
T Consensus        31 c~l~~l~~~~~~l~~lp~~-~~~~l~~L~L~~n~i~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~Ls~  109 (330)
T 1xku_A           31 CHLRVVQCSDLGLEKVPKD-LPPDTALLDLQNNKITEIKDGDFKNLKNLHTLILINNKISKISPGAFAPLVKLERLYLSK  109 (330)
T ss_dssp             EETTEEECTTSCCCSCCCS-CCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCS
T ss_pred             CCCeEEEecCCCccccCcc-CCCCCeEEECCCCcCCEeChhhhccCCCCCEEECCCCcCCeeCHHHhcCCCCCCEEECCC
Confidence            3678899988888877653 347899999999999999987899999999999999966666689999999999999999


Q ss_pred             CCccccchhhhcCCCCCEEecCCccccCCCcHHHhhcCCCCcEEEeeccccccCchhhHHHHHcCCccCceEEEEEcChH
Q 048126          574 TAITHLPIELQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRILKSNVLFGGHQFLVEELMGMKHLMALTITLKSWE  653 (863)
Q Consensus       574 ~~l~~lp~~~~~l~~L~~L~l~~~~~l~~lp~~~~~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~  653 (863)
                      |.++.+|..+.  ++|++|++++| .+..++...+.++++|++|++.+|.....  ......+.++++|+.|+++.+...
T Consensus       110 n~l~~l~~~~~--~~L~~L~l~~n-~l~~~~~~~~~~l~~L~~L~l~~n~l~~~--~~~~~~~~~l~~L~~L~l~~n~l~  184 (330)
T 1xku_A          110 NQLKELPEKMP--KTLQELRVHEN-EITKVRKSVFNGLNQMIVVELGTNPLKSS--GIENGAFQGMKKLSYIRIADTNIT  184 (330)
T ss_dssp             SCCSBCCSSCC--TTCCEEECCSS-CCCBBCHHHHTTCTTCCEEECCSSCCCGG--GBCTTGGGGCTTCCEEECCSSCCC
T ss_pred             CcCCccChhhc--ccccEEECCCC-cccccCHhHhcCCccccEEECCCCcCCcc--CcChhhccCCCCcCEEECCCCccc
Confidence            99999998765  79999999998 66788877789999999999998877532  123456778899999998877654


Q ss_pred             HHHHHhhhhhhhhcceeeeeccccCCCcccccchhhcCCCceEEEcCCcccccceeccccccccccccccCcccEEEEec
Q 048126          654 ALQELLISQELQRCTQSLFLRCFNDSKSLDIFCLACLHNLNKLYVAGRKHLEDFQMTVQRSSVNQLARGFHSLHTVKVGF  733 (863)
Q Consensus       654 ~~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~l~~~~~~~~~~~~~~~l~~L~~L~L~~  733 (863)
                      .++.     ...++|+.|+++++. ........+..+++|+.|++++|.. +.+.+..+        ..+++|++|+|++
T Consensus       185 ~l~~-----~~~~~L~~L~l~~n~-l~~~~~~~~~~l~~L~~L~Ls~n~l-~~~~~~~~--------~~l~~L~~L~L~~  249 (330)
T 1xku_A          185 TIPQ-----GLPPSLTELHLDGNK-ITKVDAASLKGLNNLAKLGLSFNSI-SAVDNGSL--------ANTPHLRELHLNN  249 (330)
T ss_dssp             SCCS-----SCCTTCSEEECTTSC-CCEECTGGGTTCTTCCEEECCSSCC-CEECTTTG--------GGSTTCCEEECCS
T ss_pred             cCCc-----cccccCCEEECCCCc-CCccCHHHhcCCCCCCEEECCCCcC-ceeChhhc--------cCCCCCCEEECCC
Confidence            3321     112577777777654 3333334566677788888877643 32333222        2367788888877


Q ss_pred             cCCCCCCc-hhhccCCCcEEEEeccccchhhccccccccccCCCCCCCCcCCccceeccCCCccccccc---cCCCCCCC
Q 048126          734 CFKLKDLT-WLVFAPSLKSIVVLSCCNMEQIIKAEKLSQLHHHPERKKSVFAKLQFLSLENLRNLCCIN---WEALAFPN  809 (863)
Q Consensus       734 c~~l~~l~-~l~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~~~p~L~~L~l~~~~~L~~i~---~~~~~~p~  809 (863)
                      | .++.+| .+..+++|+.|+++++. ++.+....+.+      ......++.|+.|++.+.+- ..+.   .....+++
T Consensus       250 N-~l~~lp~~l~~l~~L~~L~l~~N~-i~~~~~~~f~~------~~~~~~~~~l~~l~l~~N~~-~~~~i~~~~f~~~~~  320 (330)
T 1xku_A          250 N-KLVKVPGGLADHKYIQVVYLHNNN-ISAIGSNDFCP------PGYNTKKASYSGVSLFSNPV-QYWEIQPSTFRCVYV  320 (330)
T ss_dssp             S-CCSSCCTTTTTCSSCCEEECCSSC-CCCCCTTSSSC------SSCCTTSCCCSEEECCSSSS-CGGGSCGGGGTTCCC
T ss_pred             C-cCccCChhhccCCCcCEEECCCCc-CCccChhhcCC------cccccccccccceEeecCcc-cccccCccccccccc
Confidence            7 455554 46677778888877743 55443221111      01122356777777776542 2211   12233556


Q ss_pred             cceEeecCC
Q 048126          810 LKEIRVEGC  818 (863)
Q Consensus       810 L~~L~i~~C  818 (863)
                      |+.++++++
T Consensus       321 l~~l~L~~N  329 (330)
T 1xku_A          321 RAAVQLGNY  329 (330)
T ss_dssp             GGGEEC---
T ss_pred             eeEEEeccc
Confidence            666666553

>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*

Probab=99.84  E-value=2.4e-20  Score=216.38  Aligned_cols=134  Identities=19%  Similarity=0.288  Sum_probs=103.2

Q ss_pred             ccccccceEEEEeccccccccc--cCCCCCccceEEccCCccccccchhhhcCCCccEEEccCCCccc-cCCccccccCC
Q 048126          489 EIQNWRNVRRMSLMKNKIENLS--ETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLW-KLPSGISTLVS  565 (863)
Q Consensus       489 ~~~~~~~lr~L~l~~~~~~~l~--~~~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~-~lp~~i~~l~~  565 (863)
                      .+..++++++|++++|.+..++  .+..+++|++|++++|.+..+++..|+++++|++|++++|.+.+ ..|..++++++
T Consensus        45 ~~~~l~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~l~~  124 (549)
T 2z81_A           45 DLRACANLQVLILKSSRINTIEGDAFYSLGSLEHLDLSDNHLSSLSSSWFGPLSSLKYLNLMGNPYQTLGVTSLFPNLTN  124 (549)
T ss_dssp             TTSSCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECTTSCCCSCCHHHHTTCTTCCEEECTTCCCSSSCSSCSCTTCTT
T ss_pred             hhhcCCcccEEECCCCCcCccChhhccccccCCEEECCCCccCccCHHHhccCCCCcEEECCCCcccccchhhhhhccCC
Confidence            4677889999999999887765  36788999999999999998888888999999999999995543 45778889999


Q ss_pred             CCeEEccCCC-ccccc-hhhhcCCCCCEEecCCccccCCCcHHHhhcCCCCcEEEeeccc
Q 048126          566 LEHLDLSGTA-ITHLP-IELQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRILKSN  623 (863)
Q Consensus       566 L~~L~L~~~~-l~~lp-~~~~~l~~L~~L~l~~~~~l~~lp~~~~~~L~~L~~L~l~~~~  623 (863)
                      |++|++++|. +..+| ..+.++++|++|++++|......|.. ++.+++|++|++..+.
T Consensus       125 L~~L~L~~n~~~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~-l~~l~~L~~L~l~~n~  183 (549)
T 2z81_A          125 LQTLRIGNVETFSEIRRIDFAGLTSLNELEIKALSLRNYQSQS-LKSIRDIHHLTLHLSE  183 (549)
T ss_dssp             CCEEEEEESSSCCEECTTTTTTCCEEEEEEEEETTCCEECTTT-TTTCSEEEEEEEECSB
T ss_pred             ccEEECCCCccccccCHhhhhcccccCeeeccCCcccccChhh-hhccccCceEecccCc
Confidence            9999999986 66776 46888888888888887432234443 5556666666655544

>3j0a_A TOLL-like receptor 5; membrane protein, leucine-rich repeat, asymmetric homodimer, glycoprotein, immune system; HET: NAG FUC; 26.00A {Homo sapiens}

Probab=99.84  E-value=3.6e-20  Score=225.29  Aligned_cols=322  Identities=15%  Similarity=0.114  Sum_probs=232.6

Q ss_pred             EEEEeccccccccccCCCCCccceEEccCCccccccchhhhcCCCccEEEccCCCccccC-CccccccCCCCeEEccCCC
Q 048126          497 RRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKL-PSGISTLVSLEHLDLSGTA  575 (863)
Q Consensus       497 r~L~l~~~~~~~l~~~~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~l-p~~i~~l~~L~~L~L~~~~  575 (863)
                      +..+.+++.+..+|.  ..++|++|+|++|.++.+++..|.++++|++|+|++|.....+ |..++++++|++|+|++|.
T Consensus         7 ~~~dcs~~~L~~vP~--lp~~l~~LdLs~N~i~~i~~~~~~~l~~L~~LdLs~n~~~~~i~~~~f~~L~~L~~L~Ls~N~   84 (844)
T 3j0a_A            7 RIAFYRFCNLTQVPQ--VLNTTERLLLSFNYIRTVTASSFPFLEQLQLLELGSQYTPLTIDKEAFRNLPNLRILDLGSSK   84 (844)
T ss_dssp             EEEEESCCCSSCCCS--SCTTCCEEEEESCCCCEECSSSCSSCCSCSEEEECTTCCCCEECTTTTSSCTTCCEEECTTCC
T ss_pred             eEEEccCCCCCCCCC--CCCCcCEEECCCCcCCccChhHCcccccCeEEeCCCCCCccccCHHHhcCCCCCCEEECCCCc
Confidence            456667778888887  6689999999999999988888999999999999999666666 7889999999999999999


Q ss_pred             cccc-chhhhcCCCCCEEecCCccccCCCcH-HHhhcCCCCcEEEeeccccccCchhhHHHHHcCCccCceEEEEEcChH
Q 048126          576 ITHL-PIELQKLVNLKCLNLEYMYNLNQFPR-LVMSAFSKLQVLRILKSNVLFGGHQFLVEELMGMKHLMALTITLKSWE  653 (863)
Q Consensus       576 l~~l-p~~~~~l~~L~~L~l~~~~~l~~lp~-~~~~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~  653 (863)
                      ++.+ |..++++++|++|++++|.....+|. ..++++++|++|++++|.+...   .....++++++|+.|+++.+...
T Consensus        85 l~~~~p~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~~L~~L~~L~Ls~N~l~~~---~~~~~~~~L~~L~~L~Ls~N~i~  161 (844)
T 3j0a_A           85 IYFLHPDAFQGLFHLFELRLYFCGLSDAVLKDGYFRNLKALTRLDLSKNQIRSL---YLHPSFGKLNSLKSIDFSSNQIF  161 (844)
T ss_dssp             CCEECTTSSCSCSSCCCEECTTCCCSSCCSTTCCCSSCSSCCEEEEESCCCCCC---CCCGGGGTCSSCCEEEEESSCCC
T ss_pred             CcccCHhHccCCcccCEeeCcCCCCCcccccCccccccCCCCEEECCCCccccc---ccchhHhhCCCCCEEECCCCcCC
Confidence            9976 78899999999999999943333443 3478999999999999987642   12246889999999999987653


Q ss_pred             HHH--HHhhhhhhhhcceeeeeccccCCCcccccchhhcC------CCceEEEcCCcccccceeccccc-----------
Q 048126          654 ALQ--ELLISQELQRCTQSLFLRCFNDSKSLDIFCLACLH------NLNKLYVAGRKHLEDFQMTVQRS-----------  714 (863)
Q Consensus       654 ~~~--~l~~~~~~~~~L~~L~l~~~~~~~~~~~~~l~~~~------~L~~L~l~~~~~~~~l~~~~~~~-----------  714 (863)
                      ...  .+...  ..++|+.|.++++.-....+ ..+..++      +|+.|++++|......+......           
T Consensus       162 ~~~~~~l~~l--~~~~L~~L~L~~n~l~~~~~-~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~~~~~l~~~~l~~L~l  238 (844)
T 3j0a_A          162 LVCEHELEPL--QGKTLSFFSLAANSLYSRVS-VDWGKCMNPFRNMVLEILDVSGNGWTVDITGNFSNAISKSQAFSLIL  238 (844)
T ss_dssp             CCCSGGGHHH--HHCSSCCCEECCSBSCCCCC-CCCCSSSCTTTTCCBSEEBCSSCCSSTTTTSGGGGTSCSCCBSEEEC
T ss_pred             eeCHHHcccc--cCCccceEECCCCccccccc-cchhhcCCccccCceeEEecCCCcCchhHHHHHHhhcCcccccceec
Confidence            221  11110  01589999998865433222 1222222      49999999874322111111000           


Q ss_pred             ------------------cccccccccCcccEEEEeccCCCCCCc--hhhccCCCcEEEEeccccchhhccccccccccC
Q 048126          715 ------------------SVNQLARGFHSLHTVKVGFCFKLKDLT--WLVFAPSLKSIVVLSCCNMEQIIKAEKLSQLHH  774 (863)
Q Consensus       715 ------------------~~~~~~~~l~~L~~L~L~~c~~l~~l~--~l~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~  774 (863)
                                        ...+.....++|+.|+|++|. +..++  .++.+++|+.|+|+++. +..+.          
T Consensus       239 ~~~~~~~~~~~~~l~~~~~~~f~~l~~~~L~~L~Ls~n~-l~~~~~~~~~~l~~L~~L~L~~n~-i~~~~----------  306 (844)
T 3j0a_A          239 AHHIMGAGFGFHNIKDPDQNTFAGLARSSVRHLDLSHGF-VFSLNSRVFETLKDLKVLNLAYNK-INKIA----------  306 (844)
T ss_dssp             CSSCCBCSSSCSSSTTGGGTTTTTTTTSCCCEEECTTCC-CCEECSCCSSSCCCCCEEEEESCC-CCEEC----------
T ss_pred             ccccccccccccccCCCChhhhhccccCCccEEECCCCc-ccccChhhhhcCCCCCEEECCCCc-CCCCC----------
Confidence                              000011123789999999984 44442  46789999999999964 54442          


Q ss_pred             CCCCCCCcCCccceeccCCCcccccc-ccCCCCCCCcceEeecCCCCCCCCCCCCC-C-CCCCceEEEccc
Q 048126          775 HPERKKSVFAKLQFLSLENLRNLCCI-NWEALAFPNLKEIRVEGCPKLFKLPLDSN-S-AKGCKVVIKGEE  842 (863)
Q Consensus       775 ~~~~~~~~~p~L~~L~l~~~~~L~~i-~~~~~~~p~L~~L~i~~C~~L~~lp~~~~-~-~~L~~l~i~~~~  842 (863)
                        +..+..+++|+.|+|+++ .+..+ +.....+++|+.|++++| ++..+|.... . ++|+.+.+.++.
T Consensus       307 --~~~~~~l~~L~~L~Ls~N-~l~~~~~~~~~~l~~L~~L~L~~N-~i~~~~~~~~~~l~~L~~L~Ls~N~  373 (844)
T 3j0a_A          307 --DEAFYGLDNLQVLNLSYN-LLGELYSSNFYGLPKVAYIDLQKN-HIAIIQDQTFKFLEKLQTLDLRDNA  373 (844)
T ss_dssp             --TTTTTTCSSCCEEEEESC-CCSCCCSCSCSSCTTCCEEECCSC-CCCCCCSSCSCSCCCCCEEEEETCC
T ss_pred             --hHHhcCCCCCCEEECCCC-CCCccCHHHhcCCCCCCEEECCCC-CCCccChhhhcCCCCCCEEECCCCC
Confidence              345778999999999986 45554 445667999999999997 7888876433 2 899999999764

>1ziw_A TOLL-like receptor 3; innate immunity, immune system; HET: NDG NAG; 2.10A {Homo sapiens} PDB: 2a0z_A* 3cig_A* 3ciy_A*

Probab=99.84  E-value=5e-20  Score=219.48  Aligned_cols=169  Identities=22%  Similarity=0.256  Sum_probs=122.1

Q ss_pred             EEEEcCCCcccCcccccccceEEEEecccccccccc--CCCCCccceEEccCCccccccchhhhcCCCccEEEccCCCcc
Q 048126          476 FLVHAGLGLTEAPEIQNWRNVRRMSLMKNKIENLSE--TPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLL  553 (863)
Q Consensus       476 ~~~~~~~~~~~~~~~~~~~~lr~L~l~~~~~~~l~~--~~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~  553 (863)
                      .+.+.+.....+|... .+++++|++++|.+..++.  +..+++|++|++++|.+..+++..|.++++|++|+|++|. +
T Consensus         8 ~~~cs~~~L~~ip~~~-~~~l~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~n~-l   85 (680)
T 1ziw_A            8 VADCSHLKLTQVPDDL-PTNITVLNLTHNQLRRLPAANFTRYSQLTSLDVGFNTISKLEPELCQKLPMLKVLNLQHNE-L   85 (680)
T ss_dssp             EEECCSSCCSSCCSCS-CTTCSEEECCSSCCCCCCGGGGGGGTTCSEEECCSSCCCCCCTTHHHHCTTCCEEECCSSC-C
T ss_pred             eeECCCCCcccccccc-CCCCcEEECCCCCCCCcCHHHHhCCCcCcEEECCCCccCccCHHHHhcccCcCEEECCCCc-c
Confidence            3444444555555322 2678999999888877754  5788889999999988888888888889999999999884 4


Q ss_pred             ccCCc-cccccCCCCeEEccCCCccccc-hhhhcCCCCCEEecCCccccCCCcHHHhhcCCCCcEEEeeccccccCchhh
Q 048126          554 WKLPS-GISTLVSLEHLDLSGTAITHLP-IELQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRILKSNVLFGGHQF  631 (863)
Q Consensus       554 ~~lp~-~i~~l~~L~~L~L~~~~l~~lp-~~~~~l~~L~~L~l~~~~~l~~lp~~~~~~L~~L~~L~l~~~~~~~~~~~~  631 (863)
                      ..+|. .++++++|++|++++|.++.+| ..++++++|++|++++| .+..++...++++++|++|++.+|.+...    
T Consensus        86 ~~l~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~Ls~n-~l~~~~~~~~~~l~~L~~L~L~~n~l~~~----  160 (680)
T 1ziw_A           86 SQLSDKTFAFCTNLTELHLMSNSIQKIKNNPFVKQKNLITLDLSHN-GLSSTKLGTQVQLENLQELLLSNNKIQAL----  160 (680)
T ss_dssp             CCCCTTTTTTCTTCSEEECCSSCCCCCCSCTTTTCTTCCEEECCSS-CCSCCCCCSSSCCTTCCEEECCSSCCCCB----
T ss_pred             CccChhhhccCCCCCEEECCCCccCccChhHccccCCCCEEECCCC-cccccCchhhcccccCCEEEccCCccccc----
Confidence            45554 6888899999999998888776 46888899999999888 44555444467888888888888766432    


Q ss_pred             HHHHH--cCCccCceEEEEEcC
Q 048126          632 LVEEL--MGMKHLMALTITLKS  651 (863)
Q Consensus       632 ~~~~l--~~L~~L~~L~l~~~~  651 (863)
                      ....+  ..+++|+.|+++.+.
T Consensus       161 ~~~~~~~~~~~~L~~L~L~~n~  182 (680)
T 1ziw_A          161 KSEELDIFANSSLKKLELSSNQ  182 (680)
T ss_dssp             CHHHHGGGTTCEESEEECTTCC
T ss_pred             CHHHhhccccccccEEECCCCc
Confidence            12222  244667777766543

>1ziw_A TOLL-like receptor 3; innate immunity, immune system; HET: NDG NAG; 2.10A {Homo sapiens} PDB: 2a0z_A* 3cig_A* 3ciy_A*

Probab=99.83  E-value=4.9e-20  Score=219.56  Aligned_cols=247  Identities=14%  Similarity=0.131  Sum_probs=177.7

Q ss_pred             EEEEeccccccccccCCCCCccceEEccCCccccccchhhhcCCCccEEEccCCCccccCCccccccCCCCeEEccCCCc
Q 048126          497 RRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAI  576 (863)
Q Consensus       497 r~L~l~~~~~~~l~~~~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~~~l  576 (863)
                      +.++.+++.+..+|... .+++++|++++|.++.+++..|.++++|++|+|++|.+.+..|..++++++|++|++++|.+
T Consensus         7 ~~~~cs~~~L~~ip~~~-~~~l~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~n~l   85 (680)
T 1ziw_A            7 EVADCSHLKLTQVPDDL-PTNITVLNLTHNQLRRLPAANFTRYSQLTSLDVGFNTISKLEPELCQKLPMLKVLNLQHNEL   85 (680)
T ss_dssp             SEEECCSSCCSSCCSCS-CTTCSEEECCSSCCCCCCGGGGGGGTTCSEEECCSSCCCCCCTTHHHHCTTCCEEECCSSCC
T ss_pred             CeeECCCCCcccccccc-CCCCcEEECCCCCCCCcCHHHHhCCCcCcEEECCCCccCccCHHHHhcccCcCEEECCCCcc
Confidence            45777777787777532 37999999999999999988899999999999999977666788999999999999999999


Q ss_pred             cccch-hhhcCCCCCEEecCCccccCCCcHHHhhcCCCCcEEEeeccccccCchhhHHHHHcCCccCceEEEEEcChHHH
Q 048126          577 THLPI-ELQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRILKSNVLFGGHQFLVEELMGMKHLMALTITLKSWEAL  655 (863)
Q Consensus       577 ~~lp~-~~~~l~~L~~L~l~~~~~l~~lp~~~~~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~~~  655 (863)
                      +.+|. .++++++|++|++++| .+..+|...++++++|++|++.+|.+...    .+..+.++++|+.|+++.+....+
T Consensus        86 ~~l~~~~~~~l~~L~~L~L~~n-~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~----~~~~~~~l~~L~~L~L~~n~l~~~  160 (680)
T 1ziw_A           86 SQLSDKTFAFCTNLTELHLMSN-SIQKIKNNPFVKQKNLITLDLSHNGLSST----KLGTQVQLENLQELLLSNNKIQAL  160 (680)
T ss_dssp             CCCCTTTTTTCTTCSEEECCSS-CCCCCCSCTTTTCTTCCEEECCSSCCSCC----CCCSSSCCTTCCEEECCSSCCCCB
T ss_pred             CccChhhhccCCCCCEEECCCC-ccCccChhHccccCCCCEEECCCCccccc----CchhhcccccCCEEEccCCccccc
Confidence            99987 5999999999999999 56778765589999999999999877542    334467899999999988765433


Q ss_pred             HHHhhhhhhhhcceeeeeccccCCCcccccchhhc---------------------------CCCceEEEcCCcccccce
Q 048126          656 QELLISQELQRCTQSLFLRCFNDSKSLDIFCLACL---------------------------HNLNKLYVAGRKHLEDFQ  708 (863)
Q Consensus       656 ~~l~~~~~~~~~L~~L~l~~~~~~~~~~~~~l~~~---------------------------~~L~~L~l~~~~~~~~l~  708 (863)
                      ..........++|+.|+++++.- .......+..+                           ++|+.|++++|.... ..
T Consensus       161 ~~~~~~~~~~~~L~~L~L~~n~l-~~~~~~~~~~l~~L~~L~l~~~~l~~~~~~~~~~~l~~~~L~~L~L~~n~l~~-~~  238 (680)
T 1ziw_A          161 KSEELDIFANSSLKKLELSSNQI-KEFSPGCFHAIGRLFGLFLNNVQLGPSLTEKLCLELANTSIRNLSLSNSQLST-TS  238 (680)
T ss_dssp             CHHHHGGGTTCEESEEECTTCCC-CCBCTTGGGGSSEECEEECTTCCCHHHHHHHHHHHHTTSCCCEEECTTSCCCE-EC
T ss_pred             CHHHhhccccccccEEECCCCcc-cccChhhhhhhhhhhhhhccccccChhhHHHHHHHhhhccccEEEccCCcccc-cC
Confidence            22111111125889999987642 22222223222                           456666666653222 22


Q ss_pred             eccccccccccccccCcccEEEEeccCCCCCCc--hhhccCCCcEEEEeccc
Q 048126          709 MTVQRSSVNQLARGFHSLHTVKVGFCFKLKDLT--WLVFAPSLKSIVVLSCC  758 (863)
Q Consensus       709 ~~~~~~~~~~~~~~l~~L~~L~L~~c~~l~~l~--~l~~l~~L~~L~l~~~~  758 (863)
                      +.++..      ...++|++|+|++|. ++.++  .++.+++|+.|+++++.
T Consensus       239 ~~~~~~------l~~~~L~~L~Ls~n~-l~~~~~~~~~~l~~L~~L~L~~n~  283 (680)
T 1ziw_A          239 NTTFLG------LKWTNLTMLDLSYNN-LNVVGNDSFAWLPQLEYFFLEYNN  283 (680)
T ss_dssp             TTTTGG------GGGSCCCEEECTTSC-CCEECTTTTTTCTTCCEEECCSCC
T ss_pred             hhHhhc------cCcCCCCEEECCCCC-cCccCcccccCcccccEeeCCCCc
Confidence            222210      112448888888873 44433  46678888888888754

>3bz5_A Internalin-J, INLJ; leucine rich repeat (LRR), cysteine ladder, asparagine ladder, virulence factor, solenoid, cell WALL; 2.70A {Listeria monocytogenes}

Probab=99.83  E-value=4.8e-20  Score=207.09  Aligned_cols=308  Identities=15%  Similarity=0.118  Sum_probs=223.0

Q ss_pred             EEEcCCCcccCcccccccceEEEEeccccccccccCCCCCccceEEccCCccccccchhhhcCCCccEEEccCCCccccC
Q 048126          477 LVHAGLGLTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKL  556 (863)
Q Consensus       477 ~~~~~~~~~~~~~~~~~~~lr~L~l~~~~~~~l~~~~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~l  556 (863)
                      +...+......+.+..+++++.|++++|.+..++ +..+++|++|++++|.++.++   ++++++|++|++++|.+ ..+
T Consensus        47 L~Ls~n~l~~~~~l~~l~~L~~L~Ls~n~l~~~~-~~~l~~L~~L~Ls~N~l~~~~---~~~l~~L~~L~L~~N~l-~~l  121 (457)
T 3bz5_A           47 LDCHNSSITDMTGIEKLTGLTKLICTSNNITTLD-LSQNTNLTYLACDSNKLTNLD---VTPLTKLTYLNCDTNKL-TKL  121 (457)
T ss_dssp             EECCSSCCCCCTTGGGCTTCSEEECCSSCCSCCC-CTTCTTCSEEECCSSCCSCCC---CTTCTTCCEEECCSSCC-SCC
T ss_pred             EEccCCCcccChhhcccCCCCEEEccCCcCCeEc-cccCCCCCEEECcCCCCceee---cCCCCcCCEEECCCCcC-Cee
Confidence            3344445555567888899999999999999886 889999999999999998875   78999999999999954 456


Q ss_pred             CccccccCCCCeEEccCCCccccchhhhcCCCCCEEecCCccccCCCcHHHhhcCCCCcEEEeeccccccCchhhHHHHH
Q 048126          557 PSGISTLVSLEHLDLSGTAITHLPIELQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRILKSNVLFGGHQFLVEEL  636 (863)
Q Consensus       557 p~~i~~l~~L~~L~L~~~~l~~lp~~~~~l~~L~~L~l~~~~~l~~lp~~~~~~L~~L~~L~l~~~~~~~~~~~~~~~~l  636 (863)
                      |  ++.+++|++|++++|.++.+|  ++.+++|++|++++|..+..++   ++.+++|++|++.+|.+..-       .+
T Consensus       122 ~--~~~l~~L~~L~l~~N~l~~l~--l~~l~~L~~L~l~~n~~~~~~~---~~~l~~L~~L~ls~n~l~~l-------~l  187 (457)
T 3bz5_A          122 D--VSQNPLLTYLNCARNTLTEID--VSHNTQLTELDCHLNKKITKLD---VTPQTQLTTLDCSFNKITEL-------DV  187 (457)
T ss_dssp             C--CTTCTTCCEEECTTSCCSCCC--CTTCTTCCEEECTTCSCCCCCC---CTTCTTCCEEECCSSCCCCC-------CC
T ss_pred             c--CCCCCcCCEEECCCCccceec--cccCCcCCEEECCCCCcccccc---cccCCcCCEEECCCCcccee-------cc
Confidence            6  899999999999999999886  8899999999999997777774   67899999999999987642       17


Q ss_pred             cCCccCceEEEEEcChHHHHHHhhhhhhhhcceeeeeccccCCCcccccchhhcCCCceEEEcCCcccccceeccccccc
Q 048126          637 MGMKHLMALTITLKSWEALQELLISQELQRCTQSLFLRCFNDSKSLDIFCLACLHNLNKLYVAGRKHLEDFQMTVQRSSV  716 (863)
Q Consensus       637 ~~L~~L~~L~l~~~~~~~~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~l~~~~~~~~~  716 (863)
                      ..+++|+.|+++.+....++     ....++|+.|+++++.- +.++   +..+++|+.|++++|.. +.+++..+..-.
T Consensus       188 ~~l~~L~~L~l~~N~l~~~~-----l~~l~~L~~L~Ls~N~l-~~ip---~~~l~~L~~L~l~~N~l-~~~~~~~l~~L~  257 (457)
T 3bz5_A          188 SQNKLLNRLNCDTNNITKLD-----LNQNIQLTFLDCSSNKL-TEID---VTPLTQLTYFDCSVNPL-TELDVSTLSKLT  257 (457)
T ss_dssp             TTCTTCCEEECCSSCCSCCC-----CTTCTTCSEEECCSSCC-SCCC---CTTCTTCSEEECCSSCC-SCCCCTTCTTCC
T ss_pred             ccCCCCCEEECcCCcCCeec-----cccCCCCCEEECcCCcc-cccC---ccccCCCCEEEeeCCcC-CCcCHHHCCCCC
Confidence            78899999999988766541     22346899999988653 3333   67789999999999754 333322110000


Q ss_pred             cccccccCcccEEEEeccCCCCCCchhhccCCCcEEEEeccccchhhccccccccccCCCCCCCCcCCccceeccCCCcc
Q 048126          717 NQLARGFHSLHTVKVGFCFKLKDLTWLVFAPSLKSIVVLSCCNMEQIIKAEKLSQLHHHPERKKSVFAKLQFLSLENLRN  796 (863)
Q Consensus       717 ~~~~~~l~~L~~L~L~~c~~l~~l~~l~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~~~p~L~~L~l~~~~~  796 (863)
                       ...-...+|+.|++++|.....+| .+.+++|+.|++++|..++.+....  ..+.   .-.+..+|+|+.|+++++ +
T Consensus       258 -~L~l~~n~L~~L~l~~n~~~~~~~-~~~l~~L~~L~Ls~n~~l~~l~~~~--~~L~---~L~l~~~~~L~~L~L~~N-~  329 (457)
T 3bz5_A          258 -TLHCIQTDLLEIDLTHNTQLIYFQ-AEGCRKIKELDVTHNTQLYLLDCQA--AGIT---ELDLSQNPKLVYLYLNNT-E  329 (457)
T ss_dssp             -EEECTTCCCSCCCCTTCTTCCEEE-CTTCTTCCCCCCTTCTTCCEEECTT--CCCS---CCCCTTCTTCCEEECTTC-C
T ss_pred             -EEeccCCCCCEEECCCCccCCccc-ccccccCCEEECCCCcccceeccCC--Ccce---EechhhcccCCEEECCCC-c
Confidence             000011244555556665444454 4678999999999998766653210  0000   123556678888888773 5


Q ss_pred             ccccccCCCCCCCcceEeecCCCCCCCC
Q 048126          797 LCCINWEALAFPNLKEIRVEGCPKLFKL  824 (863)
Q Consensus       797 L~~i~~~~~~~p~L~~L~i~~C~~L~~l  824 (863)
                      ++.++  ...+++|+.|+++++ +++.+
T Consensus       330 l~~l~--l~~l~~L~~L~l~~N-~l~~l  354 (457)
T 3bz5_A          330 LTELD--VSHNTKLKSLSCVNA-HIQDF  354 (457)
T ss_dssp             CSCCC--CTTCTTCSEEECCSS-CCCBC
T ss_pred             ccccc--cccCCcCcEEECCCC-CCCCc
Confidence            66653  556889999988763 55543

>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}

Probab=99.83  E-value=1.8e-20  Score=201.43  Aligned_cols=91  Identities=22%  Similarity=0.346  Sum_probs=77.1

Q ss_pred             CCCccceEEccCCccccccchhhhcCCCccEEEccCCCccccCCccccccCCCCeEEccCCCccccchhhhcCCCCCEEe
Q 048126          514 TCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAITHLPIELQKLVNLKCLN  593 (863)
Q Consensus       514 ~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~~~l~~lp~~~~~l~~L~~L~  593 (863)
                      ..++++.|++++|.+..+|+. +.++++|++|+|++|.+. .+|..++++++|++|++++|.++.+|..++++++|++|+
T Consensus        79 ~~~~l~~L~L~~n~l~~lp~~-l~~l~~L~~L~L~~n~l~-~lp~~~~~l~~L~~L~Ls~n~l~~lp~~l~~l~~L~~L~  156 (328)
T 4fcg_A           79 TQPGRVALELRSVPLPQFPDQ-AFRLSHLQHMTIDAAGLM-ELPDTMQQFAGLETLTLARNPLRALPASIASLNRLRELS  156 (328)
T ss_dssp             TSTTCCEEEEESSCCSSCCSC-GGGGTTCSEEEEESSCCC-CCCSCGGGGTTCSEEEEESCCCCCCCGGGGGCTTCCEEE
T ss_pred             cccceeEEEccCCCchhcChh-hhhCCCCCEEECCCCCcc-chhHHHhccCCCCEEECCCCccccCcHHHhcCcCCCEEE
Confidence            356788888888888888876 566999999999999544 889889999999999999999889999999999999999


Q ss_pred             cCCccccCCCcHH
Q 048126          594 LEYMYNLNQFPRL  606 (863)
Q Consensus       594 l~~~~~l~~lp~~  606 (863)
                      +++|..+..+|..
T Consensus       157 L~~n~~~~~~p~~  169 (328)
T 4fcg_A          157 IRACPELTELPEP  169 (328)
T ss_dssp             EEEETTCCCCCSC
T ss_pred             CCCCCCccccChh
Confidence            9998777777764

>2z63_A TOLL-like receptor 4, variable lymphocyte recepto; TLR4, MD-2, LPS, immune system; HET: NAG FUL; 2.00A {Homo sapiens}

Probab=99.83  E-value=3.6e-20  Score=216.02  Aligned_cols=116  Identities=18%  Similarity=0.127  Sum_probs=79.4

Q ss_pred             hhhcCCCceEEEcCCcccccceeccccccccccccccCcccEEEEeccCCC-CCCc-hhhccCCCcEEEEeccccchhhc
Q 048126          687 LACLHNLNKLYVAGRKHLEDFQMTVQRSSVNQLARGFHSLHTVKVGFCFKL-KDLT-WLVFAPSLKSIVVLSCCNMEQII  764 (863)
Q Consensus       687 l~~~~~L~~L~l~~~~~~~~l~~~~~~~~~~~~~~~l~~L~~L~L~~c~~l-~~l~-~l~~l~~L~~L~l~~~~~l~~i~  764 (863)
                      +..+++|++|++++|.... ..+..+        ..+++|++|+|++|... ..+| .++.+++|+.|++++|. ++.+.
T Consensus       417 ~~~l~~L~~L~l~~n~l~~-~~~~~~--------~~l~~L~~L~l~~n~l~~~~~p~~~~~l~~L~~L~l~~n~-l~~~~  486 (570)
T 2z63_A          417 FLSLRNLIYLDISHTHTRV-AFNGIF--------NGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQ-LEQLS  486 (570)
T ss_dssp             TTTCTTCCEEECTTSCCEE-CCTTTT--------TTCTTCCEEECTTCEEGGGEECSCCTTCTTCCEEECTTSC-CCEEC
T ss_pred             hhcCCCCCEEeCcCCcccc-cchhhh--------hcCCcCcEEECcCCcCccccchhhhhcccCCCEEECCCCc-cccCC
Confidence            4455666666666654332 222222        35899999999998532 1243 57789999999999975 44431


Q ss_pred             cccccccccCCCCCCCCcCCccceeccCCCccccccccC-CCCCCCcceEeecCCCCCCCCC
Q 048126          765 KAEKLSQLHHHPERKKSVFAKLQFLSLENLRNLCCINWE-ALAFPNLKEIRVEGCPKLFKLP  825 (863)
Q Consensus       765 ~~~~~~~~~~~~~~~~~~~p~L~~L~l~~~~~L~~i~~~-~~~~p~L~~L~i~~C~~L~~lp  825 (863)
                                  +..+..+++|+.|+|+++ .++.++.. ...+++|+.|+++++|--...|
T Consensus       487 ------------~~~~~~l~~L~~L~l~~n-~l~~~~~~~~~~l~~L~~L~l~~N~~~~~~~  535 (570)
T 2z63_A          487 ------------PTAFNSLSSLQVLNMASN-QLKSVPDGIFDRLTSLQKIWLHTNPWDCSCP  535 (570)
T ss_dssp             ------------TTTTTTCTTCCEEECCSS-CCSCCCTTTTTTCTTCCEEECCSSCBCCCTT
T ss_pred             ------------hhhhhcccCCCEEeCCCC-cCCCCCHHHhhcccCCcEEEecCCcccCCCc
Confidence                        345678999999999996 56666543 4568999999999975443344

>1ogq_A PGIP-2, polygalacturonase inhibiting protein; inhibitor; HET: NAG; 1.7A {Phaseolus vulgaris} SCOP: c.10.2.8

Probab=99.82  E-value=2.3e-20  Score=199.26  Aligned_cols=129  Identities=19%  Similarity=0.266  Sum_probs=73.7

Q ss_pred             ceEEEEeccccccc---c-ccCCCCCccceEEccC-CccccccchhhhcCCCccEEEccCCCccccCCccccccCCCCeE
Q 048126          495 NVRRMSLMKNKIEN---L-SETPTCPHLLSLFLSD-NSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHL  569 (863)
Q Consensus       495 ~lr~L~l~~~~~~~---l-~~~~~~~~L~~L~l~~-~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L  569 (863)
                      +++.|+++++.+.+   + +.+..+++|++|++++ |.+....+..|.++++|++|+|++|.+.+.+|..++++++|++|
T Consensus        51 ~l~~L~L~~~~l~~~~~~~~~l~~l~~L~~L~L~~~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~~~p~~~~~l~~L~~L  130 (313)
T 1ogq_A           51 RVNNLDLSGLNLPKPYPIPSSLANLPYLNFLYIGGINNLVGPIPPAIAKLTQLHYLYITHTNVSGAIPDFLSQIKTLVTL  130 (313)
T ss_dssp             CEEEEEEECCCCSSCEECCGGGGGCTTCSEEEEEEETTEESCCCGGGGGCTTCSEEEEEEECCEEECCGGGGGCTTCCEE
T ss_pred             eEEEEECCCCCccCCcccChhHhCCCCCCeeeCCCCCcccccCChhHhcCCCCCEEECcCCeeCCcCCHHHhCCCCCCEE
Confidence            56666666666543   2 2345566666666663 55543333335666666666666664444566666666666666


Q ss_pred             EccCCCcc-ccchhhhcCCCCCEEecCCccccCCCcHHHhhcCC-CCcEEEeecccc
Q 048126          570 DLSGTAIT-HLPIELQKLVNLKCLNLEYMYNLNQFPRLVMSAFS-KLQVLRILKSNV  624 (863)
Q Consensus       570 ~L~~~~l~-~lp~~~~~l~~L~~L~l~~~~~l~~lp~~~~~~L~-~L~~L~l~~~~~  624 (863)
                      ++++|.++ .+|..+..+++|++|++++|.....+|.. +..++ +|++|++.+|.+
T Consensus       131 ~Ls~N~l~~~~p~~~~~l~~L~~L~L~~N~l~~~~p~~-l~~l~~~L~~L~L~~N~l  186 (313)
T 1ogq_A          131 DFSYNALSGTLPPSISSLPNLVGITFDGNRISGAIPDS-YGSFSKLFTSMTISRNRL  186 (313)
T ss_dssp             ECCSSEEESCCCGGGGGCTTCCEEECCSSCCEEECCGG-GGCCCTTCCEEECCSSEE
T ss_pred             eCCCCccCCcCChHHhcCCCCCeEECcCCcccCcCCHH-HhhhhhcCcEEECcCCee
Confidence            66666665 55666666666666666666322245544 55555 666666655544

>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}

Probab=99.81  E-value=3.5e-19  Score=191.27  Aligned_cols=238  Identities=19%  Similarity=0.255  Sum_probs=170.4

Q ss_pred             cCCCccEEEccCCCccccCCccccccCCCCeEEccCCCccccchhhhcCCCCCEEecCCccccCCCcHHHhhcCCCCcEE
Q 048126          538 FMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAITHLPIELQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVL  617 (863)
Q Consensus       538 ~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~~~l~~lp~~~~~l~~L~~L~l~~~~~l~~lp~~~~~~L~~L~~L  617 (863)
                      ...++++|+|++| .+..+|..++++++|++|+|++|.++.+|..++++++|++|++++| .+..+|.. ++++++|++|
T Consensus        79 ~~~~l~~L~L~~n-~l~~lp~~l~~l~~L~~L~L~~n~l~~lp~~~~~l~~L~~L~Ls~n-~l~~lp~~-l~~l~~L~~L  155 (328)
T 4fcg_A           79 TQPGRVALELRSV-PLPQFPDQAFRLSHLQHMTIDAAGLMELPDTMQQFAGLETLTLARN-PLRALPAS-IASLNRLREL  155 (328)
T ss_dssp             TSTTCCEEEEESS-CCSSCCSCGGGGTTCSEEEEESSCCCCCCSCGGGGTTCSEEEEESC-CCCCCCGG-GGGCTTCCEE
T ss_pred             cccceeEEEccCC-CchhcChhhhhCCCCCEEECCCCCccchhHHHhccCCCCEEECCCC-ccccCcHH-HhcCcCCCEE
Confidence            3578999999999 4568999999999999999999999999999999999999999999 56789986 8899999999


Q ss_pred             EeeccccccCchhhHHHHHcCCccCceEEEEEcChHHHHHHhhhhhhhhcceeeeeccccCCCcccccchhhcCCCceEE
Q 048126          618 RILKSNVLFGGHQFLVEELMGMKHLMALTITLKSWEALQELLISQELQRCTQSLFLRCFNDSKSLDIFCLACLHNLNKLY  697 (863)
Q Consensus       618 ~l~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~~~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~  697 (863)
                      ++.+|.....    .+..+.                                .+.+.          ..+..+++|+.|+
T Consensus       156 ~L~~n~~~~~----~p~~~~--------------------------------~~~~~----------~~~~~l~~L~~L~  189 (328)
T 4fcg_A          156 SIRACPELTE----LPEPLA--------------------------------STDAS----------GEHQGLVNLQSLR  189 (328)
T ss_dssp             EEEEETTCCC----CCSCSE--------------------------------EEC-C----------CCEEESTTCCEEE
T ss_pred             ECCCCCCccc----cChhHh--------------------------------hccch----------hhhccCCCCCEEE
Confidence            9998765432    110000                                00000          1244567777777


Q ss_pred             EcCCcccccceeccccccccccccccCcccEEEEeccCCCCCCc-hhhccCCCcEEEEeccccchhhccccccccccCCC
Q 048126          698 VAGRKHLEDFQMTVQRSSVNQLARGFHSLHTVKVGFCFKLKDLT-WLVFAPSLKSIVVLSCCNMEQIIKAEKLSQLHHHP  776 (863)
Q Consensus       698 l~~~~~~~~l~~~~~~~~~~~~~~~l~~L~~L~L~~c~~l~~l~-~l~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~  776 (863)
                      +++|... .++.. +        ..+++|++|+|++|. +..+| .++.+++|+.|++++|+....+             
T Consensus       190 L~~n~l~-~lp~~-l--------~~l~~L~~L~L~~N~-l~~l~~~l~~l~~L~~L~Ls~n~~~~~~-------------  245 (328)
T 4fcg_A          190 LEWTGIR-SLPAS-I--------ANLQNLKSLKIRNSP-LSALGPAIHHLPKLEELDLRGCTALRNY-------------  245 (328)
T ss_dssp             EEEECCC-CCCGG-G--------GGCTTCCEEEEESSC-CCCCCGGGGGCTTCCEEECTTCTTCCBC-------------
T ss_pred             CcCCCcC-cchHh-h--------cCCCCCCEEEccCCC-CCcCchhhccCCCCCEEECcCCcchhhh-------------
Confidence            7776433 33322 2        247788888888874 44443 5677888888888887655544             


Q ss_pred             CCCCCcCCccceeccCCCccccccccCCCCCCCcceEeecCCCCCCCCCCCCCC-CCCCceEEEcccccccccee
Q 048126          777 ERKKSVFAKLQFLSLENLRNLCCINWEALAFPNLKEIRVEGCPKLFKLPLDSNS-AKGCKVVIKGEENWWKKATV  850 (863)
Q Consensus       777 ~~~~~~~p~L~~L~l~~~~~L~~i~~~~~~~p~L~~L~i~~C~~L~~lp~~~~~-~~L~~l~i~~~~~~~~~l~w  850 (863)
                      +..+..+++|+.|+|++|..+..++.....+++|+.|++++|+.+..+|..+.. ++++.+.+.  ..+...+.+
T Consensus       246 p~~~~~l~~L~~L~L~~n~~~~~~p~~~~~l~~L~~L~L~~n~~~~~iP~~l~~L~~L~~l~l~--~~~~~~l~~  318 (328)
T 4fcg_A          246 PPIFGGRAPLKRLILKDCSNLLTLPLDIHRLTQLEKLDLRGCVNLSRLPSLIAQLPANCIILVP--PHLQAQLDQ  318 (328)
T ss_dssp             CCCTTCCCCCCEEECTTCTTCCBCCTTGGGCTTCCEEECTTCTTCCCCCGGGGGSCTTCEEECC--GGGSCC---
T ss_pred             HHHhcCCCCCCEEECCCCCchhhcchhhhcCCCCCEEeCCCCCchhhccHHHhhccCceEEeCC--HHHHHHHhh
Confidence            345667888888888888877777777777888888888888888888876655 666666554  344444433

>2ft3_A Biglycan; proteoglycan, dimer interface, structural protein, signaling; HET: NAG FLC; 3.40A {Bos taurus}

Probab=99.80  E-value=3e-19  Score=192.75  Aligned_cols=285  Identities=16%  Similarity=0.145  Sum_probs=206.7

Q ss_pred             ccceEEccCCccccccchhhhcCCCccEEEccCCCccccCCccccccCCCCeEEccCCCcccc-chhhhcCCCCCEEecC
Q 048126          517 HLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAITHL-PIELQKLVNLKCLNLE  595 (863)
Q Consensus       517 ~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~~~l~~l-p~~~~~l~~L~~L~l~  595 (863)
                      +++.++++++.++.+|..+   .++|++|++++|.+....|..++++++|++|++++|.++.+ |..+.++++|++|+++
T Consensus        34 ~l~~l~~~~~~l~~ip~~~---~~~l~~L~l~~n~i~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~  110 (332)
T 2ft3_A           34 HLRVVQCSDLGLKAVPKEI---SPDTTLLDLQNNDISELRKDDFKGLQHLYALVLVNNKISKIHEKAFSPLRKLQKLYIS  110 (332)
T ss_dssp             ETTEEECCSSCCSSCCSCC---CTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCCEECGGGSTTCTTCCEEECC
T ss_pred             cCCEEECCCCCccccCCCC---CCCCeEEECCCCcCCccCHhHhhCCCCCcEEECCCCccCccCHhHhhCcCCCCEEECC
Confidence            6999999999999998764   46899999999965555577899999999999999999977 7789999999999999


Q ss_pred             CccccCCCcHHHhhcCCCCcEEEeeccccccCchhhHHHHHcCCccCceEEEEEcChHHHHHHhhhhhhhhcceeeeecc
Q 048126          596 YMYNLNQFPRLVMSAFSKLQVLRILKSNVLFGGHQFLVEELMGMKHLMALTITLKSWEALQELLISQELQRCTQSLFLRC  675 (863)
Q Consensus       596 ~~~~l~~lp~~~~~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~~~~~l~~~~~~~~~L~~L~l~~  675 (863)
                      +| .+..+|.. +.  ++|++|++.+|.+...    ....+.++++|+.|+++.+............... +|+.|++++
T Consensus       111 ~n-~l~~l~~~-~~--~~L~~L~l~~n~i~~~----~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~~l-~L~~L~l~~  181 (332)
T 2ft3_A          111 KN-HLVEIPPN-LP--SSLVELRIHDNRIRKV----PKGVFSGLRNMNCIEMGGNPLENSGFEPGAFDGL-KLNYLRISE  181 (332)
T ss_dssp             SS-CCCSCCSS-CC--TTCCEEECCSSCCCCC----CSGGGSSCSSCCEEECCSCCCBGGGSCTTSSCSC-CCSCCBCCS
T ss_pred             CC-cCCccCcc-cc--ccCCEEECCCCccCcc----CHhHhCCCccCCEEECCCCccccCCCCcccccCC-ccCEEECcC
Confidence            98 67888875 22  8999999999887532    2334788999999999987764322111111112 788888877


Q ss_pred             ccCCCcccccchhhcCCCceEEEcCCcccccceeccccccccccccccCcccEEEEeccCCCCCCc--hhhccCCCcEEE
Q 048126          676 FNDSKSLDIFCLACLHNLNKLYVAGRKHLEDFQMTVQRSSVNQLARGFHSLHTVKVGFCFKLKDLT--WLVFAPSLKSIV  753 (863)
Q Consensus       676 ~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~l~~~~~~~~~~~~~~~l~~L~~L~L~~c~~l~~l~--~l~~l~~L~~L~  753 (863)
                      +.- ..++. .+  .++|++|++++|.. +.+.+..+        ..+++|++|+|++| .++.++  .++.+++|+.|+
T Consensus       182 n~l-~~l~~-~~--~~~L~~L~l~~n~i-~~~~~~~l--------~~l~~L~~L~L~~N-~l~~~~~~~~~~l~~L~~L~  247 (332)
T 2ft3_A          182 AKL-TGIPK-DL--PETLNELHLDHNKI-QAIELEDL--------LRYSKLYRLGLGHN-QIRMIENGSLSFLPTLRELH  247 (332)
T ss_dssp             SBC-SSCCS-SS--CSSCSCCBCCSSCC-CCCCTTSS--------TTCTTCSCCBCCSS-CCCCCCTTGGGGCTTCCEEE
T ss_pred             CCC-CccCc-cc--cCCCCEEECCCCcC-CccCHHHh--------cCCCCCCEEECCCC-cCCcCChhHhhCCCCCCEEE
Confidence            643 22221 12  27999999998754 33333333        34889999999998 566655  578899999999


Q ss_pred             EeccccchhhccccccccccCCCCCCCCcCCccceeccCCCccccccccCCC-------CCCCcceEeecCCCCC--CCC
Q 048126          754 VLSCCNMEQIIKAEKLSQLHHHPERKKSVFAKLQFLSLENLRNLCCINWEAL-------AFPNLKEIRVEGCPKL--FKL  824 (863)
Q Consensus       754 l~~~~~l~~i~~~~~~~~~~~~~~~~~~~~p~L~~L~l~~~~~L~~i~~~~~-------~~p~L~~L~i~~C~~L--~~l  824 (863)
                      ++++ .++.+             +..+..+++|+.|+++++ .++.++....       .+++|+.|++.++|-.  ...
T Consensus       248 L~~N-~l~~l-------------p~~l~~l~~L~~L~l~~N-~l~~~~~~~~~~~~~~~~~~~l~~L~l~~N~~~~~~~~  312 (332)
T 2ft3_A          248 LDNN-KLSRV-------------PAGLPDLKLLQVVYLHTN-NITKVGVNDFCPVGFGVKRAYYNGISLFNNPVPYWEVQ  312 (332)
T ss_dssp             CCSS-CCCBC-------------CTTGGGCTTCCEEECCSS-CCCBCCTTSSSCSSCCSSSCCBSEEECCSSSSCGGGSC
T ss_pred             CCCC-cCeec-------------ChhhhcCccCCEEECCCC-CCCccChhHccccccccccccccceEeecCcccccccC
Confidence            9986 45554             335678999999999985 5666654321       1578999999998744  223


Q ss_pred             CCCCCC-CCCCceEEEccc
Q 048126          825 PLDSNS-AKGCKVVIKGEE  842 (863)
Q Consensus       825 p~~~~~-~~L~~l~i~~~~  842 (863)
                      |..... +.|+.+.+.+++
T Consensus       313 ~~~~~~l~~L~~l~l~~n~  331 (332)
T 2ft3_A          313 PATFRCVTDRLAIQFGNYK  331 (332)
T ss_dssp             GGGGTTBCCSTTEEC----
T ss_pred             cccccccchhhhhhccccc
Confidence            333333 888888887664

>1ogq_A PGIP-2, polygalacturonase inhibiting protein; inhibitor; HET: NAG; 1.7A {Phaseolus vulgaris} SCOP: c.10.2.8

Probab=99.80  E-value=2.2e-19  Score=191.72  Aligned_cols=255  Identities=14%  Similarity=0.077  Sum_probs=176.8

Q ss_pred             CccceEEccCCcccc--ccchhhhcCCCccEEEccC-CCccccCCccccccCCCCeEEccCCCcc-ccchhhhcCCCCCE
Q 048126          516 PHLLSLFLSDNSLKM--IAGDFFQFMPSLRVFNMSN-NHLLWKLPSGISTLVSLEHLDLSGTAIT-HLPIELQKLVNLKC  591 (863)
Q Consensus       516 ~~L~~L~l~~~~l~~--~~~~~~~~l~~L~~L~L~~-~~~~~~lp~~i~~l~~L~~L~L~~~~l~-~lp~~~~~l~~L~~  591 (863)
                      .+++.|++++|.+.+  ..+..|.++++|++|+|++ |.+.+.+|..++++++|++|++++|.++ .+|..+.++++|++
T Consensus        50 ~~l~~L~L~~~~l~~~~~~~~~l~~l~~L~~L~L~~~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~~~p~~~~~l~~L~~  129 (313)
T 1ogq_A           50 YRVNNLDLSGLNLPKPYPIPSSLANLPYLNFLYIGGINNLVGPIPPAIAKLTQLHYLYITHTNVSGAIPDFLSQIKTLVT  129 (313)
T ss_dssp             CCEEEEEEECCCCSSCEECCGGGGGCTTCSEEEEEEETTEESCCCGGGGGCTTCSEEEEEEECCEEECCGGGGGCTTCCE
T ss_pred             ceEEEEECCCCCccCCcccChhHhCCCCCCeeeCCCCCcccccCChhHhcCCCCCEEECcCCeeCCcCCHHHhCCCCCCE
Confidence            689999999999885  3344589999999999995 7677789999999999999999999998 88999999999999


Q ss_pred             EecCCccccCCCcHHHhhcCCCCcEEEeeccccccCchhhHHHHHcCCc-cCceEEEEEcChHHHHHHhhhhhhhhccee
Q 048126          592 LNLEYMYNLNQFPRLVMSAFSKLQVLRILKSNVLFGGHQFLVEELMGMK-HLMALTITLKSWEALQELLISQELQRCTQS  670 (863)
Q Consensus       592 L~l~~~~~l~~lp~~~~~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~L~-~L~~L~l~~~~~~~~~~l~~~~~~~~~L~~  670 (863)
                      |++++|.....+|.. ++.+++|++|++.+|.+..    ..+..+..++ +|+.|+++.+.....               
T Consensus       130 L~Ls~N~l~~~~p~~-~~~l~~L~~L~L~~N~l~~----~~p~~l~~l~~~L~~L~L~~N~l~~~---------------  189 (313)
T 1ogq_A          130 LDFSYNALSGTLPPS-ISSLPNLVGITFDGNRISG----AIPDSYGSFSKLFTSMTISRNRLTGK---------------  189 (313)
T ss_dssp             EECCSSEEESCCCGG-GGGCTTCCEEECCSSCCEE----ECCGGGGCCCTTCCEEECCSSEEEEE---------------
T ss_pred             EeCCCCccCCcCChH-HhcCCCCCeEECcCCcccC----cCCHHHhhhhhcCcEEECcCCeeecc---------------
Confidence            999999544467775 8999999999999998753    2455677777 888888875543210               


Q ss_pred             eeeccccCCCcccccchhhcCCCceEEEcCCcccccceeccccccccccccccCcccEEEEeccCCCCCCchhhccCCCc
Q 048126          671 LFLRCFNDSKSLDIFCLACLHNLNKLYVAGRKHLEDFQMTVQRSSVNQLARGFHSLHTVKVGFCFKLKDLTWLVFAPSLK  750 (863)
Q Consensus       671 L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~l~~~~~~~~~~~~~~~l~~L~~L~L~~c~~l~~l~~l~~l~~L~  750 (863)
                                  ....+..++ |+.|++++|.... ..+..+        ..+++|+.|+|++|..-..++.+..+++|+
T Consensus       190 ------------~~~~~~~l~-L~~L~Ls~N~l~~-~~~~~~--------~~l~~L~~L~L~~N~l~~~~~~~~~l~~L~  247 (313)
T 1ogq_A          190 ------------IPPTFANLN-LAFVDLSRNMLEG-DASVLF--------GSDKNTQKIHLAKNSLAFDLGKVGLSKNLN  247 (313)
T ss_dssp             ------------CCGGGGGCC-CSEEECCSSEEEE-CCGGGC--------CTTSCCSEEECCSSEECCBGGGCCCCTTCC
T ss_pred             ------------CChHHhCCc-ccEEECcCCcccC-cCCHHH--------hcCCCCCEEECCCCceeeecCcccccCCCC
Confidence                        001233333 6677776654322 222222        236677777777764333445556667777


Q ss_pred             EEEEeccccchhhccccccccccCCCCCCCCcCCccceeccCCCccccccccCCCCCCCcceEeecCCCCCCCCCC
Q 048126          751 SIVVLSCCNMEQIIKAEKLSQLHHHPERKKSVFAKLQFLSLENLRNLCCINWEALAFPNLKEIRVEGCPKLFKLPL  826 (863)
Q Consensus       751 ~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~~~p~L~~L~l~~~~~L~~i~~~~~~~p~L~~L~i~~C~~L~~lp~  826 (863)
                      +|+++++.....+             +..+..+++|+.|+++++.--..++.. ..+++|+.|++.++|.+...|.
T Consensus       248 ~L~Ls~N~l~~~~-------------p~~l~~l~~L~~L~Ls~N~l~~~ip~~-~~l~~L~~l~l~~N~~lc~~p~  309 (313)
T 1ogq_A          248 GLDLRNNRIYGTL-------------PQGLTQLKFLHSLNVSFNNLCGEIPQG-GNLQRFDVSAYANNKCLCGSPL  309 (313)
T ss_dssp             EEECCSSCCEECC-------------CGGGGGCTTCCEEECCSSEEEEECCCS-TTGGGSCGGGTCSSSEEESTTS
T ss_pred             EEECcCCcccCcC-------------ChHHhcCcCCCEEECcCCcccccCCCC-ccccccChHHhcCCCCccCCCC
Confidence            7777765422122             234556677777777765433344443 5567777777777766665554

>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*

Probab=99.79  E-value=1.3e-18  Score=187.47  Aligned_cols=263  Identities=17%  Similarity=0.221  Sum_probs=163.2

Q ss_pred             ccceEEccCCccccccchhhhcCCCccEEEccCCCccccCCccccccCCCCeEEccCCCcccc-chhhhcCCCCCEEecC
Q 048126          517 HLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAITHL-PIELQKLVNLKCLNLE  595 (863)
Q Consensus       517 ~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~~~l~~l-p~~~~~l~~L~~L~l~  595 (863)
                      ++++++++++.++.+|..+   .+.|++|+|++|.+.+..+..++++++|++|++++|.++.+ |..+..+++|++|+++
T Consensus        32 ~l~~l~~~~~~l~~lp~~~---~~~l~~L~L~~n~i~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~Ls  108 (330)
T 1xku_A           32 HLRVVQCSDLGLEKVPKDL---PPDTALLDLQNNKITEIKDGDFKNLKNLHTLILINNKISKISPGAFAPLVKLERLYLS  108 (330)
T ss_dssp             ETTEEECTTSCCCSCCCSC---CTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECC
T ss_pred             CCeEEEecCCCccccCccC---CCCCeEEECCCCcCCEeChhhhccCCCCCEEECCCCcCCeeCHHHhcCCCCCCEEECC
Confidence            7899999999999988753   36899999999965544455899999999999999999987 7889999999999999


Q ss_pred             CccccCCCcHHHhhcCCCCcEEEeeccccccCchhhHHHHHcCCccCceEEEEEcChHHHHHHhhhhhhhhcceeeeecc
Q 048126          596 YMYNLNQFPRLVMSAFSKLQVLRILKSNVLFGGHQFLVEELMGMKHLMALTITLKSWEALQELLISQELQRCTQSLFLRC  675 (863)
Q Consensus       596 ~~~~l~~lp~~~~~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~~~~~l~~~~~~~~~L~~L~l~~  675 (863)
                      +| .++.+|...   .++|++|++.+|.+..    .....+.++++|+.|+++.+...............++|+.|.+++
T Consensus       109 ~n-~l~~l~~~~---~~~L~~L~l~~n~l~~----~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~~l~~L~~L~l~~  180 (330)
T 1xku_A          109 KN-QLKELPEKM---PKTLQELRVHENEITK----VRKSVFNGLNQMIVVELGTNPLKSSGIENGAFQGMKKLSYIRIAD  180 (330)
T ss_dssp             SS-CCSBCCSSC---CTTCCEEECCSSCCCB----BCHHHHTTCTTCCEEECCSSCCCGGGBCTTGGGGCTTCCEEECCS
T ss_pred             CC-cCCccChhh---cccccEEECCCCcccc----cCHhHhcCCccccEEECCCCcCCccCcChhhccCCCCcCEEECCC
Confidence            98 678888752   3799999999987763    245568889999999988765432111111112233555555555


Q ss_pred             ccCCCcccccchhhcCCCceEEEcCCcccccceeccccccccccccccCcccEEEEeccCCCCCCc--hhhccCCCcEEE
Q 048126          676 FNDSKSLDIFCLACLHNLNKLYVAGRKHLEDFQMTVQRSSVNQLARGFHSLHTVKVGFCFKLKDLT--WLVFAPSLKSIV  753 (863)
Q Consensus       676 ~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~l~~~~~~~~~~~~~~~l~~L~~L~L~~c~~l~~l~--~l~~l~~L~~L~  753 (863)
                      +.- ..++. .+  .++|++|++++|. ++.+.+..+        ..+++|++|+|++| .++.++  .+..+++|+.|+
T Consensus       181 n~l-~~l~~-~~--~~~L~~L~l~~n~-l~~~~~~~~--------~~l~~L~~L~Ls~n-~l~~~~~~~~~~l~~L~~L~  246 (330)
T 1xku_A          181 TNI-TTIPQ-GL--PPSLTELHLDGNK-ITKVDAASL--------KGLNNLAKLGLSFN-SISAVDNGSLANTPHLRELH  246 (330)
T ss_dssp             SCC-CSCCS-SC--CTTCSEEECTTSC-CCEECTGGG--------TTCTTCCEEECCSS-CCCEECTTTGGGSTTCCEEE
T ss_pred             Ccc-ccCCc-cc--cccCCEEECCCCc-CCccCHHHh--------cCCCCCCEEECCCC-cCceeChhhccCCCCCCEEE
Confidence            332 11111 11  1456666665543 222222222        23555666666655 333332  345556666666


Q ss_pred             EeccccchhhccccccccccCCCCCCCCcCCccceeccCCCccccccccCCC-------CCCCcceEeecCCC
Q 048126          754 VLSCCNMEQIIKAEKLSQLHHHPERKKSVFAKLQFLSLENLRNLCCINWEAL-------AFPNLKEIRVEGCP  819 (863)
Q Consensus       754 l~~~~~l~~i~~~~~~~~~~~~~~~~~~~~p~L~~L~l~~~~~L~~i~~~~~-------~~p~L~~L~i~~C~  819 (863)
                      ++++. ++.+             +..+..+++|+.|+++++ .++.++....       ..++|+.|++.+.|
T Consensus       247 L~~N~-l~~l-------------p~~l~~l~~L~~L~l~~N-~i~~~~~~~f~~~~~~~~~~~l~~l~l~~N~  304 (330)
T 1xku_A          247 LNNNK-LVKV-------------PGGLADHKYIQVVYLHNN-NISAIGSNDFCPPGYNTKKASYSGVSLFSNP  304 (330)
T ss_dssp             CCSSC-CSSC-------------CTTTTTCSSCCEEECCSS-CCCCCCTTSSSCSSCCTTSCCCSEEECCSSS
T ss_pred             CCCCc-CccC-------------ChhhccCCCcCEEECCCC-cCCccChhhcCCcccccccccccceEeecCc
Confidence            65542 3333             223445556666666553 3444332211       13455555555543

>2z80_A TOLL-like receptor 2, variable lymphocyte recepto; TLR2, lipopeptide, innate immunity, glycoprotein, immune RES inflammatory response; HET: NAG; 1.80A {Homo sapiens}

Probab=99.79  E-value=8.9e-19  Score=190.77  Aligned_cols=150  Identities=23%  Similarity=0.262  Sum_probs=110.9

Q ss_pred             EEEEeccccccccccCCCCCccceEEccCCccccccchhhhcCCCccEEEccCCCccccCCccccccCCCCeEEccCCCc
Q 048126          497 RRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAI  576 (863)
Q Consensus       497 r~L~l~~~~~~~l~~~~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~~~l  576 (863)
                      ...+.+++.+..+|.. -.++|++|++++|.++.++...|.++++|++|++++|.+.+..|..++++++|++|++++|.+
T Consensus        34 ~~c~~~~~~l~~iP~~-~~~~L~~L~l~~n~i~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l  112 (353)
T 2z80_A           34 GICKGSSGSLNSIPSG-LTEAVKSLDLSNNRITYISNSDLQRCVNLQALVLTSNGINTIEEDSFSSLGSLEHLDLSYNYL  112 (353)
T ss_dssp             SEEECCSTTCSSCCTT-CCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECCSSCC
T ss_pred             eEeeCCCCCccccccc-ccccCcEEECCCCcCcccCHHHhccCCCCCEEECCCCccCccCHhhcCCCCCCCEEECCCCcC
Confidence            3466677777777652 335888888888888888876788888888888888865555567788888888888888888


Q ss_pred             cccchh-hhcCCCCCEEecCCccccCCCcH-HHhhcCCCCcEEEeeccccccCchhhHHHHHcCCccCceEEEEEcC
Q 048126          577 THLPIE-LQKLVNLKCLNLEYMYNLNQFPR-LVMSAFSKLQVLRILKSNVLFGGHQFLVEELMGMKHLMALTITLKS  651 (863)
Q Consensus       577 ~~lp~~-~~~l~~L~~L~l~~~~~l~~lp~-~~~~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~  651 (863)
                      +.+|.. ++++++|++|++++| .+..+|. ..++++++|++|++.+|.....   .....+.++++|+.|+++.+.
T Consensus       113 ~~~~~~~~~~l~~L~~L~L~~n-~l~~l~~~~~~~~l~~L~~L~l~~n~~~~~---~~~~~~~~l~~L~~L~l~~n~  185 (353)
T 2z80_A          113 SNLSSSWFKPLSSLTFLNLLGN-PYKTLGETSLFSHLTKLQILRVGNMDTFTK---IQRKDFAGLTFLEELEIDASD  185 (353)
T ss_dssp             SSCCHHHHTTCTTCSEEECTTC-CCSSSCSSCSCTTCTTCCEEEEEESSSCCE---ECTTTTTTCCEEEEEEEEETT
T ss_pred             CcCCHhHhCCCccCCEEECCCC-CCcccCchhhhccCCCCcEEECCCCccccc---cCHHHccCCCCCCEEECCCCC
Confidence            888876 788888888888888 5677776 4477888888888887743221   123345667777777777654

>2z80_A TOLL-like receptor 2, variable lymphocyte recepto; TLR2, lipopeptide, innate immunity, glycoprotein, immune RES inflammatory response; HET: NAG; 1.80A {Homo sapiens}

Probab=99.79  E-value=9.7e-19  Score=190.45  Aligned_cols=262  Identities=21%  Similarity=0.247  Sum_probs=179.8

Q ss_pred             cCCCcccCcccccccceEEEEecccccccccc--CCCCCccceEEccCCccccccchhhhcCCCccEEEccCCCccccCC
Q 048126          480 AGLGLTEAPEIQNWRNVRRMSLMKNKIENLSE--TPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLP  557 (863)
Q Consensus       480 ~~~~~~~~~~~~~~~~lr~L~l~~~~~~~l~~--~~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~lp  557 (863)
                      .+...+.+|. .-.++++.|++++|.+..++.  +..+++|++|++++|.++.+++..|.++++|++|+|++|. +..+|
T Consensus        39 ~~~~l~~iP~-~~~~~L~~L~l~~n~i~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~Ls~n~-l~~~~  116 (353)
T 2z80_A           39 SSGSLNSIPS-GLTEAVKSLDLSNNRITYISNSDLQRCVNLQALVLTSNGINTIEEDSFSSLGSLEHLDLSYNY-LSNLS  116 (353)
T ss_dssp             CSTTCSSCCT-TCCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECCSSC-CSSCC
T ss_pred             CCCCcccccc-cccccCcEEECCCCcCcccCHHHhccCCCCCEEECCCCccCccCHhhcCCCCCCCEEECCCCc-CCcCC
Confidence            3444555553 223589999999999988765  6899999999999999999988889999999999999995 44666


Q ss_pred             cc-ccccCCCCeEEccCCCccccch--hhhcCCCCCEEecCCccccCCCcHHHhhcCCCCcEEEeeccccccCchhhHHH
Q 048126          558 SG-ISTLVSLEHLDLSGTAITHLPI--ELQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRILKSNVLFGGHQFLVE  634 (863)
Q Consensus       558 ~~-i~~l~~L~~L~L~~~~l~~lp~--~~~~l~~L~~L~l~~~~~l~~lp~~~~~~L~~L~~L~l~~~~~~~~~~~~~~~  634 (863)
                      .. ++++++|++|++++|.++.+|.  .+.++++|++|++++|..+..++...++++++|++|++.+|.+..    ..+.
T Consensus       117 ~~~~~~l~~L~~L~L~~n~l~~l~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~l~~L~~L~l~~n~l~~----~~~~  192 (353)
T 2z80_A          117 SSWFKPLSSLTFLNLLGNPYKTLGETSLFSHLTKLQILRVGNMDTFTKIQRKDFAGLTFLEELEIDASDLQS----YEPK  192 (353)
T ss_dssp             HHHHTTCTTCSEEECTTCCCSSSCSSCSCTTCTTCCEEEEEESSSCCEECTTTTTTCCEEEEEEEEETTCCE----ECTT
T ss_pred             HhHhCCCccCCEEECCCCCCcccCchhhhccCCCCcEEECCCCccccccCHHHccCCCCCCEEECCCCCcCc----cCHH
Confidence            55 8999999999999999999987  689999999999999866777766558899999999999987753    2355


Q ss_pred             HHcCCccCceEEEEEcChHHHHHHhhhhhhhhcceeeeeccccCCCcc--cccchhhcCCCceEEEcCCcccccc---ee
Q 048126          635 ELMGMKHLMALTITLKSWEALQELLISQELQRCTQSLFLRCFNDSKSL--DIFCLACLHNLNKLYVAGRKHLEDF---QM  709 (863)
Q Consensus       635 ~l~~L~~L~~L~l~~~~~~~~~~l~~~~~~~~~L~~L~l~~~~~~~~~--~~~~l~~~~~L~~L~l~~~~~~~~l---~~  709 (863)
                      .+.++++|+.|+++.+....++....  ...++|+.|+++++.-....  .+......+.++.+++.++.....-   .+
T Consensus       193 ~l~~l~~L~~L~l~~n~l~~~~~~~~--~~~~~L~~L~L~~n~l~~~~~~~l~~~~~~~~l~~l~L~~~~l~~~~l~~l~  270 (353)
T 2z80_A          193 SLKSIQNVSHLILHMKQHILLLEIFV--DVTSSVECLELRDTDLDTFHFSELSTGETNSLIKKFTFRNVKITDESLFQVM  270 (353)
T ss_dssp             TTTTCSEEEEEEEECSCSTTHHHHHH--HHTTTEEEEEEESCBCTTCCCC------CCCCCCEEEEESCBCCHHHHHHHH
T ss_pred             HHhccccCCeecCCCCccccchhhhh--hhcccccEEECCCCccccccccccccccccchhhccccccccccCcchhhhH
Confidence            67889999999999887765554221  22346777777664321111  1111222345555555543221100   01


Q ss_pred             ccccccccccccccCcccEEEEeccCCCCCCch--hhccCCCcEEEEeccc
Q 048126          710 TVQRSSVNQLARGFHSLHTVKVGFCFKLKDLTW--LVFAPSLKSIVVLSCC  758 (863)
Q Consensus       710 ~~~~~~~~~~~~~l~~L~~L~L~~c~~l~~l~~--l~~l~~L~~L~l~~~~  758 (863)
                      .++        ..+++|++|+|++| .++.+|.  ++.+++|++|++++++
T Consensus       271 ~~l--------~~l~~L~~L~Ls~N-~l~~i~~~~~~~l~~L~~L~L~~N~  312 (353)
T 2z80_A          271 KLL--------NQISGLLELEFSRN-QLKSVPDGIFDRLTSLQKIWLHTNP  312 (353)
T ss_dssp             HHH--------HTCTTCCEEECCSS-CCCCCCTTTTTTCTTCCEEECCSSC
T ss_pred             HHH--------hcccCCCEEECCCC-CCCccCHHHHhcCCCCCEEEeeCCC
Confidence            111        23555666666655 3444442  3455556666555543

>4g8a_A TOLL-like receptor 4; leucine rich repeat MD-2 related lipid recognition, receptor immunity, lipid binding, glycosylation, immune system; HET: NAG LP4 LP5 DAO MYR KDO; 2.40A {Homo sapiens} PDB: 3fxi_A*

Probab=99.78  E-value=2.1e-18  Score=203.90  Aligned_cols=143  Identities=22%  Similarity=0.268  Sum_probs=116.4

Q ss_pred             EcCCCcccCcccccccceEEEEecccccccccc--CCCCCccceEEccCCccccccchhhhcCCCccEEEccCCCccccC
Q 048126          479 HAGLGLTEAPEIQNWRNVRRMSLMKNKIENLSE--TPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKL  556 (863)
Q Consensus       479 ~~~~~~~~~~~~~~~~~lr~L~l~~~~~~~l~~--~~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~l  556 (863)
                      +.+.+++.+|..- .+++++|++++|.+..++.  +..+++|++|+|++|.++.++++.|.++++|++|+|++|.+ ..+
T Consensus        38 c~~~~l~~vP~~l-p~~~~~LdLs~N~i~~l~~~~f~~l~~L~~L~Ls~N~i~~i~~~~f~~L~~L~~L~Ls~N~l-~~l  115 (635)
T 4g8a_A           38 CMELNFYKIPDNL-PFSTKNLDLSFNPLRHLGSYSFFSFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNPI-QSL  115 (635)
T ss_dssp             CTTSCCSSCCSSS-CTTCCEEECTTSCCCEECTTTTTTCTTCCEEECTTCCCCEECTTTTTTCTTCCEEECTTCCC-CEE
T ss_pred             CCCCCcCccCCCC-CcCCCEEEeeCCCCCCCCHHHHhCCCCCCEEECCCCcCCCcChhHhcCCCCCCEEEccCCcC-CCC
Confidence            4445566665321 2479999999999988863  68899999999999999999998899999999999999954 455


Q ss_pred             C-ccccccCCCCeEEccCCCccccchh-hhcCCCCCEEecCCccccCC--CcHHHhhcCCCCcEEEeeccccc
Q 048126          557 P-SGISTLVSLEHLDLSGTAITHLPIE-LQKLVNLKCLNLEYMYNLNQ--FPRLVMSAFSKLQVLRILKSNVL  625 (863)
Q Consensus       557 p-~~i~~l~~L~~L~L~~~~l~~lp~~-~~~l~~L~~L~l~~~~~l~~--lp~~~~~~L~~L~~L~l~~~~~~  625 (863)
                      | ..+++|.+|++|++++|.++.+|.. ++++++|++|++++| .+..  +|.. ++.+++|++|++.+|.+.
T Consensus       116 ~~~~f~~L~~L~~L~Ls~N~l~~l~~~~~~~L~~L~~L~Ls~N-~l~~~~~~~~-~~~l~~L~~L~L~~N~l~  186 (635)
T 4g8a_A          116 ALGAFSGLSSLQKLVAVETNLASLENFPIGHLKTLKELNVAHN-LIQSFKLPEY-FSNLTNLEHLDLSSNKIQ  186 (635)
T ss_dssp             CGGGGTTCTTCCEEECTTSCCCCSTTCCCTTCTTCCEEECCSS-CCCCCCCCGG-GGGCTTCCEEECCSSCCC
T ss_pred             CHHHhcCCCCCCEEECCCCcCCCCChhhhhcCcccCeeccccC-ccccCCCchh-hccchhhhhhcccCcccc
Confidence            5 5689999999999999999988764 899999999999998 4444  4553 788999999999887653

>3g06_A SSPH2 (leucine-rich repeat protein); E3 ubiquitin ligase, leucine rich repeat domain, type three effector, salmonella virulence factor; 1.90A {Salmonella typhimurium}

Probab=99.77  E-value=5e-18  Score=196.29  Aligned_cols=133  Identities=23%  Similarity=0.243  Sum_probs=70.4

Q ss_pred             cceEEEEeccccccccccCCCCCccceEEccCCccccccchhhhcCCCccEEEccCCCccccCCccccccCCCCeEEccC
Q 048126          494 RNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSG  573 (863)
Q Consensus       494 ~~lr~L~l~~~~~~~l~~~~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~  573 (863)
                      ++++.|++++|.+..++.  .+++|++|++++|.++.+|.    .+++|++|+|++| .+..+|.   .+.+|++|++++
T Consensus        61 ~~L~~L~L~~N~l~~lp~--~l~~L~~L~Ls~N~l~~lp~----~l~~L~~L~Ls~N-~l~~l~~---~l~~L~~L~L~~  130 (622)
T 3g06_A           61 AHITTLVIPDNNLTSLPA--LPPELRTLEVSGNQLTSLPV----LPPGLLELSIFSN-PLTHLPA---LPSGLCKLWIFG  130 (622)
T ss_dssp             TTCSEEEECSCCCSCCCC--CCTTCCEEEECSCCCSCCCC----CCTTCCEEEECSC-CCCCCCC---CCTTCCEEECCS
T ss_pred             CCCcEEEecCCCCCCCCC--cCCCCCEEEcCCCcCCcCCC----CCCCCCEEECcCC-cCCCCCC---CCCCcCEEECCC
Confidence            456666666665555544  45556666666665555554    3555666666665 3334444   345566666666


Q ss_pred             CCccccchhhhcCCCCCEEecCCccccCCCcHHHhhcCCCCcEEEeeccccccCchhhHHHHHcCCccCceEEEEEcCh
Q 048126          574 TAITHLPIELQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRILKSNVLFGGHQFLVEELMGMKHLMALTITLKSW  652 (863)
Q Consensus       574 ~~l~~lp~~~~~l~~L~~L~l~~~~~l~~lp~~~~~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~  652 (863)
                      |.++.+|..   +++|++|++++| .+..+|.    .+++|+.|++.+|.+..-     +   ..+++|+.|+++.|..
T Consensus       131 N~l~~lp~~---l~~L~~L~Ls~N-~l~~l~~----~~~~L~~L~L~~N~l~~l-----~---~~~~~L~~L~Ls~N~l  193 (622)
T 3g06_A          131 NQLTSLPVL---PPGLQELSVSDN-QLASLPA----LPSELCKLWAYNNQLTSL-----P---MLPSGLQELSVSDNQL  193 (622)
T ss_dssp             SCCSCCCCC---CTTCCEEECCSS-CCSCCCC----CCTTCCEEECCSSCCSCC-----C---CCCTTCCEEECCSSCC
T ss_pred             CCCCcCCCC---CCCCCEEECcCC-cCCCcCC----ccCCCCEEECCCCCCCCC-----c---ccCCCCcEEECCCCCC
Confidence            666555543   355666666655 4444443    234555566555544321     1   2345555555554443

>4g8a_A TOLL-like receptor 4; leucine rich repeat MD-2 related lipid recognition, receptor immunity, lipid binding, glycosylation, immune system; HET: NAG LP4 LP5 DAO MYR KDO; 2.40A {Homo sapiens} PDB: 3fxi_A*

Probab=99.77  E-value=2.6e-18  Score=203.08  Aligned_cols=114  Identities=21%  Similarity=0.313  Sum_probs=97.5

Q ss_pred             ccccccceEEEEecccccccccc--CCCCCccceEEccCCccccccchhhhcCCCccEEEccCCCccccCCccccccCCC
Q 048126          489 EIQNWRNVRRMSLMKNKIENLSE--TPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSL  566 (863)
Q Consensus       489 ~~~~~~~lr~L~l~~~~~~~l~~--~~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L  566 (863)
                      .+..+++|+.|++++|.+..++.  +.++++|++|+|++|.++.+|+..|.++++|++|+|++|.+.+..|..++++++|
T Consensus        71 ~f~~l~~L~~L~Ls~N~i~~i~~~~f~~L~~L~~L~Ls~N~l~~l~~~~f~~L~~L~~L~Ls~N~l~~l~~~~~~~L~~L  150 (635)
T 4g8a_A           71 SFFSFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNPIQSLALGAFSGLSSLQKLVAVETNLASLENFPIGHLKTL  150 (635)
T ss_dssp             TTTTCTTCCEEECTTCCCCEECTTTTTTCTTCCEEECTTCCCCEECGGGGTTCTTCCEEECTTSCCCCSTTCCCTTCTTC
T ss_pred             HHhCCCCCCEEECCCCcCCCcChhHhcCCCCCCEEEccCCcCCCCCHHHhcCCCCCCEEECCCCcCCCCChhhhhcCccc
Confidence            46788899999999999988854  6789999999999999999999889999999999999995543334568999999


Q ss_pred             CeEEccCCCccc--cchhhhcCCCCCEEecCCccccCCC
Q 048126          567 EHLDLSGTAITH--LPIELQKLVNLKCLNLEYMYNLNQF  603 (863)
Q Consensus       567 ~~L~L~~~~l~~--lp~~~~~l~~L~~L~l~~~~~l~~l  603 (863)
                      ++|++++|.++.  +|..++.+++|++|++++| .+..+
T Consensus       151 ~~L~Ls~N~l~~~~~~~~~~~l~~L~~L~L~~N-~l~~~  188 (635)
T 4g8a_A          151 KELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSN-KIQSI  188 (635)
T ss_dssp             CEEECCSSCCCCCCCCGGGGGCTTCCEEECCSS-CCCEE
T ss_pred             CeeccccCccccCCCchhhccchhhhhhcccCc-ccccc
Confidence            999999999874  5788999999999999987 33433

>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

Probab=99.75  E-value=1.2e-17  Score=187.31  Aligned_cols=157  Identities=25%  Similarity=0.314  Sum_probs=89.3

Q ss_pred             cceEEEEeccccccccccCCCCCccceEEccCCccccccchhhhcCCCccEEEccCCCccccCCccccccCCCCeEEccC
Q 048126          494 RNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSG  573 (863)
Q Consensus       494 ~~lr~L~l~~~~~~~l~~~~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~  573 (863)
                      ++++.|++++|.+..++...  ++|++|++++|.++.+| . |+++++|++|++++|. +..+|..+   .+|++|++++
T Consensus       111 ~~L~~L~l~~n~l~~l~~~~--~~L~~L~L~~n~l~~lp-~-~~~l~~L~~L~l~~N~-l~~lp~~~---~~L~~L~L~~  182 (454)
T 1jl5_A          111 QSLKSLLVDNNNLKALSDLP--PLLEYLGVSNNQLEKLP-E-LQNSSFLKIIDVDNNS-LKKLPDLP---PSLEFIAAGN  182 (454)
T ss_dssp             TTCCEEECCSSCCSCCCSCC--TTCCEEECCSSCCSSCC-C-CTTCTTCCEEECCSSC-CSCCCCCC---TTCCEEECCS
T ss_pred             CCCcEEECCCCccCcccCCC--CCCCEEECcCCCCCCCc-c-cCCCCCCCEEECCCCc-CcccCCCc---ccccEEECcC
Confidence            45666666666665554332  56666777666666665 2 6666667777776663 33455433   3666666666


Q ss_pred             CCccccchhhhcCCCCCEEecCCccccCCCcHHHhhcCCCCcEEEeeccccccCchhhHHHHHcCCccCceEEEEEcChH
Q 048126          574 TAITHLPIELQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRILKSNVLFGGHQFLVEELMGMKHLMALTITLKSWE  653 (863)
Q Consensus       574 ~~l~~lp~~~~~l~~L~~L~l~~~~~l~~lp~~~~~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~  653 (863)
                      |.++.+| .++++++|++|++++| .+..+|..    .++|++|++.+|.+..-     + .++.+++|+.|+++.+...
T Consensus       183 n~l~~l~-~~~~l~~L~~L~l~~N-~l~~l~~~----~~~L~~L~l~~n~l~~l-----p-~~~~l~~L~~L~l~~N~l~  250 (454)
T 1jl5_A          183 NQLEELP-ELQNLPFLTAIYADNN-SLKKLPDL----PLSLESIVAGNNILEEL-----P-ELQNLPFLTTIYADNNLLK  250 (454)
T ss_dssp             SCCSSCC-CCTTCTTCCEEECCSS-CCSSCCCC----CTTCCEEECCSSCCSSC-----C-CCTTCTTCCEEECCSSCCS
T ss_pred             CcCCcCc-cccCCCCCCEEECCCC-cCCcCCCC----cCcccEEECcCCcCCcc-----c-ccCCCCCCCEEECCCCcCC
Confidence            6666666 4666666666666666 34445432    24666666666654311     1 2556666666666655443


Q ss_pred             HHHHHhhhhhhhhcceeeeeccc
Q 048126          654 ALQELLISQELQRCTQSLFLRCF  676 (863)
Q Consensus       654 ~~~~l~~~~~~~~~L~~L~l~~~  676 (863)
                      .++.      ..++|+.|+++++
T Consensus       251 ~l~~------~~~~L~~L~l~~N  267 (454)
T 1jl5_A          251 TLPD------LPPSLEALNVRDN  267 (454)
T ss_dssp             SCCS------CCTTCCEEECCSS
T ss_pred             cccc------cccccCEEECCCC
Confidence            3221      1235666666554

>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

Probab=99.75  E-value=1.6e-17  Score=186.34  Aligned_cols=116  Identities=22%  Similarity=0.329  Sum_probs=51.5

Q ss_pred             ceEEEEeccccccccccCCCCCccceEEccCCccccccchhhhcCCCccEEEccCCCccccCCccccccCCCCeEEccCC
Q 048126          495 NVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGT  574 (863)
Q Consensus       495 ~lr~L~l~~~~~~~l~~~~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~~  574 (863)
                      +++.|++++|.+..++..  +++|++|++++|.+..++..    .++|++|++++|.+ ..+| .++++++|++|++++|
T Consensus        92 ~L~~L~l~~n~l~~lp~~--~~~L~~L~l~~n~l~~l~~~----~~~L~~L~L~~n~l-~~lp-~~~~l~~L~~L~l~~N  163 (454)
T 1jl5_A           92 HLESLVASCNSLTELPEL--PQSLKSLLVDNNNLKALSDL----PPLLEYLGVSNNQL-EKLP-ELQNSSFLKIIDVDNN  163 (454)
T ss_dssp             TCSEEECCSSCCSSCCCC--CTTCCEEECCSSCCSCCCSC----CTTCCEEECCSSCC-SSCC-CCTTCTTCCEEECCSS
T ss_pred             CCCEEEccCCcCCccccc--cCCCcEEECCCCccCcccCC----CCCCCEEECcCCCC-CCCc-ccCCCCCCCEEECCCC
Confidence            444455554444444321  24455555555444443321    13455555554422 2344 3444555555555555


Q ss_pred             CccccchhhhcCCCCCEEecCCccccCCCcHHHhhcCCCCcEEEeecccc
Q 048126          575 AITHLPIELQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRILKSNV  624 (863)
Q Consensus       575 ~l~~lp~~~~~l~~L~~L~l~~~~~l~~lp~~~~~~L~~L~~L~l~~~~~  624 (863)
                      .++.+|..+   .+|++|++++| .+..+|.  ++++++|++|++.+|.+
T Consensus       164 ~l~~lp~~~---~~L~~L~L~~n-~l~~l~~--~~~l~~L~~L~l~~N~l  207 (454)
T 1jl5_A          164 SLKKLPDLP---PSLEFIAAGNN-QLEELPE--LQNLPFLTAIYADNNSL  207 (454)
T ss_dssp             CCSCCCCCC---TTCCEEECCSS-CCSSCCC--CTTCTTCCEEECCSSCC
T ss_pred             cCcccCCCc---ccccEEECcCC-cCCcCcc--ccCCCCCCEEECCCCcC
Confidence            444444322   24455555444 3344442  44445555555444443

>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}

Probab=99.75  E-value=3.3e-18  Score=182.32  Aligned_cols=243  Identities=19%  Similarity=0.176  Sum_probs=148.1

Q ss_pred             EEEeccccccccccCCCCCccceEEccCCccccccchhhhcCCCccEEEccCCCcc--ccCCccccccCCCCeEEccCCC
Q 048126          498 RMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLL--WKLPSGISTLVSLEHLDLSGTA  575 (863)
Q Consensus       498 ~L~l~~~~~~~l~~~~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~--~~lp~~i~~l~~L~~L~L~~~~  575 (863)
                      .++..++.+..+|. .-.++|++|++++|.++.++..+|.++++|++|+|++|.+.  +..|..+..+++|++|++++|.
T Consensus        11 ~l~c~~~~l~~ip~-~~~~~l~~L~L~~n~l~~i~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~~~~~~L~~L~Ls~n~   89 (306)
T 2z66_A           11 EIRCNSKGLTSVPT-GIPSSATRLELESNKLQSLPHGVFDKLTQLTKLSLSSNGLSFKGCCSQSDFGTTSLKYLDLSFNG   89 (306)
T ss_dssp             EEECCSSCCSSCCS-CCCTTCCEEECCSSCCCCCCTTTTTTCTTCSEEECCSSCCCEEEEEEHHHHSCSCCCEEECCSCS
T ss_pred             EEEcCCCCcccCCC-CCCCCCCEEECCCCccCccCHhHhhccccCCEEECCCCccCcccCcccccccccccCEEECCCCc
Confidence            45556666666654 23367888888888888887777788888888888888443  2235666678888888888888


Q ss_pred             ccccchhhhcCCCCCEEecCCccccCCCcH-HHhhcCCCCcEEEeeccccccCchhhHHHHHcCCccCceEEEEEcChHH
Q 048126          576 ITHLPIELQKLVNLKCLNLEYMYNLNQFPR-LVMSAFSKLQVLRILKSNVLFGGHQFLVEELMGMKHLMALTITLKSWEA  654 (863)
Q Consensus       576 l~~lp~~~~~l~~L~~L~l~~~~~l~~lp~-~~~~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~~  654 (863)
                      +..+|..+..+++|++|++++| .+..++. ..+..+++|++|++.+|.+...    ....+.++++|+.|+++.+....
T Consensus        90 i~~l~~~~~~l~~L~~L~l~~n-~l~~~~~~~~~~~l~~L~~L~l~~n~l~~~----~~~~~~~l~~L~~L~l~~n~l~~  164 (306)
T 2z66_A           90 VITMSSNFLGLEQLEHLDFQHS-NLKQMSEFSVFLSLRNLIYLDISHTHTRVA----FNGIFNGLSSLEVLKMAGNSFQE  164 (306)
T ss_dssp             EEEEEEEEETCTTCCEEECTTS-EEESSTTTTTTTTCTTCCEEECTTSCCEEC----STTTTTTCTTCCEEECTTCEEGG
T ss_pred             cccChhhcCCCCCCCEEECCCC-cccccccchhhhhccCCCEEECCCCcCCcc----chhhcccCcCCCEEECCCCcccc
Confidence            8888877888888888888887 4555553 3367778888888877765421    22234455555555554332110


Q ss_pred             HHHHhhhhhhhhcceeeeeccccCCCcccccchhhcCCCceEEEcCCcccccceeccccccccccccccCcccEEEEecc
Q 048126          655 LQELLISQELQRCTQSLFLRCFNDSKSLDIFCLACLHNLNKLYVAGRKHLEDFQMTVQRSSVNQLARGFHSLHTVKVGFC  734 (863)
Q Consensus       655 ~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~l~~~~~~~~~~~~~~~l~~L~~L~L~~c  734 (863)
                                                ......+..+++|++|++++|.. +.+.+..+        ..+++|++|+|++|
T Consensus       165 --------------------------~~~~~~~~~l~~L~~L~Ls~n~l-~~~~~~~~--------~~l~~L~~L~L~~N  209 (306)
T 2z66_A          165 --------------------------NFLPDIFTELRNLTFLDLSQCQL-EQLSPTAF--------NSLSSLQVLNMSHN  209 (306)
T ss_dssp             --------------------------GEECSCCTTCTTCCEEECTTSCC-CEECTTTT--------TTCTTCCEEECTTS
T ss_pred             --------------------------ccchhHHhhCcCCCEEECCCCCc-CCcCHHHh--------cCCCCCCEEECCCC
Confidence                                      00112344566777777776543 32333332        23667777777776


Q ss_pred             CCCCCCc--hhhccCCCcEEEEeccccchhhccccccccccCCCCCCCCcCC-ccceeccCCCc
Q 048126          735 FKLKDLT--WLVFAPSLKSIVVLSCCNMEQIIKAEKLSQLHHHPERKKSVFA-KLQFLSLENLR  795 (863)
Q Consensus       735 ~~l~~l~--~l~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~~~p-~L~~L~l~~~~  795 (863)
                       .++.++  .+..+++|+.|+++++. +....            +..+..+| +|+.|+|++++
T Consensus       210 -~l~~~~~~~~~~l~~L~~L~L~~N~-l~~~~------------~~~~~~~~~~L~~L~L~~N~  259 (306)
T 2z66_A          210 -NFFSLDTFPYKCLNSLQVLDYSLNH-IMTSK------------KQELQHFPSSLAFLNLTQND  259 (306)
T ss_dssp             -CCSBCCSGGGTTCTTCCEEECTTSC-CCBCS------------SSSCCCCCTTCCEEECTTCC
T ss_pred             -ccCccChhhccCcccCCEeECCCCC-CcccC------------HHHHHhhhccCCEEEccCCC
Confidence             344443  34566777777777653 33221            22344453 67777776643

>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

Probab=99.74  E-value=2.6e-17  Score=185.48  Aligned_cols=241  Identities=19%  Similarity=0.219  Sum_probs=159.3

Q ss_pred             EEEEeccccccccccCCCCCccceEEccCCccccccchhhhcCCCccEEEccCCCccccCCccccccCCCCeEEccCCCc
Q 048126          497 RRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAI  576 (863)
Q Consensus       497 r~L~l~~~~~~~l~~~~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~~~l  576 (863)
                      +.++..+..+..+|.. -.++|++|++++|.++.+++..|.++++|++|+|++|.+....|..+.++++|++|+|++|.+
T Consensus        57 ~~v~c~~~~l~~iP~~-~~~~l~~L~L~~n~i~~~~~~~~~~l~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~L~~n~l  135 (452)
T 3zyi_A           57 SKVVCTRRGLSEVPQG-IPSNTRYLNLMENNIQMIQADTFRHLHHLEVLQLGRNSIRQIEVGAFNGLASLNTLELFDNWL  135 (452)
T ss_dssp             CEEECCSSCCSSCCSC-CCTTCSEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSCC
T ss_pred             cEEEECCCCcCccCCC-CCCCccEEECcCCcCceECHHHcCCCCCCCEEECCCCccCCcChhhccCcccCCEEECCCCcC
Confidence            4555555555555532 235677777777777777666677777777777777755555556777777777777777777


Q ss_pred             cccchh-hhcCCCCCEEecCCccccCCCcHHHhhcCCCCcEEEeeccccccCchhhHHHHHcCCccCceEEEEEcChHHH
Q 048126          577 THLPIE-LQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRILKSNVLFGGHQFLVEELMGMKHLMALTITLKSWEAL  655 (863)
Q Consensus       577 ~~lp~~-~~~l~~L~~L~l~~~~~l~~lp~~~~~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~~~  655 (863)
                      +.+|.. +..+++|++|++++| .+..+|...+.++++|++|++.+++..                              
T Consensus       136 ~~~~~~~~~~l~~L~~L~L~~N-~l~~~~~~~~~~l~~L~~L~l~~~~~l------------------------------  184 (452)
T 3zyi_A          136 TVIPSGAFEYLSKLRELWLRNN-PIESIPSYAFNRVPSLMRLDLGELKKL------------------------------  184 (452)
T ss_dssp             SBCCTTTSSSCTTCCEEECCSC-CCCEECTTTTTTCTTCCEEECCCCTTC------------------------------
T ss_pred             CccChhhhcccCCCCEEECCCC-CcceeCHhHHhcCCcccEEeCCCCCCc------------------------------
Confidence            776654 666777777777776 455666544566666666665543211                              


Q ss_pred             HHHhhhhhhhhcceeeeeccccCCCcccccchhhcCCCceEEEcCCcccccceeccccccccccccccCcccEEEEeccC
Q 048126          656 QELLISQELQRCTQSLFLRCFNDSKSLDIFCLACLHNLNKLYVAGRKHLEDFQMTVQRSSVNQLARGFHSLHTVKVGFCF  735 (863)
Q Consensus       656 ~~l~~~~~~~~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~l~~~~~~~~~~~~~~~l~~L~~L~L~~c~  735 (863)
                                              ..++...+..+++|++|++++|... .+ +..         ..+++|+.|+|++| 
T Consensus       185 ------------------------~~i~~~~~~~l~~L~~L~L~~n~l~-~~-~~~---------~~l~~L~~L~Ls~N-  228 (452)
T 3zyi_A          185 ------------------------EYISEGAFEGLFNLKYLNLGMCNIK-DM-PNL---------TPLVGLEELEMSGN-  228 (452)
T ss_dssp             ------------------------CEECTTTTTTCTTCCEEECTTSCCS-SC-CCC---------TTCTTCCEEECTTS-
T ss_pred             ------------------------cccChhhccCCCCCCEEECCCCccc-cc-ccc---------cccccccEEECcCC-
Confidence                                    1111123556789999999987543 33 222         34789999999987 


Q ss_pred             CCCCCc--hhhccCCCcEEEEeccccchhhccccccccccCCCCCCCCcCCccceeccCCCccccccccCC-CCCCCcce
Q 048126          736 KLKDLT--WLVFAPSLKSIVVLSCCNMEQIIKAEKLSQLHHHPERKKSVFAKLQFLSLENLRNLCCINWEA-LAFPNLKE  812 (863)
Q Consensus       736 ~l~~l~--~l~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~~~p~L~~L~l~~~~~L~~i~~~~-~~~p~L~~  812 (863)
                      .++.++  .+..+++|+.|+++++. +..+.            +..+..+++|+.|+|+++ +++.++... ..+++|+.
T Consensus       229 ~l~~~~~~~~~~l~~L~~L~L~~n~-l~~~~------------~~~~~~l~~L~~L~L~~N-~l~~~~~~~~~~l~~L~~  294 (452)
T 3zyi_A          229 HFPEIRPGSFHGLSSLKKLWVMNSQ-VSLIE------------RNAFDGLASLVELNLAHN-NLSSLPHDLFTPLRYLVE  294 (452)
T ss_dssp             CCSEECGGGGTTCTTCCEEECTTSC-CCEEC------------TTTTTTCTTCCEEECCSS-CCSCCCTTSSTTCTTCCE
T ss_pred             cCcccCcccccCccCCCEEEeCCCc-CceEC------------HHHhcCCCCCCEEECCCC-cCCccChHHhccccCCCE
Confidence            455443  46788899999998854 44431            235667889999999885 666666543 45788888


Q ss_pred             EeecCCC
Q 048126          813 IRVEGCP  819 (863)
Q Consensus       813 L~i~~C~  819 (863)
                      |++.++|
T Consensus       295 L~L~~Np  301 (452)
T 3zyi_A          295 LHLHHNP  301 (452)
T ss_dssp             EECCSSC
T ss_pred             EEccCCC
Confidence            8888764

>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

Probab=99.74  E-value=4.9e-18  Score=191.48  Aligned_cols=238  Identities=21%  Similarity=0.225  Sum_probs=177.1

Q ss_pred             EEEcCCCcccCcccccccceEEEEeccccccccc--cCCCCCccceEEccCCccccccchhhhcCCCccEEEccCCCccc
Q 048126          477 LVHAGLGLTEAPEIQNWRNVRRMSLMKNKIENLS--ETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLW  554 (863)
Q Consensus       477 ~~~~~~~~~~~~~~~~~~~lr~L~l~~~~~~~l~--~~~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~  554 (863)
                      +.+.+.....+|.. -.++++.|++++|.+..++  .+..+++|++|++++|.+..+++..|.++++|++|+|++|.+..
T Consensus        59 v~c~~~~l~~iP~~-~~~~l~~L~L~~n~i~~~~~~~~~~l~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~L~~n~l~~  137 (452)
T 3zyi_A           59 VVCTRRGLSEVPQG-IPSNTRYLNLMENNIQMIQADTFRHLHHLEVLQLGRNSIRQIEVGAFNGLASLNTLELFDNWLTV  137 (452)
T ss_dssp             EECCSSCCSSCCSC-CCTTCSEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCSB
T ss_pred             EEECCCCcCccCCC-CCCCccEEECcCCcCceECHHHcCCCCCCCEEECCCCccCCcChhhccCcccCCEEECCCCcCCc
Confidence            44444455555532 2368999999999998773  46899999999999999999998889999999999999996554


Q ss_pred             cCCccccccCCCCeEEccCCCccccch-hhhcCCCCCEEecCCccccCCCcHHHhhcCCCCcEEEeeccccccCchhhHH
Q 048126          555 KLPSGISTLVSLEHLDLSGTAITHLPI-ELQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRILKSNVLFGGHQFLV  633 (863)
Q Consensus       555 ~lp~~i~~l~~L~~L~L~~~~l~~lp~-~~~~l~~L~~L~l~~~~~l~~lp~~~~~~L~~L~~L~l~~~~~~~~~~~~~~  633 (863)
                      ..+..+.++++|++|+|++|.++.+|. .+.++++|++|++++|..+..+|...+.++++|++|++.+|.+...      
T Consensus       138 ~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~l~~L~~L~L~~n~l~~~------  211 (452)
T 3zyi_A          138 IPSGAFEYLSKLRELWLRNNPIESIPSYAFNRVPSLMRLDLGELKKLEYISEGAFEGLFNLKYLNLGMCNIKDM------  211 (452)
T ss_dssp             CCTTTSSSCTTCCEEECCSCCCCEECTTTTTTCTTCCEEECCCCTTCCEECTTTTTTCTTCCEEECTTSCCSSC------
T ss_pred             cChhhhcccCCCCEEECCCCCcceeCHhHHhcCCcccEEeCCCCCCccccChhhccCCCCCCEEECCCCccccc------
Confidence            444568999999999999999998876 5899999999999998888889887789999999999999876532      


Q ss_pred             HHHcCCccCceEEEEEcChHHHHHHhhhhhhhhcceeeeeccccCCCcccccchhhcCCCceEEEcCCcccccceecccc
Q 048126          634 EELMGMKHLMALTITLKSWEALQELLISQELQRCTQSLFLRCFNDSKSLDIFCLACLHNLNKLYVAGRKHLEDFQMTVQR  713 (863)
Q Consensus       634 ~~l~~L~~L~~L~l~~~~~~~~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~l~~~~~~  713 (863)
                      ..+..+++|+.|+++.+..                           .......+..+++|+.|++++|.. ..+.+..+ 
T Consensus       212 ~~~~~l~~L~~L~Ls~N~l---------------------------~~~~~~~~~~l~~L~~L~L~~n~l-~~~~~~~~-  262 (452)
T 3zyi_A          212 PNLTPLVGLEELEMSGNHF---------------------------PEIRPGSFHGLSSLKKLWVMNSQV-SLIERNAF-  262 (452)
T ss_dssp             CCCTTCTTCCEEECTTSCC---------------------------SEECGGGGTTCTTCCEEECTTSCC-CEECTTTT-
T ss_pred             ccccccccccEEECcCCcC---------------------------cccCcccccCccCCCEEEeCCCcC-ceECHHHh-
Confidence            1345555566555543322                           222223466677888888877643 33333333 


Q ss_pred             ccccccccccCcccEEEEeccCCCCCCch--hhccCCCcEEEEeccc
Q 048126          714 SSVNQLARGFHSLHTVKVGFCFKLKDLTW--LVFAPSLKSIVVLSCC  758 (863)
Q Consensus       714 ~~~~~~~~~l~~L~~L~L~~c~~l~~l~~--l~~l~~L~~L~l~~~~  758 (863)
                             ..+++|+.|+|++| .++.++.  +..+++|+.|+|++++
T Consensus       263 -------~~l~~L~~L~L~~N-~l~~~~~~~~~~l~~L~~L~L~~Np  301 (452)
T 3zyi_A          263 -------DGLASLVELNLAHN-NLSSLPHDLFTPLRYLVELHLHHNP  301 (452)
T ss_dssp             -------TTCTTCCEEECCSS-CCSCCCTTSSTTCTTCCEEECCSSC
T ss_pred             -------cCCCCCCEEECCCC-cCCccChHHhccccCCCEEEccCCC
Confidence                   34778888888887 5666653  4567888888887754

>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*

Probab=99.74  E-value=1.9e-18  Score=202.34  Aligned_cols=251  Identities=13%  Similarity=0.078  Sum_probs=153.1

Q ss_pred             cccceEEEEeccccccccc-----c-CCCCCccceEEccCCcccccc----chhhhcCCCccEEEccCCCccccCCcccc
Q 048126          492 NWRNVRRMSLMKNKIENLS-----E-TPTCPHLLSLFLSDNSLKMIA----GDFFQFMPSLRVFNMSNNHLLWKLPSGIS  561 (863)
Q Consensus       492 ~~~~lr~L~l~~~~~~~l~-----~-~~~~~~L~~L~l~~~~l~~~~----~~~~~~l~~L~~L~L~~~~~~~~lp~~i~  561 (863)
                      .+++++.|++.+|.+....     . ...+++|++|++++|.+..+.    +..+.++++|++|++++| ....+|..+.
T Consensus       162 ~~~~L~~L~L~~~~~~~~~~~~l~~~~~~~~~L~~L~L~~n~~~~~~~~~l~~~~~~~~~L~~L~L~~~-~~~~l~~~~~  240 (592)
T 3ogk_B          162 HCRKIKTLLMEESSFSEKDGKWLHELAQHNTSLEVLNFYMTEFAKISPKDLETIARNCRSLVSVKVGDF-EILELVGFFK  240 (592)
T ss_dssp             HCTTCSEEECTTCEEECCCSHHHHHHHHHCCCCCEEECTTCCCSSCCHHHHHHHHHHCTTCCEEECSSC-BGGGGHHHHH
T ss_pred             hCCCCCEEECccccccCcchhHHHHHHhcCCCccEEEeeccCCCccCHHHHHHHHhhCCCCcEEeccCc-cHHHHHHHHh
Confidence            5567778888777653321     1 145677888888777665222    233567778888888877 3445677777


Q ss_pred             ccCCCCeEEccCCCc----cccchhhhcCCCCCEEecCCccccCCCcHHHhhcCCCCcEEEeeccccccCchhhHHHHHc
Q 048126          562 TLVSLEHLDLSGTAI----THLPIELQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRILKSNVLFGGHQFLVEELM  637 (863)
Q Consensus       562 ~l~~L~~L~L~~~~l----~~lp~~~~~l~~L~~L~l~~~~~l~~lp~~~~~~L~~L~~L~l~~~~~~~~~~~~~~~~l~  637 (863)
                      ++++|++|++++...    ...+..+..+++|+.|+++++ ....+|.. +..+++|++|++.+|.+..   ......+.
T Consensus       241 ~~~~L~~L~l~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~-~~~~l~~~-~~~~~~L~~L~Ls~~~l~~---~~~~~~~~  315 (592)
T 3ogk_B          241 AAANLEEFCGGSLNEDIGMPEKYMNLVFPRKLCRLGLSYM-GPNEMPIL-FPFAAQIRKLDLLYALLET---EDHCTLIQ  315 (592)
T ss_dssp             HCTTCCEEEECBCCCCTTCTTSSSCCCCCTTCCEEEETTC-CTTTGGGG-GGGGGGCCEEEETTCCCCH---HHHHHHHT
T ss_pred             hhhHHHhhcccccccccchHHHHHHhhccccccccCcccc-chhHHHHH-HhhcCCCcEEecCCCcCCH---HHHHHHHH
Confidence            778888888775321    133445666777777777665 33556653 6788899999998887432   22334467


Q ss_pred             CCccCceEEEEEcChHHHHHHhhhhhhhhcceeeeecc----------ccCCCcccccc-hhhcCCCceEEEcCCccccc
Q 048126          638 GMKHLMALTITLKSWEALQELLISQELQRCTQSLFLRC----------FNDSKSLDIFC-LACLHNLNKLYVAGRKHLED  706 (863)
Q Consensus       638 ~L~~L~~L~l~~~~~~~~~~l~~~~~~~~~L~~L~l~~----------~~~~~~~~~~~-l~~~~~L~~L~l~~~~~~~~  706 (863)
                      .+++|+.|++. +... ...+.......++|+.|++.+          |+..+...+.. ...+++|++|++++ ..+++
T Consensus       316 ~~~~L~~L~L~-~~~~-~~~l~~~~~~~~~L~~L~L~~g~~~~~~~~~~~~~~~~~~~~l~~~~~~L~~L~l~~-~~l~~  392 (592)
T 3ogk_B          316 KCPNLEVLETR-NVIG-DRGLEVLAQYCKQLKRLRIERGADEQGMEDEEGLVSQRGLIALAQGCQELEYMAVYV-SDITN  392 (592)
T ss_dssp             TCTTCCEEEEE-GGGH-HHHHHHHHHHCTTCCEEEEECCCCSSTTSSTTCCCCHHHHHHHHHHCTTCSEEEEEE-SCCCH
T ss_pred             hCcCCCEEecc-CccC-HHHHHHHHHhCCCCCEEEeecCccccccccccCccCHHHHHHHHhhCccCeEEEeec-CCccH
Confidence            88899999888 3222 122222223345788998885          55554433322 34478888888844 34432


Q ss_pred             ceeccccccccccccccCcccEEEEec---cCCCCCCc-------hhhccCCCcEEEEeccc
Q 048126          707 FQMTVQRSSVNQLARGFHSLHTVKVGF---CFKLKDLT-------WLVFAPSLKSIVVLSCC  758 (863)
Q Consensus       707 l~~~~~~~~~~~~~~~l~~L~~L~L~~---c~~l~~l~-------~l~~l~~L~~L~l~~~~  758 (863)
                      ..+..+.       ..+++|++|++++   |+.++..|       .+..+++|+.|+++.|.
T Consensus       393 ~~~~~l~-------~~~~~L~~L~l~~~~~~n~l~~~p~~~~~~~~~~~~~~L~~L~L~~~~  447 (592)
T 3ogk_B          393 ESLESIG-------TYLKNLCDFRLVLLDREERITDLPLDNGVRSLLIGCKKLRRFAFYLRQ  447 (592)
T ss_dssp             HHHHHHH-------HHCCSCCEEEEEECSCCSCCSSCCCHHHHHHHHHHCTTCCEEEEECCG
T ss_pred             HHHHHHH-------hhCCCCcEEEEeecCCCccccCchHHHHHHHHHHhCCCCCEEEEecCC
Confidence            2222221       2367788888874   44555432       13457778888877655

>3zyj_A Leucine-rich repeat-containing protein 4C; cell adhesion, synapse; HET: NAG BMA MAN; 3.25A {Homo sapiens}

Probab=99.74  E-value=4.9e-18  Score=190.74  Aligned_cols=222  Identities=20%  Similarity=0.218  Sum_probs=138.7

Q ss_pred             cceEEEEeccccccccc--cCCCCCccceEEccCCccccccchhhhcCCCccEEEccCCCccccCCccccccCCCCeEEc
Q 048126          494 RNVRRMSLMKNKIENLS--ETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDL  571 (863)
Q Consensus       494 ~~lr~L~l~~~~~~~l~--~~~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L  571 (863)
                      ++++.|++++|.+..++  .+..+++|++|++++|.+..+++..|.++++|++|+|++|.+....+..+..+++|++|+|
T Consensus        64 ~~l~~L~L~~n~i~~~~~~~~~~l~~L~~L~Ls~n~i~~i~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L  143 (440)
T 3zyj_A           64 TNTRLLNLHENQIQIIKVNSFKHLRHLEILQLSRNHIRTIEIGAFNGLANLNTLELFDNRLTTIPNGAFVYLSKLKELWL  143 (440)
T ss_dssp             TTCSEEECCSCCCCEECTTTTSSCSSCCEEECCSSCCCEECGGGGTTCSSCCEEECCSSCCSSCCTTTSCSCSSCCEEEC
T ss_pred             CCCcEEEccCCcCCeeCHHHhhCCCCCCEEECCCCcCCccChhhccCCccCCEEECCCCcCCeeCHhHhhccccCceeeC
Confidence            46777777777766553  3466777777777777777776666777777777777777433223335677777777777


Q ss_pred             cCCCccccch-hhhcCCCCCEEecCCccccCCCcHHHhhcCCCCcEEEeeccccccCchhhHHHHHcCCccCceEEEEEc
Q 048126          572 SGTAITHLPI-ELQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRILKSNVLFGGHQFLVEELMGMKHLMALTITLK  650 (863)
Q Consensus       572 ~~~~l~~lp~-~~~~l~~L~~L~l~~~~~l~~lp~~~~~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~  650 (863)
                      ++|.++.+|. .+.++++|++|++++|..+..++...+.++++|++|++.+|.+..-      ..+..+++|        
T Consensus       144 ~~N~i~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~l~~L~~L~L~~n~l~~~------~~~~~l~~L--------  209 (440)
T 3zyj_A          144 RNNPIESIPSYAFNRIPSLRRLDLGELKRLSYISEGAFEGLSNLRYLNLAMCNLREI------PNLTPLIKL--------  209 (440)
T ss_dssp             CSCCCCEECTTTTTTCTTCCEEECCCCTTCCEECTTTTTTCSSCCEEECTTSCCSSC------CCCTTCSSC--------
T ss_pred             CCCcccccCHHHhhhCcccCEeCCCCCCCcceeCcchhhcccccCeecCCCCcCccc------cccCCCccc--------
Confidence            7777776654 4667777777777776666666665566777777777776655321      123334444        


Q ss_pred             ChHHHHHHhhhhhhhhcceeeeeccccCCCcccccchhhcCCCceEEEcCCcccccceeccccccccccccccCcccEEE
Q 048126          651 SWEALQELLISQELQRCTQSLFLRCFNDSKSLDIFCLACLHNLNKLYVAGRKHLEDFQMTVQRSSVNQLARGFHSLHTVK  730 (863)
Q Consensus       651 ~~~~~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~l~~~~~~~~~~~~~~~l~~L~~L~  730 (863)
                                        +.|+|+++. ........+..+++|+.|++++|. ++.+.+..+        ..+++|+.|+
T Consensus       210 ------------------~~L~Ls~N~-l~~~~~~~~~~l~~L~~L~L~~n~-l~~~~~~~~--------~~l~~L~~L~  261 (440)
T 3zyj_A          210 ------------------DELDLSGNH-LSAIRPGSFQGLMHLQKLWMIQSQ-IQVIERNAF--------DNLQSLVEIN  261 (440)
T ss_dssp             ------------------CEEECTTSC-CCEECTTTTTTCTTCCEEECTTCC-CCEECTTSS--------TTCTTCCEEE
T ss_pred             ------------------CEEECCCCc-cCccChhhhccCccCCEEECCCCc-eeEEChhhh--------cCCCCCCEEE
Confidence                              444444432 222222446667788888887764 333333333        2467788888


Q ss_pred             EeccCCCCCCch--hhccCCCcEEEEeccc
Q 048126          731 VGFCFKLKDLTW--LVFAPSLKSIVVLSCC  758 (863)
Q Consensus       731 L~~c~~l~~l~~--l~~l~~L~~L~l~~~~  758 (863)
                      |++| .++.++.  +..+++|+.|+|++++
T Consensus       262 L~~N-~l~~~~~~~~~~l~~L~~L~L~~Np  290 (440)
T 3zyj_A          262 LAHN-NLTLLPHDLFTPLHHLERIHLHHNP  290 (440)
T ss_dssp             CTTS-CCCCCCTTTTSSCTTCCEEECCSSC
T ss_pred             CCCC-CCCccChhHhccccCCCEEEcCCCC
Confidence            8876 5666553  4567788888877744

>3zyj_A Leucine-rich repeat-containing protein 4C; cell adhesion, synapse; HET: NAG BMA MAN; 3.25A {Homo sapiens}

Probab=99.74  E-value=4.6e-17  Score=182.78  Aligned_cols=241  Identities=16%  Similarity=0.216  Sum_probs=149.4

Q ss_pred             EEEEeccccccccccCCCCCccceEEccCCccccccchhhhcCCCccEEEccCCCccccCCccccccCCCCeEEccCCCc
Q 048126          497 RRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAI  576 (863)
Q Consensus       497 r~L~l~~~~~~~l~~~~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~~~l  576 (863)
                      +.++..+..+..+|.. -.++++.|++++|.+..+++..|.++++|++|+|++|.+....|..+.++++|++|+|++|.+
T Consensus        46 ~~v~c~~~~l~~iP~~-~~~~l~~L~L~~n~i~~~~~~~~~~l~~L~~L~Ls~n~i~~i~~~~~~~l~~L~~L~L~~n~l  124 (440)
T 3zyj_A           46 SKVICVRKNLREVPDG-ISTNTRLLNLHENQIQIIKVNSFKHLRHLEILQLSRNHIRTIEIGAFNGLANLNTLELFDNRL  124 (440)
T ss_dssp             CEEECCSCCCSSCCSC-CCTTCSEEECCSCCCCEECTTTTSSCSSCCEEECCSSCCCEECGGGGTTCSSCCEEECCSSCC
T ss_pred             CEEEeCCCCcCcCCCC-CCCCCcEEEccCCcCCeeCHHHhhCCCCCCEEECCCCcCCccChhhccCCccCCEEECCCCcC
Confidence            4455555555555432 225666666666666666655566666666666666644444445666666666666666666


Q ss_pred             cccch-hhhcCCCCCEEecCCccccCCCcHHHhhcCCCCcEEEeeccccccCchhhHHHHHcCCccCceEEEEEcChHHH
Q 048126          577 THLPI-ELQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRILKSNVLFGGHQFLVEELMGMKHLMALTITLKSWEAL  655 (863)
Q Consensus       577 ~~lp~-~~~~l~~L~~L~l~~~~~l~~lp~~~~~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~~~  655 (863)
                      +.+|. .+..+++|++|++++| .+..+|...+.++++|++|++.+++.                               
T Consensus       125 ~~~~~~~~~~l~~L~~L~L~~N-~i~~~~~~~~~~l~~L~~L~l~~~~~-------------------------------  172 (440)
T 3zyj_A          125 TTIPNGAFVYLSKLKELWLRNN-PIESIPSYAFNRIPSLRRLDLGELKR-------------------------------  172 (440)
T ss_dssp             SSCCTTTSCSCSSCCEEECCSC-CCCEECTTTTTTCTTCCEEECCCCTT-------------------------------
T ss_pred             CeeCHhHhhccccCceeeCCCC-cccccCHHHhhhCcccCEeCCCCCCC-------------------------------
Confidence            66654 3666666666666666 34555544455555555555543321                               


Q ss_pred             HHHhhhhhhhhcceeeeeccccCCCcccccchhhcCCCceEEEcCCcccccceeccccccccccccccCcccEEEEeccC
Q 048126          656 QELLISQELQRCTQSLFLRCFNDSKSLDIFCLACLHNLNKLYVAGRKHLEDFQMTVQRSSVNQLARGFHSLHTVKVGFCF  735 (863)
Q Consensus       656 ~~l~~~~~~~~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~l~~~~~~~~~~~~~~~l~~L~~L~L~~c~  735 (863)
                                             ...+....+..+++|++|++++|.. +.+ +..         ..+++|++|+|++| 
T Consensus       173 -----------------------l~~i~~~~~~~l~~L~~L~L~~n~l-~~~-~~~---------~~l~~L~~L~Ls~N-  217 (440)
T 3zyj_A          173 -----------------------LSYISEGAFEGLSNLRYLNLAMCNL-REI-PNL---------TPLIKLDELDLSGN-  217 (440)
T ss_dssp             -----------------------CCEECTTTTTTCSSCCEEECTTSCC-SSC-CCC---------TTCSSCCEEECTTS-
T ss_pred             -----------------------cceeCcchhhcccccCeecCCCCcC-ccc-ccc---------CCCcccCEEECCCC-
Confidence                                   1111112355678899999988743 333 222         34788999999887 


Q ss_pred             CCCCCc--hhhccCCCcEEEEeccccchhhccccccccccCCCCCCCCcCCccceeccCCCccccccccCC-CCCCCcce
Q 048126          736 KLKDLT--WLVFAPSLKSIVVLSCCNMEQIIKAEKLSQLHHHPERKKSVFAKLQFLSLENLRNLCCINWEA-LAFPNLKE  812 (863)
Q Consensus       736 ~l~~l~--~l~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~~~p~L~~L~l~~~~~L~~i~~~~-~~~p~L~~  812 (863)
                      .++.++  .+..+++|+.|+++++ .++.+.            +..+..+++|+.|+|+++ +++.++... ..+++|+.
T Consensus       218 ~l~~~~~~~~~~l~~L~~L~L~~n-~l~~~~------------~~~~~~l~~L~~L~L~~N-~l~~~~~~~~~~l~~L~~  283 (440)
T 3zyj_A          218 HLSAIRPGSFQGLMHLQKLWMIQS-QIQVIE------------RNAFDNLQSLVEINLAHN-NLTLLPHDLFTPLHHLER  283 (440)
T ss_dssp             CCCEECTTTTTTCTTCCEEECTTC-CCCEEC------------TTSSTTCTTCCEEECTTS-CCCCCCTTTTSSCTTCCE
T ss_pred             ccCccChhhhccCccCCEEECCCC-ceeEEC------------hhhhcCCCCCCEEECCCC-CCCccChhHhccccCCCE
Confidence            455543  4667888888888885 354442            235667888888888885 666666543 45788888


Q ss_pred             EeecCCC
Q 048126          813 IRVEGCP  819 (863)
Q Consensus       813 L~i~~C~  819 (863)
                      |++.++|
T Consensus       284 L~L~~Np  290 (440)
T 3zyj_A          284 IHLHHNP  290 (440)
T ss_dssp             EECCSSC
T ss_pred             EEcCCCC
Confidence            8887754

>3o53_A Protein LRIM1, AGAP006348-PA; leucine-rich repeat, protein binding; HET: NAG; 2.00A {Anopheles gambiae}

Probab=99.73  E-value=4.1e-19  Score=190.12  Aligned_cols=262  Identities=15%  Similarity=0.100  Sum_probs=147.6

Q ss_pred             eEEEEecccccccccc--CCCCCccceEEccCCccccccchhhhcCCCccEEEccCCCccccCCccccccCCCCeEEccC
Q 048126          496 VRRMSLMKNKIENLSE--TPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSG  573 (863)
Q Consensus       496 lr~L~l~~~~~~~l~~--~~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~  573 (863)
                      +...++..+.+...+.  +..+++|+.|++++|.+..+++..|.++++|++|+|++|.+.+ .+. +..+++|++|++++
T Consensus        12 l~i~~ls~~~l~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~-~~~-~~~l~~L~~L~Ls~   89 (317)
T 3o53_A           12 YKIEKVTDSSLKQALASLRQSAWNVKELDLSGNPLSQISAADLAPFTKLELLNLSSNVLYE-TLD-LESLSTLRTLDLNN   89 (317)
T ss_dssp             EEEESCCTTTHHHHHHHHHTTGGGCSEEECTTSCCCCCCHHHHTTCTTCCEEECTTSCCEE-EEE-ETTCTTCCEEECCS
T ss_pred             eeEeeccccchhhhHHHHhccCCCCCEEECcCCccCcCCHHHhhCCCcCCEEECCCCcCCc-chh-hhhcCCCCEEECcC
Confidence            3444444444433211  2456778888888888888777778888888888888885443 332 77888888888888


Q ss_pred             CCccccchhhhcCCCCCEEecCCccccCCCcHHHhhcCCCCcEEEeeccccccCchhhHHHHHcCCccCceEEEEEcChH
Q 048126          574 TAITHLPIELQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRILKSNVLFGGHQFLVEELMGMKHLMALTITLKSWE  653 (863)
Q Consensus       574 ~~l~~lp~~~~~l~~L~~L~l~~~~~l~~lp~~~~~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~  653 (863)
                      |.++.+|.    +++|++|++++| .+..++.   ..+++|++|++.+|.+...    ....+..+++|+.|+++.+...
T Consensus        90 n~l~~l~~----~~~L~~L~l~~n-~l~~~~~---~~~~~L~~L~l~~N~l~~~----~~~~~~~l~~L~~L~Ls~N~l~  157 (317)
T 3o53_A           90 NYVQELLV----GPSIETLHAANN-NISRVSC---SRGQGKKNIYLANNKITML----RDLDEGCRSRVQYLDLKLNEID  157 (317)
T ss_dssp             SEEEEEEE----CTTCCEEECCSS-CCSEEEE---CCCSSCEEEECCSSCCCSG----GGBCTGGGSSEEEEECTTSCCC
T ss_pred             CccccccC----CCCcCEEECCCC-ccCCcCc---cccCCCCEEECCCCCCCCc----cchhhhccCCCCEEECCCCCCC
Confidence            88877663    378888888887 4555553   3467788888877766431    1122344455555555433322


Q ss_pred             HHHHHhhhhhhhhcceeeeeccccCCCcccccch-hhcCCCceEEEcCCcccccceeccccccccccccccCcccEEEEe
Q 048126          654 ALQELLISQELQRCTQSLFLRCFNDSKSLDIFCL-ACLHNLNKLYVAGRKHLEDFQMTVQRSSVNQLARGFHSLHTVKVG  732 (863)
Q Consensus       654 ~~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~~~l-~~~~~L~~L~l~~~~~~~~l~~~~~~~~~~~~~~~l~~L~~L~L~  732 (863)
                      .                           .....+ ..+++|+.|++++|.... + +..         ..+++|++|+|+
T Consensus       158 ~---------------------------~~~~~~~~~l~~L~~L~L~~N~l~~-~-~~~---------~~l~~L~~L~Ls  199 (317)
T 3o53_A          158 T---------------------------VNFAELAASSDTLEHLNLQYNFIYD-V-KGQ---------VVFAKLKTLDLS  199 (317)
T ss_dssp             E---------------------------EEGGGGGGGTTTCCEEECTTSCCCE-E-ECC---------CCCTTCCEEECC
T ss_pred             c---------------------------ccHHHHhhccCcCCEEECCCCcCcc-c-ccc---------cccccCCEEECC
Confidence            1                           111112 234566666666554222 2 111         125566666666


Q ss_pred             ccCCCCCC-chhhccCCCcEEEEeccccchhhccccccccccCCCCCCCCcCCccceeccCCCccc-cccccCCCCCCCc
Q 048126          733 FCFKLKDL-TWLVFAPSLKSIVVLSCCNMEQIIKAEKLSQLHHHPERKKSVFAKLQFLSLENLRNL-CCINWEALAFPNL  810 (863)
Q Consensus       733 ~c~~l~~l-~~l~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~~~p~L~~L~l~~~~~L-~~i~~~~~~~p~L  810 (863)
                      +| .++.+ +.+..+++|+.|+++++ .++.+             +..+..+++|+.|++++++-. ..++.....++.|
T Consensus       200 ~N-~l~~l~~~~~~l~~L~~L~L~~N-~l~~l-------------~~~~~~l~~L~~L~l~~N~~~~~~~~~~~~~~~~L  264 (317)
T 3o53_A          200 SN-KLAFMGPEFQSAAGVTWISLRNN-KLVLI-------------EKALRFSQNLEHFDLRGNGFHCGTLRDFFSKNQRV  264 (317)
T ss_dssp             SS-CCCEECGGGGGGTTCSEEECTTS-CCCEE-------------CTTCCCCTTCCEEECTTCCCBHHHHHHHHHTCHHH
T ss_pred             CC-cCCcchhhhcccCcccEEECcCC-cccch-------------hhHhhcCCCCCEEEccCCCccCcCHHHHHhccccc
Confidence            65 34433 23455666666666664 34333             223445566666666654433 1222223345566


Q ss_pred             ceEeecCCCCCCCC
Q 048126          811 KEIRVEGCPKLFKL  824 (863)
Q Consensus       811 ~~L~i~~C~~L~~l  824 (863)
                      +.|++.+|+.++..
T Consensus       265 ~~l~l~~~~~l~~~  278 (317)
T 3o53_A          265 QTVAKQTVKKLTGQ  278 (317)
T ss_dssp             HHHHHHHHHHHHSS
T ss_pred             eEEECCCchhccCC
Confidence            66666555555543

>3o53_A Protein LRIM1, AGAP006348-PA; leucine-rich repeat, protein binding; HET: NAG; 2.00A {Anopheles gambiae}

Probab=99.73  E-value=6.7e-19  Score=188.44  Aligned_cols=266  Identities=15%  Similarity=0.097  Sum_probs=193.2

Q ss_pred             CccceEEccCCccccccchhhhcCCCccEEEccCCCccccCCccccccCCCCeEEccCCCccccchhhhcCCCCCEEecC
Q 048126          516 PHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAITHLPIELQKLVNLKCLNLE  595 (863)
Q Consensus       516 ~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~~~l~~lp~~~~~l~~L~~L~l~  595 (863)
                      ..+..++++.+.+...+...+..+++|++|+|++|.+.+..|..++++++|++|++++|.++.+++ +..+++|++|+++
T Consensus        10 ~~l~i~~ls~~~l~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~-~~~l~~L~~L~Ls   88 (317)
T 3o53_A           10 NRYKIEKVTDSSLKQALASLRQSAWNVKELDLSGNPLSQISAADLAPFTKLELLNLSSNVLYETLD-LESLSTLRTLDLN   88 (317)
T ss_dssp             TEEEEESCCTTTHHHHHHHHHTTGGGCSEEECTTSCCCCCCHHHHTTCTTCCEEECTTSCCEEEEE-ETTCTTCCEEECC
T ss_pred             CceeEeeccccchhhhHHHHhccCCCCCEEECcCCccCcCCHHHhhCCCcCCEEECCCCcCCcchh-hhhcCCCCEEECc
Confidence            345666777787877777778888999999999996665566789999999999999999987775 9999999999999


Q ss_pred             CccccCCCcHHHhhcCCCCcEEEeeccccccCchhhHHHHHcCCccCceEEEEEcChHHHHHHhhhhhhhhcceeeeecc
Q 048126          596 YMYNLNQFPRLVMSAFSKLQVLRILKSNVLFGGHQFLVEELMGMKHLMALTITLKSWEALQELLISQELQRCTQSLFLRC  675 (863)
Q Consensus       596 ~~~~l~~lp~~~~~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~~~~~l~~~~~~~~~L~~L~l~~  675 (863)
                      +| .+..+|     .+++|++|++.+|.+....       ...++                          +|+.|.+++
T Consensus        89 ~n-~l~~l~-----~~~~L~~L~l~~n~l~~~~-------~~~~~--------------------------~L~~L~l~~  129 (317)
T 3o53_A           89 NN-YVQELL-----VGPSIETLHAANNNISRVS-------CSRGQ--------------------------GKKNIYLAN  129 (317)
T ss_dssp             SS-EEEEEE-----ECTTCCEEECCSSCCSEEE-------ECCCS--------------------------SCEEEECCS
T ss_pred             CC-cccccc-----CCCCcCEEECCCCccCCcC-------ccccC--------------------------CCCEEECCC
Confidence            98 456555     3489999999988764320       11233                          445555544


Q ss_pred             ccCCCcccccchhhcCCCceEEEcCCcccccceeccccccccccccccCcccEEEEeccCCCCCCchhhccCCCcEEEEe
Q 048126          676 FNDSKSLDIFCLACLHNLNKLYVAGRKHLEDFQMTVQRSSVNQLARGFHSLHTVKVGFCFKLKDLTWLVFAPSLKSIVVL  755 (863)
Q Consensus       676 ~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~l~~~~~~~~~~~~~~~l~~L~~L~L~~c~~l~~l~~l~~l~~L~~L~l~  755 (863)
                      +. ........+..+++|+.|++++|.... +.+..+.       ..+++|++|+|++| .++.++....+++|+.|+++
T Consensus       130 N~-l~~~~~~~~~~l~~L~~L~Ls~N~l~~-~~~~~~~-------~~l~~L~~L~L~~N-~l~~~~~~~~l~~L~~L~Ls  199 (317)
T 3o53_A          130 NK-ITMLRDLDEGCRSRVQYLDLKLNEIDT-VNFAELA-------ASSDTLEHLNLQYN-FIYDVKGQVVFAKLKTLDLS  199 (317)
T ss_dssp             SC-CCSGGGBCTGGGSSEEEEECTTSCCCE-EEGGGGG-------GGTTTCCEEECTTS-CCCEEECCCCCTTCCEEECC
T ss_pred             CC-CCCccchhhhccCCCCEEECCCCCCCc-ccHHHHh-------hccCcCCEEECCCC-cCcccccccccccCCEEECC
Confidence            32 222222346678999999999975443 3333321       24799999999998 67777777779999999999


Q ss_pred             ccccchhhccccccccccCCCCCCCCcCCccceeccCCCccccccccCCCCCCCcceEeecCCCCC-CCCCCCCCC-CCC
Q 048126          756 SCCNMEQIIKAEKLSQLHHHPERKKSVFAKLQFLSLENLRNLCCINWEALAFPNLKEIRVEGCPKL-FKLPLDSNS-AKG  833 (863)
Q Consensus       756 ~~~~l~~i~~~~~~~~~~~~~~~~~~~~p~L~~L~l~~~~~L~~i~~~~~~~p~L~~L~i~~C~~L-~~lp~~~~~-~~L  833 (863)
                      ++ .++.+             +..+..+++|+.|+++++ .++.++.....+++|+.|++++++-- ..+|..... +.|
T Consensus       200 ~N-~l~~l-------------~~~~~~l~~L~~L~L~~N-~l~~l~~~~~~l~~L~~L~l~~N~~~~~~~~~~~~~~~~L  264 (317)
T 3o53_A          200 SN-KLAFM-------------GPEFQSAAGVTWISLRNN-KLVLIEKALRFSQNLEHFDLRGNGFHCGTLRDFFSKNQRV  264 (317)
T ss_dssp             SS-CCCEE-------------CGGGGGGTTCSEEECTTS-CCCEECTTCCCCTTCCEEECTTCCCBHHHHHHHHHTCHHH
T ss_pred             CC-cCCcc-------------hhhhcccCcccEEECcCC-cccchhhHhhcCCCCCEEEccCCCccCcCHHHHHhccccc
Confidence            96 45554             224667899999999996 77788877778999999999997544 234432222 556


Q ss_pred             CceEEEccccccc
Q 048126          834 CKVVIKGEENWWK  846 (863)
Q Consensus       834 ~~l~i~~~~~~~~  846 (863)
                      +.+.+.+++.+..
T Consensus       265 ~~l~l~~~~~l~~  277 (317)
T 3o53_A          265 QTVAKQTVKKLTG  277 (317)
T ss_dssp             HHHHHHHHHHHHS
T ss_pred             eEEECCCchhccC
Confidence            6666665544433

>3g06_A SSPH2 (leucine-rich repeat protein); E3 ubiquitin ligase, leucine rich repeat domain, type three effector, salmonella virulence factor; 1.90A {Salmonella typhimurium}

Probab=99.73  E-value=7.7e-17  Score=186.38  Aligned_cols=255  Identities=21%  Similarity=0.211  Sum_probs=202.7

Q ss_pred             ceEEEEeccccccccccCCCCCccceEEccCCccccccchhhhcCCCccEEEccCCCccccCCccccccCCCCeEEccCC
Q 048126          495 NVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGT  574 (863)
Q Consensus       495 ~lr~L~l~~~~~~~l~~~~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~~  574 (863)
                      .++.|++++|.+..+|.... ++|++|++++|.++.+|.    .+++|++|+|++|. +..+|.   .+++|++|++++|
T Consensus        41 ~l~~L~ls~n~L~~lp~~l~-~~L~~L~L~~N~l~~lp~----~l~~L~~L~Ls~N~-l~~lp~---~l~~L~~L~Ls~N  111 (622)
T 3g06_A           41 GNAVLNVGESGLTTLPDCLP-AHITTLVIPDNNLTSLPA----LPPELRTLEVSGNQ-LTSLPV---LPPGLLELSIFSN  111 (622)
T ss_dssp             CCCEEECCSSCCSCCCSCCC-TTCSEEEECSCCCSCCCC----CCTTCCEEEECSCC-CSCCCC---CCTTCCEEEECSC
T ss_pred             CCcEEEecCCCcCccChhhC-CCCcEEEecCCCCCCCCC----cCCCCCEEEcCCCc-CCcCCC---CCCCCCEEECcCC
Confidence            58899999999988876433 899999999999998887    47899999999994 567886   7899999999999


Q ss_pred             CccccchhhhcCCCCCEEecCCccccCCCcHHHhhcCCCCcEEEeeccccccCchhhHHHHHcCCccCceEEEEEcChHH
Q 048126          575 AITHLPIELQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRILKSNVLFGGHQFLVEELMGMKHLMALTITLKSWEA  654 (863)
Q Consensus       575 ~l~~lp~~~~~l~~L~~L~l~~~~~l~~lp~~~~~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~~  654 (863)
                      .++.+|.   .+++|++|++++| .++.+|..    +++|++|++.+|.+..-.        ..+.+|+.|.++.+....
T Consensus       112 ~l~~l~~---~l~~L~~L~L~~N-~l~~lp~~----l~~L~~L~Ls~N~l~~l~--------~~~~~L~~L~L~~N~l~~  175 (622)
T 3g06_A          112 PLTHLPA---LPSGLCKLWIFGN-QLTSLPVL----PPGLQELSVSDNQLASLP--------ALPSELCKLWAYNNQLTS  175 (622)
T ss_dssp             CCCCCCC---CCTTCCEEECCSS-CCSCCCCC----CTTCCEEECCSSCCSCCC--------CCCTTCCEEECCSSCCSC
T ss_pred             cCCCCCC---CCCCcCEEECCCC-CCCcCCCC----CCCCCEEECcCCcCCCcC--------CccCCCCEEECCCCCCCC
Confidence            9999997   6789999999998 67888863    589999999998775321        135788999998887665


Q ss_pred             HHHHhhhhhhhhcceeeeeccccCCCcccccchhhcCCCceEEEcCCcccccceeccccccccccccccCcccEEEEecc
Q 048126          655 LQELLISQELQRCTQSLFLRCFNDSKSLDIFCLACLHNLNKLYVAGRKHLEDFQMTVQRSSVNQLARGFHSLHTVKVGFC  734 (863)
Q Consensus       655 ~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~l~~~~~~~~~~~~~~~l~~L~~L~L~~c  734 (863)
                      ++      ...++|+.|+++++.- ..++  .  .+++|+.|++++|.. +.++            ..+++|+.|+|++|
T Consensus       176 l~------~~~~~L~~L~Ls~N~l-~~l~--~--~~~~L~~L~L~~N~l-~~l~------------~~~~~L~~L~Ls~N  231 (622)
T 3g06_A          176 LP------MLPSGLQELSVSDNQL-ASLP--T--LPSELYKLWAYNNRL-TSLP------------ALPSGLKELIVSGN  231 (622)
T ss_dssp             CC------CCCTTCCEEECCSSCC-SCCC--C--CCTTCCEEECCSSCC-SSCC------------CCCTTCCEEECCSS
T ss_pred             Cc------ccCCCCcEEECCCCCC-CCCC--C--ccchhhEEECcCCcc-cccC------------CCCCCCCEEEccCC
Confidence            43      2346899999988653 3322  1  247999999998753 3222            12689999999998


Q ss_pred             CCCCCCchhhccCCCcEEEEeccccchhhccccccccccCCCCCCCCcCCccceeccCCCccccccccCCCCCCCcceEe
Q 048126          735 FKLKDLTWLVFAPSLKSIVVLSCCNMEQIIKAEKLSQLHHHPERKKSVFAKLQFLSLENLRNLCCINWEALAFPNLKEIR  814 (863)
Q Consensus       735 ~~l~~l~~l~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~~~p~L~~L~l~~~~~L~~i~~~~~~~p~L~~L~  814 (863)
                       .++.+|  ..+++|+.|+++++ .++.+             +.   .+++|+.|+|+++ .++.++.....+++|+.|+
T Consensus       232 -~L~~lp--~~l~~L~~L~Ls~N-~L~~l-------------p~---~~~~L~~L~Ls~N-~L~~lp~~l~~l~~L~~L~  290 (622)
T 3g06_A          232 -RLTSLP--VLPSELKELMVSGN-RLTSL-------------PM---LPSGLLSLSVYRN-QLTRLPESLIHLSSETTVN  290 (622)
T ss_dssp             -CCSCCC--CCCTTCCEEECCSS-CCSCC-------------CC---CCTTCCEEECCSS-CCCSCCGGGGGSCTTCEEE
T ss_pred             -ccCcCC--CCCCcCcEEECCCC-CCCcC-------------Cc---ccccCcEEeCCCC-CCCcCCHHHhhccccCEEE
Confidence             677777  56799999999996 45554             22   6789999999986 6778887777899999999


Q ss_pred             ecCCC
Q 048126          815 VEGCP  819 (863)
Q Consensus       815 i~~C~  819 (863)
                      +++|+
T Consensus       291 L~~N~  295 (622)
T 3g06_A          291 LEGNP  295 (622)
T ss_dssp             CCSCC
T ss_pred             ecCCC
Confidence            99875

>1wwl_A Monocyte differentiation antigen CD14; LPS, immune system; HET: NAG; 2.50A {Mus musculus}

Probab=99.72  E-value=1.6e-18  Score=185.13  Aligned_cols=157  Identities=17%  Similarity=0.146  Sum_probs=113.5

Q ss_pred             cceEEEEecccccccccc-CCCCCccceEEccCCcccc--ccchhhh-------cCCCccEEEccCCCccccCCccc--c
Q 048126          494 RNVRRMSLMKNKIENLSE-TPTCPHLLSLFLSDNSLKM--IAGDFFQ-------FMPSLRVFNMSNNHLLWKLPSGI--S  561 (863)
Q Consensus       494 ~~lr~L~l~~~~~~~l~~-~~~~~~L~~L~l~~~~l~~--~~~~~~~-------~l~~L~~L~L~~~~~~~~lp~~i--~  561 (863)
                      ++++.+++.+|.+ .+|. +..  .|+.|++++|.+..  ++.. +.       ++++|++|+|++|.+.+.+|..+  +
T Consensus        43 ~~L~~l~l~~n~l-~~p~~~~~--~L~~L~L~~n~l~~~~~~~~-~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~~  118 (312)
T 1wwl_A           43 RSLEYLLKRVDTE-ADLGQFTD--IIKSLSLKRLTVRAARIPSR-ILFGALRVLGISGLQELTLENLEVTGTAPPPLLEA  118 (312)
T ss_dssp             EECTTHHHHCCTT-CCCHHHHH--HHHHCCCCEEEEEEEECBHH-HHHHHHHHHTTSCCCEEEEEEEBCBSCCCCCSSSC
T ss_pred             CCceeEeeccccc-ccHHHHHH--HHhhcccccccccCCCcCHH-HHHHHHHhcCcCCccEEEccCCcccchhHHHHHHh
Confidence            4566667777776 4443 222  28888888887743  3332 33       68899999999997666788876  8


Q ss_pred             ccCCCCeEEccCCCccccchhhhcC-----CCCCEEecCCccccCCCcHHHhhcCCCCcEEEeeccccccCchhhHHHHH
Q 048126          562 TLVSLEHLDLSGTAITHLPIELQKL-----VNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRILKSNVLFGGHQFLVEEL  636 (863)
Q Consensus       562 ~l~~L~~L~L~~~~l~~lp~~~~~l-----~~L~~L~l~~~~~l~~lp~~~~~~L~~L~~L~l~~~~~~~~~~~~~~~~l  636 (863)
                      .+++|++|++++|.++.+|..++.+     ++|++|++++| .+..++...++++++|++|++.+|...+.  ...+..+
T Consensus       119 ~l~~L~~L~Ls~N~l~~~~~~~~~l~~~~~~~L~~L~L~~N-~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~--~~~~~~~  195 (312)
T 1wwl_A          119 TGPDLNILNLRNVSWATRDAWLAELQQWLKPGLKVLSIAQA-HSLNFSCEQVRVFPALSTLDLSDNPELGE--RGLISAL  195 (312)
T ss_dssp             CSCCCSEEEEESCBCSSSSSHHHHHHTTCCTTCCEEEEESC-SCCCCCTTTCCCCSSCCEEECCSCTTCHH--HHHHHHS
T ss_pred             cCCCccEEEccCCCCcchhHHHHHHHHhhcCCCcEEEeeCC-CCccchHHHhccCCCCCEEECCCCCcCcc--hHHHHHH
Confidence            8999999999999988888877777     89999999988 56777755588899999999988875421  1233444


Q ss_pred             --cCCccCceEEEEEcChHHHHH
Q 048126          637 --MGMKHLMALTITLKSWEALQE  657 (863)
Q Consensus       637 --~~L~~L~~L~l~~~~~~~~~~  657 (863)
                        ..+++|+.|+++.+....++.
T Consensus       196 ~~~~l~~L~~L~L~~N~l~~~~~  218 (312)
T 1wwl_A          196 CPLKFPTLQVLALRNAGMETPSG  218 (312)
T ss_dssp             CTTSCTTCCEEECTTSCCCCHHH
T ss_pred             HhccCCCCCEEECCCCcCcchHH
Confidence              778888888887776654433

>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*

Probab=99.71  E-value=7.7e-17  Score=169.71  Aligned_cols=219  Identities=18%  Similarity=0.184  Sum_probs=144.3

Q ss_pred             EEEEeccccccccccCCCCCccceEEccCCccccccchhhhcCCCccEEEccCCCccccCCccccccCCCCeEEccCCC-
Q 048126          497 RRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGTA-  575 (863)
Q Consensus       497 r~L~l~~~~~~~l~~~~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~~~-  575 (863)
                      +.++..++.+..+|. ...++|+.|++++|.++.+++..|..+++|++|+|++|.+.+..|..++++++|++|++++|. 
T Consensus        14 ~~~~c~~~~l~~ip~-~~~~~l~~L~l~~n~i~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~~   92 (285)
T 1ozn_A           14 VTTSCPQQGLQAVPV-GIPAASQRIFLHGNRISHVPAASFRACRNLTILWLHSNVLARIDAAAFTGLALLEQLDLSDNAQ   92 (285)
T ss_dssp             CEEECCSSCCSSCCT-TCCTTCSEEECTTSCCCEECTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSCTT
T ss_pred             eEEEcCcCCcccCCc-CCCCCceEEEeeCCcCCccCHHHcccCCCCCEEECCCCccceeCHhhcCCccCCCEEeCCCCCC
Confidence            455666666666653 234678888888888877777777888888888888885555557778888888888888885 


Q ss_pred             cccc-chhhhcCCCCCEEecCCccccCCCcHHHhhcCCCCcEEEeeccccccCchhhHHHHHcCCccCceEEEEEcChHH
Q 048126          576 ITHL-PIELQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRILKSNVLFGGHQFLVEELMGMKHLMALTITLKSWEA  654 (863)
Q Consensus       576 l~~l-p~~~~~l~~L~~L~l~~~~~l~~lp~~~~~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~~  654 (863)
                      ++.+ |..+..+++|++|++++| .+..++...+.++++|++|++.+|.+...    ....+..+++|+.|+++.+..  
T Consensus        93 l~~~~~~~~~~l~~L~~L~l~~n-~l~~~~~~~~~~l~~L~~L~l~~n~l~~~----~~~~~~~l~~L~~L~l~~n~l--  165 (285)
T 1ozn_A           93 LRSVDPATFHGLGRLHTLHLDRC-GLQELGPGLFRGLAALQYLYLQDNALQAL----PDDTFRDLGNLTHLFLHGNRI--  165 (285)
T ss_dssp             CCCCCTTTTTTCTTCCEEECTTS-CCCCCCTTTTTTCTTCCEEECCSSCCCCC----CTTTTTTCTTCCEEECCSSCC--
T ss_pred             ccccCHHHhcCCcCCCEEECCCC-cCCEECHhHhhCCcCCCEEECCCCccccc----CHhHhccCCCccEEECCCCcc--
Confidence            7766 556778888888888887 45556544467788888888877765422    112244555555555543321  


Q ss_pred             HHHHhhhhhhhhcceeeeeccccCCCcccccchhhcCCCceEEEcCCcccccceeccccccccccccccCcccEEEEecc
Q 048126          655 LQELLISQELQRCTQSLFLRCFNDSKSLDIFCLACLHNLNKLYVAGRKHLEDFQMTVQRSSVNQLARGFHSLHTVKVGFC  734 (863)
Q Consensus       655 ~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~l~~~~~~~~~~~~~~~l~~L~~L~L~~c  734 (863)
                                               +..+...+..+++|+.|++++|.. ..+.+..+        ..+++|+.|+|++|
T Consensus       166 -------------------------~~~~~~~~~~l~~L~~L~l~~n~l-~~~~~~~~--------~~l~~L~~L~l~~n  211 (285)
T 1ozn_A          166 -------------------------SSVPERAFRGLHSLDRLLLHQNRV-AHVHPHAF--------RDLGRLMTLYLFAN  211 (285)
T ss_dssp             -------------------------CEECTTTTTTCTTCCEEECCSSCC-CEECTTTT--------TTCTTCCEEECCSS
T ss_pred             -------------------------cccCHHHhcCccccCEEECCCCcc-cccCHhHc--------cCcccccEeeCCCC
Confidence                                     111112355667888888887653 33333333        24778888888887


Q ss_pred             CCCCCCc--hhhccCCCcEEEEeccc
Q 048126          735 FKLKDLT--WLVFAPSLKSIVVLSCC  758 (863)
Q Consensus       735 ~~l~~l~--~l~~l~~L~~L~l~~~~  758 (863)
                       .++.++  .+..+++|+.|++++++
T Consensus       212 -~l~~~~~~~~~~l~~L~~L~l~~N~  236 (285)
T 1ozn_A          212 -NLSALPTEALAPLRALQYLRLNDNP  236 (285)
T ss_dssp             -CCSCCCHHHHTTCTTCCEEECCSSC
T ss_pred             -cCCcCCHHHcccCcccCEEeccCCC
Confidence             555555  36678888888888754

>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}

Probab=99.70  E-value=4.5e-17  Score=173.48  Aligned_cols=239  Identities=20%  Similarity=0.223  Sum_probs=173.0

Q ss_pred             EEEcCCCcccCcccccccceEEEEecccccccccc--CCCCCccceEEccCCcccccc--chhhhcCCCccEEEccCCCc
Q 048126          477 LVHAGLGLTEAPEIQNWRNVRRMSLMKNKIENLSE--TPTCPHLLSLFLSDNSLKMIA--GDFFQFMPSLRVFNMSNNHL  552 (863)
Q Consensus       477 ~~~~~~~~~~~~~~~~~~~lr~L~l~~~~~~~l~~--~~~~~~L~~L~l~~~~l~~~~--~~~~~~l~~L~~L~L~~~~~  552 (863)
                      +...+...+.+|. .-.+++++|++++|.+..++.  +..+++|++|++++|.+..+.  +..+..+++|++|+|++| .
T Consensus        12 l~c~~~~l~~ip~-~~~~~l~~L~L~~n~l~~i~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~~~~~~L~~L~Ls~n-~   89 (306)
T 2z66_A           12 IRCNSKGLTSVPT-GIPSSATRLELESNKLQSLPHGVFDKLTQLTKLSLSSNGLSFKGCCSQSDFGTTSLKYLDLSFN-G   89 (306)
T ss_dssp             EECCSSCCSSCCS-CCCTTCCEEECCSSCCCCCCTTTTTTCTTCSEEECCSSCCCEEEEEEHHHHSCSCCCEEECCSC-S
T ss_pred             EEcCCCCcccCCC-CCCCCCCEEECCCCccCccCHhHhhccccCCEEECCCCccCcccCcccccccccccCEEECCCC-c
Confidence            3334444555553 223689999999999988875  578999999999999887653  334667999999999999 5


Q ss_pred             cccCCccccccCCCCeEEccCCCccccch--hhhcCCCCCEEecCCccccCCCcHHHhhcCCCCcEEEeeccccccCchh
Q 048126          553 LWKLPSGISTLVSLEHLDLSGTAITHLPI--ELQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRILKSNVLFGGHQ  630 (863)
Q Consensus       553 ~~~lp~~i~~l~~L~~L~L~~~~l~~lp~--~~~~l~~L~~L~l~~~~~l~~lp~~~~~~L~~L~~L~l~~~~~~~~~~~  630 (863)
                      +..+|..+..+++|++|++++|.++.+|.  .+..+++|++|++++|. +...+...+..+++|++|++.+|.+...   
T Consensus        90 i~~l~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~l~~n~-l~~~~~~~~~~l~~L~~L~l~~n~l~~~---  165 (306)
T 2z66_A           90 VITMSSNFLGLEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDISHTH-TRVAFNGIFNGLSSLEVLKMAGNSFQEN---  165 (306)
T ss_dssp             EEEEEEEEETCTTCCEEECTTSEEESSTTTTTTTTCTTCCEEECTTSC-CEECSTTTTTTCTTCCEEECTTCEEGGG---
T ss_pred             cccChhhcCCCCCCCEEECCCCcccccccchhhhhccCCCEEECCCCc-CCccchhhcccCcCCCEEECCCCccccc---
Confidence            55788889999999999999999998875  79999999999999994 4545444588999999999999876531   


Q ss_pred             hHHHHHcCCccCceEEEEEcChHHHHHHhhhhhhhhcceeeeeccccCCCcccccchhhcCCCceEEEcCCcccccceec
Q 048126          631 FLVEELMGMKHLMALTITLKSWEALQELLISQELQRCTQSLFLRCFNDSKSLDIFCLACLHNLNKLYVAGRKHLEDFQMT  710 (863)
Q Consensus       631 ~~~~~l~~L~~L~~L~l~~~~~~~~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~l~~~  710 (863)
                      ..+..+..+++|+.|+++.+..                           .......+..+++|+.|++++|.... +.+.
T Consensus       166 ~~~~~~~~l~~L~~L~Ls~n~l---------------------------~~~~~~~~~~l~~L~~L~L~~N~l~~-~~~~  217 (306)
T 2z66_A          166 FLPDIFTELRNLTFLDLSQCQL---------------------------EQLSPTAFNSLSSLQVLNMSHNNFFS-LDTF  217 (306)
T ss_dssp             EECSCCTTCTTCCEEECTTSCC---------------------------CEECTTTTTTCTTCCEEECTTSCCSB-CCSG
T ss_pred             cchhHHhhCcCCCEEECCCCCc---------------------------CCcCHHHhcCCCCCCEEECCCCccCc-cChh
Confidence            1233455666666666654322                           12222345667888888888875432 3332


Q ss_pred             cccccccccccccCcccEEEEeccCCCCCC-c-hhhccC-CCcEEEEeccc
Q 048126          711 VQRSSVNQLARGFHSLHTVKVGFCFKLKDL-T-WLVFAP-SLKSIVVLSCC  758 (863)
Q Consensus       711 ~~~~~~~~~~~~l~~L~~L~L~~c~~l~~l-~-~l~~l~-~L~~L~l~~~~  758 (863)
                      .+        ..+++|+.|+|++|. +... + .+..+| +|+.|++++++
T Consensus       218 ~~--------~~l~~L~~L~L~~N~-l~~~~~~~~~~~~~~L~~L~L~~N~  259 (306)
T 2z66_A          218 PY--------KCLNSLQVLDYSLNH-IMTSKKQELQHFPSSLAFLNLTQND  259 (306)
T ss_dssp             GG--------TTCTTCCEEECTTSC-CCBCSSSSCCCCCTTCCEEECTTCC
T ss_pred             hc--------cCcccCCEeECCCCC-CcccCHHHHHhhhccCCEEEccCCC
Confidence            22        347889999998884 4433 2 355664 88999988855

>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*

Probab=99.68  E-value=5.3e-17  Score=190.06  Aligned_cols=309  Identities=16%  Similarity=0.146  Sum_probs=210.9

Q ss_pred             ccccceEEEEecccccccc-----cc-CCCCCccceEEccCCccccccchhhhcCCCccEEEccCCCcc---ccCCcccc
Q 048126          491 QNWRNVRRMSLMKNKIENL-----SE-TPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLL---WKLPSGIS  561 (863)
Q Consensus       491 ~~~~~lr~L~l~~~~~~~l-----~~-~~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~---~~lp~~i~  561 (863)
                      ..+++++.|++++|.+..+     +. ...+++|++|++++|.+..++ ..+.++++|++|+++++...   ...+..+.
T Consensus       189 ~~~~~L~~L~L~~n~~~~~~~~~l~~~~~~~~~L~~L~L~~~~~~~l~-~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~  267 (592)
T 3ogk_B          189 QHNTSLEVLNFYMTEFAKISPKDLETIARNCRSLVSVKVGDFEILELV-GFFKAAANLEEFCGGSLNEDIGMPEKYMNLV  267 (592)
T ss_dssp             HHCCCCCEEECTTCCCSSCCHHHHHHHHHHCTTCCEEECSSCBGGGGH-HHHHHCTTCCEEEECBCCCCTTCTTSSSCCC
T ss_pred             hcCCCccEEEeeccCCCccCHHHHHHHHhhCCCCcEEeccCccHHHHH-HHHhhhhHHHhhcccccccccchHHHHHHhh
Confidence            3567899999999887632     22 257899999999999888877 55899999999999864222   34566788


Q ss_pred             ccCCCCeEEccCCCccccchhhhcCCCCCEEecCCccccCCCc-HHHhhcCCCCcEEEeeccccccCchhhHHHHHcCCc
Q 048126          562 TLVSLEHLDLSGTAITHLPIELQKLVNLKCLNLEYMYNLNQFP-RLVMSAFSKLQVLRILKSNVLFGGHQFLVEELMGMK  640 (863)
Q Consensus       562 ~l~~L~~L~L~~~~l~~lp~~~~~l~~L~~L~l~~~~~l~~lp-~~~~~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~L~  640 (863)
                      .+++|+.|+++++....+|..+..+++|++|++++|. +.... ..++.++++|++|++..+ ...   .....-...++
T Consensus       268 ~~~~L~~L~l~~~~~~~l~~~~~~~~~L~~L~Ls~~~-l~~~~~~~~~~~~~~L~~L~L~~~-~~~---~~l~~~~~~~~  342 (592)
T 3ogk_B          268 FPRKLCRLGLSYMGPNEMPILFPFAAQIRKLDLLYAL-LETEDHCTLIQKCPNLEVLETRNV-IGD---RGLEVLAQYCK  342 (592)
T ss_dssp             CCTTCCEEEETTCCTTTGGGGGGGGGGCCEEEETTCC-CCHHHHHHHHTTCTTCCEEEEEGG-GHH---HHHHHHHHHCT
T ss_pred             ccccccccCccccchhHHHHHHhhcCCCcEEecCCCc-CCHHHHHHHHHhCcCCCEEeccCc-cCH---HHHHHHHHhCC
Confidence            9999999999998777899999999999999999985 33221 233688999999999833 221   22333346788


Q ss_pred             cCceEEEEE----------cChHHHHHHhhhhhhhhcceeeeeccccCCCcccccchhh-cCCCceEEEcC---Cccccc
Q 048126          641 HLMALTITL----------KSWEALQELLISQELQRCTQSLFLRCFNDSKSLDIFCLAC-LHNLNKLYVAG---RKHLED  706 (863)
Q Consensus       641 ~L~~L~l~~----------~~~~~~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~~~l~~-~~~L~~L~l~~---~~~~~~  706 (863)
                      +|+.|++..          +.......+.......++|+.|.+ .++..+...+..+.. +++|+.|++++   |+.+++
T Consensus       343 ~L~~L~L~~g~~~~~~~~~~~~~~~~~~~~l~~~~~~L~~L~l-~~~~l~~~~~~~l~~~~~~L~~L~l~~~~~~n~l~~  421 (592)
T 3ogk_B          343 QLKRLRIERGADEQGMEDEEGLVSQRGLIALAQGCQELEYMAV-YVSDITNESLESIGTYLKNLCDFRLVLLDREERITD  421 (592)
T ss_dssp             TCCEEEEECCCCSSTTSSTTCCCCHHHHHHHHHHCTTCSEEEE-EESCCCHHHHHHHHHHCCSCCEEEEEECSCCSCCSS
T ss_pred             CCCEEEeecCccccccccccCccCHHHHHHHHhhCccCeEEEe-ecCCccHHHHHHHHhhCCCCcEEEEeecCCCccccC
Confidence            999999993          222111222222233568999999 445555544444544 88999999984   445543


Q ss_pred             ceec-cccccccccccccCcccEEEEeccCC-CCC--Cchhh-ccCCCcEEEEeccccchhhccccccccccCCCCCCCC
Q 048126          707 FQMT-VQRSSVNQLARGFHSLHTVKVGFCFK-LKD--LTWLV-FAPSLKSIVVLSCCNMEQIIKAEKLSQLHHHPERKKS  781 (863)
Q Consensus       707 l~~~-~~~~~~~~~~~~l~~L~~L~L~~c~~-l~~--l~~l~-~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~  781 (863)
                      .+.+ .+.    .....+++|++|+|+.|.. +..  +..++ .+++|+.|+|++|. +.+...           .....
T Consensus       422 ~p~~~~~~----~~~~~~~~L~~L~L~~~~~~l~~~~~~~~~~~~~~L~~L~L~~n~-l~~~~~-----------~~~~~  485 (592)
T 3ogk_B          422 LPLDNGVR----SLLIGCKKLRRFAFYLRQGGLTDLGLSYIGQYSPNVRWMLLGYVG-ESDEGL-----------MEFSR  485 (592)
T ss_dssp             CCCHHHHH----HHHHHCTTCCEEEEECCGGGCCHHHHHHHHHSCTTCCEEEECSCC-SSHHHH-----------HHHHT
T ss_pred             chHHHHHH----HHHHhCCCCCEEEEecCCCCccHHHHHHHHHhCccceEeeccCCC-CCHHHH-----------HHHHh
Confidence            2111 000    0013489999999988753 222  22333 48999999999875 443211           12345


Q ss_pred             cCCccceeccCCCccccc--cccCCCCCCCcceEeecCCCCCCCC
Q 048126          782 VFAKLQFLSLENLRNLCC--INWEALAFPNLKEIRVEGCPKLFKL  824 (863)
Q Consensus       782 ~~p~L~~L~l~~~~~L~~--i~~~~~~~p~L~~L~i~~C~~L~~l  824 (863)
                      .+++|+.|+|++|+ ++.  ++.....+|+|+.|++++|+ ++..
T Consensus       486 ~~~~L~~L~l~~n~-l~~~~~~~~~~~l~~L~~L~ls~n~-it~~  528 (592)
T 3ogk_B          486 GCPNLQKLEMRGCC-FSERAIAAAVTKLPSLRYLWVQGYR-ASMT  528 (592)
T ss_dssp             CCTTCCEEEEESCC-CBHHHHHHHHHHCSSCCEEEEESCB-CCTT
T ss_pred             cCcccCeeeccCCC-CcHHHHHHHHHhcCccCeeECcCCc-CCHH
Confidence            68999999999997 543  22222358999999999997 6654

>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*

Probab=99.68  E-value=8.9e-17  Score=169.24  Aligned_cols=215  Identities=20%  Similarity=0.237  Sum_probs=164.7

Q ss_pred             EcCCCcccCcccccccceEEEEecccccccccc--CCCCCccceEEccCCccccccchhhhcCCCccEEEccCCCccccC
Q 048126          479 HAGLGLTEAPEIQNWRNVRRMSLMKNKIENLSE--TPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKL  556 (863)
Q Consensus       479 ~~~~~~~~~~~~~~~~~lr~L~l~~~~~~~l~~--~~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~l  556 (863)
                      ..+.....+|. ...+++++|++++|.+..++.  +..+++|++|++++|.++.+++..|.++++|++|++++|..+..+
T Consensus        18 c~~~~l~~ip~-~~~~~l~~L~l~~n~i~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~~l~~~   96 (285)
T 1ozn_A           18 CPQQGLQAVPV-GIPAASQRIFLHGNRISHVPAASFRACRNLTILWLHSNVLARIDAAAFTGLALLEQLDLSDNAQLRSV   96 (285)
T ss_dssp             CCSSCCSSCCT-TCCTTCSEEECTTSCCCEECTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSCTTCCCC
T ss_pred             cCcCCcccCCc-CCCCCceEEEeeCCcCCccCHHHcccCCCCCEEECCCCccceeCHhhcCCccCCCEEeCCCCCCcccc
Confidence            33444444443 234689999999999988763  688999999999999999997777999999999999999635555


Q ss_pred             -CccccccCCCCeEEccCCCcccc-chhhhcCCCCCEEecCCccccCCCcHHHhhcCCCCcEEEeeccccccCchhhHHH
Q 048126          557 -PSGISTLVSLEHLDLSGTAITHL-PIELQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRILKSNVLFGGHQFLVE  634 (863)
Q Consensus       557 -p~~i~~l~~L~~L~L~~~~l~~l-p~~~~~l~~L~~L~l~~~~~l~~lp~~~~~~L~~L~~L~l~~~~~~~~~~~~~~~  634 (863)
                       |..+..+++|++|++++|.++.+ |..+.++++|++|++++| .+..+|...++.+++|++|++.+|.+...    ...
T Consensus        97 ~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n-~l~~~~~~~~~~l~~L~~L~l~~n~l~~~----~~~  171 (285)
T 1ozn_A           97 DPATFHGLGRLHTLHLDRCGLQELGPGLFRGLAALQYLYLQDN-ALQALPDDTFRDLGNLTHLFLHGNRISSV----PER  171 (285)
T ss_dssp             CTTTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECCSS-CCCCCCTTTTTTCTTCCEEECCSSCCCEE----CTT
T ss_pred             CHHHhcCCcCCCEEECCCCcCCEECHhHhhCCcCCCEEECCCC-cccccCHhHhccCCCccEEECCCCccccc----CHH
Confidence             78899999999999999999977 556899999999999999 66788876688999999999999876532    222


Q ss_pred             HHcCCccCceEEEEEcChHHHHHHhhhhhhhhcceeeeeccccCCCcccccchhhcCCCceEEEcCCcccccceeccccc
Q 048126          635 ELMGMKHLMALTITLKSWEALQELLISQELQRCTQSLFLRCFNDSKSLDIFCLACLHNLNKLYVAGRKHLEDFQMTVQRS  714 (863)
Q Consensus       635 ~l~~L~~L~~L~l~~~~~~~~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~l~~~~~~~  714 (863)
                      .+..+++|+.|+++.+..                           .......+..+++|+.|++++|.. +.+++..+  
T Consensus       172 ~~~~l~~L~~L~l~~n~l---------------------------~~~~~~~~~~l~~L~~L~l~~n~l-~~~~~~~~--  221 (285)
T 1ozn_A          172 AFRGLHSLDRLLLHQNRV---------------------------AHVHPHAFRDLGRLMTLYLFANNL-SALPTEAL--  221 (285)
T ss_dssp             TTTTCTTCCEEECCSSCC---------------------------CEECTTTTTTCTTCCEEECCSSCC-SCCCHHHH--
T ss_pred             HhcCccccCEEECCCCcc---------------------------cccCHhHccCcccccEeeCCCCcC-CcCCHHHc--
Confidence            356667777777654432                           111123466678999999998744 33444433  


Q ss_pred             cccccccccCcccEEEEeccC
Q 048126          715 SVNQLARGFHSLHTVKVGFCF  735 (863)
Q Consensus       715 ~~~~~~~~l~~L~~L~L~~c~  735 (863)
                            ..+++|+.|+|++++
T Consensus       222 ------~~l~~L~~L~l~~N~  236 (285)
T 1ozn_A          222 ------APLRALQYLRLNDNP  236 (285)
T ss_dssp             ------TTCTTCCEEECCSSC
T ss_pred             ------ccCcccCEEeccCCC
Confidence                  348899999999875

>3oja_A Leucine-rich immune molecule 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae}

Probab=99.68  E-value=3e-17  Score=186.05  Aligned_cols=236  Identities=16%  Similarity=0.119  Sum_probs=132.9

Q ss_pred             CCCccceEEccCCccccccchhhhcCCCccEEEccCCCccccCCccccccCCCCeEEccCCCccccchhhhcCCCCCEEe
Q 048126          514 TCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAITHLPIELQKLVNLKCLN  593 (863)
Q Consensus       514 ~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~~~l~~lp~~~~~l~~L~~L~  593 (863)
                      .+++|++|++++|.+..+++..|.++++|++|+|++|.+.+..|  ++.+++|++|+|++|.++.+|..    ++|++|+
T Consensus        32 ~~~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~--l~~l~~L~~L~Ls~N~l~~l~~~----~~L~~L~  105 (487)
T 3oja_A           32 SAWNVKELDLSGNPLSQISAADLAPFTKLELLNLSSNVLYETLD--LESLSTLRTLDLNNNYVQELLVG----PSIETLH  105 (487)
T ss_dssp             TGGGCCEEECCSSCCCCCCGGGGTTCTTCCEEECTTSCCEEEEE--CTTCTTCCEEECCSSEEEEEEEC----TTCCEEE
T ss_pred             cCCCccEEEeeCCcCCCCCHHHHhCCCCCCEEEeeCCCCCCCcc--cccCCCCCEEEecCCcCCCCCCC----CCcCEEE
Confidence            45577788888777777776667777888888888775443333  77777788888888777766632    6777888


Q ss_pred             cCCccccCCCcHHHhhcCCCCcEEEeeccccccCchhhHHHHHcCCccCceEEEEEcChHHHHHHhhhhhhhhcceeeee
Q 048126          594 LEYMYNLNQFPRLVMSAFSKLQVLRILKSNVLFGGHQFLVEELMGMKHLMALTITLKSWEALQELLISQELQRCTQSLFL  673 (863)
Q Consensus       594 l~~~~~l~~lp~~~~~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~~~~~l~~~~~~~~~L~~L~l  673 (863)
                      +++| .+..+|.   ..+++|++|++.+|.+...    .+..++++++|+.|+++.+...                    
T Consensus       106 L~~N-~l~~~~~---~~l~~L~~L~L~~N~l~~~----~~~~~~~l~~L~~L~Ls~N~l~--------------------  157 (487)
T 3oja_A          106 AANN-NISRVSC---SRGQGKKNIYLANNKITML----RDLDEGCRSRVQYLDLKLNEID--------------------  157 (487)
T ss_dssp             CCSS-CCCCEEE---CCCSSCEEEECCSSCCCSG----GGBCGGGGSSEEEEECTTSCCC--------------------
T ss_pred             CcCC-cCCCCCc---cccCCCCEEECCCCCCCCC----CchhhcCCCCCCEEECCCCCCC--------------------
Confidence            8777 4555553   3467777777777765421    1222344444444444433221                    


Q ss_pred             ccccCCCcccccchh-hcCCCceEEEcCCcccccceeccccccccccccccCcccEEEEeccCCCCCC-chhhccCCCcE
Q 048126          674 RCFNDSKSLDIFCLA-CLHNLNKLYVAGRKHLEDFQMTVQRSSVNQLARGFHSLHTVKVGFCFKLKDL-TWLVFAPSLKS  751 (863)
Q Consensus       674 ~~~~~~~~~~~~~l~-~~~~L~~L~l~~~~~~~~l~~~~~~~~~~~~~~~l~~L~~L~L~~c~~l~~l-~~l~~l~~L~~  751 (863)
                             ......+. .+++|+.|++++|.... + +..         ..+++|+.|+|++| .++.+ +.++.+++|+.
T Consensus       158 -------~~~~~~l~~~l~~L~~L~Ls~N~l~~-~-~~~---------~~l~~L~~L~Ls~N-~l~~~~~~~~~l~~L~~  218 (487)
T 3oja_A          158 -------TVNFAELAASSDTLEHLNLQYNFIYD-V-KGQ---------VVFAKLKTLDLSSN-KLAFMGPEFQSAAGVTW  218 (487)
T ss_dssp             -------EEEGGGGGGGTTTCCEEECTTSCCCE-E-ECC---------CCCTTCCEEECCSS-CCCEECGGGGGGTTCSE
T ss_pred             -------CcChHHHhhhCCcccEEecCCCcccc-c-ccc---------ccCCCCCEEECCCC-CCCCCCHhHcCCCCccE
Confidence                   11111222 45666666666654322 2 111         12566666666665 34433 34556666666


Q ss_pred             EEEeccccchhhccccccccccCCCCCCCCcCCccceeccCCCccc-cccccCCCCCCCcceEeec
Q 048126          752 IVVLSCCNMEQIIKAEKLSQLHHHPERKKSVFAKLQFLSLENLRNL-CCINWEALAFPNLKEIRVE  816 (863)
Q Consensus       752 L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~~~p~L~~L~l~~~~~L-~~i~~~~~~~p~L~~L~i~  816 (863)
                      |+++++. +..+             +..+..+++|+.|++++++-. ..++.....++.|+.|.+.
T Consensus       219 L~Ls~N~-l~~l-------------p~~l~~l~~L~~L~l~~N~l~c~~~~~~~~~l~~L~~l~~~  270 (487)
T 3oja_A          219 ISLRNNK-LVLI-------------EKALRFSQNLEHFDLRGNGFHCGTLRDFFSKNQRVQTVAKQ  270 (487)
T ss_dssp             EECTTSC-CCEE-------------CTTCCCCTTCCEEECTTCCBCHHHHHHHHTTCHHHHHHHHH
T ss_pred             EEecCCc-Cccc-------------chhhccCCCCCEEEcCCCCCcCcchHHHHHhCCCCcEEecc
Confidence            6666633 3333             223445666666666665433 1222223345555555554

>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

Probab=99.68  E-value=7.3e-16  Score=163.85  Aligned_cols=127  Identities=24%  Similarity=0.362  Sum_probs=87.9

Q ss_pred             cccccceEEEEeccccccccccCCCCCccceEEccCCccccccchhhhcCCCccEEEccCCCccccCCccccccCCCCeE
Q 048126          490 IQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHL  569 (863)
Q Consensus       490 ~~~~~~lr~L~l~~~~~~~l~~~~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L  569 (863)
                      ...+++++.|++.++.+..++.+..+++|++|++++|.+..+++  +..+++|++|+|++|. +..+| .++.+++|++|
T Consensus        37 ~~~l~~L~~L~l~~~~i~~l~~~~~l~~L~~L~L~~n~i~~~~~--~~~l~~L~~L~L~~n~-l~~~~-~~~~l~~L~~L  112 (308)
T 1h6u_A           37 QADLDGITTLSAFGTGVTTIEGVQYLNNLIGLELKDNQITDLAP--LKNLTKITELELSGNP-LKNVS-AIAGLQSIKTL  112 (308)
T ss_dssp             HHHHHTCCEEECTTSCCCCCTTGGGCTTCCEEECCSSCCCCCGG--GTTCCSCCEEECCSCC-CSCCG-GGTTCTTCCEE
T ss_pred             HHHcCCcCEEEeeCCCccCchhhhccCCCCEEEccCCcCCCChh--HccCCCCCEEEccCCc-CCCch-hhcCCCCCCEE
Confidence            34556777777777777777666777777777777777776665  6777777777777774 43444 56777777777


Q ss_pred             EccCCCccccchhhhcCCCCCEEecCCccccCCCcHHHhhcCCCCcEEEeecccc
Q 048126          570 DLSGTAITHLPIELQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRILKSNV  624 (863)
Q Consensus       570 ~L~~~~l~~lp~~~~~l~~L~~L~l~~~~~l~~lp~~~~~~L~~L~~L~l~~~~~  624 (863)
                      ++++|.++.+|. +..+++|++|++++| .+..++.  ++.+++|++|++.+|.+
T Consensus       113 ~l~~n~l~~~~~-l~~l~~L~~L~l~~n-~l~~~~~--l~~l~~L~~L~l~~n~l  163 (308)
T 1h6u_A          113 DLTSTQITDVTP-LAGLSNLQVLYLDLN-QITNISP--LAGLTNLQYLSIGNAQV  163 (308)
T ss_dssp             ECTTSCCCCCGG-GTTCTTCCEEECCSS-CCCCCGG--GGGCTTCCEEECCSSCC
T ss_pred             ECCCCCCCCchh-hcCCCCCCEEECCCC-ccCcCcc--ccCCCCccEEEccCCcC
Confidence            777777777664 677777777777776 4555654  56667777777666544

>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

Probab=99.67  E-value=2.7e-17  Score=186.22  Aligned_cols=315  Identities=16%  Similarity=0.120  Sum_probs=206.4

Q ss_pred             ccccceEEEEecccccccc--ccC-CCCC----ccceEEccCCccccc----cchhhhcCCCccEEEccCCCccccCCcc
Q 048126          491 QNWRNVRRMSLMKNKIENL--SET-PTCP----HLLSLFLSDNSLKMI----AGDFFQFMPSLRVFNMSNNHLLWKLPSG  559 (863)
Q Consensus       491 ~~~~~lr~L~l~~~~~~~l--~~~-~~~~----~L~~L~l~~~~l~~~----~~~~~~~l~~L~~L~L~~~~~~~~lp~~  559 (863)
                      ..+++++.|++++|.+...  ..+ ..++    +|++|++++|.+...    .+..+..+++|++|+|++|.+....+..
T Consensus        53 ~~~~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~L~~n~i~~~~~~~l~~~l~~~~~L~~L~Ls~n~i~~~~~~~  132 (461)
T 1z7x_W           53 RVNPALAELNLRSNELGDVGVHCVLQGLQTPSCKIQKLSLQNCCLTGAGCGVLSSTLRTLPTLQELHLSDNLLGDAGLQL  132 (461)
T ss_dssp             HTCTTCCEEECTTCCCHHHHHHHHHHTTCSTTCCCCEEECTTSCCBGGGHHHHHHHTTSCTTCCEEECCSSBCHHHHHHH
T ss_pred             HhCCCcCEEeCCCCcCChHHHHHHHHHHhhCCCceeEEEccCCCCCHHHHHHHHHHHccCCceeEEECCCCcCchHHHHH
Confidence            4457899999999887542  111 2233    799999999987742    2455788999999999999654333333


Q ss_pred             cc-----ccCCCCeEEccCCCccc-----cchhhhcCCCCCEEecCCccccCCCcHHHh-----hcCCCCcEEEeecccc
Q 048126          560 IS-----TLVSLEHLDLSGTAITH-----LPIELQKLVNLKCLNLEYMYNLNQFPRLVM-----SAFSKLQVLRILKSNV  624 (863)
Q Consensus       560 i~-----~l~~L~~L~L~~~~l~~-----lp~~~~~l~~L~~L~l~~~~~l~~lp~~~~-----~~L~~L~~L~l~~~~~  624 (863)
                      +.     .+++|++|++++|.++.     ++..+..+++|++|++++|. +...+...+     ..+++|++|++.+|.+
T Consensus       133 l~~~l~~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~L~~n~-i~~~~~~~l~~~l~~~~~~L~~L~L~~n~l  211 (461)
T 1z7x_W          133 LCEGLLDPQCRLEKLQLEYCSLSAASCEPLASVLRAKPDFKELTVSNND-INEAGVRVLCQGLKDSPCQLEALKLESCGV  211 (461)
T ss_dssp             HHHHHTSTTCCCCEEECTTSCCBGGGHHHHHHHHHHCTTCCEEECCSSB-CHHHHHHHHHHHHHHSCCCCCEEECTTSCC
T ss_pred             HHHHHhcCCCcceEEECCCCCCCHHHHHHHHHHHhhCCCCCEEECcCCC-cchHHHHHHHHHHhcCCCCceEEEccCCCC
Confidence            33     25679999999998874     56778888999999999984 333221112     2356999999999987


Q ss_pred             ccCchhhHHHHHcCCccCceEEEEEcChHHHH--HHhhhh-hhhhcceeeeeccccCCCccc----ccchhhcCCCceEE
Q 048126          625 LFGGHQFLVEELMGMKHLMALTITLKSWEALQ--ELLISQ-ELQRCTQSLFLRCFNDSKSLD----IFCLACLHNLNKLY  697 (863)
Q Consensus       625 ~~~~~~~~~~~l~~L~~L~~L~l~~~~~~~~~--~l~~~~-~~~~~L~~L~l~~~~~~~~~~----~~~l~~~~~L~~L~  697 (863)
                      ...........+..+++|+.|+++.+......  .+.... ...++|+.|+++++. .+...    ...+..+++|++|+
T Consensus       212 ~~~~~~~l~~~l~~~~~L~~L~Ls~n~l~~~~~~~l~~~~~~~~~~L~~L~L~~n~-l~~~~~~~l~~~l~~~~~L~~L~  290 (461)
T 1z7x_W          212 TSDNCRDLCGIVASKASLRELALGSNKLGDVGMAELCPGLLHPSSRLRTLWIWECG-ITAKGCGDLCRVLRAKESLKELS  290 (461)
T ss_dssp             BTTHHHHHHHHHHHCTTCCEEECCSSBCHHHHHHHHHHHHTSTTCCCCEEECTTSC-CCHHHHHHHHHHHHHCTTCCEEE
T ss_pred             cHHHHHHHHHHHHhCCCccEEeccCCcCChHHHHHHHHHHhcCCCCceEEECcCCC-CCHHHHHHHHHHHhhCCCcceEE
Confidence            65433345667788899999999988765422  222111 124689999999874 33321    13455689999999


Q ss_pred             EcCCcccccceeccccccccccccccCcccEEEEeccCCCCCC------chhhccCCCcEEEEeccccchhhcccccccc
Q 048126          698 VAGRKHLEDFQMTVQRSSVNQLARGFHSLHTVKVGFCFKLKDL------TWLVFAPSLKSIVVLSCCNMEQIIKAEKLSQ  771 (863)
Q Consensus       698 l~~~~~~~~l~~~~~~~~~~~~~~~l~~L~~L~L~~c~~l~~l------~~l~~l~~L~~L~l~~~~~l~~i~~~~~~~~  771 (863)
                      +++|.. .+..+..+..   ......++|++|+|++|. ++..      ..+..+++|+.|+++++ .+.+.......  
T Consensus       291 Ls~n~i-~~~~~~~l~~---~l~~~~~~L~~L~L~~n~-l~~~~~~~l~~~l~~~~~L~~L~Ls~n-~i~~~~~~~l~--  362 (461)
T 1z7x_W          291 LAGNEL-GDEGARLLCE---TLLEPGCQLESLWVKSCS-FTAACCSHFSSVLAQNRFLLELQISNN-RLEDAGVRELC--  362 (461)
T ss_dssp             CTTCCC-HHHHHHHHHH---HHTSTTCCCCEEECTTSC-CBGGGHHHHHHHHHHCSSCCEEECCSS-BCHHHHHHHHH--
T ss_pred             CCCCCC-chHHHHHHHH---HhccCCccceeeEcCCCC-CchHHHHHHHHHHhhCCCccEEEccCC-ccccccHHHHH--
Confidence            998753 2211111110   000124699999999985 5432      24557799999999997 45544221000  


Q ss_pred             ccCCCCCCC-CcCCccceeccCCCcccc-----ccccCCCCCCCcceEeecCCCCCCC
Q 048126          772 LHHHPERKK-SVFAKLQFLSLENLRNLC-----CINWEALAFPNLKEIRVEGCPKLFK  823 (863)
Q Consensus       772 ~~~~~~~~~-~~~p~L~~L~l~~~~~L~-----~i~~~~~~~p~L~~L~i~~C~~L~~  823 (863)
                            ..+ ...++|+.|++++| .++     .++.....+++|++|++++| ++..
T Consensus       363 ------~~l~~~~~~L~~L~L~~n-~i~~~~~~~l~~~l~~~~~L~~L~l~~N-~i~~  412 (461)
T 1z7x_W          363 ------QGLGQPGSVLRVLWLADC-DVSDSSCSSLAATLLANHSLRELDLSNN-CLGD  412 (461)
T ss_dssp             ------HHHTSTTCCCCEEECTTS-CCCHHHHHHHHHHHHHCCCCCEEECCSS-SCCH
T ss_pred             ------HHHcCCCCceEEEECCCC-CCChhhHHHHHHHHHhCCCccEEECCCC-CCCH
Confidence                  011 12679999999997 444     34444445899999999987 4543

>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

Probab=99.67  E-value=2.3e-17  Score=186.73  Aligned_cols=339  Identities=16%  Similarity=0.095  Sum_probs=151.1

Q ss_pred             ceEEEEeccccccccc--c-CCCCCccceEEccCCcccccc----chhhhcCCCccEEEccCCCccccCCcccc-ccC--
Q 048126          495 NVRRMSLMKNKIENLS--E-TPTCPHLLSLFLSDNSLKMIA----GDFFQFMPSLRVFNMSNNHLLWKLPSGIS-TLV--  564 (863)
Q Consensus       495 ~lr~L~l~~~~~~~l~--~-~~~~~~L~~L~l~~~~l~~~~----~~~~~~l~~L~~L~L~~~~~~~~lp~~i~-~l~--  564 (863)
                      +++.|+++++.+...+  . +..+++|++|++++|.+....    +..+..+++|++|+|++|.+....+..+. .+.  
T Consensus         4 ~l~~L~Ls~~~l~~~~~~~~~~~~~~L~~L~L~~~~l~~~~~~~l~~~l~~~~~L~~L~Ls~n~l~~~~~~~l~~~l~~~   83 (461)
T 1z7x_W            4 DIQSLDIQCEELSDARWAELLPLLQQCQVVRLDDCGLTEARCKDISSALRVNPALAELNLRSNELGDVGVHCVLQGLQTP   83 (461)
T ss_dssp             EEEEEEEESCCCCHHHHHHHHHHHTTCSEEEEESSCCCHHHHHHHHHHHHTCTTCCEEECTTCCCHHHHHHHHHHTTCST
T ss_pred             cceehhhhhcccCchhHHHHHhhcCCccEEEccCCCCCHHHHHHHHHHHHhCCCcCEEeCCCCcCChHHHHHHHHHHhhC
Confidence            4556666655553321  1 244556666666666554211    22345556666666666543322222222 233  


Q ss_pred             --CCCeEEccCCCcc-----ccchhhhcCCCCCEEecCCccccCCC-cH----HHhhcCCCCcEEEeeccccccCchhhH
Q 048126          565 --SLEHLDLSGTAIT-----HLPIELQKLVNLKCLNLEYMYNLNQF-PR----LVMSAFSKLQVLRILKSNVLFGGHQFL  632 (863)
Q Consensus       565 --~L~~L~L~~~~l~-----~lp~~~~~l~~L~~L~l~~~~~l~~l-p~----~~~~~L~~L~~L~l~~~~~~~~~~~~~  632 (863)
                        +|++|++++|.++     .+|..+.++++|++|++++|. +... +.    ......++|++|++.+|.+........
T Consensus        84 ~~~L~~L~L~~n~i~~~~~~~l~~~l~~~~~L~~L~Ls~n~-i~~~~~~~l~~~l~~~~~~L~~L~L~~n~l~~~~~~~l  162 (461)
T 1z7x_W           84 SCKIQKLSLQNCCLTGAGCGVLSSTLRTLPTLQELHLSDNL-LGDAGLQLLCEGLLDPQCRLEKLQLEYCSLSAASCEPL  162 (461)
T ss_dssp             TCCCCEEECTTSCCBGGGHHHHHHHTTSCTTCCEEECCSSB-CHHHHHHHHHHHHTSTTCCCCEEECTTSCCBGGGHHHH
T ss_pred             CCceeEEEccCCCCCHHHHHHHHHHHccCCceeEEECCCCc-CchHHHHHHHHHHhcCCCcceEEECCCCCCCHHHHHHH
Confidence              4666666666555     345555666666666666552 2211 11    111123456666666555443322233


Q ss_pred             HHHHcCCccCceEEEEEcChHHHH--HHhhhh-hhhhcceeeeeccccCCCcc---cccchhhcCCCceEEEcCCccccc
Q 048126          633 VEELMGMKHLMALTITLKSWEALQ--ELLISQ-ELQRCTQSLFLRCFNDSKSL---DIFCLACLHNLNKLYVAGRKHLED  706 (863)
Q Consensus       633 ~~~l~~L~~L~~L~l~~~~~~~~~--~l~~~~-~~~~~L~~L~l~~~~~~~~~---~~~~l~~~~~L~~L~l~~~~~~~~  706 (863)
                      ...+..+++|+.|+++.+......  .+.... ...++|+.|+++++.-....   -...+..+++|++|++++|. +.+
T Consensus       163 ~~~l~~~~~L~~L~L~~n~i~~~~~~~l~~~l~~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~n~-l~~  241 (461)
T 1z7x_W          163 ASVLRAKPDFKELTVSNNDINEAGVRVLCQGLKDSPCQLEALKLESCGVTSDNCRDLCGIVASKASLRELALGSNK-LGD  241 (461)
T ss_dssp             HHHHHHCTTCCEEECCSSBCHHHHHHHHHHHHHHSCCCCCEEECTTSCCBTTHHHHHHHHHHHCTTCCEEECCSSB-CHH
T ss_pred             HHHHhhCCCCCEEECcCCCcchHHHHHHHHHHhcCCCCceEEEccCCCCcHHHHHHHHHHHHhCCCccEEeccCCc-CCh
Confidence            444455556666666555433211  111100 01125556666554321110   01223345566666665553 211


Q ss_pred             ceeccccccccccccccCcccEEEEeccCCCCC-----Cc-hhhccCCCcEEEEeccccchhhccccccc----------
Q 048126          707 FQMTVQRSSVNQLARGFHSLHTVKVGFCFKLKD-----LT-WLVFAPSLKSIVVLSCCNMEQIIKAEKLS----------  770 (863)
Q Consensus       707 l~~~~~~~~~~~~~~~l~~L~~L~L~~c~~l~~-----l~-~l~~l~~L~~L~l~~~~~l~~i~~~~~~~----------  770 (863)
                      .....+.+   .....+++|++|++++| .++.     ++ .+..+++|++|+++++. +.+........          
T Consensus       242 ~~~~~l~~---~~~~~~~~L~~L~L~~n-~l~~~~~~~l~~~l~~~~~L~~L~Ls~n~-i~~~~~~~l~~~l~~~~~~L~  316 (461)
T 1z7x_W          242 VGMAELCP---GLLHPSSRLRTLWIWEC-GITAKGCGDLCRVLRAKESLKELSLAGNE-LGDEGARLLCETLLEPGCQLE  316 (461)
T ss_dssp             HHHHHHHH---HHTSTTCCCCEEECTTS-CCCHHHHHHHHHHHHHCTTCCEEECTTCC-CHHHHHHHHHHHHTSTTCCCC
T ss_pred             HHHHHHHH---HHhcCCCCceEEECcCC-CCCHHHHHHHHHHHhhCCCcceEECCCCC-CchHHHHHHHHHhccCCccce
Confidence            10000000   00012445555555555 3333     11 23334555555555432 22110000000          


Q ss_pred             cccCC-----------CCCCCCcCCccceeccCCCccccccccC-----C-CCCCCcceEeecCCCCCC-----CCCCCC
Q 048126          771 QLHHH-----------PERKKSVFAKLQFLSLENLRNLCCINWE-----A-LAFPNLKEIRVEGCPKLF-----KLPLDS  828 (863)
Q Consensus       771 ~~~~~-----------~~~~~~~~p~L~~L~l~~~~~L~~i~~~-----~-~~~p~L~~L~i~~C~~L~-----~lp~~~  828 (863)
                      .+...           .+..+..+++|+.|+|+++ .+.+....     . ...++|+.|++++| +++     .+|...
T Consensus       317 ~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~n-~i~~~~~~~l~~~l~~~~~~L~~L~L~~n-~i~~~~~~~l~~~l  394 (461)
T 1z7x_W          317 SLWVKSCSFTAACCSHFSSVLAQNRFLLELQISNN-RLEDAGVRELCQGLGQPGSVLRVLWLADC-DVSDSSCSSLAATL  394 (461)
T ss_dssp             EEECTTSCCBGGGHHHHHHHHHHCSSCCEEECCSS-BCHHHHHHHHHHHHTSTTCCCCEEECTTS-CCCHHHHHHHHHHH
T ss_pred             eeEcCCCCCchHHHHHHHHHHhhCCCccEEEccCC-ccccccHHHHHHHHcCCCCceEEEECCCC-CCChhhHHHHHHHH
Confidence            00000           0112334578888888876 34432111     0 12578999999887 566     455433


Q ss_pred             C-CCCCCceEEEccc
Q 048126          829 N-SAKGCKVVIKGEE  842 (863)
Q Consensus       829 ~-~~~L~~l~i~~~~  842 (863)
                      . .++|+.+++++++
T Consensus       395 ~~~~~L~~L~l~~N~  409 (461)
T 1z7x_W          395 LANHSLRELDLSNNC  409 (461)
T ss_dssp             HHCCCCCEEECCSSS
T ss_pred             HhCCCccEEECCCCC
Confidence            3 2788888888764

>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*

Probab=99.66  E-value=3e-17  Score=192.24  Aligned_cols=249  Identities=17%  Similarity=0.154  Sum_probs=123.5

Q ss_pred             cccceEEEEeccccccc-----cccC-CCCCccceEEccCCcccccc----chhhhcCCCccEEEccCCCccccCCcccc
Q 048126          492 NWRNVRRMSLMKNKIEN-----LSET-PTCPHLLSLFLSDNSLKMIA----GDFFQFMPSLRVFNMSNNHLLWKLPSGIS  561 (863)
Q Consensus       492 ~~~~lr~L~l~~~~~~~-----l~~~-~~~~~L~~L~l~~~~l~~~~----~~~~~~l~~L~~L~L~~~~~~~~lp~~i~  561 (863)
                      .+++++.|++.+|.+..     ++.+ ..+++|++|++++|. ..+.    ...+.++++|++|++++|...+.+|..+.
T Consensus       154 ~~~~L~~L~L~~~~i~~~~~~~l~~~~~~~~~L~~L~l~~~~-~~~~~~~l~~l~~~~~~L~~L~L~~~~~~~~l~~~~~  232 (594)
T 2p1m_B          154 TCRNLKELDLRESDVDDVSGHWLSHFPDTYTSLVSLNISCLA-SEVSFSALERLVTRCPNLKSLKLNRAVPLEKLATLLQ  232 (594)
T ss_dssp             HCTTCCEEECTTCEEECCCGGGGGGSCTTCCCCCEEECTTCC-SCCCHHHHHHHHHHCTTCCEEECCTTSCHHHHHHHHH
T ss_pred             hCCCCCEEeCcCCccCCcchHHHHHHhhcCCcCcEEEecccC-CcCCHHHHHHHHHhCCCCcEEecCCCCcHHHHHHHHh
Confidence            45566666666665432     2222 356667777776664 1121    12234456677777776644444666666


Q ss_pred             ccCCCCeEEccCCC-------ccccchhhhcCCCCCEE-ecCCccccCCCcHHHhhcCCCCcEEEeeccccccCchhhHH
Q 048126          562 TLVSLEHLDLSGTA-------ITHLPIELQKLVNLKCL-NLEYMYNLNQFPRLVMSAFSKLQVLRILKSNVLFGGHQFLV  633 (863)
Q Consensus       562 ~l~~L~~L~L~~~~-------l~~lp~~~~~l~~L~~L-~l~~~~~l~~lp~~~~~~L~~L~~L~l~~~~~~~~~~~~~~  633 (863)
                      ++++|++|+++.+.       +..++..+.++++|+.| .+.+. ....+|.. +..+++|++|++.+|.+..   ....
T Consensus       233 ~~~~L~~L~l~~~~~~~~~~~~~~l~~~l~~~~~L~~Ls~~~~~-~~~~l~~~-~~~~~~L~~L~L~~~~l~~---~~l~  307 (594)
T 2p1m_B          233 RAPQLEELGTGGYTAEVRPDVYSGLSVALSGCKELRCLSGFWDA-VPAYLPAV-YSVCSRLTTLNLSYATVQS---YDLV  307 (594)
T ss_dssp             HCTTCSEEECSBCCCCCCHHHHHHHHHHHHTCTTCCEEECCBTC-CGGGGGGG-HHHHTTCCEEECTTCCCCH---HHHH
T ss_pred             cCCcceEcccccccCccchhhHHHHHHHHhcCCCcccccCCccc-chhhHHHH-HHhhCCCCEEEccCCCCCH---HHHH
Confidence            66666666654432       22344445555555555 22222 11223332 3466777777777776331   2223


Q ss_pred             HHHcCCccCceEEEEEcChHHHHHHhhhhhhhhcceeeeecc--------ccCCCcccccchh-hcCCCceEEEcCCccc
Q 048126          634 EELMGMKHLMALTITLKSWEALQELLISQELQRCTQSLFLRC--------FNDSKSLDIFCLA-CLHNLNKLYVAGRKHL  704 (863)
Q Consensus       634 ~~l~~L~~L~~L~l~~~~~~~~~~l~~~~~~~~~L~~L~l~~--------~~~~~~~~~~~l~-~~~~L~~L~l~~~~~~  704 (863)
                      .-+.++++|+.|++..+ .. ...+.......++|+.|.+.+        +...+...+..+. .+++|++|.+.+ ..+
T Consensus       308 ~~~~~~~~L~~L~l~~~-~~-~~~l~~l~~~~~~L~~L~L~~~~~~g~~~~~~l~~~~l~~l~~~~~~L~~L~~~~-~~l  384 (594)
T 2p1m_B          308 KLLCQCPKLQRLWVLDY-IE-DAGLEVLASTCKDLRELRVFPSEPFVMEPNVALTEQGLVSVSMGCPKLESVLYFC-RQM  384 (594)
T ss_dssp             HHHTTCTTCCEEEEEGG-GH-HHHHHHHHHHCTTCCEEEEECSCTTCSSCSSCCCHHHHHHHHHHCTTCCEEEEEE-SCC
T ss_pred             HHHhcCCCcCEEeCcCc-cC-HHHHHHHHHhCCCCCEEEEecCcccccccCCCCCHHHHHHHHHhchhHHHHHHhc-CCc
Confidence            33567777777777755 21 122222222235677777743        2222222222222 356777775443 333


Q ss_pred             ccceeccccccccccccccCcccEEEEe-----ccCCCCCCch-------hhccCCCcEEEEec
Q 048126          705 EDFQMTVQRSSVNQLARGFHSLHTVKVG-----FCFKLKDLTW-------LVFAPSLKSIVVLS  756 (863)
Q Consensus       705 ~~l~~~~~~~~~~~~~~~l~~L~~L~L~-----~c~~l~~l~~-------l~~l~~L~~L~l~~  756 (863)
                      ++.......       ..+++|+.|+|+     +|..++..|.       +..+++|+.|+|++
T Consensus       385 ~~~~~~~l~-------~~~~~L~~L~L~~~~~~~~~~l~~~~~~~~~~~l~~~~~~L~~L~L~~  441 (594)
T 2p1m_B          385 TNAALITIA-------RNRPNMTRFRLCIIEPKAPDYLTLEPLDIGFGAIVEHCKDLRRLSLSG  441 (594)
T ss_dssp             CHHHHHHHH-------HHCTTCCEEEEEESSTTCCCTTTCCCTHHHHHHHHHHCTTCCEEECCS
T ss_pred             CHHHHHHHH-------hhCCCcceeEeecccCCCcccccCCchhhHHHHHHhhCCCccEEeecC
Confidence            321111111       235667777776     4555553331       33456666666644

>3oja_A Leucine-rich immune molecule 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae}

Probab=99.66  E-value=2.6e-17  Score=186.55  Aligned_cols=240  Identities=18%  Similarity=0.145  Sum_probs=175.1

Q ss_pred             cccceEEEEeccccccccc--cCCCCCccceEEccCCccccccchhhhcCCCccEEEccCCCccccCCccccccCCCCeE
Q 048126          492 NWRNVRRMSLMKNKIENLS--ETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHL  569 (863)
Q Consensus       492 ~~~~lr~L~l~~~~~~~l~--~~~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L  569 (863)
                      .+++++.|++++|.+..++  .+..+++|++|+|++|.+...++  +..+++|++|+|++|. +..+|    ..++|++|
T Consensus        32 ~~~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~--l~~l~~L~~L~Ls~N~-l~~l~----~~~~L~~L  104 (487)
T 3oja_A           32 SAWNVKELDLSGNPLSQISAADLAPFTKLELLNLSSNVLYETLD--LESLSTLRTLDLNNNY-VQELL----VGPSIETL  104 (487)
T ss_dssp             TGGGCCEEECCSSCCCCCCGGGGTTCTTCCEEECTTSCCEEEEE--CTTCTTCCEEECCSSE-EEEEE----ECTTCCEE
T ss_pred             cCCCccEEEeeCCcCCCCCHHHHhCCCCCCEEEeeCCCCCCCcc--cccCCCCCEEEecCCc-CCCCC----CCCCcCEE
Confidence            3458999999999998875  46899999999999999987776  8999999999999994 44444    34899999


Q ss_pred             EccCCCccccchhhhcCCCCCEEecCCccccCCCcHHHhhcCCCCcEEEeeccccccCchhhHHHHHc-CCccCceEEEE
Q 048126          570 DLSGTAITHLPIELQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRILKSNVLFGGHQFLVEELM-GMKHLMALTIT  648 (863)
Q Consensus       570 ~L~~~~l~~lp~~~~~l~~L~~L~l~~~~~l~~lp~~~~~~L~~L~~L~l~~~~~~~~~~~~~~~~l~-~L~~L~~L~l~  648 (863)
                      ++++|.++.+|..  .+++|++|++++| .+..++...++.+++|++|++++|.+...    .+..+. .+++|+.|+++
T Consensus       105 ~L~~N~l~~~~~~--~l~~L~~L~L~~N-~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~----~~~~l~~~l~~L~~L~Ls  177 (487)
T 3oja_A          105 HAANNNISRVSCS--RGQGKKNIYLANN-KITMLRDLDEGCRSRVQYLDLKLNEIDTV----NFAELAASSDTLEHLNLQ  177 (487)
T ss_dssp             ECCSSCCCCEEEC--CCSSCEEEECCSS-CCCSGGGBCGGGGSSEEEEECTTSCCCEE----EGGGGGGGTTTCCEEECT
T ss_pred             ECcCCcCCCCCcc--ccCCCCEEECCCC-CCCCCCchhhcCCCCCCEEECCCCCCCCc----ChHHHhhhCCcccEEecC
Confidence            9999999988753  5789999999999 56666554588999999999999887642    233333 56666666665


Q ss_pred             EcChHHHHHHhhhhhhhhcceeeeeccccCCCcccccchhhcCCCceEEEcCCcccccceeccccccccccccccCcccE
Q 048126          649 LKSWEALQELLISQELQRCTQSLFLRCFNDSKSLDIFCLACLHNLNKLYVAGRKHLEDFQMTVQRSSVNQLARGFHSLHT  728 (863)
Q Consensus       649 ~~~~~~~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~l~~~~~~~~~~~~~~~l~~L~~  728 (863)
                      .+...                           ..  .....+++|+.|++++|. ++.+++.+         ..+++|+.
T Consensus       178 ~N~l~---------------------------~~--~~~~~l~~L~~L~Ls~N~-l~~~~~~~---------~~l~~L~~  218 (487)
T 3oja_A          178 YNFIY---------------------------DV--KGQVVFAKLKTLDLSSNK-LAFMGPEF---------QSAAGVTW  218 (487)
T ss_dssp             TSCCC---------------------------EE--ECCCCCTTCCEEECCSSC-CCEECGGG---------GGGTTCSE
T ss_pred             CCccc---------------------------cc--cccccCCCCCEEECCCCC-CCCCCHhH---------cCCCCccE
Confidence            44321                           11  112346889999998875 44444443         24889999


Q ss_pred             EEEeccCCCCCCc-hhhccCCCcEEEEeccccchhhccccccccccCCCCCCCCcCCccceeccCCCccc
Q 048126          729 VKVGFCFKLKDLT-WLVFAPSLKSIVVLSCCNMEQIIKAEKLSQLHHHPERKKSVFAKLQFLSLENLRNL  797 (863)
Q Consensus       729 L~L~~c~~l~~l~-~l~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~~~p~L~~L~l~~~~~L  797 (863)
                      |+|++| .+..+| .++.+++|+.|++++++.....+            +..+..+++|+.|.+..+..+
T Consensus       219 L~Ls~N-~l~~lp~~l~~l~~L~~L~l~~N~l~c~~~------------~~~~~~l~~L~~l~~~~~~~~  275 (487)
T 3oja_A          219 ISLRNN-KLVLIEKALRFSQNLEHFDLRGNGFHCGTL------------RDFFSKNQRVQTVAKQTVKKL  275 (487)
T ss_dssp             EECTTS-CCCEECTTCCCCTTCCEEECTTCCBCHHHH------------HHHHTTCHHHHHHHHHHHHHH
T ss_pred             EEecCC-cCcccchhhccCCCCCEEEcCCCCCcCcch------------HHHHHhCCCCcEEeccccccc
Confidence            999997 566665 46778999999999866431111            123456778888877644333

>2ast_B S-phase kinase-associated protein 2; SCF-substrate complex, LRR, cell cycle, protein turnover COM ligase-ligase inhibitor complex; HET: TPO; 2.30A {Homo sapiens} SCOP: a.158.1.1 c.10.1.3 PDB: 2ass_B 1fqv_A* 1fs2_A

Probab=99.64  E-value=2.2e-16  Score=170.59  Aligned_cols=149  Identities=15%  Similarity=0.155  Sum_probs=96.6

Q ss_pred             eEEEEeccccccccccCCCC--CccceEEccCCccccccchhhhcCCCccEEEccCCCcccc-CCccccccCCCCeEEcc
Q 048126          496 VRRMSLMKNKIENLSETPTC--PHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWK-LPSGISTLVSLEHLDLS  572 (863)
Q Consensus       496 lr~L~l~~~~~~~l~~~~~~--~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~-lp~~i~~l~~L~~L~L~  572 (863)
                      .++++++++.+.. ..+..+  ++++.|++++|.+...++. +..+++|++|++++|.+... +|..+..+++|++|+++
T Consensus        49 ~~~l~l~~~~~~~-~~~~~~~~~~l~~L~l~~n~l~~~~~~-~~~~~~L~~L~L~~~~l~~~~~~~~~~~~~~L~~L~L~  126 (336)
T 2ast_B           49 WQTLDLTGKNLHP-DVTGRLLSQGVIAFRCPRSFMDQPLAE-HFSPFRVQHMDLSNSVIEVSTLHGILSQCSKLQNLSLE  126 (336)
T ss_dssp             SSEEECTTCBCCH-HHHHHHHHTTCSEEECTTCEECSCCCS-CCCCBCCCEEECTTCEECHHHHHHHHTTBCCCSEEECT
T ss_pred             heeeccccccCCH-HHHHhhhhccceEEEcCCccccccchh-hccCCCCCEEEccCCCcCHHHHHHHHhhCCCCCEEeCc
Confidence            4566666655431 112333  6777777877777666655 44677888888887754433 66677777888888888


Q ss_pred             CCCcc-ccchhhhcCCCCCEEecCCccccCC--CcHHHhhcCCCCcEEEeecc-ccccCchhhHHHHHcCCc-cCceEEE
Q 048126          573 GTAIT-HLPIELQKLVNLKCLNLEYMYNLNQ--FPRLVMSAFSKLQVLRILKS-NVLFGGHQFLVEELMGMK-HLMALTI  647 (863)
Q Consensus       573 ~~~l~-~lp~~~~~l~~L~~L~l~~~~~l~~--lp~~~~~~L~~L~~L~l~~~-~~~~~~~~~~~~~l~~L~-~L~~L~l  647 (863)
                      +|.++ ..|..+..+++|++|++++|..++.  +|.. +.++++|++|++.+| .+..   ......+..++ +|+.|++
T Consensus       127 ~~~l~~~~~~~l~~~~~L~~L~L~~~~~l~~~~l~~~-~~~~~~L~~L~l~~~~~l~~---~~~~~~~~~l~~~L~~L~l  202 (336)
T 2ast_B          127 GLRLSDPIVNTLAKNSNLVRLNLSGCSGFSEFALQTL-LSSCSRLDELNLSWCFDFTE---KHVQVAVAHVSETITQLNL  202 (336)
T ss_dssp             TCBCCHHHHHHHTTCTTCSEEECTTCBSCCHHHHHHH-HHHCTTCCEEECCCCTTCCH---HHHHHHHHHSCTTCCEEEC
T ss_pred             CcccCHHHHHHHhcCCCCCEEECCCCCCCCHHHHHHH-HhcCCCCCEEcCCCCCCcCh---HHHHHHHHhcccCCCEEEe
Confidence            87776 5666777778888888887754442  4442 667778888887777 4431   12344456666 7777777


Q ss_pred             EEc
Q 048126          648 TLK  650 (863)
Q Consensus       648 ~~~  650 (863)
                      +.+
T Consensus       203 ~~~  205 (336)
T 2ast_B          203 SGY  205 (336)
T ss_dssp             CSC
T ss_pred             CCC
Confidence            655

>2qen_A Walker-type ATPase; unknown function; HET: ADP; 2.25A {Pyrococcus abyssi}

Probab=99.64  E-value=8e-15  Score=159.26  Aligned_cols=293  Identities=14%  Similarity=0.095  Sum_probs=176.4

Q ss_pred             CCccchhHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCcc------CHHHHHHHH
Q 048126          126 EPTVGLESMFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDL------QLEKIQEKI  199 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~------~~~~~~~~i  199 (863)
                      ..+|||+.++++|.+++..+  +++.|+|++|+|||||+++++++.   .     .+|+.+....      +...+...+
T Consensus        12 ~~~~gR~~el~~L~~~l~~~--~~v~i~G~~G~GKT~Ll~~~~~~~---~-----~~~~~~~~~~~~~~~~~~~~~~~~l   81 (350)
T 2qen_A           12 EDIFDREEESRKLEESLENY--PLTLLLGIRRVGKSSLLRAFLNER---P-----GILIDCRELYAERGHITREELIKEL   81 (350)
T ss_dssp             GGSCSCHHHHHHHHHHHHHC--SEEEEECCTTSSHHHHHHHHHHHS---S-----EEEEEHHHHHHTTTCBCHHHHHHHH
T ss_pred             HhcCChHHHHHHHHHHHhcC--CeEEEECCCcCCHHHHHHHHHHHc---C-----cEEEEeecccccccCCCHHHHHHHH
Confidence            56899999999999998754  799999999999999999999875   1     6788765442      556666666


Q ss_pred             HHHhCCC--------------Ccc--ccCCChhHHHHHHHHHhcc-CcEEEEEeccCCccc--------c-ccccCCCCC
Q 048126          200 GRRIGFL--------------DES--WKNGSLEDKASDILRILSK-KKFLLLLDDIWERVD--------L-TKVGVPFPD  253 (863)
Q Consensus       200 ~~~l~~~--------------~~~--~~~~~~~~~~~~l~~~l~~-kr~LlVlDdv~~~~~--------~-~~~~~~l~~  253 (863)
                      ...+...              ...  ....+..+....+.+..+. ++++||+||++....        + ..+.... .
T Consensus        82 ~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~vlvlDe~~~~~~~~~~~~~~~~~~L~~~~-~  160 (350)
T 2qen_A           82 QSTISPFQKFQSKFKISLNLKFLTLEPRKLSLREVFRELNDLGEELGEFIVAFDEAQYLRFYGSRGGKELLALFAYAY-D  160 (350)
T ss_dssp             HHHSCSHHHHHHHHTCCCCCGGGTSCGGGCCHHHHHHHHHHHHHHHSCEEEEEETGGGGGGBTTTTTHHHHHHHHHHH-H
T ss_pred             HHHHHHHHhHhhhceeEEEecceeeccccchHHHHHHHHHHHHhccCCEEEEEeCHHHHhccCccchhhHHHHHHHHH-H
Confidence            6655320              000  0123445556666665543 499999999986432        1 1111111 1


Q ss_pred             CCCCcEEEEecCchhhhhc-----------ccc-cceEeecCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCC
Q 048126          254 PENKSKIVFTTRFLEICGA-----------MKA-HEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAG  321 (863)
Q Consensus       254 ~~~gs~IivTtR~~~v~~~-----------~~~-~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g  321 (863)
                      ...+.++|+|++...+...           .+. ...+.+.+|+.+|+.+++.+.+.....   +--.+.+..|++.|+|
T Consensus       161 ~~~~~~~il~g~~~~~l~~~l~~~~~~~~l~~~~~~~i~l~pl~~~e~~~~l~~~~~~~~~---~~~~~~~~~i~~~tgG  237 (350)
T 2qen_A          161 SLPNLKIILTGSEVGLLHDFLKITDYESPLYGRIAGEVLVKPFDKDTSVEFLKRGFREVNL---DVPENEIEEAVELLDG  237 (350)
T ss_dssp             HCTTEEEEEEESSHHHHHHHHCTTCTTSTTTTCCCEEEECCCCCHHHHHHHHHHHHHTTTC---CCCHHHHHHHHHHHTT
T ss_pred             hcCCeEEEEECCcHHHHHHHHhhcCCCCccccCccceeeCCCCCHHHHHHHHHHHHHHcCC---CCCHHHHHHHHHHhCC
Confidence            1246889999887643111           111 236899999999999999876533221   1124578899999999


Q ss_pred             chhHHHHHHHHhcCCCChhHHH-HHHHHHHhcCCCCCCCcchhhhhhhhhcCCCCchhhHHHHhHhccCCCCccccHHhH
Q 048126          322 LPLALITIGRAMTCKKTTQEWH-HAIQILRRSSSEFPGMGKEVYPLLKFSYDSLPDDTIRSCFLYCGLFPEDYRIRKSEL  400 (863)
Q Consensus       322 lPlai~~~~~~l~~~~~~~~w~-~~l~~l~~~~~~~~~~~~~~~~~l~~sy~~L~~~~~k~cfl~~~~fp~~~~i~~~~l  400 (863)
                      +|+++..++..+....+...+. .+.+.....      +...+.   .+.+ + ++ ..+..+..+|.   + ..+...+
T Consensus       238 ~P~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~------~~~~l~---~l~~-~-~~-~~~~~l~~la~---g-~~~~~~l  301 (350)
T 2qen_A          238 IPGWLVVFGVEYLRNGDFGRAMKRTLEVAKGL------IMGELE---ELRR-R-SP-RYVDILRAIAL---G-YNRWSLI  301 (350)
T ss_dssp             CHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHH------HHHHHH---HHHH-H-CH-HHHHHHHHHHT---T-CCSHHHH
T ss_pred             CHHHHHHHHHHHhccccHhHHHHHHHHHHHHH------HHHHHH---HHHh-C-Ch-hHHHHHHHHHh---C-CCCHHHH
Confidence            9999999987653212222221 111111000      000111   1112 2 45 67888888887   2 1344444


Q ss_pred             HHHHHhcCCCCCcccchhhhhHHHHHHHHHHhccccccccccccccccceEEeehhHHHHHHH
Q 048126          401 IDCWIGEGFLDQYDRSGAYNEGYYIIGILLHACLLEEEEGDIAEEKSGEHVVKMHDVIRDMVL  463 (863)
Q Consensus       401 i~~w~a~g~i~~~~~~~~~~~~~~~~~~L~~~sll~~~~~~~~~~~~~~~~~~mHdli~d~a~  463 (863)
                      ....-+. .- .    ........+++.|.+.+++....         .....-|++++++.+
T Consensus       302 ~~~~~~~-~~-~----~~~~~~~~~l~~L~~~gli~~~~---------~~y~~~~p~~~~~~~  349 (350)
T 2qen_A          302 RDYLAVK-GT-K----IPEPRLYALLENLKKMNWIVEED---------NTYKIADPVVATVLR  349 (350)
T ss_dssp             HHHHHHT-TC-C----CCHHHHHHHHHHHHHTTSEEEET---------TEEEESSHHHHHHHT
T ss_pred             HHHHHHH-hC-C----CCHHHHHHHHHHHHhCCCEEecC---------CEEEEecHHHHHHHc
Confidence            4332211 00 0    11244667899999999997652         223334778887654

>1wwl_A Monocyte differentiation antigen CD14; LPS, immune system; HET: NAG; 2.50A {Mus musculus}

Probab=99.63  E-value=8.3e-17  Score=171.71  Aligned_cols=246  Identities=17%  Similarity=0.185  Sum_probs=171.3

Q ss_pred             CCCCccceEEccCCccccccchhhhcCCCccEEEccCCCcc-ccCCcccc-------ccCCCCeEEccCCCcc-ccchhh
Q 048126          513 PTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLL-WKLPSGIS-------TLVSLEHLDLSGTAIT-HLPIEL  583 (863)
Q Consensus       513 ~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~-~~lp~~i~-------~l~~L~~L~L~~~~l~-~lp~~~  583 (863)
                      ...++|+.|++++|.+ .+|..+...   |++|+|++|.+. ..+|..+.       ++++|++|++++|.++ .+|..+
T Consensus        40 ~~~~~L~~l~l~~n~l-~~p~~~~~~---L~~L~L~~n~l~~~~~~~~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~  115 (312)
T 1wwl_A           40 GGGRSLEYLLKRVDTE-ADLGQFTDI---IKSLSLKRLTVRAARIPSRILFGALRVLGISGLQELTLENLEVTGTAPPPL  115 (312)
T ss_dssp             EEEEECTTHHHHCCTT-CCCHHHHHH---HHHCCCCEEEEEEEECBHHHHHHHHHHHTTSCCCEEEEEEEBCBSCCCCCS
T ss_pred             ccCCCceeEeeccccc-ccHHHHHHH---HhhcccccccccCCCcCHHHHHHHHHhcCcCCccEEEccCCcccchhHHHH
Confidence            4567899999999998 777764443   999999999652 45777666       7999999999999998 688876


Q ss_pred             --hcCCCCCEEecCCccccCCCcHHHhhcC-----CCCcEEEeeccccccCchhhHHHHHcCCccCceEEEEEcChHHHH
Q 048126          584 --QKLVNLKCLNLEYMYNLNQFPRLVMSAF-----SKLQVLRILKSNVLFGGHQFLVEELMGMKHLMALTITLKSWEALQ  656 (863)
Q Consensus       584 --~~l~~L~~L~l~~~~~l~~lp~~~~~~L-----~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~~~~  656 (863)
                        ..+++|++|++++| .+..+|.. ++.+     ++|++|++.+|.+...    .+..++++++|+.|+++.+......
T Consensus       116 ~~~~l~~L~~L~Ls~N-~l~~~~~~-~~~l~~~~~~~L~~L~L~~N~l~~~----~~~~~~~l~~L~~L~Ls~N~l~~~~  189 (312)
T 1wwl_A          116 LEATGPDLNILNLRNV-SWATRDAW-LAELQQWLKPGLKVLSIAQAHSLNF----SCEQVRVFPALSTLDLSDNPELGER  189 (312)
T ss_dssp             SSCCSCCCSEEEEESC-BCSSSSSH-HHHHHTTCCTTCCEEEEESCSCCCC----CTTTCCCCSSCCEEECCSCTTCHHH
T ss_pred             HHhcCCCccEEEccCC-CCcchhHH-HHHHHHhhcCCCcEEEeeCCCCccc----hHHHhccCCCCCEEECCCCCcCcch
Confidence              89999999999999 56777754 6777     9999999999987642    3456788999999999877643221


Q ss_pred             HHhhhhhhhhcceeeeeccccCCCcccccchhhcCCCceEEEcCCcccc--cceeccccccccccccccCcccEEEEecc
Q 048126          657 ELLISQELQRCTQSLFLRCFNDSKSLDIFCLACLHNLNKLYVAGRKHLE--DFQMTVQRSSVNQLARGFHSLHTVKVGFC  734 (863)
Q Consensus       657 ~l~~~~~~~~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~--~l~~~~~~~~~~~~~~~l~~L~~L~L~~c  734 (863)
                      .+...                       ..+..+++|++|++++|....  .+.....        ..+++|++|+|++|
T Consensus       190 ~~~~~-----------------------~~~~~l~~L~~L~L~~N~l~~~~~~~~~~~--------~~l~~L~~L~Ls~N  238 (312)
T 1wwl_A          190 GLISA-----------------------LCPLKFPTLQVLALRNAGMETPSGVCSALA--------AARVQLQGLDLSHN  238 (312)
T ss_dssp             HHHHH-----------------------SCTTSCTTCCEEECTTSCCCCHHHHHHHHH--------HTTCCCSEEECTTS
T ss_pred             HHHHH-----------------------HHhccCCCCCEEECCCCcCcchHHHHHHHH--------hcCCCCCEEECCCC
Confidence            11110                       012445777777777764321  1111111        23578888888877


Q ss_pred             CCCCCC---chhhccCCCcEEEEeccccchhhccccccccccCCCCCCCCcCCccceeccCCCccccccccCCCCCCCcc
Q 048126          735 FKLKDL---TWLVFAPSLKSIVVLSCCNMEQIIKAEKLSQLHHHPERKKSVFAKLQFLSLENLRNLCCINWEALAFPNLK  811 (863)
Q Consensus       735 ~~l~~l---~~l~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~~~p~L~~L~l~~~~~L~~i~~~~~~~p~L~  811 (863)
                       .++..   +.+..+++|+.|+++++. ++.+             +....  ++|+.|+++++ .++.++. ...+++|+
T Consensus       239 -~l~~~~~~~~~~~l~~L~~L~Ls~N~-l~~i-------------p~~~~--~~L~~L~Ls~N-~l~~~p~-~~~l~~L~  299 (312)
T 1wwl_A          239 -SLRDAAGAPSCDWPSQLNSLNLSFTG-LKQV-------------PKGLP--AKLSVLDLSYN-RLDRNPS-PDELPQVG  299 (312)
T ss_dssp             -CCCSSCCCSCCCCCTTCCEEECTTSC-CSSC-------------CSSCC--SEEEEEECCSS-CCCSCCC-TTTSCEEE
T ss_pred             -cCCcccchhhhhhcCCCCEEECCCCc-cChh-------------hhhcc--CCceEEECCCC-CCCCChh-HhhCCCCC
Confidence             34442   234456888888888854 4444             12222  78888888874 6676655 56688888


Q ss_pred             eEeecCC
Q 048126          812 EIRVEGC  818 (863)
Q Consensus       812 ~L~i~~C  818 (863)
                      .|+++++
T Consensus       300 ~L~L~~N  306 (312)
T 1wwl_A          300 NLSLKGN  306 (312)
T ss_dssp             EEECTTC
T ss_pred             EEeccCC
Confidence            8888775

>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*

Probab=99.63  E-value=9.4e-16  Score=156.77  Aligned_cols=112  Identities=21%  Similarity=0.341  Sum_probs=76.1

Q ss_pred             ccccccCCCCCccceEEccCCccccccchhhhcCCCccEEEccCCCccccCC-ccccccCCCCeEEccC-CCccccch-h
Q 048126          506 IENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLP-SGISTLVSLEHLDLSG-TAITHLPI-E  582 (863)
Q Consensus       506 ~~~l~~~~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~lp-~~i~~l~~L~~L~L~~-~~l~~lp~-~  582 (863)
                      +..+|.  -.++|+.|++++|.++.+++..|.++++|++|++++|..++.+| ..+.++++|++|++++ |.++.+|. .
T Consensus        23 l~~ip~--~~~~l~~L~l~~n~l~~i~~~~~~~l~~L~~L~l~~n~~l~~i~~~~f~~l~~L~~L~l~~~n~l~~i~~~~  100 (239)
T 2xwt_C           23 IQRIPS--LPPSTQTLKLIETHLRTIPSHAFSNLPNISRIYVSIDVTLQQLESHSFYNLSKVTHIEIRNTRNLTYIDPDA  100 (239)
T ss_dssp             CSSCCC--CCTTCCEEEEESCCCSEECTTTTTTCTTCCEEEEECCSSCCEECTTTEESCTTCCEEEEEEETTCCEECTTS
T ss_pred             ccccCC--CCCcccEEEEeCCcceEECHHHccCCCCCcEEeCCCCCCcceeCHhHcCCCcCCcEEECCCCCCeeEcCHHH
Confidence            444444  23467777777777777777667777777777777774244444 3667777777777777 77777764 4


Q ss_pred             hhcCCCCCEEecCCccccCCCcHHHhhcCCCCc---EEEeecc
Q 048126          583 LQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQ---VLRILKS  622 (863)
Q Consensus       583 ~~~l~~L~~L~l~~~~~l~~lp~~~~~~L~~L~---~L~l~~~  622 (863)
                      +..+++|++|++++| .++.+|.  ++.+++|+   +|++.+|
T Consensus       101 f~~l~~L~~L~l~~n-~l~~lp~--~~~l~~L~~L~~L~l~~N  140 (239)
T 2xwt_C          101 LKELPLLKFLGIFNT-GLKMFPD--LTKVYSTDIFFILEITDN  140 (239)
T ss_dssp             EECCTTCCEEEEEEE-CCCSCCC--CTTCCBCCSEEEEEEESC
T ss_pred             hCCCCCCCEEeCCCC-CCccccc--cccccccccccEEECCCC
Confidence            677777777777777 4566765  56666666   7777665

>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

Probab=99.62  E-value=1.6e-15  Score=159.46  Aligned_cols=132  Identities=23%  Similarity=0.245  Sum_probs=111.4

Q ss_pred             cccccceEEEEeccccccccccCCCCCccceEEccCCccccccchhhhcCCCccEEEccCCCccccCCccccccCCCCeE
Q 048126          490 IQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHL  569 (863)
Q Consensus       490 ~~~~~~lr~L~l~~~~~~~l~~~~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L  569 (863)
                      +..+++++.+++.++.+..+|... .++++.|++++|.+..+++..|.++++|++|+|++|. +..+|.. +.+++|++|
T Consensus         6 ~~~l~~l~~l~~~~~~l~~ip~~~-~~~l~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~n~-l~~~~~~-~~l~~L~~L   82 (290)
T 1p9a_G            6 VSKVASHLEVNCDKRNLTALPPDL-PKDTTILHLSENLLYTFSLATLMPYTRLTQLNLDRAE-LTKLQVD-GTLPVLGTL   82 (290)
T ss_dssp             EECSTTCCEEECTTSCCSSCCSCC-CTTCCEEECTTSCCSEEEGGGGTTCTTCCEEECTTSC-CCEEECC-SCCTTCCEE
T ss_pred             ccccCCccEEECCCCCCCcCCCCC-CCCCCEEEcCCCcCCccCHHHhhcCCCCCEEECCCCc-cCcccCC-CCCCcCCEE
Confidence            455678899999999888876532 3789999999999998888889999999999999994 4455544 789999999


Q ss_pred             EccCCCccccchhhhcCCCCCEEecCCccccCCCcHHHhhcCCCCcEEEeeccccc
Q 048126          570 DLSGTAITHLPIELQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRILKSNVL  625 (863)
Q Consensus       570 ~L~~~~l~~lp~~~~~l~~L~~L~l~~~~~l~~lp~~~~~~L~~L~~L~l~~~~~~  625 (863)
                      ++++|.++.+|..+..+++|++|++++| .++.+|...+.++++|++|++.+|.+.
T Consensus        83 ~Ls~N~l~~l~~~~~~l~~L~~L~l~~N-~l~~l~~~~~~~l~~L~~L~L~~N~l~  137 (290)
T 1p9a_G           83 DLSHNQLQSLPLLGQTLPALTVLDVSFN-RLTSLPLGALRGLGELQELYLKGNELK  137 (290)
T ss_dssp             ECCSSCCSSCCCCTTTCTTCCEEECCSS-CCCCCCSSTTTTCTTCCEEECTTSCCC
T ss_pred             ECCCCcCCcCchhhccCCCCCEEECCCC-cCcccCHHHHcCCCCCCEEECCCCCCC
Confidence            9999999999998999999999999998 678888666888999999999887664

>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*

Probab=99.62  E-value=2.4e-15  Score=157.44  Aligned_cols=128  Identities=22%  Similarity=0.281  Sum_probs=72.6

Q ss_pred             ceEEEEeccccccccc--cCCCCCccceEEccCCccccccchhhhcCCCccEEEccCCCccccCCccccccCCCCeEEcc
Q 048126          495 NVRRMSLMKNKIENLS--ETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLS  572 (863)
Q Consensus       495 ~lr~L~l~~~~~~~l~--~~~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~  572 (863)
                      +++.|++++|.+..++  .+..+++|++|++++|.+..+++..|.++++|++|+|++|.+.+..|..+.++++|++|+++
T Consensus        29 ~l~~L~ls~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~  108 (276)
T 2z62_A           29 STKNLDLSFNPLRHLGSYSFFSFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNPIQSLALGAFSGLSSLQKLVAV  108 (276)
T ss_dssp             TCCEEECTTCCCCEECTTTTTTCTTCSEEECTTCCCCEECTTTTTTCTTCCEEECTTCCCCEECTTTTTTCTTCCEEECT
T ss_pred             CccEEECCCCcccccCHhHhccccCCcEEECCCCcCCccCHHHccCCcCCCEEECCCCccCccChhhhcCCccccEEECC
Confidence            4666666666655543  24555666666666666655555555666666666666664443344555666666666666


Q ss_pred             CCCccccch-hhhcCCCCCEEecCCccccCC--CcHHHhhcCCCCcEEEeecccc
Q 048126          573 GTAITHLPI-ELQKLVNLKCLNLEYMYNLNQ--FPRLVMSAFSKLQVLRILKSNV  624 (863)
Q Consensus       573 ~~~l~~lp~-~~~~l~~L~~L~l~~~~~l~~--lp~~~~~~L~~L~~L~l~~~~~  624 (863)
                      +|.+..++. .+..+++|++|++++| .+..  +|.. ++.+++|++|++.+|.+
T Consensus       109 ~n~l~~~~~~~~~~l~~L~~L~l~~n-~l~~~~l~~~-~~~l~~L~~L~Ls~N~l  161 (276)
T 2z62_A          109 ETNLASLENFPIGHLKTLKELNVAHN-LIQSFKLPEY-FSNLTNLEHLDLSSNKI  161 (276)
T ss_dssp             TSCCCCSTTCCCTTCTTCCEEECCSS-CCCCCCCCGG-GGGCTTCCEEECCSSCC
T ss_pred             CCCccccCchhcccCCCCCEEECcCC-ccceecCchh-hccCCCCCEEECCCCCC
Confidence            666655544 3556666666666665 3333  3443 55566666666655543

>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*

Probab=99.62  E-value=2.2e-15  Score=157.68  Aligned_cols=215  Identities=17%  Similarity=0.122  Sum_probs=157.7

Q ss_pred             cccccccccCCCCCccceEEccCCccccccchhhhcCCCccEEEccCCCccccCCccccccCCCCeEEccCCCccccc-h
Q 048126          503 KNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAITHLP-I  581 (863)
Q Consensus       503 ~~~~~~l~~~~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~~~l~~lp-~  581 (863)
                      +..+..+|.. -.++|++|++++|.++.+++..|.++++|++|++++|.+....+..+.++++|++|++++|.++.+| .
T Consensus        16 ~~~l~~ip~~-l~~~l~~L~ls~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~   94 (276)
T 2z62_A           16 ELNFYKIPDN-LPFSTKNLDLSFNPLRHLGSYSFFSFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNPIQSLALG   94 (276)
T ss_dssp             TSCCSSCCSS-SCTTCCEEECTTCCCCEECTTTTTTCTTCSEEECTTCCCCEECTTTTTTCTTCCEEECTTCCCCEECTT
T ss_pred             CCCccccCCC-CCCCccEEECCCCcccccCHhHhccccCCcEEECCCCcCCccCHHHccCCcCCCEEECCCCccCccChh
Confidence            3344444432 2357999999999999999877999999999999999655555668999999999999999999876 5


Q ss_pred             hhhcCCCCCEEecCCccccCCCcHHHhhcCCCCcEEEeeccccccCchhhHHHHHcCCccCceEEEEEcChHHHHHHhhh
Q 048126          582 ELQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRILKSNVLFGGHQFLVEELMGMKHLMALTITLKSWEALQELLIS  661 (863)
Q Consensus       582 ~~~~l~~L~~L~l~~~~~l~~lp~~~~~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~~~~~l~~~  661 (863)
                      .+.++++|++|++++| .+..++...++.+++|++|++.+|.+...   ..+..+.++++|+.|+++.+....+..  ..
T Consensus        95 ~~~~l~~L~~L~l~~n-~l~~~~~~~~~~l~~L~~L~l~~n~l~~~---~l~~~~~~l~~L~~L~Ls~N~l~~~~~--~~  168 (276)
T 2z62_A           95 AFSGLSSLQKLVAVET-NLASLENFPIGHLKTLKELNVAHNLIQSF---KLPEYFSNLTNLEHLDLSSNKIQSIYC--TD  168 (276)
T ss_dssp             TTTTCTTCCEEECTTS-CCCCSTTCCCTTCTTCCEEECCSSCCCCC---CCCGGGGGCTTCCEEECCSSCCCEECG--GG
T ss_pred             hhcCCccccEEECCCC-CccccCchhcccCCCCCEEECcCCcccee---cCchhhccCCCCCEEECCCCCCCcCCH--HH
Confidence            6999999999999998 56777664488999999999999887532   134567889999999999876543221  01


Q ss_pred             hhhhhcce----eeeeccccCCCcccccchhhcCCCceEEEcCCcccccceeccccccccccccccCcccEEEEeccC
Q 048126          662 QELQRCTQ----SLFLRCFNDSKSLDIFCLACLHNLNKLYVAGRKHLEDFQMTVQRSSVNQLARGFHSLHTVKVGFCF  735 (863)
Q Consensus       662 ~~~~~~L~----~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~l~~~~~~~~~~~~~~~l~~L~~L~L~~c~  735 (863)
                      .....+|+    .|+++++. ....+...+. ..+|+.|++++|. ++.+++..+        ..+++|+.|+|++++
T Consensus       169 ~~~l~~L~~l~l~L~ls~n~-l~~~~~~~~~-~~~L~~L~L~~n~-l~~~~~~~~--------~~l~~L~~L~l~~N~  235 (276)
T 2z62_A          169 LRVLHQMPLLNLSLDLSLNP-MNFIQPGAFK-EIRLKELALDTNQ-LKSVPDGIF--------DRLTSLQKIWLHTNP  235 (276)
T ss_dssp             GHHHHTCTTCCEEEECCSSC-CCEECTTSSC-SCCEEEEECCSSC-CSCCCTTTT--------TTCCSCCEEECCSSC
T ss_pred             hhhhhhccccceeeecCCCc-ccccCccccC-CCcccEEECCCCc-eeecCHhHh--------cccccccEEEccCCc
Confidence            11122444    67776643 2333322222 3489999999976 444544433        348999999999874

>3rfs_A Internalin B, repeat modules, variable lymphocyte B; LRR, protein binding, plasma; 1.70A {Listeria monocytogenes} PDB: 3rfj_A

Probab=99.62  E-value=6e-16  Score=161.48  Aligned_cols=135  Identities=21%  Similarity=0.277  Sum_probs=107.1

Q ss_pred             cccccccceEEEEeccccccccccCCCCCccceEEccCCccccccchhhhcCCCccEEEccCCCccccCCccccccCCCC
Q 048126          488 PEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSLE  567 (863)
Q Consensus       488 ~~~~~~~~lr~L~l~~~~~~~l~~~~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~  567 (863)
                      .....+++++.|++.++.+..++.+..+++|++|++++|.+..++  .+..+++|++|++++|.+.+..|..++++++|+
T Consensus        35 ~~~~~l~~L~~L~l~~~~i~~~~~l~~l~~L~~L~l~~n~l~~~~--~l~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~  112 (272)
T 3rfs_A           35 VTQNELNSIDQIIANNSDIKSVQGIQYLPNVRYLALGGNKLHDIS--ALKELTNLTYLILTGNQLQSLPNGVFDKLTNLK  112 (272)
T ss_dssp             ECHHHHTTCCEEECTTSCCCCCTTGGGCTTCCEEECTTSCCCCCG--GGTTCTTCCEEECTTSCCCCCCTTTTTTCTTCC
T ss_pred             cccccccceeeeeeCCCCcccccccccCCCCcEEECCCCCCCCch--hhcCCCCCCEEECCCCccCccChhHhcCCcCCC
Confidence            345566788899999888888887888899999999999887764  378888999999999855544455578889999


Q ss_pred             eEEccCCCccccchh-hhcCCCCCEEecCCccccCCCcHHHhhcCCCCcEEEeeccccc
Q 048126          568 HLDLSGTAITHLPIE-LQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRILKSNVL  625 (863)
Q Consensus       568 ~L~L~~~~l~~lp~~-~~~l~~L~~L~l~~~~~l~~lp~~~~~~L~~L~~L~l~~~~~~  625 (863)
                      +|++++|.++.+|.. ++.+++|++|++++| .+..+|...++.+++|++|++.+|.+.
T Consensus       113 ~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n-~l~~~~~~~~~~l~~L~~L~l~~n~l~  170 (272)
T 3rfs_A          113 ELVLVENQLQSLPDGVFDKLTNLTYLNLAHN-QLQSLPKGVFDKLTNLTELDLSYNQLQ  170 (272)
T ss_dssp             EEECTTSCCCCCCTTTTTTCTTCCEEECCSS-CCCCCCTTTTTTCTTCCEEECCSSCCC
T ss_pred             EEECCCCcCCccCHHHhccCCCCCEEECCCC-ccCccCHHHhccCccCCEEECCCCCcC
Confidence            999999988877665 688889999999888 667777665677888888888777553

>2ast_B S-phase kinase-associated protein 2; SCF-substrate complex, LRR, cell cycle, protein turnover COM ligase-ligase inhibitor complex; HET: TPO; 2.30A {Homo sapiens} SCOP: a.158.1.1 c.10.1.3 PDB: 2ass_B 1fqv_A* 1fs2_A

Probab=99.62  E-value=9.2e-16  Score=165.72  Aligned_cols=250  Identities=16%  Similarity=0.171  Sum_probs=160.8

Q ss_pred             ccceEEccCCccccccchhhhcC--CCccEEEccCCCccccCCccccccCCCCeEEccCCCccc--cchhhhcCCCCCEE
Q 048126          517 HLLSLFLSDNSLKMIAGDFFQFM--PSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAITH--LPIELQKLVNLKCL  592 (863)
Q Consensus       517 ~L~~L~l~~~~l~~~~~~~~~~l--~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~~~l~~--lp~~~~~l~~L~~L  592 (863)
                      .++.++++++.+.   +..+..+  +++++|++++|.+. ..+..+..+++|++|++++|.++.  +|..+..+++|++|
T Consensus        48 ~~~~l~l~~~~~~---~~~~~~~~~~~l~~L~l~~n~l~-~~~~~~~~~~~L~~L~L~~~~l~~~~~~~~~~~~~~L~~L  123 (336)
T 2ast_B           48 LWQTLDLTGKNLH---PDVTGRLLSQGVIAFRCPRSFMD-QPLAEHFSPFRVQHMDLSNSVIEVSTLHGILSQCSKLQNL  123 (336)
T ss_dssp             TSSEEECTTCBCC---HHHHHHHHHTTCSEEECTTCEEC-SCCCSCCCCBCCCEEECTTCEECHHHHHHHHTTBCCCSEE
T ss_pred             hheeeccccccCC---HHHHHhhhhccceEEEcCCcccc-ccchhhccCCCCCEEEccCCCcCHHHHHHHHhhCCCCCEE
Confidence            4789999998765   3456777  89999999999544 444457789999999999998873  88889999999999


Q ss_pred             ecCCccccC-CCcHHHhhcCCCCcEEEeeccccccCchhhHHHHHcCCccCceEEEEEc-ChHHHHHHhhhhhhhhccee
Q 048126          593 NLEYMYNLN-QFPRLVMSAFSKLQVLRILKSNVLFGGHQFLVEELMGMKHLMALTITLK-SWEALQELLISQELQRCTQS  670 (863)
Q Consensus       593 ~l~~~~~l~-~lp~~~~~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~-~~~~~~~l~~~~~~~~~L~~  670 (863)
                      ++++|. +. ..|.. ++.+++|++|++.+|....+  ......+.++++|+.|+++.+ ..... .+.           
T Consensus       124 ~L~~~~-l~~~~~~~-l~~~~~L~~L~L~~~~~l~~--~~l~~~~~~~~~L~~L~l~~~~~l~~~-~~~-----------  187 (336)
T 2ast_B          124 SLEGLR-LSDPIVNT-LAKNSNLVRLNLSGCSGFSE--FALQTLLSSCSRLDELNLSWCFDFTEK-HVQ-----------  187 (336)
T ss_dssp             ECTTCB-CCHHHHHH-HTTCTTCSEEECTTCBSCCH--HHHHHHHHHCTTCCEEECCCCTTCCHH-HHH-----------
T ss_pred             eCcCcc-cCHHHHHH-HhcCCCCCEEECCCCCCCCH--HHHHHHHhcCCCCCEEcCCCCCCcChH-HHH-----------
Confidence            999994 44 34443 78899999999998843321  123444667777887777766 43321 011           


Q ss_pred             eeeccccCCCcccccchhhcC-CCceEEEcCCc-cccc-ceeccccccccccccccCcccEEEEeccCCCCC--Cchhhc
Q 048126          671 LFLRCFNDSKSLDIFCLACLH-NLNKLYVAGRK-HLED-FQMTVQRSSVNQLARGFHSLHTVKVGFCFKLKD--LTWLVF  745 (863)
Q Consensus       671 L~l~~~~~~~~~~~~~l~~~~-~L~~L~l~~~~-~~~~-l~~~~~~~~~~~~~~~l~~L~~L~L~~c~~l~~--l~~l~~  745 (863)
                                    ..+..++ +|++|++++|. .+++ ..+...        ..+++|++|+|++|..++.  ++.+..
T Consensus       188 --------------~~~~~l~~~L~~L~l~~~~~~~~~~~l~~~~--------~~~~~L~~L~l~~~~~l~~~~~~~l~~  245 (336)
T 2ast_B          188 --------------VAVAHVSETITQLNLSGYRKNLQKSDLSTLV--------RRCPNLVHLDLSDSVMLKNDCFQEFFQ  245 (336)
T ss_dssp             --------------HHHHHSCTTCCEEECCSCGGGSCHHHHHHHH--------HHCTTCSEEECTTCTTCCGGGGGGGGG
T ss_pred             --------------HHHHhcccCCCEEEeCCCcccCCHHHHHHHH--------hhCCCCCEEeCCCCCcCCHHHHHHHhC
Confidence                          1234456 77777777764 2321 111111        2367788888877754432  446667


Q ss_pred             cCCCcEEEEeccccchhhccccccccccCCCCCCCCcCCccceeccCCCccccccccCCCCC-CCcceEeecCCCCCCCC
Q 048126          746 APSLKSIVVLSCCNMEQIIKAEKLSQLHHHPERKKSVFAKLQFLSLENLRNLCCINWEALAF-PNLKEIRVEGCPKLFKL  824 (863)
Q Consensus       746 l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~~~p~L~~L~l~~~~~L~~i~~~~~~~-p~L~~L~i~~C~~L~~l  824 (863)
                      +++|+.|++++|..+.....            ..+..+|+|+.|++++|  +..-..  ..+ ..|+.|++ +|++++..
T Consensus       246 l~~L~~L~l~~~~~~~~~~~------------~~l~~~~~L~~L~l~~~--i~~~~~--~~l~~~l~~L~l-~~n~l~~~  308 (336)
T 2ast_B          246 LNYLQHLSLSRCYDIIPETL------------LELGEIPTLKTLQVFGI--VPDGTL--QLLKEALPHLQI-NCSHFTTI  308 (336)
T ss_dssp             CTTCCEEECTTCTTCCGGGG------------GGGGGCTTCCEEECTTS--SCTTCH--HHHHHHSTTSEE-SCCCSCCT
T ss_pred             CCCCCEeeCCCCCCCCHHHH------------HHHhcCCCCCEEeccCc--cCHHHH--HHHHhhCcceEE-ecccCccc
Confidence            78888888888763322200            13456788888888877  222111  111 23555556 45677764


Q ss_pred             C
Q 048126          825 P  825 (863)
Q Consensus       825 p  825 (863)
                      .
T Consensus       309 ~  309 (336)
T 2ast_B          309 A  309 (336)
T ss_dssp             T
T ss_pred             c
Confidence            3

>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

Probab=99.62  E-value=3.5e-15  Score=158.61  Aligned_cols=200  Identities=20%  Similarity=0.275  Sum_probs=146.2

Q ss_pred             ccccccccCCCCCccceEEccCCccccccchhhhcCCCccEEEccCCCccccCCccccccCCCCeEEccCCCccccchhh
Q 048126          504 NKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAITHLPIEL  583 (863)
Q Consensus       504 ~~~~~l~~~~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~~~l~~lp~~~  583 (863)
                      +.+........+++|+.|++++|.+..++.  +..+++|++|++++| .+..+|. +..+++|++|++++|.++.+| .+
T Consensus        29 ~~~~~~~~~~~l~~L~~L~l~~~~i~~l~~--~~~l~~L~~L~L~~n-~i~~~~~-~~~l~~L~~L~L~~n~l~~~~-~~  103 (308)
T 1h6u_A           29 SNVTDTVTQADLDGITTLSAFGTGVTTIEG--VQYLNNLIGLELKDN-QITDLAP-LKNLTKITELELSGNPLKNVS-AI  103 (308)
T ss_dssp             SSTTSEECHHHHHTCCEEECTTSCCCCCTT--GGGCTTCCEEECCSS-CCCCCGG-GTTCCSCCEEECCSCCCSCCG-GG
T ss_pred             CCcCceecHHHcCCcCEEEeeCCCccCchh--hhccCCCCEEEccCC-cCCCChh-HccCCCCCEEEccCCcCCCch-hh
Confidence            333333344567889999999998888763  788999999999999 4556665 899999999999999998886 68


Q ss_pred             hcCCCCCEEecCCccccCCCcHHHhhcCCCCcEEEeeccccccCchhhHHHHHcCCccCceEEEEEcChHHHHHHhhhhh
Q 048126          584 QKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRILKSNVLFGGHQFLVEELMGMKHLMALTITLKSWEALQELLISQE  663 (863)
Q Consensus       584 ~~l~~L~~L~l~~~~~l~~lp~~~~~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~~~~~l~~~~~  663 (863)
                      ..+++|++|++++| .+..+|.  +..+++|++|++.+|.+...      ..+..+++|+.|+++.+..           
T Consensus       104 ~~l~~L~~L~l~~n-~l~~~~~--l~~l~~L~~L~l~~n~l~~~------~~l~~l~~L~~L~l~~n~l-----------  163 (308)
T 1h6u_A          104 AGLQSIKTLDLTST-QITDVTP--LAGLSNLQVLYLDLNQITNI------SPLAGLTNLQYLSIGNAQV-----------  163 (308)
T ss_dssp             TTCTTCCEEECTTS-CCCCCGG--GTTCTTCCEEECCSSCCCCC------GGGGGCTTCCEEECCSSCC-----------
T ss_pred             cCCCCCCEEECCCC-CCCCchh--hcCCCCCCEEECCCCccCcC------ccccCCCCccEEEccCCcC-----------
Confidence            89999999999998 5677775  78899999999988876532      1155555566555543321           


Q ss_pred             hhhcceeeeeccccCCCcccccchhhcCCCceEEEcCCcccccceeccccccccccccccCcccEEEEeccCCCCCCchh
Q 048126          664 LQRCTQSLFLRCFNDSKSLDIFCLACLHNLNKLYVAGRKHLEDFQMTVQRSSVNQLARGFHSLHTVKVGFCFKLKDLTWL  743 (863)
Q Consensus       664 ~~~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~l~~~~~~~~~~~~~~~l~~L~~L~L~~c~~l~~l~~l  743 (863)
                                      ...  ..+..+++|+.|++++|.. +.+.+ .         ..+++|++|+|++| .+..++.+
T Consensus       164 ----------------~~~--~~l~~l~~L~~L~l~~n~l-~~~~~-l---------~~l~~L~~L~L~~N-~l~~~~~l  213 (308)
T 1h6u_A          164 ----------------SDL--TPLANLSKLTTLKADDNKI-SDISP-L---------ASLPNLIEVHLKNN-QISDVSPL  213 (308)
T ss_dssp             ----------------CCC--GGGTTCTTCCEEECCSSCC-CCCGG-G---------GGCTTCCEEECTTS-CCCBCGGG
T ss_pred             ----------------CCC--hhhcCCCCCCEEECCCCcc-CcChh-h---------cCCCCCCEEEccCC-ccCccccc
Confidence                            111  1255678888888887643 32322 1         34788888888887 56777777


Q ss_pred             hccCCCcEEEEeccc
Q 048126          744 VFAPSLKSIVVLSCC  758 (863)
Q Consensus       744 ~~l~~L~~L~l~~~~  758 (863)
                      ..+++|+.|++++++
T Consensus       214 ~~l~~L~~L~l~~N~  228 (308)
T 1h6u_A          214 ANTSNLFIVTLTNQT  228 (308)
T ss_dssp             TTCTTCCEEEEEEEE
T ss_pred             cCCCCCCEEEccCCe
Confidence            888888888888854

>1w5s_A Origin recognition complex subunit 2 ORC2; replication, CDC6, DNA replication initiation, DNA BIND protein, AAA+ ATPase; HET: ADP; 2.4A {Aeropyrum pernix} SCOP: a.4.5.11 c.37.1.20 PDB: 1w5t_A*

Probab=99.62  E-value=5e-15  Score=164.85  Aligned_cols=296  Identities=13%  Similarity=0.081  Sum_probs=179.9

Q ss_pred             CCccchhHHHHHHHHHh-c----C--CCccEEEE--EcCCCCcHHHHHHHHHhhhcCC--CCCCC-EEEEEEeCCccCHH
Q 048126          126 EPTVGLESMFDKVWRCL-G----E--EQVGIIGL--YGMGGVGKTTLLTKINNKLLGA--PNDFD-VVIWVVVSKDLQLE  193 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L-~----~--~~~~vi~I--~G~gGiGKTtLa~~v~~~~~~~--~~~F~-~~~wv~~s~~~~~~  193 (863)
                      ..++||+.+++++.+++ .    .  ...+.+.|  +|++|+||||||+.+++.....  ...|+ .++|+.+....+..
T Consensus        22 ~~l~gR~~el~~l~~~l~~~~~~~~~~~~~~~li~i~G~~G~GKT~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  101 (412)
T 1w5s_A           22 PELRVRRGEAEALARIYLNRLLSGAGLSDVNMIYGSIGRVGIGKTTLAKFTVKRVSEAAAKEGLTVKQAYVNAFNAPNLY  101 (412)
T ss_dssp             SSCSSSCHHHHHHHHHHHHHHHTSSCBCCEEEEEECTTCCSSSHHHHHHHHHHHHHHHHHHTTCCEEEEEEEGGGCCSHH
T ss_pred             CCCCChHHHHHHHHHHHhHHHhcCCCCCCCEEEEeCcCcCCCCHHHHHHHHHHHHHHHHhccCCceeEEEEECCCCCCHH
Confidence            56899999999999988 3    1  24456667  9999999999999999886210  01233 46788877777888


Q ss_pred             HHHHHHHHHhCCCCccccCCChhHHHHHHHHHhc--cCcEEEEEeccCCcc--------ccccccCCC---CCCC--CCc
Q 048126          194 KIQEKIGRRIGFLDESWKNGSLEDKASDILRILS--KKKFLLLLDDIWERV--------DLTKVGVPF---PDPE--NKS  258 (863)
Q Consensus       194 ~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~--~kr~LlVlDdv~~~~--------~~~~~~~~l---~~~~--~gs  258 (863)
                      .++..++.+++...+. ...+..+....+.+.+.  +++++||+||++...        .+..+...+   +..+  ...
T Consensus       102 ~~~~~l~~~l~~~~~~-~~~~~~~~~~~l~~~l~~~~~~~llvlDe~~~l~~~~~~~~~~l~~l~~~~~~~~~~~~~~~v  180 (412)
T 1w5s_A          102 TILSLIVRQTGYPIQV-RGAPALDILKALVDNLYVENHYLLVILDEFQSMLSSPRIAAEDLYTLLRVHEEIPSRDGVNRI  180 (412)
T ss_dssp             HHHHHHHHHHTCCCCC-TTCCHHHHHHHHHHHHHHHTCEEEEEEESTHHHHSCTTSCHHHHHHHHTHHHHSCCTTSCCBE
T ss_pred             HHHHHHHHHhCCCCCC-CCCCHHHHHHHHHHHHHhcCCeEEEEEeCHHHHhhccCcchHHHHHHHHHHHhcccCCCCceE
Confidence            9999999998764321 12344566667777665  679999999998632        122221111   1112  345


Q ss_pred             EEEEecCchhhhhccc---------ccceEeecCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhC------Cch
Q 048126          259 KIVFTTRFLEICGAMK---------AHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYA------GLP  323 (863)
Q Consensus       259 ~IivTtR~~~v~~~~~---------~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~------glP  323 (863)
                      .||+||+...+...+.         ....+.+++|+.++++++|...+.... ....--.+....|++.|+      |.|
T Consensus       181 ~lI~~~~~~~~~~~l~~~~~~~~~~~~~~i~l~~l~~~e~~~ll~~~~~~~~-~~~~~~~~~~~~i~~~~~~~~~~~G~p  259 (412)
T 1w5s_A          181 GFLLVASDVRALSYMREKIPQVESQIGFKLHLPAYKSRELYTILEQRAELGL-RDTVWEPRHLELISDVYGEDKGGDGSA  259 (412)
T ss_dssp             EEEEEEEETHHHHHHHHHCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHHB-CTTSCCHHHHHHHHHHHCGGGTSCCCH
T ss_pred             EEEEEeccccHHHHHhhhcchhhhhcCCeeeeCCCCHHHHHHHHHHHHHhcC-CCCCCChHHHHHHHHHHHHhccCCCcH
Confidence            5888887654321111         112389999999999999987653221 111122567889999999      999


Q ss_pred             hHHHHHHHHhc------CC--CChhHHHHHHHHHHhcCCCCCCCcchhhhhhhhhcCCCCchhhHHHHhHhccCC--CCc
Q 048126          324 LALITIGRAMT------CK--KTTQEWHHAIQILRRSSSEFPGMGKEVYPLLKFSYDSLPDDTIRSCFLYCGLFP--EDY  393 (863)
Q Consensus       324 lai~~~~~~l~------~~--~~~~~w~~~l~~l~~~~~~~~~~~~~~~~~l~~sy~~L~~~~~k~cfl~~~~fp--~~~  393 (863)
                      ..+..+.....      +.  -+...+..++.....            ...+.-++..||. +.+.++..++.+.  .+.
T Consensus       260 ~~~~~l~~~a~~~a~~~~~~~i~~~~v~~~~~~~~~------------~~~~~~~l~~l~~-~~~~~l~aia~l~~~~~~  326 (412)
T 1w5s_A          260 RRAIVALKMACEMAEAMGRDSLSEDLVRKAVSENEA------------ASIQTHELEALSI-HELIILRLIAEATLGGME  326 (412)
T ss_dssp             HHHHHHHHHHHHHHHHTTCSSCCHHHHHHHHHHC------------------CCSSSSSCH-HHHHHHHHHHHHHHTTCS
T ss_pred             HHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHHhc------------cchHHHHHHcCCH-HHHHHHHHHHHHHhcCCC
Confidence            76665543321      11  123333333322110            1233446778988 7888888787653  223


Q ss_pred             cccHHhHHHHHH--h-cCCCCCcccchhhhhHHHHHHHHHHhccccccc
Q 048126          394 RIRKSELIDCWI--G-EGFLDQYDRSGAYNEGYYIIGILLHACLLEEEE  439 (863)
Q Consensus       394 ~i~~~~li~~w~--a-~g~i~~~~~~~~~~~~~~~~~~L~~~sll~~~~  439 (863)
                      .++...+...+.  + .- ...  ..........+++.|...+++....
T Consensus       327 ~~~~~~~~~~~~~~~~~~-~~~--~~~~~~~~~~~l~~L~~~gli~~~~  372 (412)
T 1w5s_A          327 WINAGLLRQRYEDASLTM-YNV--KPRGYTQYHIYLKHLTSLGLVDAKP  372 (412)
T ss_dssp             SBCHHHHHHHHHHHHHHH-SCC--CCCCHHHHHHHHHHHHHTTSEEEEC
T ss_pred             CccHHHHHHHHHHHHHhh-cCC--CCCCHHHHHHHHHHHHhCCCEEeec
Confidence            444444444332  2 10 000  0111244567899999999998754

>2fna_A Conserved hypothetical protein; structural genomics, joint center for structural genomics, J protein structure initiative, PSI-2; HET: MSE ADP; 2.00A {Sulfolobus solfataricus} SCOP: a.4.5.11 c.37.1.20

Probab=99.61  E-value=3.9e-14  Score=154.26  Aligned_cols=289  Identities=14%  Similarity=0.114  Sum_probs=169.2

Q ss_pred             CCccchhHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCc-----cCHHHHHHHHH
Q 048126          126 EPTVGLESMFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKD-----LQLEKIQEKIG  200 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~-----~~~~~~~~~i~  200 (863)
                      ..+|||+.+++.|.+ +..   +++.|+|++|+|||||++++++.. .  .   ..+|+.+...     .+...+...+.
T Consensus        13 ~~~~gR~~el~~L~~-l~~---~~v~i~G~~G~GKT~L~~~~~~~~-~--~---~~~~~~~~~~~~~~~~~~~~~~~~l~   82 (357)
T 2fna_A           13 KDFFDREKEIEKLKG-LRA---PITLVLGLRRTGKSSIIKIGINEL-N--L---PYIYLDLRKFEERNYISYKDFLLELQ   82 (357)
T ss_dssp             GGSCCCHHHHHHHHH-TCS---SEEEEEESTTSSHHHHHHHHHHHH-T--C---CEEEEEGGGGTTCSCCCHHHHHHHHH
T ss_pred             HHhcChHHHHHHHHH-hcC---CcEEEECCCCCCHHHHHHHHHHhc-C--C---CEEEEEchhhccccCCCHHHHHHHHH
Confidence            568999999999999 765   699999999999999999999887 2  2   2578887643     24444444444


Q ss_pred             HHhC--------------C----CCc----cc-----cCCChhHHHHHHHHHhccCcEEEEEeccCCcc-----cccccc
Q 048126          201 RRIG--------------F----LDE----SW-----KNGSLEDKASDILRILSKKKFLLLLDDIWERV-----DLTKVG  248 (863)
Q Consensus       201 ~~l~--------------~----~~~----~~-----~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~-----~~~~~~  248 (863)
                      +.+.              .    ..+    ..     ......++...+.+.-+ ++++||+||++...     ++..+.
T Consensus        83 ~~l~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~-~~~vlvlDe~~~~~~~~~~~~~~~l  161 (357)
T 2fna_A           83 KEINKLVKRLPSLLKALKNIQGIVIMGNEIKFNWNRKDRLSFANLLESFEQASK-DNVIIVLDEAQELVKLRGVNLLPAL  161 (357)
T ss_dssp             HHHHHHHHHCTTHHHHTTTSTTEEECSSSEEEC-----CCCHHHHHHHHHHTCS-SCEEEEEETGGGGGGCTTCCCHHHH
T ss_pred             HHHHHHhhhhhHHHHHhcccceEEecceEEEeccCCcchhhHHHHHHHHHhcCC-CCeEEEEECHHHhhccCchhHHHHH
Confidence            4331              0    000    00     01223334444433222 49999999997632     222221


Q ss_pred             CCCCCCCCCcEEEEecCchhhhhc----------c-cc-cceEeecCCChHHHHHHHHHHhcccccCCCCChHHHHHHHH
Q 048126          249 VPFPDPENKSKIVFTTRFLEICGA----------M-KA-HEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVA  316 (863)
Q Consensus       249 ~~l~~~~~gs~IivTtR~~~v~~~----------~-~~-~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~  316 (863)
                      ..+.....+.++|+|+|.......          . +. ...+.+.+|+.+|+.+++...+.... .....    ...|+
T Consensus       162 ~~~~~~~~~~~~i~~g~~~~~l~~~l~~~~~~~~l~~r~~~~i~l~~l~~~e~~~~l~~~~~~~~-~~~~~----~~~i~  236 (357)
T 2fna_A          162 AYAYDNLKRIKFIMSGSEMGLLYDYLRVEDPESPLFGRAFSTVELKPFSREEAIEFLRRGFQEAD-IDFKD----YEVVY  236 (357)
T ss_dssp             HHHHHHCTTEEEEEEESSHHHHHHHTTTTCTTSTTTTCCCEEEEECCCCHHHHHHHHHHHHHHHT-CCCCC----HHHHH
T ss_pred             HHHHHcCCCeEEEEEcCchHHHHHHHhccCCCCccccCccceeecCCCCHHHHHHHHHHHHHHcC-CCCCc----HHHHH
Confidence            111111246789999998653211          1 11 24789999999999999988654221 11112    28899


Q ss_pred             HHhCCchhHHHHHHHHhcCCCChhHHHH-HHHHHHhcCCCCCCCcchhhhhhh-hhcC--CCCchhhHHHHhHhccCCCC
Q 048126          317 KEYAGLPLALITIGRAMTCKKTTQEWHH-AIQILRRSSSEFPGMGKEVYPLLK-FSYD--SLPDDTIRSCFLYCGLFPED  392 (863)
Q Consensus       317 ~~c~glPlai~~~~~~l~~~~~~~~w~~-~l~~l~~~~~~~~~~~~~~~~~l~-~sy~--~L~~~~~k~cfl~~~~fp~~  392 (863)
                      +.|+|+|+++..++..+....+...|.. +.+....          .+...+. +.+.  .+++ ..+..+..+|.-+  
T Consensus       237 ~~t~G~P~~l~~~~~~~~~~~~~~~~~~~~~~~~~~----------~~~~~l~~~~~~~~~l~~-~~~~~l~~la~g~--  303 (357)
T 2fna_A          237 EKIGGIPGWLTYFGFIYLDNKNLDFAINQTLEYAKK----------LILKEFENFLHGREIARK-RYLNIMRTLSKCG--  303 (357)
T ss_dssp             HHHCSCHHHHHHHHHHHHHHCCHHHHHHHHHHHHHH----------HHHHHHHHHHTTCGGGHH-HHHHHHHHHTTCB--
T ss_pred             HHhCCCHHHHHHHHHHHccccchHHHHHHHHHHHHH----------HHHHHHHHHhhccccccH-HHHHHHHHHHcCC--
Confidence            9999999999999887653333333321 1111100          1111111 1111  4666 6788888888721  


Q ss_pred             ccccHHhHHHHHH-hcCCCCCcccchhhhhHHHHHHHHHHhccccccccccccccccceEEe-ehhHHHHHH
Q 048126          393 YRIRKSELIDCWI-GEGFLDQYDRSGAYNEGYYIIGILLHACLLEEEEGDIAEEKSGEHVVK-MHDVIRDMV  462 (863)
Q Consensus       393 ~~i~~~~li~~w~-a~g~i~~~~~~~~~~~~~~~~~~L~~~sll~~~~~~~~~~~~~~~~~~-mHdli~d~a  462 (863)
                         +...+....- ..|.      .-.......+++.|.+.+++....         . .|. -|++++++.
T Consensus       304 ---~~~~l~~~~~~~~g~------~~~~~~~~~~L~~L~~~gli~~~~---------~-~y~f~~~~~~~~l  356 (357)
T 2fna_A          304 ---KWSDVKRALELEEGI------EISDSEIYNYLTQLTKHSWIIKEG---------E-KYCPSEPLISLAF  356 (357)
T ss_dssp             ---CHHHHHHHHHHHHCS------CCCHHHHHHHHHHHHHTTSEEESS---------S-CEEESSHHHHHHT
T ss_pred             ---CHHHHHHHHHHhcCC------CCCHHHHHHHHHHHHhCCCEEecC---------C-EEEecCHHHHHhh
Confidence               3344332110 1121      011234667899999999987652         2 344 578888763

>2o6q_A Variable lymphocyte receptor A; leucine-rich repeat protein, LRR, immune system; 2.50A {Eptatretus burgeri}

Probab=99.61  E-value=4.1e-15  Score=154.99  Aligned_cols=128  Identities=26%  Similarity=0.398  Sum_probs=93.7

Q ss_pred             ceEEEEeccccccccccCCCCCccceEEccCCccccccchhhhcCCCccEEEccCCCccccCCcc-ccccCCCCeEEccC
Q 048126          495 NVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSG-ISTLVSLEHLDLSG  573 (863)
Q Consensus       495 ~lr~L~l~~~~~~~l~~~~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~-i~~l~~L~~L~L~~  573 (863)
                      ..+.++++++.+..+|.. -.++|+.|++++|.+..+++..|.++++|++|+|++|.+ ..+|.. +.++++|++|++++
T Consensus        17 ~~~~l~~~~~~l~~ip~~-~~~~l~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l-~~i~~~~~~~l~~L~~L~l~~   94 (270)
T 2o6q_A           17 NKNSVDCSSKKLTAIPSN-IPADTKKLDLQSNKLSSLPSKAFHRLTKLRLLYLNDNKL-QTLPAGIFKELKNLETLWVTD   94 (270)
T ss_dssp             TTTEEECTTSCCSSCCSC-CCTTCSEEECCSSCCSCCCTTSSSSCTTCCEEECCSSCC-SCCCTTTTSSCTTCCEEECCS
T ss_pred             CCCEEEccCCCCCccCCC-CCCCCCEEECcCCCCCeeCHHHhcCCCCCCEEECCCCcc-CeeChhhhcCCCCCCEEECCC
Confidence            356677777777776642 236788888888888888776788888888888888844 455543 47788888888888


Q ss_pred             CCccccchh-hhcCCCCCEEecCCccccCCCcHHHhhcCCCCcEEEeeccccc
Q 048126          574 TAITHLPIE-LQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRILKSNVL  625 (863)
Q Consensus       574 ~~l~~lp~~-~~~l~~L~~L~l~~~~~l~~lp~~~~~~L~~L~~L~l~~~~~~  625 (863)
                      |.++.+|.. +..+++|++|++++| .+..+|...++.+++|++|++.+|.+.
T Consensus        95 n~l~~~~~~~~~~l~~L~~L~l~~n-~l~~~~~~~~~~l~~L~~L~Ls~n~l~  146 (270)
T 2o6q_A           95 NKLQALPIGVFDQLVNLAELRLDRN-QLKSLPPRVFDSLTKLTYLSLGYNELQ  146 (270)
T ss_dssp             SCCCCCCTTTTTTCSSCCEEECCSS-CCCCCCTTTTTTCTTCCEEECCSSCCC
T ss_pred             CcCCcCCHhHcccccCCCEEECCCC-ccCeeCHHHhCcCcCCCEEECCCCcCC
Confidence            888877654 577888888888887 556666655677788888887776553

>4ay9_X Follicle-stimulating hormone receptor; hormone-receptor complex, leucine-rich repeats, LRR, GPCR; HET: TYS NAG; 2.50A {Homo sapiens} PDB: 1xwd_C*

Probab=99.60  E-value=1.1e-15  Score=165.76  Aligned_cols=238  Identities=14%  Similarity=0.121  Sum_probs=154.9

Q ss_pred             EEeccccccccccCCCCCccceEEccCCccccccchhhhcCCCccEEEccCCCccccCCc-cccccCCCCe-EEccCCCc
Q 048126          499 MSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPS-GISTLVSLEH-LDLSGTAI  576 (863)
Q Consensus       499 L~l~~~~~~~l~~~~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~-~i~~l~~L~~-L~L~~~~l  576 (863)
                      ++-+++.+..+|... .++++.|+|++|.++.+++..|.++++|++|+|++|.+.+.+|. .+.++++|+. +.+++|++
T Consensus        14 v~C~~~~Lt~iP~~l-~~~l~~L~Ls~N~i~~i~~~~f~~l~~L~~L~Ls~N~i~~~i~~~~f~~L~~l~~~l~~~~N~l   92 (350)
T 4ay9_X           14 FLCQESKVTEIPSDL-PRNAIELRFVLTKLRVIQKGAFSGFGDLEKIEISQNDVLEVIEADVFSNLPKLHEIRIEKANNL   92 (350)
T ss_dssp             EEEESTTCCSCCTTC-CTTCSEEEEESCCCSEECTTSSTTCTTCCEEEEECCTTCCEECTTSBCSCTTCCEEEEEEETTC
T ss_pred             EEecCCCCCccCcCc-CCCCCEEEccCCcCCCcCHHHHcCCCCCCEEECcCCCCCCccChhHhhcchhhhhhhcccCCcc
Confidence            444555555555321 35677777777777777776677777777777777755555553 4566776654 44555677


Q ss_pred             cccc-hhhhcCCCCCEEecCCccccCCCcHHHhhcCCCCcEEEeeccccccCchhhHHHHHcCC-ccCceEEEEEcChHH
Q 048126          577 THLP-IELQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRILKSNVLFGGHQFLVEELMGM-KHLMALTITLKSWEA  654 (863)
Q Consensus       577 ~~lp-~~~~~l~~L~~L~l~~~~~l~~lp~~~~~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~L-~~L~~L~l~~~~~~~  654 (863)
                      +.+| ..+..+++|++|++++| .+..+|........++..|++.++.....   .....+..+ ..++.|+++.+....
T Consensus        93 ~~l~~~~f~~l~~L~~L~l~~n-~l~~~~~~~~~~~~~l~~l~l~~~~~i~~---l~~~~f~~~~~~l~~L~L~~N~i~~  168 (350)
T 4ay9_X           93 LYINPEAFQNLPNLQYLLISNT-GIKHLPDVHKIHSLQKVLLDIQDNINIHT---IERNSFVGLSFESVILWLNKNGIQE  168 (350)
T ss_dssp             CEECTTSBCCCTTCCEEEEEEE-CCSSCCCCTTCCBSSCEEEEEESCTTCCE---ECTTSSTTSBSSCEEEECCSSCCCE
T ss_pred             cccCchhhhhcccccccccccc-ccccCCchhhcccchhhhhhhcccccccc---ccccchhhcchhhhhhccccccccC
Confidence            7664 34677777777777776 45666653344455666666655432211   001112233 245666766665543


Q ss_pred             HHHHhhhhhhhhcceeeeeccccCCCcccccchhhcCCCceEEEcCCcccccceeccccccccccccccCcccEEEEecc
Q 048126          655 LQELLISQELQRCTQSLFLRCFNDSKSLDIFCLACLHNLNKLYVAGRKHLEDFQMTVQRSSVNQLARGFHSLHTVKVGFC  734 (863)
Q Consensus       655 ~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~l~~~~~~~~~~~~~~~l~~L~~L~L~~c  734 (863)
                      ++...   ....+++.|.+.+++..+.++...+..+++|+.|++++|. ++.++..           .+.+|++|.+.+|
T Consensus       169 i~~~~---f~~~~L~~l~l~~~n~l~~i~~~~f~~l~~L~~LdLs~N~-l~~lp~~-----------~~~~L~~L~~l~~  233 (350)
T 4ay9_X          169 IHNSA---FNGTQLDELNLSDNNNLEELPNDVFHGASGPVILDISRTR-IHSLPSY-----------GLENLKKLRARST  233 (350)
T ss_dssp             ECTTS---STTEEEEEEECTTCTTCCCCCTTTTTTEECCSEEECTTSC-CCCCCSS-----------SCTTCCEEECTTC
T ss_pred             CChhh---ccccchhHHhhccCCcccCCCHHHhccCcccchhhcCCCC-cCccChh-----------hhccchHhhhccC
Confidence            32211   1224788888887777777776678889999999999874 5544332           3789999999999


Q ss_pred             CCCCCCchhhccCCCcEEEEec
Q 048126          735 FKLKDLTWLVFAPSLKSIVVLS  756 (863)
Q Consensus       735 ~~l~~l~~l~~l~~L~~L~l~~  756 (863)
                      ..++.+|.+..+++|+.+++.+
T Consensus       234 ~~l~~lP~l~~l~~L~~l~l~~  255 (350)
T 4ay9_X          234 YNLKKLPTLEKLVALMEASLTY  255 (350)
T ss_dssp             TTCCCCCCTTTCCSCCEEECSC
T ss_pred             CCcCcCCCchhCcChhhCcCCC
Confidence            9999999999999999999865

>2o6q_A Variable lymphocyte receptor A; leucine-rich repeat protein, LRR, immune system; 2.50A {Eptatretus burgeri}

Probab=99.60  E-value=8.4e-15  Score=152.63  Aligned_cols=147  Identities=24%  Similarity=0.371  Sum_probs=121.2

Q ss_pred             EEEcCCCcccCcccccccceEEEEecccccccccc--CCCCCccceEEccCCccccccchhhhcCCCccEEEccCCCccc
Q 048126          477 LVHAGLGLTEAPEIQNWRNVRRMSLMKNKIENLSE--TPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLW  554 (863)
Q Consensus       477 ~~~~~~~~~~~~~~~~~~~lr~L~l~~~~~~~l~~--~~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~  554 (863)
                      +...+...+.+|.. -.++++.|++++|.+..++.  +..+++|++|++++|.++.++...|.++++|++|+|++|.+..
T Consensus        21 l~~~~~~l~~ip~~-~~~~l~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~i~~~~~~~l~~L~~L~l~~n~l~~   99 (270)
T 2o6q_A           21 VDCSSKKLTAIPSN-IPADTKKLDLQSNKLSSLPSKAFHRLTKLRLLYLNDNKLQTLPAGIFKELKNLETLWVTDNKLQA   99 (270)
T ss_dssp             EECTTSCCSSCCSC-CCTTCSEEECCSSCCSCCCTTSSSSCTTCCEEECCSSCCSCCCTTTTSSCTTCCEEECCSSCCCC
T ss_pred             EEccCCCCCccCCC-CCCCCCEEECcCCCCCeeCHHHhcCCCCCCEEECCCCccCeeChhhhcCCCCCCEEECCCCcCCc
Confidence            44444455555432 12579999999999988764  6889999999999999999999988999999999999996554


Q ss_pred             cCCccccccCCCCeEEccCCCccccchh-hhcCCCCCEEecCCccccCCCcHHHhhcCCCCcEEEeeccccc
Q 048126          555 KLPSGISTLVSLEHLDLSGTAITHLPIE-LQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRILKSNVL  625 (863)
Q Consensus       555 ~lp~~i~~l~~L~~L~L~~~~l~~lp~~-~~~l~~L~~L~l~~~~~l~~lp~~~~~~L~~L~~L~l~~~~~~  625 (863)
                      ..+..+..+++|++|++++|.++.+|.. +..+++|++|++++| .+..+|...++.+++|++|++.+|.+.
T Consensus       100 ~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~Ls~n-~l~~~~~~~~~~l~~L~~L~L~~n~l~  170 (270)
T 2o6q_A          100 LPIGVFDQLVNLAELRLDRNQLKSLPPRVFDSLTKLTYLSLGYN-ELQSLPKGVFDKLTSLKELRLYNNQLK  170 (270)
T ss_dssp             CCTTTTTTCSSCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSS-CCCCCCTTTTTTCTTCCEEECCSSCCS
T ss_pred             CCHhHcccccCCCEEECCCCccCeeCHHHhCcCcCCCEEECCCC-cCCccCHhHccCCcccceeEecCCcCc
Confidence            4445678999999999999999988754 789999999999999 678888776788999999999877654

>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

Probab=99.59  E-value=7.1e-16  Score=169.99  Aligned_cols=140  Identities=15%  Similarity=0.106  Sum_probs=83.5

Q ss_pred             CCCCccceEEccCCccccccch----hhhcCCCccEEEccCCC---ccccCCccc-------cccCCCCeEEccCCCccc
Q 048126          513 PTCPHLLSLFLSDNSLKMIAGD----FFQFMPSLRVFNMSNNH---LLWKLPSGI-------STLVSLEHLDLSGTAITH  578 (863)
Q Consensus       513 ~~~~~L~~L~l~~~~l~~~~~~----~~~~l~~L~~L~L~~~~---~~~~lp~~i-------~~l~~L~~L~L~~~~l~~  578 (863)
                      ..+++|++|++++|.+......    .+..+++|++|+|++|.   +.+.+|..+       ..+++|++|+|++|.++.
T Consensus        29 ~~~~~L~~L~L~~n~i~~~~~~~l~~~l~~~~~L~~L~Ls~~~~~~l~~~~~~~~~~l~~~l~~~~~L~~L~Ls~n~l~~  108 (386)
T 2ca6_A           29 LEDDSVKEIVLSGNTIGTEAARWLSENIASKKDLEIAEFSDIFTGRVKDEIPEALRLLLQALLKCPKLHTVRLSDNAFGP  108 (386)
T ss_dssp             HHCSCCCEEECTTSEECHHHHHHHHHTTTTCTTCCEEECCSCCTTSCGGGSHHHHHHHHHHHTTCTTCCEEECCSCCCCT
T ss_pred             hcCCCccEEECCCCCCCHHHHHHHHHHHHhCCCccEEeCcccccCccccchhHHHHHHHHHHhhCCcccEEECCCCcCCH
Confidence            4567777777777766543222    25567777777777752   222344444       567777777777777764


Q ss_pred             -----cchhhhcCCCCCEEecCCccccCCCcHHH----hhcC---------CCCcEEEeeccccccCchhhHHHHHcCCc
Q 048126          579 -----LPIELQKLVNLKCLNLEYMYNLNQFPRLV----MSAF---------SKLQVLRILKSNVLFGGHQFLVEELMGMK  640 (863)
Q Consensus       579 -----lp~~~~~l~~L~~L~l~~~~~l~~lp~~~----~~~L---------~~L~~L~l~~~~~~~~~~~~~~~~l~~L~  640 (863)
                           +|..+.++++|++|++++|. +...+...    +..+         ++|++|++.+|.+...........+..++
T Consensus       109 ~~~~~l~~~l~~~~~L~~L~L~~n~-l~~~~~~~l~~~l~~l~~~~~~~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~~~  187 (386)
T 2ca6_A          109 TAQEPLIDFLSKHTPLEHLYLHNNG-LGPQAGAKIARALQELAVNKKAKNAPPLRSIICGRNRLENGSMKEWAKTFQSHR  187 (386)
T ss_dssp             TTHHHHHHHHHHCTTCCEEECCSSC-CHHHHHHHHHHHHHHHHHHHHHHTCCCCCEEECCSSCCTGGGHHHHHHHHHHCT
T ss_pred             HHHHHHHHHHHhCCCCCEEECcCCC-CCHHHHHHHHHHHHHHhhhhhcccCCCCcEEECCCCCCCcHHHHHHHHHHHhCC
Confidence                 66677777777777777773 33211111    2233         67777777777664322222234555666


Q ss_pred             cCceEEEEEcChH
Q 048126          641 HLMALTITLKSWE  653 (863)
Q Consensus       641 ~L~~L~l~~~~~~  653 (863)
                      +|+.|+++.+...
T Consensus       188 ~L~~L~L~~n~l~  200 (386)
T 2ca6_A          188 LLHTVKMVQNGIR  200 (386)
T ss_dssp             TCCEEECCSSCCC
T ss_pred             CcCEEECcCCCCC
Confidence            6676666655543

>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*

Probab=99.58  E-value=6.7e-16  Score=180.78  Aligned_cols=323  Identities=17%  Similarity=0.112  Sum_probs=190.1

Q ss_pred             cccceEEEEecccccccc--ccCC-CCCccceEEccCC-ccccc-cchhhhcCCCccEEEccCCCcccc----CCccccc
Q 048126          492 NWRNVRRMSLMKNKIENL--SETP-TCPHLLSLFLSDN-SLKMI-AGDFFQFMPSLRVFNMSNNHLLWK----LPSGIST  562 (863)
Q Consensus       492 ~~~~lr~L~l~~~~~~~l--~~~~-~~~~L~~L~l~~~-~l~~~-~~~~~~~l~~L~~L~L~~~~~~~~----lp~~i~~  562 (863)
                      .++++++|+++++.+...  ..+. .+++|++|++++| .+... ...++.++++|++|+|++|.+.+.    ++.....
T Consensus       103 ~~~~L~~L~L~~~~~~~~~~~~l~~~~~~L~~L~L~~~~~~~~~~l~~~~~~~~~L~~L~L~~~~i~~~~~~~l~~~~~~  182 (594)
T 2p1m_B          103 SYTWLEEIRLKRMVVTDDCLELIAKSFKNFKVLVLSSCEGFSTDGLAAIAATCRNLKELDLRESDVDDVSGHWLSHFPDT  182 (594)
T ss_dssp             HCTTCCEEEEESCBCCHHHHHHHHHHCTTCCEEEEESCEEEEHHHHHHHHHHCTTCCEEECTTCEEECCCGGGGGGSCTT
T ss_pred             hCCCCCeEEeeCcEEcHHHHHHHHHhCCCCcEEeCCCcCCCCHHHHHHHHHhCCCCCEEeCcCCccCCcchHHHHHHhhc
Confidence            456788888887765432  2222 5778888888887 44331 233455788888888888853322    2333346


Q ss_pred             cCCCCeEEccCCC--cc--ccchhhhcCCCCCEEecCCccccCCCcHHHhhcCCCCcEEEeeccccc--cCchhhHHHHH
Q 048126          563 LVSLEHLDLSGTA--IT--HLPIELQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRILKSNVL--FGGHQFLVEEL  636 (863)
Q Consensus       563 l~~L~~L~L~~~~--l~--~lp~~~~~l~~L~~L~l~~~~~l~~lp~~~~~~L~~L~~L~l~~~~~~--~~~~~~~~~~l  636 (863)
                      +++|++|++++|.  +.  .++..+.++++|++|++++|..+..+|.. +.++++|++|++..+...  ..........+
T Consensus       183 ~~~L~~L~l~~~~~~~~~~~l~~l~~~~~~L~~L~L~~~~~~~~l~~~-~~~~~~L~~L~l~~~~~~~~~~~~~~l~~~l  261 (594)
T 2p1m_B          183 YTSLVSLNISCLASEVSFSALERLVTRCPNLKSLKLNRAVPLEKLATL-LQRAPQLEELGTGGYTAEVRPDVYSGLSVAL  261 (594)
T ss_dssp             CCCCCEEECTTCCSCCCHHHHHHHHHHCTTCCEEECCTTSCHHHHHHH-HHHCTTCSEEECSBCCCCCCHHHHHHHHHHH
T ss_pred             CCcCcEEEecccCCcCCHHHHHHHHHhCCCCcEEecCCCCcHHHHHHH-HhcCCcceEcccccccCccchhhHHHHHHHH
Confidence            6688888888875  22  23333456788888888887555566554 677888888886554321  11112234467


Q ss_pred             cCCccCceEE-EEEcChHHHHHHhhhhhhhhcceeeeeccccCCCccccc-chhhcCCCceEEEcCCcccccceeccccc
Q 048126          637 MGMKHLMALT-ITLKSWEALQELLISQELQRCTQSLFLRCFNDSKSLDIF-CLACLHNLNKLYVAGRKHLEDFQMTVQRS  714 (863)
Q Consensus       637 ~~L~~L~~L~-l~~~~~~~~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~~-~l~~~~~L~~L~l~~~~~~~~l~~~~~~~  714 (863)
                      .++++|+.|. +.......++   ......++|+.|+++++. .....+. .+..+++|++|++++|  ..+....... 
T Consensus       262 ~~~~~L~~Ls~~~~~~~~~l~---~~~~~~~~L~~L~L~~~~-l~~~~l~~~~~~~~~L~~L~l~~~--~~~~~l~~l~-  334 (594)
T 2p1m_B          262 SGCKELRCLSGFWDAVPAYLP---AVYSVCSRLTTLNLSYAT-VQSYDLVKLLCQCPKLQRLWVLDY--IEDAGLEVLA-  334 (594)
T ss_dssp             HTCTTCCEEECCBTCCGGGGG---GGHHHHTTCCEEECTTCC-CCHHHHHHHHTTCTTCCEEEEEGG--GHHHHHHHHH-
T ss_pred             hcCCCcccccCCcccchhhHH---HHHHhhCCCCEEEccCCC-CCHHHHHHHHhcCCCcCEEeCcCc--cCHHHHHHHH-
Confidence            7778888773 3222222222   222234688888888876 3333222 2456788999999887  2211111111 


Q ss_pred             cccccccccCcccEEEEecc--------CCCCCC--chh-hccCCCcEEEEeccccchhhccccccccccCCCCCCCCcC
Q 048126          715 SVNQLARGFHSLHTVKVGFC--------FKLKDL--TWL-VFAPSLKSIVVLSCCNMEQIIKAEKLSQLHHHPERKKSVF  783 (863)
Q Consensus       715 ~~~~~~~~l~~L~~L~L~~c--------~~l~~l--~~l-~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~~~  783 (863)
                            ..+++|++|+|.+|        ..++..  ..+ ..+++|+.|.+ +|+.++....           ......+
T Consensus       335 ------~~~~~L~~L~L~~~~~~g~~~~~~l~~~~l~~l~~~~~~L~~L~~-~~~~l~~~~~-----------~~l~~~~  396 (594)
T 2p1m_B          335 ------STCKDLRELRVFPSEPFVMEPNVALTEQGLVSVSMGCPKLESVLY-FCRQMTNAAL-----------ITIARNR  396 (594)
T ss_dssp             ------HHCTTCCEEEEECSCTTCSSCSSCCCHHHHHHHHHHCTTCCEEEE-EESCCCHHHH-----------HHHHHHC
T ss_pred             ------HhCCCCCEEEEecCcccccccCCCCCHHHHHHHHHhchhHHHHHH-hcCCcCHHHH-----------HHHHhhC
Confidence                  23788999999554        333321  112 24789999955 4555554311           0112357


Q ss_pred             CccceeccC-----CCccccccccC------CCCCCCcceEeecCCCCCCCCCC--CC-CCCCCCceEEEccc
Q 048126          784 AKLQFLSLE-----NLRNLCCINWE------ALAFPNLKEIRVEGCPKLFKLPL--DS-NSAKGCKVVIKGEE  842 (863)
Q Consensus       784 p~L~~L~l~-----~~~~L~~i~~~------~~~~p~L~~L~i~~C~~L~~lp~--~~-~~~~L~~l~i~~~~  842 (863)
                      |+|+.|+++     +|.+++..+..      ...+++|+.|++++  +++....  .. ..++|+.+.+.+|.
T Consensus       397 ~~L~~L~L~~~~~~~~~~l~~~~~~~~~~~l~~~~~~L~~L~L~~--~l~~~~~~~l~~~~~~L~~L~L~~~~  467 (594)
T 2p1m_B          397 PNMTRFRLCIIEPKAPDYLTLEPLDIGFGAIVEHCKDLRRLSLSG--LLTDKVFEYIGTYAKKMEMLSVAFAG  467 (594)
T ss_dssp             TTCCEEEEEESSTTCCCTTTCCCTHHHHHHHHHHCTTCCEEECCS--SCCHHHHHHHHHHCTTCCEEEEESCC
T ss_pred             CCcceeEeecccCCCcccccCCchhhHHHHHHhhCCCccEEeecC--cccHHHHHHHHHhchhccEeeccCCC
Confidence            899999998     57777754331      23478999999965  4444211  11 13779999998765

>3rfs_A Internalin B, repeat modules, variable lymphocyte B; LRR, protein binding, plasma; 1.70A {Listeria monocytogenes} PDB: 3rfj_A

Probab=99.58  E-value=6.6e-15  Score=153.58  Aligned_cols=170  Identities=22%  Similarity=0.311  Sum_probs=143.0

Q ss_pred             EEEcCCCcccCcccccccceEEEEeccccccccccCCCCCccceEEccCCccccccchhhhcCCCccEEEccCCCccccC
Q 048126          477 LVHAGLGLTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKL  556 (863)
Q Consensus       477 ~~~~~~~~~~~~~~~~~~~lr~L~l~~~~~~~l~~~~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~l  556 (863)
                      +...+......+.+..+++++.|++++|.+..++.+..+++|++|++++|.++.+++..|.++++|++|++++|.+.+..
T Consensus        46 L~l~~~~i~~~~~l~~l~~L~~L~l~~n~l~~~~~l~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~  125 (272)
T 3rfs_A           46 IIANNSDIKSVQGIQYLPNVRYLALGGNKLHDISALKELTNLTYLILTGNQLQSLPNGVFDKLTNLKELVLVENQLQSLP  125 (272)
T ss_dssp             EECTTSCCCCCTTGGGCTTCCEEECTTSCCCCCGGGTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECTTSCCCCCC
T ss_pred             eeeCCCCcccccccccCCCCcEEECCCCCCCCchhhcCCCCCCEEECCCCccCccChhHhcCCcCCCEEECCCCcCCccC
Confidence            44445555666778889999999999999998888899999999999999999999988999999999999999665555


Q ss_pred             CccccccCCCCeEEccCCCccccchh-hhcCCCCCEEecCCccccCCCcHHHhhcCCCCcEEEeeccccccCchhhHHHH
Q 048126          557 PSGISTLVSLEHLDLSGTAITHLPIE-LQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRILKSNVLFGGHQFLVEE  635 (863)
Q Consensus       557 p~~i~~l~~L~~L~L~~~~l~~lp~~-~~~l~~L~~L~l~~~~~l~~lp~~~~~~L~~L~~L~l~~~~~~~~~~~~~~~~  635 (863)
                      |..++.+++|++|++++|.++.+|.. +..+++|++|++++| .++.+|...++.+++|++|++.+|.+...    ....
T Consensus       126 ~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~n-~l~~~~~~~~~~l~~L~~L~L~~N~l~~~----~~~~  200 (272)
T 3rfs_A          126 DGVFDKLTNLTYLNLAHNQLQSLPKGVFDKLTNLTELDLSYN-QLQSLPEGVFDKLTQLKDLRLYQNQLKSV----PDGV  200 (272)
T ss_dssp             TTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSS-CCCCCCTTTTTTCTTCCEEECCSSCCSCC----CTTT
T ss_pred             HHHhccCCCCCEEECCCCccCccCHHHhccCccCCEEECCCC-CcCccCHHHhcCCccCCEEECCCCcCCcc----CHHH
Confidence            55689999999999999999988765 689999999999999 67788877678999999999999887642    2234


Q ss_pred             HcCCccCceEEEEEcC
Q 048126          636 LMGMKHLMALTITLKS  651 (863)
Q Consensus       636 l~~L~~L~~L~l~~~~  651 (863)
                      +..+++|+.|++..+.
T Consensus       201 ~~~l~~L~~L~l~~N~  216 (272)
T 3rfs_A          201 FDRLTSLQYIWLHDNP  216 (272)
T ss_dssp             TTTCTTCCEEECCSSC
T ss_pred             HhCCcCCCEEEccCCC
Confidence            6777888888877554

>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*

Probab=99.58  E-value=8.8e-15  Score=149.49  Aligned_cols=84  Identities=15%  Similarity=0.228  Sum_probs=49.1

Q ss_pred             CccEEEccCCCccccCCccccccCCCCeEEccCCC-ccccch-hhhcCCCCCEEecCCccccCCCcHHHhhcCCCCcEEE
Q 048126          541 SLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGTA-ITHLPI-ELQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLR  618 (863)
Q Consensus       541 ~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~~~-l~~lp~-~~~~l~~L~~L~l~~~~~l~~lp~~~~~~L~~L~~L~  618 (863)
                      +|++|++++|.+.+..+..++++++|++|++++|. ++.+|. .+.++++|++|++++|..++.+|...+..+++|++|+
T Consensus        32 ~l~~L~l~~n~l~~i~~~~~~~l~~L~~L~l~~n~~l~~i~~~~f~~l~~L~~L~l~~~n~l~~i~~~~f~~l~~L~~L~  111 (239)
T 2xwt_C           32 STQTLKLIETHLRTIPSHAFSNLPNISRIYVSIDVTLQQLESHSFYNLSKVTHIEIRNTRNLTYIDPDALKELPLLKFLG  111 (239)
T ss_dssp             TCCEEEEESCCCSEECTTTTTTCTTCCEEEEECCSSCCEECTTTEESCTTCCEEEEEEETTCCEECTTSEECCTTCCEEE
T ss_pred             cccEEEEeCCcceEECHHHccCCCCCcEEeCCCCCCcceeCHhHcCCCcCCcEEECCCCCCeeEcCHHHhCCCCCCCEEe
Confidence            56666666664333233356666666666666664 666654 4566666666666653255555544455666666666


Q ss_pred             eecccc
Q 048126          619 ILKSNV  624 (863)
Q Consensus       619 l~~~~~  624 (863)
                      +.+|.+
T Consensus       112 l~~n~l  117 (239)
T 2xwt_C          112 IFNTGL  117 (239)
T ss_dssp             EEEECC
T ss_pred             CCCCCC
Confidence            665544

>3goz_A Leucine-rich repeat-containing protein; LEGL7, NESG, LGR148, structural genomics, PSI-2, protein structure initiative; 2.10A {Legionella pneumophila subsp}

Probab=99.56  E-value=1.3e-14  Score=158.17  Aligned_cols=261  Identities=15%  Similarity=0.122  Sum_probs=143.2

Q ss_pred             Eecccccccc-ccC-CCCCccceEEccCCccccccc----hhhhcCC-CccEEEccCCCccccCCcccccc-----CCCC
Q 048126          500 SLMKNKIENL-SET-PTCPHLLSLFLSDNSLKMIAG----DFFQFMP-SLRVFNMSNNHLLWKLPSGISTL-----VSLE  567 (863)
Q Consensus       500 ~l~~~~~~~l-~~~-~~~~~L~~L~l~~~~l~~~~~----~~~~~l~-~L~~L~L~~~~~~~~lp~~i~~l-----~~L~  567 (863)
                      .++.|.+.+. +.+ ...++|++|++++|.+...+.    ..+.+++ +|++|+|++|.+....+..+..+     ++|+
T Consensus         4 ~ls~n~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~N~l~~~~~~~l~~~l~~~~~~L~   83 (362)
T 3goz_A            4 KLTLHPGSNPVEEFTSIPHGVTSLDLSLNNLYSISTVELIQAFANTPASVTSLNLSGNSLGFKNSDELVQILAAIPANVT   83 (362)
T ss_dssp             ECCCCTTCCHHHHHHTSCTTCCEEECTTSCGGGSCHHHHHHHHHTCCTTCCEEECCSSCGGGSCHHHHHHHHHTSCTTCC
T ss_pred             ccccccchHHHHHHHhCCCCceEEEccCCCCChHHHHHHHHHHHhCCCceeEEECcCCCCCHHHHHHHHHHHhccCCCcc
Confidence            4455555432 333 334458888888887777765    5567777 78888888885555556666664     7788


Q ss_pred             eEEccCCCccccchh-----hhcC-CCCCEEecCCccccCCCcHHHhh----c-CCCCcEEEeeccccccCchhhHHHHH
Q 048126          568 HLDLSGTAITHLPIE-----LQKL-VNLKCLNLEYMYNLNQFPRLVMS----A-FSKLQVLRILKSNVLFGGHQFLVEEL  636 (863)
Q Consensus       568 ~L~L~~~~l~~lp~~-----~~~l-~~L~~L~l~~~~~l~~lp~~~~~----~-L~~L~~L~l~~~~~~~~~~~~~~~~l  636 (863)
                      +|+|++|.++..+..     +..+ ++|++|++++| .++..+...+.    . .++|++|++.+|.+...........+
T Consensus        84 ~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~N-~l~~~~~~~l~~~l~~~~~~L~~L~Ls~N~l~~~~~~~l~~~l  162 (362)
T 3goz_A           84 SLNLSGNFLSYKSSDELVKTLAAIPFTITVLDLGWN-DFSSKSSSEFKQAFSNLPASITSLNLRGNDLGIKSSDELIQIL  162 (362)
T ss_dssp             EEECCSSCGGGSCHHHHHHHHHTSCTTCCEEECCSS-CGGGSCHHHHHHHHTTSCTTCCEEECTTSCGGGSCHHHHHHHH
T ss_pred             EEECcCCcCChHHHHHHHHHHHhCCCCccEEECcCC-cCCcHHHHHHHHHHHhCCCceeEEEccCCcCCHHHHHHHHHHH
Confidence            888888877754332     4444 77888888877 34555543232    2 25788888877766544333344445


Q ss_pred             cCCc-cCceEEEEEcChHHHHHHhhhhhhhhcceeeeeccccCCCcccccchhhc-CCCceEEEcCCcccccceeccccc
Q 048126          637 MGMK-HLMALTITLKSWEALQELLISQELQRCTQSLFLRCFNDSKSLDIFCLACL-HNLNKLYVAGRKHLEDFQMTVQRS  714 (863)
Q Consensus       637 ~~L~-~L~~L~l~~~~~~~~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~~~l~~~-~~L~~L~l~~~~~~~~l~~~~~~~  714 (863)
                      ..++ +|+.|+++.+..........                       ...+..+ ++|++|++++|.... .....+..
T Consensus       163 ~~~~~~L~~L~Ls~n~l~~~~~~~l-----------------------~~~l~~~~~~L~~L~Ls~N~i~~-~~~~~l~~  218 (362)
T 3goz_A          163 AAIPANVNSLNLRGNNLASKNCAEL-----------------------AKFLASIPASVTSLDLSANLLGL-KSYAELAY  218 (362)
T ss_dssp             HTSCTTCCEEECTTSCGGGSCHHHH-----------------------HHHHHTSCTTCCEEECTTSCGGG-SCHHHHHH
T ss_pred             hcCCccccEeeecCCCCchhhHHHH-----------------------HHHHHhCCCCCCEEECCCCCCCh-hHHHHHHH
Confidence            5554 66666665554322110000                       0112333 477777777764322 11110000


Q ss_pred             cccccccccCcccEEEEeccCCCCCCch------hhccCCCcEEEEeccccchhhccccccccccCCCCCCCCcCCccce
Q 048126          715 SVNQLARGFHSLHTVKVGFCFKLKDLTW------LVFAPSLKSIVVLSCCNMEQIIKAEKLSQLHHHPERKKSVFAKLQF  788 (863)
Q Consensus       715 ~~~~~~~~l~~L~~L~L~~c~~l~~l~~------l~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~~~p~L~~  788 (863)
                         .-....++|++|+|++| .++..+.      +..+++|+.|++++|. +..+.. +.....    ......+++|+.
T Consensus       219 ---~l~~~~~~L~~L~Ls~N-~l~~~~~~~l~~~~~~l~~L~~L~L~~n~-l~~i~~-~~~~~l----~~~~~~l~~L~~  288 (362)
T 3goz_A          219 ---IFSSIPNHVVSLNLCLN-CLHGPSLENLKLLKDSLKHLQTVYLDYDI-VKNMSK-EQCKAL----GAAFPNIQKIIL  288 (362)
T ss_dssp             ---HHHHSCTTCCEEECCSS-CCCCCCHHHHHHTTTTTTTCSEEEEEHHH-HTTCCH-HHHHHH----HTTSTTCCEEEE
T ss_pred             ---HHhcCCCCceEEECcCC-CCCcHHHHHHHHHHhcCCCccEEEeccCC-ccccCH-HHHHHH----HHHhccCCceEE
Confidence               00011357888888876 4554432      3456788888888764 221110 000000    124556777888


Q ss_pred             eccCCCc
Q 048126          789 LSLENLR  795 (863)
Q Consensus       789 L~l~~~~  795 (863)
                      |++++++
T Consensus       289 LdL~~N~  295 (362)
T 3goz_A          289 VDKNGKE  295 (362)
T ss_dssp             ECTTSCB
T ss_pred             EecCCCc
Confidence            8887753

>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

Probab=99.55  E-value=1.5e-14  Score=152.00  Aligned_cols=200  Identities=19%  Similarity=0.192  Sum_probs=147.7

Q ss_pred             CCCCCccceEEccCCccccccchhhhcCCCccEEEccCCCccccCCccccccCCCCeEEccCCCccccchhhhcCCCCCE
Q 048126          512 TPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAITHLPIELQKLVNLKC  591 (863)
Q Consensus       512 ~~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~~~l~~lp~~~~~l~~L~~  591 (863)
                      +..+++++.++++++.++.+|..+   .++|++|+|++|.+.+..|..+.++++|++|++++|.++.+|.. ..+++|++
T Consensus         6 ~~~l~~l~~l~~~~~~l~~ip~~~---~~~l~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~-~~l~~L~~   81 (290)
T 1p9a_G            6 VSKVASHLEVNCDKRNLTALPPDL---PKDTTILHLSENLLYTFSLATLMPYTRLTQLNLDRAELTKLQVD-GTLPVLGT   81 (290)
T ss_dssp             EECSTTCCEEECTTSCCSSCCSCC---CTTCCEEECTTSCCSEEEGGGGTTCTTCCEEECTTSCCCEEECC-SCCTTCCE
T ss_pred             ccccCCccEEECCCCCCCcCCCCC---CCCCCEEEcCCCcCCccCHHHhhcCCCCCEEECCCCccCcccCC-CCCCcCCE
Confidence            356788999999999999998764   36899999999976666678899999999999999999998865 88999999


Q ss_pred             EecCCccccCCCcHHHhhcCCCCcEEEeeccccccCchhhHHHHHcCCccCceEEEEEcChHHHHHHhhhhhhhhcceee
Q 048126          592 LNLEYMYNLNQFPRLVMSAFSKLQVLRILKSNVLFGGHQFLVEELMGMKHLMALTITLKSWEALQELLISQELQRCTQSL  671 (863)
Q Consensus       592 L~l~~~~~l~~lp~~~~~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~~~~~l~~~~~~~~~L~~L  671 (863)
                      |++++| .+..+|.. +..+++|++|++.+|.+...    ....+.++++|+.|+++.+..                   
T Consensus        82 L~Ls~N-~l~~l~~~-~~~l~~L~~L~l~~N~l~~l----~~~~~~~l~~L~~L~L~~N~l-------------------  136 (290)
T 1p9a_G           82 LDLSHN-QLQSLPLL-GQTLPALTVLDVSFNRLTSL----PLGALRGLGELQELYLKGNEL-------------------  136 (290)
T ss_dssp             EECCSS-CCSSCCCC-TTTCTTCCEEECCSSCCCCC----CSSTTTTCTTCCEEECTTSCC-------------------
T ss_pred             EECCCC-cCCcCchh-hccCCCCCEEECCCCcCccc----CHHHHcCCCCCCEEECCCCCC-------------------
Confidence            999999 67888875 78899999999998877532    123355566666666543322                   


Q ss_pred             eeccccCCCcccccchhhcCCCceEEEcCCcccccceeccccccccccccccCcccEEEEeccCCCCCCc-hhhccCCCc
Q 048126          672 FLRCFNDSKSLDIFCLACLHNLNKLYVAGRKHLEDFQMTVQRSSVNQLARGFHSLHTVKVGFCFKLKDLT-WLVFAPSLK  750 (863)
Q Consensus       672 ~l~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~l~~~~~~~~~~~~~~~l~~L~~L~L~~c~~l~~l~-~l~~l~~L~  750 (863)
                              ...+...+..+++|+.|++++|. ++.+++..+        ..+++|+.|+|+++ .++.+| .+..+++|+
T Consensus       137 --------~~~~~~~~~~l~~L~~L~L~~N~-l~~l~~~~~--------~~l~~L~~L~L~~N-~l~~ip~~~~~~~~L~  198 (290)
T 1p9a_G          137 --------KTLPPGLLTPTPKLEKLSLANNN-LTELPAGLL--------NGLENLDTLLLQEN-SLYTIPKGFFGSHLLP  198 (290)
T ss_dssp             --------CCCCTTTTTTCTTCCEEECTTSC-CSCCCTTTT--------TTCTTCCEEECCSS-CCCCCCTTTTTTCCCS
T ss_pred             --------CccChhhcccccCCCEEECCCCc-CCccCHHHh--------cCcCCCCEEECCCC-cCCccChhhcccccCC
Confidence                    22222335567788888888764 344444332        24778888888887 455655 455667788


Q ss_pred             EEEEeccc
Q 048126          751 SIVVLSCC  758 (863)
Q Consensus       751 ~L~l~~~~  758 (863)
                      .|.|.+++
T Consensus       199 ~l~L~~Np  206 (290)
T 1p9a_G          199 FAFLHGNP  206 (290)
T ss_dssp             EEECCSCC
T ss_pred             eEEeCCCC
Confidence            88887644

>4ezg_A Putative uncharacterized protein; internalin-A, leucine-rich repeat protein, structural genomi center for structural genomics, JCSG; HET: MSE; 1.50A {Listeria monocytogenes}

Probab=99.55  E-value=1.7e-14  Score=142.46  Aligned_cols=153  Identities=14%  Similarity=0.160  Sum_probs=132.1

Q ss_pred             ccccceEEEEeccccccccccCCCCCccceEEccCCccccccchhhhcCCCccEEEccCCCccccCCccccccCCCCeEE
Q 048126          491 QNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLD  570 (863)
Q Consensus       491 ~~~~~lr~L~l~~~~~~~l~~~~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~  570 (863)
                      ..+++++.|++++|.+..++.+..+++|++|++++|.+..++  .+..+++|++|++++|.+.+..|..++.+++|++|+
T Consensus        41 ~~l~~L~~L~l~~n~i~~l~~l~~l~~L~~L~l~~n~~~~~~--~l~~l~~L~~L~l~~n~l~~~~~~~l~~l~~L~~L~  118 (197)
T 4ezg_A           41 AQMNSLTYITLANINVTDLTGIEYAHNIKDLTINNIHATNYN--PISGLSNLERLRIMGKDVTSDKIPNLSGLTSLTLLD  118 (197)
T ss_dssp             HHHHTCCEEEEESSCCSCCTTGGGCTTCSEEEEESCCCSCCG--GGTTCTTCCEEEEECTTCBGGGSCCCTTCTTCCEEE
T ss_pred             hhcCCccEEeccCCCccChHHHhcCCCCCEEEccCCCCCcch--hhhcCCCCCEEEeECCccCcccChhhcCCCCCCEEE
Confidence            567899999999999998888899999999999999877665  388999999999999977666888999999999999


Q ss_pred             ccCCCccc-cchhhhcCCCCCEEecCCccccCCCcHHHhhcCCCCcEEEeeccccccCchhhHHHHHcCCccCceEEEEE
Q 048126          571 LSGTAITH-LPIELQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRILKSNVLFGGHQFLVEELMGMKHLMALTITL  649 (863)
Q Consensus       571 L~~~~l~~-lp~~~~~l~~L~~L~l~~~~~l~~lp~~~~~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~  649 (863)
                      +++|.++. .|..+..+++|++|++++|..+..+|.  +..+++|++|++.+|.+...      ..+..+++|+.|+++.
T Consensus       119 Ls~n~i~~~~~~~l~~l~~L~~L~L~~n~~i~~~~~--l~~l~~L~~L~l~~n~i~~~------~~l~~l~~L~~L~l~~  190 (197)
T 4ezg_A          119 ISHSAHDDSILTKINTLPKVNSIDLSYNGAITDIMP--LKTLPELKSLNIQFDGVHDY------RGIEDFPKLNQLYAFS  190 (197)
T ss_dssp             CCSSBCBGGGHHHHTTCSSCCEEECCSCTBCCCCGG--GGGCSSCCEEECTTBCCCCC------TTGGGCSSCCEEEECB
T ss_pred             ecCCccCcHhHHHHhhCCCCCEEEccCCCCccccHh--hcCCCCCCEEECCCCCCcCh------HHhccCCCCCEEEeeC
Confidence            99999984 778899999999999999965888884  89999999999999887532      1677889999999987


Q ss_pred             cChH
Q 048126          650 KSWE  653 (863)
Q Consensus       650 ~~~~  653 (863)
                      +...
T Consensus       191 N~i~  194 (197)
T 4ezg_A          191 QTIG  194 (197)
T ss_dssp             C---
T ss_pred             cccC
Confidence            7643

>4glp_A Monocyte differentiation antigen CD14; alpha beta BENT solenoid, LRR, lipopolysaccharide, serum, CD leucine-rich repeat, pattern recognition; 4.00A {Homo sapiens}

Probab=99.54  E-value=1e-14  Score=155.35  Aligned_cols=139  Identities=13%  Similarity=0.064  Sum_probs=80.8

Q ss_pred             ccceEEccCCccccccc-h--hhhcCCCccEEEccCCCccccCCccc--cccCCCCeEEccCCCccc-cc----hhhhcC
Q 048126          517 HLLSLFLSDNSLKMIAG-D--FFQFMPSLRVFNMSNNHLLWKLPSGI--STLVSLEHLDLSGTAITH-LP----IELQKL  586 (863)
Q Consensus       517 ~L~~L~l~~~~l~~~~~-~--~~~~l~~L~~L~L~~~~~~~~lp~~i--~~l~~L~~L~L~~~~l~~-lp----~~~~~l  586 (863)
                      .++.+.+.++.+....- .  .+..+++|++|++++|.+.+..|..+  +.+++|++|++++|.++. .|    ..+..+
T Consensus        65 ~l~~l~l~~~~~~~~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~~L~~L~Ls~n~i~~~~~~~~~~~~~~~  144 (310)
T 4glp_A           65 RVRRLTVGAAQVPAQLLVGALRVLAYSRLKELTLEDLKITGTMPPLPLEATGLALSSLRLRNVSWATGRSWLAELQQWLK  144 (310)
T ss_dssp             CCCEEEECSCCCBHHHHHHHHHHHHHSCCCEEEEESCCCBSCCCCCSSSCCCBCCSSCEEESCCCSSTTSSHHHHHTTBC
T ss_pred             ceeEEEEeCCcCCHHHHHHHHHhcccCceeEEEeeCCEeccchhhhhhhccCCCCCEEEeecccccchhhhhHHHHhhhc
Confidence            45566666654432110 0  01234567788887776666677666  777778888888777763 22    234567


Q ss_pred             CCCCEEecCCccccCCCcHHHhhcCCCCcEEEeeccccccCchhhHHHHHcCCccCceEEEEEcChHHHH
Q 048126          587 VNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRILKSNVLFGGHQFLVEELMGMKHLMALTITLKSWEALQ  656 (863)
Q Consensus       587 ~~L~~L~l~~~~~l~~lp~~~~~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~~~~  656 (863)
                      ++|++|++++| .+..++...++.+++|++|++++|.+...........+..+++|+.|+++.+....++
T Consensus       145 ~~L~~L~Ls~n-~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~~~~~l~~L~~L~Ls~N~l~~l~  213 (310)
T 4glp_A          145 PGLKVLSIAQA-HSPAFSCEQVRAFPALTSLDLSDNPGLGERGLMAALCPHKFPAIQNLALRNTGMETPT  213 (310)
T ss_dssp             SCCCEEEEECC-SSCCCCTTSCCCCTTCCEEECCSCTTCHHHHHHTTSCTTSSCCCCSCBCCSSCCCCHH
T ss_pred             cCCCEEEeeCC-CcchhhHHHhccCCCCCEEECCCCCCccchhhhHHHhhhcCCCCCEEECCCCCCCchH
Confidence            77888888777 4455654446777778888877776542100000011245666666666666554333

>4ay9_X Follicle-stimulating hormone receptor; hormone-receptor complex, leucine-rich repeats, LRR, GPCR; HET: TYS NAG; 2.50A {Homo sapiens} PDB: 1xwd_C*

Probab=99.54  E-value=1.2e-14  Score=157.48  Aligned_cols=237  Identities=13%  Similarity=0.091  Sum_probs=153.8

Q ss_pred             ceEEccCCccccccchhhhcCCCccEEEccCCCccccCCc-cccccCCCCeEEccCCCcc-ccch-hhhcCCCCCEEecC
Q 048126          519 LSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPS-GISTLVSLEHLDLSGTAIT-HLPI-ELQKLVNLKCLNLE  595 (863)
Q Consensus       519 ~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~-~i~~l~~L~~L~L~~~~l~-~lp~-~~~~l~~L~~L~l~  595 (863)
                      ++++.+++.++.+|..+   .+++++|+|++| .+..+|. .+.+|++|++|+|++|.+. .+|. .+.++++|+++.+.
T Consensus        12 ~~v~C~~~~Lt~iP~~l---~~~l~~L~Ls~N-~i~~i~~~~f~~l~~L~~L~Ls~N~i~~~i~~~~f~~L~~l~~~l~~   87 (350)
T 4ay9_X           12 RVFLCQESKVTEIPSDL---PRNAIELRFVLT-KLRVIQKGAFSGFGDLEKIEISQNDVLEVIEADVFSNLPKLHEIRIE   87 (350)
T ss_dssp             TEEEEESTTCCSCCTTC---CTTCSEEEEESC-CCSEECTTSSTTCTTCCEEEEECCTTCCEECTTSBCSCTTCCEEEEE
T ss_pred             CEEEecCCCCCccCcCc---CCCCCEEEccCC-cCCCcCHHHHcCCCCCCEEECcCCCCCCccChhHhhcchhhhhhhcc
Confidence            67788888899998764   367999999999 4556664 6889999999999999874 5665 47888888876655


Q ss_pred             CccccCCCcHHHhhcCCCCcEEEeeccccccCchhhHHHHHcCCccCceEEEEEcChHHHHHHhhhhhhhhcceeeeecc
Q 048126          596 YMYNLNQFPRLVMSAFSKLQVLRILKSNVLFGGHQFLVEELMGMKHLMALTITLKSWEALQELLISQELQRCTQSLFLRC  675 (863)
Q Consensus       596 ~~~~l~~lp~~~~~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~~~~~l~~~~~~~~~L~~L~l~~  675 (863)
                      ++..+..+|.+.+..+++|++|++.+|.+....    ........++..|++                          .+
T Consensus        88 ~~N~l~~l~~~~f~~l~~L~~L~l~~n~l~~~~----~~~~~~~~~l~~l~l--------------------------~~  137 (350)
T 4ay9_X           88 KANNLLYINPEAFQNLPNLQYLLISNTGIKHLP----DVHKIHSLQKVLLDI--------------------------QD  137 (350)
T ss_dssp             EETTCCEECTTSBCCCTTCCEEEEEEECCSSCC----CCTTCCBSSCEEEEE--------------------------ES
T ss_pred             cCCcccccCchhhhhccccccccccccccccCC----chhhcccchhhhhhh--------------------------cc
Confidence            555778887766888999999999888764321    001112222333333                          22


Q ss_pred             ccCCCcccccchhhc-CCCceEEEcCCcccccceeccccccccccccccCcccEEEEeccCCCCCCch--hhccCCCcEE
Q 048126          676 FNDSKSLDIFCLACL-HNLNKLYVAGRKHLEDFQMTVQRSSVNQLARGFHSLHTVKVGFCFKLKDLTW--LVFAPSLKSI  752 (863)
Q Consensus       676 ~~~~~~~~~~~l~~~-~~L~~L~l~~~~~~~~l~~~~~~~~~~~~~~~l~~L~~L~L~~c~~l~~l~~--l~~l~~L~~L  752 (863)
                      +.....++...+..+ ..|+.|+++++. ++.++...+.         ..+|++|.+.++..++.+|.  ++.+++|+.|
T Consensus       138 ~~~i~~l~~~~f~~~~~~l~~L~L~~N~-i~~i~~~~f~---------~~~L~~l~l~~~n~l~~i~~~~f~~l~~L~~L  207 (350)
T 4ay9_X          138 NINIHTIERNSFVGLSFESVILWLNKNG-IQEIHNSAFN---------GTQLDELNLSDNNNLEELPNDVFHGASGPVIL  207 (350)
T ss_dssp             CTTCCEECTTSSTTSBSSCEEEECCSSC-CCEECTTSST---------TEEEEEEECTTCTTCCCCCTTTTTTEECCSEE
T ss_pred             ccccccccccchhhcchhhhhhcccccc-ccCCChhhcc---------ccchhHHhhccCCcccCCCHHHhccCcccchh
Confidence            222222222223333 357777777653 3434333322         45677777777777777763  5677788888


Q ss_pred             EEeccccchhhccccccccccCCCCCCCCcCCccceeccCCCccccccccCCCCCCCcceEeec
Q 048126          753 VVLSCCNMEQIIKAEKLSQLHHHPERKKSVFAKLQFLSLENLRNLCCINWEALAFPNLKEIRVE  816 (863)
Q Consensus       753 ~l~~~~~l~~i~~~~~~~~~~~~~~~~~~~~p~L~~L~l~~~~~L~~i~~~~~~~p~L~~L~i~  816 (863)
                      +++++ .++.+               ....|.+|+.|.+.++.+++.+|. ...+++|+.+++.
T Consensus       208 dLs~N-~l~~l---------------p~~~~~~L~~L~~l~~~~l~~lP~-l~~l~~L~~l~l~  254 (350)
T 4ay9_X          208 DISRT-RIHSL---------------PSYGLENLKKLRARSTYNLKKLPT-LEKLVALMEASLT  254 (350)
T ss_dssp             ECTTS-CCCCC---------------CSSSCTTCCEEECTTCTTCCCCCC-TTTCCSCCEEECS
T ss_pred             hcCCC-CcCcc---------------ChhhhccchHhhhccCCCcCcCCC-chhCcChhhCcCC
Confidence            88774 45544               123466777777777777777764 4457777777764

>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

Probab=99.53  E-value=3.2e-14  Score=149.74  Aligned_cols=173  Identities=21%  Similarity=0.290  Sum_probs=138.6

Q ss_pred             cccccccceEEEEeccccccccccCCCCCccceEEccCCccccccchhhhcCCCccEEEccCCCccccCCccccccCCCC
Q 048126          488 PEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSLE  567 (863)
Q Consensus       488 ~~~~~~~~lr~L~l~~~~~~~l~~~~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~  567 (863)
                      .....+++++.|++.+|.+..++.+..+++|++|++++|.++.+++  +.++++|++|++++|. +..+| .++.+++|+
T Consensus        40 ~~~~~l~~L~~L~l~~~~i~~~~~~~~l~~L~~L~L~~n~l~~~~~--l~~l~~L~~L~l~~n~-l~~~~-~l~~l~~L~  115 (291)
T 1h6t_A           40 VTQNELNSIDQIIANNSDIKSVQGIQYLPNVTKLFLNGNKLTDIKP--LANLKNLGWLFLDENK-VKDLS-SLKDLKKLK  115 (291)
T ss_dssp             ECHHHHHTCCEEECTTSCCCCCTTGGGCTTCCEEECCSSCCCCCGG--GTTCTTCCEEECCSSC-CCCGG-GGTTCTTCC
T ss_pred             cchhhcCcccEEEccCCCcccChhHhcCCCCCEEEccCCccCCCcc--cccCCCCCEEECCCCc-CCCCh-hhccCCCCC
Confidence            3455678899999999999988888899999999999999988876  8899999999999994 44555 489999999


Q ss_pred             eEEccCCCccccchhhhcCCCCCEEecCCccccCCCcHHHhhcCCCCcEEEeeccccccCchhhHHHHHcCCccCceEEE
Q 048126          568 HLDLSGTAITHLPIELQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRILKSNVLFGGHQFLVEELMGMKHLMALTI  647 (863)
Q Consensus       568 ~L~L~~~~l~~lp~~~~~l~~L~~L~l~~~~~l~~lp~~~~~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~~L~l  647 (863)
                      +|++++|.++.+| .+..+++|++|++++| .+..++.  ++.+++|++|++.+|.+...    .  .+..+++|+.|++
T Consensus       116 ~L~L~~n~i~~~~-~l~~l~~L~~L~l~~n-~l~~~~~--l~~l~~L~~L~L~~N~l~~~----~--~l~~l~~L~~L~L  185 (291)
T 1h6t_A          116 SLSLEHNGISDIN-GLVHLPQLESLYLGNN-KITDITV--LSRLTKLDTLSLEDNQISDI----V--PLAGLTKLQNLYL  185 (291)
T ss_dssp             EEECTTSCCCCCG-GGGGCTTCCEEECCSS-CCCCCGG--GGGCTTCSEEECCSSCCCCC----G--GGTTCTTCCEEEC
T ss_pred             EEECCCCcCCCCh-hhcCCCCCCEEEccCC-cCCcchh--hccCCCCCEEEccCCccccc----h--hhcCCCccCEEEC
Confidence            9999999999885 6889999999999998 6677753  88999999999999877542    1  1777777887777


Q ss_pred             EEcChHHHHHHhhhhhhhhcceeeeeccccCCCcccccchhhcCCCceEEEcCCcc
Q 048126          648 TLKSWEALQELLISQELQRCTQSLFLRCFNDSKSLDIFCLACLHNLNKLYVAGRKH  703 (863)
Q Consensus       648 ~~~~~~~~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~  703 (863)
                      +.+....+                             ..+..+++|+.|++++|..
T Consensus       186 ~~N~i~~l-----------------------------~~l~~l~~L~~L~l~~n~i  212 (291)
T 1h6t_A          186 SKNHISDL-----------------------------RALAGLKNLDVLELFSQEC  212 (291)
T ss_dssp             CSSCCCBC-----------------------------GGGTTCTTCSEEEEEEEEE
T ss_pred             CCCcCCCC-----------------------------hhhccCCCCCEEECcCCcc
Confidence            65543211                             2255667888888877643

>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

Probab=99.53  E-value=4.1e-14  Score=145.67  Aligned_cols=170  Identities=21%  Similarity=0.265  Sum_probs=132.0

Q ss_pred             EEEcCCCcccCcccccccceEEEEecccccccccc--CCCCCccceEEccCCccccccchhhhcCCCccEEEccCCCccc
Q 048126          477 LVHAGLGLTEAPEIQNWRNVRRMSLMKNKIENLSE--TPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLW  554 (863)
Q Consensus       477 ~~~~~~~~~~~~~~~~~~~lr~L~l~~~~~~~l~~--~~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~  554 (863)
                      +...+.....+|... .+.++.|++++|.+..++.  +..+++|++|++++|.+..+++..|..+++|++|+|++|.+..
T Consensus        19 l~~~~~~l~~~p~~~-~~~l~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~   97 (251)
T 3m19_A           19 VDCQGKSLDSVPSGI-PADTEKLDLQSTGLATLSDATFRGLTKLTWLNLDYNQLQTLSAGVFDDLTELGTLGLANNQLAS   97 (251)
T ss_dssp             EECTTCCCSSCCSCC-CTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECTTSCCCC
T ss_pred             EecCCCCccccCCCC-CCCCCEEEccCCCcCccCHhHhcCcccCCEEECCCCcCCccCHhHhccCCcCCEEECCCCcccc
Confidence            344444455554322 2578999999998877643  5788999999999999988888888899999999999996554


Q ss_pred             cCCccccccCCCCeEEccCCCccccchh-hhcCCCCCEEecCCccccCCCcHHHhhcCCCCcEEEeeccccccCchhhHH
Q 048126          555 KLPSGISTLVSLEHLDLSGTAITHLPIE-LQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRILKSNVLFGGHQFLV  633 (863)
Q Consensus       555 ~lp~~i~~l~~L~~L~L~~~~l~~lp~~-~~~l~~L~~L~l~~~~~l~~lp~~~~~~L~~L~~L~l~~~~~~~~~~~~~~  633 (863)
                      ..|..+..+++|++|+|++|.++.+|.. +..+++|++|++++| .+..+|...++.+++|++|++.+|.+...    ..
T Consensus        98 ~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~Ls~N-~l~~~~~~~~~~l~~L~~L~L~~N~l~~~----~~  172 (251)
T 3m19_A           98 LPLGVFDHLTQLDKLYLGGNQLKSLPSGVFDRLTKLKELRLNTN-QLQSIPAGAFDKLTNLQTLSLSTNQLQSV----PH  172 (251)
T ss_dssp             CCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSS-CCCCCCTTTTTTCTTCCEEECCSSCCSCC----CT
T ss_pred             cChhHhcccCCCCEEEcCCCcCCCcChhHhccCCcccEEECcCC-cCCccCHHHcCcCcCCCEEECCCCcCCcc----CH
Confidence            4456678899999999999999988776 588999999999988 67788876688899999999998877532    23


Q ss_pred             HHHcCCccCceEEEEEcCh
Q 048126          634 EELMGMKHLMALTITLKSW  652 (863)
Q Consensus       634 ~~l~~L~~L~~L~l~~~~~  652 (863)
                      ..+..+++|+.|+++.+.+
T Consensus       173 ~~~~~l~~L~~L~l~~N~~  191 (251)
T 3m19_A          173 GAFDRLGKLQTITLFGNQF  191 (251)
T ss_dssp             TTTTTCTTCCEEECCSCCB
T ss_pred             HHHhCCCCCCEEEeeCCce
Confidence            3567788888888887664

>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

Probab=99.53  E-value=4.9e-14  Score=145.04  Aligned_cols=129  Identities=19%  Similarity=0.265  Sum_probs=106.9

Q ss_pred             ceEEEEeccccccccccCCCCCccceEEccCCccccccchhhhcCCCccEEEccCCCccccCCccccccCCCCeEEccCC
Q 048126          495 NVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGT  574 (863)
Q Consensus       495 ~lr~L~l~~~~~~~l~~~~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~~  574 (863)
                      ..+.++++++.+..+|... .++|+.|++++|.+..+++..|.++++|++|+|++|.+.+..|..+.++++|++|++++|
T Consensus        15 ~~~~l~~~~~~l~~~p~~~-~~~l~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n   93 (251)
T 3m19_A           15 GKKEVDCQGKSLDSVPSGI-PADTEKLDLQSTGLATLSDATFRGLTKLTWLNLDYNQLQTLSAGVFDDLTELGTLGLANN   93 (251)
T ss_dssp             GGTEEECTTCCCSSCCSCC-CTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECTTS
T ss_pred             CCeEEecCCCCccccCCCC-CCCCCEEEccCCCcCccCHhHhcCcccCCEEECCCCcCCccCHhHhccCCcCCEEECCCC
Confidence            4567888888888876532 368999999999999888888899999999999999666656667899999999999999


Q ss_pred             Cccccch-hhhcCCCCCEEecCCccccCCCcHHHhhcCCCCcEEEeeccccc
Q 048126          575 AITHLPI-ELQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRILKSNVL  625 (863)
Q Consensus       575 ~l~~lp~-~~~~l~~L~~L~l~~~~~l~~lp~~~~~~L~~L~~L~l~~~~~~  625 (863)
                      .++.+|. .+..+++|++|++++| .++.+|...++.+++|++|++.+|.+.
T Consensus        94 ~l~~~~~~~~~~l~~L~~L~L~~N-~l~~~~~~~~~~l~~L~~L~Ls~N~l~  144 (251)
T 3m19_A           94 QLASLPLGVFDHLTQLDKLYLGGN-QLKSLPSGVFDRLTKLKELRLNTNQLQ  144 (251)
T ss_dssp             CCCCCCTTTTTTCTTCCEEECCSS-CCCCCCTTTTTTCTTCCEEECCSSCCC
T ss_pred             cccccChhHhcccCCCCEEEcCCC-cCCCcChhHhccCCcccEEECcCCcCC
Confidence            9998875 4688999999999998 677888766788888999888877654

>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

Probab=99.51  E-value=1.2e-14  Score=159.99  Aligned_cols=163  Identities=18%  Similarity=0.184  Sum_probs=123.1

Q ss_pred             cccccceEEEEecccccccc------ccCCCCCccceEEccCCccccc----cchh------hhcCCCccEEEccCCCcc
Q 048126          490 IQNWRNVRRMSLMKNKIENL------SETPTCPHLLSLFLSDNSLKMI----AGDF------FQFMPSLRVFNMSNNHLL  553 (863)
Q Consensus       490 ~~~~~~lr~L~l~~~~~~~l------~~~~~~~~L~~L~l~~~~l~~~----~~~~------~~~l~~L~~L~L~~~~~~  553 (863)
                      +..+++++.|++++|.+...      ..+..+++|++|++++|.+..+    |..+      +..+++|++|+|++|.+.
T Consensus        28 l~~~~~L~~L~L~~n~i~~~~~~~l~~~l~~~~~L~~L~Ls~~~~~~l~~~~~~~~~~l~~~l~~~~~L~~L~Ls~n~l~  107 (386)
T 2ca6_A           28 LLEDDSVKEIVLSGNTIGTEAARWLSENIASKKDLEIAEFSDIFTGRVKDEIPEALRLLLQALLKCPKLHTVRLSDNAFG  107 (386)
T ss_dssp             HHHCSCCCEEECTTSEECHHHHHHHHHTTTTCTTCCEEECCSCCTTSCGGGSHHHHHHHHHHHTTCTTCCEEECCSCCCC
T ss_pred             HhcCCCccEEECCCCCCCHHHHHHHHHHHHhCCCccEEeCcccccCccccchhHHHHHHHHHHhhCCcccEEECCCCcCC
Confidence            34567899999999987653      2256899999999999855433    3332      478999999999999665


Q ss_pred             c----cCCccccccCCCCeEEccCCCcc-----ccchhhhcC---------CCCCEEecCCccccC--CCcH--HHhhcC
Q 048126          554 W----KLPSGISTLVSLEHLDLSGTAIT-----HLPIELQKL---------VNLKCLNLEYMYNLN--QFPR--LVMSAF  611 (863)
Q Consensus       554 ~----~lp~~i~~l~~L~~L~L~~~~l~-----~lp~~~~~l---------~~L~~L~l~~~~~l~--~lp~--~~~~~L  611 (863)
                      .    .+|..+.++++|++|+|++|.++     .++..+..+         ++|++|++++|. +.  .+|.  ..+..+
T Consensus       108 ~~~~~~l~~~l~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~l~~~~~~~~~~~L~~L~L~~n~-l~~~~~~~l~~~l~~~  186 (386)
T 2ca6_A          108 PTAQEPLIDFLSKHTPLEHLYLHNNGLGPQAGAKIARALQELAVNKKAKNAPPLRSIICGRNR-LENGSMKEWAKTFQSH  186 (386)
T ss_dssp             TTTHHHHHHHHHHCTTCCEEECCSSCCHHHHHHHHHHHHHHHHHHHHHHTCCCCCEEECCSSC-CTGGGHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHhCCCCCEEECcCCCCCHHHHHHHHHHHHHHhhhhhcccCCCCcEEECCCCC-CCcHHHHHHHHHHHhC
Confidence            5    37888999999999999999987     344455555         899999999984 43  3442  236789


Q ss_pred             CCCcEEEeeccccccCchhhHHH-HHcCCccCceEEEEEcChH
Q 048126          612 SKLQVLRILKSNVLFGGHQFLVE-ELMGMKHLMALTITLKSWE  653 (863)
Q Consensus       612 ~~L~~L~l~~~~~~~~~~~~~~~-~l~~L~~L~~L~l~~~~~~  653 (863)
                      ++|++|++.+|.+...+...... .+..+++|+.|+++.+...
T Consensus       187 ~~L~~L~L~~n~l~~~g~~~l~~~~l~~~~~L~~L~Ls~n~l~  229 (386)
T 2ca6_A          187 RLLHTVKMVQNGIRPEGIEHLLLEGLAYCQELKVLDLQDNTFT  229 (386)
T ss_dssp             TTCCEEECCSSCCCHHHHHHHHHTTGGGCTTCCEEECCSSCCH
T ss_pred             CCcCEEECcCCCCCHhHHHHHHHHHhhcCCCccEEECcCCCCC
Confidence            99999999999775322222344 6788899999999887764

>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

Probab=99.50  E-value=3.9e-14  Score=163.56  Aligned_cols=111  Identities=19%  Similarity=0.355  Sum_probs=60.3

Q ss_pred             ccccccCCCCCccceEEccCCccccccchhhhcCCCccEEEccCCCccccCCccccccCCCCeEEccCCCccccchhhhc
Q 048126          506 IENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAITHLPIELQK  585 (863)
Q Consensus       506 ~~~l~~~~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~~~l~~lp~~~~~  585 (863)
                      +..+.....+++|+.|++++|.+..++.  +..+++|++|+|++|. +..+|. ++.|++|++|+|++|.++.+| .+..
T Consensus        33 i~~~~~~~~L~~L~~L~l~~n~i~~l~~--l~~l~~L~~L~Ls~N~-l~~~~~-l~~l~~L~~L~Ls~N~l~~l~-~l~~  107 (605)
T 1m9s_A           33 VTDAVTQNELNSIDQIIANNSDIKSVQG--IQYLPNVTKLFLNGNK-LTDIKP-LTNLKNLGWLFLDENKIKDLS-SLKD  107 (605)
T ss_dssp             TTSEECHHHHTTCCCCBCTTCCCCCCTT--GGGCTTCCEEECTTSC-CCCCGG-GGGCTTCCEEECCSSCCCCCT-TSTT
T ss_pred             cccccchhcCCCCCEEECcCCCCCCChH--HccCCCCCEEEeeCCC-CCCChh-hccCCCCCEEECcCCCCCCCh-hhcc
Confidence            3333333445555666666665555542  5556666666666663 223333 556666666666666665554 4556


Q ss_pred             CCCCCEEecCCccccCCCcHHHhhcCCCCcEEEeecccc
Q 048126          586 LVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRILKSNV  624 (863)
Q Consensus       586 l~~L~~L~l~~~~~l~~lp~~~~~~L~~L~~L~l~~~~~  624 (863)
                      +++|++|+|++| .+..+|.  +..|++|+.|++.+|.+
T Consensus       108 l~~L~~L~Ls~N-~l~~l~~--l~~l~~L~~L~Ls~N~l  143 (605)
T 1m9s_A          108 LKKLKSLSLEHN-GISDING--LVHLPQLESLYLGNNKI  143 (605)
T ss_dssp             CTTCCEEECTTS-CCCCCGG--GGGCTTCSEEECCSSCC
T ss_pred             CCCCCEEEecCC-CCCCCcc--ccCCCccCEEECCCCcc
Confidence            666666666665 3444443  55556666666555543

>3goz_A Leucine-rich repeat-containing protein; LEGL7, NESG, LGR148, structural genomics, PSI-2, protein structure initiative; 2.10A {Legionella pneumophila subsp}

Probab=99.48  E-value=2.9e-14  Score=155.45  Aligned_cols=259  Identities=15%  Similarity=0.132  Sum_probs=165.2

Q ss_pred             eEEccCCccccccchhhhcCCCccEEEccCCCccccCC----ccccccC-CCCeEEccCCCcccc-chhhhcC-----CC
Q 048126          520 SLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLP----SGISTLV-SLEHLDLSGTAITHL-PIELQKL-----VN  588 (863)
Q Consensus       520 ~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~lp----~~i~~l~-~L~~L~L~~~~l~~l-p~~~~~l-----~~  588 (863)
                      .+.++.|.+.+..+.++...++|++|+|++|.+....+    ..+.+++ +|++|+|++|.++.. +..+..+     ++
T Consensus         2 ~~~ls~n~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~N~l~~~~~~~l~~~l~~~~~~   81 (362)
T 3goz_A            2 NYKLTLHPGSNPVEEFTSIPHGVTSLDLSLNNLYSISTVELIQAFANTPASVTSLNLSGNSLGFKNSDELVQILAAIPAN   81 (362)
T ss_dssp             EEECCCCTTCCHHHHHHTSCTTCCEEECTTSCGGGSCHHHHHHHHHTCCTTCCEEECCSSCGGGSCHHHHHHHHHTSCTT
T ss_pred             ccccccccchHHHHHHHhCCCCceEEEccCCCCChHHHHHHHHHHHhCCCceeEEECcCCCCCHHHHHHHHHHHhccCCC
Confidence            35678888888777877777779999999995443333    6677888 899999999988855 4455554     89


Q ss_pred             CCEEecCCccccCCCcHHHh----hcC-CCCcEEEeeccccccCchhhHHHHHcCC-ccCceEEEEEcChHHH--HHHhh
Q 048126          589 LKCLNLEYMYNLNQFPRLVM----SAF-SKLQVLRILKSNVLFGGHQFLVEELMGM-KHLMALTITLKSWEAL--QELLI  660 (863)
Q Consensus       589 L~~L~l~~~~~l~~lp~~~~----~~L-~~L~~L~l~~~~~~~~~~~~~~~~l~~L-~~L~~L~l~~~~~~~~--~~l~~  660 (863)
                      |++|++++|. +...+...+    ..+ ++|++|++.+|.+...........+..+ ++|+.|+++.+.....  ..+. 
T Consensus        82 L~~L~Ls~n~-l~~~~~~~l~~~l~~~~~~L~~L~Ls~N~l~~~~~~~l~~~l~~~~~~L~~L~Ls~N~l~~~~~~~l~-  159 (362)
T 3goz_A           82 VTSLNLSGNF-LSYKSSDELVKTLAAIPFTITVLDLGWNDFSSKSSSEFKQAFSNLPASITSLNLRGNDLGIKSSDELI-  159 (362)
T ss_dssp             CCEEECCSSC-GGGSCHHHHHHHHHTSCTTCCEEECCSSCGGGSCHHHHHHHHTTSCTTCCEEECTTSCGGGSCHHHHH-
T ss_pred             ccEEECcCCc-CChHHHHHHHHHHHhCCCCccEEECcCCcCCcHHHHHHHHHHHhCCCceeEEEccCCcCCHHHHHHHH-
Confidence            9999999984 554443323    333 7899999998887654333333445553 4677777665543310  0100 


Q ss_pred             hhhhhhcceeeeeccccCCCcccccchhhcC-CCceEEEcCCcccccceecccccccccccccc-CcccEEEEeccCCCC
Q 048126          661 SQELQRCTQSLFLRCFNDSKSLDIFCLACLH-NLNKLYVAGRKHLEDFQMTVQRSSVNQLARGF-HSLHTVKVGFCFKLK  738 (863)
Q Consensus       661 ~~~~~~~L~~L~l~~~~~~~~~~~~~l~~~~-~L~~L~l~~~~~~~~l~~~~~~~~~~~~~~~l-~~L~~L~L~~c~~l~  738 (863)
                                              ..+..++ +|++|++++|.... ..+..+.    .....+ ++|++|+|++|. +.
T Consensus       160 ------------------------~~l~~~~~~L~~L~Ls~n~l~~-~~~~~l~----~~l~~~~~~L~~L~Ls~N~-i~  209 (362)
T 3goz_A          160 ------------------------QILAAIPANVNSLNLRGNNLAS-KNCAELA----KFLASIPASVTSLDLSANL-LG  209 (362)
T ss_dssp             ------------------------HHHHTSCTTCCEEECTTSCGGG-SCHHHHH----HHHHTSCTTCCEEECTTSC-GG
T ss_pred             ------------------------HHHhcCCccccEeeecCCCCch-hhHHHHH----HHHHhCCCCCCEEECCCCC-CC
Confidence                                    1123333 89999999875432 2222111    001224 599999999984 55


Q ss_pred             C-----Cc-hhhc-cCCCcEEEEeccccchhhccccccccccCCCCCCCCcCCccceeccCCCc-------cccccccCC
Q 048126          739 D-----LT-WLVF-APSLKSIVVLSCCNMEQIIKAEKLSQLHHHPERKKSVFAKLQFLSLENLR-------NLCCINWEA  804 (863)
Q Consensus       739 ~-----l~-~l~~-l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~~~p~L~~L~l~~~~-------~L~~i~~~~  804 (863)
                      .     ++ .+.. .++|+.|+|+++. +...+....        ......+++|+.|++++|.       .+..+....
T Consensus       210 ~~~~~~l~~~l~~~~~~L~~L~Ls~N~-l~~~~~~~l--------~~~~~~l~~L~~L~L~~n~l~~i~~~~~~~l~~~~  280 (362)
T 3goz_A          210 LKSYAELAYIFSSIPNHVVSLNLCLNC-LHGPSLENL--------KLLKDSLKHLQTVYLDYDIVKNMSKEQCKALGAAF  280 (362)
T ss_dssp             GSCHHHHHHHHHHSCTTCCEEECCSSC-CCCCCHHHH--------HHTTTTTTTCSEEEEEHHHHTTCCHHHHHHHHTTS
T ss_pred             hhHHHHHHHHHhcCCCCceEEECcCCC-CCcHHHHHH--------HHHHhcCCCccEEEeccCCccccCHHHHHHHHHHh
Confidence            4     22 2334 3599999999964 544311000        1235678999999999875       133333344


Q ss_pred             CCCCCcceEeecCCC
Q 048126          805 LAFPNLKEIRVEGCP  819 (863)
Q Consensus       805 ~~~p~L~~L~i~~C~  819 (863)
                      ..+++|+.|++++++
T Consensus       281 ~~l~~L~~LdL~~N~  295 (362)
T 3goz_A          281 PNIQKIILVDKNGKE  295 (362)
T ss_dssp             TTCCEEEEECTTSCB
T ss_pred             ccCCceEEEecCCCc
Confidence            567889999998763

>4ezg_A Putative uncharacterized protein; internalin-A, leucine-rich repeat protein, structural genomi center for structural genomics, JCSG; HET: MSE; 1.50A {Listeria monocytogenes}

Probab=99.48  E-value=2.2e-13  Score=134.44  Aligned_cols=146  Identities=19%  Similarity=0.276  Sum_probs=125.0

Q ss_pred             EEEEcCCCcccCcccccccceEEEEeccccccccccCCCCCccceEEccCCccccccchhhhcCCCccEEEccCCCcccc
Q 048126          476 FLVHAGLGLTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWK  555 (863)
Q Consensus       476 ~~~~~~~~~~~~~~~~~~~~lr~L~l~~~~~~~l~~~~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~  555 (863)
                      .+...+......+.+..+++++.|++++|.+..++.+..+++|++|++++|.+....+..++.+++|++|++++|.+.+.
T Consensus        48 ~L~l~~n~i~~l~~l~~l~~L~~L~l~~n~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~l~~l~~L~~L~Ls~n~i~~~  127 (197)
T 4ezg_A           48 YITLANINVTDLTGIEYAHNIKDLTINNIHATNYNPISGLSNLERLRIMGKDVTSDKIPNLSGLTSLTLLDISHSAHDDS  127 (197)
T ss_dssp             EEEEESSCCSCCTTGGGCTTCSEEEEESCCCSCCGGGTTCTTCCEEEEECTTCBGGGSCCCTTCTTCCEEECCSSBCBGG
T ss_pred             EEeccCCCccChHHHhcCCCCCEEEccCCCCCcchhhhcCCCCCEEEeECCccCcccChhhcCCCCCCEEEecCCccCcH
Confidence            34445555566667888899999999999988888889999999999999999875555589999999999999977767


Q ss_pred             CCccccccCCCCeEEccCCC-ccccchhhhcCCCCCEEecCCccccCCCcHHHhhcCCCCcEEEeeccccc
Q 048126          556 LPSGISTLVSLEHLDLSGTA-ITHLPIELQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRILKSNVL  625 (863)
Q Consensus       556 lp~~i~~l~~L~~L~L~~~~-l~~lp~~~~~l~~L~~L~l~~~~~l~~lp~~~~~~L~~L~~L~l~~~~~~  625 (863)
                      .|..++.+++|++|++++|. ++.+| .+..+++|++|++++| .+..++.  +..+++|++|++.+|.+.
T Consensus       128 ~~~~l~~l~~L~~L~L~~n~~i~~~~-~l~~l~~L~~L~l~~n-~i~~~~~--l~~l~~L~~L~l~~N~i~  194 (197)
T 4ezg_A          128 ILTKINTLPKVNSIDLSYNGAITDIM-PLKTLPELKSLNIQFD-GVHDYRG--IEDFPKLNQLYAFSQTIG  194 (197)
T ss_dssp             GHHHHTTCSSCCEEECCSCTBCCCCG-GGGGCSSCCEEECTTB-CCCCCTT--GGGCSSCCEEEECBC---
T ss_pred             hHHHHhhCCCCCEEEccCCCCccccH-hhcCCCCCCEEECCCC-CCcChHH--hccCCCCCEEEeeCcccC
Confidence            88899999999999999997 88988 7999999999999999 6688873  889999999999988764

>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

Probab=99.47  E-value=9.4e-14  Score=160.39  Aligned_cols=172  Identities=20%  Similarity=0.258  Sum_probs=138.3

Q ss_pred             CcccccccceEEEEeccccccccccCCCCCccceEEccCCccccccchhhhcCCCccEEEccCCCccccCCccccccCCC
Q 048126          487 APEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSL  566 (863)
Q Consensus       487 ~~~~~~~~~lr~L~l~~~~~~~l~~~~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L  566 (863)
                      ......+++|+.|++.+|.+..++.+..+++|+.|+|++|.+..+++  +..+++|++|+|++|. +..+| .++.|++|
T Consensus        36 ~~~~~~L~~L~~L~l~~n~i~~l~~l~~l~~L~~L~Ls~N~l~~~~~--l~~l~~L~~L~Ls~N~-l~~l~-~l~~l~~L  111 (605)
T 1m9s_A           36 AVTQNELNSIDQIIANNSDIKSVQGIQYLPNVTKLFLNGNKLTDIKP--LTNLKNLGWLFLDENK-IKDLS-SLKDLKKL  111 (605)
T ss_dssp             EECHHHHTTCCCCBCTTCCCCCCTTGGGCTTCCEEECTTSCCCCCGG--GGGCTTCCEEECCSSC-CCCCT-TSTTCTTC
T ss_pred             ccchhcCCCCCEEECcCCCCCCChHHccCCCCCEEEeeCCCCCCChh--hccCCCCCEEECcCCC-CCCCh-hhccCCCC
Confidence            34456678899999999999999888999999999999999998887  8899999999999994 54566 78999999


Q ss_pred             CeEEccCCCccccchhhhcCCCCCEEecCCccccCCCcHHHhhcCCCCcEEEeeccccccCchhhHHHHHcCCccCceEE
Q 048126          567 EHLDLSGTAITHLPIELQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRILKSNVLFGGHQFLVEELMGMKHLMALT  646 (863)
Q Consensus       567 ~~L~L~~~~l~~lp~~~~~l~~L~~L~l~~~~~l~~lp~~~~~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~~L~  646 (863)
                      ++|+|++|.+..+| .+..|++|+.|+|++| .+..++.  ++.|++|+.|++.+|.+...    .+  +..+++|+.|+
T Consensus       112 ~~L~Ls~N~l~~l~-~l~~l~~L~~L~Ls~N-~l~~l~~--l~~l~~L~~L~Ls~N~l~~~----~~--l~~l~~L~~L~  181 (605)
T 1m9s_A          112 KSLSLEHNGISDIN-GLVHLPQLESLYLGNN-KITDITV--LSRLTKLDTLSLEDNQISDI----VP--LAGLTKLQNLY  181 (605)
T ss_dssp             CEEECTTSCCCCCG-GGGGCTTCSEEECCSS-CCCCCGG--GGSCTTCSEEECCSSCCCCC----GG--GTTCTTCCEEE
T ss_pred             CEEEecCCCCCCCc-cccCCCccCEEECCCC-ccCCchh--hcccCCCCEEECcCCcCCCc----hh--hccCCCCCEEE
Confidence            99999999999875 6899999999999999 6677754  88999999999999887642    11  78888899888


Q ss_pred             EEEcChHHHHHHhhhhhhhhcceeeeeccc
Q 048126          647 ITLKSWEALQELLISQELQRCTQSLFLRCF  676 (863)
Q Consensus       647 l~~~~~~~~~~l~~~~~~~~~L~~L~l~~~  676 (863)
                      ++.+....++.+    ...++|+.|.|+++
T Consensus       182 Ls~N~i~~l~~l----~~l~~L~~L~L~~N  207 (605)
T 1m9s_A          182 LSKNHISDLRAL----AGLKNLDVLELFSQ  207 (605)
T ss_dssp             CCSSCCCBCGGG----TTCTTCSEEECCSE
T ss_pred             CcCCCCCCChHH----ccCCCCCEEEccCC
Confidence            887765443211    11235555555554

>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}

Probab=99.47  E-value=2.9e-13  Score=136.96  Aligned_cols=131  Identities=23%  Similarity=0.316  Sum_probs=88.7

Q ss_pred             cceEEEEecccccccccc--CCCCCccceEEccCCccccccchhhhcCCCccEEEccCCCccccCCccccccCCCCeEEc
Q 048126          494 RNVRRMSLMKNKIENLSE--TPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDL  571 (863)
Q Consensus       494 ~~lr~L~l~~~~~~~l~~--~~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L  571 (863)
                      ++++.|++++|.+..++.  +..+++|++|++++|.+..+++..|..+++|++|+|++|.+....+..+..+++|++|+|
T Consensus        40 ~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~L~~N~l~~i~~~~~~~l~~L~~L~Ls~N~l~~l~~~~~~~l~~L~~L~L  119 (229)
T 3e6j_A           40 TNAQILYLHDNQITKLEPGVFDSLINLKELYLGSNQLGALPVGVFDSLTQLTVLDLGTNQLTVLPSAVFDRLVHLKELFM  119 (229)
T ss_dssp             TTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEEC
T ss_pred             CCCCEEEcCCCccCccCHHHhhCccCCcEEECCCCCCCCcChhhcccCCCcCEEECCCCcCCccChhHhCcchhhCeEec
Confidence            567777777777766532  456677777777777777777666677777777777777443333334567777777777


Q ss_pred             cCCCccccchhhhcCCCCCEEecCCccccCCCcHHHhhcCCCCcEEEeeccccc
Q 048126          572 SGTAITHLPIELQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRILKSNVL  625 (863)
Q Consensus       572 ~~~~l~~lp~~~~~l~~L~~L~l~~~~~l~~lp~~~~~~L~~L~~L~l~~~~~~  625 (863)
                      ++|.++.+|..+..+++|++|++++| .+..+|...+..+++|++|++.+|...
T Consensus       120 s~N~l~~lp~~~~~l~~L~~L~L~~N-~l~~~~~~~~~~l~~L~~L~l~~N~~~  172 (229)
T 3e6j_A          120 CCNKLTELPRGIERLTHLTHLALDQN-QLKSIPHGAFDRLSSLTHAYLFGNPWD  172 (229)
T ss_dssp             CSSCCCSCCTTGGGCTTCSEEECCSS-CCCCCCTTTTTTCTTCCEEECTTSCBC
T ss_pred             cCCcccccCcccccCCCCCEEECCCC-cCCccCHHHHhCCCCCCEEEeeCCCcc
Confidence            77777777777777777777777776 556666555666777777777766554

>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

Probab=99.46  E-value=6e-13  Score=139.93  Aligned_cols=163  Identities=24%  Similarity=0.349  Sum_probs=139.0

Q ss_pred             EEEcCCCcccCcccccccceEEEEeccccccccccCCCCCccceEEccCCccccccchhhhcCCCccEEEccCCCccccC
Q 048126          477 LVHAGLGLTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKL  556 (863)
Q Consensus       477 ~~~~~~~~~~~~~~~~~~~lr~L~l~~~~~~~l~~~~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~l  556 (863)
                      +...+......+.+..+++++.|++++|.+..++.+..+++|++|++++|.++.++.  +..+++|++|++++|. +..+
T Consensus        51 L~l~~~~i~~~~~~~~l~~L~~L~L~~n~l~~~~~l~~l~~L~~L~l~~n~l~~~~~--l~~l~~L~~L~L~~n~-i~~~  127 (291)
T 1h6t_A           51 IIANNSDIKSVQGIQYLPNVTKLFLNGNKLTDIKPLANLKNLGWLFLDENKVKDLSS--LKDLKKLKSLSLEHNG-ISDI  127 (291)
T ss_dssp             EECTTSCCCCCTTGGGCTTCCEEECCSSCCCCCGGGTTCTTCCEEECCSSCCCCGGG--GTTCTTCCEEECTTSC-CCCC
T ss_pred             EEccCCCcccChhHhcCCCCCEEEccCCccCCCcccccCCCCCEEECCCCcCCCChh--hccCCCCCEEECCCCc-CCCC
Confidence            444444555666788889999999999999988878999999999999999988765  8999999999999995 4455


Q ss_pred             CccccccCCCCeEEccCCCccccchhhhcCCCCCEEecCCccccCCCcHHHhhcCCCCcEEEeeccccccCchhhHHHHH
Q 048126          557 PSGISTLVSLEHLDLSGTAITHLPIELQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRILKSNVLFGGHQFLVEEL  636 (863)
Q Consensus       557 p~~i~~l~~L~~L~L~~~~l~~lp~~~~~l~~L~~L~l~~~~~l~~lp~~~~~~L~~L~~L~l~~~~~~~~~~~~~~~~l  636 (863)
                       ..+..+++|++|++++|.++.+ ..+..+++|++|++++| .+..++.  +..+++|++|++.+|.+..-      ..+
T Consensus       128 -~~l~~l~~L~~L~l~~n~l~~~-~~l~~l~~L~~L~L~~N-~l~~~~~--l~~l~~L~~L~L~~N~i~~l------~~l  196 (291)
T 1h6t_A          128 -NGLVHLPQLESLYLGNNKITDI-TVLSRLTKLDTLSLEDN-QISDIVP--LAGLTKLQNLYLSKNHISDL------RAL  196 (291)
T ss_dssp             -GGGGGCTTCCEEECCSSCCCCC-GGGGGCTTCSEEECCSS-CCCCCGG--GTTCTTCCEEECCSSCCCBC------GGG
T ss_pred             -hhhcCCCCCCEEEccCCcCCcc-hhhccCCCCCEEEccCC-ccccchh--hcCCCccCEEECCCCcCCCC------hhh
Confidence             4789999999999999999988 57999999999999999 6788876  88999999999999987532      348


Q ss_pred             cCCccCceEEEEEcChH
Q 048126          637 MGMKHLMALTITLKSWE  653 (863)
Q Consensus       637 ~~L~~L~~L~l~~~~~~  653 (863)
                      ..+++|+.|+++.+...
T Consensus       197 ~~l~~L~~L~l~~n~i~  213 (291)
T 1h6t_A          197 AGLKNLDVLELFSQECL  213 (291)
T ss_dssp             TTCTTCSEEEEEEEEEE
T ss_pred             ccCCCCCEEECcCCccc
Confidence            88999999999877543

>1xeu_A Internalin C; cellular invasion, leucine-rich repeat, cell invasion; 2.05A {Listeria monocytogenes}

Probab=99.45  E-value=4.5e-13  Score=138.60  Aligned_cols=154  Identities=20%  Similarity=0.223  Sum_probs=130.6

Q ss_pred             ccCcccccccceEEEEeccccccccccCCCCCccceEEccCCccccccchhhhcCCCccEEEccCCCccccCCccccccC
Q 048126          485 TEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLV  564 (863)
Q Consensus       485 ~~~~~~~~~~~lr~L~l~~~~~~~l~~~~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~  564 (863)
                      ...+.+..+++++.|++.+|.+..++.+..+++|+.|++++|.+..+++  +.++++|++|+|++| .+..+|....  .
T Consensus        32 ~~~~~~~~l~~L~~L~l~~n~i~~l~~l~~l~~L~~L~L~~N~i~~~~~--l~~l~~L~~L~L~~N-~l~~l~~~~~--~  106 (263)
T 1xeu_A           32 TDLVSQKELSGVQNFNGDNSNIQSLAGMQFFTNLKELHLSHNQISDLSP--LKDLTKLEELSVNRN-RLKNLNGIPS--A  106 (263)
T ss_dssp             TSEECHHHHTTCSEEECTTSCCCCCTTGGGCTTCCEEECCSSCCCCCGG--GTTCSSCCEEECCSS-CCSCCTTCCC--S
T ss_pred             ccccchhhcCcCcEEECcCCCcccchHHhhCCCCCEEECCCCccCCChh--hccCCCCCEEECCCC-ccCCcCcccc--C
Confidence            3444566788999999999999988888899999999999999999887  889999999999999 4556765443  8


Q ss_pred             CCCeEEccCCCccccchhhhcCCCCCEEecCCccccCCCcHHHhhcCCCCcEEEeeccccccCchhhHHHHHcCCccCce
Q 048126          565 SLEHLDLSGTAITHLPIELQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRILKSNVLFGGHQFLVEELMGMKHLMA  644 (863)
Q Consensus       565 ~L~~L~L~~~~l~~lp~~~~~l~~L~~L~l~~~~~l~~lp~~~~~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~~  644 (863)
                      +|++|++++|.++.+| .+..+++|++|++++| .++.+|.  ++.+++|++|++.+|.+...      ..+..+++|+.
T Consensus       107 ~L~~L~L~~N~l~~~~-~l~~l~~L~~L~Ls~N-~i~~~~~--l~~l~~L~~L~L~~N~i~~~------~~l~~l~~L~~  176 (263)
T 1xeu_A          107 CLSRLFLDNNELRDTD-SLIHLKNLEILSIRNN-KLKSIVM--LGFLSKLEVLDLHGNEITNT------GGLTRLKKVNW  176 (263)
T ss_dssp             SCCEEECCSSCCSBSG-GGTTCTTCCEEECTTS-CCCBCGG--GGGCTTCCEEECTTSCCCBC------TTSTTCCCCCE
T ss_pred             cccEEEccCCccCCCh-hhcCcccccEEECCCC-cCCCChH--HccCCCCCEEECCCCcCcch------HHhccCCCCCE
Confidence            9999999999999986 5999999999999999 6788874  88999999999999887632      55778889999


Q ss_pred             EEEEEcChH
Q 048126          645 LTITLKSWE  653 (863)
Q Consensus       645 L~l~~~~~~  653 (863)
                      |+++.+...
T Consensus       177 L~l~~N~~~  185 (263)
T 1xeu_A          177 IDLTGQKCV  185 (263)
T ss_dssp             EEEEEEEEE
T ss_pred             EeCCCCccc
Confidence            999877543

>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

Probab=99.45  E-value=2e-13  Score=137.13  Aligned_cols=148  Identities=19%  Similarity=0.260  Sum_probs=82.6

Q ss_pred             EEEeccccccccccCCCCCccceEEccCCccccccchhhhcCCCccEEEccCCCccccCCccccccCCCCeEEccCCCcc
Q 048126          498 RMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAIT  577 (863)
Q Consensus       498 ~L~l~~~~~~~l~~~~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~~~l~  577 (863)
                      .++..++.+..+|.. -.++|+.|++++|.++.+++..|..+++|++|+|++|.+....|..+.++++|++|+|++|.|+
T Consensus        15 ~v~c~~~~l~~iP~~-l~~~l~~L~l~~n~i~~i~~~~~~~l~~L~~L~Ls~N~i~~~~~~~~~~l~~L~~L~Ls~N~l~   93 (220)
T 2v9t_B           15 IVDCRGKGLTEIPTN-LPETITEIRLEQNTIKVIPPGAFSPYKKLRRIDLSNNQISELAPDAFQGLRSLNSLVLYGNKIT   93 (220)
T ss_dssp             EEECTTSCCSSCCSS-CCTTCCEEECCSSCCCEECTTSSTTCTTCCEEECCSSCCCEECTTTTTTCSSCCEEECCSSCCC
T ss_pred             EEEcCCCCcCcCCCc-cCcCCCEEECCCCcCCCcCHhHhhCCCCCCEEECCCCcCCCcCHHHhhCCcCCCEEECCCCcCC
Confidence            344555555554432 1245666666666666666555666666666666666444444556666666666666666666


Q ss_pred             ccchh-hhcCCCCCEEecCCccccCCCcHHHhhcCCCCcEEEeeccccccCchhhHHHHHcCCccCceEEEEEcC
Q 048126          578 HLPIE-LQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRILKSNVLFGGHQFLVEELMGMKHLMALTITLKS  651 (863)
Q Consensus       578 ~lp~~-~~~l~~L~~L~l~~~~~l~~lp~~~~~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~  651 (863)
                      .+|.. +..+++|++|++++| .+..++...+..+++|++|++.+|.+...    ....+..+++|+.|++..|.
T Consensus        94 ~l~~~~f~~l~~L~~L~L~~N-~l~~~~~~~~~~l~~L~~L~L~~N~l~~~----~~~~~~~l~~L~~L~L~~N~  163 (220)
T 2v9t_B           94 ELPKSLFEGLFSLQLLLLNAN-KINCLRVDAFQDLHNLNLLSLYDNKLQTI----AKGTFSPLRAIQTMHLAQNP  163 (220)
T ss_dssp             CCCTTTTTTCTTCCEEECCSS-CCCCCCTTTTTTCTTCCEEECCSSCCSCC----CTTTTTTCTTCCEEECCSSC
T ss_pred             ccCHhHccCCCCCCEEECCCC-CCCEeCHHHcCCCCCCCEEECCCCcCCEE----CHHHHhCCCCCCEEEeCCCC
Confidence            66554 455666666666665 44555444455666666666666555422    12234455566666655443

>4glp_A Monocyte differentiation antigen CD14; alpha beta BENT solenoid, LRR, lipopolysaccharide, serum, CD leucine-rich repeat, pattern recognition; 4.00A {Homo sapiens}

Probab=99.43  E-value=8e-14  Score=148.41  Aligned_cols=199  Identities=15%  Similarity=0.061  Sum_probs=109.3

Q ss_pred             cceEEEEecccccccc-c-cC--CCCCccceEEccCCccccccc----hhhhcCCCccEEEccCCCccccCCccccccCC
Q 048126          494 RNVRRMSLMKNKIENL-S-ET--PTCPHLLSLFLSDNSLKMIAG----DFFQFMPSLRVFNMSNNHLLWKLPSGISTLVS  565 (863)
Q Consensus       494 ~~lr~L~l~~~~~~~l-~-~~--~~~~~L~~L~l~~~~l~~~~~----~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~  565 (863)
                      ++++.|++++|.+... + .+  ..+++|++|++++|.+....+    ..+..+++|++|+|++|.+....|..++.+++
T Consensus        91 ~~L~~L~l~~n~l~~~~~~~~~~~~~~~L~~L~Ls~n~i~~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~~~~l~~  170 (310)
T 4glp_A           91 SRLKELTLEDLKITGTMPPLPLEATGLALSSLRLRNVSWATGRSWLAELQQWLKPGLKVLSIAQAHSPAFSCEQVRAFPA  170 (310)
T ss_dssp             SCCCEEEEESCCCBSCCCCCSSSCCCBCCSSCEEESCCCSSTTSSHHHHHTTBCSCCCEEEEECCSSCCCCTTSCCCCTT
T ss_pred             CceeEEEeeCCEeccchhhhhhhccCCCCCEEEeecccccchhhhhHHHHhhhccCCCEEEeeCCCcchhhHHHhccCCC
Confidence            3466777776666543 1 12  556677777777776654221    22345667777777777554445566667777


Q ss_pred             CCeEEccCCCccc---cchh--hhcCCCCCEEecCCccccCCCcHH---HhhcCCCCcEEEeeccccccCchhhHHHHHc
Q 048126          566 LEHLDLSGTAITH---LPIE--LQKLVNLKCLNLEYMYNLNQFPRL---VMSAFSKLQVLRILKSNVLFGGHQFLVEELM  637 (863)
Q Consensus       566 L~~L~L~~~~l~~---lp~~--~~~l~~L~~L~l~~~~~l~~lp~~---~~~~L~~L~~L~l~~~~~~~~~~~~~~~~l~  637 (863)
                      |++|++++|++..   +|..  +..+++|++|++++| .++.+|..   .++.+++|++|++++|.+...    .+..+.
T Consensus       171 L~~L~Ls~N~l~~~~~~~~~~~~~~l~~L~~L~Ls~N-~l~~l~~~~~~l~~~l~~L~~L~Ls~N~l~~~----~p~~~~  245 (310)
T 4glp_A          171 LTSLDLSDNPGLGERGLMAALCPHKFPAIQNLALRNT-GMETPTGVCAALAAAGVQPHSLDLSHNSLRAT----VNPSAP  245 (310)
T ss_dssp             CCEEECCSCTTCHHHHHHTTSCTTSSCCCCSCBCCSS-CCCCHHHHHHHHHHHTCCCSSEECTTSCCCCC----CCSCCS
T ss_pred             CCEEECCCCCCccchhhhHHHhhhcCCCCCEEECCCC-CCCchHHHHHHHHhcCCCCCEEECCCCCCCcc----chhhHH
Confidence            7777777776542   3222  356667777777776 44544432   245566777777766655421    111122


Q ss_pred             CCccCceEEEEEcChHHHHHHhhhhhhhhcceeeeeccccCCCcccccchhhcCCCceEEEcCCcccccceecccccccc
Q 048126          638 GMKHLMALTITLKSWEALQELLISQELQRCTQSLFLRCFNDSKSLDIFCLACLHNLNKLYVAGRKHLEDFQMTVQRSSVN  717 (863)
Q Consensus       638 ~L~~L~~L~l~~~~~~~~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~l~~~~~~~~~~  717 (863)
                      .+.                       ..++|+.|+++++.- +.++ ..+  .++|+.|++++|... .++ ..      
T Consensus       246 ~~~-----------------------~~~~L~~L~Ls~N~l-~~lp-~~~--~~~L~~L~Ls~N~l~-~~~-~~------  290 (310)
T 4glp_A          246 RCM-----------------------WSSALNSLNLSFAGL-EQVP-KGL--PAKLRVLDLSSNRLN-RAP-QP------  290 (310)
T ss_dssp             SCC-----------------------CCTTCCCEECCSSCC-CSCC-SCC--CSCCSCEECCSCCCC-SCC-CT------
T ss_pred             hcc-----------------------CcCcCCEEECCCCCC-Cchh-hhh--cCCCCEEECCCCcCC-CCc-hh------
Confidence            221                       012444455544322 2222 112  268888888886433 222 11      


Q ss_pred             ccccccCcccEEEEeccC
Q 048126          718 QLARGFHSLHTVKVGFCF  735 (863)
Q Consensus       718 ~~~~~l~~L~~L~L~~c~  735 (863)
                         ..+++|+.|+|++++
T Consensus       291 ---~~l~~L~~L~L~~N~  305 (310)
T 4glp_A          291 ---DELPEVDNLTLDGNP  305 (310)
T ss_dssp             ---TSCCCCSCEECSSTT
T ss_pred             ---hhCCCccEEECcCCC
Confidence               247888888888863

>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

Probab=99.42  E-value=1.2e-12  Score=131.44  Aligned_cols=146  Identities=26%  Similarity=0.323  Sum_probs=122.2

Q ss_pred             EEEcCCCcccCcccccccceEEEEeccccccccc--cCCCCCccceEEccCCccccccchhhhcCCCccEEEccCCCccc
Q 048126          477 LVHAGLGLTEAPEIQNWRNVRRMSLMKNKIENLS--ETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLW  554 (863)
Q Consensus       477 ~~~~~~~~~~~~~~~~~~~lr~L~l~~~~~~~l~--~~~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~  554 (863)
                      +...+.....+|... .+.++.|++++|.+..++  .+..+++|+.|++++|.+..+++..|.++++|++|+|++|.+ .
T Consensus        16 v~c~~~~l~~iP~~l-~~~l~~L~l~~n~i~~i~~~~~~~l~~L~~L~Ls~N~i~~~~~~~~~~l~~L~~L~Ls~N~l-~   93 (220)
T 2v9t_B           16 VDCRGKGLTEIPTNL-PETITEIRLEQNTIKVIPPGAFSPYKKLRRIDLSNNQISELAPDAFQGLRSLNSLVLYGNKI-T   93 (220)
T ss_dssp             EECTTSCCSSCCSSC-CTTCCEEECCSSCCCEECTTSSTTCTTCCEEECCSSCCCEECTTTTTTCSSCCEEECCSSCC-C
T ss_pred             EEcCCCCcCcCCCcc-CcCCCEEECCCCcCCCcCHhHhhCCCCCCEEECCCCcCCCcCHHHhhCCcCCCEEECCCCcC-C
Confidence            344444555555322 268999999999998876  468899999999999999999888899999999999999954 4


Q ss_pred             cCCcc-ccccCCCCeEEccCCCcccc-chhhhcCCCCCEEecCCccccCCCcHHHhhcCCCCcEEEeeccccc
Q 048126          555 KLPSG-ISTLVSLEHLDLSGTAITHL-PIELQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRILKSNVL  625 (863)
Q Consensus       555 ~lp~~-i~~l~~L~~L~L~~~~l~~l-p~~~~~l~~L~~L~l~~~~~l~~lp~~~~~~L~~L~~L~l~~~~~~  625 (863)
                      .+|.. +..+++|++|+|++|.++.+ |..+..+++|++|++++| .++.+|...+..+++|++|++.+|...
T Consensus        94 ~l~~~~f~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~N-~l~~~~~~~~~~l~~L~~L~L~~N~~~  165 (220)
T 2v9t_B           94 ELPKSLFEGLFSLQLLLLNANKINCLRVDAFQDLHNLNLLSLYDN-KLQTIAKGTFSPLRAIQTMHLAQNPFI  165 (220)
T ss_dssp             CCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSS-CCSCCCTTTTTTCTTCCEEECCSSCEE
T ss_pred             ccCHhHccCCCCCCEEECCCCCCCEeCHHHcCCCCCCCEEECCCC-cCCEECHHHHhCCCCCCEEEeCCCCcC
Confidence            66654 68899999999999999987 556999999999999999 678888776889999999999988765

>2v70_A SLIT-2, SLIT homolog 2 protein N-product; neurogenesis, glycoprotein, secreted, chemotaxis, LRR structural protein, differentiation; HET: NAG; 3.01A {Homo sapiens}

Probab=99.40  E-value=1.2e-12  Score=131.33  Aligned_cols=127  Identities=19%  Similarity=0.196  Sum_probs=56.0

Q ss_pred             eEEEEecccccccccc---CCCCCccceEEccCCccccccchhhhcCCCccEEEccCCCccccCCccccccCCCCeEEcc
Q 048126          496 VRRMSLMKNKIENLSE---TPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLS  572 (863)
Q Consensus       496 lr~L~l~~~~~~~l~~---~~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~  572 (863)
                      ++.|++++|.+..++.   +..+++|++|++++|.++.+++..|.++++|++|+|++|.+.+..|..++.+++|++|+|+
T Consensus        34 ~~~L~L~~N~l~~~~~~~~~~~l~~L~~L~L~~N~i~~i~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls  113 (220)
T 2v70_A           34 TAELRLNNNEFTVLEATGIFKKLPQLRKINFSNNKITDIEEGAFEGASGVNEILLTSNRLENVQHKMFKGLESLKTLMLR  113 (220)
T ss_dssp             CSEEECCSSCCCEECCCCCGGGCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCCCCCGGGGTTCSSCCEEECT
T ss_pred             CCEEEcCCCcCCccCchhhhccCCCCCEEECCCCcCCEECHHHhCCCCCCCEEECCCCccCccCHhHhcCCcCCCEEECC
Confidence            3444444444444321   2344444444444444444444444444444444444443322223334444444444444


Q ss_pred             CCCcccc-chhhhcCCCCCEEecCCccccCCCcHHHhhcCCCCcEEEeeccc
Q 048126          573 GTAITHL-PIELQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRILKSN  623 (863)
Q Consensus       573 ~~~l~~l-p~~~~~l~~L~~L~l~~~~~l~~lp~~~~~~L~~L~~L~l~~~~  623 (863)
                      +|.++.+ |..+..+++|++|++++| .++.++...+..+++|++|++.+|.
T Consensus       114 ~N~l~~~~~~~~~~l~~L~~L~L~~N-~l~~~~~~~~~~l~~L~~L~L~~N~  164 (220)
T 2v70_A          114 SNRITCVGNDSFIGLSSVRLLSLYDN-QITTVAPGAFDTLHSLSTLNLLANP  164 (220)
T ss_dssp             TSCCCCBCTTSSTTCTTCSEEECTTS-CCCCBCTTTTTTCTTCCEEECCSCC
T ss_pred             CCcCCeECHhHcCCCccCCEEECCCC-cCCEECHHHhcCCCCCCEEEecCcC
Confidence            4444443 333444444444444444 3333322224444444444444443

>2v70_A SLIT-2, SLIT homolog 2 protein N-product; neurogenesis, glycoprotein, secreted, chemotaxis, LRR structural protein, differentiation; HET: NAG; 3.01A {Homo sapiens}

Probab=99.40  E-value=6.2e-13  Score=133.54  Aligned_cols=150  Identities=15%  Similarity=0.225  Sum_probs=125.2

Q ss_pred             EEEEeccccccccccCCCCCccceEEccCCcccccc-chhhhcCCCccEEEccCCCccccCCccccccCCCCeEEccCCC
Q 048126          497 RRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIA-GDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGTA  575 (863)
Q Consensus       497 r~L~l~~~~~~~l~~~~~~~~L~~L~l~~~~l~~~~-~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~~~  575 (863)
                      +.++++++.+..+|.. -.+.++.|++++|.++.++ ...|.++++|++|+|++|.+.+..|..+.++++|++|+|++|.
T Consensus        14 ~~l~~s~n~l~~iP~~-~~~~~~~L~L~~N~l~~~~~~~~~~~l~~L~~L~L~~N~i~~i~~~~~~~l~~L~~L~Ls~N~   92 (220)
T 2v70_A           14 TTVDCSNQKLNKIPEH-IPQYTAELRLNNNEFTVLEATGIFKKLPQLRKINFSNNKITDIEEGAFEGASGVNEILLTSNR   92 (220)
T ss_dssp             TEEECCSSCCSSCCSC-CCTTCSEEECCSSCCCEECCCCCGGGCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSC
T ss_pred             CEeEeCCCCcccCccC-CCCCCCEEEcCCCcCCccCchhhhccCCCCCEEECCCCcCCEECHHHhCCCCCCCEEECCCCc
Confidence            4788888988887652 3456899999999999884 4668999999999999996655556689999999999999999


Q ss_pred             ccccchh-hhcCCCCCEEecCCccccCCCcHHHhhcCCCCcEEEeeccccccCchhhHHHHHcCCccCceEEEEEcCh
Q 048126          576 ITHLPIE-LQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRILKSNVLFGGHQFLVEELMGMKHLMALTITLKSW  652 (863)
Q Consensus       576 l~~lp~~-~~~l~~L~~L~l~~~~~l~~lp~~~~~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~  652 (863)
                      ++.+|.. +..+++|++|++++| .+..++...+..+++|++|++.+|.+...    .+..+..+++|+.|+++.+.+
T Consensus        93 l~~~~~~~~~~l~~L~~L~Ls~N-~l~~~~~~~~~~l~~L~~L~L~~N~l~~~----~~~~~~~l~~L~~L~L~~N~l  165 (220)
T 2v70_A           93 LENVQHKMFKGLESLKTLMLRSN-RITCVGNDSFIGLSSVRLLSLYDNQITTV----APGAFDTLHSLSTLNLLANPF  165 (220)
T ss_dssp             CCCCCGGGGTTCSSCCEEECTTS-CCCCBCTTSSTTCTTCSEEECTTSCCCCB----CTTTTTTCTTCCEEECCSCCE
T ss_pred             cCccCHhHhcCCcCCCEEECCCC-cCCeECHhHcCCCccCCEEECCCCcCCEE----CHHHhcCCCCCCEEEecCcCC
Confidence            9988765 899999999999999 56777555588999999999999987642    345678899999999987764

>2o6s_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 1.50A {Eptatretus burgeri}

Probab=99.40  E-value=2.1e-12  Score=128.68  Aligned_cols=131  Identities=24%  Similarity=0.319  Sum_probs=89.1

Q ss_pred             cceEEEEecccccccccc--CCCCCccceEEccCCccccccchhhhcCCCccEEEccCCCccccCCccccccCCCCeEEc
Q 048126          494 RNVRRMSLMKNKIENLSE--TPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDL  571 (863)
Q Consensus       494 ~~lr~L~l~~~~~~~l~~--~~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L  571 (863)
                      ++++.|++++|.+..++.  +..+++|++|++++|.++.+++..|..+++|++|+|++|.+....+..++++++|++|++
T Consensus        28 ~~l~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L  107 (208)
T 2o6s_A           28 AQTTYLDLETNSLKSLPNGVFDELTSLTQLYLGGNKLQSLPNGVFNKLTSLTYLNLSTNQLQSLPNGVFDKLTQLKELAL  107 (208)
T ss_dssp             TTCSEEECCSSCCCCCCTTTTTTCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEEC
T ss_pred             CCCcEEEcCCCccCcCChhhhcccccCcEEECCCCccCccChhhcCCCCCcCEEECCCCcCCccCHhHhcCccCCCEEEc
Confidence            467777777777766544  456777777777777777777666677777777777777443333334567777777777


Q ss_pred             cCCCccccchh-hhcCCCCCEEecCCccccCCCcHHHhhcCCCCcEEEeeccccc
Q 048126          572 SGTAITHLPIE-LQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRILKSNVL  625 (863)
Q Consensus       572 ~~~~l~~lp~~-~~~l~~L~~L~l~~~~~l~~lp~~~~~~L~~L~~L~l~~~~~~  625 (863)
                      ++|.++.+|.. +.++++|++|++++| .+..+|...+..+++|++|++.+|...
T Consensus       108 ~~N~l~~~~~~~~~~l~~L~~L~l~~N-~l~~~~~~~~~~l~~L~~L~l~~N~~~  161 (208)
T 2o6s_A          108 NTNQLQSLPDGVFDKLTQLKDLRLYQN-QLKSVPDGVFDRLTSLQYIWLHDNPWD  161 (208)
T ss_dssp             CSSCCCCCCTTTTTTCTTCCEEECCSS-CCSCCCTTTTTTCTTCCEEECCSCCBC
T ss_pred             CCCcCcccCHhHhccCCcCCEEECCCC-ccceeCHHHhccCCCccEEEecCCCee
Confidence            77777766654 567777777777776 456666655666777777777766543

>2qby_B CDC6 homolog 3, cell division control protein 6 homolog 3; winged-helix domain, helix-turn-helix, AAA+ ATPase domain, protein-DNA complex; HET: DNA SPD ADP; 3.35A {Sulfolobus solfataricus}

Probab=99.40  E-value=2.1e-11  Score=134.03  Aligned_cols=292  Identities=11%  Similarity=-0.023  Sum_probs=178.4

Q ss_pred             CCccchhHHHHHHHHHhcC----CCccEEEEEcCCCCcHHHHHHHHHhhhcCC---CCC--CCEEEEEEeCCcc-CHHHH
Q 048126          126 EPTVGLESMFDKVWRCLGE----EQVGIIGLYGMGGVGKTTLLTKINNKLLGA---PND--FDVVIWVVVSKDL-QLEKI  195 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~----~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~---~~~--F~~~~wv~~s~~~-~~~~~  195 (863)
                      ..++||+.+++++.+++..    ...+.+.|+|++|+||||+|+.+++...+.   ...  ...++|+.++... +...+
T Consensus        20 ~~l~gr~~~~~~l~~~l~~~~~~~~~~~vll~G~~G~GKT~la~~l~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~   99 (384)
T 2qby_B           20 KEIPFREDILRDAAIAIRYFVKNEVKFSNLFLGLTGTGKTFVSKYIFNEIEEVKKEDEEYKDVKQAYVNCREVGGTPQAV   99 (384)
T ss_dssp             SSCTTCHHHHHHHHHHHHHHHTTCCCCEEEEEECTTSSHHHHHHHHHHHHHHHHHHSSSSTTCEEEEEEHHHHCSCHHHH
T ss_pred             CCCCChHHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHHHHHHHHHHHHhhhhcCCCCceEEEEECccCCCCHHHH
Confidence            5689999999999877753    446789999999999999999999875211   011  3357888887776 78888


Q ss_pred             HHHHHHHhCCCCccccCCChhHHHHHHHHHhccCcEEEEEeccCCccc---ccc-ccCCCCCCCCCcEEEEecCchhhh-
Q 048126          196 QEKIGRRIGFLDESWKNGSLEDKASDILRILSKKKFLLLLDDIWERVD---LTK-VGVPFPDPENKSKIVFTTRFLEIC-  270 (863)
Q Consensus       196 ~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~---~~~-~~~~l~~~~~gs~IivTtR~~~v~-  270 (863)
                      +..++.++..........+.......+.+.+..++.+|||||++....   .+. +...+... .+..||+||+..... 
T Consensus       100 ~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l~~~~~vlilDEi~~l~~~~~~~~~l~~l~~~~-~~~~iI~~t~~~~~~~  178 (384)
T 2qby_B          100 LSSLAGKLTGFSVPKHGINLGEYIDKIKNGTRNIRAIIYLDEVDTLVKRRGGDIVLYQLLRSD-ANISVIMISNDINVRD  178 (384)
T ss_dssp             HHHHHHHHHCSCCCSSSSCTHHHHHHHHHHHSSSCEEEEEETTHHHHHSTTSHHHHHHHHTSS-SCEEEEEECSSTTTTT
T ss_pred             HHHHHHHhcCCCCCCCCCCHHHHHHHHHHHhccCCCEEEEECHHHhccCCCCceeHHHHhcCC-cceEEEEEECCCchHh
Confidence            888888872211111233456677788888888777999999976421   111 11111111 578899999875321 


Q ss_pred             ---hcc--cccceEeecCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhC---Cchh-HHHHHHHH--hc---CC
Q 048126          271 ---GAM--KAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYA---GLPL-ALITIGRA--MT---CK  336 (863)
Q Consensus       271 ---~~~--~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~---glPl-ai~~~~~~--l~---~~  336 (863)
                         ...  .....+.+++++.++..++|...+...- ....--.+....+++.++   |.|. |+..+-.+  +.   ..
T Consensus       179 ~l~~~l~sr~~~~i~l~~l~~~~~~~il~~~~~~~~-~~~~~~~~~~~~i~~~~~~~~G~~r~a~~~l~~a~~~a~~~~~  257 (384)
T 2qby_B          179 YMEPRVLSSLGPSVIFKPYDAEQLKFILSKYAEYGL-IKGTYDDEILSYIAAISAKEHGDARKAVNLLFRAAQLASGGGI  257 (384)
T ss_dssp             TSCHHHHHTCCCEEEECCCCHHHHHHHHHHHHHHTS-CTTSCCSHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHTTSSSC
T ss_pred             hhCHHHHhcCCCeEEECCCCHHHHHHHHHHHHHhhc-ccCCcCHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHhcCCCc
Confidence               111  1123889999999999999998764210 011112456778888888   8887 33333322  22   12


Q ss_pred             CChhHHHHHHHHHHhcCCCCCCCcchhhhhhhhhcCCCCchhhHHHHhHhccCCCCccccHHhHHHHHHhcCCCCCcccc
Q 048126          337 KTTQEWHHAIQILRRSSSEFPGMGKEVYPLLKFSYDSLPDDTIRSCFLYCGLFPEDYRIRKSELIDCWIGEGFLDQYDRS  416 (863)
Q Consensus       337 ~~~~~w~~~l~~l~~~~~~~~~~~~~~~~~l~~sy~~L~~~~~k~cfl~~~~fp~~~~i~~~~li~~w~a~g~i~~~~~~  416 (863)
                      -+.+.+..+++....             ..+..++..|+. +.+..+..++....+-.+. +......-..| ..    .
T Consensus       258 i~~~~v~~~~~~~~~-------------~~~~~~~~~l~~-~~~~~l~al~~~~~~~~~~-~~~~~~~~~~g-~~----~  317 (384)
T 2qby_B          258 IRKEHVDKAIVDYEQ-------------ERLIEAVKALPF-HYKLALRSLIESEDVMSAH-KMYTDLCNKFK-QK----P  317 (384)
T ss_dssp             CCHHHHHHHHHHHHH-------------HHHHHHHHSSCH-HHHHHHHHHHTCCBHHHHH-HHHHHHHHHTT-CC----C
T ss_pred             cCHHHHHHHHHHHhc-------------chHHHHHHcCCH-HHHHHHHHHHHhcccChHH-HHHHHHHHHcC-CC----C
Confidence            466777776665432             234556778887 5555555455411100111 11111111222 11    1


Q ss_pred             hhhhhHHHHHHHHHHhccccccc
Q 048126          417 GAYNEGYYIIGILLHACLLEEEE  439 (863)
Q Consensus       417 ~~~~~~~~~~~~L~~~sll~~~~  439 (863)
                      ........+++.|...+++....
T Consensus       318 ~~~~~~~~~l~~L~~~gli~~~~  340 (384)
T 2qby_B          318 LSYRRFSDIISELDMFGIVKIRI  340 (384)
T ss_dssp             CCHHHHHHHHHHHHHTTSEEEEE
T ss_pred             CCHHHHHHHHHHHHhCCCEEEEe
Confidence            12355677899999999998753

>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}

Probab=99.38  E-value=1.1e-12  Score=132.70  Aligned_cols=149  Identities=20%  Similarity=0.282  Sum_probs=124.7

Q ss_pred             eEEEEeccccccccccCCCCCccceEEccCCccccccchhhhcCCCccEEEccCCCccccCC-ccccccCCCCeEEccCC
Q 048126          496 VRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLP-SGISTLVSLEHLDLSGT  574 (863)
Q Consensus       496 lr~L~l~~~~~~~l~~~~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~lp-~~i~~l~~L~~L~L~~~  574 (863)
                      .+.++.+++.+..+|.. -.++|++|++++|.+..+++..|.++++|++|+|++|.+ ..+| ..+..+++|++|+|++|
T Consensus        21 ~~~v~c~~~~l~~ip~~-~~~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~L~~N~l-~~i~~~~~~~l~~L~~L~Ls~N   98 (229)
T 3e6j_A           21 GTTVDCRSKRHASVPAG-IPTNAQILYLHDNQITKLEPGVFDSLINLKELYLGSNQL-GALPVGVFDSLTQLTVLDLGTN   98 (229)
T ss_dssp             TTEEECTTSCCSSCCSC-CCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCC-CCCCTTTTTTCTTCCEEECCSS
T ss_pred             CCEeEccCCCcCccCCC-CCCCCCEEEcCCCccCccCHHHhhCccCCcEEECCCCCC-CCcChhhcccCCCcCEEECCCC
Confidence            44577778888777653 348999999999999999888899999999999999954 5665 45789999999999999


Q ss_pred             Cccccchh-hhcCCCCCEEecCCccccCCCcHHHhhcCCCCcEEEeeccccccCchhhHHHHHcCCccCceEEEEEcCh
Q 048126          575 AITHLPIE-LQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRILKSNVLFGGHQFLVEELMGMKHLMALTITLKSW  652 (863)
Q Consensus       575 ~l~~lp~~-~~~l~~L~~L~l~~~~~l~~lp~~~~~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~  652 (863)
                      .++.+|.. +..+++|++|++++| .+..+|.. +..+++|++|++.+|.+...    ....+..+++|+.|++..+.+
T Consensus        99 ~l~~l~~~~~~~l~~L~~L~Ls~N-~l~~lp~~-~~~l~~L~~L~L~~N~l~~~----~~~~~~~l~~L~~L~l~~N~~  171 (229)
T 3e6j_A           99 QLTVLPSAVFDRLVHLKELFMCCN-KLTELPRG-IERLTHLTHLALDQNQLKSI----PHGAFDRLSSLTHAYLFGNPW  171 (229)
T ss_dssp             CCCCCCTTTTTTCTTCCEEECCSS-CCCSCCTT-GGGCTTCSEEECCSSCCCCC----CTTTTTTCTTCCEEECTTSCB
T ss_pred             cCCccChhHhCcchhhCeEeccCC-cccccCcc-cccCCCCCEEECCCCcCCcc----CHHHHhCCCCCCEEEeeCCCc
Confidence            99998766 689999999999999 67899987 78999999999999987632    224577888999999886654

>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

Probab=99.38  E-value=9.6e-13  Score=126.16  Aligned_cols=129  Identities=23%  Similarity=0.271  Sum_probs=96.2

Q ss_pred             cceEEEEecccccc--ccccC-CCCCccceEEccCCccccccchhhhcCCCccEEEccCCCccccCCccccccCCCCeEE
Q 048126          494 RNVRRMSLMKNKIE--NLSET-PTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLD  570 (863)
Q Consensus       494 ~~lr~L~l~~~~~~--~l~~~-~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~  570 (863)
                      ++++.|++++|.+.  .++.. ..+++|++|++++|.++.+  ..+..+++|++|++++|.+.+.+|..+.++++|++|+
T Consensus        24 ~~L~~L~l~~n~l~~~~i~~~~~~l~~L~~L~l~~n~l~~~--~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~  101 (168)
T 2ell_A           24 AAVRELVLDNCKSNDGKIEGLTAEFVNLEFLSLINVGLISV--SNLPKLPKLKKLELSENRIFGGLDMLAEKLPNLTHLN  101 (168)
T ss_dssp             TSCSEEECCSCBCBTTBCSSCCGGGGGCCEEEEESSCCCCC--SSCCCCSSCCEEEEESCCCCSCCCHHHHHCTTCCEEE
T ss_pred             ccCCEEECCCCCCChhhHHHHHHhCCCCCEEeCcCCCCCCh--hhhccCCCCCEEECcCCcCchHHHHHHhhCCCCCEEe
Confidence            46788888888776  56554 6778888888888877776  3477788888888888855554777777788888888


Q ss_pred             ccCCCccccc--hhhhcCCCCCEEecCCccccCCCcH---HHhhcCCCCcEEEeeccccc
Q 048126          571 LSGTAITHLP--IELQKLVNLKCLNLEYMYNLNQFPR---LVMSAFSKLQVLRILKSNVL  625 (863)
Q Consensus       571 L~~~~l~~lp--~~~~~l~~L~~L~l~~~~~l~~lp~---~~~~~L~~L~~L~l~~~~~~  625 (863)
                      +++|.++.+|  ..+..+++|++|++++| .+..+|.   ..+..+++|++|++.+|...
T Consensus       102 Ls~N~l~~~~~~~~l~~l~~L~~L~l~~N-~l~~~~~~~~~~~~~l~~L~~L~l~~n~~~  160 (168)
T 2ell_A          102 LSGNKLKDISTLEPLKKLECLKSLDLFNC-EVTNLNDYRESVFKLLPQLTYLDGYDREDQ  160 (168)
T ss_dssp             CBSSSCCSSGGGGGGSSCSCCCEEECCSS-GGGTSTTHHHHHHTTCSSCCEETTEETTSC
T ss_pred             ccCCccCcchhHHHHhcCCCCCEEEeeCC-cCcchHHHHHHHHHhCccCcEecCCCCChh
Confidence            8888888766  57788888888888887 4566665   34777888888887776543

>2je0_A Acidic leucine-rich nuclear phosphoprotein 32 FAM member A; nuclear protein; 2.40A {Homo sapiens} PDB: 2je1_A

Probab=99.37  E-value=1.2e-12  Score=122.77  Aligned_cols=124  Identities=24%  Similarity=0.266  Sum_probs=95.9

Q ss_pred             cceEEEEecccccc--ccccC-CCCCccceEEccCCccccccchhhhcCCCccEEEccCCCccccCCccccccCCCCeEE
Q 048126          494 RNVRRMSLMKNKIE--NLSET-PTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLD  570 (863)
Q Consensus       494 ~~lr~L~l~~~~~~--~l~~~-~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~  570 (863)
                      ++++.|++++|.+.  .++.. ..+++|++|++++|.++.+  ..+..+++|++|++++|.+.+.+|..++.+++|++|+
T Consensus        17 ~~l~~L~l~~n~l~~~~~~~~~~~l~~L~~L~l~~n~l~~~--~~~~~l~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~   94 (149)
T 2je0_A           17 SDVKELVLDNSRSNEGKLEGLTDEFEELEFLSTINVGLTSI--ANLPKLNKLKKLELSDNRVSGGLEVLAEKCPNLTHLN   94 (149)
T ss_dssp             GGCSEEECTTCBCBTTBCCSCCTTCTTCCEEECTTSCCCCC--TTCCCCTTCCEEECCSSCCCSCTHHHHHHCTTCCEEE
T ss_pred             ccCeEEEccCCcCChhHHHHHHhhcCCCcEEECcCCCCCCc--hhhhcCCCCCEEECCCCcccchHHHHhhhCCCCCEEE
Confidence            57888888888877  55544 7788888888888888777  4478888888888888865555777777788888888


Q ss_pred             ccCCCccccc--hhhhcCCCCCEEecCCccccCCCcH---HHhhcCCCCcEEEee
Q 048126          571 LSGTAITHLP--IELQKLVNLKCLNLEYMYNLNQFPR---LVMSAFSKLQVLRIL  620 (863)
Q Consensus       571 L~~~~l~~lp--~~~~~l~~L~~L~l~~~~~l~~lp~---~~~~~L~~L~~L~l~  620 (863)
                      +++|.++.+|  ..++.+++|++|++++| .+..+|.   ..++.+++|++|++.
T Consensus        95 ls~N~i~~~~~~~~~~~l~~L~~L~l~~N-~l~~~~~~~~~~~~~l~~L~~L~l~  148 (149)
T 2je0_A           95 LSGNKIKDLSTIEPLKKLENLKSLDLFNC-EVTNLNDYRENVFKLLPQLTYLDGY  148 (149)
T ss_dssp             CTTSCCCSHHHHGGGGGCTTCCEEECTTC-GGGGSTTHHHHHHHHCTTCCEETTB
T ss_pred             CCCCcCCChHHHHHHhhCCCCCEEeCcCC-cccchHHHHHHHHHHCCCcccccCC
Confidence            8888888765  67888888888888888 5566665   457778888888764

>2xot_A Amphoterin-induced protein 1; cell adhesion, neuronal protein, neurite growth regulation; HET: NAG BMA; 2.00A {Mus musculus}

Probab=99.37  E-value=1.7e-12  Score=141.21  Aligned_cols=170  Identities=24%  Similarity=0.286  Sum_probs=132.5

Q ss_pred             EEEcCCCcccCcccccccceEEEEecccccccccc--CC-CCCccceEEccCCccccccchhhhcCCCccEEEccCCCcc
Q 048126          477 LVHAGLGLTEAPEIQNWRNVRRMSLMKNKIENLSE--TP-TCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLL  553 (863)
Q Consensus       477 ~~~~~~~~~~~~~~~~~~~lr~L~l~~~~~~~l~~--~~-~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~  553 (863)
                      +...+..+..+|.. -...++.|++++|.+..++.  +. .+++|++|+|++|.+..+++..|.++++|++|+|++|.+.
T Consensus        23 l~c~~~~l~~iP~~-~~~~l~~L~Ls~N~l~~l~~~~~~~~l~~L~~L~L~~N~i~~i~~~~~~~l~~L~~L~Ls~N~l~  101 (361)
T 2xot_A           23 LSCSKQQLPNVPQS-LPSYTALLDLSHNNLSRLRAEWTPTRLTNLHSLLLSHNHLNFISSEAFVPVPNLRYLDLSSNHLH  101 (361)
T ss_dssp             EECCSSCCSSCCSS-CCTTCSEEECCSSCCCEECTTSSSSCCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCC
T ss_pred             EEeCCCCcCccCcc-CCCCCCEEECCCCCCCccChhhhhhcccccCEEECCCCcCCccChhhccCCCCCCEEECCCCcCC
Confidence            34444455555531 23468999999999988754  34 8899999999999999999888999999999999999655


Q ss_pred             ccCCccccccCCCCeEEccCCCcccc-chhhhcCCCCCEEecCCccccCCCcHHHh---hcCCCCcEEEeeccccccCch
Q 048126          554 WKLPSGISTLVSLEHLDLSGTAITHL-PIELQKLVNLKCLNLEYMYNLNQFPRLVM---SAFSKLQVLRILKSNVLFGGH  629 (863)
Q Consensus       554 ~~lp~~i~~l~~L~~L~L~~~~l~~l-p~~~~~l~~L~~L~l~~~~~l~~lp~~~~---~~L~~L~~L~l~~~~~~~~~~  629 (863)
                      ...+..+.++++|++|+|++|.|+.+ |..+..+++|++|+|++| .+..+|...+   ..+++|++|++.+|.+..-  
T Consensus       102 ~~~~~~~~~l~~L~~L~L~~N~i~~~~~~~~~~l~~L~~L~L~~N-~l~~l~~~~~~~~~~l~~L~~L~L~~N~l~~l--  178 (361)
T 2xot_A          102 TLDEFLFSDLQALEVLLLYNNHIVVVDRNAFEDMAQLQKLYLSQN-QISRFPVELIKDGNKLPKLMLLDLSSNKLKKL--  178 (361)
T ss_dssp             EECTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSS-CCCSCCGGGTC----CTTCCEEECCSSCCCCC--
T ss_pred             cCCHHHhCCCcCCCEEECCCCcccEECHHHhCCcccCCEEECCCC-cCCeeCHHHhcCcccCCcCCEEECCCCCCCcc--
Confidence            44556789999999999999999977 567999999999999998 7788988755   6799999999999887642  


Q ss_pred             hhHHHHHcCCcc--CceEEEEEcCh
Q 048126          630 QFLVEELMGMKH--LMALTITLKSW  652 (863)
Q Consensus       630 ~~~~~~l~~L~~--L~~L~l~~~~~  652 (863)
                        ....+..++.  |+.|++..|.+
T Consensus       179 --~~~~~~~l~~~~l~~l~l~~N~~  201 (361)
T 2xot_A          179 --PLTDLQKLPAWVKNGLYLHNNPL  201 (361)
T ss_dssp             --CHHHHHHSCHHHHTTEECCSSCE
T ss_pred             --CHHHhhhccHhhcceEEecCCCc
Confidence              3345556665  47788876654

>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

Probab=99.36  E-value=1.5e-12  Score=125.81  Aligned_cols=128  Identities=21%  Similarity=0.288  Sum_probs=70.2

Q ss_pred             cccceEEEEeccccccccccCCCCC-ccceEEccCCccccccchhhhcCCCccEEEccCCCccccCCccc-cccCCCCeE
Q 048126          492 NWRNVRRMSLMKNKIENLSETPTCP-HLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGI-STLVSLEHL  569 (863)
Q Consensus       492 ~~~~lr~L~l~~~~~~~l~~~~~~~-~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i-~~l~~L~~L  569 (863)
                      .+.+++.|++++|.+..++.+..+. +|++|++++|.++.+  ..+..+++|++|++++|.+ ..+|..+ +.+++|++|
T Consensus        17 ~~~~L~~L~l~~n~l~~i~~~~~~~~~L~~L~Ls~N~l~~~--~~l~~l~~L~~L~Ls~N~l-~~~~~~~~~~l~~L~~L   93 (176)
T 1a9n_A           17 NAVRDRELDLRGYKIPVIENLGATLDQFDAIDFSDNEIRKL--DGFPLLRRLKTLLVNNNRI-CRIGEGLDQALPDLTEL   93 (176)
T ss_dssp             CTTSCEEEECTTSCCCSCCCGGGGTTCCSEEECCSSCCCEE--CCCCCCSSCCEEECCSSCC-CEECSCHHHHCTTCCEE
T ss_pred             CcCCceEEEeeCCCCchhHHhhhcCCCCCEEECCCCCCCcc--cccccCCCCCEEECCCCcc-cccCcchhhcCCCCCEE
Confidence            3445666666666665554444433 666666666665555  2255566666666666633 3344333 566666666


Q ss_pred             EccCCCccccch--hhhcCCCCCEEecCCccccCCCcHH---HhhcCCCCcEEEeeccc
Q 048126          570 DLSGTAITHLPI--ELQKLVNLKCLNLEYMYNLNQFPRL---VMSAFSKLQVLRILKSN  623 (863)
Q Consensus       570 ~L~~~~l~~lp~--~~~~l~~L~~L~l~~~~~l~~lp~~---~~~~L~~L~~L~l~~~~  623 (863)
                      ++++|.++.+|.  .+..+++|++|++++| .+..+|..   ++..+++|+.|++..+.
T Consensus        94 ~L~~N~i~~~~~~~~l~~l~~L~~L~l~~N-~i~~~~~~~~~~~~~l~~L~~Ld~~~n~  151 (176)
T 1a9n_A           94 ILTNNSLVELGDLDPLASLKSLTYLCILRN-PVTNKKHYRLYVIYKVPQVRVLDFQKVK  151 (176)
T ss_dssp             ECCSCCCCCGGGGGGGGGCTTCCEEECCSS-GGGGSTTHHHHHHHHCTTCSEETTEECC
T ss_pred             ECCCCcCCcchhhHhhhcCCCCCEEEecCC-CCCCcHhHHHHHHHHCCccceeCCCcCC
Confidence            666666665555  5556666666666665 33444442   34555555555555443

>2v1u_A Cell division control protein 6 homolog; DNA replication, nucleotide-binding, replication, archaea; HET: ADP; 3.10A {Aeropyrum pernix}

Probab=99.36  E-value=1.5e-11  Score=135.33  Aligned_cols=290  Identities=14%  Similarity=0.065  Sum_probs=177.6

Q ss_pred             CCccchhHHHHHHHHHhcC----CCccEEEEEcCCCCcHHHHHHHHHhhhcCCC---CCCCEEEEEEeCCccCHHHHHHH
Q 048126          126 EPTVGLESMFDKVWRCLGE----EQVGIIGLYGMGGVGKTTLLTKINNKLLGAP---NDFDVVIWVVVSKDLQLEKIQEK  198 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~----~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~---~~F~~~~wv~~s~~~~~~~~~~~  198 (863)
                      +.++||+.+++++.+++..    ...+.+.|+|++|+||||+|+.+++......   ..-...+|+.+....+...++..
T Consensus        19 ~~~~gr~~~~~~l~~~l~~~~~~~~~~~vll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~   98 (387)
T 2v1u_A           19 DVLPHREAELRRLAEVLAPALRGEKPSNALLYGLTGTGKTAVARLVLRRLEARASSLGVLVKPIYVNARHRETPYRVASA   98 (387)
T ss_dssp             SCCTTCHHHHHHHHHTTGGGTSSCCCCCEEECBCTTSSHHHHHHHHHHHHHHHHHHHTCCEEEEEEETTTSCSHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHHHHHHHHHHHHHhccCCCeEEEEEECCcCCCHHHHHHH
Confidence            5689999999999998843    4567899999999999999999998762100   00124678888888888899999


Q ss_pred             HHHHhCCCCccccCCChhHHHHHHHHHhc--cCcEEEEEeccCCcccc----ccc---cCCCCCC--CCCcEEEEecCch
Q 048126          199 IGRRIGFLDESWKNGSLEDKASDILRILS--KKKFLLLLDDIWERVDL----TKV---GVPFPDP--ENKSKIVFTTRFL  267 (863)
Q Consensus       199 i~~~l~~~~~~~~~~~~~~~~~~l~~~l~--~kr~LlVlDdv~~~~~~----~~~---~~~l~~~--~~gs~IivTtR~~  267 (863)
                      ++.+++...+. ...+..+....+.+.+.  +++.+|||||++.....    +.+   .......  ..+..+|.||+..
T Consensus        99 l~~~l~~~~~~-~~~~~~~~~~~l~~~l~~~~~~~vlilDEi~~l~~~~~~~~~l~~l~~~~~~~~~~~~~~~I~~t~~~  177 (387)
T 2v1u_A           99 IAEAVGVRVPF-TGLSVGEVYERLVKRLSRLRGIYIIVLDEIDFLPKRPGGQDLLYRITRINQELGDRVWVSLVGITNSL  177 (387)
T ss_dssp             HHHHHSCCCCS-SCCCHHHHHHHHHHHHTTSCSEEEEEEETTTHHHHSTTHHHHHHHHHHGGGCC-----CEEEEECSCS
T ss_pred             HHHHhCCCCCC-CCCCHHHHHHHHHHHHhccCCeEEEEEccHhhhcccCCCChHHHhHhhchhhcCCCceEEEEEEECCC
Confidence            99999764321 23345566677777764  46889999999764221    111   1111111  3456777777765


Q ss_pred             hh--------hhcccccceEeecCCChHHHHHHHHHHhcc--cccCCCCChHHHHHHHHHHhC---CchhHH-HHHHHHh
Q 048126          268 EI--------CGAMKAHEFLKVECLGPEDAWRLFRENLRR--DVLDNHPDIPELARSVAKEYA---GLPLAL-ITIGRAM  333 (863)
Q Consensus       268 ~v--------~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~--~~~~~~~~~~~~~~~i~~~c~---glPlai-~~~~~~l  333 (863)
                      ..        ...+. ...+.+++++.++..+++...+..  .....+   .+....+++.++   |.|..+ ..+..+.
T Consensus       178 ~~~~~l~~~l~~r~~-~~~i~l~~l~~~~~~~il~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~G~~r~~~~~l~~a~  253 (387)
T 2v1u_A          178 GFVENLEPRVKSSLG-EVELVFPPYTAPQLRDILETRAEEAFNPGVLD---PDVVPLCAALAAREHGDARRALDLLRVAG  253 (387)
T ss_dssp             TTSSSSCHHHHTTTT-SEECCBCCCCHHHHHHHHHHHHHHHBCTTTBC---SSHHHHHHHHHHSSSCCHHHHHHHHHHHH
T ss_pred             chHhhhCHHHHhcCC-CeEEeeCCCCHHHHHHHHHHHHHhhccCCCCC---HHHHHHHHHHHHHhccCHHHHHHHHHHHH
Confidence            32        12111 146889999999999999987643  111112   235677888888   999433 3322221


Q ss_pred             c-----C--CCChhHHHHHHHHHHhcCCCCCCCcchhhhhhhhhcCCCCchhhHHHHhHhc-cCCCCccccHHhHHHHH-
Q 048126          334 T-----C--KKTTQEWHHAIQILRRSSSEFPGMGKEVYPLLKFSYDSLPDDTIRSCFLYCG-LFPEDYRIRKSELIDCW-  404 (863)
Q Consensus       334 ~-----~--~~~~~~w~~~l~~l~~~~~~~~~~~~~~~~~l~~sy~~L~~~~~k~cfl~~~-~fp~~~~i~~~~li~~w-  404 (863)
                      .     +  .-+.+.+..+++....             ..+.-++..|+. +.+..++..+ .+-....+....+.+.. 
T Consensus       254 ~~a~~~~~~~i~~~~v~~a~~~~~~-------------~~~~~~~~~l~~-~~~~~l~a~~~~~~~~~~~~~~~~~~~~~  319 (387)
T 2v1u_A          254 EIAERRREERVRREHVYSARAEIER-------------DRVSEVVRTLPL-HAKLVLLSIMMLEDGGRPASTGEIYERYK  319 (387)
T ss_dssp             HHHHHTTCSCBCHHHHHHHHHHHHH-------------HHHHHHHHSSCH-HHHHHHHHHHHHSSSSCCEEHHHHHHHHH
T ss_pred             HHHHHcCCCCcCHHHHHHHHHHHhh-------------chHHHHHHcCCH-HHHHHHHHHHHHhcCCCCCcHHHHHHHHH
Confidence            1     1  1355666666554422             234456678887 5555544444 33222234444333322 


Q ss_pred             ---HhcCCCCCcccchhhhhHHHHHHHHHHhccccccc
Q 048126          405 ---IGEGFLDQYDRSGAYNEGYYIIGILLHACLLEEEE  439 (863)
Q Consensus       405 ---~a~g~i~~~~~~~~~~~~~~~~~~L~~~sll~~~~  439 (863)
                         -..| ..    .-....+..+++.|...++++...
T Consensus       320 ~~~~~~~-~~----~~~~~~~~~~l~~L~~~gli~~~~  352 (387)
T 2v1u_A          320 ELTSTLG-LE----HVTLRRVSGIISELDMLGIVKSRV  352 (387)
T ss_dssp             HHHHHTT-CC----CCCHHHHHHHHHHHHHTTSEEEEE
T ss_pred             HHHHhcC-CC----CCCHHHHHHHHHHHHhCCCeEEEe
Confidence               1223 11    122356678899999999998753

>2o6s_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 1.50A {Eptatretus burgeri}

Probab=99.35  E-value=2.6e-12  Score=127.92  Aligned_cols=147  Identities=22%  Similarity=0.222  Sum_probs=117.6

Q ss_pred             EEEeccccccccccCCCCCccceEEccCCccccccchhhhcCCCccEEEccCCCccccCCccccccCCCCeEEccCCCcc
Q 048126          498 RMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAIT  577 (863)
Q Consensus       498 ~L~l~~~~~~~l~~~~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~~~l~  577 (863)
                      .++..++.+..+|. ...++|++|++++|.++.+++..|.++++|++|++++|.+....+..+..+++|++|++++|.++
T Consensus        11 ~v~c~~~~l~~~p~-~~~~~l~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~   89 (208)
T 2o6s_A           11 TVECYSQGRTSVPT-GIPAQTTYLDLETNSLKSLPNGVFDELTSLTQLYLGGNKLQSLPNGVFNKLTSLTYLNLSTNQLQ   89 (208)
T ss_dssp             EEECCSSCCSSCCS-CCCTTCSEEECCSSCCCCCCTTTTTTCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCC
T ss_pred             EEEecCCCccCCCC-CCCCCCcEEEcCCCccCcCChhhhcccccCcEEECCCCccCccChhhcCCCCCcCEEECCCCcCC
Confidence            45566666666653 33578999999999999999888999999999999999555333445789999999999999999


Q ss_pred             ccchh-hhcCCCCCEEecCCccccCCCcHHHhhcCCCCcEEEeeccccccCchhhHHHHHcCCccCceEEEEEc
Q 048126          578 HLPIE-LQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRILKSNVLFGGHQFLVEELMGMKHLMALTITLK  650 (863)
Q Consensus       578 ~lp~~-~~~l~~L~~L~l~~~~~l~~lp~~~~~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~  650 (863)
                      .+|.. +..+++|++|++++| .+..+|...+..+++|++|++.+|.+...    ....+..+++|+.|+++.+
T Consensus        90 ~~~~~~~~~l~~L~~L~L~~N-~l~~~~~~~~~~l~~L~~L~l~~N~l~~~----~~~~~~~l~~L~~L~l~~N  158 (208)
T 2o6s_A           90 SLPNGVFDKLTQLKELALNTN-QLQSLPDGVFDKLTQLKDLRLYQNQLKSV----PDGVFDRLTSLQYIWLHDN  158 (208)
T ss_dssp             CCCTTTTTTCTTCCEEECCSS-CCCCCCTTTTTTCTTCCEEECCSSCCSCC----CTTTTTTCTTCCEEECCSC
T ss_pred             ccCHhHhcCccCCCEEEcCCC-cCcccCHhHhccCCcCCEEECCCCcccee----CHHHhccCCCccEEEecCC
Confidence            88865 689999999999998 67888877678999999999999876532    2223566777777777655

>1xeu_A Internalin C; cellular invasion, leucine-rich repeat, cell invasion; 2.05A {Listeria monocytogenes}

Probab=99.35  E-value=2.3e-13  Score=140.83  Aligned_cols=168  Identities=18%  Similarity=0.209  Sum_probs=125.7

Q ss_pred             ccceEEEEeccccccccccCCCCCccceEEccCCccccccchhhhcCCCccEEEccCCCccccCCccccccCCCCeEEcc
Q 048126          493 WRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLS  572 (863)
Q Consensus       493 ~~~lr~L~l~~~~~~~l~~~~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~  572 (863)
                      +.++..+++..+.+..++.+..+++|++|++++|.++.++  .+..+++|++|+|++| .+..+|. ++++++|++|+++
T Consensus        18 l~~l~~l~l~~~~i~~~~~~~~l~~L~~L~l~~n~i~~l~--~l~~l~~L~~L~L~~N-~i~~~~~-l~~l~~L~~L~L~   93 (263)
T 1xeu_A           18 LANAVKQNLGKQSVTDLVSQKELSGVQNFNGDNSNIQSLA--GMQFFTNLKELHLSHN-QISDLSP-LKDLTKLEELSVN   93 (263)
T ss_dssp             HHHHHHHHHTCSCTTSEECHHHHTTCSEEECTTSCCCCCT--TGGGCTTCCEEECCSS-CCCCCGG-GTTCSSCCEEECC
T ss_pred             HHHHHHHHhcCCCcccccchhhcCcCcEEECcCCCcccch--HHhhCCCCCEEECCCC-ccCCChh-hccCCCCCEEECC
Confidence            4456666777788877777788899999999999888887  3788999999999999 4556665 8899999999999


Q ss_pred             CCCccccchhhhcCCCCCEEecCCccccCCCcHHHhhcCCCCcEEEeeccccccCchhhHHHHHcCCccCceEEEEEcCh
Q 048126          573 GTAITHLPIELQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRILKSNVLFGGHQFLVEELMGMKHLMALTITLKSW  652 (863)
Q Consensus       573 ~~~l~~lp~~~~~l~~L~~L~l~~~~~l~~lp~~~~~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~  652 (863)
                      +|.++.+|....  ++|++|++++| .++.+|.  ++.+++|++|++.+|.+...      ..+..+++|+.|+++.+..
T Consensus        94 ~N~l~~l~~~~~--~~L~~L~L~~N-~l~~~~~--l~~l~~L~~L~Ls~N~i~~~------~~l~~l~~L~~L~L~~N~i  162 (263)
T 1xeu_A           94 RNRLKNLNGIPS--ACLSRLFLDNN-ELRDTDS--LIHLKNLEILSIRNNKLKSI------VMLGFLSKLEVLDLHGNEI  162 (263)
T ss_dssp             SSCCSCCTTCCC--SSCCEEECCSS-CCSBSGG--GTTCTTCCEEECTTSCCCBC------GGGGGCTTCCEEECTTSCC
T ss_pred             CCccCCcCcccc--CcccEEEccCC-ccCCChh--hcCcccccEEECCCCcCCCC------hHHccCCCCCEEECCCCcC
Confidence            999988875443  89999999998 6677764  78899999999988876532      2456666666666654332


Q ss_pred             HHHHHHhhhhhhhhcceeeeeccccCCCcccccchhhcCCCceEEEcCCccc
Q 048126          653 EALQELLISQELQRCTQSLFLRCFNDSKSLDIFCLACLHNLNKLYVAGRKHL  704 (863)
Q Consensus       653 ~~~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~  704 (863)
                      .                           ..  ..+..+++|+.|++++|...
T Consensus       163 ~---------------------------~~--~~l~~l~~L~~L~l~~N~~~  185 (263)
T 1xeu_A          163 T---------------------------NT--GGLTRLKKVNWIDLTGQKCV  185 (263)
T ss_dssp             C---------------------------BC--TTSTTCCCCCEEEEEEEEEE
T ss_pred             c---------------------------ch--HHhccCCCCCEEeCCCCccc
Confidence            1                           11  23566788888888887543

>1fnn_A CDC6P, cell division control protein 6; ORC1, AAA protein, DNA replication initation factor, cell cycle control factor; HET: ADP; 2.00A {Pyrobaculum aerophilum} SCOP: a.4.5.11 c.37.1.20

Probab=99.32  E-value=1.1e-10  Score=128.34  Aligned_cols=290  Identities=11%  Similarity=0.063  Sum_probs=178.5

Q ss_pred             CCccchhHHHHHHHHHhcC----CCcc--EEEEEcCCCCcHHHHHHHHHhhhcCCCCC-CCEEEEEEeCCccCHHHHHHH
Q 048126          126 EPTVGLESMFDKVWRCLGE----EQVG--IIGLYGMGGVGKTTLLTKINNKLLGAPND-FDVVIWVVVSKDLQLEKIQEK  198 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~----~~~~--vi~I~G~gGiGKTtLa~~v~~~~~~~~~~-F~~~~wv~~s~~~~~~~~~~~  198 (863)
                      +.++||+.+++++.+++..    ....  .+.|+|++|+||||+|+.+++..   ... -..++|+.++...+...+...
T Consensus        17 ~~l~gr~~~~~~l~~~l~~~~~~~~~~~~~~li~G~~G~GKTtl~~~l~~~~---~~~~~~~~~~i~~~~~~~~~~~~~~   93 (389)
T 1fnn_A           17 KRLPHREQQLQQLDILLGNWLRNPGHHYPRATLLGRPGTGKTVTLRKLWELY---KDKTTARFVYINGFIYRNFTAIIGE   93 (389)
T ss_dssp             SCCTTCHHHHHHHHHHHHHHHHSTTSSCCEEEEECCTTSSHHHHHHHHHHHH---TTSCCCEEEEEETTTCCSHHHHHHH
T ss_pred             CCCCChHHHHHHHHHHHHHHHcCCCCCCCeEEEECCCCCCHHHHHHHHHHHH---hhhcCeeEEEEeCccCCCHHHHHHH
Confidence            5689999999999998864    3334  89999999999999999999987   222 135678888888888899999


Q ss_pred             HHHHhCCCCccccCCChhHHHHHHHHHhc--cCcEEEEEeccCCcc--ccccccCCCCC-CC---CCcEEEEecCchhhh
Q 048126          199 IGRRIGFLDESWKNGSLEDKASDILRILS--KKKFLLLLDDIWERV--DLTKVGVPFPD-PE---NKSKIVFTTRFLEIC  270 (863)
Q Consensus       199 i~~~l~~~~~~~~~~~~~~~~~~l~~~l~--~kr~LlVlDdv~~~~--~~~~~~~~l~~-~~---~gs~IivTtR~~~v~  270 (863)
                      ++..++...+. ...+..+....+.+.+.  +++.+||||+++...  ....+...+.. ..   .+..||++|+.....
T Consensus        94 l~~~l~~~~~~-~~~~~~~~~~~l~~~l~~~~~~~vlilDE~~~l~~~~~~~L~~~~~~~~~~~~~~~~iI~~~~~~~~~  172 (389)
T 1fnn_A           94 IARSLNIPFPR-RGLSRDEFLALLVEHLRERDLYMFLVLDDAFNLAPDILSTFIRLGQEADKLGAFRIALVIVGHNDAVL  172 (389)
T ss_dssp             HHHHTTCCCCS-SCCCHHHHHHHHHHHHHHTTCCEEEEEETGGGSCHHHHHHHHHHTTCHHHHSSCCEEEEEEESSTHHH
T ss_pred             HHHHhCccCCC-CCCCHHHHHHHHHHHHhhcCCeEEEEEECccccchHHHHHHHHHHHhCCCCCcCCEEEEEEECCchHH
Confidence            99988754321 22345556666666664  568899999997642  22233222211 11   366788888766432


Q ss_pred             hccc-------ccceEeecCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHh---------CCchhHHHHHHHHhc
Q 048126          271 GAMK-------AHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEY---------AGLPLALITIGRAMT  334 (863)
Q Consensus       271 ~~~~-------~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c---------~glPlai~~~~~~l~  334 (863)
                      ....       ....+.+++++.++..+++...+.... ....--.+....|++.+         +|.|..+..+.....
T Consensus       173 ~~l~~~~~~r~~~~~i~~~pl~~~~~~~~l~~~~~~~~-~~~~~~~~~~~~l~~~~~~~~~~~~~~G~~r~~~~~l~~a~  251 (389)
T 1fnn_A          173 NNLDPSTRGIMGKYVIRFSPYTKDQIFDILLDRAKAGL-AEGSYSEDILQMIADITGAQTPLDTNRGDARLAIDILYRSA  251 (389)
T ss_dssp             HTSCHHHHHHHTTCEEECCCCBHHHHHHHHHHHHHHHB-CTTSSCHHHHHHHHHHHSBSSTTCTTSCCHHHHHHHHHHHH
T ss_pred             HHhCHHhhhcCCCceEEeCCCCHHHHHHHHHHHHHhhc-CCCCCCHHHHHHHHHHHhhcccCCCCCCcHHHHHHHHHHHH
Confidence            2221       123689999999999999998765311 01122356788899999         788765544433221


Q ss_pred             ------CC--CChhHHHHHHHHHHhcCCCCCCCcchhhhhhhhhcCCCCchhhHHHHhHhccCC---CCccccHHhHHHH
Q 048126          335 ------CK--KTTQEWHHAIQILRRSSSEFPGMGKEVYPLLKFSYDSLPDDTIRSCFLYCGLFP---EDYRIRKSELIDC  403 (863)
Q Consensus       335 ------~~--~~~~~w~~~l~~l~~~~~~~~~~~~~~~~~l~~sy~~L~~~~~k~cfl~~~~fp---~~~~i~~~~li~~  403 (863)
                            +.  -+.+....+.....             ...+.-.+..|+. +.+.++..++.+.   .+..+....+...
T Consensus       252 ~~a~~~~~~~i~~~~v~~~~~~~~-------------~~~~~~~l~~l~~-~~~~~L~~l~~~~~~~~~~~~~~~~i~~~  317 (389)
T 1fnn_A          252 YAAQQNGRKHIAPEDVRKSSKEVL-------------FGISEEVLIGLPL-HEKLFLLAIVRSLKISHTPYITFGDAEES  317 (389)
T ss_dssp             HHHHHTTCSSCCHHHHHHHHHHHS-------------CCCCHHHHHHSCH-HHHHHHHHHHHHHHHHCSSCEEHHHHHHH
T ss_pred             HHHHHhCCCCcCHHHHHHHHHHHh-------------hhhHHHHHHcCCH-HHHHHHHHHHHHHhhccCCCccHHHHHHH
Confidence                  11  22233333322211             1112223456776 5666665565443   2214455555544


Q ss_pred             HHh----cCCCCCcccchhhhhHHHHHHHHHHhccccccc
Q 048126          404 WIG----EGFLDQYDRSGAYNEGYYIIGILLHACLLEEEE  439 (863)
Q Consensus       404 w~a----~g~i~~~~~~~~~~~~~~~~~~L~~~sll~~~~  439 (863)
                      +-.    .|. .+    -.......++++|...+++....
T Consensus       318 ~~~~~~~~~~-~~----~~~~~~~~~l~~L~~~gli~~~~  352 (389)
T 1fnn_A          318 YKIVCEEYGE-RP----RVHSQLWSYLNDLREKGIVETRQ  352 (389)
T ss_dssp             HHHHHHHTTC-CC----CCHHHHHHHHHHHHHTTSSEEEE
T ss_pred             HHHHHHHcCC-CC----CCHHHHHHHHHHHHhCCCeEEee
Confidence            332    221 11    12345667899999999998754

>2qby_A CDC6 homolog 1, cell division control protein 6 homolog 1; winged-helix domain, helix-turn-helix, AAA+ ATPase domain, protein-DNA complex; HET: DNA SPD ADP; 3.35A {Sulfolobus solfataricus}

Probab=99.32  E-value=1.6e-11  Score=135.14  Aligned_cols=292  Identities=13%  Similarity=0.065  Sum_probs=173.6

Q ss_pred             CCccchhHHHHHHHHHhcC----CCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHHH
Q 048126          126 EPTVGLESMFDKVWRCLGE----EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGR  201 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~----~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~  201 (863)
                      ..++||+.+++.+.+++..    ...+.+.|+|++|+||||||+.+++........-..++|+.+....+...+...++.
T Consensus        20 ~~~~gr~~e~~~l~~~l~~~~~~~~~~~vli~G~~G~GKTtl~~~l~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~i~~   99 (386)
T 2qby_A           20 DELPHREDQIRKIASILAPLYREEKPNNIFIYGLTGTGKTAVVKFVLSKLHKKFLGKFKHVYINTRQIDTPYRVLADLLE   99 (386)
T ss_dssp             SCCTTCHHHHHHHHHSSGGGGGTCCCCCEEEEECTTSSHHHHHHHHHHHHHHHTCSSCEEEEEEHHHHCSHHHHHHHHTT
T ss_pred             CCCCChHHHHHHHHHHHHHHHcCCCCCeEEEECCCCCCHHHHHHHHHHHHHHHhcCCceEEEEECCCCCCHHHHHHHHHH
Confidence            5689999999999998863    456789999999999999999999876211000235678887777777888888888


Q ss_pred             HhCCCCccccCCChhHHHHHHHHHhc--cCcEEEEEeccCCcc------ccccccCCCCC-CCCCcEEEEecCchhhhhc
Q 048126          202 RIGFLDESWKNGSLEDKASDILRILS--KKKFLLLLDDIWERV------DLTKVGVPFPD-PENKSKIVFTTRFLEICGA  272 (863)
Q Consensus       202 ~l~~~~~~~~~~~~~~~~~~l~~~l~--~kr~LlVlDdv~~~~------~~~~~~~~l~~-~~~gs~IivTtR~~~v~~~  272 (863)
                      +++..... ...+..+....+.+.+.  +++.+||+|+++...      .+..+...+.. ...+..+|+||+.......
T Consensus       100 ~l~~~~~~-~~~~~~~~~~~l~~~l~~~~~~~vlilDE~~~l~~~~~~~~l~~l~~~~~~~~~~~~~~I~~~~~~~~~~~  178 (386)
T 2qby_A          100 SLDVKVPF-TGLSIAELYRRLVKAVRDYGSQVVIVLDEIDAFVKKYNDDILYKLSRINSEVNKSKISFIGITNDVKFVDL  178 (386)
T ss_dssp             TTSCCCCS-SSCCHHHHHHHHHHHHHTCCSCEEEEEETHHHHHHSSCSTHHHHHHHHHHSCCC--EEEEEEESCGGGGGG
T ss_pred             HhCCCCCC-CCCCHHHHHHHHHHHHhccCCeEEEEEcChhhhhccCcCHHHHHHhhchhhcCCCeEEEEEEECCCChHhh
Confidence            87654321 22345555666666665  348999999997532      12222111110 2345667888876543222


Q ss_pred             cc-------ccceEeecCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhC---CchhHHHHHHHHh-c-----C-
Q 048126          273 MK-------AHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYA---GLPLALITIGRAM-T-----C-  335 (863)
Q Consensus       273 ~~-------~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~---glPlai~~~~~~l-~-----~-  335 (863)
                      +.       ....+.+++++.++..+++.+.+.... ....-..+....+++.++   |.|..+..+.... .     + 
T Consensus       179 ~~~~~~~r~~~~~i~l~~l~~~~~~~il~~~~~~~~-~~~~~~~~~~~~l~~~~~~~~G~~r~~~~ll~~a~~~a~~~~~  257 (386)
T 2qby_A          179 LDPRVKSSLSEEEIIFPPYNAEELEDILTKRAQMAF-KPGVLPDNVIKLCAALAAREHGDARRALDLLRVSGEIAERMKD  257 (386)
T ss_dssp             CTTHHHHTTTTEEEEECCCCHHHHHHHHHHHHHHHB-CSSCSCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTC
T ss_pred             hCHHHhccCCCeeEEeCCCCHHHHHHHHHHHHHhhc-cCCCCCHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHhcCC
Confidence            11       114789999999999999998654211 111223566778888888   9998544333221 1     1 


Q ss_pred             -CCChhHHHHHHHHHHhcCCCCCCCcchhhhhhhhhcCCCCchhhHHHHhHhccCCC-C-ccccHHhHHHHH--Hh--cC
Q 048126          336 -KKTTQEWHHAIQILRRSSSEFPGMGKEVYPLLKFSYDSLPDDTIRSCFLYCGLFPE-D-YRIRKSELIDCW--IG--EG  408 (863)
Q Consensus       336 -~~~~~~w~~~l~~l~~~~~~~~~~~~~~~~~l~~sy~~L~~~~~k~cfl~~~~fp~-~-~~i~~~~li~~w--~a--~g  408 (863)
                       .-+.+.+..+++...             ...+.-++..+|. +.+..+..++.+-+ + -.+....+.+..  ++  .|
T Consensus       258 ~~i~~~~v~~a~~~~~-------------~~~~~~~~~~l~~-~~~~il~ai~~~~~~g~~~~~~~~l~~~~~~~~~~~g  323 (386)
T 2qby_A          258 TKVKEEYVYMAKEEIE-------------RDRVRDIILTLPF-HSKLVLMAVVSISSEENVVSTTGAVYETYLNICKKLG  323 (386)
T ss_dssp             SSCCHHHHHHHHHHHH-------------HHHHHHHHHTSCH-HHHHHHHHHHHHC-----CEEHHHHHHHHHHHHHHHT
T ss_pred             CccCHHHHHHHHHHHh-------------hchHHHHHHcCCH-HHHHHHHHHHHHHhcCCCceeHHHHHHHHHHHHHhcC
Confidence             134555555554432             1234455667776 55555544442211 1 123333232211  11  12


Q ss_pred             CCCCcccchhhhhHHHHHHHHHHhcccccc
Q 048126          409 FLDQYDRSGAYNEGYYIIGILLHACLLEEE  438 (863)
Q Consensus       409 ~i~~~~~~~~~~~~~~~~~~L~~~sll~~~  438 (863)
                       +.+    -.......+++.|...++++..
T Consensus       324 -~~~----~~~~~~~~~l~~L~~~gli~~~  348 (386)
T 2qby_A          324 -VEA----VTQRRVSDIINELDMVGILTAK  348 (386)
T ss_dssp             -CCC----CCHHHHHHHHHHHHHHTSEEEE
T ss_pred             -CCC----CCHHHHHHHHHHHHhCCCEEEE
Confidence             111    1124466789999999999765

>3cvr_A Invasion plasmid antigen; leucine rich repeat and alpha fold, ligase; 2.80A {Shigella flexneri 2A}

Probab=99.31  E-value=1.1e-11  Score=141.40  Aligned_cols=113  Identities=24%  Similarity=0.408  Sum_probs=70.2

Q ss_pred             ceEEEEeccccccccccCCCCCccceEEccCCccccccchhhhcCCCccEEEccCCCccccCCccccccCCCCeEEccCC
Q 048126          495 NVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGT  574 (863)
Q Consensus       495 ~lr~L~l~~~~~~~l~~~~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~~  574 (863)
                      +++.|++++|.+..+|... +++|++|++++|.++.+|    ..+++|++|+|++|.+ ..+|. +++  +|++|++++|
T Consensus        60 ~L~~L~Ls~n~L~~lp~~l-~~~L~~L~Ls~N~l~~ip----~~l~~L~~L~Ls~N~l-~~ip~-l~~--~L~~L~Ls~N  130 (571)
T 3cvr_A           60 QFSELQLNRLNLSSLPDNL-PPQITVLEITQNALISLP----ELPASLEYLDACDNRL-STLPE-LPA--SLKHLDVDNN  130 (571)
T ss_dssp             TCSEEECCSSCCSCCCSCC-CTTCSEEECCSSCCSCCC----CCCTTCCEEECCSSCC-SCCCC-CCT--TCCEEECCSS
T ss_pred             CccEEEeCCCCCCccCHhH-cCCCCEEECcCCCCcccc----cccCCCCEEEccCCCC-CCcch-hhc--CCCEEECCCC
Confidence            5667777777666655422 366777777777666666    2356677777777733 34665 544  6777777777


Q ss_pred             CccccchhhhcCCCCCEEecCCccccCCCcHHHhhcCCCCcEEEeecccc
Q 048126          575 AITHLPIELQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRILKSNV  624 (863)
Q Consensus       575 ~l~~lp~~~~~l~~L~~L~l~~~~~l~~lp~~~~~~L~~L~~L~l~~~~~  624 (863)
                      .++.+|.   .+++|++|++++| .++.+|.    .+++|++|++.+|.+
T Consensus       131 ~l~~lp~---~l~~L~~L~Ls~N-~l~~lp~----~l~~L~~L~Ls~N~L  172 (571)
T 3cvr_A          131 QLTMLPE---LPALLEYINADNN-QLTMLPE----LPTSLEVLSVRNNQL  172 (571)
T ss_dssp             CCSCCCC---CCTTCCEEECCSS-CCSCCCC----CCTTCCEEECCSSCC
T ss_pred             cCCCCCC---cCccccEEeCCCC-ccCcCCC----cCCCcCEEECCCCCC
Confidence            7766665   5666777777766 4455554    355666666665543

>2xot_A Amphoterin-induced protein 1; cell adhesion, neuronal protein, neurite growth regulation; HET: NAG BMA; 2.00A {Mus musculus}

Probab=99.30  E-value=3.1e-12  Score=139.09  Aligned_cols=155  Identities=20%  Similarity=0.212  Sum_probs=123.0

Q ss_pred             EEEEeccccccccccCCCCCccceEEccCCccccccchhhh-cCCCccEEEccCCCccccCCccccccCCCCeEEccCCC
Q 048126          497 RRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQ-FMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGTA  575 (863)
Q Consensus       497 r~L~l~~~~~~~l~~~~~~~~L~~L~l~~~~l~~~~~~~~~-~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~~~  575 (863)
                      +.++++++.+..+|.. -.+.++.|+|++|.++.+++..|. ++++|++|+|++|.+....|..+.++++|++|+|++|.
T Consensus        21 ~~l~c~~~~l~~iP~~-~~~~l~~L~Ls~N~l~~l~~~~~~~~l~~L~~L~L~~N~i~~i~~~~~~~l~~L~~L~Ls~N~   99 (361)
T 2xot_A           21 NILSCSKQQLPNVPQS-LPSYTALLDLSHNNLSRLRAEWTPTRLTNLHSLLLSHNHLNFISSEAFVPVPNLRYLDLSSNH   99 (361)
T ss_dssp             TEEECCSSCCSSCCSS-CCTTCSEEECCSSCCCEECTTSSSSCCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSC
T ss_pred             CEEEeCCCCcCccCcc-CCCCCCEEECCCCCCCccChhhhhhcccccCEEECCCCcCCccChhhccCCCCCCEEECCCCc
Confidence            5688888888887753 345699999999999999988787 99999999999996655556789999999999999999


Q ss_pred             ccccch-hhhcCCCCCEEecCCccccCCCcHHHhhcCCCCcEEEeeccccccCchhhHHHHHcCCccCceEEEEEcChHH
Q 048126          576 ITHLPI-ELQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRILKSNVLFGGHQFLVEELMGMKHLMALTITLKSWEA  654 (863)
Q Consensus       576 l~~lp~-~~~~l~~L~~L~l~~~~~l~~lp~~~~~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~~  654 (863)
                      ++.+|. .+..+++|++|++++| .+..++...+..+++|++|++.+|.+..-. ......+..+++|+.|+++.+....
T Consensus       100 l~~~~~~~~~~l~~L~~L~L~~N-~i~~~~~~~~~~l~~L~~L~L~~N~l~~l~-~~~~~~~~~l~~L~~L~L~~N~l~~  177 (361)
T 2xot_A          100 LHTLDEFLFSDLQALEVLLLYNN-HIVVVDRNAFEDMAQLQKLYLSQNQISRFP-VELIKDGNKLPKLMLLDLSSNKLKK  177 (361)
T ss_dssp             CCEECTTTTTTCTTCCEEECCSS-CCCEECTTTTTTCTTCCEEECCSSCCCSCC-GGGTC----CTTCCEEECCSSCCCC
T ss_pred             CCcCCHHHhCCCcCCCEEECCCC-cccEECHHHhCCcccCCEEECCCCcCCeeC-HHHhcCcccCCcCCEEECCCCCCCc
Confidence            998876 4899999999999999 567776556899999999999998876421 1122223567888888888776543

>3cvr_A Invasion plasmid antigen; leucine rich repeat and alpha fold, ligase; 2.80A {Shigella flexneri 2A}

Probab=99.28  E-value=6.1e-12  Score=143.56  Aligned_cols=131  Identities=22%  Similarity=0.275  Sum_probs=89.8

Q ss_pred             EEEEcCCCcccCcccccccceEEEEeccccccccccCCCCCccceEEccCCccccccchhhhcCCCccEEEccCCCcccc
Q 048126          476 FLVHAGLGLTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWK  555 (863)
Q Consensus       476 ~~~~~~~~~~~~~~~~~~~~lr~L~l~~~~~~~l~~~~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~  555 (863)
                      .+...+..+..+|... .++++.|++++|.+..+|  ..+++|++|++++|.++.+|.  +.+  +|++|+|++|. +..
T Consensus        63 ~L~Ls~n~L~~lp~~l-~~~L~~L~Ls~N~l~~ip--~~l~~L~~L~Ls~N~l~~ip~--l~~--~L~~L~Ls~N~-l~~  134 (571)
T 3cvr_A           63 ELQLNRLNLSSLPDNL-PPQITVLEITQNALISLP--ELPASLEYLDACDNRLSTLPE--LPA--SLKHLDVDNNQ-LTM  134 (571)
T ss_dssp             EEECCSSCCSCCCSCC-CTTCSEEECCSSCCSCCC--CCCTTCCEEECCSSCCSCCCC--CCT--TCCEEECCSSC-CSC
T ss_pred             EEEeCCCCCCccCHhH-cCCCCEEECcCCCCcccc--cccCCCCEEEccCCCCCCcch--hhc--CCCEEECCCCc-CCC
Confidence            3444444444444311 357888888888777776  557788888888887777766  333  78888888884 344


Q ss_pred             CCccccccCCCCeEEccCCCccccchhhhcCCCCCEEecCCccccCCCcHHHhhcCCCCcEEEeeccccc
Q 048126          556 LPSGISTLVSLEHLDLSGTAITHLPIELQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRILKSNVL  625 (863)
Q Consensus       556 lp~~i~~l~~L~~L~L~~~~l~~lp~~~~~l~~L~~L~l~~~~~l~~lp~~~~~~L~~L~~L~l~~~~~~  625 (863)
                      +|.   .+++|++|++++|.++.+|.   .+++|++|++++| .++.+|.  +.  ++|++|++.+|.+.
T Consensus       135 lp~---~l~~L~~L~Ls~N~l~~lp~---~l~~L~~L~Ls~N-~L~~lp~--l~--~~L~~L~Ls~N~L~  193 (571)
T 3cvr_A          135 LPE---LPALLEYINADNNQLTMLPE---LPTSLEVLSVRNN-QLTFLPE--LP--ESLEALDVSTNLLE  193 (571)
T ss_dssp             CCC---CCTTCCEEECCSSCCSCCCC---CCTTCCEEECCSS-CCSCCCC--CC--TTCCEEECCSSCCS
T ss_pred             CCC---cCccccEEeCCCCccCcCCC---cCCCcCEEECCCC-CCCCcch--hh--CCCCEEECcCCCCC
Confidence            776   57778888888888877776   5677888888877 5566776  33  77788887777554

>2wfh_A SLIT homolog 2 protein C-product; developmental protein, neurogenesis, splicing, glycoprotein, leucine-rich repeat, disulfide bond, differentiation; 1.80A {Homo sapiens}

Probab=99.27  E-value=2.2e-11  Score=119.29  Aligned_cols=126  Identities=18%  Similarity=0.230  Sum_probs=106.0

Q ss_pred             EEEEeccccccccccCCCCCccceEEccCCccccccchhhhcCCCccEEEccCCCccccCCccccccCCCCeEEccCCCc
Q 048126          497 RRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAI  576 (863)
Q Consensus       497 r~L~l~~~~~~~l~~~~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~~~l  576 (863)
                      +.++++++.+..+|.. -.++|+.|++++|.++.+|. .|.++++|++|+|++|.+....|..+.++++|++|+|++|.|
T Consensus        13 ~~l~~~~~~l~~ip~~-~~~~l~~L~L~~n~i~~ip~-~~~~l~~L~~L~Ls~N~i~~i~~~~f~~l~~L~~L~Ls~N~l   90 (193)
T 2wfh_A           13 TVVRCSNKGLKVLPKG-IPRDVTELYLDGNQFTLVPK-ELSNYKHLTLIDLSNNRISTLSNQSFSNMTQLLTLILSYNRL   90 (193)
T ss_dssp             TEEECTTSCCSSCCSC-CCTTCCEEECCSSCCCSCCG-GGGGCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCC
T ss_pred             CEEEcCCCCCCcCCCC-CCCCCCEEECCCCcCchhHH-HhhcccCCCEEECCCCcCCEeCHhHccCCCCCCEEECCCCcc
Confidence            4677888888877653 34689999999999998884 589999999999999966555567799999999999999999


Q ss_pred             cccch-hhhcCCCCCEEecCCccccCCCcHHHhhcCCCCcEEEeeccccc
Q 048126          577 THLPI-ELQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRILKSNVL  625 (863)
Q Consensus       577 ~~lp~-~~~~l~~L~~L~l~~~~~l~~lp~~~~~~L~~L~~L~l~~~~~~  625 (863)
                      +.+|. .+..+++|++|++++| .+..+|...+..+++|++|++.+|...
T Consensus        91 ~~i~~~~f~~l~~L~~L~L~~N-~l~~~~~~~~~~l~~L~~L~L~~N~~~  139 (193)
T 2wfh_A           91 RCIPPRTFDGLKSLRLLSLHGN-DISVVPEGAFNDLSALSHLAIGANPLY  139 (193)
T ss_dssp             CBCCTTTTTTCTTCCEEECCSS-CCCBCCTTTTTTCTTCCEEECCSSCEE
T ss_pred             CEeCHHHhCCCCCCCEEECCCC-CCCeeChhhhhcCccccEEEeCCCCee
Confidence            98875 5899999999999998 678888876888999999999888764

>2o6r_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 2.30A {Eptatretus burgeri}

Probab=99.27  E-value=2.5e-11  Score=117.31  Aligned_cols=129  Identities=19%  Similarity=0.212  Sum_probs=107.4

Q ss_pred             eEEEEeccccccccccCCCCCccceEEccCCccccccchhhhcCCCccEEEccCCCccccCCccccccCCCCeEEccCCC
Q 048126          496 VRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGTA  575 (863)
Q Consensus       496 lr~L~l~~~~~~~l~~~~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~~~  575 (863)
                      .+.+++.++.+..+|. ...++|+.|++++|.++.+++..|..+++|++|++++|.+....+..++.+++|++|++++|.
T Consensus         9 ~~~l~~~~~~l~~~p~-~~~~~l~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~N~   87 (177)
T 2o6r_A            9 GTEIRCNSKGLTSVPT-GIPSSATRLELESNKLQSLPHGVFDKLTQLTKLSLSQNQIQSLPDGVFDKLTKLTILYLHENK   87 (177)
T ss_dssp             TTEEECCSSCCSSCCT-TCCTTCSEEECCSSCCCCCCTTTTTTCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSSC
T ss_pred             CCEEEecCCCCccCCC-CCCCCCcEEEeCCCcccEeCHHHhcCcccccEEECCCCcceEeChhHccCCCccCEEECCCCC
Confidence            3567777888777763 345789999999999999998888999999999999995543334457899999999999999


Q ss_pred             ccccchh-hhcCCCCCEEecCCccccCCCcHHHhhcCCCCcEEEeecccccc
Q 048126          576 ITHLPIE-LQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRILKSNVLF  626 (863)
Q Consensus       576 l~~lp~~-~~~l~~L~~L~l~~~~~l~~lp~~~~~~L~~L~~L~l~~~~~~~  626 (863)
                      ++.+|.. +..+++|++|++++| .++.+|...+..+++|++|++.+|....
T Consensus        88 l~~~~~~~~~~l~~L~~L~l~~N-~l~~~~~~~~~~l~~L~~L~l~~N~~~~  138 (177)
T 2o6r_A           88 LQSLPNGVFDKLTQLKELALDTN-QLKSVPDGIFDRLTSLQKIWLHTNPWDC  138 (177)
T ss_dssp             CCCCCTTTTTTCTTCCEEECCSS-CCSCCCTTTTTTCTTCCEEECCSSCBCC
T ss_pred             ccccCHHHhhCCcccCEEECcCC-cceEeCHHHhcCCcccCEEEecCCCeec
Confidence            9988875 689999999999998 6788888767889999999999887653

>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

Probab=99.26  E-value=1.1e-11  Score=119.59  Aligned_cols=143  Identities=18%  Similarity=0.200  Sum_probs=114.2

Q ss_pred             cccccCCCCCccceEEccCCccccccchhhhcCCCccEEEccCCCccccCCccccccCCCCeEEccCCCccccchhh-hc
Q 048126          507 ENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAITHLPIEL-QK  585 (863)
Q Consensus       507 ~~l~~~~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~~~l~~lp~~~-~~  585 (863)
                      ...+.+.++++|+.|++++|.++.++. +....++|++|++++|.+. .+ ..++.+++|++|++++|.++.+|..+ ..
T Consensus        10 ~~~~~~~~~~~L~~L~l~~n~l~~i~~-~~~~~~~L~~L~Ls~N~l~-~~-~~l~~l~~L~~L~Ls~N~l~~~~~~~~~~   86 (176)
T 1a9n_A           10 EQAAQYTNAVRDRELDLRGYKIPVIEN-LGATLDQFDAIDFSDNEIR-KL-DGFPLLRRLKTLLVNNNRICRIGEGLDQA   86 (176)
T ss_dssp             HTSCEEECTTSCEEEECTTSCCCSCCC-GGGGTTCCSEEECCSSCCC-EE-CCCCCCSSCCEEECCSSCCCEECSCHHHH
T ss_pred             HHHHhcCCcCCceEEEeeCCCCchhHH-hhhcCCCCCEEECCCCCCC-cc-cccccCCCCCEEECCCCcccccCcchhhc
Confidence            334556788999999999999988854 3344449999999999544 45 68899999999999999999998765 99


Q ss_pred             CCCCCEEecCCccccCCCcH-HHhhcCCCCcEEEeeccccccCchhhHHHHHcCCccCceEEEEEcChHH
Q 048126          586 LVNLKCLNLEYMYNLNQFPR-LVMSAFSKLQVLRILKSNVLFGGHQFLVEELMGMKHLMALTITLKSWEA  654 (863)
Q Consensus       586 l~~L~~L~l~~~~~l~~lp~-~~~~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~~  654 (863)
                      +++|++|++++| .+..+|. ..+..+++|++|++.+|.+.... ......+..+++|+.|+++.+....
T Consensus        87 l~~L~~L~L~~N-~i~~~~~~~~l~~l~~L~~L~l~~N~i~~~~-~~~~~~~~~l~~L~~Ld~~~n~~~~  154 (176)
T 1a9n_A           87 LPDLTELILTNN-SLVELGDLDPLASLKSLTYLCILRNPVTNKK-HYRLYVIYKVPQVRVLDFQKVKLKE  154 (176)
T ss_dssp             CTTCCEEECCSC-CCCCGGGGGGGGGCTTCCEEECCSSGGGGST-THHHHHHHHCTTCSEETTEECCHHH
T ss_pred             CCCCCEEECCCC-cCCcchhhHhhhcCCCCCEEEecCCCCCCcH-hHHHHHHHHCCccceeCCCcCCHHH
Confidence            999999999999 6688886 23789999999999999875431 1122347788999999998887654

>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

Probab=99.26  E-value=1.5e-11  Score=120.47  Aligned_cols=128  Identities=20%  Similarity=0.254  Sum_probs=107.2

Q ss_pred             EEEEeccccccccccCCCCCccceEEccCCccccccch-hhhcCCCccEEEccCCCccccCCccccccCCCCeEEccCCC
Q 048126          497 RRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGD-FFQFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGTA  575 (863)
Q Consensus       497 r~L~l~~~~~~~l~~~~~~~~L~~L~l~~~~l~~~~~~-~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~~~  575 (863)
                      +.++++++.+..+|.. -..+|++|++++|.+..+++. .|..+++|++|+|++|.+.+..|..++++++|++|+|++|.
T Consensus        11 ~~l~~s~~~l~~ip~~-~~~~l~~L~l~~n~i~~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls~N~   89 (192)
T 1w8a_A           11 TTVDCTGRGLKEIPRD-IPLHTTELLLNDNELGRISSDGLFGRLPHLVKLELKRNQLTGIEPNAFEGASHIQELQLGENK   89 (192)
T ss_dssp             TEEECTTSCCSSCCSC-CCTTCSEEECCSCCCCSBCCSCSGGGCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSCC
T ss_pred             CEEEcCCCCcCcCccC-CCCCCCEEECCCCcCCccCCccccccCCCCCEEECCCCCCCCcCHhHcCCcccCCEEECCCCc
Confidence            5788888888887753 234899999999999988864 58999999999999997666668899999999999999999


Q ss_pred             ccccchh-hhcCCCCCEEecCCccccCCCcHHHhhcCCCCcEEEeecccccc
Q 048126          576 ITHLPIE-LQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRILKSNVLF  626 (863)
Q Consensus       576 l~~lp~~-~~~l~~L~~L~l~~~~~l~~lp~~~~~~L~~L~~L~l~~~~~~~  626 (863)
                      ++.+|.. +..+++|++|++++| .+..++...+..+++|++|++.+|....
T Consensus        90 l~~~~~~~~~~l~~L~~L~L~~N-~l~~~~~~~~~~l~~L~~L~L~~N~l~c  140 (192)
T 1w8a_A           90 IKEISNKMFLGLHQLKTLNLYDN-QISCVMPGSFEHLNSLTSLNLASNPFNC  140 (192)
T ss_dssp             CCEECSSSSTTCTTCCEEECCSS-CCCEECTTSSTTCTTCCEEECTTCCBCC
T ss_pred             CCccCHHHhcCCCCCCEEECCCC-cCCeeCHHHhhcCCCCCEEEeCCCCccC
Confidence            9987655 889999999999998 5565644458889999999999887653

>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

Probab=99.25  E-value=1.6e-11  Score=117.47  Aligned_cols=135  Identities=21%  Similarity=0.181  Sum_probs=109.7

Q ss_pred             CCCCccceEEccCCccc--cccchhhhcCCCccEEEccCCCccccCCccccccCCCCeEEccCCCccc-cchhhhcCCCC
Q 048126          513 PTCPHLLSLFLSDNSLK--MIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAITH-LPIELQKLVNL  589 (863)
Q Consensus       513 ~~~~~L~~L~l~~~~l~--~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~~~l~~-lp~~~~~l~~L  589 (863)
                      ...++|+.|++++|.+.  .+|.. +..+++|++|++++|. +..+ ..++.+++|++|++++|.++. +|..+.++++|
T Consensus        21 ~~~~~L~~L~l~~n~l~~~~i~~~-~~~l~~L~~L~l~~n~-l~~~-~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L   97 (168)
T 2ell_A           21 RTPAAVRELVLDNCKSNDGKIEGL-TAEFVNLEFLSLINVG-LISV-SNLPKLPKLKKLELSENRIFGGLDMLAEKLPNL   97 (168)
T ss_dssp             SCTTSCSEEECCSCBCBTTBCSSC-CGGGGGCCEEEEESSC-CCCC-SSCCCCSSCCEEEEESCCCCSCCCHHHHHCTTC
T ss_pred             CCcccCCEEECCCCCCChhhHHHH-HHhCCCCCEEeCcCCC-CCCh-hhhccCCCCCEEECcCCcCchHHHHHHhhCCCC
Confidence            34588999999999988  67654 7899999999999995 4455 788999999999999999997 88888889999


Q ss_pred             CEEecCCccccCCCcH-HHhhcCCCCcEEEeeccccccCchhhHHHHHcCCccCceEEEEEcCh
Q 048126          590 KCLNLEYMYNLNQFPR-LVMSAFSKLQVLRILKSNVLFGGHQFLVEELMGMKHLMALTITLKSW  652 (863)
Q Consensus       590 ~~L~l~~~~~l~~lp~-~~~~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~  652 (863)
                      ++|++++| .++.+|. ..+..+++|++|++.+|.+.... ......+..+++|+.|++..+..
T Consensus        98 ~~L~Ls~N-~l~~~~~~~~l~~l~~L~~L~l~~N~l~~~~-~~~~~~~~~l~~L~~L~l~~n~~  159 (168)
T 2ell_A           98 THLNLSGN-KLKDISTLEPLKKLECLKSLDLFNCEVTNLN-DYRESVFKLLPQLTYLDGYDRED  159 (168)
T ss_dssp             CEEECBSS-SCCSSGGGGGGSSCSCCCEEECCSSGGGTST-THHHHHHTTCSSCCEETTEETTS
T ss_pred             CEEeccCC-ccCcchhHHHHhcCCCCCEEEeeCCcCcchH-HHHHHHHHhCccCcEecCCCCCh
Confidence            99999999 6788763 34889999999999999876431 11224678888888888876653

>2je0_A Acidic leucine-rich nuclear phosphoprotein 32 FAM member A; nuclear protein; 2.40A {Homo sapiens} PDB: 2je1_A

Probab=99.22  E-value=1.4e-11  Score=115.35  Aligned_cols=130  Identities=18%  Similarity=0.229  Sum_probs=103.4

Q ss_pred             CCCCccceEEccCCccc--cccchhhhcCCCccEEEccCCCccccCCccccccCCCCeEEccCCCccc-cchhhhcCCCC
Q 048126          513 PTCPHLLSLFLSDNSLK--MIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAITH-LPIELQKLVNL  589 (863)
Q Consensus       513 ~~~~~L~~L~l~~~~l~--~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~~~l~~-lp~~~~~l~~L  589 (863)
                      ...++|+.|++++|.+.  .+|. .+..+++|++|++++|.+ ..+ ..++++++|++|++++|.++. +|..+..+++|
T Consensus        14 ~~~~~l~~L~l~~n~l~~~~~~~-~~~~l~~L~~L~l~~n~l-~~~-~~~~~l~~L~~L~Ls~n~i~~~~~~~~~~l~~L   90 (149)
T 2je0_A           14 RTPSDVKELVLDNSRSNEGKLEG-LTDEFEELEFLSTINVGL-TSI-ANLPKLNKLKKLELSDNRVSGGLEVLAEKCPNL   90 (149)
T ss_dssp             CCGGGCSEEECTTCBCBTTBCCS-CCTTCTTCCEEECTTSCC-CCC-TTCCCCTTCCEEECCSSCCCSCTHHHHHHCTTC
T ss_pred             CCCccCeEEEccCCcCChhHHHH-HHhhcCCCcEEECcCCCC-CCc-hhhhcCCCCCEEECCCCcccchHHHHhhhCCCC
Confidence            34578999999999988  6665 478999999999999954 445 688999999999999999997 88888889999


Q ss_pred             CEEecCCccccCCCcH-HHhhcCCCCcEEEeeccccccCchhhHHHHHcCCccCceEEE
Q 048126          590 KCLNLEYMYNLNQFPR-LVMSAFSKLQVLRILKSNVLFGGHQFLVEELMGMKHLMALTI  647 (863)
Q Consensus       590 ~~L~l~~~~~l~~lp~-~~~~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~~L~l  647 (863)
                      ++|++++| .++.+|. ..++.+++|++|++.+|.+.... ......+..+++|+.|++
T Consensus        91 ~~L~ls~N-~i~~~~~~~~~~~l~~L~~L~l~~N~l~~~~-~~~~~~~~~l~~L~~L~l  147 (149)
T 2je0_A           91 THLNLSGN-KIKDLSTIEPLKKLENLKSLDLFNCEVTNLN-DYRENVFKLLPQLTYLDG  147 (149)
T ss_dssp             CEEECTTS-CCCSHHHHGGGGGCTTCCEEECTTCGGGGST-THHHHHHHHCTTCCEETT
T ss_pred             CEEECCCC-cCCChHHHHHHhhCCCCCEEeCcCCcccchH-HHHHHHHHHCCCcccccC
Confidence            99999999 5677652 34889999999999998775431 111245667777777754

>1njg_A DNA polymerase III subunit gamma; rossman-like fold, AAA+ ATPase domains, sensor 1, sensor 2, transferase; HET: DNA; 2.20A {Escherichia coli} SCOP: c.37.1.20 PDB: 1njf_A*

Probab=99.20  E-value=1.4e-10  Score=118.56  Aligned_cols=197  Identities=13%  Similarity=0.121  Sum_probs=115.9

Q ss_pred             CCccchhHHHHHHHHHhcCCC-ccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHHHHhC
Q 048126          126 EPTVGLESMFDKVWRCLGEEQ-VGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGRRIG  204 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~-~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~  204 (863)
                      ..++||+..++.+..++.... .+.+.|+|++|+||||+|+.+++... ....+..   ..+..   ... ...+.....
T Consensus        23 ~~~~g~~~~~~~l~~~l~~~~~~~~~ll~G~~G~GKT~l~~~~~~~~~-~~~~~~~---~~~~~---~~~-~~~~~~~~~   94 (250)
T 1njg_A           23 ADVVGQEHVLTALANGLSLGRIHHAYLFSGTRGVGKTSIARLLAKGLN-CETGITA---TPCGV---CDN-CREIEQGRF   94 (250)
T ss_dssp             GGCCSCHHHHHHHHHHHHHTCCCSEEEEECSTTSCHHHHHHHHHHHHH-CTTCSCS---SCCSC---SHH-HHHHHTTCC
T ss_pred             HHHhCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhc-CCCCCCC---CCCcc---cHH-HHHHhccCC
Confidence            458999999999999997643 45889999999999999999998762 1111100   00000   000 001110000


Q ss_pred             CCCccccCC--ChhHHHHHHHHHh-----ccCcEEEEEeccCCc--cccccccCCCCCCCCCcEEEEecCchhhh-h-cc
Q 048126          205 FLDESWKNG--SLEDKASDILRIL-----SKKKFLLLLDDIWER--VDLTKVGVPFPDPENKSKIVFTTRFLEIC-G-AM  273 (863)
Q Consensus       205 ~~~~~~~~~--~~~~~~~~l~~~l-----~~kr~LlVlDdv~~~--~~~~~~~~~l~~~~~gs~IivTtR~~~v~-~-~~  273 (863)
                      ...-.....  ........+.+.+     .+++.+||+||++..  ..+..+...+.....+..+|+||+..... . ..
T Consensus        95 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vlviDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~t~~~~~~~~~l~  174 (250)
T 1njg_A           95 VDLIEIDAASRTKVEDTRDLLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLPVTIL  174 (250)
T ss_dssp             SSEEEEETTCGGGHHHHHHHHHSCCCSCSSSSSEEEEEETGGGSCHHHHHHHHHHHHSCCTTEEEEEEESCGGGSCHHHH
T ss_pred             cceEEecCcccccHHHHHHHHHHhhhchhcCCceEEEEECcccccHHHHHHHHHHHhcCCCceEEEEEeCChHhCCHHHH
Confidence            000000000  0111112222221     346799999999763  23444433333334578888888765321 1 11


Q ss_pred             cccceEeecCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCCchhHHHHHHHHh
Q 048126          274 KAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGLPLALITIGRAM  333 (863)
Q Consensus       274 ~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPlai~~~~~~l  333 (863)
                      .....+.+++++.++..+++...+.....   .--.+....|++.|+|.|..+..+...+
T Consensus       175 ~r~~~i~l~~l~~~e~~~~l~~~~~~~~~---~~~~~~~~~l~~~~~G~~~~~~~~~~~~  231 (250)
T 1njg_A          175 SRCLQFHLKALDVEQIRHQLEHILNEEHI---AHEPRALQLLARAAEGSLRDALSLTDQA  231 (250)
T ss_dssp             TTSEEEECCCCCHHHHHHHHHHHHHHTTC---CBCHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHhhhccCCCCCHHHHHHHHHHHHHhcCC---CCCHHHHHHHHHHcCCCHHHHHHHHHHH
Confidence            12357899999999999999988754321   1124667899999999999988876544

>4b8c_D Glucose-repressible alcohol dehydrogenase transcr effector; hydrolase-cell cycle complex; 3.41A {Saccharomyces cerevisiae S288C}

Probab=99.18  E-value=1.6e-11  Score=145.48  Aligned_cols=109  Identities=26%  Similarity=0.275  Sum_probs=57.4

Q ss_pred             CCCCccceEEccCCccccccchhhhcCCCccEEEccCCCccccCCccccccCCCCeEEccCCCccccchhhhcCCCCCEE
Q 048126          513 PTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAITHLPIELQKLVNLKCL  592 (863)
Q Consensus       513 ~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~~~l~~lp~~~~~l~~L~~L  592 (863)
                      ..+++|+.|+|++|.+..++..++ ++++|++|+|++|.+ ..+|..+++|++|++|+|++|.|+.+|..+++|++|++|
T Consensus       221 ~~l~~L~~L~Ls~n~l~~l~~~~~-~l~~L~~L~Ls~N~l-~~lp~~~~~l~~L~~L~Ls~N~l~~lp~~~~~l~~L~~L  298 (727)
T 4b8c_D          221 YDDQLWHALDLSNLQIFNISANIF-KYDFLTRLYLNGNSL-TELPAEIKNLSNLRVLDLSHNRLTSLPAELGSCFQLKYF  298 (727)
T ss_dssp             -CCCCCCEEECTTSCCSCCCGGGG-GCCSCSCCBCTTSCC-SCCCGGGGGGTTCCEEECTTSCCSSCCSSGGGGTTCSEE
T ss_pred             ccCCCCcEEECCCCCCCCCChhhc-CCCCCCEEEeeCCcC-cccChhhhCCCCCCEEeCcCCcCCccChhhcCCCCCCEE
Confidence            344555555555555555554422 455555555555532 255555555555555555555555555555555555555


Q ss_pred             ecCCccccCCCcHHHhhcCCCCcEEEeeccccc
Q 048126          593 NLEYMYNLNQFPRLVMSAFSKLQVLRILKSNVL  625 (863)
Q Consensus       593 ~l~~~~~l~~lp~~~~~~L~~L~~L~l~~~~~~  625 (863)
                      +|++| .++.+|.. ++.|++|++|++.+|.+.
T Consensus       299 ~L~~N-~l~~lp~~-~~~l~~L~~L~L~~N~l~  329 (727)
T 4b8c_D          299 YFFDN-MVTTLPWE-FGNLCNLQFLGVEGNPLE  329 (727)
T ss_dssp             ECCSS-CCCCCCSS-TTSCTTCCCEECTTSCCC
T ss_pred             ECCCC-CCCccChh-hhcCCCccEEeCCCCccC
Confidence            55555 34455544 555555555555555443

>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*

Probab=99.15  E-value=8.9e-11  Score=134.71  Aligned_cols=119  Identities=22%  Similarity=0.240  Sum_probs=66.2

Q ss_pred             eEEEEeccccccccccCCCCCccceEEccCCccccccchhhhcCCCccEEEccCCCccccCCccccccCCCCeEEccCCC
Q 048126          496 VRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGTA  575 (863)
Q Consensus       496 lr~L~l~~~~~~~l~~~~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~~~  575 (863)
                      ++.|++++|.+..+|.+..+++|+.|++++|.++.+|.. |+++++|++|+|++|. +..+| .+++|++|++|+|++|.
T Consensus       443 L~~L~Ls~n~l~~lp~~~~l~~L~~L~Ls~N~l~~lp~~-~~~l~~L~~L~Ls~N~-l~~lp-~l~~l~~L~~L~Ls~N~  519 (567)
T 1dce_A          443 VRVLHLAHKDLTVLCHLEQLLLVTHLDLSHNRLRALPPA-LAALRCLEVLQASDNA-LENVD-GVANLPRLQELLLCNNR  519 (567)
T ss_dssp             CSEEECTTSCCSSCCCGGGGTTCCEEECCSSCCCCCCGG-GGGCTTCCEEECCSSC-CCCCG-GGTTCSSCCEEECCSSC
T ss_pred             ceEEEecCCCCCCCcCccccccCcEeecCcccccccchh-hhcCCCCCEEECCCCC-CCCCc-ccCCCCCCcEEECCCCC
Confidence            555666666665555555566666666666665555543 5566666666666663 33355 55666666666666666


Q ss_pred             cccc--chhhhcCCCCCEEecCCccccCCCcHH---HhhcCCCCcEEE
Q 048126          576 ITHL--PIELQKLVNLKCLNLEYMYNLNQFPRL---VMSAFSKLQVLR  618 (863)
Q Consensus       576 l~~l--p~~~~~l~~L~~L~l~~~~~l~~lp~~---~~~~L~~L~~L~  618 (863)
                      |+.+  |..++.+++|++|++++| .+..+|+.   ++..+++|+.|+
T Consensus       520 l~~~~~p~~l~~l~~L~~L~L~~N-~l~~~~~~~~~l~~~lp~L~~L~  566 (567)
T 1dce_A          520 LQQSAAIQPLVSCPRLVLLNLQGN-SLCQEEGIQERLAEMLPSVSSIL  566 (567)
T ss_dssp             CCSSSTTGGGGGCTTCCEEECTTS-GGGGSSSCTTHHHHHCTTCSEEE
T ss_pred             CCCCCCcHHHhcCCCCCEEEecCC-cCCCCccHHHHHHHHCcccCccC
Confidence            6655  555666666666666665 33333321   223355555553

>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*

Probab=99.13  E-value=1.2e-10  Score=133.56  Aligned_cols=137  Identities=18%  Similarity=0.225  Sum_probs=108.6

Q ss_pred             EEeccccccccccCCCCCccceEEccCCccccccchhhhcCCCccEEEccCCCccccCCccccccCCCCeEEccCCCccc
Q 048126          499 MSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAITH  578 (863)
Q Consensus       499 L~l~~~~~~~l~~~~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~~~l~~  578 (863)
                      +.+.+|.+..++.    ..|++|++++|.++.+|.  |+++++|++|+|++|. +..+|..+++|++|++|+|++|.|+.
T Consensus       428 l~l~~n~i~~l~~----~~L~~L~Ls~n~l~~lp~--~~~l~~L~~L~Ls~N~-l~~lp~~~~~l~~L~~L~Ls~N~l~~  500 (567)
T 1dce_A          428 KFLLENSVLKMEY----ADVRVLHLAHKDLTVLCH--LEQLLLVTHLDLSHNR-LRALPPALAALRCLEVLQASDNALEN  500 (567)
T ss_dssp             HHHHHHHHHHHHH----TTCSEEECTTSCCSSCCC--GGGGTTCCEEECCSSC-CCCCCGGGGGCTTCCEEECCSSCCCC
T ss_pred             hhhhcccccccCc----cCceEEEecCCCCCCCcC--ccccccCcEeecCccc-ccccchhhhcCCCCCEEECCCCCCCC
Confidence            3344444444432    249999999999999875  8999999999999994 55999999999999999999999999


Q ss_pred             cchhhhcCCCCCEEecCCccccCCC--cHHHhhcCCCCcEEEeeccccccCchhhHHHHHcCCccCceEE
Q 048126          579 LPIELQKLVNLKCLNLEYMYNLNQF--PRLVMSAFSKLQVLRILKSNVLFGGHQFLVEELMGMKHLMALT  646 (863)
Q Consensus       579 lp~~~~~l~~L~~L~l~~~~~l~~l--p~~~~~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~~L~  646 (863)
                      +| .++++++|++|++++| .++.+  |.. ++.+++|+.|++.+|.+.... .....-+..+++|+.|+
T Consensus       501 lp-~l~~l~~L~~L~Ls~N-~l~~~~~p~~-l~~l~~L~~L~L~~N~l~~~~-~~~~~l~~~lp~L~~L~  566 (567)
T 1dce_A          501 VD-GVANLPRLQELLLCNN-RLQQSAAIQP-LVSCPRLVLLNLQGNSLCQEE-GIQERLAEMLPSVSSIL  566 (567)
T ss_dssp             CG-GGTTCSSCCEEECCSS-CCCSSSTTGG-GGGCTTCCEEECTTSGGGGSS-SCTTHHHHHCTTCSEEE
T ss_pred             Cc-ccCCCCCCcEEECCCC-CCCCCCCcHH-HhcCCCCCEEEecCCcCCCCc-cHHHHHHHHCcccCccC
Confidence            99 8999999999999999 66777  665 899999999999999876431 11122233466777664

>2chg_A Replication factor C small subunit; DNA-binding protein, DNA replication, clamp loader, AAA+ ATPase, ATP-binding, nucleotide-binding; HET: ANP; 2.1A {Archaeoglobus fulgidus}

Probab=99.12  E-value=4.1e-10  Score=113.24  Aligned_cols=183  Identities=10%  Similarity=0.094  Sum_probs=115.6

Q ss_pred             CCccchhHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCC-EEEEEEeCCccCHHHHHHHHHHHhC
Q 048126          126 EPTVGLESMFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFD-VVIWVVVSKDLQLEKIQEKIGRRIG  204 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~-~~~wv~~s~~~~~~~~~~~i~~~l~  204 (863)
                      ..++|++..++.+.+++.....+.+.|+|++|+|||++|+.+++...  ...+. ..+.+..+...+...+...+.....
T Consensus        17 ~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   94 (226)
T 2chg_A           17 DEVVGQDEVIQRLKGYVERKNIPHLLFSGPPGTGKTATAIALARDLF--GENWRDNFIEMNASDERGIDVVRHKIKEFAR   94 (226)
T ss_dssp             GGCCSCHHHHHHHHHHHHTTCCCCEEEECSTTSSHHHHHHHHHHHHH--GGGGGGGEEEEETTCTTCHHHHHHHHHHHHT
T ss_pred             HHHcCcHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHHh--ccccccceEEeccccccChHHHHHHHHHHhc
Confidence            45899999999999999876655689999999999999999998751  11121 2344444443333333222221111


Q ss_pred             CCCccccCCChhHHHHHHHHHhccCcEEEEEeccCCcc--ccccccCCCCCCCCCcEEEEecCchhhh-h-cccccceEe
Q 048126          205 FLDESWKNGSLEDKASDILRILSKKKFLLLLDDIWERV--DLTKVGVPFPDPENKSKIVFTTRFLEIC-G-AMKAHEFLK  280 (863)
Q Consensus       205 ~~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~--~~~~~~~~l~~~~~gs~IivTtR~~~v~-~-~~~~~~~~~  280 (863)
                      ...                 .-.+++.+||+||++...  ....+...+.....+.++|+||+..... . .......+.
T Consensus        95 ~~~-----------------~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~~~~~~~l~~r~~~i~  157 (226)
T 2chg_A           95 TAP-----------------IGGAPFKIIFLDEADALTADAQAALRRTMEMYSKSCRFILSCNYVSRIIEPIQSRCAVFR  157 (226)
T ss_dssp             SCC-----------------STTCSCEEEEEETGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSEEEE
T ss_pred             ccC-----------------CCccCceEEEEeChhhcCHHHHHHHHHHHHhcCCCCeEEEEeCChhhcCHHHHHhCceee
Confidence            100                 012568899999997642  2233332222334567888888765321 1 111223789


Q ss_pred             ecCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCCchhHHHHHH
Q 048126          281 VECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGLPLALITIG  330 (863)
Q Consensus       281 l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPlai~~~~  330 (863)
                      +.+++.++..+++.+.+......   --.+....+++.++|.|..+..+.
T Consensus       158 ~~~~~~~~~~~~l~~~~~~~~~~---~~~~~~~~l~~~~~g~~r~l~~~l  204 (226)
T 2chg_A          158 FKPVPKEAMKKRLLEICEKEGVK---ITEDGLEALIYISGGDFRKAINAL  204 (226)
T ss_dssp             CCCCCHHHHHHHHHHHHHHHTCC---BCHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             cCCCCHHHHHHHHHHHHHHcCCC---CCHHHHHHHHHHcCCCHHHHHHHH
Confidence            99999999999999877543211   124567889999999998655544

>4b8c_D Glucose-repressible alcohol dehydrogenase transcr effector; hydrolase-cell cycle complex; 3.41A {Saccharomyces cerevisiae S288C}

Probab=99.11  E-value=8.4e-11  Score=139.33  Aligned_cols=134  Identities=22%  Similarity=0.264  Sum_probs=106.8

Q ss_pred             ccccccceEEEEecccccccccc-CCCCCccceEEccCCccccccchhhhcCCCccEEEccCCCccccCCccccccCCCC
Q 048126          489 EIQNWRNVRRMSLMKNKIENLSE-TPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSLE  567 (863)
Q Consensus       489 ~~~~~~~lr~L~l~~~~~~~l~~-~~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~  567 (863)
                      .+..+..++.|++++|.+..++. ...+++|++|+|++|.++.+|.. |+++++|++|+|++|.+ ..+|..+++|.+|+
T Consensus       219 ~~~~l~~L~~L~Ls~n~l~~l~~~~~~l~~L~~L~Ls~N~l~~lp~~-~~~l~~L~~L~Ls~N~l-~~lp~~~~~l~~L~  296 (727)
T 4b8c_D          219 SKYDDQLWHALDLSNLQIFNISANIFKYDFLTRLYLNGNSLTELPAE-IKNLSNLRVLDLSHNRL-TSLPAELGSCFQLK  296 (727)
T ss_dssp             ---CCCCCCEEECTTSCCSCCCGGGGGCCSCSCCBCTTSCCSCCCGG-GGGGTTCCEEECTTSCC-SSCCSSGGGGTTCS
T ss_pred             hhccCCCCcEEECCCCCCCCCChhhcCCCCCCEEEeeCCcCcccChh-hhCCCCCCEEeCcCCcC-CccChhhcCCCCCC
Confidence            45667889999999999987753 46899999999999999988866 79999999999999954 48999999999999


Q ss_pred             eEEccCCCccccchhhhcCCCCCEEecCCccccCCCcHHHhhcCCC-CcEEEeeccccc
Q 048126          568 HLDLSGTAITHLPIELQKLVNLKCLNLEYMYNLNQFPRLVMSAFSK-LQVLRILKSNVL  625 (863)
Q Consensus       568 ~L~L~~~~l~~lp~~~~~l~~L~~L~l~~~~~l~~lp~~~~~~L~~-L~~L~l~~~~~~  625 (863)
                      +|+|++|.|+.+|..+++|++|++|+|++|. +...+...+..+.. +..|++.+|...
T Consensus       297 ~L~L~~N~l~~lp~~~~~l~~L~~L~L~~N~-l~~~~p~~~~~~~~~~~~l~l~~N~l~  354 (727)
T 4b8c_D          297 YFYFFDNMVTTLPWEFGNLCNLQFLGVEGNP-LEKQFLKILTEKSVTGLIFYLRDNRPE  354 (727)
T ss_dssp             EEECCSSCCCCCCSSTTSCTTCCCEECTTSC-CCSHHHHHHHHHHHHHHHHHHHHCCCC
T ss_pred             EEECCCCCCCccChhhhcCCCccEEeCCCCc-cCCCChHHHhhcchhhhHHhhccCccc
Confidence            9999999999999999999999999999994 45444333443321 223455555443

>2wfh_A SLIT homolog 2 protein C-product; developmental protein, neurogenesis, splicing, glycoprotein, leucine-rich repeat, disulfide bond, differentiation; 1.80A {Homo sapiens}

Probab=99.10  E-value=4.3e-10  Score=110.05  Aligned_cols=121  Identities=26%  Similarity=0.281  Sum_probs=102.0

Q ss_pred             EEEcCCCcccCcccccccceEEEEeccccccccc-cCCCCCccceEEccCCccccccchhhhcCCCccEEEccCCCcccc
Q 048126          477 LVHAGLGLTEAPEIQNWRNVRRMSLMKNKIENLS-ETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWK  555 (863)
Q Consensus       477 ~~~~~~~~~~~~~~~~~~~lr~L~l~~~~~~~l~-~~~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~  555 (863)
                      +...+.....+|.. -.++++.|++++|.+..++ .+..+++|+.|++++|.++.+++..|.++++|++|+|++|.+...
T Consensus        15 l~~~~~~l~~ip~~-~~~~l~~L~L~~n~i~~ip~~~~~l~~L~~L~Ls~N~i~~i~~~~f~~l~~L~~L~Ls~N~l~~i   93 (193)
T 2wfh_A           15 VRCSNKGLKVLPKG-IPRDVTELYLDGNQFTLVPKELSNYKHLTLIDLSNNRISTLSNQSFSNMTQLLTLILSYNRLRCI   93 (193)
T ss_dssp             EECTTSCCSSCCSC-CCTTCCEEECCSSCCCSCCGGGGGCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCBC
T ss_pred             EEcCCCCCCcCCCC-CCCCCCEEECCCCcCchhHHHhhcccCCCEEECCCCcCCEeCHhHccCCCCCCEEECCCCccCEe
Confidence            33444445555532 2358999999999998875 458899999999999999999988899999999999999966655


Q ss_pred             CCccccccCCCCeEEccCCCccccchh-hhcCCCCCEEecCCcc
Q 048126          556 LPSGISTLVSLEHLDLSGTAITHLPIE-LQKLVNLKCLNLEYMY  598 (863)
Q Consensus       556 lp~~i~~l~~L~~L~L~~~~l~~lp~~-~~~l~~L~~L~l~~~~  598 (863)
                      .|..+..+++|++|+|++|.++.+|.. +..+++|++|++++|+
T Consensus        94 ~~~~f~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~N~  137 (193)
T 2wfh_A           94 PPRTFDGLKSLRLLSLHGNDISVVPEGAFNDLSALSHLAIGANP  137 (193)
T ss_dssp             CTTTTTTCTTCCEEECCSSCCCBCCTTTTTTCTTCCEEECCSSC
T ss_pred             CHHHhCCCCCCCEEECCCCCCCeeChhhhhcCccccEEEeCCCC
Confidence            667899999999999999999999875 8899999999999984

>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

Probab=99.09  E-value=4.5e-10  Score=109.91  Aligned_cols=122  Identities=24%  Similarity=0.253  Sum_probs=101.6

Q ss_pred             EEEcCCCcccCcccccccceEEEEecccccccccc---CCCCCccceEEccCCccccccchhhhcCCCccEEEccCCCcc
Q 048126          477 LVHAGLGLTEAPEIQNWRNVRRMSLMKNKIENLSE---TPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLL  553 (863)
Q Consensus       477 ~~~~~~~~~~~~~~~~~~~lr~L~l~~~~~~~l~~---~~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~  553 (863)
                      +...+.....+|.. -..+++.|++++|.+..++.   +..+++|++|++++|.++.+++..|.++++|++|+|++|.+.
T Consensus        13 l~~s~~~l~~ip~~-~~~~l~~L~l~~n~i~~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~   91 (192)
T 1w8a_A           13 VDCTGRGLKEIPRD-IPLHTTELLLNDNELGRISSDGLFGRLPHLVKLELKRNQLTGIEPNAFEGASHIQELQLGENKIK   91 (192)
T ss_dssp             EECTTSCCSSCCSC-CCTTCSEEECCSCCCCSBCCSCSGGGCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSCCCC
T ss_pred             EEcCCCCcCcCccC-CCCCCCEEECCCCcCCccCCccccccCCCCCEEECCCCCCCCcCHhHcCCcccCCEEECCCCcCC
Confidence            33344445555532 12389999999999988764   678999999999999999998888999999999999999766


Q ss_pred             ccCCccccccCCCCeEEccCCCcccc-chhhhcCCCCCEEecCCccc
Q 048126          554 WKLPSGISTLVSLEHLDLSGTAITHL-PIELQKLVNLKCLNLEYMYN  599 (863)
Q Consensus       554 ~~lp~~i~~l~~L~~L~L~~~~l~~l-p~~~~~l~~L~~L~l~~~~~  599 (863)
                      +..|..+.++++|++|+|++|.++.+ |..+..+++|++|++++|+.
T Consensus        92 ~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~N~l  138 (192)
T 1w8a_A           92 EISNKMFLGLHQLKTLNLYDNQISCVMPGSFEHLNSLTSLNLASNPF  138 (192)
T ss_dssp             EECSSSSTTCTTCCEEECCSSCCCEECTTSSTTCTTCCEEECTTCCB
T ss_pred             ccCHHHhcCCCCCCEEECCCCcCCeeCHHHhhcCCCCCEEEeCCCCc
Confidence            66677799999999999999999966 77899999999999999843

>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

Probab=99.08  E-value=8.5e-12  Score=123.04  Aligned_cols=108  Identities=16%  Similarity=0.209  Sum_probs=48.4

Q ss_pred             hhcCCCccEEEccCCCccccCCccccccCCCCeEEccCCCccccchhhhcCCCCCEEecCCccccCCCcHHHhhcCCCCc
Q 048126          536 FQFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAITHLPIELQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQ  615 (863)
Q Consensus       536 ~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~~~l~~lp~~~~~l~~L~~L~l~~~~~l~~lp~~~~~~L~~L~  615 (863)
                      +..+++|++|++++|. +..+| .++++++|++|++++|.++.+|..+..+++|++|++++| .+..+|.  ++.+++|+
T Consensus        44 ~~~l~~L~~L~ls~n~-l~~l~-~~~~l~~L~~L~l~~n~l~~l~~~~~~~~~L~~L~L~~N-~l~~l~~--~~~l~~L~  118 (198)
T 1ds9_A           44 LSTLKACKHLALSTNN-IEKIS-SLSGMENLRILSLGRNLIKKIENLDAVADTLEELWISYN-QIASLSG--IEKLVNLR  118 (198)
T ss_dssp             HHHTTTCSEEECSEEE-ESCCC-CHHHHTTCCEEEEEEEEECSCSSHHHHHHHCSEEEEEEE-ECCCHHH--HHHHHHSS
T ss_pred             HhcCCCCCEEECCCCC-Ccccc-ccccCCCCCEEECCCCCcccccchhhcCCcCCEEECcCC-cCCcCCc--cccCCCCC
Confidence            4444455555554442 22344 444444555555555444444444444444555555444 3344442  44444555


Q ss_pred             EEEeeccccccCchhhHHHHHcCCccCceEEEEEcC
Q 048126          616 VLRILKSNVLFGGHQFLVEELMGMKHLMALTITLKS  651 (863)
Q Consensus       616 ~L~l~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~  651 (863)
                      +|++.+|.+...   ..+..+..+++|+.|+++.+.
T Consensus       119 ~L~l~~N~i~~~---~~~~~l~~l~~L~~L~l~~N~  151 (198)
T 1ds9_A          119 VLYMSNNKITNW---GEIDKLAALDKLEDLLLAGNP  151 (198)
T ss_dssp             EEEESEEECCCH---HHHHHHTTTTTCSEEEECSCH
T ss_pred             EEECCCCcCCch---hHHHHHhcCCCCCEEEecCCc
Confidence            555544443210   111334444555555554443

>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

Probab=99.07  E-value=2.9e-11  Score=119.22  Aligned_cols=126  Identities=25%  Similarity=0.310  Sum_probs=102.3

Q ss_pred             ceEEEEeccc--cccccc-cCCCCCccceEEccCCccccccchhhhcCCCccEEEccCCCccccCCccccccCCCCeEEc
Q 048126          495 NVRRMSLMKN--KIENLS-ETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDL  571 (863)
Q Consensus       495 ~lr~L~l~~~--~~~~l~-~~~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L  571 (863)
                      .++...+.+.  .+..++ .+..+++|++|++++|.+..+|  .+.++++|++|++++| .+..+|..+..+++|++|++
T Consensus        24 ~l~~~~l~~~~~~l~~l~~~~~~l~~L~~L~ls~n~l~~l~--~~~~l~~L~~L~l~~n-~l~~l~~~~~~~~~L~~L~L  100 (198)
T 1ds9_A           24 EAEKVELHGMIPPIEKMDATLSTLKACKHLALSTNNIEKIS--SLSGMENLRILSLGRN-LIKKIENLDAVADTLEELWI  100 (198)
T ss_dssp             TCSEEECCBCCTTCCCCHHHHHHTTTCSEEECSEEEESCCC--CHHHHTTCCEEEEEEE-EECSCSSHHHHHHHCSEEEE
T ss_pred             chheeEeccccCcHhhhhHHHhcCCCCCEEECCCCCCcccc--ccccCCCCCEEECCCC-CcccccchhhcCCcCCEEEC
Confidence            3444444433  233333 3577899999999999998887  4889999999999999 45588988888999999999


Q ss_pred             cCCCccccchhhhcCCCCCEEecCCccccCCCcH-HHhhcCCCCcEEEeeccccc
Q 048126          572 SGTAITHLPIELQKLVNLKCLNLEYMYNLNQFPR-LVMSAFSKLQVLRILKSNVL  625 (863)
Q Consensus       572 ~~~~l~~lp~~~~~l~~L~~L~l~~~~~l~~lp~-~~~~~L~~L~~L~l~~~~~~  625 (863)
                      ++|.++.+| .+..+++|++|++++| .+..+|. ..+..+++|++|++.+|.+.
T Consensus       101 ~~N~l~~l~-~~~~l~~L~~L~l~~N-~i~~~~~~~~l~~l~~L~~L~l~~N~l~  153 (198)
T 1ds9_A          101 SYNQIASLS-GIEKLVNLRVLYMSNN-KITNWGEIDKLAALDKLEDLLLAGNPLY  153 (198)
T ss_dssp             EEEECCCHH-HHHHHHHSSEEEESEE-ECCCHHHHHHHTTTTTCSEEEECSCHHH
T ss_pred             cCCcCCcCC-ccccCCCCCEEECCCC-cCCchhHHHHHhcCCCCCEEEecCCccc
Confidence            999999988 6899999999999998 5677665 34789999999999988764

>2o6r_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 2.30A {Eptatretus burgeri}

Probab=99.07  E-value=6.5e-10  Score=107.26  Aligned_cols=119  Identities=22%  Similarity=0.288  Sum_probs=98.5

Q ss_pred             cCCCcccCcccccccceEEEEecccccccccc--CCCCCccceEEccCCccccccchhhhcCCCccEEEccCCCccccCC
Q 048126          480 AGLGLTEAPEIQNWRNVRRMSLMKNKIENLSE--TPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLP  557 (863)
Q Consensus       480 ~~~~~~~~~~~~~~~~lr~L~l~~~~~~~l~~--~~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~lp  557 (863)
                      .+.....+|. ...++++.|++++|.+..++.  +..+++|++|++++|.++.+++..|..+++|++|++++|.+.+..|
T Consensus        15 ~~~~l~~~p~-~~~~~l~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~   93 (177)
T 2o6r_A           15 NSKGLTSVPT-GIPSSATRLELESNKLQSLPHGVFDKLTQLTKLSLSQNQIQSLPDGVFDKLTKLTILYLHENKLQSLPN   93 (177)
T ss_dssp             CSSCCSSCCT-TCCTTCSEEECCSSCCCCCCTTTTTTCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCT
T ss_pred             cCCCCccCCC-CCCCCCcEEEeCCCcccEeCHHHhcCcccccEEECCCCcceEeChhHccCCCccCEEECCCCCccccCH
Confidence            3334444442 234689999999999988764  4789999999999999999998888999999999999996554444


Q ss_pred             ccccccCCCCeEEccCCCccccchh-hhcCCCCCEEecCCccc
Q 048126          558 SGISTLVSLEHLDLSGTAITHLPIE-LQKLVNLKCLNLEYMYN  599 (863)
Q Consensus       558 ~~i~~l~~L~~L~L~~~~l~~lp~~-~~~l~~L~~L~l~~~~~  599 (863)
                      ..+..+++|++|++++|.++.+|.. +..+++|++|++++|+.
T Consensus        94 ~~~~~l~~L~~L~l~~N~l~~~~~~~~~~l~~L~~L~l~~N~~  136 (177)
T 2o6r_A           94 GVFDKLTQLKELALDTNQLKSVPDGIFDRLTSLQKIWLHTNPW  136 (177)
T ss_dssp             TTTTTCTTCCEEECCSSCCSCCCTTTTTTCTTCCEEECCSSCB
T ss_pred             HHhhCCcccCEEECcCCcceEeCHHHhcCCcccCEEEecCCCe
Confidence            5578999999999999999999876 57899999999999854

>3sb4_A Hypothetical leucine rich repeat protein; LRR, right-handed beta-alpha superhelix, leucine-rich repeat structural genomics; HET: MSE PG4; 1.99A {Bacteroides thetaiotaomicron}

Probab=99.03  E-value=7.1e-10  Score=118.79  Aligned_cols=283  Identities=13%  Similarity=0.073  Sum_probs=147.1

Q ss_pred             ccceEEEEeccccc-cccccCCC-CCccceEEccCCccc--cccchhhhcCCCccEEEccCCCccccCC-ccccc-----
Q 048126          493 WRNVRRMSLMKNKI-ENLSETPT-CPHLLSLFLSDNSLK--MIAGDFFQFMPSLRVFNMSNNHLLWKLP-SGIST-----  562 (863)
Q Consensus       493 ~~~lr~L~l~~~~~-~~l~~~~~-~~~L~~L~l~~~~l~--~~~~~~~~~l~~L~~L~L~~~~~~~~lp-~~i~~-----  562 (863)
                      +.+++.|.+.++-- ..+..+.. +++|++|+|++|.+.  ......   ++.++++.+..+    .+| ..+.+     
T Consensus        24 ~~~l~~L~l~g~i~~~~~~~l~~~l~~L~~LdLs~n~i~~~~~~~~~---~~~~~~~~~~~~----~I~~~aF~~~~~~~   96 (329)
T 3sb4_A           24 ANSITHLTLTGKLNAEDFRHLRDEFPSLKVLDISNAEIKMYSGKAGT---YPNGKFYIYMAN----FVPAYAFSNVVNGV   96 (329)
T ss_dssp             HHHCSEEEEEEEECHHHHHHHHHSCTTCCEEEEEEEEECCEEESSSS---SGGGCCEEECTT----EECTTTTEEEETTE
T ss_pred             hCceeEEEEeccccHHHHHHHHHhhccCeEEecCcceeEEecCcccc---cccccccccccc----ccCHHHhccccccc
Confidence            45677777765311 11222222 778888888888776  222222   222444444444    122 23444     


Q ss_pred             ---cCCCCeEEccCCCccccchh-hhcCCCCCEEecCCccccCCCcHHHhhcCCCCcEEEeeccccccCchhhHHHHHcC
Q 048126          563 ---LVSLEHLDLSGTAITHLPIE-LQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRILKSNVLFGGHQFLVEELMG  638 (863)
Q Consensus       563 ---l~~L~~L~L~~~~l~~lp~~-~~~l~~L~~L~l~~~~~l~~lp~~~~~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~  638 (863)
                         +.+|+.|+|.. .++.++.. |..|++|+.|++.++ .+..++...+..+.++..+..................+.+
T Consensus        97 ~~g~~~L~~l~L~~-~i~~I~~~aF~~~~~L~~l~l~~n-~i~~i~~~aF~~~~~l~~l~~~~~~~~~~~~~i~~~~f~~  174 (329)
T 3sb4_A           97 TKGKQTLEKVILSE-KIKNIEDAAFKGCDNLKICQIRKK-TAPNLLPEALADSVTAIFIPLGSSDAYRFKNRWEHFAFIE  174 (329)
T ss_dssp             EEECTTCCC-CBCT-TCCEECTTTTTTCTTCCEEEBCCS-SCCEECTTSSCTTTCEEEECTTCTHHHHTSTTTTTSCEEE
T ss_pred             ccccCCCcEEECCc-cccchhHHHhhcCcccceEEcCCC-CccccchhhhcCCCceEEecCcchhhhhcccccccccccc
Confidence               77777777777 67666553 677777777777766 4455665556655555555443211100000000001222


Q ss_pred             CccCc-eEEEEEcChHHHHHHhhh-hhhhhcceeeeeccccCCCcccccchh-hcCCCceEEEcCCcccccceecccccc
Q 048126          639 MKHLM-ALTITLKSWEALQELLIS-QELQRCTQSLFLRCFNDSKSLDIFCLA-CLHNLNKLYVAGRKHLEDFQMTVQRSS  715 (863)
Q Consensus       639 L~~L~-~L~l~~~~~~~~~~l~~~-~~~~~~L~~L~l~~~~~~~~~~~~~l~-~~~~L~~L~l~~~~~~~~l~~~~~~~~  715 (863)
                      +..|+ .+.+.  ....++..... .....++..+.+.+.  ........+. .+++|+.|++.++. ++.++...+   
T Consensus       175 ~~~L~~~i~~~--~~~~l~~~~~~~~~~~~~~~~l~~~~~--l~~~~~~~l~~~~~~L~~l~L~~n~-i~~I~~~aF---  246 (329)
T 3sb4_A          175 GEPLETTIQVG--AMGKLEDEIMKAGLQPRDINFLTIEGK--LDNADFKLIRDYMPNLVSLDISKTN-ATTIPDFTF---  246 (329)
T ss_dssp             SCCCEEEEEEC--TTCCHHHHHHHTTCCGGGCSEEEEEEC--CCHHHHHHHHHHCTTCCEEECTTBC-CCEECTTTT---
T ss_pred             ccccceeEEec--CCCcHHHHHhhcccCccccceEEEeee--ecHHHHHHHHHhcCCCeEEECCCCC-cceecHhhh---
Confidence            33343 22222  22222222111 111234444444432  1111111122 36788888888754 444544443   


Q ss_pred             ccccccccCcccEEEEeccCCCCCCc--hhhccCCCc-EEEEeccccchhhccccccccccCCCCCCCCcCCccceeccC
Q 048126          716 VNQLARGFHSLHTVKVGFCFKLKDLT--WLVFAPSLK-SIVVLSCCNMEQIIKAEKLSQLHHHPERKKSVFAKLQFLSLE  792 (863)
Q Consensus       716 ~~~~~~~l~~L~~L~L~~c~~l~~l~--~l~~l~~L~-~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~~~p~L~~L~l~  792 (863)
                           ..+++|++|+|.+.  ++.++  .+..+++|+ .|.+.+  .++.+.            ...+.++++|+.|.+.
T Consensus       247 -----~~~~~L~~l~l~~n--i~~I~~~aF~~~~~L~~~l~l~~--~l~~I~------------~~aF~~c~~L~~l~l~  305 (329)
T 3sb4_A          247 -----AQKKYLLKIKLPHN--LKTIGQRVFSNCGRLAGTLELPA--SVTAIE------------FGAFMGCDNLRYVLAT  305 (329)
T ss_dssp             -----TTCTTCCEEECCTT--CCEECTTTTTTCTTCCEEEEECT--TCCEEC------------TTTTTTCTTEEEEEEC
T ss_pred             -----hCCCCCCEEECCcc--cceehHHHhhCChhccEEEEEcc--cceEEc------------hhhhhCCccCCEEEeC
Confidence                 34788888888773  66555  356778888 888876  455552            2467778889999886


Q ss_pred             CCccccccccC-CCCCCCcceEe
Q 048126          793 NLRNLCCINWE-ALAFPNLKEIR  814 (863)
Q Consensus       793 ~~~~L~~i~~~-~~~~p~L~~L~  814 (863)
                      + .+++.+... ...+++|+.|.
T Consensus       306 ~-n~i~~I~~~aF~~~~~L~~ly  327 (329)
T 3sb4_A          306 G-DKITTLGDELFGNGVPSKLIY  327 (329)
T ss_dssp             S-SCCCEECTTTTCTTCCCCEEE
T ss_pred             C-CccCccchhhhcCCcchhhhc
Confidence            5 466776653 33466777664

>2r9u_A Variable lymphocyte receptor; adaptive immunity, VLR, leucine-rich repeat, LRR, system; 2.10A {Petromyzon marinus}

Probab=99.02  E-value=7.1e-10  Score=106.42  Aligned_cols=98  Identities=18%  Similarity=0.340  Sum_probs=49.4

Q ss_pred             EEEeccccccccccCCCCCccceEEccCCccccccchhhhcCCCccEEEccCCCccccCCcc-ccccCCCCeEEccCCCc
Q 048126          498 RMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSG-ISTLVSLEHLDLSGTAI  576 (863)
Q Consensus       498 ~L~l~~~~~~~l~~~~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~-i~~l~~L~~L~L~~~~l  576 (863)
                      .++++++.+..+|... .++|+.|++++|.+..+++..|.++++|++|+|++|. +..+|.. +.++++|++|+|++|.|
T Consensus        16 ~l~~~~n~l~~iP~~~-~~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls~N~-l~~i~~~~~~~l~~L~~L~L~~N~l   93 (174)
T 2r9u_A           16 LVNCQNIRLASVPAGI-PTDKQRLWLNNNQITKLEPGVFDHLVNLQQLYFNSNK-LTAIPTGVFDKLTQLTQLDLNDNHL   93 (174)
T ss_dssp             EEECCSSCCSSCCSCC-CTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSSC-CCCCCTTTTTTCTTCCEEECCSSCC
T ss_pred             EEEeCCCCCCccCCCc-CCCCcEEEeCCCCccccCHHHhcCCcCCCEEECCCCC-CCccChhHhCCcchhhEEECCCCcc
Confidence            4455555554444321 2455555555555555554445555555555555552 2233332 34555555555555555


Q ss_pred             cccchh-hhcCCCCCEEecCCc
Q 048126          577 THLPIE-LQKLVNLKCLNLEYM  597 (863)
Q Consensus       577 ~~lp~~-~~~l~~L~~L~l~~~  597 (863)
                      +.+|.. +..+++|++|++++|
T Consensus        94 ~~l~~~~~~~l~~L~~L~L~~N  115 (174)
T 2r9u_A           94 KSIPRGAFDNLKSLTHIYLYNN  115 (174)
T ss_dssp             CCCCTTTTTTCTTCSEEECCSS
T ss_pred             ceeCHHHhccccCCCEEEeCCC
Confidence            555543 555555555555554

>2r9u_A Variable lymphocyte receptor; adaptive immunity, VLR, leucine-rich repeat, LRR, system; 2.10A {Petromyzon marinus}

Probab=99.02  E-value=6.7e-10  Score=106.62  Aligned_cols=105  Identities=18%  Similarity=0.239  Sum_probs=92.1

Q ss_pred             cceEEccCCccccccchhhhcCCCccEEEccCCCccccCCccccccCCCCeEEccCCCccccchh-hhcCCCCCEEecCC
Q 048126          518 LLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAITHLPIE-LQKLVNLKCLNLEY  596 (863)
Q Consensus       518 L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~~~l~~lp~~-~~~l~~L~~L~l~~  596 (863)
                      -+.+++++|.+..+|..+   .++|++|+|++|.+.+..|..++++++|++|+|++|+|+.+|.. +.++++|++|++++
T Consensus        14 ~~~l~~~~n~l~~iP~~~---~~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~i~~~~~~~l~~L~~L~L~~   90 (174)
T 2r9u_A           14 QTLVNCQNIRLASVPAGI---PTDKQRLWLNNNQITKLEPGVFDHLVNLQQLYFNSNKLTAIPTGVFDKLTQLTQLDLND   90 (174)
T ss_dssp             SSEEECCSSCCSSCCSCC---CTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCS
T ss_pred             CcEEEeCCCCCCccCCCc---CCCCcEEEeCCCCccccCHHHhcCCcCCCEEECCCCCCCccChhHhCCcchhhEEECCC
Confidence            378999999999998764   38899999999966655688899999999999999999999886 58999999999999


Q ss_pred             ccccCCCcHHHhhcCCCCcEEEeecccccc
Q 048126          597 MYNLNQFPRLVMSAFSKLQVLRILKSNVLF  626 (863)
Q Consensus       597 ~~~l~~lp~~~~~~L~~L~~L~l~~~~~~~  626 (863)
                      | .+..+|...+..+++|++|++.+|.+..
T Consensus        91 N-~l~~l~~~~~~~l~~L~~L~L~~N~~~c  119 (174)
T 2r9u_A           91 N-HLKSIPRGAFDNLKSLTHIYLYNNPWDC  119 (174)
T ss_dssp             S-CCCCCCTTTTTTCTTCSEEECCSSCBCT
T ss_pred             C-ccceeCHHHhccccCCCEEEeCCCCccc
Confidence            8 6788988778899999999999987653

>3g39_A Variable lymphocyte receptor VLRB.2D; antibody, X-RAY, crystallography, immune system; 1.55A {Petromyzon marinus} PDB: 3g3a_A 3g3b_A 3twi_D

Probab=99.01  E-value=7.6e-10  Score=105.86  Aligned_cols=102  Identities=24%  Similarity=0.320  Sum_probs=56.9

Q ss_pred             ceEEccCCccccccchhhhcCCCccEEEccCCCccccCCccccccCCCCeEEccCCCccccchh-hhcCCCCCEEecCCc
Q 048126          519 LSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAITHLPIE-LQKLVNLKCLNLEYM  597 (863)
Q Consensus       519 ~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~~~l~~lp~~-~~~l~~L~~L~l~~~  597 (863)
                      +.+++++|.++.+|..+   .++|++|+|++|.+.+..|..+.++++|++|+|++|+|+.+|.. +..+++|++|++++|
T Consensus        12 ~~l~~s~n~l~~ip~~~---~~~l~~L~L~~N~i~~~~~~~~~~l~~L~~L~Ls~N~l~~l~~~~f~~l~~L~~L~L~~N   88 (170)
T 3g39_A           12 TTVDCSGKSLASVPTGI---PTTTQVLYLYDNQITKLEPGVFDRLTQLTRLDLDNNQLTVLPAGVFDKLTQLTQLSLNDN   88 (170)
T ss_dssp             TEEECTTSCCSSCCSCC---CTTCSEEECCSSCCCCCCTTTTTTCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSS
T ss_pred             CEEEeCCCCcCccCccC---CCCCcEEEcCCCcCCccChhhhcCcccCCEEECCCCCcCccChhhccCCCCCCEEECCCC
Confidence            45555555555555432   24556666666643333355555666666666666666655544 355666666666665


Q ss_pred             cccCCCcHHHhhcCCCCcEEEeecccc
Q 048126          598 YNLNQFPRLVMSAFSKLQVLRILKSNV  624 (863)
Q Consensus       598 ~~l~~lp~~~~~~L~~L~~L~l~~~~~  624 (863)
                       .+..+|...+..+++|++|++.+|..
T Consensus        89 -~l~~~~~~~~~~l~~L~~L~L~~N~~  114 (170)
T 3g39_A           89 -QLKSIPRGAFDNLKSLTHIWLLNNPW  114 (170)
T ss_dssp             -CCCCCCTTTTTTCTTCCEEECCSSCB
T ss_pred             -ccCEeCHHHhcCCCCCCEEEeCCCCC
Confidence             44555554455566666666665544

>3g39_A Variable lymphocyte receptor VLRB.2D; antibody, X-RAY, crystallography, immune system; 1.55A {Petromyzon marinus} PDB: 3g3a_A 3g3b_A 3twi_D

Probab=99.00  E-value=1.1e-09  Score=104.58  Aligned_cols=102  Identities=17%  Similarity=0.217  Sum_probs=88.2

Q ss_pred             eEEEEeccccccccccCCCCCccceEEccCCccccccchhhhcCCCccEEEccCCCccccCCccccccCCCCeEEccCCC
Q 048126          496 VRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGTA  575 (863)
Q Consensus       496 lr~L~l~~~~~~~l~~~~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~~~  575 (863)
                      .+.+++++|.+..+|... .++|++|++++|.++.+++..|.++++|++|+|++|.+....|..+..+++|++|+|++|.
T Consensus        11 ~~~l~~s~n~l~~ip~~~-~~~l~~L~L~~N~i~~~~~~~~~~l~~L~~L~Ls~N~l~~l~~~~f~~l~~L~~L~L~~N~   89 (170)
T 3g39_A           11 GTTVDCSGKSLASVPTGI-PTTTQVLYLYDNQITKLEPGVFDRLTQLTRLDLDNNQLTVLPAGVFDKLTQLTQLSLNDNQ   89 (170)
T ss_dssp             TTEEECTTSCCSSCCSCC-CTTCSEEECCSSCCCCCCTTTTTTCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSSC
T ss_pred             CCEEEeCCCCcCccCccC-CCCCcEEEcCCCcCCccChhhhcCcccCCEEECCCCCcCccChhhccCCCCCCEEECCCCc
Confidence            467899999988887533 4899999999999999988889999999999999995553334456899999999999999


Q ss_pred             ccccchh-hhcCCCCCEEecCCcc
Q 048126          576 ITHLPIE-LQKLVNLKCLNLEYMY  598 (863)
Q Consensus       576 l~~lp~~-~~~l~~L~~L~l~~~~  598 (863)
                      |+.+|.. +..+++|++|++++|+
T Consensus        90 l~~~~~~~~~~l~~L~~L~L~~N~  113 (170)
T 3g39_A           90 LKSIPRGAFDNLKSLTHIWLLNNP  113 (170)
T ss_dssp             CCCCCTTTTTTCTTCCEEECCSSC
T ss_pred             cCEeCHHHhcCCCCCCEEEeCCCC
Confidence            9999875 8999999999999984

>3qfl_A MLA10; coiled-coil, (CC) domain, NLRS, nucleotide-binding domain, L rich repeat containing receptors, protein binding; 2.00A {Hordeum vulgare}

Probab=98.96  E-value=2.4e-09  Score=93.58  Aligned_cols=63  Identities=10%  Similarity=0.111  Sum_probs=55.0

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHhh-hhchhhHHHHHHHHHHHHHHHHHHHHhhhhhhc
Q 048126            8 NLPALQAQLQKLIESENDVMARVANAENQQ-MRQLNTVQGWLSRVEAVETEVGELMRDSSQEVD   70 (863)
Q Consensus         8 ~~~~l~~~l~~l~~~l~~i~~~~~~ae~~~-~~~~~~v~~wl~~l~~~~y~~ed~~d~~~~~~~   70 (863)
                      -+..++++++.|+..|..|++++.+|+.+. ...++.++.|+++||+++||+||+||+|.++..
T Consensus        20 l~~gv~~~i~~Lk~eL~~m~a~L~da~~~~~~~~d~~vk~W~~~vrdlaYD~ED~iD~f~~~~~   83 (115)
T 3qfl_A           20 LHKGVKKNIEDLGKELESMNAALIKIGEVPREQLDSQDKLWADEVRELSYVIEDVVDKFLVQVD   83 (115)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHTTSCGGGCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHhchHHHHHHHHHHHHHHHHHHHHHHHhccccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            346788999999999999999999999873 224588999999999999999999999998875

>1sxj_B Activator 1 37 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=98.94  E-value=2.8e-09  Score=113.89  Aligned_cols=184  Identities=14%  Similarity=0.146  Sum_probs=114.0

Q ss_pred             CCccchhHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCC-EEEEEEeCCccCHHHHHHHHHHHhC
Q 048126          126 EPTVGLESMFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFD-VVIWVVVSKDLQLEKIQEKIGRRIG  204 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~-~~~wv~~s~~~~~~~~~~~i~~~l~  204 (863)
                      ..++|++..++.+.+++..+..+.+.|+|++|+||||+|+.+++...  ...+. ..+++..+...+...+ +.++..+.
T Consensus        21 ~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~--~~~~~~~~~~~~~~~~~~~~~i-~~~~~~~~   97 (323)
T 1sxj_B           21 SDIVGNKETIDRLQQIAKDGNMPHMIISGMPGIGKTTSVHCLAHELL--GRSYADGVLELNASDDRGIDVV-RNQIKHFA   97 (323)
T ss_dssp             GGCCSCTHHHHHHHHHHHSCCCCCEEEECSTTSSHHHHHHHHHHHHH--GGGHHHHEEEECTTSCCSHHHH-HTHHHHHH
T ss_pred             HHHHCCHHHHHHHHHHHHcCCCCeEEEECcCCCCHHHHHHHHHHHhc--CCcccCCEEEecCccccChHHH-HHHHHHHH
Confidence            45899999999999999877655589999999999999999998851  11111 2344444433232222 12222111


Q ss_pred             CCCccccCCChhHHHHHHHHHh-ccCcEEEEEeccCCc--cccccccCCCCCCCCCcEEEEecCchhh-hhc-ccccceE
Q 048126          205 FLDESWKNGSLEDKASDILRIL-SKKKFLLLLDDIWER--VDLTKVGVPFPDPENKSKIVFTTRFLEI-CGA-MKAHEFL  279 (863)
Q Consensus       205 ~~~~~~~~~~~~~~~~~l~~~l-~~kr~LlVlDdv~~~--~~~~~~~~~l~~~~~gs~IivTtR~~~v-~~~-~~~~~~~  279 (863)
                      ...                ..+ .+++.++|+||++..  ..+..+...+.....++++|+||+...- ... ......+
T Consensus        98 ~~~----------------~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~il~~~~~~~l~~~l~sr~~~i  161 (323)
T 1sxj_B           98 QKK----------------LHLPPGKHKIVILDEADSMTAGAQQALRRTMELYSNSTRFAFACNQSNKIIEPLQSQCAIL  161 (323)
T ss_dssp             HBC----------------CCCCTTCCEEEEEESGGGSCHHHHHTTHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSEEE
T ss_pred             hcc----------------ccCCCCCceEEEEECcccCCHHHHHHHHHHHhccCCCceEEEEeCChhhchhHHHhhceEE
Confidence            000                001 346889999999863  2233333333233456788888866432 111 1122478


Q ss_pred             eecCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCCchhH-HHHHHH
Q 048126          280 KVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGLPLA-LITIGR  331 (863)
Q Consensus       280 ~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPla-i~~~~~  331 (863)
                      .+.+++.++..+++...+......   --.+....|++.++|.|.. +..+..
T Consensus       162 ~~~~~~~~~~~~~l~~~~~~~~~~---~~~~~~~~l~~~~~G~~r~a~~~l~~  211 (323)
T 1sxj_B          162 RYSKLSDEDVLKRLLQIIKLEDVK---YTNDGLEAIIFTAEGDMRQAINNLQS  211 (323)
T ss_dssp             ECCCCCHHHHHHHHHHHHHHHTCC---BCHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             eecCCCHHHHHHHHHHHHHHcCCC---CCHHHHHHHHHHcCCCHHHHHHHHHH
Confidence            999999999999999876533211   1245678899999999954 444443

>1hqc_A RUVB; extended AAA-ATPase domain, complex with nucleotide, hydrolase; HET: ADE; 3.20A {Thermus thermophilus} SCOP: a.4.5.11 c.37.1.20 PDB: 1ixs_B* 1ixr_C*

Probab=98.90  E-value=4.2e-08  Score=104.71  Aligned_cols=271  Identities=16%  Similarity=0.106  Sum_probs=143.5

Q ss_pred             CCccchhHHHHHHHHHhcC-----CCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHH
Q 048126          126 EPTVGLESMFDKVWRCLGE-----EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIG  200 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~-----~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~  200 (863)
                      ..+||++..++.+.+++..     .....+.|+|++|+|||++|+.+++..   ...   .+++.++.......+...+.
T Consensus        12 ~~~ig~~~~~~~l~~~l~~~~~~~~~~~~vll~G~~GtGKT~la~~i~~~~---~~~---~~~~~~~~~~~~~~l~~~l~   85 (324)
T 1hqc_A           12 DEYIGQERLKQKLRVYLEAAKARKEPLEHLLLFGPPGLGKTTLAHVIAHEL---GVN---LRVTSGPAIEKPGDLAAILA   85 (324)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHHCSCCCCCEEECCTTCCCHHHHHHHHHHH---TCC---EEEECTTTCCSHHHHHHHHT
T ss_pred             HHhhCHHHHHHHHHHHHHHHHccCCCCCcEEEECCCCCCHHHHHHHHHHHh---CCC---EEEEeccccCChHHHHHHHH
Confidence            5689999999998888752     244678899999999999999999887   222   23444433322222221111


Q ss_pred             HHhCCCCccccCCChhHHHHHHHHHhccCcEEEEEeccCCccc--cccccCCCC--------C----------CCCCcEE
Q 048126          201 RRIGFLDESWKNGSLEDKASDILRILSKKKFLLLLDDIWERVD--LTKVGVPFP--------D----------PENKSKI  260 (863)
Q Consensus       201 ~~l~~~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~--~~~~~~~l~--------~----------~~~gs~I  260 (863)
                      .                       . ..++.+|++||++....  ...+...+.        .          ...+.++
T Consensus        86 ~-----------------------~-~~~~~~l~lDEi~~l~~~~~~~L~~~l~~~~~~~v~~~~~~~~~~~~~~~~~~~  141 (324)
T 1hqc_A           86 N-----------------------S-LEEGDILFIDEIHRLSRQAEEHLYPAMEDFVMDIVIGQGPAARTIRLELPRFTL  141 (324)
T ss_dssp             T-----------------------T-CCTTCEEEETTTTSCCHHHHHHHHHHHHHSEEEECCSSSSSCCCEEEECCCCEE
T ss_pred             H-----------------------h-ccCCCEEEEECCcccccchHHHHHHHHHhhhhHHhccccccccccccCCCCEEE
Confidence            0                       0 12456778888865321  111100000        0          0123456


Q ss_pred             EEecCchh-hhhccc--ccceEeecCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCCchhHHHHHHHHhcC--
Q 048126          261 VFTTRFLE-ICGAMK--AHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGLPLALITIGRAMTC--  335 (863)
Q Consensus       261 ivTtR~~~-v~~~~~--~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPlai~~~~~~l~~--  335 (863)
                      |.||.... +...+.  ....+.+.+++.++..+++.+.+.....   .--.+....+++.++|.|..+..+...+..  
T Consensus       142 i~~t~~~~~~~~~l~~R~~~~i~l~~~~~~e~~~~l~~~~~~~~~---~~~~~~~~~l~~~~~G~~r~l~~~l~~~~~~a  218 (324)
T 1hqc_A          142 IGATTRPGLITAPLLSRFGIVEHLEYYTPEELAQGVMRDARLLGV---RITEEAALEIGRRSRGTMRVAKRLFRRVRDFA  218 (324)
T ss_dssp             EEEESCCSSCSCSTTTTCSCEEECCCCCHHHHHHHHHHHHHTTTC---CCCHHHHHHHHHHSCSCHHHHHHHHHHHTTTS
T ss_pred             EEeCCCcccCCHHHHhcccEEEecCCCCHHHHHHHHHHHHHhcCC---CCCHHHHHHHHHHccCCHHHHHHHHHHHHHHH
Confidence            66665432 211111  1247899999999999999887754321   122467889999999999888776655421  


Q ss_pred             ----C--CChhHHHHHHHHHHhcCCCCCCCcchhhhhhhhhcCCCCchhhHHHHhHhccCCCCccccHHhHH----HHHH
Q 048126          336 ----K--KTTQEWHHAIQILRRSSSEFPGMGKEVYPLLKFSYDSLPDDTIRSCFLYCGLFPEDYRIRKSELI----DCWI  405 (863)
Q Consensus       336 ----~--~~~~~w~~~l~~l~~~~~~~~~~~~~~~~~l~~sy~~L~~~~~k~cfl~~~~fp~~~~i~~~~li----~~w~  405 (863)
                          .  -+.+....++..+..........+..+...+.-.|..-+. .....--.++       +++..+.    .+-+
T Consensus       219 ~~~~~~~i~~~~~~~~~~~~~~~~~~l~~~e~~~i~~~~~~~~g~~~-~~~~~a~~lg-------i~~~tl~~~l~~~~i  290 (324)
T 1hqc_A          219 QVAGEEVITRERALEALAALGLDELGLEKRDREILEVLILRFGGGPV-GLATLATALS-------EDPGTLEEVHEPYLI  290 (324)
T ss_dssp             TTTSCSCCCHHHHHHHHHHHTCCTTCCCHHHHHHHHHHHHHSCSSCC-CHHHHHHHTT-------SCHHHHHHHTHHHHH
T ss_pred             HHhcCCCCCHHHHHHHHHHhcccccCCCHHHHHHHHHHHHHhcCCCc-hHHHHHHHhC-------CCHHHHHHHHhHHHH
Confidence                1  2344444444433211111111111122222222222121 1222222222       3333332    2456


Q ss_pred             hcCCCCCcc-cchhhhhHHHHHH-HHHHhccccc
Q 048126          406 GEGFLDQYD-RSGAYNEGYYIIG-ILLHACLLEE  437 (863)
Q Consensus       406 a~g~i~~~~-~~~~~~~~~~~~~-~L~~~sll~~  437 (863)
                      ..|++.... +....+.|..|++ ++.+|+|+|+
T Consensus       291 ~~~li~~~~~g~~~~~~~~~~~~~~~~~~~~~~~  324 (324)
T 1hqc_A          291 RQGLLKRTPRGRVPTELAYRHLGYPPPVGPLLEP  324 (324)
T ss_dssp             HTTSEEEETTEEEECHHHHHHTTCCCCC------
T ss_pred             HhcchhcCCccceecHHHHHHHhcCCCCCCCCCC
Confidence            678887554 6667788899987 8888988885

>3sb4_A Hypothetical leucine rich repeat protein; LRR, right-handed beta-alpha superhelix, leucine-rich repeat structural genomics; HET: MSE PG4; 1.99A {Bacteroides thetaiotaomicron}

Probab=98.77  E-value=2.1e-08  Score=107.23  Aligned_cols=263  Identities=13%  Similarity=0.085  Sum_probs=172.5

Q ss_pred             ccceEEEEecccccccccc-CCCCCccceEEccCCccccccchhhhc--------CCCccEEEccCCCccccCCcccccc
Q 048126          493 WRNVRRMSLMKNKIENLSE-TPTCPHLLSLFLSDNSLKMIAGDFFQF--------MPSLRVFNMSNNHLLWKLPSGISTL  563 (863)
Q Consensus       493 ~~~lr~L~l~~~~~~~l~~-~~~~~~L~~L~l~~~~l~~~~~~~~~~--------l~~L~~L~L~~~~~~~~lp~~i~~l  563 (863)
                      +++++.|++++|.+..+.. ...++.++.+.+..+   .+|...|.+        |++|+.|+|.++ ....-+..+.++
T Consensus        48 l~~L~~LdLs~n~i~~~~~~~~~~~~~~~~~~~~~---~I~~~aF~~~~~~~~~g~~~L~~l~L~~~-i~~I~~~aF~~~  123 (329)
T 3sb4_A           48 FPSLKVLDISNAEIKMYSGKAGTYPNGKFYIYMAN---FVPAYAFSNVVNGVTKGKQTLEKVILSEK-IKNIEDAAFKGC  123 (329)
T ss_dssp             CTTCCEEEEEEEEECCEEESSSSSGGGCCEEECTT---EECTTTTEEEETTEEEECTTCCC-CBCTT-CCEECTTTTTTC
T ss_pred             hccCeEEecCcceeEEecCcccccccccccccccc---ccCHHHhcccccccccccCCCcEEECCcc-ccchhHHHhhcC
Confidence            5689999999999873211 123333555655555   567777888        999999999984 554445678899


Q ss_pred             CCCCeEEccCCCccccchh-hhcCCCCCEEecCCcc---ccCCCcHHHhhcCCCCc-EEEeeccccccCchhhHHHHHcC
Q 048126          564 VSLEHLDLSGTAITHLPIE-LQKLVNLKCLNLEYMY---NLNQFPRLVMSAFSKLQ-VLRILKSNVLFGGHQFLVEELMG  638 (863)
Q Consensus       564 ~~L~~L~L~~~~l~~lp~~-~~~l~~L~~L~l~~~~---~l~~lp~~~~~~L~~L~-~L~l~~~~~~~~~~~~~~~~l~~  638 (863)
                      .+|+.|++..+.+..++.. +..+.++..+......   ....+....+..+.+|+ .+.+......   ..........
T Consensus       124 ~~L~~l~l~~n~i~~i~~~aF~~~~~l~~l~~~~~~~~~~~~~i~~~~f~~~~~L~~~i~~~~~~~l---~~~~~~~~~~  200 (329)
T 3sb4_A          124 DNLKICQIRKKTAPNLLPEALADSVTAIFIPLGSSDAYRFKNRWEHFAFIEGEPLETTIQVGAMGKL---EDEIMKAGLQ  200 (329)
T ss_dssp             TTCCEEEBCCSSCCEECTTSSCTTTCEEEECTTCTHHHHTSTTTTTSCEEESCCCEEEEEECTTCCH---HHHHHHTTCC
T ss_pred             cccceEEcCCCCccccchhhhcCCCceEEecCcchhhhhccccccccccccccccceeEEecCCCcH---HHHHhhcccC
Confidence            9999999999988877654 7777777777665421   12233333355666776 4444322211   0112222234


Q ss_pred             CccCceEEEEEcChH-HHHHHhhhhhhhhcceeeeeccccCCCcccccchhhcCCCceEEEcCCcccccceecccccccc
Q 048126          639 MKHLMALTITLKSWE-ALQELLISQELQRCTQSLFLRCFNDSKSLDIFCLACLHNLNKLYVAGRKHLEDFQMTVQRSSVN  717 (863)
Q Consensus       639 L~~L~~L~l~~~~~~-~~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~l~~~~~~~~~~  717 (863)
                      ..++..+.+...-.. ....+   ...+++|+.|+|.++. .+.++-.++..+++|+.|.+.++  ++.+....+     
T Consensus       201 ~~~~~~l~~~~~l~~~~~~~l---~~~~~~L~~l~L~~n~-i~~I~~~aF~~~~~L~~l~l~~n--i~~I~~~aF-----  269 (329)
T 3sb4_A          201 PRDINFLTIEGKLDNADFKLI---RDYMPNLVSLDISKTN-ATTIPDFTFAQKKYLLKIKLPHN--LKTIGQRVF-----  269 (329)
T ss_dssp             GGGCSEEEEEECCCHHHHHHH---HHHCTTCCEEECTTBC-CCEECTTTTTTCTTCCEEECCTT--CCEECTTTT-----
T ss_pred             ccccceEEEeeeecHHHHHHH---HHhcCCCeEEECCCCC-cceecHhhhhCCCCCCEEECCcc--cceehHHHh-----
Confidence            567777777654221 11111   1234689999998643 55666677899999999999875  665655544     


Q ss_pred             ccccccCccc-EEEEeccCCCCCCc--hhhccCCCcEEEEeccccchhhccccccccccCCCCCCCCcCCccceecc
Q 048126          718 QLARGFHSLH-TVKVGFCFKLKDLT--WLVFAPSLKSIVVLSCCNMEQIIKAEKLSQLHHHPERKKSVFAKLQFLSL  791 (863)
Q Consensus       718 ~~~~~l~~L~-~L~L~~c~~l~~l~--~l~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~~~p~L~~L~l  791 (863)
                         ..+++|+ .|.|.+  .++.++  .+..+++|+.|++.. +.++.+.            ...+.++++|+.+..
T Consensus       270 ---~~~~~L~~~l~l~~--~l~~I~~~aF~~c~~L~~l~l~~-n~i~~I~------------~~aF~~~~~L~~ly~  328 (329)
T 3sb4_A          270 ---SNCGRLAGTLELPA--SVTAIEFGAFMGCDNLRYVLATG-DKITTLG------------DELFGNGVPSKLIYK  328 (329)
T ss_dssp             ---TTCTTCCEEEEECT--TCCEECTTTTTTCTTEEEEEECS-SCCCEEC------------TTTTCTTCCCCEEEC
T ss_pred             ---hCChhccEEEEEcc--cceEEchhhhhCCccCCEEEeCC-CccCccc------------hhhhcCCcchhhhcc
Confidence               3588999 999988  566665  466889999999976 4566663            246778899998864

>1iqp_A RFCS; clamp loader, extended AAA-ATPase domain, complex with ADP, replication; HET: ADP; 2.80A {Pyrococcus furiosus} SCOP: a.80.1.1 c.37.1.20

Probab=98.77  E-value=1.7e-08  Score=107.97  Aligned_cols=186  Identities=15%  Similarity=0.141  Sum_probs=113.5

Q ss_pred             CCccchhHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCC-CEEEEEEeCCccCHHHHHHHHHHHhC
Q 048126          126 EPTVGLESMFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDF-DVVIWVVVSKDLQLEKIQEKIGRRIG  204 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F-~~~~wv~~s~~~~~~~~~~~i~~~l~  204 (863)
                      ..++|++..++.+.+++..+..+.+.++|++|+||||+|+.+++...  ...+ ...+.+..+...+...+...+ ..+.
T Consensus        25 ~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~la~~l~~~l~--~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~  101 (327)
T 1iqp_A           25 DDIVGQEHIVKRLKHYVKTGSMPHLLFAGPPGVGKTTAALALARELF--GENWRHNFLELNASDERGINVIREKV-KEFA  101 (327)
T ss_dssp             TTCCSCHHHHHHHHHHHHHTCCCEEEEESCTTSSHHHHHHHHHHHHH--GGGHHHHEEEEETTCHHHHHTTHHHH-HHHH
T ss_pred             HHhhCCHHHHHHHHHHHHcCCCCeEEEECcCCCCHHHHHHHHHHHhc--CCcccCceEEeeccccCchHHHHHHH-HHHH
Confidence            46899999999999999877666699999999999999999998851  1111 123334333221111111111 1100


Q ss_pred             CCCccccCCChhHHHHHHHHHhccCcEEEEEeccCCc--cccccccCCCCCCCCCcEEEEecCchhh-hhc-ccccceEe
Q 048126          205 FLDESWKNGSLEDKASDILRILSKKKFLLLLDDIWER--VDLTKVGVPFPDPENKSKIVFTTRFLEI-CGA-MKAHEFLK  280 (863)
Q Consensus       205 ~~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~--~~~~~~~~~l~~~~~gs~IivTtR~~~v-~~~-~~~~~~~~  280 (863)
                      ...                ....+++.++|+||++..  .....+...+.....++++|+||....- ... ......+.
T Consensus       102 ~~~----------------~~~~~~~~vliiDe~~~l~~~~~~~L~~~le~~~~~~~~i~~~~~~~~l~~~l~sr~~~~~  165 (327)
T 1iqp_A          102 RTK----------------PIGGASFKIIFLDEADALTQDAQQALRRTMEMFSSNVRFILSCNYSSKIIEPIQSRCAIFR  165 (327)
T ss_dssp             HSC----------------CGGGCSCEEEEEETGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHHTEEEEE
T ss_pred             hhC----------------CcCCCCCeEEEEeCCCcCCHHHHHHHHHHHHhcCCCCeEEEEeCCccccCHHHHhhCcEEE
Confidence            000                011256789999999764  2233333223233456788888876432 111 11123688


Q ss_pred             ecCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCCchhHHHHHHHHh
Q 048126          281 VECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGLPLALITIGRAM  333 (863)
Q Consensus       281 l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPlai~~~~~~l  333 (863)
                      +.+++.++..+++...+......   --.+....|++.++|.|..+..+...+
T Consensus       166 ~~~l~~~~~~~~l~~~~~~~~~~---~~~~~~~~l~~~~~g~~r~~~~~l~~~  215 (327)
T 1iqp_A          166 FRPLRDEDIAKRLRYIAENEGLE---LTEEGLQAILYIAEGDMRRAINILQAA  215 (327)
T ss_dssp             CCCCCHHHHHHHHHHHHHTTTCE---ECHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             ecCCCHHHHHHHHHHHHHhcCCC---CCHHHHHHHHHHCCCCHHHHHHHHHHH
Confidence            99999999999998876543211   124567889999999998766554443

>4fdw_A Leucine rich hypothetical protein; putative cell surface protein, BIG3 domain, LRR domain, STRU genomics; 2.05A {Bacteroides ovatus} PDB: 4fd0_A

Probab=98.72  E-value=3.3e-07  Score=100.19  Aligned_cols=102  Identities=20%  Similarity=0.183  Sum_probs=68.1

Q ss_pred             CCCCccceEEccCCccccccchhhhcCCCccEEEccCCCccccCCccccccCCCCeEEccCCCccccchhhhcCCCCCEE
Q 048126          513 PTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAITHLPIELQKLVNLKCL  592 (863)
Q Consensus       513 ~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~~~l~~lp~~~~~l~~L~~L  592 (863)
                      .+| +|+.+.+..+ ++.++...|.++ +|+.+.+..+ ....-+..+.++.+|+.+++..|.++.+|...-...+|+.+
T Consensus       133 ~~~-~L~~i~l~~~-i~~I~~~aF~~~-~L~~i~lp~~-l~~I~~~aF~~c~~L~~l~l~~n~l~~I~~~aF~~~~L~~l  208 (401)
T 4fdw_A          133 RNS-QIAKVVLNEG-LKSIGDMAFFNS-TVQEIVFPST-LEQLKEDIFYYCYNLKKADLSKTKITKLPASTFVYAGIEEV  208 (401)
T ss_dssp             TTC-CCSEEECCTT-CCEECTTTTTTC-CCCEEECCTT-CCEECSSTTTTCTTCCEEECTTSCCSEECTTTTTTCCCSEE
T ss_pred             ccC-CccEEEeCCC-ccEECHHhcCCC-CceEEEeCCC-ccEehHHHhhCcccCCeeecCCCcceEechhhEeecccCEE
Confidence            444 5777777655 667776667664 5777777764 33333456777777888888777777777664446777777


Q ss_pred             ecCCccccCCCcHHHhhcCCCCcEEEee
Q 048126          593 NLEYMYNLNQFPRLVMSAFSKLQVLRIL  620 (863)
Q Consensus       593 ~l~~~~~l~~lp~~~~~~L~~L~~L~l~  620 (863)
                      .+..  .++.++...+.++++|+.+.+.
T Consensus       209 ~lp~--~l~~I~~~aF~~~~~L~~l~l~  234 (401)
T 4fdw_A          209 LLPV--TLKEIGSQAFLKTSQLKTIEIP  234 (401)
T ss_dssp             ECCT--TCCEECTTTTTTCTTCCCEECC
T ss_pred             EeCC--chheehhhHhhCCCCCCEEecC
Confidence            7764  3566666666777777777664

>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

Probab=98.71  E-value=3e-08  Score=107.00  Aligned_cols=99  Identities=18%  Similarity=0.254  Sum_probs=62.6

Q ss_pred             EEeccc-cccccccCCCCCccceEEccC-CccccccchhhhcCCCccEEEccCCCccccCCccccccCCCCeEEccCCCc
Q 048126          499 MSLMKN-KIENLSETPTCPHLLSLFLSD-NSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAI  576 (863)
Q Consensus       499 L~l~~~-~~~~l~~~~~~~~L~~L~l~~-~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~~~l  576 (863)
                      ++.+++ .+..+|.+..+++|+.|+|++ |.+..+++..|.++++|++|+|++|.+.+..|..|++|++|++|+|++|.|
T Consensus        13 v~~~~~n~l~~ip~l~~~~~L~~L~l~~~n~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~l~~L~~L~l~~N~l   92 (347)
T 2ifg_A           13 LRCTRDGALDSLHHLPGAENLTELYIENQQHLQHLELRDLRGLGELRNLTIVKSGLRFVAPDAFHFTPRLSRLNLSFNAL   92 (347)
T ss_dssp             EECCSSCCCTTTTTSCSCSCCSEEECCSCSSCCEECGGGSCSCCCCSEEECCSSCCCEECTTGGGSCSCCCEEECCSSCC
T ss_pred             EEcCCCCCCCccCCCCCCCCeeEEEccCCCCCCCcChhHhccccCCCEEECCCCccceeCHHHhcCCcCCCEEeCCCCcc
Confidence            344554 555565556666677777764 666666666666777777777777755444555666677777777777777


Q ss_pred             cccchhhhcCCCCCEEecCCc
Q 048126          577 THLPIELQKLVNLKCLNLEYM  597 (863)
Q Consensus       577 ~~lp~~~~~l~~L~~L~l~~~  597 (863)
                      +.+|..+....+|+.|++.+|
T Consensus        93 ~~~~~~~~~~~~L~~l~l~~N  113 (347)
T 2ifg_A           93 ESLSWKTVQGLSLQELVLSGN  113 (347)
T ss_dssp             SCCCSTTTCSCCCCEEECCSS
T ss_pred             ceeCHHHcccCCceEEEeeCC
Confidence            666655443334666666665

>3un9_A NLR family member X1; leucine rich repeat (LRR), antiviral signaling, MAVS, TRAF6, UQCRC2, immune system; 2.65A {Homo sapiens}

Probab=98.68  E-value=7.5e-09  Score=112.19  Aligned_cols=157  Identities=15%  Similarity=0.089  Sum_probs=95.4

Q ss_pred             ceEEEEeccccccccc-----cC--CCCCccceEEccCCcccccc-chhhhcCCCccEEEccCCCccccCCccc-----c
Q 048126          495 NVRRMSLMKNKIENLS-----ET--PTCPHLLSLFLSDNSLKMIA-GDFFQFMPSLRVFNMSNNHLLWKLPSGI-----S  561 (863)
Q Consensus       495 ~lr~L~l~~~~~~~l~-----~~--~~~~~L~~L~l~~~~l~~~~-~~~~~~l~~L~~L~L~~~~~~~~lp~~i-----~  561 (863)
                      .++.|++++|.+....     ..  ..+++|+.|+|++|.+.... ..+...+++|++|+|++|.+.......+     .
T Consensus        73 ~L~~L~Ls~n~l~~~~~~~l~~~L~~~~~~L~~L~Ls~n~l~~~~~~~l~~~L~~L~~L~Ls~n~l~~~~~~~L~~~L~~  152 (372)
T 3un9_A           73 SLRQLNLAGVRMTPVKCTVVAAVLGSGRHALDEVNLASCQLDPAGLRTLLPVFLRARKLGLQLNSLGPEACKDLRDLLLH  152 (372)
T ss_dssp             TCCEEECTTSCCCHHHHHHHHHHHSSCSSCEEEEECTTCCCCHHHHHHTHHHHHTEEEEECCSSCCCHHHHHHHHHHHHS
T ss_pred             hCCEEEecCCCCCHHHHHHHHHHHhhCCCCceEEEecCCCCCHHHHHHHHHHHHhccHhhcCCCCCCHHHHHHHHHHHHh
Confidence            5777788777765321     11  23467888888888765332 2223445678888888885433222222     2


Q ss_pred             ccCCCCeEEccCCCccc-----cchhhhcCCCCCEEecCCccccCCC-----cHHHhhcCCCCcEEEeeccccccCchhh
Q 048126          562 TLVSLEHLDLSGTAITH-----LPIELQKLVNLKCLNLEYMYNLNQF-----PRLVMSAFSKLQVLRILKSNVLFGGHQF  631 (863)
Q Consensus       562 ~l~~L~~L~L~~~~l~~-----lp~~~~~l~~L~~L~l~~~~~l~~l-----p~~~~~~L~~L~~L~l~~~~~~~~~~~~  631 (863)
                      ..++|++|+|++|.|+.     ++..+..+++|++|++++|. +...     +. .+...++|++|++.+|.+...+...
T Consensus       153 ~~~~L~~L~Ls~n~l~~~~~~~l~~~L~~~~~L~~L~Ls~N~-l~~~g~~~L~~-~L~~~~~L~~L~Ls~N~i~~~g~~~  230 (372)
T 3un9_A          153 DQCQITTLRLSNNPLTAAGVAVLMEGLAGNTSVTHLSLLHTG-LGDEGLELLAA-QLDRNRQLQELNVAYNGAGDTAALA  230 (372)
T ss_dssp             TTCCCCEEECCSSCCHHHHHHHHHHHHHTCSSCCEEECTTSS-CHHHHHHHHHH-HGGGCSCCCEEECCSSCCCHHHHHH
T ss_pred             cCCccceeeCCCCCCChHHHHHHHHHHhcCCCcCEEeCCCCC-CCcHHHHHHHH-HHhcCCCcCeEECCCCCCCHHHHHH
Confidence            35678888888887753     55556777788888888773 3321     22 2456677888888777765432233


Q ss_pred             HHHHHcCCccCceEEEEEcChH
Q 048126          632 LVEELMGMKHLMALTITLKSWE  653 (863)
Q Consensus       632 ~~~~l~~L~~L~~L~l~~~~~~  653 (863)
                      ....+...++|+.|+++.|...
T Consensus       231 l~~~L~~~~~L~~L~Ls~N~i~  252 (372)
T 3un9_A          231 LARAAREHPSLELLHLYFNELS  252 (372)
T ss_dssp             HHHHHHHCSSCCEEECTTSSCC
T ss_pred             HHHHHHhCCCCCEEeccCCCCC
Confidence            4455556677777777766553

>3te6_A Regulatory protein SIR3; heterochromatin, gene silencing, SIR complex, HMR, HML, TELO AAA+ domain, structural, nucleus, gene RE; 2.80A {Saccharomyces cerevisiae}

Probab=98.66  E-value=2.1e-07  Score=96.94  Aligned_cols=167  Identities=11%  Similarity=0.051  Sum_probs=103.6

Q ss_pred             ccchhHHHHHHHHHhcC----CCccEEEEEcCCCCcHHHHHHHHHhhhcCCCC-----CCCEEEEEEeCCccCHHHHHHH
Q 048126          128 TVGLESMFDKVWRCLGE----EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPN-----DFDVVIWVVVSKDLQLEKIQEK  198 (863)
Q Consensus       128 ~vGr~~~~~~l~~~L~~----~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~-----~F~~~~wv~~s~~~~~~~~~~~  198 (863)
                      +.||++++++|...|..    +..+.+.|+|++|+|||++|+.|++...+...     .| .+++|.+....+...++..
T Consensus        22 L~~Re~E~~~i~~~L~~~i~~~~~~~lli~GpPGTGKT~~v~~v~~~L~~~~~~~~~~~~-~~v~INc~~~~t~~~~~~~  100 (318)
T 3te6_A           22 LKSQVEDFTRIFLPIYDSLMSSQNKLFYITNADDSTKFQLVNDVMDELITSSARKELPIF-DYIHIDALELAGMDALYEK  100 (318)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHTTCCCEEEEECCCSHHHHHHHHHHHHHHHHTTTTTSSCCE-EEEEEETTCCC--HHHHHH
T ss_pred             cCCHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHHHHHhhhccCCce-EEEEEeccccCCHHHHHHH
Confidence            67999999999887753    56788999999999999999999998732111     12 3567777777788899999


Q ss_pred             HHHHhCCCCccccCCChhHHHHHHHHHh---ccCcEEEEEeccCCccccccccCCC--C--CCCCCcEEEEecCchh---
Q 048126          199 IGRRIGFLDESWKNGSLEDKASDILRIL---SKKKFLLLLDDIWERVDLTKVGVPF--P--DPENKSKIVFTTRFLE---  268 (863)
Q Consensus       199 i~~~l~~~~~~~~~~~~~~~~~~l~~~l---~~kr~LlVlDdv~~~~~~~~~~~~l--~--~~~~gs~IivTtR~~~---  268 (863)
                      |++++.....  ......+....+.+.+   .++++++|||+++....-+-+...+  +  ..++ .-||.++...+   
T Consensus       101 I~~~L~g~~~--~~~~~~~~L~~~f~~~~~~~~~~~ii~lDE~d~l~~q~~L~~l~~~~~~~~s~-~~vI~i~n~~d~~~  177 (318)
T 3te6_A          101 IWFAISKENL--CGDISLEALNFYITNVPKAKKRKTLILIQNPENLLSEKILQYFEKWISSKNSK-LSIICVGGHNVTIR  177 (318)
T ss_dssp             HHHHHSCCC----CCCCHHHHHHHHHHSCGGGSCEEEEEEECCSSSCCTHHHHHHHHHHHCSSCC-EEEEEECCSSCCCH
T ss_pred             HHHHhcCCCC--CchHHHHHHHHHHHHhhhccCCceEEEEecHHHhhcchHHHHHHhcccccCCc-EEEEEEecCcccch
Confidence            9999954321  1122223333333333   4567999999997643111111111  1  1112 22333343321   


Q ss_pred             --h----hhcccccceEeecCCChHHHHHHHHHHhcc
Q 048126          269 --I----CGAMKAHEFLKVECLGPEDAWRLFRENLRR  299 (863)
Q Consensus       269 --v----~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~  299 (863)
                        +    ...++ ...+.+++++.+|-.+++.+++..
T Consensus       178 ~~L~~~v~SR~~-~~~i~F~pYt~~el~~Il~~Rl~~  213 (318)
T 3te6_A          178 EQINIMPSLKAH-FTEIKLNKVDKNELQQMIITRLKS  213 (318)
T ss_dssp             HHHHTCHHHHTT-EEEEECCCCCHHHHHHHHHHHHHH
T ss_pred             hhcchhhhccCC-ceEEEeCCCCHHHHHHHHHHHHHh
Confidence              1    11221 246889999999999999988653

>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

Probab=98.63  E-value=5.8e-08  Score=104.72  Aligned_cols=104  Identities=17%  Similarity=0.188  Sum_probs=87.5

Q ss_pred             ceEEccCC-ccccccchhhhcCCCccEEEccC-CCccccCCccccccCCCCeEEccCCCccccch-hhhcCCCCCEEecC
Q 048126          519 LSLFLSDN-SLKMIAGDFFQFMPSLRVFNMSN-NHLLWKLPSGISTLVSLEHLDLSGTAITHLPI-ELQKLVNLKCLNLE  595 (863)
Q Consensus       519 ~~L~l~~~-~l~~~~~~~~~~l~~L~~L~L~~-~~~~~~lp~~i~~l~~L~~L~L~~~~l~~lp~-~~~~l~~L~~L~l~  595 (863)
                      ..++++++ .++.+|.  +..+++|++|+|++ |.+.+..|..+++|.+|++|+|++|.|+.+|+ .|.+|++|++|+|+
T Consensus        11 ~~v~~~~~n~l~~ip~--l~~~~~L~~L~l~~~n~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~l~~L~~L~l~   88 (347)
T 2ifg_A           11 SGLRCTRDGALDSLHH--LPGAENLTELYIENQQHLQHLELRDLRGLGELRNLTIVKSGLRFVAPDAFHFTPRLSRLNLS   88 (347)
T ss_dssp             SCEECCSSCCCTTTTT--SCSCSCCSEEECCSCSSCCEECGGGSCSCCCCSEEECCSSCCCEECTTGGGSCSCCCEEECC
T ss_pred             CEEEcCCCCCCCccCC--CCCCCCeeEEEccCCCCCCCcChhHhccccCCCEEECCCCccceeCHHHhcCCcCCCEEeCC
Confidence            35688888 8999987  88999999999996 84444444789999999999999999998865 58999999999999


Q ss_pred             CccccCCCcHHHhhcCCCCcEEEeecccccc
Q 048126          596 YMYNLNQFPRLVMSAFSKLQVLRILKSNVLF  626 (863)
Q Consensus       596 ~~~~l~~lp~~~~~~L~~L~~L~l~~~~~~~  626 (863)
                      +| .+..+|...+..++ |+.|++.+|.+.-
T Consensus        89 ~N-~l~~~~~~~~~~~~-L~~l~l~~N~~~c  117 (347)
T 2ifg_A           89 FN-ALESLSWKTVQGLS-LQELVLSGNPLHC  117 (347)
T ss_dssp             SS-CCSCCCSTTTCSCC-CCEEECCSSCCCC
T ss_pred             CC-ccceeCHHHcccCC-ceEEEeeCCCccC
Confidence            99 67889877566665 9999999887653

>2chq_A Replication factor C small subunit; DNA-binding protein, DNA replication, clamp loader, AAA+ ATP ATP-binding, nucleotide-binding; HET: ANP; 3.5A {Archaeoglobus fulgidus} PDB: 2chv_A

Probab=98.59  E-value=2.4e-07  Score=98.55  Aligned_cols=180  Identities=11%  Similarity=0.129  Sum_probs=112.1

Q ss_pred             CCccchhHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCC-EEEEEEeCCccCHHHHHHHHHHHhC
Q 048126          126 EPTVGLESMFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFD-VVIWVVVSKDLQLEKIQEKIGRRIG  204 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~-~~~wv~~s~~~~~~~~~~~i~~~l~  204 (863)
                      .+++|++..++.+.+++..+..+.+.++|++|+|||++|+.+++...  ...+. ..+.+..+...+.            
T Consensus        17 ~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~--~~~~~~~~~~~~~~~~~~~------------   82 (319)
T 2chq_A           17 DEVVGQDEVIQRLKGYVERKNIPHLLFSGPPGTGKTATAIALARDLF--GENWRDNFIEMNASDERGI------------   82 (319)
T ss_dssp             GGSCSCHHHHHHHHTTTTTTCCCCEEEESSSSSSHHHHHHHHHHHHH--TTCHHHHCEEEETTSTTCT------------
T ss_pred             HHHhCCHHHHHHHHHHHhCCCCCeEEEECcCCcCHHHHHHHHHHHhc--CCcccCCeEEEeCccccCh------------
Confidence            45899999999999999876655589999999999999999998751  11111 1233333322111            


Q ss_pred             CCCccccCCChhHHHHHHHHH--h-ccCcEEEEEeccCCcc--ccccccCCCCCCCCCcEEEEecCchh-hhhc-ccccc
Q 048126          205 FLDESWKNGSLEDKASDILRI--L-SKKKFLLLLDDIWERV--DLTKVGVPFPDPENKSKIVFTTRFLE-ICGA-MKAHE  277 (863)
Q Consensus       205 ~~~~~~~~~~~~~~~~~l~~~--l-~~kr~LlVlDdv~~~~--~~~~~~~~l~~~~~gs~IivTtR~~~-v~~~-~~~~~  277 (863)
                              ....+....+...  + .+++.++|+|+++...  ....+...+.....+.++|+||.... +... .....
T Consensus        83 --------~~~~~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~L~~~le~~~~~~~~i~~~~~~~~l~~~l~sr~~  154 (319)
T 2chq_A           83 --------DVVRHKIKEFARTAPIGGAPFKIIFLDEADALTADAQAALRRTMEMYSKSCRFILSCNYVSRIIEPIQSRCA  154 (319)
T ss_dssp             --------TTSSHHHHHHHHSCCSSSCCCEEEEEETGGGSCHHHHHTTGGGTSSSSSSEEEEEEESCGGGSCHHHHTTCE
T ss_pred             --------HHHHHHHHHHHhcCCCCCCCceEEEEeCCCcCCHHHHHHHHHHHHhcCCCCeEEEEeCChhhcchHHHhhCe
Confidence                    0111111111111  1 2567899999997642  23444444444445778888876543 2111 11224


Q ss_pred             eEeecCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCCchhHHHHHH
Q 048126          278 FLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGLPLALITIG  330 (863)
Q Consensus       278 ~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPlai~~~~  330 (863)
                      .+.+.+++.++..+++...+......   --.+....+++.++|.+..+....
T Consensus       155 ~i~~~~~~~~~~~~~l~~~~~~~~~~---i~~~~l~~l~~~~~G~~r~~~~~l  204 (319)
T 2chq_A          155 VFRFKPVPKEAMKKRLLEICEKEGVK---ITEDGLEALIYISGGDFRKAINAL  204 (319)
T ss_dssp             EEECCCCCHHHHHHHHHHHHHTTCCC---BCHHHHHHHHHTTTTCHHHHHHHH
T ss_pred             EEEecCCCHHHHHHHHHHHHHHcCCC---CCHHHHHHHHHHcCCCHHHHHHHH
Confidence            78999999999999998876543211   124567888899999987655443

>3un9_A NLR family member X1; leucine rich repeat (LRR), antiviral signaling, MAVS, TRAF6, UQCRC2, immune system; 2.65A {Homo sapiens}

Probab=98.57  E-value=2.6e-08  Score=107.92  Aligned_cols=137  Identities=14%  Similarity=0.108  Sum_probs=84.4

Q ss_pred             CCccceEEccCCccccccchhhhc-----CCCccEEEccCCCccccCCcc-ccccCCCCeEEccCCCcccc-----chhh
Q 048126          515 CPHLLSLFLSDNSLKMIAGDFFQF-----MPSLRVFNMSNNHLLWKLPSG-ISTLVSLEHLDLSGTAITHL-----PIEL  583 (863)
Q Consensus       515 ~~~L~~L~l~~~~l~~~~~~~~~~-----l~~L~~L~L~~~~~~~~lp~~-i~~l~~L~~L~L~~~~l~~l-----p~~~  583 (863)
                      .++|+.|++++|.+.......+..     .++|++|+|++|.+....... ...+.+|++|+|++|.++..     ...+
T Consensus        71 ~~~L~~L~Ls~n~l~~~~~~~l~~~L~~~~~~L~~L~Ls~n~l~~~~~~~l~~~L~~L~~L~Ls~n~l~~~~~~~L~~~L  150 (372)
T 3un9_A           71 LSSLRQLNLAGVRMTPVKCTVVAAVLGSGRHALDEVNLASCQLDPAGLRTLLPVFLRARKLGLQLNSLGPEACKDLRDLL  150 (372)
T ss_dssp             HTTCCEEECTTSCCCHHHHHHHHHHHSSCSSCEEEEECTTCCCCHHHHHHTHHHHHTEEEEECCSSCCCHHHHHHHHHHH
T ss_pred             HhhCCEEEecCCCCCHHHHHHHHHHHhhCCCCceEEEecCCCCCHHHHHHHHHHHHhccHhhcCCCCCCHHHHHHHHHHH
Confidence            456888888888776544333332     368888888888544322222 23466788888888887632     2222


Q ss_pred             -hcCCCCCEEecCCccccCC-----CcHHHhhcCCCCcEEEeeccccccCchhhHHHHHcCCccCceEEEEEcChH
Q 048126          584 -QKLVNLKCLNLEYMYNLNQ-----FPRLVMSAFSKLQVLRILKSNVLFGGHQFLVEELMGMKHLMALTITLKSWE  653 (863)
Q Consensus       584 -~~l~~L~~L~l~~~~~l~~-----lp~~~~~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~  653 (863)
                       ...++|++|++++| .++.     ++.. +..+++|++|++.+|.+...+.......+...++|+.|+++.|...
T Consensus       151 ~~~~~~L~~L~Ls~n-~l~~~~~~~l~~~-L~~~~~L~~L~Ls~N~l~~~g~~~L~~~L~~~~~L~~L~Ls~N~i~  224 (372)
T 3un9_A          151 LHDQCQITTLRLSNN-PLTAAGVAVLMEG-LAGNTSVTHLSLLHTGLGDEGLELLAAQLDRNRQLQELNVAYNGAG  224 (372)
T ss_dssp             HSTTCCCCEEECCSS-CCHHHHHHHHHHH-HHTCSSCCEEECTTSSCHHHHHHHHHHHGGGCSCCCEEECCSSCCC
T ss_pred             HhcCCccceeeCCCC-CCChHHHHHHHHH-HhcCCCcCEEeCCCCCCCcHHHHHHHHHHhcCCCcCeEECCCCCCC
Confidence             24577888888887 3333     2222 4567778888888777654322333455666667777777766544

>1jr3_A DNA polymerase III subunit gamma; processivity, processivity clamp, clamp loader, AAA+ ATPase, transferase; HET: DNA; 2.70A {Escherichia coli} SCOP: a.80.1.1 c.37.1.20 PDB: 1xxh_B* 3glh_B* 3glf_B* 3gli_B* 3glg_B* 1xxi_B*

Probab=98.57  E-value=6e-07  Score=97.78  Aligned_cols=194  Identities=14%  Similarity=0.151  Sum_probs=110.9

Q ss_pred             CCccchhHHHHHHHHHhcCCC-ccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHHHHhC
Q 048126          126 EPTVGLESMFDKVWRCLGEEQ-VGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGRRIG  204 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~-~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~  204 (863)
                      .+++|++..++.+.+.+..++ .+.+.|+|+.|+||||+|+.+++.. .....+.       ...+........+...-.
T Consensus        16 ~~~vg~~~~~~~L~~~l~~~~~~~~~ll~G~~G~GKT~la~~la~~l-~~~~~~~-------~~~~~~~~~~~~~~~~~~   87 (373)
T 1jr3_A           16 ADVVGQEHVLTALANGLSLGRIHHAYLFSGTRGVGKTSIARLLAKGL-NCETGIT-------ATPCGVCDNCREIEQGRF   87 (373)
T ss_dssp             TTSCSCHHHHHHHHHHHHHTCCCSEEEEESCTTSSHHHHHHHHHHHH-SCTTCSC-------SSCCSSSHHHHHHHTSCC
T ss_pred             hhccCcHHHHHHHHHHHHhCCCCeEEEEECCCCCCHHHHHHHHHHHh-CCCCCCC-------CCCCcccHHHHHHhccCC
Confidence            468999999999999997654 4578899999999999999999887 2111110       001111011111111000


Q ss_pred             CCC---ccccCCChhHHHHHHHHHh-----ccCcEEEEEeccCCcc--ccccccCCCCCCCCCcEEEEecCchh-hhh-c
Q 048126          205 FLD---ESWKNGSLEDKASDILRIL-----SKKKFLLLLDDIWERV--DLTKVGVPFPDPENKSKIVFTTRFLE-ICG-A  272 (863)
Q Consensus       205 ~~~---~~~~~~~~~~~~~~l~~~l-----~~kr~LlVlDdv~~~~--~~~~~~~~l~~~~~gs~IivTtR~~~-v~~-~  272 (863)
                      ...   ........++ ...+.+.+     .+++.++|+||++...  ....+...+.....+..+|++|.... +.. .
T Consensus        88 ~~~~~~~~~~~~~~~~-~~~l~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~Ll~~le~~~~~~~~Il~~~~~~~l~~~l  166 (373)
T 1jr3_A           88 VDLIEIDAASRTKVED-TRDLLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLPVTI  166 (373)
T ss_dssp             SSCEEEETTCSCCSSC-HHHHHHHTTSCCSSSSSEEEEEECGGGSCHHHHHHHHHHHHSCCSSEEEEEEESCGGGSCHHH
T ss_pred             CceEEecccccCCHHH-HHHHHHHHhhccccCCeEEEEEECcchhcHHHHHHHHHHHhcCCCceEEEEEeCChHhCcHHH
Confidence            000   0000011111 12222222     2467899999997532  23333322323334667777776432 211 1


Q ss_pred             ccccceEeecCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCCchhHHHHHHH
Q 048126          273 MKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGLPLALITIGR  331 (863)
Q Consensus       273 ~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPlai~~~~~  331 (863)
                      ......+.+.+++.++..+++.+.+......   --.+....|++.++|.|..+..+..
T Consensus       167 ~sr~~~i~~~~l~~~~~~~~l~~~~~~~~~~---~~~~a~~~l~~~~~G~~r~~~~~l~  222 (373)
T 1jr3_A          167 LSRCLQFHLKALDVEQIRHQLEHILNEEHIA---HEPRALQLLARAAEGSLRDALSLTD  222 (373)
T ss_dssp             HTTSEEEECCCCCHHHHHHHHHHHHHHHTCC---BCHHHHHHHHHHSSSCHHHHHHHHH
T ss_pred             HhheeEeeCCCCCHHHHHHHHHHHHHHcCCC---CCHHHHHHHHHHCCCCHHHHHHHHH
Confidence            1123578999999999999998776432211   1245678899999999988776543

>4fdw_A Leucine rich hypothetical protein; putative cell surface protein, BIG3 domain, LRR domain, STRU genomics; 2.05A {Bacteroides ovatus} PDB: 4fd0_A

Probab=98.55  E-value=1.9e-06  Score=94.20  Aligned_cols=257  Identities=12%  Similarity=0.083  Sum_probs=164.7

Q ss_pred             CCCccceEEccCCccccccchhhhcCCCccEEEccCCCccccCCccccccCCCCeEEccCCCccccch-hhhcCCCCCEE
Q 048126          514 TCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAITHLPI-ELQKLVNLKCL  592 (863)
Q Consensus       514 ~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~~~l~~lp~-~~~~l~~L~~L  592 (863)
                      .+..+..+.+..+ ++.++...|.++ +|+.+.+..+ ....-...+.+ .+|+.+.+.. .++.++. .+..+.+|+.+
T Consensus       111 ~~~~l~~i~ip~~-i~~I~~~aF~~~-~L~~i~l~~~-i~~I~~~aF~~-~~L~~i~lp~-~l~~I~~~aF~~c~~L~~l  185 (401)
T 4fdw_A          111 ILKGYNEIILPNS-VKSIPKDAFRNS-QIAKVVLNEG-LKSIGDMAFFN-STVQEIVFPS-TLEQLKEDIFYYCYNLKKA  185 (401)
T ss_dssp             ECSSCSEEECCTT-CCEECTTTTTTC-CCSEEECCTT-CCEECTTTTTT-CCCCEEECCT-TCCEECSSTTTTCTTCCEE
T ss_pred             ecCCccEEEECCc-cCEehHhhcccC-CccEEEeCCC-ccEECHHhcCC-CCceEEEeCC-CccEehHHHhhCcccCCee
Confidence            3567777777654 778888888886 7999999887 43333345555 4799999986 6777764 58899999999


Q ss_pred             ecCCccccCCCcHHHhhcCCCCcEEEeeccccccCchhhHHHHHcCCccCceEEEEEcChHHHHHHhhhhhhhhcceeee
Q 048126          593 NLEYMYNLNQFPRLVMSAFSKLQVLRILKSNVLFGGHQFLVEELMGMKHLMALTITLKSWEALQELLISQELQRCTQSLF  672 (863)
Q Consensus       593 ~l~~~~~l~~lp~~~~~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~~~~~l~~~~~~~~~L~~L~  672 (863)
                      ++.++ .+..+|...+. .++|+.+.+..+ +..    .....+.++++|+.+.+..                 ++    
T Consensus       186 ~l~~n-~l~~I~~~aF~-~~~L~~l~lp~~-l~~----I~~~aF~~~~~L~~l~l~~-----------------~l----  237 (401)
T 4fdw_A          186 DLSKT-KITKLPASTFV-YAGIEEVLLPVT-LKE----IGSQAFLKTSQLKTIEIPE-----------------NV----  237 (401)
T ss_dssp             ECTTS-CCSEECTTTTT-TCCCSEEECCTT-CCE----ECTTTTTTCTTCCCEECCT-----------------TC----
T ss_pred             ecCCC-cceEechhhEe-ecccCEEEeCCc-hhe----ehhhHhhCCCCCCEEecCC-----------------Cc----
Confidence            99887 67888887666 588999888643 211    1122355566666665531                 11    


Q ss_pred             eccccCCCcccccchhhcCCCceEEEcCCcccccceeccccccccccccccCcccEEEEeccCCC----CCCc--hhhcc
Q 048126          673 LRCFNDSKSLDIFCLACLHNLNKLYVAGRKHLEDFQMTVQRSSVNQLARGFHSLHTVKVGFCFKL----KDLT--WLVFA  746 (863)
Q Consensus       673 l~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~l~~~~~~~~~~~~~~~l~~L~~L~L~~c~~l----~~l~--~l~~l  746 (863)
                             +.+...++.. .+|+.+.+..  .++.+....+        ..+++|+.+.+.++..-    ..++  .+..+
T Consensus       238 -------~~I~~~aF~~-~~L~~i~lp~--~i~~I~~~aF--------~~c~~L~~l~l~~~~~~~~~~~~I~~~aF~~c  299 (401)
T 4fdw_A          238 -------STIGQEAFRE-SGITTVKLPN--GVTNIASRAF--------YYCPELAEVTTYGSTFNDDPEAMIHPYCLEGC  299 (401)
T ss_dssp             -------CEECTTTTTT-CCCSEEEEET--TCCEECTTTT--------TTCTTCCEEEEESSCCCCCTTCEECTTTTTTC
T ss_pred             -------cCcccccccc-CCccEEEeCC--CccEEChhHh--------hCCCCCCEEEeCCccccCCcccEECHHHhhCC
Confidence                   1222233444 5778887743  3444433333        34778888888774211    1232  35577


Q ss_pred             CCCcEEEEeccccchhhccccccccccCCCCCCCCcCCccceeccCCCccccccccCC-CCCCCcceEeecCCCCCCCCC
Q 048126          747 PSLKSIVVLSCCNMEQIIKAEKLSQLHHHPERKKSVFAKLQFLSLENLRNLCCINWEA-LAFPNLKEIRVEGCPKLFKLP  825 (863)
Q Consensus       747 ~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~~~p~L~~L~l~~~~~L~~i~~~~-~~~p~L~~L~i~~C~~L~~lp  825 (863)
                      ++|+.+.|.+  .++.+.            ...+.++++|+.+.|.+  +++.+.... ..+ +|+.|.+.+. .+..++
T Consensus       300 ~~L~~l~l~~--~i~~I~------------~~aF~~c~~L~~l~lp~--~l~~I~~~aF~~~-~L~~l~l~~n-~~~~l~  361 (401)
T 4fdw_A          300 PKLARFEIPE--SIRILG------------QGLLGGNRKVTQLTIPA--NVTQINFSAFNNT-GIKEVKVEGT-TPPQVF  361 (401)
T ss_dssp             TTCCEECCCT--TCCEEC------------TTTTTTCCSCCEEEECT--TCCEECTTSSSSS-CCCEEEECCS-SCCBCC
T ss_pred             ccCCeEEeCC--ceEEEh------------hhhhcCCCCccEEEECc--cccEEcHHhCCCC-CCCEEEEcCC-CCcccc
Confidence            8888888874  355552            24566788899998854  466665433 335 8999999774 555555


Q ss_pred             CCCCC---CCCCceEEE
Q 048126          826 LDSNS---AKGCKVVIK  839 (863)
Q Consensus       826 ~~~~~---~~L~~l~i~  839 (863)
                      .+...   ..++.+.+.
T Consensus       362 ~~~F~~~~~~l~~l~vp  378 (401)
T 4fdw_A          362 EKVWYGFPDDITVIRVP  378 (401)
T ss_dssp             CSSCCCSCTTCCEEEEC
T ss_pred             cccccCCCCCccEEEeC
Confidence            44332   456677775

>1jbk_A CLPB protein; beta barrel, chaperone; 1.80A {Escherichia coli} SCOP: c.37.1.20

Probab=98.48  E-value=1.7e-07  Score=91.41  Aligned_cols=46  Identities=22%  Similarity=0.414  Sum_probs=41.8

Q ss_pred             CCccchhHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          126 EPTVGLESMFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ..++||+.+++++.+++.....+.+.|+|++|+|||++|+.+++..
T Consensus        22 ~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~~~~~~   67 (195)
T 1jbk_A           22 DPVIGRDEEIRRTIQVLQRRTKNNPVLIGEPGVGKTAIVEGLAQRI   67 (195)
T ss_dssp             CCCCSCHHHHHHHHHHHTSSSSCEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             cccccchHHHHHHHHHHhcCCCCceEEECCCCCCHHHHHHHHHHHH
Confidence            5689999999999999987767788999999999999999999876

>3bos_A Putative DNA replication factor; P-loop containing nucleoside triphosphate hydrolases, struct genomics; HET: MSE CDP; 1.75A {Shewanella amazonensis} PDB: 3sc3_A

Probab=98.44  E-value=3.6e-07  Score=92.69  Aligned_cols=172  Identities=10%  Similarity=0.060  Sum_probs=102.8

Q ss_pred             CCccch---hHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHHHH
Q 048126          126 EPTVGL---ESMFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGRR  202 (863)
Q Consensus       126 ~~~vGr---~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~  202 (863)
                      +.++|.   +..++.+..+...+..+.+.|+|++|+||||+|+.+++...   .....+.|+.++...+.      +.+.
T Consensus        28 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~la~~l~~~~~---~~~~~~~~~~~~~~~~~------~~~~   98 (242)
T 3bos_A           28 TSYYPAAGNDELIGALKSAASGDGVQAIYLWGPVKSGRTHLIHAACARAN---ELERRSFYIPLGIHASI------STAL   98 (242)
T ss_dssp             TTSCC--CCHHHHHHHHHHHHTCSCSEEEEECSTTSSHHHHHHHHHHHHH---HTTCCEEEEEGGGGGGS------CGGG
T ss_pred             hhccCCCCCHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHHH---HcCCeEEEEEHHHHHHH------HHHH
Confidence            457763   35566666666655677899999999999999999998872   12234567765432110      0000


Q ss_pred             hCCCCccccCCChhHHHHHHHHHhccCcEEEEEeccCCccc----cccccCCCCC-CCCC-cEEEEecCchh--------
Q 048126          203 IGFLDESWKNGSLEDKASDILRILSKKKFLLLLDDIWERVD----LTKVGVPFPD-PENK-SKIVFTTRFLE--------  268 (863)
Q Consensus       203 l~~~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~----~~~~~~~l~~-~~~g-s~IivTtR~~~--------  268 (863)
                      +                    +.+ .++.+||+||++....    ...+...+.. ...+ .++|+||+...        
T Consensus        99 ~--------------------~~~-~~~~vliiDe~~~~~~~~~~~~~l~~~l~~~~~~~~~~ii~~~~~~~~~~~~~~~  157 (242)
T 3bos_A           99 L--------------------EGL-EQFDLICIDDVDAVAGHPLWEEAIFDLYNRVAEQKRGSLIVSASASPMEAGFVLP  157 (242)
T ss_dssp             G--------------------TTG-GGSSEEEEETGGGGTTCHHHHHHHHHHHHHHHHHCSCEEEEEESSCTTTTTCCCH
T ss_pred             H--------------------Hhc-cCCCEEEEeccccccCCHHHHHHHHHHHHHHHHcCCCeEEEEcCCCHHHHHHhhh
Confidence            0                    001 3467899999975421    1112111110 0112 24777776422        


Q ss_pred             -hhhcccccceEeecCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCCchhHHHHHH
Q 048126          269 -ICGAMKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGLPLALITIG  330 (863)
Q Consensus       269 -v~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPlai~~~~  330 (863)
                       +...+.....+.+++++.++..+++...+.....   .--.+....+++.++|.+-.+..+.
T Consensus       158 ~l~~r~~~~~~i~l~~~~~~~~~~~l~~~~~~~~~---~~~~~~~~~l~~~~~g~~r~l~~~l  217 (242)
T 3bos_A          158 DLVSRMHWGLTYQLQPMMDDEKLAALQRRAAMRGL---QLPEDVGRFLLNRMARDLRTLFDVL  217 (242)
T ss_dssp             HHHHHHHHSEEEECCCCCGGGHHHHHHHHHHHTTC---CCCHHHHHHHHHHTTTCHHHHHHHH
T ss_pred             hhhhHhhcCceEEeCCCCHHHHHHHHHHHHHHcCC---CCCHHHHHHHHHHccCCHHHHHHHH
Confidence             1122222257899999999999999987753321   1225677889999999887665544

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii}

Probab=98.33  E-value=1.4e-06  Score=90.87  Aligned_cols=176  Identities=19%  Similarity=0.187  Sum_probs=101.5

Q ss_pred             CCccchhHHHHHHHHHhcC-------------CCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCH
Q 048126          126 EPTVGLESMFDKVWRCLGE-------------EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQL  192 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~-------------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~  192 (863)
                      ..++|.+..+++|.+.+..             ...+.+.|+|++|+|||++|+.+++..   ...   .+.+..+.-.+ 
T Consensus        17 ~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~G~~GtGKT~la~~la~~~---~~~---~~~v~~~~~~~-   89 (285)
T 3h4m_A           17 EDIGGLEKQMQEIREVVELPLKHPELFEKVGIEPPKGILLYGPPGTGKTLLAKAVATET---NAT---FIRVVGSELVK-   89 (285)
T ss_dssp             GGSCSCHHHHHHHHHHTHHHHHCHHHHHHHCCCCCSEEEEESSSSSSHHHHHHHHHHHT---TCE---EEEEEGGGGCC-
T ss_pred             HHhcCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCeEEEECCCCCcHHHHHHHHHHHh---CCC---EEEEehHHHHH-
Confidence            4589999999999888742             345678999999999999999999886   222   23333222110 


Q ss_pred             HHHHHHHHHHhCCCCccccCCChhHHHHHHHHHhccCcEEEEEeccCCcc----------------ccccccCCCC--CC
Q 048126          193 EKIQEKIGRRIGFLDESWKNGSLEDKASDILRILSKKKFLLLLDDIWERV----------------DLTKVGVPFP--DP  254 (863)
Q Consensus       193 ~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~----------------~~~~~~~~l~--~~  254 (863)
                                   .   ............+......++.+|++||++...                .+..+...+.  ..
T Consensus        90 -------------~---~~~~~~~~~~~~~~~~~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~~  153 (285)
T 3h4m_A           90 -------------K---FIGEGASLVKDIFKLAKEKAPSIIFIDEIDAIAAKRTDALTGGDREVQRTLMQLLAEMDGFDA  153 (285)
T ss_dssp             -------------C---STTHHHHHHHHHHHHHHHTCSEEEEEETTHHHHBCCSSSCCGGGGHHHHHHHHHHHHHHTTCS
T ss_pred             -------------h---ccchHHHHHHHHHHHHHHcCCeEEEEECHHHhcccCccccCCccHHHHHHHHHHHHHhhCCCC
Confidence                         0   000011111222222334467899999996421                0111111110  12


Q ss_pred             CCCcEEEEecCchhhh-----hcccccceEeecCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCC-chhHHHH
Q 048126          255 ENKSKIVFTTRFLEIC-----GAMKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAG-LPLALIT  328 (863)
Q Consensus       255 ~~gs~IivTtR~~~v~-----~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g-lPlai~~  328 (863)
                      ..+..||.||......     ........+.++..+.++-.+++...+..........    ...+++.+.| .|-.+..
T Consensus       154 ~~~~~vI~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~il~~~~~~~~~~~~~~----~~~l~~~~~g~~~~~i~~  229 (285)
T 3h4m_A          154 RGDVKIIGATNRPDILDPAILRPGRFDRIIEVPAPDEKGRLEILKIHTRKMNLAEDVN----LEEIAKMTEGCVGAELKA  229 (285)
T ss_dssp             SSSEEEEEECSCGGGBCHHHHSTTSEEEEEECCCCCHHHHHHHHHHHHTTSCBCTTCC----HHHHHHHCTTCCHHHHHH
T ss_pred             CCCEEEEEeCCCchhcCHHHcCCCcCCeEEEECCCCHHHHHHHHHHHHhcCCCCCcCC----HHHHHHHcCCCCHHHHHH
Confidence            3457788888754331     1112234688999999999999998876543222222    4566777766 4544444

>1d2n_A N-ethylmaleimide-sensitive fusion protein; hexamerization domain, ATPase, transport; HET: ANP; 1.75A {Cricetulus griseus} SCOP: c.37.1.20 PDB: 1nsf_A*

Probab=98.29  E-value=4.3e-05  Score=78.81  Aligned_cols=196  Identities=17%  Similarity=0.127  Sum_probs=107.2

Q ss_pred             CCccchhHHHHHHHHH-------hc---CCCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHH
Q 048126          126 EPTVGLESMFDKVWRC-------LG---EEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKI  195 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~-------L~---~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~  195 (863)
                      ..++|....++++...       +.   ....+.+.|+|++|+|||++|+.+++..   ...|   +.+..+...     
T Consensus        33 ~~~i~~~~~~~~i~~~~~~l~~~l~~~~~~~~~~vLl~G~~GtGKT~la~~ia~~~---~~~~---~~i~~~~~~-----  101 (272)
T 1d2n_A           33 NGIIKWGDPVTRVLDDGELLVQQTKNSDRTPLVSVLLEGPPHSGKTALAAKIAEES---NFPF---IKICSPDKM-----  101 (272)
T ss_dssp             TCCCCCSHHHHHHHHHHHHHHHHHHHCSSCSEEEEEEECSTTSSHHHHHHHHHHHH---TCSE---EEEECGGGC-----
T ss_pred             cCCCCccHHHHHHHHHHHHHHHHHhccCCCCCeEEEEECCCCCcHHHHHHHHHHHh---CCCE---EEEeCHHHh-----
Confidence            4578887776666662       32   3456788999999999999999999986   2222   222222110     


Q ss_pred             HHHHHHHhCCCCccccCCChhHHHHHHHHHhccCcEEEEEeccCCc-----------cc-cccccCCC---CCCCCCcEE
Q 048126          196 QEKIGRRIGFLDESWKNGSLEDKASDILRILSKKKFLLLLDDIWER-----------VD-LTKVGVPF---PDPENKSKI  260 (863)
Q Consensus       196 ~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~-----------~~-~~~~~~~l---~~~~~gs~I  260 (863)
                             ++..    ...........+......+..+|++||++..           .. ...+...+   ........|
T Consensus       102 -------~g~~----~~~~~~~~~~~~~~~~~~~~~vl~iDEid~l~~~~~~~~~~~~~~l~~L~~~~~~~~~~~~~~~i  170 (272)
T 1d2n_A          102 -------IGFS----ETAKCQAMKKIFDDAYKSQLSCVVVDDIERLLDYVPIGPRFSNLVLQALLVLLKKAPPQGRKLLI  170 (272)
T ss_dssp             -------TTCC----HHHHHHHHHHHHHHHHTSSEEEEEECCHHHHTTCBTTTTBCCHHHHHHHHHHTTCCCSTTCEEEE
T ss_pred             -------cCCc----hHHHHHHHHHHHHHHHhcCCcEEEEEChhhhhccCCCChhHHHHHHHHHHHHhcCccCCCCCEEE
Confidence                   0000    0000011222223333456889999998642           00 11111111   112334556


Q ss_pred             EEecCchhhhhc---ccc-cceEeecCCCh-HHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCC------chhHHHHH
Q 048126          261 VFTTRFLEICGA---MKA-HEFLKVECLGP-EDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAG------LPLALITI  329 (863)
Q Consensus       261 ivTtR~~~v~~~---~~~-~~~~~l~~L~~-~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g------lPlai~~~  329 (863)
                      |.||........   .+. ...+.+++++. ++-..++.+...        --.+....|++.+.|      +.-++..+
T Consensus       171 i~ttn~~~~l~~~~l~~rf~~~i~~p~l~~r~~i~~i~~~~~~--------~~~~~~~~l~~~~~g~~~~g~ir~l~~~l  242 (272)
T 1d2n_A          171 IGTTSRKDVLQEMEMLNAFSTTIHVPNIATGEQLLEALELLGN--------FKDKERTTIAQQVKGKKVWIGIKKLLMLI  242 (272)
T ss_dssp             EEEESCHHHHHHTTCTTTSSEEEECCCEEEHHHHHHHHHHHTC--------SCHHHHHHHHHHHTTSEEEECHHHHHHHH
T ss_pred             EEecCChhhcchhhhhcccceEEcCCCccHHHHHHHHHHhcCC--------CCHHHHHHHHHHhcCCCccccHHHHHHHH
Confidence            777777644322   111 34678899988 666666655311        114557888888887      44444444


Q ss_pred             HHHhcCCCChhHHHHHHHHHHhc
Q 048126          330 GRAMTCKKTTQEWHHAIQILRRS  352 (863)
Q Consensus       330 ~~~l~~~~~~~~w~~~l~~l~~~  352 (863)
                      -.. ........+..+++.+...
T Consensus       243 ~~a-~~~~~~~~~~~~~~~l~~~  264 (272)
T 1d2n_A          243 EMS-LQMDPEYRVRKFLALLREE  264 (272)
T ss_dssp             HHH-TTSCGGGHHHHHHHHHHHT
T ss_pred             HHH-hhhchHHHHHHHHHHHHHc
Confidence            333 2234556777777777654

>1sxj_A Activator 1 95 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=98.29  E-value=5e-06  Score=94.15  Aligned_cols=187  Identities=11%  Similarity=0.058  Sum_probs=107.6

Q ss_pred             CCccchhHHHHHHHHHhcC-----------------CCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCC
Q 048126          126 EPTVGLESMFDKVWRCLGE-----------------EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSK  188 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~-----------------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~  188 (863)
                      ..++|++..++++.+++..                 +..+.+.|+|++|+||||+|+.+++..     .+ .++.+.++.
T Consensus        39 ~dliG~~~~~~~L~~~l~~~~~~~~~~~~~~g~~~~~~~~~lLL~GppGtGKTtla~~la~~l-----~~-~~i~in~s~  112 (516)
T 1sxj_A           39 QQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVAQEL-----GY-DILEQNASD  112 (516)
T ss_dssp             GGCCSCHHHHHHHHHHHHTHHHHHHTTTCCCCTTSTTSCSEEEEECSTTSSHHHHHHHHHHHT-----TC-EEEEECTTS
T ss_pred             HHhcCCHHHHHHHHHHHHHhHhhchhhccccCccCCCCCcEEEEECCCCCCHHHHHHHHHHHc-----CC-CEEEEeCCC
Confidence            4589999999999999864                 134789999999999999999999886     22 244555555


Q ss_pred             ccCHHHHHHHHHHHhCCCCccccCCChhHHHHHHHH--HhccCcEEEEEeccCCccc-----cccccCCCCCCCCCcEEE
Q 048126          189 DLQLEKIQEKIGRRIGFLDESWKNGSLEDKASDILR--ILSKKKFLLLLDDIWERVD-----LTKVGVPFPDPENKSKIV  261 (863)
Q Consensus       189 ~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~--~l~~kr~LlVlDdv~~~~~-----~~~~~~~l~~~~~gs~Ii  261 (863)
                      ......+ ...+......      ...........+  ...+++.+||+|+++....     +..+...+..  .+..||
T Consensus       113 ~~~~~~~-~~~i~~~~~~------~~~~~~~~~~~~~~~~~~~~~vliIDEid~l~~~~~~~l~~L~~~l~~--~~~~iI  183 (516)
T 1sxj_A          113 VRSKTLL-NAGVKNALDN------MSVVGYFKHNEEAQNLNGKHFVIIMDEVDGMSGGDRGGVGQLAQFCRK--TSTPLI  183 (516)
T ss_dssp             CCCHHHH-HHTGGGGTTB------CCSTTTTTC----CCSSTTSEEEEECSGGGCCTTSTTHHHHHHHHHHH--CSSCEE
T ss_pred             cchHHHH-HHHHHHHhcc------ccHHHHHhhhhhhhhccCCCeEEEEECCCccchhhHHHHHHHHHHHHh--cCCCEE
Confidence            4443322 2222221110      000000000000  1235788999999975421     1222111111  233455


Q ss_pred             EecCchh---hhhcccccceEeecCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCCc-hhHHHHHH
Q 048126          262 FTTRFLE---ICGAMKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGL-PLALITIG  330 (863)
Q Consensus       262 vTtR~~~---v~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~gl-Plai~~~~  330 (863)
                      +++....   +.........+.+++++.++..+.+...+.......++   +....|++.++|. +-++..+.
T Consensus       184 li~~~~~~~~l~~l~~r~~~i~f~~~~~~~~~~~L~~i~~~~~~~i~~---~~l~~la~~s~GdiR~~i~~L~  253 (516)
T 1sxj_A          184 LICNERNLPKMRPFDRVCLDIQFRRPDANSIKSRLMTIAIREKFKLDP---NVIDRLIQTTRGDIRQVINLLS  253 (516)
T ss_dssp             EEESCTTSSTTGGGTTTSEEEECCCCCHHHHHHHHHHHHHHHTCCCCT---THHHHHHHHTTTCHHHHHHHHT
T ss_pred             EEEcCCCCccchhhHhceEEEEeCCCCHHHHHHHHHHHHHHcCCCCCH---HHHHHHHHHcCCcHHHHHHHHH
Confidence            5554322   22222223468999999999999998876543322222   3477899999995 44555543

>2z4s_A Chromosomal replication initiator protein DNAA; AAA+ ATPase, domain III (ATPase domain), ATP-binding, cytoplasm, DNA replication; HET: ADP; 3.00A {Thermotoga maritima} PDB: 2z4r_A*

Probab=98.29  E-value=3.8e-06  Score=92.90  Aligned_cols=179  Identities=18%  Similarity=0.160  Sum_probs=104.8

Q ss_pred             Ccc-chhH--HHHHHHHHhcCCC-ccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCC--CEEEEEEeCCccCHHHHHHHHH
Q 048126          127 PTV-GLES--MFDKVWRCLGEEQ-VGIIGLYGMGGVGKTTLLTKINNKLLGAPNDF--DVVIWVVVSKDLQLEKIQEKIG  200 (863)
Q Consensus       127 ~~v-Gr~~--~~~~l~~~L~~~~-~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F--~~~~wv~~s~~~~~~~~~~~i~  200 (863)
                      .|| |...  ....+......++ ...+.|+|++|+||||||+.+++...   ..+  ..+++++..      .+...+.
T Consensus       106 ~fv~g~~n~~a~~~~~~~a~~~~~~~~lll~Gp~G~GKTtLa~aia~~l~---~~~~~~~v~~v~~~------~~~~~~~  176 (440)
T 2z4s_A          106 NFVVGPGNSFAYHAALEVAKHPGRYNPLFIYGGVGLGKTHLLQSIGNYVV---QNEPDLRVMYITSE------KFLNDLV  176 (440)
T ss_dssp             GCCCCTTTHHHHHHHHHHHHSTTSSCCEEEECSSSSSHHHHHHHHHHHHH---HHCCSSCEEEEEHH------HHHHHHH
T ss_pred             hcCCCCchHHHHHHHHHHHhCCCCCCeEEEECCCCCCHHHHHHHHHHHHH---HhCCCCeEEEeeHH------HHHHHHH
Confidence            455 6433  3344444444433 67889999999999999999998762   122  134555433      2334444


Q ss_pred             HHhCCCCccccCCChhHHHHHHHHHhccCcEEEEEeccCCccc----cccccCCCCC-CCCCcEEEEecCch--------
Q 048126          201 RRIGFLDESWKNGSLEDKASDILRILSKKKFLLLLDDIWERVD----LTKVGVPFPD-PENKSKIVFTTRFL--------  267 (863)
Q Consensus       201 ~~l~~~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~----~~~~~~~l~~-~~~gs~IivTtR~~--------  267 (863)
                      ..+...       .    ...+.+.+..+.-+|++||++....    .+.+...+.. ...|..||+||.+.        
T Consensus       177 ~~~~~~-------~----~~~~~~~~~~~~~vL~IDEi~~l~~~~~~q~~l~~~l~~l~~~~~~iIitt~~~~~~l~~l~  245 (440)
T 2z4s_A          177 DSMKEG-------K----LNEFREKYRKKVDILLIDDVQFLIGKTGVQTELFHTFNELHDSGKQIVICSDREPQKLSEFQ  245 (440)
T ss_dssp             HHHHTT-------C----HHHHHHHHTTTCSEEEEECGGGGSSCHHHHHHHHHHHHHHHTTTCEEEEEESSCGGGCSSCC
T ss_pred             HHHHcc-------c----HHHHHHHhcCCCCEEEEeCcccccCChHHHHHHHHHHHHHHHCCCeEEEEECCCHHHHHHHH
Confidence            433211       1    1223334443677999999975432    1222211110 13467788888762        


Q ss_pred             -hhhhcccccceEeecCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCCchhHHHH
Q 048126          268 -EICGAMKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGLPLALIT  328 (863)
Q Consensus       268 -~v~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPlai~~  328 (863)
                       .+...+.....+.+++++.++-.+++.+.+.......+   .++...|++.++|.+-.+..
T Consensus       246 ~~L~sR~~~g~~i~l~~p~~e~r~~iL~~~~~~~~~~i~---~e~l~~la~~~~gn~R~l~~  304 (440)
T 2z4s_A          246 DRLVSRFQMGLVAKLEPPDEETRKSIARKMLEIEHGELP---EEVLNFVAENVDDNLRRLRG  304 (440)
T ss_dssp             HHHHHHHHSSBCCBCCCCCHHHHHHHHHHHHHHHTCCCC---TTHHHHHHHHCCSCHHHHHH
T ss_pred             HHHHhhccCCeEEEeCCCCHHHHHHHHHHHHHHcCCCCC---HHHHHHHHHhcCCCHHHHHH
Confidence             22232333357889999999999999988754322222   23467888999998865543

>1sxj_D Activator 1 41 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=98.27  E-value=2.8e-06  Score=91.58  Aligned_cols=194  Identities=11%  Similarity=0.113  Sum_probs=109.8

Q ss_pred             CCccchhHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHhhhcCC-CCCCCEEEEEEeCCccCHHHHHHHHHHHhC
Q 048126          126 EPTVGLESMFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGA-PNDFDVVIWVVVSKDLQLEKIQEKIGRRIG  204 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~-~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~  204 (863)
                      ..++|++..++.+..++..+..+.+.++|++|+||||+|+.+++..... ...+ .++.+..+.......+. +....+.
T Consensus        37 ~~i~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~la~~la~~l~~~~~~~~-~~~~~~~~~~~~~~~~~-~~~~~~~  114 (353)
T 1sxj_D           37 DEVTAQDHAVTVLKKTLKSANLPHMLFYGPPGTGKTSTILALTKELYGPDLMKS-RILELNASDERGISIVR-EKVKNFA  114 (353)
T ss_dssp             TTCCSCCTTHHHHHHHTTCTTCCCEEEECSTTSSHHHHHHHHHHHHHHHHHHTT-SEEEECSSSCCCHHHHT-THHHHHH
T ss_pred             HHhhCCHHHHHHHHHHHhcCCCCEEEEECCCCCCHHHHHHHHHHHhCCCccccc-ceEEEccccccchHHHH-HHHHHHh
Confidence            5689999999999999987655558999999999999999998875100 0111 13334444332333222 1111111


Q ss_pred             CCCccccCCChhHHHHHHHHHhccCcEEEEEeccCCcc--ccccccCCCCCCCCCcEEEEecCchh-hhhc-ccccceEe
Q 048126          205 FLDESWKNGSLEDKASDILRILSKKKFLLLLDDIWERV--DLTKVGVPFPDPENKSKIVFTTRFLE-ICGA-MKAHEFLK  280 (863)
Q Consensus       205 ~~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~--~~~~~~~~l~~~~~gs~IivTtR~~~-v~~~-~~~~~~~~  280 (863)
                      ...   ........   ....-.+++-+|++|+++...  ....+...+.......++|++|.... +... ......+.
T Consensus       115 ~~~---~~~~~~~~---~~~~~~~~~~vliiDE~~~l~~~~~~~Ll~~le~~~~~~~~il~~~~~~~l~~~l~sR~~~i~  188 (353)
T 1sxj_D          115 RLT---VSKPSKHD---LENYPCPPYKIIILDEADSMTADAQSALRRTMETYSGVTRFCLICNYVTRIIDPLASQCSKFR  188 (353)
T ss_dssp             HSC---CCCCCTTH---HHHSCCCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHHHSEEEE
T ss_pred             hhc---ccccchhh---cccCCCCCceEEEEECCCccCHHHHHHHHHHHHhcCCCceEEEEeCchhhCcchhhccCceEE
Confidence            000   00000000   000112355699999987532  12222222222234566777665432 2111 11123688


Q ss_pred             ecCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCCchhHHHHHH
Q 048126          281 VECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGLPLALITIG  330 (863)
Q Consensus       281 l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPlai~~~~  330 (863)
                      +.+++.++....+.+.+......   --.+....|++.++|.|..+..+.
T Consensus       189 ~~~~~~~~~~~~l~~~~~~~~~~---i~~~~l~~l~~~~~G~~r~~~~~l  235 (353)
T 1sxj_D          189 FKALDASNAIDRLRFISEQENVK---CDDGVLERILDISAGDLRRGITLL  235 (353)
T ss_dssp             CCCCCHHHHHHHHHHHHHTTTCC---CCHHHHHHHHHHTSSCHHHHHHHH
T ss_pred             eCCCCHHHHHHHHHHHHHHhCCC---CCHHHHHHHHHHcCCCHHHHHHHH
Confidence            99999999999998876543211   225678899999999998755443

>3pvs_A Replication-associated recombination protein A; maintenance of genome stability Pro recombination; 2.50A {Escherichia coli}

Probab=98.26  E-value=1.5e-05  Score=87.98  Aligned_cols=176  Identities=15%  Similarity=0.146  Sum_probs=104.5

Q ss_pred             CCccchhHHH---HHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCc-cCHHHHHHHHHH
Q 048126          126 EPTVGLESMF---DKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKD-LQLEKIQEKIGR  201 (863)
Q Consensus       126 ~~~vGr~~~~---~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~-~~~~~~~~~i~~  201 (863)
                      ..+||.+..+   ..+...+..+..+.+.|+|++|+||||+|+.+++..   ...|     +.++.. .....+ +.++.
T Consensus        26 ~~ivGq~~~~~~~~~L~~~i~~~~~~~vLL~GppGtGKTtlAr~ia~~~---~~~f-----~~l~a~~~~~~~i-r~~~~   96 (447)
T 3pvs_A           26 AQYIGQQHLLAAGKPLPRAIEAGHLHSMILWGPPGTGKTTLAEVIARYA---NADV-----ERISAVTSGVKEI-REAIE   96 (447)
T ss_dssp             TTCCSCHHHHSTTSHHHHHHHHTCCCEEEEECSTTSSHHHHHHHHHHHT---TCEE-----EEEETTTCCHHHH-HHHHH
T ss_pred             HHhCCcHHHHhchHHHHHHHHcCCCcEEEEECCCCCcHHHHHHHHHHHh---CCCe-----EEEEeccCCHHHH-HHHHH
Confidence            5689999888   778888877777889999999999999999999886   2222     222221 122221 11111


Q ss_pred             HhCCCCccccCCChhHHHHHHHHHhccCcEEEEEeccCCcc--ccccccCCCCCCCCCcEEE-EecCchhh---hhcccc
Q 048126          202 RIGFLDESWKNGSLEDKASDILRILSKKKFLLLLDDIWERV--DLTKVGVPFPDPENKSKIV-FTTRFLEI---CGAMKA  275 (863)
Q Consensus       202 ~l~~~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~--~~~~~~~~l~~~~~gs~Ii-vTtR~~~v---~~~~~~  275 (863)
                      ..                  ......+++.+|++|+++...  ..+.+...+.. + ...+| .||.+...   ......
T Consensus        97 ~a------------------~~~~~~~~~~iLfIDEI~~l~~~~q~~LL~~le~-~-~v~lI~att~n~~~~l~~aL~sR  156 (447)
T 3pvs_A           97 RA------------------RQNRNAGRRTILFVDEVHRFNKSQQDAFLPHIED-G-TITFIGATTENPSFELNSALLSR  156 (447)
T ss_dssp             HH------------------HHHHHTTCCEEEEEETTTCC------CCHHHHHT-T-SCEEEEEESSCGGGSSCHHHHTT
T ss_pred             HH------------------HHhhhcCCCcEEEEeChhhhCHHHHHHHHHHHhc-C-ceEEEecCCCCcccccCHHHhCc
Confidence            10                  011124678899999997642  23333322222 1 23333 35555431   111122


Q ss_pred             cceEeecCCChHHHHHHHHHHhcccccC---C-CCChHHHHHHHHHHhCCchhHHHHHH
Q 048126          276 HEFLKVECLGPEDAWRLFRENLRRDVLD---N-HPDIPELARSVAKEYAGLPLALITIG  330 (863)
Q Consensus       276 ~~~~~l~~L~~~e~~~lf~~~~~~~~~~---~-~~~~~~~~~~i~~~c~glPlai~~~~  330 (863)
                      ..++.+++++.++-..++.+.+......   . ..--.+....|++.++|.+-.+..+.
T Consensus       157 ~~v~~l~~l~~edi~~il~~~l~~~~~~~~~~~~~i~~~al~~L~~~~~Gd~R~lln~L  215 (447)
T 3pvs_A          157 ARVYLLKSLSTEDIEQVLTQAMEDKTRGYGGQDIVLPDETRRAIAELVNGDARRALNTL  215 (447)
T ss_dssp             EEEEECCCCCHHHHHHHHHHHHHCTTTSSTTSSEECCHHHHHHHHHHHCSCHHHHHHHH
T ss_pred             eeEEeeCCcCHHHHHHHHHHHHHHHhhhhccccCcCCHHHHHHHHHHCCCCHHHHHHHH
Confidence            3478899999999999999886542100   1 11224567888888999876555443

>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable holliday junction DNA helicase; HET: ADP; 2.69A {Campylobacter jejuni subsp}

Probab=98.26  E-value=8.5e-05  Score=79.32  Aligned_cols=171  Identities=14%  Similarity=0.082  Sum_probs=100.3

Q ss_pred             CCccchhHHHHHHHHHhcC-----CCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHH
Q 048126          126 EPTVGLESMFDKVWRCLGE-----EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIG  200 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~-----~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~  200 (863)
                      ..++|++..++.+..++..     .....|.|+|++|+|||++|+.+++..   ...|   +.+.++.......+. .++
T Consensus        29 ~~iiG~~~~~~~l~~~l~~~~~~~~~~~~vll~G~~GtGKT~la~~ia~~~---~~~~---~~~~~~~~~~~~~~~-~~~  101 (338)
T 3pfi_A           29 DGYIGQESIKKNLNVFIAAAKKRNECLDHILFSGPAGLGKTTLANIISYEM---SANI---KTTAAPMIEKSGDLA-AIL  101 (338)
T ss_dssp             GGCCSCHHHHHHHHHHHHHHHHTTSCCCCEEEECSTTSSHHHHHHHHHHHT---TCCE---EEEEGGGCCSHHHHH-HHH
T ss_pred             HHhCChHHHHHHHHHHHHHHHhcCCCCCeEEEECcCCCCHHHHHHHHHHHh---CCCe---EEecchhccchhHHH-HHH
Confidence            4689999999999888853     344578899999999999999998876   2232   233332221111111 111


Q ss_pred             HHhCCCCccccCCChhHHHHHHHHHhccCcEEEEEeccCCccc--cccccCC------------------CCCCCCCcEE
Q 048126          201 RRIGFLDESWKNGSLEDKASDILRILSKKKFLLLLDDIWERVD--LTKVGVP------------------FPDPENKSKI  260 (863)
Q Consensus       201 ~~l~~~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~--~~~~~~~------------------l~~~~~gs~I  260 (863)
                                            .+  ..+..+|++|+++....  ...+...                  .....++..+
T Consensus       102 ----------------------~~--~~~~~vl~lDEi~~l~~~~~~~Ll~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~  157 (338)
T 3pfi_A          102 ----------------------TN--LSEGDILFIDEIHRLSPAIEEVLYPAMEDYRLDIIIGSGPAAQTIKIDLPKFTL  157 (338)
T ss_dssp             ----------------------HT--CCTTCEEEEETGGGCCHHHHHHHHHHHHTSCC---------CCCCCCCCCCCEE
T ss_pred             ----------------------Hh--ccCCCEEEEechhhcCHHHHHHHHHHHHhccchhhcccCccccceecCCCCeEE
Confidence                                  10  13556888888875311  1111000                  0001123456


Q ss_pred             EEecCchhh-hhcc--cccceEeecCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCCchhHHHHHH
Q 048126          261 VFTTRFLEI-CGAM--KAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGLPLALITIG  330 (863)
Q Consensus       261 ivTtR~~~v-~~~~--~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPlai~~~~  330 (863)
                      |.||..... ....  .....+.+++++.++...++.+.+.....   .--.+....|++.+.|.|-.+..+.
T Consensus       158 i~atn~~~~l~~~L~~R~~~~i~l~~~~~~e~~~il~~~~~~~~~---~~~~~~~~~l~~~~~G~~r~l~~~l  227 (338)
T 3pfi_A          158 IGATTRAGMLSNPLRDRFGMQFRLEFYKDSELALILQKAALKLNK---TCEEKAALEIAKRSRSTPRIALRLL  227 (338)
T ss_dssp             EEEESCGGGSCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHTTC---EECHHHHHHHHHTTTTCHHHHHHHH
T ss_pred             EEeCCCccccCHHHHhhcCEEeeCCCcCHHHHHHHHHHHHHhcCC---CCCHHHHHHHHHHHCcCHHHHHHHH
Confidence            665554322 1111  12357899999999999999887654321   1124567888889999986555443

>2qz4_A Paraplegin; AAA+, SPG7, protease, ADP, structural genomics, structural G consortium, SGC, ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.22A {Homo sapiens}

Probab=98.17  E-value=3.1e-05  Score=79.38  Aligned_cols=180  Identities=13%  Similarity=0.136  Sum_probs=99.1

Q ss_pred             CCccchhHHHHHHHHHhc---C---------CCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHH
Q 048126          126 EPTVGLESMFDKVWRCLG---E---------EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLE  193 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~---~---------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~  193 (863)
                      ..++|.+..++.+.+++.   .         ...+.+.|+|++|+|||++|+.+++..   ...   .+.+.++.-.+. 
T Consensus         6 ~~i~G~~~~~~~l~~~~~~~~~~~~~~~~g~~~~~~vll~G~~GtGKT~la~~la~~~---~~~---~~~~~~~~~~~~-   78 (262)
T 2qz4_A            6 KDVAGMHEAKLEVREFVDYLKSPERFLQLGAKVPKGALLLGPPGCGKTLLAKAVATEA---QVP---FLAMAGAEFVEV-   78 (262)
T ss_dssp             TSSCSCHHHHHHHHHHHHHHHCCC------CCCCCEEEEESCTTSSHHHHHHHHHHHH---TCC---EEEEETTTTSSS-
T ss_pred             HHhCCHHHHHHHHHHHHHHHHCHHHHHHcCCCCCceEEEECCCCCCHHHHHHHHHHHh---CCC---EEEechHHHHhh-
Confidence            568999988887766542   1         234568899999999999999999987   222   344444332110 


Q ss_pred             HHHHHHHHHhCCCCccccCCChhHHHHHHHHHhccCcEEEEEeccCCcc-------------c----cccccCCCC--CC
Q 048126          194 KIQEKIGRRIGFLDESWKNGSLEDKASDILRILSKKKFLLLLDDIWERV-------------D----LTKVGVPFP--DP  254 (863)
Q Consensus       194 ~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~-------------~----~~~~~~~l~--~~  254 (863)
                                      +...........+.......+.+|++||++...             .    +..+...+.  ..
T Consensus        79 ----------------~~~~~~~~~~~~~~~a~~~~~~vl~iDeid~l~~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~~  142 (262)
T 2qz4_A           79 ----------------IGGLGAARVRSLFKEARARAPCIVYIDEIDAVGKKRSTTMSGFSNTEEEQTLNQLLVEMDGMGT  142 (262)
T ss_dssp             ----------------STTHHHHHHHHHHHHHHHTCSEEEEEECC-------------------CHHHHHHHHHHHTCCT
T ss_pred             ----------------ccChhHHHHHHHHHHHHhcCCeEEEEeCcchhhccccccccCccchhHHHHHHHHHHHhhCcCC
Confidence                            000011112222333333467899999997531             0    111111111  11


Q ss_pred             CCCcEEEEecCchhhh-hcc----cccceEeecCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCCchh-HHHH
Q 048126          255 ENKSKIVFTTRFLEIC-GAM----KAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGLPL-ALIT  328 (863)
Q Consensus       255 ~~gs~IivTtR~~~v~-~~~----~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPl-ai~~  328 (863)
                      ..+..||.||...... ...    .....+.++..+.++-.+++...+.....  ..........+++.+.|.+- .+..
T Consensus       143 ~~~~~vi~~tn~~~~ld~~l~~~~R~~~~i~i~~p~~~~r~~il~~~~~~~~~--~~~~~~~~~~l~~~~~g~~~~~l~~  220 (262)
T 2qz4_A          143 TDHVIVLASTNRADILDGALMRPGRLDRHVFIDLPTLQERREIFEQHLKSLKL--TQSSTFYSQRLAELTPGFSGADIAN  220 (262)
T ss_dssp             TCCEEEEEEESCGGGGGSGGGSTTSCCEEEECCSCCHHHHHHHHHHHHHHTTC--CBTHHHHHHHHHHTCTTCCHHHHHH
T ss_pred             CCCEEEEecCCChhhcCHHHhcCCcCCeEEEeCCcCHHHHHHHHHHHHHhCCC--CcchhhHHHHHHHHCCCCCHHHHHH
Confidence            2356677777654321 111    12346788999999999999887654321  12222234778888887654 4444


Q ss_pred             HH
Q 048126          329 IG  330 (863)
Q Consensus       329 ~~  330 (863)
                      +.
T Consensus       221 l~  222 (262)
T 2qz4_A          221 IC  222 (262)
T ss_dssp             HH
T ss_pred             HH
Confidence            33

>3e4g_A ATP synthase subunit S, mitochondrial; leucine-rich repeat, CF0, hydrogen ION transport, inner membrane, ION transport, membrane, mitochondrion; 0.96A {Bos taurus} PDB: 3e3z_A 3dze_A 3e2j_A

Probab=98.16  E-value=1.3e-06  Score=82.03  Aligned_cols=89  Identities=15%  Similarity=0.216  Sum_probs=55.5

Q ss_pred             CCCceEEEcCCcccccceeccccccccccccccCcccEEEEeccCCCCCC--chhhcc----CCCcEEEEeccccchhhc
Q 048126          691 HNLNKLYVAGRKHLEDFQMTVQRSSVNQLARGFHSLHTVKVGFCFKLKDL--TWLVFA----PSLKSIVVLSCCNMEQII  764 (863)
Q Consensus       691 ~~L~~L~l~~~~~~~~l~~~~~~~~~~~~~~~l~~L~~L~L~~c~~l~~l--~~l~~l----~~L~~L~l~~~~~l~~i~  764 (863)
                      .+|++|++++|. +++......        ..+++|++|+|++|..+++-  ..+..+    ++|++|+|++|+.+++-+
T Consensus        61 ~~L~~LDLs~~~-Itd~GL~~L--------~~~~~L~~L~L~~C~~ItD~gL~~L~~~~~~~~~L~~L~Ls~C~~ITD~G  131 (176)
T 3e4g_A           61 YKIQAIDATDSC-IMSIGFDHM--------EGLQYVEKIRLCKCHYIEDGCLERLSQLENLQKSMLEMEIISCGNVTDKG  131 (176)
T ss_dssp             CCEEEEEEESCC-CCGGGGGGG--------TTCSCCCEEEEESCTTCCHHHHHHHHTCHHHHHHCCEEEEESCTTCCHHH
T ss_pred             ceEeEEeCcCCC-ccHHHHHHh--------cCCCCCCEEEeCCCCccCHHHHHHHHhcccccCCCCEEEcCCCCcCCHHH
Confidence            367777777775 443222221        34777888888887766642  233332    468888888887777653


Q ss_pred             cccccccccCCCCCCCCcCCccceeccCCCcccccc
Q 048126          765 KAEKLSQLHHHPERKKSVFAKLQFLSLENLRNLCCI  800 (863)
Q Consensus       765 ~~~~~~~~~~~~~~~~~~~p~L~~L~l~~~~~L~~i  800 (863)
                      .            ..+..+|+|+.|+|++|+.+++.
T Consensus       132 l------------~~L~~~~~L~~L~L~~c~~Itd~  155 (176)
T 3e4g_A          132 I------------IALHHFRNLKYLFLSDLPGVKEK  155 (176)
T ss_dssp             H------------HHGGGCTTCCEEEEESCTTCCCH
T ss_pred             H------------HHHhcCCCCCEEECCCCCCCCch
Confidence            2            12345788888888888877763

>1sxj_E Activator 1 40 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=98.16  E-value=3e-06  Score=91.39  Aligned_cols=195  Identities=8%  Similarity=0.112  Sum_probs=103.9

Q ss_pred             CCccchhHHHHHHHHHh-cCCCccEEEEEcCCCCcHHHHHHHHHhhhcCCCC---CCCE--------------------E
Q 048126          126 EPTVGLESMFDKVWRCL-GEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPN---DFDV--------------------V  181 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L-~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~---~F~~--------------------~  181 (863)
                      ..++|.+..++.+.+++ ..++...+.|+|+.|+||||+|+.++........   .++.                    .
T Consensus        14 ~~~vg~~~~~~~l~~~~~~~~~~~~~ll~Gp~G~GKTtl~~~la~~l~~~~~g~i~~~~~~~~~~~~~~~~~~~~~~~~~   93 (354)
T 1sxj_E           14 NALSHNEELTNFLKSLSDQPRDLPHLLLYGPNGTGKKTRCMALLESIFGPGVYRLKIDVRQFVTASNRKLELNVVSSPYH   93 (354)
T ss_dssp             GGCCSCHHHHHHHHTTTTCTTCCCCEEEECSTTSSHHHHHHTHHHHHSCTTCCC------------------CCEECSSE
T ss_pred             HHhcCCHHHHHHHHHHHhhCCCCCeEEEECCCCCCHHHHHHHHHHHHcCCCCCeEEecceeecccccccceeeeecccce
Confidence            45799999999999998 6655444999999999999999999885411110   0110                    1


Q ss_pred             EEEEeCCcc-CHHHHHHHHHHHhCCCCccccCCChhHHHHHHHHHhccCcEEEEEeccCCcc--ccccccCCCCCCCCCc
Q 048126          182 IWVVVSKDL-QLEKIQEKIGRRIGFLDESWKNGSLEDKASDILRILSKKKFLLLLDDIWERV--DLTKVGVPFPDPENKS  258 (863)
Q Consensus       182 ~wv~~s~~~-~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~--~~~~~~~~l~~~~~gs  258 (863)
                      +.+..+... ......++++..+.....      ..... .+ ..+.+++-++|+|++....  ....+...+.....+.
T Consensus        94 ~~~~~~~~~~~~~~~~~~~i~~~~~~~~------~~~~~-~l-s~l~~~~~vlilDE~~~L~~~~~~~L~~~le~~~~~~  165 (354)
T 1sxj_E           94 LEITPSDMGNNDRIVIQELLKEVAQMEQ------VDFQD-SK-DGLAHRYKCVIINEANSLTKDAQAALRRTMEKYSKNI  165 (354)
T ss_dssp             EEECCC----CCHHHHHHHHHHHTTTTC--------------------CCEEEEEECTTSSCHHHHHHHHHHHHHSTTTE
T ss_pred             EEecHhhcCCcchHHHHHHHHHHHHhcc------ccccc-cc-cccCCCCeEEEEeCccccCHHHHHHHHHHHHhhcCCC
Confidence            111111100 000012222222211000      00000 00 0023467799999997632  1222222221122456


Q ss_pred             EEEEecCchh-hhhc-ccccceEeecCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCCchhHHHHHH
Q 048126          259 KIVFTTRFLE-ICGA-MKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGLPLALITIG  330 (863)
Q Consensus       259 ~IivTtR~~~-v~~~-~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPlai~~~~  330 (863)
                      .+|++|.+.. +... ......+++.+++.++..+.+.+.+.......+  -.+....|++.++|.+-.+..+.
T Consensus       166 ~~Il~t~~~~~l~~~l~sR~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~--~~~~l~~i~~~~~G~~r~a~~~l  237 (354)
T 1sxj_E          166 RLIMVCDSMSPIIAPIKSQCLLIRCPAPSDSEISTILSDVVTNERIQLE--TKDILKRIAQASNGNLRVSLLML  237 (354)
T ss_dssp             EEEEEESCSCSSCHHHHTTSEEEECCCCCHHHHHHHHHHHHHHHTCEEC--CSHHHHHHHHHHTTCHHHHHHHH
T ss_pred             EEEEEeCCHHHHHHHHHhhceEEecCCcCHHHHHHHHHHHHHHcCCCCC--cHHHHHHHHHHcCCCHHHHHHHH
Confidence            7777776532 2111 112257899999999999999887654321111  03567889999999987665544

>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein, calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides} PDB: 3syk_A 3zuh_A*

Probab=98.14  E-value=6.7e-06  Score=86.76  Aligned_cols=152  Identities=13%  Similarity=0.127  Sum_probs=85.8

Q ss_pred             CccchhHHHHHHHHHhc---------------CCCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccC
Q 048126          127 PTVGLESMFDKVWRCLG---------------EEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQ  191 (863)
Q Consensus       127 ~~vGr~~~~~~l~~~L~---------------~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~  191 (863)
                      .++|.+..++.|.+++.               ......+.|+|++|+|||++|+.+++.... .......-++.++..  
T Consensus        32 ~i~G~~~~~~~l~~~~~~~~~~~~~~~~g~~~~~~~~~vll~G~~GtGKT~la~~la~~l~~-~~~~~~~~~~~~~~~--  108 (309)
T 3syl_A           32 ELIGLKPVKDRIRETAALLLVERARQKLGLAHETPTLHMSFTGNPGTGKTTVALKMAGLLHR-LGYVRKGHLVSVTRD--  108 (309)
T ss_dssp             HSSSCHHHHHHHHHHHHHHHHHHHHHHHTCCSSCCCCEEEEEECTTSSHHHHHHHHHHHHHH-TTSSSSCCEEEECGG--
T ss_pred             HccChHHHHHHHHHHHHHHHhHHHHHHcCCCCCCCCceEEEECCCCCCHHHHHHHHHHHHHh-cCCcCCCcEEEEcHH--
Confidence            37899888888876653               234457899999999999999988887621 111111112333211  


Q ss_pred             HHHHHHHHHHHhCCCCccccCCChhHHHHHHHHHhccCcEEEEEeccCCc-----------cccccccCCCCCCCCCcEE
Q 048126          192 LEKIQEKIGRRIGFLDESWKNGSLEDKASDILRILSKKKFLLLLDDIWER-----------VDLTKVGVPFPDPENKSKI  260 (863)
Q Consensus       192 ~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~-----------~~~~~~~~~l~~~~~gs~I  260 (863)
                                .+...   ............+...   +.-+|++|+++..           .....+...+.....+..|
T Consensus       109 ----------~l~~~---~~g~~~~~~~~~~~~~---~~~vl~iDEid~l~~~~~~~~~~~~~~~~Ll~~l~~~~~~~~~  172 (309)
T 3syl_A          109 ----------DLVGQ---YIGHTAPKTKEVLKRA---MGGVLFIDEAYYLYRPDNERDYGQEAIEILLQVMENNRDDLVV  172 (309)
T ss_dssp             ----------GTCCS---STTCHHHHHHHHHHHH---TTSEEEEETGGGSCCCC---CCTHHHHHHHHHHHHHCTTTCEE
T ss_pred             ----------Hhhhh---cccccHHHHHHHHHhc---CCCEEEEEChhhhccCCCcccccHHHHHHHHHHHhcCCCCEEE
Confidence                      01000   0111111122222221   4569999999743           1122222222233446678


Q ss_pred             EEecCchhh----------hhcccccceEeecCCChHHHHHHHHHHhcc
Q 048126          261 VFTTRFLEI----------CGAMKAHEFLKVECLGPEDAWRLFRENLRR  299 (863)
Q Consensus       261 ivTtR~~~v----------~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~  299 (863)
                      |.||.....          ...  ....+.+++++.++-.+++...+..
T Consensus       173 i~~~~~~~~~~~~~~~~~l~~R--~~~~i~~~~~~~~~~~~il~~~l~~  219 (309)
T 3syl_A          173 ILAGYADRMENFFQSNPGFRSR--IAHHIEFPDYSDEELFEIAGHMLDD  219 (309)
T ss_dssp             EEEECHHHHHHHHHHSTTHHHH--EEEEEEECCCCHHHHHHHHHHHHHH
T ss_pred             EEeCChHHHHHHHhhCHHHHHh--CCeEEEcCCcCHHHHHHHHHHHHHH
Confidence            888865432          121  2257899999999999999887654

>3uk6_A RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding, hydrolase; HET: ADP; 2.95A {Homo sapiens} PDB: 2xsz_D*

Probab=98.11  E-value=6.8e-05  Score=81.16  Aligned_cols=194  Identities=12%  Similarity=0.106  Sum_probs=102.6

Q ss_pred             CCccchhHHHHH---HHHHhcCCCc--cEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeC----CccCHHHHH
Q 048126          126 EPTVGLESMFDK---VWRCLGEEQV--GIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVS----KDLQLEKIQ  196 (863)
Q Consensus       126 ~~~vGr~~~~~~---l~~~L~~~~~--~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s----~~~~~~~~~  196 (863)
                      +.+||++..++.   +.+.+.....  +.+.|+|++|+|||++|+.+++.. .  .... .+.+...    .........
T Consensus        44 ~~ivG~~~~~~~l~~l~~~~~~~~~~~~~vLl~GppGtGKT~la~~la~~l-~--~~~~-~~~~~~~~~~~~~~~~~~~~  119 (368)
T 3uk6_A           44 QGMVGQLAARRAAGVVLEMIREGKIAGRAVLIAGQPGTGKTAIAMGMAQAL-G--PDTP-FTAIAGSEIFSLEMSKTEAL  119 (368)
T ss_dssp             TTEESCHHHHHHHHHHHHHHHTTCCTTCEEEEEESTTSSHHHHHHHHHHHH-C--SSCC-EEEEEGGGGSCSSSCHHHHH
T ss_pred             hhccChHHHHHHHHHHHHHHHcCCCCCCEEEEECCCCCCHHHHHHHHHHHh-c--ccCC-cccccchhhhhcccchhHHH
Confidence            568999988776   4555554433  589999999999999999999988 2  2211 1222321    222333333


Q ss_pred             HHHHHHh-CC--------------------CCc-------cccCCChhHHHHHHHHHh-----ccC----cEEEEEeccC
Q 048126          197 EKIGRRI-GF--------------------LDE-------SWKNGSLEDKASDILRIL-----SKK----KFLLLLDDIW  239 (863)
Q Consensus       197 ~~i~~~l-~~--------------------~~~-------~~~~~~~~~~~~~l~~~l-----~~k----r~LlVlDdv~  239 (863)
                      ....... +.                    ...       ........+....+.+..     .++    +.+|++|+++
T Consensus       120 ~~~~~~~~~~~~~~~~~~~~~~~~ld~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~g~~~~~~~vl~IDEi~  199 (368)
T 3uk6_A          120 TQAFRRSIGVRIKAGAVHTVSLHEIDVINSRTQGFLALFSGDTGEIKSEVREQINAKVAEWREEGKAEIIPGVLFIDEVH  199 (368)
T ss_dssp             HHHHHHSBEECC------CEEHHHHHHHTC----CCSCC-------CHHHHHHHHHHHHHHHHHTC---CBCEEEEESGG
T ss_pred             HHHHHHHHHHHhhhhccccccHhhhhhhhcccccchhhccCcccccHHHHHHHHHHHHHHhhhhccccccCceEEEhhcc
Confidence            3333221 00                    000       000011222222222221     123    3599999997


Q ss_pred             Ccc--ccccccCCCCCCCCCcEEEEecC-c----------------hhhhhcccccceEeecCCChHHHHHHHHHHhccc
Q 048126          240 ERV--DLTKVGVPFPDPENKSKIVFTTR-F----------------LEICGAMKAHEFLKVECLGPEDAWRLFRENLRRD  300 (863)
Q Consensus       240 ~~~--~~~~~~~~l~~~~~gs~IivTtR-~----------------~~v~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~  300 (863)
                      ...  ....+...+...... .++++|. .                +.+...+   ..+.+++++.++..+++.+.+...
T Consensus       200 ~l~~~~~~~L~~~le~~~~~-~~ii~t~~~~~~i~~t~~~~~~~l~~~l~sR~---~~i~~~~~~~~e~~~il~~~~~~~  275 (368)
T 3uk6_A          200 MLDIESFSFLNRALESDMAP-VLIMATNRGITRIRGTSYQSPHGIPIDLLDRL---LIVSTTPYSEKDTKQILRIRCEEE  275 (368)
T ss_dssp             GSBHHHHHHHHHHTTCTTCC-EEEEEESCSEEECBTSSCEEETTCCHHHHTTE---EEEEECCCCHHHHHHHHHHHHHHT
T ss_pred             ccChHHHHHHHHHhhCcCCC-eeeeecccceeeeeccCCCCcccCCHHHHhhc---cEEEecCCCHHHHHHHHHHHHHHc
Confidence            642  122222222222222 2333332 1                1222222   347999999999999999877543


Q ss_pred             ccCCCCChHHHHHHHHHHhC-CchhHHHHHH
Q 048126          301 VLDNHPDIPELARSVAKEYA-GLPLALITIG  330 (863)
Q Consensus       301 ~~~~~~~~~~~~~~i~~~c~-glPlai~~~~  330 (863)
                      ..   .--.+....|++.+. |.|-.+..+.
T Consensus       276 ~~---~~~~~~l~~l~~~~~~G~~r~~~~ll  303 (368)
T 3uk6_A          276 DV---EMSEDAYTVLTRIGLETSLRYAIQLI  303 (368)
T ss_dssp             TC---CBCHHHHHHHHHHHHHSCHHHHHHHH
T ss_pred             CC---CCCHHHHHHHHHHhcCCCHHHHHHHH
Confidence            21   122456788899987 7776555443

>3u61_B DNA polymerase accessory protein 44; AAA+, ATP hydrolase, clamp loader, sliding clamp, primer-TEM DNA, DNA binding protein-DNA complex; HET: DNA ADP 08T; 3.20A {Enterobacteria phage T4} PDB: 3u5z_B* 3u60_B*

Probab=98.09  E-value=2.3e-05  Score=83.27  Aligned_cols=176  Identities=10%  Similarity=0.043  Sum_probs=100.7

Q ss_pred             CCccchhHHHHHHHHHhcCCCc-cEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHHHHhC
Q 048126          126 EPTVGLESMFDKVWRCLGEEQV-GIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGRRIG  204 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~  204 (863)
                      ++++|.+..++.+.+++..+.. +++.+.|++|+|||++|+.+++..   .   ..++.+..+.. ....+ +..+....
T Consensus        26 ~~ivg~~~~~~~l~~~l~~~~~~~~~L~~G~~G~GKT~la~~la~~l---~---~~~~~i~~~~~-~~~~i-~~~~~~~~   97 (324)
T 3u61_B           26 DECILPAFDKETFKSITSKGKIPHIILHSPSPGTGKTTVAKALCHDV---N---ADMMFVNGSDC-KIDFV-RGPLTNFA   97 (324)
T ss_dssp             TTSCCCHHHHHHHHHHHHTTCCCSEEEECSSTTSSHHHHHHHHHHHT---T---EEEEEEETTTC-CHHHH-HTHHHHHH
T ss_pred             HHHhCcHHHHHHHHHHHHcCCCCeEEEeeCcCCCCHHHHHHHHHHHh---C---CCEEEEccccc-CHHHH-HHHHHHHH
Confidence            5689999999999999986554 577778889999999999999876   1   23445554432 22222 21111110


Q ss_pred             CCCccccCCChhHHHHHHHHHhccCcEEEEEeccCCcc---ccccccCCCCCCCCCcEEEEecCchhh-hhc-ccccceE
Q 048126          205 FLDESWKNGSLEDKASDILRILSKKKFLLLLDDIWERV---DLTKVGVPFPDPENKSKIVFTTRFLEI-CGA-MKAHEFL  279 (863)
Q Consensus       205 ~~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~---~~~~~~~~l~~~~~gs~IivTtR~~~v-~~~-~~~~~~~  279 (863)
                      ...                 ...+++-+||+||++...   ....+...+.....+.++|+||....- ... ......+
T Consensus        98 ~~~-----------------~~~~~~~vliiDEi~~l~~~~~~~~L~~~le~~~~~~~iI~~~n~~~~l~~~l~sR~~~i  160 (324)
T 3u61_B           98 SAA-----------------SFDGRQKVIVIDEFDRSGLAESQRHLRSFMEAYSSNCSIIITANNIDGIIKPLQSRCRVI  160 (324)
T ss_dssp             HBC-----------------CCSSCEEEEEEESCCCGGGHHHHHHHHHHHHHHGGGCEEEEEESSGGGSCTTHHHHSEEE
T ss_pred             hhc-----------------ccCCCCeEEEEECCcccCcHHHHHHHHHHHHhCCCCcEEEEEeCCccccCHHHHhhCcEE
Confidence            000                 012367899999998643   222222222222245678887766431 110 1112468


Q ss_pred             eecCCChHHHHHHHH-------HHhcccccCCCCChHHHHHHHHHHhCCchhHHHH
Q 048126          280 KVECLGPEDAWRLFR-------ENLRRDVLDNHPDIPELARSVAKEYAGLPLALIT  328 (863)
Q Consensus       280 ~l~~L~~~e~~~lf~-------~~~~~~~~~~~~~~~~~~~~i~~~c~glPlai~~  328 (863)
                      .+++++.++-.+++.       +.+.......++  .+....|++.++|.+..+..
T Consensus       161 ~~~~~~~~e~~~il~~~~~~l~~~~~~~~~~~~~--~~~~~~l~~~~~gd~R~a~~  214 (324)
T 3u61_B          161 TFGQPTDEDKIEMMKQMIRRLTEICKHEGIAIAD--MKVVAALVKKNFPDFRKTIG  214 (324)
T ss_dssp             ECCCCCHHHHHHHHHHHHHHHHHHHHHHTCCBSC--HHHHHHHHHHTCSCTTHHHH
T ss_pred             EeCCCCHHHHHHHHHHHHHHHHHHHHHcCCCCCc--HHHHHHHHHhCCCCHHHHHH
Confidence            999999888443322       222222111111  26678888999887764443

>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo sapiens}

Probab=98.09  E-value=0.00013  Score=76.97  Aligned_cols=178  Identities=15%  Similarity=0.144  Sum_probs=102.4

Q ss_pred             CCccchhHHHHHHHHHhcC------------CCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHH
Q 048126          126 EPTVGLESMFDKVWRCLGE------------EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLE  193 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~------------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~  193 (863)
                      .+++|.+..++.|.+.+..            ...+.|.++|++|+|||+||+.+++.. . ..   ..+.+..+.-.+  
T Consensus        12 ~di~G~~~~k~~l~~~v~~p~~~~~~~~~~~~~~~~iLL~GppGtGKT~la~ala~~~-~-~~---~~~~i~~~~l~~--   84 (322)
T 1xwi_A           12 SDVAGLEGAKEALKEAVILPIKFPHLFTGKRTPWRGILLFGPPGTGKSYLAKAVATEA-N-NS---TFFSISSSDLVS--   84 (322)
T ss_dssp             GGSCSCHHHHHHHHHHHHHHHHCGGGSCTTCCCCSEEEEESSSSSCHHHHHHHHHHHT-T-SC---EEEEEECCSSCC--
T ss_pred             HHhcCHHHHHHHHHHHHHHHHhCHHHHhCCCCCCceEEEECCCCccHHHHHHHHHHHc-C-CC---cEEEEEhHHHHh--
Confidence            4578999998888877631            134678999999999999999999876 1 11   233344332110  


Q ss_pred             HHHHHHHHHhCCCCccccCCChhHHHHHHHH-HhccCcEEEEEeccCCccc-------------cccccCC---CCCCCC
Q 048126          194 KIQEKIGRRIGFLDESWKNGSLEDKASDILR-ILSKKKFLLLLDDIWERVD-------------LTKVGVP---FPDPEN  256 (863)
Q Consensus       194 ~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~-~l~~kr~LlVlDdv~~~~~-------------~~~~~~~---l~~~~~  256 (863)
                                     .+.... +.....+.+ .-..++.+|++|+++....             ...+...   +.....
T Consensus        85 ---------------~~~g~~-~~~~~~lf~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~  148 (322)
T 1xwi_A           85 ---------------KWLGES-EKLVKNLFQLARENKPSIIFIDEIDSLCGSRSENESEAARRIKTEFLVQMQGVGVDND  148 (322)
T ss_dssp             ---------------SSCCSC-HHHHHHHHHHHHHTSSEEEEEETTTGGGCCSSSCCTTHHHHHHHHHHHHHHCSSSCCT
T ss_pred             ---------------hhhhHH-HHHHHHHHHHHHhcCCcEEEeecHHHhccccccccchHHHHHHHHHHHHHhcccccCC
Confidence                           001112 222222322 2335788999999975310             0011111   111224


Q ss_pred             CcEEEEecCchhh-----hhcccccceEeecCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCCc-hhHHHHHH
Q 048126          257 KSKIVFTTRFLEI-----CGAMKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGL-PLALITIG  330 (863)
Q Consensus       257 gs~IivTtR~~~v-----~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~gl-Plai~~~~  330 (863)
                      +..||.||.....     ..  .....+.++..+.++-.++++..+......   --......|++.+.|. +-.+..+.
T Consensus       149 ~v~vI~atn~~~~ld~al~r--Rf~~~i~i~~P~~~~r~~il~~~l~~~~~~---l~~~~l~~la~~t~G~sgadl~~l~  223 (322)
T 1xwi_A          149 GILVLGATNIPWVLDSAIRR--RFEKRIYIPLPEPHARAAMFKLHLGTTQNS---LTEADFRELGRKTDGYSGADISIIV  223 (322)
T ss_dssp             TEEEEEEESCTTTSCHHHHH--TCCEEEECCCCCHHHHHHHHHHHHTTCCBC---CCHHHHHHHHHTCTTCCHHHHHHHH
T ss_pred             CEEEEEecCCcccCCHHHHh--hcCeEEEeCCcCHHHHHHHHHHHHhcCCCC---CCHHHHHHHHHHcCCCCHHHHHHHH
Confidence            4556656654322     22  223467888889999999998876543211   1234568888999886 44455554


Q ss_pred             H
Q 048126          331 R  331 (863)
Q Consensus       331 ~  331 (863)
                      .
T Consensus       224 ~  224 (322)
T 1xwi_A          224 R  224 (322)
T ss_dssp             H
T ss_pred             H
Confidence            3

>4fs7_A Uncharacterized protein; leucine-rich repeats, protein binding, extracellular protein structural genomics; HET: MSE; 1.19A {Bacteroides ovatus}

Probab=98.08  E-value=1.3e-05  Score=87.65  Aligned_cols=302  Identities=13%  Similarity=0.064  Sum_probs=144.2

Q ss_pred             cccccceEEEEeccccccccc--cCCCCCccceEEccCCccccccchhhhcCCCccEEEccCCCccccCCccccccCCCC
Q 048126          490 IQNWRNVRRMSLMKNKIENLS--ETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSLE  567 (863)
Q Consensus       490 ~~~~~~lr~L~l~~~~~~~l~--~~~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~  567 (863)
                      +.++.+|+.+.+.. .+..+.  .+.+|++|+.+++..+ ++.++...|.++..|+.+.+..+ ....-...+.++..+.
T Consensus        67 F~~c~~L~~i~lp~-~i~~I~~~aF~~c~~L~~i~lp~~-l~~I~~~aF~~c~~L~~i~~p~~-l~~i~~~aF~~~~~~~  143 (394)
T 4fs7_A           67 FQGCRKVTEIKIPS-TVREIGEFAFENCSKLEIINIPDS-VKMIGRCTFSGCYALKSILLPLM-LKSIGVEAFKGCDFKE  143 (394)
T ss_dssp             TTTCTTEEEEECCT-TCCEECTTTTTTCTTCCEECCCTT-CCEECTTTTTTCTTCCCCCCCTT-CCEECTTTTTTCCCSE
T ss_pred             hhCCCCceEEEeCC-CccCcchhHhhCCCCCcEEEeCCC-ceEccchhhcccccchhhcccCc-eeeecceeeecccccc
Confidence            44566777777753 344442  3466777777777644 56666666777777776665544 2211122233332222


Q ss_pred             eEEccCCCccccc-hhhhcCCCCCEEecCCccccCCCcHHHhhcCCCCcEEEeeccccccCchhhHHHHHcCCccCceEE
Q 048126          568 HLDLSGTAITHLP-IELQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRILKSNVLFGGHQFLVEELMGMKHLMALT  646 (863)
Q Consensus       568 ~L~L~~~~l~~lp-~~~~~l~~L~~L~l~~~~~l~~lp~~~~~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~~L~  646 (863)
                      .....  .+..+. ..+.++.+|+.+.+.++  +..++...+..+.+|+.+.+..+-..-     ....+.++..|+.+.
T Consensus       144 ~~~~~--~~~~i~~~aF~~c~~L~~i~l~~~--~~~I~~~~F~~c~~L~~i~l~~~~~~I-----~~~~F~~~~~L~~i~  214 (394)
T 4fs7_A          144 ITIPE--GVTVIGDEAFATCESLEYVSLPDS--METLHNGLFSGCGKLKSIKLPRNLKII-----RDYCFAECILLENME  214 (394)
T ss_dssp             EECCT--TCCEECTTTTTTCTTCCEEECCTT--CCEECTTTTTTCTTCCBCCCCTTCCEE-----CTTTTTTCTTCCBCC
T ss_pred             cccCc--cccccchhhhcccCCCcEEecCCc--cceeccccccCCCCceEEEcCCCceEe-----Cchhhccccccceee
Confidence            11111  122222 24667777777777653  355666666777777777664431110     011233344444443


Q ss_pred             EEEcChHHHHHHhhhhhhhhcceeeeeccccCCCcccccchhhcCCCceEEEcCCcccccceeccccccccccccccCcc
Q 048126          647 ITLKSWEALQELLISQELQRCTQSLFLRCFNDSKSLDIFCLACLHNLNKLYVAGRKHLEDFQMTVQRSSVNQLARGFHSL  726 (863)
Q Consensus       647 l~~~~~~~~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~l~~~~~~~~~~~~~~~l~~L  726 (863)
                      +..+.. .+.   ........|+.+.+...  ...+....+..+.+|+.+.+..+  ...+....+        ..+++|
T Consensus       215 ~~~~~~-~i~---~~~~~~~~l~~i~ip~~--~~~i~~~~f~~~~~l~~~~~~~~--~~~i~~~~F--------~~~~~l  278 (394)
T 4fs7_A          215 FPNSLY-YLG---DFALSKTGVKNIIIPDS--FTELGKSVFYGCTDLESISIQNN--KLRIGGSLF--------YNCSGL  278 (394)
T ss_dssp             CCTTCC-EEC---TTTTTTCCCCEEEECTT--CCEECSSTTTTCSSCCEEEECCT--TCEECSCTT--------TTCTTC
T ss_pred             cCCCce-Eee---hhhcccCCCceEEECCC--ceecccccccccccceeEEcCCC--cceeecccc--------cccccc
Confidence            321100 000   00111235555555321  22222334556677777777543  222222221        235556


Q ss_pred             cEEEEeccCCCCCCchhhccCCCcEEEEeccccchhhccccccccccCCCCCCCCcCCccceeccCCCccccccccC-CC
Q 048126          727 HTVKVGFCFKLKDLTWLVFAPSLKSIVVLSCCNMEQIIKAEKLSQLHHHPERKKSVFAKLQFLSLENLRNLCCINWE-AL  805 (863)
Q Consensus       727 ~~L~L~~c~~l~~l~~l~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~~~p~L~~L~l~~~~~L~~i~~~-~~  805 (863)
                      +.+.+.... +.. ..+..+++|+.+.+..  .++.+.            ...+..+.+|+.+.|.+  .++.+... ..
T Consensus       279 ~~~~~~~~~-i~~-~~F~~~~~L~~i~l~~--~i~~I~------------~~aF~~c~~L~~i~lp~--~v~~I~~~aF~  340 (394)
T 4fs7_A          279 KKVIYGSVI-VPE-KTFYGCSSLTEVKLLD--SVKFIG------------EEAFESCTSLVSIDLPY--LVEEIGKRSFR  340 (394)
T ss_dssp             CEEEECSSE-ECT-TTTTTCTTCCEEEECT--TCCEEC------------TTTTTTCTTCCEECCCT--TCCEECTTTTT
T ss_pred             ceeccCcee-ecc-cccccccccccccccc--ccceec------------hhhhcCCCCCCEEEeCC--cccEEhHHhcc
Confidence            665554321 110 1233456677766643  244431            23455566777776642  34544432 22


Q ss_pred             CCCCcceEeecCCCCCCCCCCCCCC--CCCCceEEE
Q 048126          806 AFPNLKEIRVEGCPKLFKLPLDSNS--AKGCKVVIK  839 (863)
Q Consensus       806 ~~p~L~~L~i~~C~~L~~lp~~~~~--~~L~~l~i~  839 (863)
                      .+.+|+.+.+..  +++.++.....  .+|+.+.+.
T Consensus       341 ~c~~L~~i~lp~--~l~~I~~~aF~~C~~L~~i~lp  374 (394)
T 4fs7_A          341 GCTSLSNINFPL--SLRKIGANAFQGCINLKKVELP  374 (394)
T ss_dssp             TCTTCCEECCCT--TCCEECTTTBTTCTTCCEEEEE
T ss_pred             CCCCCCEEEECc--cccEehHHHhhCCCCCCEEEEC
Confidence            356666666632  35555543322  566666665

>2ra8_A Uncharacterized protein Q64V53_bacfr; WGR domain, LRR domain, leucine rich repeats, BFR43, structural genomics, PSI-2; 1.95A {Bacteroides fragilis}

Probab=98.08  E-value=8.3e-06  Score=87.42  Aligned_cols=59  Identities=19%  Similarity=0.260  Sum_probs=30.6

Q ss_pred             hhhhcCCCccEEEccCCCccccCCccccccCCCCeEEccCCCccc-cchhhh--cCCCCCEEecC
Q 048126          534 DFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAITH-LPIELQ--KLVNLKCLNLE  595 (863)
Q Consensus       534 ~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~~~l~~-lp~~~~--~l~~L~~L~l~  595 (863)
                      .++..+++|+.|+|+++... .+|. + .+++|++|++..|.+.. -...+.  .+++|++|+|+
T Consensus       166 ~ll~~~P~L~~L~L~g~~~l-~l~~-~-~~~~L~~L~L~~~~l~~~~l~~l~~~~lp~L~~L~L~  227 (362)
T 2ra8_A          166 PVLDAMPLLNNLKIKGTNNL-SIGK-K-PRPNLKSLEIISGGLPDSVVEDILGSDLPNLEKLVLY  227 (362)
T ss_dssp             HHHHTCTTCCEEEEECCBTC-BCCS-C-BCTTCSEEEEECSBCCHHHHHHHHHSBCTTCCEEEEE
T ss_pred             HHHhcCCCCcEEEEeCCCCc-eecc-c-cCCCCcEEEEecCCCChHHHHHHHHccCCCCcEEEEe
Confidence            33556667777777665222 3333 3 25666666666655431 111222  56666666654

>2ra8_A Uncharacterized protein Q64V53_bacfr; WGR domain, LRR domain, leucine rich repeats, BFR43, structural genomics, PSI-2; 1.95A {Bacteroides fragilis}

Probab=98.08  E-value=1.2e-06  Score=94.08  Aligned_cols=136  Identities=18%  Similarity=0.205  Sum_probs=73.5

Q ss_pred             CCCCccceEEccCCccccccchhhhcCCCccEEEccCCCccccCCcccc--ccCCCCeEEccCC--C------ccccchh
Q 048126          513 PTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGIS--TLVSLEHLDLSGT--A------ITHLPIE  582 (863)
Q Consensus       513 ~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~--~l~~L~~L~L~~~--~------l~~lp~~  582 (863)
                      ..+|+|+.|.+++|.-..+++  + .+++|+.|+|..|.+.......++  .+++|++|+|+.+  .      +..+...
T Consensus       169 ~~~P~L~~L~L~g~~~l~l~~--~-~~~~L~~L~L~~~~l~~~~l~~l~~~~lp~L~~L~L~~~~~~~~~~~~~~~l~~~  245 (362)
T 2ra8_A          169 DAMPLLNNLKIKGTNNLSIGK--K-PRPNLKSLEIISGGLPDSVVEDILGSDLPNLEKLVLYVGVEDYGFDGDMNVFRPL  245 (362)
T ss_dssp             HTCTTCCEEEEECCBTCBCCS--C-BCTTCSEEEEECSBCCHHHHHHHHHSBCTTCCEEEEECBCGGGTCCSCGGGTGGG
T ss_pred             hcCCCCcEEEEeCCCCceecc--c-cCCCCcEEEEecCCCChHHHHHHHHccCCCCcEEEEeccccccccchhHHHHHHH
Confidence            567888888888773123333  3 377888888887743322222333  6788888887531  1      2222222


Q ss_pred             h--hcCCCCCEEecCCccccCCCcHHHh--hcCCCCcEEEeeccccccCchhhHHHHHcCCccCceEEEEEcC
Q 048126          583 L--QKLVNLKCLNLEYMYNLNQFPRLVM--SAFSKLQVLRILKSNVLFGGHQFLVEELMGMKHLMALTITLKS  651 (863)
Q Consensus       583 ~--~~l~~L~~L~l~~~~~l~~lp~~~~--~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~  651 (863)
                      +  ..+++|++|++++|......+..+.  ..+++|++|+++.|.+...+.......+.++++|+.|+++.|.
T Consensus       246 l~~~~~p~Lr~L~L~~~~i~~~~~~~la~a~~~~~L~~LdLs~n~L~d~G~~~L~~~L~~l~~L~~L~L~~n~  318 (362)
T 2ra8_A          246 FSKDRFPNLKWLGIVDAEEQNVVVEMFLESDILPQLETMDISAGVLTDEGARLLLDHVDKIKHLKFINMKYNY  318 (362)
T ss_dssp             SCTTTCTTCCEEEEESCTTHHHHHHHHHHCSSGGGCSEEECCSSCCBHHHHHHHHTTHHHHTTCSEEECCSBB
T ss_pred             HhcCCCCCcCEEeCCCCCCchHHHHHHHhCccCCCCCEEECCCCCCChHHHHHHHhhcccCCcceEEECCCCc
Confidence            2  2467788887777632211222211  2466777777766654432111222233455666666666554

>3d8b_A Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, structural genomics consortium, ATP- hydrolase, magnesium, metal-binding, nucleotide-binding; HET: ADP; 2.00A {Homo sapiens}

Probab=98.07  E-value=5.1e-05  Score=81.54  Aligned_cols=179  Identities=15%  Similarity=0.063  Sum_probs=102.8

Q ss_pred             CCccchhHHHHHHHHHhcC------------CCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHH
Q 048126          126 EPTVGLESMFDKVWRCLGE------------EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLE  193 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~------------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~  193 (863)
                      ..++|.+..++.|.+.+..            ...+.|.|+|++|+|||++|+.+++..   ..   ..+.+.++.-... 
T Consensus        84 ~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vLl~GppGtGKT~la~aia~~~---~~---~~~~i~~~~l~~~-  156 (357)
T 3d8b_A           84 EDIAGVEFAKATIKEIVVWPMLRPDIFTGLRGPPKGILLFGPPGTGKTLIGKCIASQS---GA---TFFSISASSLTSK-  156 (357)
T ss_dssp             GGSCSCHHHHHHHHHHTHHHHHCTTTSCGGGSCCSEEEEESSTTSSHHHHHHHHHHHT---TC---EEEEEEGGGGCCS-
T ss_pred             HHhCChHHHHHHHHHHHHHHhhChHhHhhccCCCceEEEECCCCCCHHHHHHHHHHHc---CC---eEEEEehHHhhcc-
Confidence            4589999999999888741            345688999999999999999999876   22   2344544322110 


Q ss_pred             HHHHHHHHHhCCCCccccCCChhHHHHHHHH-HhccCcEEEEEeccCCcc-------------ccccccCCCC----CCC
Q 048126          194 KIQEKIGRRIGFLDESWKNGSLEDKASDILR-ILSKKKFLLLLDDIWERV-------------DLTKVGVPFP----DPE  255 (863)
Q Consensus       194 ~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~-~l~~kr~LlVlDdv~~~~-------------~~~~~~~~l~----~~~  255 (863)
                                       ...........+.. .-..++.+|+||+++...             ....+...+.    ...
T Consensus       157 -----------------~~g~~~~~~~~~~~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~lL~~l~~~~~~~~  219 (357)
T 3d8b_A          157 -----------------WVGEGEKMVRALFAVARCQQPAVIFIDEIDSLLSQRGDGEHESSRRIKTEFLVQLDGATTSSE  219 (357)
T ss_dssp             -----------------STTHHHHHHHHHHHHHHHTCSEEEEEETHHHHTBC------CHHHHHHHHHHHHHHC----CC
T ss_pred             -----------------ccchHHHHHHHHHHHHHhcCCeEEEEeCchhhhccCCCCcchHHHHHHHHHHHHHhcccccCC
Confidence                             00001111222222 223567899999995321             0111111111    112


Q ss_pred             CCcEEEEecCchh-hhhcc--cccceEeecCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCC-chhHHHHHHH
Q 048126          256 NKSKIVFTTRFLE-ICGAM--KAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAG-LPLALITIGR  331 (863)
Q Consensus       256 ~gs~IivTtR~~~-v~~~~--~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g-lPlai~~~~~  331 (863)
                      .+..||.||.... +....  .....+.+...+.++..+++...+......   --.+....|++.+.| .+-.+..+..
T Consensus       220 ~~v~vI~atn~~~~l~~~l~~Rf~~~i~i~~p~~~~r~~il~~~~~~~~~~---l~~~~l~~la~~t~G~s~~dl~~l~~  296 (357)
T 3d8b_A          220 DRILVVGATNRPQEIDEAARRRLVKRLYIPLPEASARKQIVINLMSKEQCC---LSEEEIEQIVQQSDAFSGADMTQLCR  296 (357)
T ss_dssp             CCEEEEEEESCGGGBCHHHHTTCCEEEECCCCCHHHHHHHHHHHHHTSCBC---CCHHHHHHHHHHTTTCCHHHHHHHHH
T ss_pred             CCEEEEEecCChhhCCHHHHhhCceEEEeCCcCHHHHHHHHHHHHhhcCCC---ccHHHHHHHHHHcCCCCHHHHHHHHH
Confidence            3455665665432 21111  123467788899999999988776443211   124567889999988 4556665543

>3e4g_A ATP synthase subunit S, mitochondrial; leucine-rich repeat, CF0, hydrogen ION transport, inner membrane, ION transport, membrane, mitochondrion; 0.96A {Bos taurus} PDB: 3e3z_A 3dze_A 3e2j_A

Probab=98.04  E-value=4.4e-06  Score=78.50  Aligned_cols=86  Identities=17%  Similarity=0.245  Sum_probs=45.7

Q ss_pred             CccceEEccCCccccccchhhhcCCCccEEEccCCCcccc-CCcccccc----CCCCeEEccCC-Cccc--cchhhhcCC
Q 048126          516 PHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWK-LPSGISTL----VSLEHLDLSGT-AITH--LPIELQKLV  587 (863)
Q Consensus       516 ~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~-lp~~i~~l----~~L~~L~L~~~-~l~~--lp~~~~~l~  587 (863)
                      .+|+.|++++|.++...-..+.+|++|++|+|++|..++. --..++.+    ++|++|+|++| +|+.  + ..+.+++
T Consensus        61 ~~L~~LDLs~~~Itd~GL~~L~~~~~L~~L~L~~C~~ItD~gL~~L~~~~~~~~~L~~L~Ls~C~~ITD~Gl-~~L~~~~  139 (176)
T 3e4g_A           61 YKIQAIDATDSCIMSIGFDHMEGLQYVEKIRLCKCHYIEDGCLERLSQLENLQKSMLEMEIISCGNVTDKGI-IALHHFR  139 (176)
T ss_dssp             CCEEEEEEESCCCCGGGGGGGTTCSCCCEEEEESCTTCCHHHHHHHHTCHHHHHHCCEEEEESCTTCCHHHH-HHGGGCT
T ss_pred             ceEeEEeCcCCCccHHHHHHhcCCCCCCEEEeCCCCccCHHHHHHHHhcccccCCCCEEEcCCCCcCCHHHH-HHHhcCC
Confidence            4577777777766554444456677777777777643322 11223332    24566666655 3541  2 1234455


Q ss_pred             CCCEEecCCccccCC
Q 048126          588 NLKCLNLEYMYNLNQ  602 (863)
Q Consensus       588 ~L~~L~l~~~~~l~~  602 (863)
                      +|++|++++|+.++.
T Consensus       140 ~L~~L~L~~c~~Itd  154 (176)
T 3e4g_A          140 NLKYLFLSDLPGVKE  154 (176)
T ss_dssp             TCCEEEEESCTTCCC
T ss_pred             CCCEEECCCCCCCCc
Confidence            555555555544443

>1a5t_A Delta prime, HOLB; zinc finger, DNA replication; 2.20A {Escherichia coli K12} SCOP: a.80.1.1 c.37.1.20 PDB: 1jr3_E* 1xxh_E* 1xxi_E* 3glf_E* 3glg_E* 3glh_E* 3gli_E*

Probab=98.01  E-value=6.3e-05  Score=79.99  Aligned_cols=171  Identities=11%  Similarity=0.092  Sum_probs=100.5

Q ss_pred             hHHHHHHHHHhcCCC-ccEEEEEcCCCCcHHHHHHHHHhhhcCCC-------------------CCCCEEEEEEeC---C
Q 048126          132 ESMFDKVWRCLGEEQ-VGIIGLYGMGGVGKTTLLTKINNKLLGAP-------------------NDFDVVIWVVVS---K  188 (863)
Q Consensus       132 ~~~~~~l~~~L~~~~-~~vi~I~G~gGiGKTtLa~~v~~~~~~~~-------------------~~F~~~~wv~~s---~  188 (863)
                      +...+.+.+.+..++ .+.+.++|+.|+|||++|+.+++......                   .+++. .++...   .
T Consensus         8 ~~~~~~l~~~i~~~~~~~a~L~~G~~G~GKt~~a~~la~~l~~~~~~~~~~c~~c~~c~~~~~~~~~d~-~~~~~~~~~~   86 (334)
T 1a5t_A            8 RPDFEKLVASYQAGRGHHALLIQALPGMGDDALIYALSRYLLCQQPQGHKSCGHCRGCQLMQAGTHPDY-YTLAPEKGKN   86 (334)
T ss_dssp             HHHHHHHHHHHHTTCCCSEEEEECCTTSCHHHHHHHHHHHHTCSSCBTTBCCSCSHHHHHHHHTCCTTE-EEECCCTTCS
T ss_pred             HHHHHHHHHHHHcCCcceeEEEECCCCchHHHHHHHHHHHHhCCCCCCCCCCCCCHHHHHHhcCCCCCE-EEEeccccCC
Confidence            455677777777665 45789999999999999999998762111                   01221 222211   1


Q ss_pred             ccCHHHHHHHHHHHhCCCCccccCCChhHHHHHHHHHhccCcEEEEEeccCCcc--ccccccCCCCCCCCCcEEEEecCc
Q 048126          189 DLQLEKIQEKIGRRIGFLDESWKNGSLEDKASDILRILSKKKFLLLLDDIWERV--DLTKVGVPFPDPENKSKIVFTTRF  266 (863)
Q Consensus       189 ~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~--~~~~~~~~l~~~~~gs~IivTtR~  266 (863)
                      ...+..+ +++.+.+....                  ..+++-++|+|+++...  ....+...+.....++.+|++|.+
T Consensus        87 ~~~i~~i-r~l~~~~~~~~------------------~~~~~kvviIdead~l~~~a~naLLk~lEep~~~~~~Il~t~~  147 (334)
T 1a5t_A           87 TLGVDAV-REVTEKLNEHA------------------RLGGAKVVWVTDAALLTDAAANALLKTLEEPPAETWFFLATRE  147 (334)
T ss_dssp             SBCHHHH-HHHHHHTTSCC------------------TTSSCEEEEESCGGGBCHHHHHHHHHHHTSCCTTEEEEEEESC
T ss_pred             CCCHHHH-HHHHHHHhhcc------------------ccCCcEEEEECchhhcCHHHHHHHHHHhcCCCCCeEEEEEeCC
Confidence            1112111 22222221110                  12467899999997642  223333333333456777777665


Q ss_pred             hh-hhhc-ccccceEeecCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCCchhHHHHHH
Q 048126          267 LE-ICGA-MKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGLPLALITIG  330 (863)
Q Consensus       267 ~~-v~~~-~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPlai~~~~  330 (863)
                      .. +... ......+.+.+++.++..+.+.+...        --.+.+..+++.++|.|..+..+.
T Consensus       148 ~~~l~~ti~SRc~~~~~~~~~~~~~~~~L~~~~~--------~~~~~~~~l~~~s~G~~r~a~~~l  205 (334)
T 1a5t_A          148 PERLLATLRSRCRLHYLAPPPEQYAVTWLSREVT--------MSQDALLAALRLSAGSPGAALALF  205 (334)
T ss_dssp             GGGSCHHHHTTSEEEECCCCCHHHHHHHHHHHCC--------CCHHHHHHHHHHTTTCHHHHHHTT
T ss_pred             hHhCcHHHhhcceeeeCCCCCHHHHHHHHHHhcC--------CCHHHHHHHHHHcCCCHHHHHHHh
Confidence            43 2211 11234789999999999999987751        113456789999999997765543

>3eie_A Vacuolar protein sorting-associated protein 4; AAA ATPase, ATP-binding cassette, ATP-binding, endosome, MEM nucleotide-binding; 2.70A {Saccharomyces cerevisiae} PDB: 3eih_A* 2rko_A 3mhv_C

Probab=98.01  E-value=9.2e-05  Score=78.34  Aligned_cols=178  Identities=14%  Similarity=0.085  Sum_probs=102.5

Q ss_pred             CCccchhHHHHHHHHHhc----------C--CCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHH
Q 048126          126 EPTVGLESMFDKVWRCLG----------E--EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLE  193 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~----------~--~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~  193 (863)
                      ..++|.+..++.|.+++.          .  ...+-|.++|++|+|||++|+.+++..   ...   .+.|..+      
T Consensus        18 ~di~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vLl~GppGtGKT~la~aia~~~---~~~---~~~v~~~------   85 (322)
T 3eie_A           18 EDVAGLEGAKEALKEAVILPVKFPHLFKGNRKPTSGILLYGPPGTGKSYLAKAVATEA---NST---FFSVSSS------   85 (322)
T ss_dssp             GGSCSCHHHHHHHHHHTHHHHHCGGGCCTTCCCCCEEEEECSSSSCHHHHHHHHHHHH---TCE---EEEEEHH------
T ss_pred             HHhcChHHHHHHHHHHHHHHHhCHHHHhcCCCCCCeEEEECCCCCcHHHHHHHHHHHH---CCC---EEEEchH------
Confidence            457999999999998872          1  124578999999999999999999987   222   2333321      


Q ss_pred             HHHHHHHHHhCCCCccccCCChhHHHHHHH-HHhccCcEEEEEeccCCccc-------------ccccc---CCCCCCCC
Q 048126          194 KIQEKIGRRIGFLDESWKNGSLEDKASDIL-RILSKKKFLLLLDDIWERVD-------------LTKVG---VPFPDPEN  256 (863)
Q Consensus       194 ~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~-~~l~~kr~LlVlDdv~~~~~-------------~~~~~---~~l~~~~~  256 (863)
                      .+    ....       .. ..+.....+. ..-..++.+|++|+++....             ...+.   ..+.....
T Consensus        86 ~l----~~~~-------~g-~~~~~~~~~f~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~  153 (322)
T 3eie_A           86 DL----VSKW-------MG-ESEKLVKQLFAMARENKPSIIFIDQVDALTGTRGEGESEASRRIKTELLVQMNGVGNDSQ  153 (322)
T ss_dssp             HH----HTTT-------GG-GHHHHHHHHHHHHHHTSSEEEEEECGGGGSCC------CCTHHHHHHHHHHHGGGGTSCC
T ss_pred             HH----hhcc-------cc-hHHHHHHHHHHHHHhcCCeEEEechhhhhhccCCCCcchHHHHHHHHHHHHhccccccCC
Confidence            11    1000       00 1122222222 22234678999999974311             11111   11112234


Q ss_pred             CcEEEEecCchhhhh-c--ccccceEeecCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCCc-hhHHHHHH
Q 048126          257 KSKIVFTTRFLEICG-A--MKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGL-PLALITIG  330 (863)
Q Consensus       257 gs~IivTtR~~~v~~-~--~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~gl-Plai~~~~  330 (863)
                      +..||.||....... .  -.....+.++..+.++-.+++...+.....   .--......|++.+.|. +-.|..+.
T Consensus       154 ~v~vi~atn~~~~ld~al~~Rf~~~i~~~~p~~~~r~~il~~~~~~~~~---~~~~~~l~~la~~t~g~sg~di~~l~  228 (322)
T 3eie_A          154 GVLVLGATNIPWQLDSAIRRRFERRIYIPLPDLAARTTMFEINVGDTPC---VLTKEDYRTLGAMTEGYSGSDIAVVV  228 (322)
T ss_dssp             CEEEEEEESCGGGSCHHHHHHCCEEEECCCCCHHHHHHHHHHHHTTCCC---CCCHHHHHHHHHTTTTCCHHHHHHHH
T ss_pred             ceEEEEecCChhhCCHHHHcccCeEEEeCCCCHHHHHHHHHHHhccCCC---CCCHHHHHHHHHHcCCCCHHHHHHHH
Confidence            566666776543211 0  022346778889999999999988764321   11234567888888874 54555444

>2p65_A Hypothetical protein PF08_0063; CLPB, malaria, structural genomics, structural genomics consortium, SGC, unknown function; 1.70A {Plasmodium falciparum}

Probab=98.00  E-value=7.3e-06  Score=79.07  Aligned_cols=46  Identities=24%  Similarity=0.393  Sum_probs=41.7

Q ss_pred             CCccchhHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          126 EPTVGLESMFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ..++||+.+++.+.+.+.....+.+.|+|++|+|||++|+.+++..
T Consensus        22 ~~~~g~~~~~~~l~~~l~~~~~~~vll~G~~G~GKT~la~~~~~~~   67 (187)
T 2p65_A           22 DPVIGRDTEIRRAIQILSRRTKNNPILLGDPGVGKTAIVEGLAIKI   67 (187)
T ss_dssp             CCCCSCHHHHHHHHHHHTSSSSCEEEEESCGGGCHHHHHHHHHHHH
T ss_pred             chhhcchHHHHHHHHHHhCCCCCceEEECCCCCCHHHHHHHHHHHH
Confidence            5689999999999999987667788999999999999999999886

>1l8q_A Chromosomal replication initiator protein DNAA; AAA+, helix-turn-helix, nucleotide-binding, DNA binding, REP initiation, DNA binding protein; HET: ADP; 2.70A {Aquifex aeolicus} SCOP: a.4.12.2 c.37.1.20 PDB: 3r8f_A* 2hcb_A*

Probab=97.98  E-value=5.1e-05  Score=80.50  Aligned_cols=174  Identities=18%  Similarity=0.214  Sum_probs=97.0

Q ss_pred             CCcc-chh--HHHHHHHHHhcCC--CccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHH
Q 048126          126 EPTV-GLE--SMFDKVWRCLGEE--QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIG  200 (863)
Q Consensus       126 ~~~v-Gr~--~~~~~l~~~L~~~--~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~  200 (863)
                      +.|| |..  .....+..++..+  ....+.|+|++|+||||||+.+++....  ..+ .++++++.      .+...+.
T Consensus        11 ~~fv~g~~~~~a~~~~~~~~~~~~~~~~~lll~G~~GtGKT~la~~i~~~~~~--~~~-~~~~i~~~------~~~~~~~   81 (324)
T 1l8q_A           11 ENFIVGEGNRLAYEVVKEALENLGSLYNPIFIYGSVGTGKTHLLQAAGNEAKK--RGY-RVIYSSAD------DFAQAMV   81 (324)
T ss_dssp             SSCCCCTTTHHHHHHHHHHHHTTTTSCSSEEEECSSSSSHHHHHHHHHHHHHH--TTC-CEEEEEHH------HHHHHHH
T ss_pred             ccCCCCCcHHHHHHHHHHHHhCcCCCCCeEEEECCCCCcHHHHHHHHHHHHHH--CCC-EEEEEEHH------HHHHHHH
Confidence            4455 532  3344455555443  3467889999999999999999987621  122 34555432      3333333


Q ss_pred             HHhCCCCccccCCChhHHHHHHHHHhccCcEEEEEeccCCccc---c-ccccCCCCC-CCCCcEEEEecCchh-------
Q 048126          201 RRIGFLDESWKNGSLEDKASDILRILSKKKFLLLLDDIWERVD---L-TKVGVPFPD-PENKSKIVFTTRFLE-------  268 (863)
Q Consensus       201 ~~l~~~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~---~-~~~~~~l~~-~~~gs~IivTtR~~~-------  268 (863)
                      ..+..       ....    .+.+.+ .+.-+|++||++....   + ..+...+.. ...|..||+||.+..       
T Consensus        82 ~~~~~-------~~~~----~~~~~~-~~~~vL~iDEi~~l~~~~~~~~~l~~~l~~~~~~~~~iii~~~~~~~~l~~l~  149 (324)
T 1l8q_A           82 EHLKK-------GTIN----EFRNMY-KSVDLLLLDDVQFLSGKERTQIEFFHIFNTLYLLEKQIILASDRHPQKLDGVS  149 (324)
T ss_dssp             HHHHH-------TCHH----HHHHHH-HTCSEEEEECGGGGTTCHHHHHHHHHHHHHHHHTTCEEEEEESSCGGGCTTSC
T ss_pred             HHHHc-------CcHH----HHHHHh-cCCCEEEEcCcccccCChHHHHHHHHHHHHHHHCCCeEEEEecCChHHHHHhh
Confidence            33211       0111    122222 2467999999976431   1 122111110 123557888776431       


Q ss_pred             --hhhcccccceEeecCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCCchhH
Q 048126          269 --ICGAMKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGLPLA  325 (863)
Q Consensus       269 --v~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPla  325 (863)
                        +...+.....+.+++ +.++..+++...+......   --.+....|++.+ |..-.
T Consensus       150 ~~L~sR~~~~~~i~l~~-~~~e~~~il~~~~~~~~~~---l~~~~l~~l~~~~-g~~r~  203 (324)
T 1l8q_A          150 DRLVSRFEGGILVEIEL-DNKTRFKIIKEKLKEFNLE---LRKEVIDYLLENT-KNVRE  203 (324)
T ss_dssp             HHHHHHHHTSEEEECCC-CHHHHHHHHHHHHHHTTCC---CCHHHHHHHHHHC-SSHHH
T ss_pred             hHhhhcccCceEEEeCC-CHHHHHHHHHHHHHhcCCC---CCHHHHHHHHHhC-CCHHH
Confidence              222223335689999 9999999999887543211   1245677888888 76543

>1io0_A Tropomodulin; LRR protein, right-handed super-helix, protein binding; 1.45A {Gallus gallus} SCOP: c.10.1.1

Probab=97.97  E-value=6.3e-06  Score=79.51  Aligned_cols=82  Identities=16%  Similarity=0.160  Sum_probs=42.3

Q ss_pred             CCCCccceEEccCC-cccccc----chhhhcCCCccEEEccCCCcccc----CCccccccCCCCeEEccCCCccc-----
Q 048126          513 PTCPHLLSLFLSDN-SLKMIA----GDFFQFMPSLRVFNMSNNHLLWK----LPSGISTLVSLEHLDLSGTAITH-----  578 (863)
Q Consensus       513 ~~~~~L~~L~l~~~-~l~~~~----~~~~~~l~~L~~L~L~~~~~~~~----lp~~i~~l~~L~~L~L~~~~l~~-----  578 (863)
                      ..++.|++|+|++| .+....    ...+...++|++|+|++|.+...    +...+...++|++|+|++|.|..     
T Consensus        33 ~~~~~L~~L~L~~n~~i~~~g~~~l~~~L~~~~~L~~L~Ls~n~i~~~g~~~l~~~L~~n~~L~~L~L~~N~i~~~g~~~  112 (185)
T 1io0_A           33 NNDPDLEEVNLNNIMNIPVPTLKACAEALKTNTYVKKFSIVGTRSNDPVAFALAEMLKVNNTLKSLNVESNFISGSGILA  112 (185)
T ss_dssp             TTCTTCCEEECTTCTTCCHHHHHHHHHHHTTCCSCCEEECTTSCCCHHHHHHHHHHHHHCSSCCEEECCSSCCCHHHHHH
T ss_pred             hcCCCCCEEEecCCCCCCHHHHHHHHHHHHhCCCcCEEECcCCCCChHHHHHHHHHHHhCCCcCEEECcCCcCCHHHHHH
Confidence            45666777777766 554311    11234456666666666643221    23333444556666666665542     


Q ss_pred             cchhhhcCCCCCEEec
Q 048126          579 LPIELQKLVNLKCLNL  594 (863)
Q Consensus       579 lp~~~~~l~~L~~L~l  594 (863)
                      +...+...++|++|++
T Consensus       113 l~~~L~~n~~L~~L~L  128 (185)
T 1io0_A          113 LVEALQSNTSLIELRI  128 (185)
T ss_dssp             HHHGGGGCSSCCEEEC
T ss_pred             HHHHHHhCCCceEEEe
Confidence            3444444455555555

>2qp9_X Vacuolar protein sorting-associated protein 4; ATPase domain, beta domain, C-terminal helix, ATP-binding, E nucleotide-binding; 2.90A {Saccharomyces cerevisiae} PDB: 2qpa_A*

Probab=97.96  E-value=8.1e-05  Score=79.79  Aligned_cols=176  Identities=15%  Similarity=0.087  Sum_probs=101.1

Q ss_pred             CCccchhHHHHHHHHHhcC------------CCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHH
Q 048126          126 EPTVGLESMFDKVWRCLGE------------EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLE  193 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~------------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~  193 (863)
                      ..++|.+..++.|.+.+..            ...+-|.++|++|+|||+||+.+++..   ...   .+.+..+      
T Consensus        51 ~di~G~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~iLL~GppGtGKT~la~ala~~~---~~~---~~~v~~~------  118 (355)
T 2qp9_X           51 EDVAGLEGAKEALKEAVILPVKFPHLFKGNRKPTSGILLYGPPGTGKSYLAKAVATEA---NST---FFSVSSS------  118 (355)
T ss_dssp             GGSCCGGGHHHHHHHHTHHHHHCGGGGCSSCCCCCCEEEECSTTSCHHHHHHHHHHHH---TCE---EEEEEHH------
T ss_pred             HHhCCHHHHHHHHHHHHHHHHhCHHHHhcCCCCCceEEEECCCCCcHHHHHHHHHHHh---CCC---EEEeeHH------
Confidence            4589999999999887721            123458899999999999999999987   222   2333222      


Q ss_pred             HHHHHHHHHhCCCCccccCCChhHHHHHH-HHHhccCcEEEEEeccCCccc-------------cccccCC---CCCCCC
Q 048126          194 KIQEKIGRRIGFLDESWKNGSLEDKASDI-LRILSKKKFLLLLDDIWERVD-------------LTKVGVP---FPDPEN  256 (863)
Q Consensus       194 ~~~~~i~~~l~~~~~~~~~~~~~~~~~~l-~~~l~~kr~LlVlDdv~~~~~-------------~~~~~~~---l~~~~~  256 (863)
                      .+.    ...       .... +.....+ ...-..++.+|+||+++....             ...+...   +.....
T Consensus       119 ~l~----~~~-------~g~~-~~~~~~~f~~a~~~~~~vl~iDEid~l~~~r~~~~~~~~~~~~~~ll~~l~~~~~~~~  186 (355)
T 2qp9_X          119 DLV----SKW-------MGES-EKLVKQLFAMARENKPSIIFIDQVDALTGTRGEGESEASRRIKTELLVQMNGVGNDSQ  186 (355)
T ss_dssp             HHH----SCC----------C-HHHHHHHHHHHHHTSSEEEEEECGGGGTC------CTHHHHHHHHHHHHHHHCC---C
T ss_pred             HHh----hhh-------cchH-HHHHHHHHHHHHHcCCeEEEEechHhhcccCCCCcchHHHHHHHHHHHHhhcccccCC
Confidence            111    100       1111 2222222 222335788999999975321             1111111   111234


Q ss_pred             CcEEEEecCchhh-----hhcccccceEeecCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCC-chhHHHHHH
Q 048126          257 KSKIVFTTRFLEI-----CGAMKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAG-LPLALITIG  330 (863)
Q Consensus       257 gs~IivTtR~~~v-----~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g-lPlai~~~~  330 (863)
                      +..||.||.....     ..  .....+.++..+.++-.+++...+......   --......|++.+.| .+-.|..+.
T Consensus       187 ~v~vI~atn~~~~ld~al~r--Rf~~~i~i~~P~~~~r~~il~~~l~~~~~~---~~~~~l~~la~~t~G~sg~dl~~l~  261 (355)
T 2qp9_X          187 GVLVLGATNIPWQLDSAIRR--RFERRIYIPLPDLAARTTMFEINVGDTPSV---LTKEDYRTLGAMTEGYSGSDIAVVV  261 (355)
T ss_dssp             CEEEEEEESCGGGSCHHHHH--TCCEEEECCCCCHHHHHHHHHHHHTTSCBC---CCHHHHHHHHHHTTTCCHHHHHHHH
T ss_pred             CeEEEeecCCcccCCHHHHc--ccCEEEEeCCcCHHHHHHHHHHHHhhCCCC---CCHHHHHHHHHHcCCCCHHHHHHHH
Confidence            5566666654422     22  233567888899999999998877543211   113456788899988 454555544

>1sxj_C Activator 1 40 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=97.96  E-value=4.7e-05  Score=81.39  Aligned_cols=180  Identities=14%  Similarity=0.214  Sum_probs=101.6

Q ss_pred             CCccchhHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCC-EEEEEEeCCccCHHHHHHHHHHHhC
Q 048126          126 EPTVGLESMFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFD-VVIWVVVSKDLQLEKIQEKIGRRIG  204 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~-~~~wv~~s~~~~~~~~~~~i~~~l~  204 (863)
                      ..++|.+..++.+...+..++.+.+.++|+.|+||||+|+.+++...  ...+. .+..+..+.......+.. .+..+.
T Consensus        25 ~~~~g~~~~~~~L~~~i~~g~~~~~ll~Gp~G~GKTtla~~la~~l~--~~~~~~~~~~~~~~~~~~~~~ir~-~i~~~~  101 (340)
T 1sxj_C           25 DEVYGQNEVITTVRKFVDEGKLPHLLFYGPPGTGKTSTIVALAREIY--GKNYSNMVLELNASDDRGIDVVRN-QIKDFA  101 (340)
T ss_dssp             GGCCSCHHHHHHHHHHHHTTCCCCEEEECSSSSSHHHHHHHHHHHHH--TTSHHHHEEEECTTSCCSHHHHHT-HHHHHH
T ss_pred             HHhcCcHHHHHHHHHHHhcCCCceEEEECCCCCCHHHHHHHHHHHHc--CCCccceEEEEcCcccccHHHHHH-HHHHHH
Confidence            34689999999999998877655589999999999999999998862  11111 122222222222222211 111110


Q ss_pred             CCCccccCCChhHHHHHHHHHhccCcEEEEEeccCCcc--ccccccCCCCCCCCCcEEEEecCchh-hhhc-ccccceEe
Q 048126          205 FLDESWKNGSLEDKASDILRILSKKKFLLLLDDIWERV--DLTKVGVPFPDPENKSKIVFTTRFLE-ICGA-MKAHEFLK  280 (863)
Q Consensus       205 ~~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~--~~~~~~~~l~~~~~gs~IivTtR~~~-v~~~-~~~~~~~~  280 (863)
                      ...                ..+.+.+-++|+|+++...  ....+...+.......++|++|.... +... ......+.
T Consensus       102 ~~~----------------~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~il~~n~~~~i~~~i~sR~~~~~  165 (340)
T 1sxj_C          102 STR----------------QIFSKGFKLIILDEADAMTNAAQNALRRVIERYTKNTRFCVLANYAHKLTPALLSQCTRFR  165 (340)
T ss_dssp             HBC----------------CSSSCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSEEEE
T ss_pred             hhc----------------ccCCCCceEEEEeCCCCCCHHHHHHHHHHHhcCCCCeEEEEEecCccccchhHHhhceeEe
Confidence            000                0011346789999996531  22222222212224566777665432 2111 11123678


Q ss_pred             ecCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCCchhHHH
Q 048126          281 VECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGLPLALI  327 (863)
Q Consensus       281 l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPlai~  327 (863)
                      +.+++.++..+.+.+.+......   --.+..+.|++.++|.+--+.
T Consensus       166 ~~~l~~~~~~~~l~~~~~~~~~~---i~~~~~~~i~~~s~G~~r~~~  209 (340)
T 1sxj_C          166 FQPLPQEAIERRIANVLVHEKLK---LSPNAEKALIELSNGDMRRVL  209 (340)
T ss_dssp             CCCCCHHHHHHHHHHHHHTTTCC---BCHHHHHHHHHHHTTCHHHHH
T ss_pred             ccCCCHHHHHHHHHHHHHHcCCC---CCHHHHHHHHHHcCCCHHHHH
Confidence            99999999998888776332211   114567888899999876443

>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo sapiens}

Probab=97.93  E-value=0.00019  Score=78.05  Aligned_cols=179  Identities=12%  Similarity=0.062  Sum_probs=99.3

Q ss_pred             CCccchhHHHHHHHHHhcC------------CCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHH
Q 048126          126 EPTVGLESMFDKVWRCLGE------------EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLE  193 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~------------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~  193 (863)
                      ..++|.+..++.|.+++..            ...+-|.|+|++|+|||++|+.+++..   ..   ..+.+.++.-.+  
T Consensus       115 ~~iiG~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~aia~~~---~~---~~~~v~~~~l~~--  186 (389)
T 3vfd_A          115 DDIAGQDLAKQALQEIVILPSLRPELFTGLRAPARGLLLFGPPGNGKTMLAKAVAAES---NA---TFFNISAASLTS--  186 (389)
T ss_dssp             GGSCSCHHHHHHHHHHTHHHHHCTTTSCGGGCCCSEEEEESSTTSCHHHHHHHHHHHT---TC---EEEEECSCCC----
T ss_pred             HHhCCHHHHHHHHHHHHHHhccCHHHhcccCCCCceEEEECCCCCCHHHHHHHHHHhh---cC---cEEEeeHHHhhc--
Confidence            4589999999999988721            234678999999999999999999876   22   223343332211  


Q ss_pred             HHHHHHHHHhCCCCccccCCChhHHHHHHHHHhccCcEEEEEeccCCccc-------------cccccCCC---C-CCCC
Q 048126          194 KIQEKIGRRIGFLDESWKNGSLEDKASDILRILSKKKFLLLLDDIWERVD-------------LTKVGVPF---P-DPEN  256 (863)
Q Consensus       194 ~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~-------------~~~~~~~l---~-~~~~  256 (863)
                      ..               ...........+...-...+.+|+||+++....             ...+...+   . ....
T Consensus       187 ~~---------------~g~~~~~~~~~~~~a~~~~~~il~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~  251 (389)
T 3vfd_A          187 KY---------------VGEGEKLVRALFAVARELQPSIIFIDQVDSLLCERREGEHDASRRLKTEFLIEFDGVQSAGDD  251 (389)
T ss_dssp             --------------------CHHHHHHHHHHHHHSSSEEEEEETGGGGC--------CTHHHHHHHHHHHHHHHC-----
T ss_pred             cc---------------cchHHHHHHHHHHHHHhcCCeEEEEECchhhcccCCCccchHHHHHHHHHHHHhhcccccCCC
Confidence            00               001111111222222234568999999964310             00111100   0 1122


Q ss_pred             CcEEEEecCchhhh-hc-c-cccceEeecCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCCchh-HHHHHH
Q 048126          257 KSKIVFTTRFLEIC-GA-M-KAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGLPL-ALITIG  330 (863)
Q Consensus       257 gs~IivTtR~~~v~-~~-~-~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPl-ai~~~~  330 (863)
                      ...||.||...... .. . .....+.+...+.++-.+++...+....   ..-..+....|++.+.|..- ++..+.
T Consensus       252 ~v~vI~atn~~~~l~~~l~~R~~~~i~i~~p~~~~r~~il~~~~~~~~---~~l~~~~~~~la~~~~g~~~~~l~~L~  326 (389)
T 3vfd_A          252 RVLVMGATNRPQELDEAVLRRFIKRVYVSLPNEETRLLLLKNLLCKQG---SPLTQKELAQLARMTDGYSGSDLTALA  326 (389)
T ss_dssp             CEEEEEEESCGGGCCHHHHTTCCEEEECCCCCHHHHHHHHHHHHTTSC---CCSCHHHHHHHHHHTTTCCHHHHHHHH
T ss_pred             CEEEEEecCCchhcCHHHHcCcceEEEcCCcCHHHHHHHHHHHHHhcC---CCCCHHHHHHHHHHcCCCCHHHHHHHH
Confidence            35556566543221 11 1 1224578889999999999988775432   11224567788999988544 555543

>2zan_A Vacuolar protein sorting-associating protein 4B; SKD1, VPS4B, AAA ATPase, ATP-binding, coiled coil, membrane, nucleotide-binding, phosphorylation; HET: ATP; 3.00A {Mus musculus} PDB: 2zam_A* 2zao_A* 2jqh_A 2jqk_A 1wr0_A 2jq9_A 2k3w_A 1yxr_A

Probab=97.93  E-value=0.00032  Score=77.58  Aligned_cols=180  Identities=14%  Similarity=0.105  Sum_probs=100.9

Q ss_pred             CCccchhHHHHHHHHHhc------------CCCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHH
Q 048126          126 EPTVGLESMFDKVWRCLG------------EEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLE  193 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~------------~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~  193 (863)
                      ..++|.+..++.|.+.+.            ....+.|.++|++|+|||+||+.+++.. .  .    .-++.++...   
T Consensus       134 ~di~G~~~~k~~l~~~v~~p~~~~~~~~~~~~~~~~vLL~GppGtGKT~lA~aia~~~-~--~----~~~~~v~~~~---  203 (444)
T 2zan_A          134 SDVAGLEGAKEALKEAVILPIKFPHLFTGKRTPWRGILLFGPPGTGKSYLAKAVATEA-N--N----STFFSISSSD---  203 (444)
T ss_dssp             GGSCSCHHHHHHHHHHHTHHHHCTTTTSGGGCCCSEEEEECSTTSSHHHHHHHHHHHC-C--S----SEEEEECCC----
T ss_pred             HHhcCHHHHHHHHHHHHHHHhhCHHHhhccCCCCceEEEECCCCCCHHHHHHHHHHHc-C--C----CCEEEEeHHH---
Confidence            457899999999988773            1234678999999999999999999876 1  1    1233333221   


Q ss_pred             HHHHHHHHHhCCCCccccCCChhHHHHHHHHHhccCcEEEEEeccCCccc-------------cccccCCCCC---CCCC
Q 048126          194 KIQEKIGRRIGFLDESWKNGSLEDKASDILRILSKKKFLLLLDDIWERVD-------------LTKVGVPFPD---PENK  257 (863)
Q Consensus       194 ~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~-------------~~~~~~~l~~---~~~g  257 (863)
                       +....   .+.     ....   ....+...-..++.+|+||+++....             ...+...+..   ...+
T Consensus       204 -l~~~~---~g~-----~~~~---~~~~f~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~lL~~l~~~~~~~~~  271 (444)
T 2zan_A          204 -LVSKW---LGE-----SEKL---VKNLFQLARENKPSIIFIDEIDSLCGSRSENESEAARRIKTEFLVQMQGVGVDNDG  271 (444)
T ss_dssp             -----------------CCCT---HHHHHHHHHHSCSEEEEESCTTTTCCCSSCCCCGGGHHHHHHHHTTTTCSSCCCSS
T ss_pred             -HHhhh---cch-----HHHH---HHHHHHHHHHcCCeEEEEechHhhccCCCCccccHHHHHHHHHHHHHhCcccCCCC
Confidence             11100   010     1111   11222222235788999999975310             1112222211   2345


Q ss_pred             cEEEEecCchhhh-hc-c-cccceEeecCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCCc-hhHHHHHH
Q 048126          258 SKIVFTTRFLEIC-GA-M-KAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGL-PLALITIG  330 (863)
Q Consensus       258 s~IivTtR~~~v~-~~-~-~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~gl-Plai~~~~  330 (863)
                      ..||.||...... .. . .....+.++..+.++-..+|...+......   --......|++.+.|. +-.|..+.
T Consensus       272 v~vI~atn~~~~ld~al~rRf~~~i~i~~P~~~~r~~il~~~l~~~~~~---l~~~~l~~la~~t~G~sgadl~~l~  345 (444)
T 2zan_A          272 ILVLGATNIPWVLDSAIRRRFEKRIYIPLPEAHARAAMFRLHLGSTQNS---LTEADFQELGRKTDGYSGADISIIV  345 (444)
T ss_dssp             CEEEEEESCGGGSCHHHHTTCCEEEECCCCCHHHHHHHHHHHHTTSCEE---CCHHHHHHHHHHTTTCCHHHHHHHH
T ss_pred             EEEEecCCCccccCHHHHhhcceEEEeCCcCHHHHHHHHHHHHhcCCCC---CCHHHHHHHHHHcCCCCHHHHHHHH
Confidence            6667677654321 10 1 223467788888888889998876543211   1134567888999884 44555544

>3rw6_A Nuclear RNA export factor 1; retroviral constitutive transport element (CTE), RNA recogni motif (RRM); HET: GTP CCC; 2.30A {Homo sapiens} PDB: 3rw7_A 1koo_A 1koh_A 1ft8_A 1fo1_A

Probab=97.93  E-value=5e-06  Score=84.39  Aligned_cols=106  Identities=26%  Similarity=0.276  Sum_probs=67.1

Q ss_pred             CCCCccce--EEccCCcccccc---chhhhcCCCccEEEccCCCccc--cCCccccccCCCCeEEccCCCccccchhhhc
Q 048126          513 PTCPHLLS--LFLSDNSLKMIA---GDFFQFMPSLRVFNMSNNHLLW--KLPSGISTLVSLEHLDLSGTAITHLPIELQK  585 (863)
Q Consensus       513 ~~~~~L~~--L~l~~~~l~~~~---~~~~~~l~~L~~L~L~~~~~~~--~lp~~i~~l~~L~~L~L~~~~l~~lp~~~~~  585 (863)
                      ...+.|..  ++++.|....++   .....++++|+.|+|++|.+.+  .+|..+..+++|++|+|++|.|+.+ ..+..
T Consensus       138 ~~dp~L~~~~l~l~~N~~~~~~~~l~i~~~~l~~L~~L~Ls~N~l~~l~~l~~~~~~l~~L~~L~Ls~N~i~~~-~~l~~  216 (267)
T 3rw6_A          138 RSDPDLVAQNIDVVLNRRSCMAATLRIIEENIPELLSLNLSNNRLYRLDDMSSIVQKAPNLKILNLSGNELKSE-RELDK  216 (267)
T ss_dssp             GGCHHHHHTTCCCCTTSHHHHHHHHHHHHHHCTTCCEEECTTSCCCCCGGGTTHHHHSTTCCEEECTTSCCCSG-GGGGG
T ss_pred             CCCcchhhcCccccCCHHHHHHHHHHHHHhhCCCCCEEECCCCCCCCCccchhHHhhCCCCCEEECCCCccCCc-hhhhh
Confidence            33444544  455555332222   2223567888888888885544  4556677888888888888888866 23455


Q ss_pred             CC--CCCEEecCCccccCCCcH------HHhhcCCCCcEEEe
Q 048126          586 LV--NLKCLNLEYMYNLNQFPR------LVMSAFSKLQVLRI  619 (863)
Q Consensus       586 l~--~L~~L~l~~~~~l~~lp~------~~~~~L~~L~~L~l  619 (863)
                      +.  +|++|++++|+....+|.      .++..+++|+.|+-
T Consensus       217 l~~l~L~~L~L~~Npl~~~~~~~~~y~~~il~~~P~L~~LDg  258 (267)
T 3rw6_A          217 IKGLKLEELWLDGNSLCDTFRDQSTYISAIRERFPKLLRLDG  258 (267)
T ss_dssp             GTTSCCSEEECTTSTTGGGCSSHHHHHHHHHHHCTTCCEESS
T ss_pred             cccCCcceEEccCCcCccccCcchhHHHHHHHHCcccCeECC
Confidence            54  888888888854443441      24667778877763

>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding, hydrolase; 2.70A {Drosophila melanogaster}

Probab=97.92  E-value=0.00024  Score=74.17  Aligned_cols=176  Identities=14%  Similarity=0.076  Sum_probs=100.7

Q ss_pred             CCccchhHHHHHHHHHhcC------------CCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHH
Q 048126          126 EPTVGLESMFDKVWRCLGE------------EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLE  193 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~------------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~  193 (863)
                      ..++|.+..++.+.+++..            ...+.+.|+|++|+||||+|+.+++..   ..   ..+.+.++.-..  
T Consensus        21 ~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~la~~la~~~---~~---~~~~i~~~~l~~--   92 (297)
T 3b9p_A           21 TDIAGQDVAKQALQEMVILPSVRPELFTGLRAPAKGLLLFGPPGNGKTLLARAVATEC---SA---TFLNISAASLTS--   92 (297)
T ss_dssp             GGSCCCHHHHHHHHHHTHHHHHCGGGSCGGGCCCSEEEEESSSSSCHHHHHHHHHHHT---TC---EEEEEESTTTSS--
T ss_pred             HHhCChHHHHHHHHHHHHhhhhCHHHHhcCCCCCCeEEEECcCCCCHHHHHHHHHHHh---CC---CeEEeeHHHHhh--
Confidence            4589999999999888732            235688999999999999999999876   22   223444332110  


Q ss_pred             HHHHHHHHHhCCCCccccCCChhHHHHHH-HHHhccCcEEEEEeccCCcccc-------------cccc---CCCCC--C
Q 048126          194 KIQEKIGRRIGFLDESWKNGSLEDKASDI-LRILSKKKFLLLLDDIWERVDL-------------TKVG---VPFPD--P  254 (863)
Q Consensus       194 ~~~~~i~~~l~~~~~~~~~~~~~~~~~~l-~~~l~~kr~LlVlDdv~~~~~~-------------~~~~---~~l~~--~  254 (863)
                                  .    ...........+ ......++.+|++|+++....-             ..+.   ..++.  .
T Consensus        93 ------------~----~~~~~~~~~~~~~~~~~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~  156 (297)
T 3b9p_A           93 ------------K----YVGDGEKLVRALFAVARHMQPSIIFIDEVDSLLSERSSSEHEASRRLKTEFLVEFDGLPGNPD  156 (297)
T ss_dssp             ------------S----SCSCHHHHHHHHHHHHHHTCSEEEEEETGGGTSBCC-----CCSHHHHHHHHHHHHHCC----
T ss_pred             ------------c----ccchHHHHHHHHHHHHHHcCCcEEEeccHHHhccccccCcchHHHHHHHHHHHHHhcccccCC
Confidence                        0    001112222222 2223356789999999653110             0010   11111  1


Q ss_pred             CCCcEEEEecCchh-----hhhcccccceEeecCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCCchh-HHHH
Q 048126          255 ENKSKIVFTTRFLE-----ICGAMKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGLPL-ALIT  328 (863)
Q Consensus       255 ~~gs~IivTtR~~~-----v~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPl-ai~~  328 (863)
                      +.+..||.||....     +...  ....+.++..+.++-.+++...+.....   +--.+....+++.+.|.+- ++..
T Consensus       157 ~~~v~vi~~tn~~~~l~~~l~~R--~~~~i~~~~p~~~~r~~il~~~~~~~~~---~~~~~~~~~la~~~~g~~~~~l~~  231 (297)
T 3b9p_A          157 GDRIVVLAATNRPQELDEAALRR--FTKRVYVSLPDEQTRELLLNRLLQKQGS---PLDTEALRRLAKITDGYSGSDLTA  231 (297)
T ss_dssp             --CEEEEEEESCGGGBCHHHHHH--CCEEEECCCCCHHHHHHHHHHHHGGGSC---CSCHHHHHHHHHHTTTCCHHHHHH
T ss_pred             CCcEEEEeecCChhhCCHHHHhh--CCeEEEeCCcCHHHHHHHHHHHHHhcCC---CCCHHHHHHHHHHcCCCCHHHHHH
Confidence            23455666776543     2221  2245677778888888888877644321   1123557788999988875 4544


Q ss_pred             HH
Q 048126          329 IG  330 (863)
Q Consensus       329 ~~  330 (863)
                      +.
T Consensus       232 l~  233 (297)
T 3b9p_A          232 LA  233 (297)
T ss_dssp             HH
T ss_pred             HH
Confidence            44

>4fs7_A Uncharacterized protein; leucine-rich repeats, protein binding, extracellular protein structural genomics; HET: MSE; 1.19A {Bacteroides ovatus}

Probab=97.89  E-value=0.00016  Score=79.06  Aligned_cols=126  Identities=10%  Similarity=0.097  Sum_probs=77.3

Q ss_pred             cCCCCCccceEEccCCccccccchhhhcCCCccEEEccCCCccccCCccccccCCCCeEEccCCCccccch-hhhcCCCC
Q 048126          511 ETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAITHLPI-ELQKLVNL  589 (863)
Q Consensus       511 ~~~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~~~l~~lp~-~~~~l~~L  589 (863)
                      .+..|.+|+.+.+..+ ++.+....|.+|.+|+.++|..+ ....-...+.++.+|+.+.+..+ +..++. .+..+..+
T Consensus        66 AF~~c~~L~~i~lp~~-i~~I~~~aF~~c~~L~~i~lp~~-l~~I~~~aF~~c~~L~~i~~p~~-l~~i~~~aF~~~~~~  142 (394)
T 4fs7_A           66 AFQGCRKVTEIKIPST-VREIGEFAFENCSKLEIINIPDS-VKMIGRCTFSGCYALKSILLPLM-LKSIGVEAFKGCDFK  142 (394)
T ss_dssp             TTTTCTTEEEEECCTT-CCEECTTTTTTCTTCCEECCCTT-CCEECTTTTTTCTTCCCCCCCTT-CCEECTTTTTTCCCS
T ss_pred             HhhCCCCceEEEeCCC-ccCcchhHhhCCCCCcEEEeCCC-ceEccchhhcccccchhhcccCc-eeeecceeeeccccc
Confidence            3578889999998744 77888888999999999998766 33223446677788887766543 444432 34444433


Q ss_pred             CEEecCCccccCCCcHHHhhcCCCCcEEEeeccccccCchhhHHHHHcCCccCceEEE
Q 048126          590 KCLNLEYMYNLNQFPRLVMSAFSKLQVLRILKSNVLFGGHQFLVEELMGMKHLMALTI  647 (863)
Q Consensus       590 ~~L~l~~~~~l~~lp~~~~~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~~L~l  647 (863)
                      .......   +..+....+..+++|+.+.+..+...-     ....+.++.+|+.+.+
T Consensus       143 ~~~~~~~---~~~i~~~aF~~c~~L~~i~l~~~~~~I-----~~~~F~~c~~L~~i~l  192 (394)
T 4fs7_A          143 EITIPEG---VTVIGDEAFATCESLEYVSLPDSMETL-----HNGLFSGCGKLKSIKL  192 (394)
T ss_dssp             EEECCTT---CCEECTTTTTTCTTCCEEECCTTCCEE-----CTTTTTTCTTCCBCCC
T ss_pred             ccccCcc---ccccchhhhcccCCCcEEecCCcccee-----ccccccCCCCceEEEc
Confidence            3333222   344555557788888888875432211     1122445566665554

>4gt6_A Cell surface protein; leucine rich repeats, putative protein binding, extracellula protein, structural genomics; HET: MSE; 1.80A {Faecalibacterium prausnitzii a2-165}

Probab=97.87  E-value=0.00014  Score=79.58  Aligned_cols=103  Identities=15%  Similarity=0.201  Sum_probs=50.4

Q ss_pred             CCCCCccceEEccCC---ccccccchhhhcCCCccEEEccCCCccccCCccccccCCCCeEEccCCCccccch-hhhcCC
Q 048126          512 TPTCPHLLSLFLSDN---SLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAITHLPI-ELQKLV  587 (863)
Q Consensus       512 ~~~~~~L~~L~l~~~---~l~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~~~l~~lp~-~~~~l~  587 (863)
                      +.+|.+|+.+.+..+   .++.+....|.++..|+.+.+..+ ....-...+..+.+|+.+.+..+ +..++. .+..+.
T Consensus        83 F~~C~~L~~i~~~~n~p~~l~~Ig~~aF~~c~~L~~i~~~~~-~~~I~~~aF~~c~~L~~i~lp~~-~~~I~~~~F~~c~  160 (394)
T 4gt6_A           83 FYNCTSLKRVTIQDNKPSCVKKIGRQAFMFCSELTDIPILDS-VTEIDSEAFHHCEELDTVTIPEG-VTSVADGMFSYCY  160 (394)
T ss_dssp             TTTCTTCCEEEEGGGCCCCCCEECTTTTTTCTTCCBCGGGTT-CSEECTTTTTTCTTCCEEECCTT-CCEECTTTTTTCT
T ss_pred             hhCCccCceEeecCCCCCeeeEechhhchhcccceeeccCCc-cceehhhhhhhhcccccccccce-eeeecccceeccc
Confidence            355666666666544   245555555666666665555444 22222234455556666665432 333322 345555


Q ss_pred             CCCEEecCCccccCCCcHHHhhcCCCCcEEEe
Q 048126          588 NLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRI  619 (863)
Q Consensus       588 ~L~~L~l~~~~~l~~lp~~~~~~L~~L~~L~l  619 (863)
                      +|+.+.+..+  +..+....+.. .+|+.+.+
T Consensus       161 ~L~~i~~~~~--~~~I~~~aF~~-~~l~~i~i  189 (394)
T 4gt6_A          161 SLHTVTLPDS--VTAIEERAFTG-TALTQIHI  189 (394)
T ss_dssp             TCCEEECCTT--CCEECTTTTTT-CCCSEEEE
T ss_pred             ccccccccce--eeEeccccccc-cceeEEEE
Confidence            6666665442  34444433322 34555554

>3cf0_A Transitional endoplasmic reticulum ATPase; AAA, P97/VCP, ERAD, CDC48, ATP-binding, lipid-binding, nucle binding, nucleus, phosphoprotein, transport; HET: ADP; 3.00A {Mus musculus}

Probab=97.81  E-value=0.00028  Score=73.72  Aligned_cols=173  Identities=17%  Similarity=0.190  Sum_probs=98.9

Q ss_pred             CCccchhHHHHHHHHHhcC-------------CCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCH
Q 048126          126 EPTVGLESMFDKVWRCLGE-------------EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQL  192 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~-------------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~  192 (863)
                      .+++|.+..++++.+++..             ...+.|.|+|++|+|||++|+.+++..   ...     ++.++    .
T Consensus        15 ~di~G~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~vLL~Gp~GtGKT~la~ala~~~---~~~-----~i~v~----~   82 (301)
T 3cf0_A           15 EDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANEC---QAN-----FISIK----G   82 (301)
T ss_dssp             GGSCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCSEEEEECSSSSSHHHHHHHHHHHT---TCE-----EEEEC----H
T ss_pred             HHhCCHHHHHHHHHHHHHHHhhCHHHHHHcCCCCCceEEEECCCCcCHHHHHHHHHHHh---CCC-----EEEEE----h
Confidence            4578999988888877642             345678999999999999999999986   222     22222    2


Q ss_pred             HHHHHHHHHHhCCCCccccCCChhHHHHHHHHHhccCcEEEEEeccCCcc------------c----cccccCCCC--CC
Q 048126          193 EKIQEKIGRRIGFLDESWKNGSLEDKASDILRILSKKKFLLLLDDIWERV------------D----LTKVGVPFP--DP  254 (863)
Q Consensus       193 ~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~------------~----~~~~~~~l~--~~  254 (863)
                      ..+.....   +.        ........+.......+.+|++|+++...            .    ...+...+.  ..
T Consensus        83 ~~l~~~~~---g~--------~~~~~~~~f~~a~~~~p~il~iDEid~l~~~~~~~~~~~~~~~~~~~~~lL~~l~~~~~  151 (301)
T 3cf0_A           83 PELLTMWF---GE--------SEANVREIFDKARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMST  151 (301)
T ss_dssp             HHHHHHHH---TT--------CTTHHHHHHHHHHHTCSEEEEECSTTHHHHHHTTTTCCSSCSCCHHHHHHHHHHHSSCT
T ss_pred             HHHHhhhc---Cc--------hHHHHHHHHHHHHhcCCeEEEEEChHHHhhccCCCcCCcchHHHHHHHHHHHHhhcccC
Confidence            23322221   11        11222333333444578999999997421            0    111111111  12


Q ss_pred             CCCcEEEEecCchhhh-hc-c---cccceEeecCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCCchhH
Q 048126          255 ENKSKIVFTTRFLEIC-GA-M---KAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGLPLA  325 (863)
Q Consensus       255 ~~gs~IivTtR~~~v~-~~-~---~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPla  325 (863)
                      ..+..||.||...... .. .   .-...+.++..+.++-.++++..+.......+..+    ..+++.+.|.|-+
T Consensus       152 ~~~v~vi~atn~~~~ld~al~r~gRf~~~i~i~~p~~~~r~~il~~~l~~~~~~~~~~~----~~la~~~~g~sg~  223 (301)
T 3cf0_A          152 KKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDEKSRVAILKANLRKSPVAKDVDL----EFLAKMTNGFSGA  223 (301)
T ss_dssp             TSSEEEEEEESCGGGSCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHHTTSCBCSSCCH----HHHHHTCSSCCHH
T ss_pred             CCCEEEEEecCCccccChHHhcCCccceEEecCCcCHHHHHHHHHHHHccCCCCccchH----HHHHHHcCCCCHH
Confidence            2456677777655321 11 1   12346889999999988999877654332222233    3455566666543

>3pxg_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 3.65A {Bacillus subtilis}

Probab=97.79  E-value=0.00015  Score=80.86  Aligned_cols=150  Identities=14%  Similarity=0.188  Sum_probs=82.4

Q ss_pred             CCccchhHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHhhhcCC--CCCC-C-EEEEEEeCCccCHHHHHHHHHH
Q 048126          126 EPTVGLESMFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGA--PNDF-D-VVIWVVVSKDLQLEKIQEKIGR  201 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~--~~~F-~-~~~wv~~s~~~~~~~~~~~i~~  201 (863)
                      .++|||+.+++.+...+......-+.++|.+|+|||++|+.++......  .... + ..+.+.++             .
T Consensus       180 d~iiGr~~~i~~l~~~l~r~~~~~~LL~G~pG~GKT~la~~la~~l~~~~~p~~l~~~~~~~l~~~-------------~  246 (468)
T 3pxg_A          180 DPVIGRSKEIQRVIEVLSRRTKNNPVLIGEPGVGKTAIAEGLAQQIINNEVPEILRDKRVMTLDMG-------------T  246 (468)
T ss_dssp             CCCCCCHHHHHHHHHHHHCSSSCEEEEESCTTTTTHHHHHHHHHHHHSSCSCTTTSSCCEECC-----------------
T ss_pred             CCccCcHHHHHHHHHHHhccCCCCeEEECCCCCCHHHHHHHHHHHHHhCCCChhhcCCeEEEeeCC-------------c
Confidence            4689999999999999976655667899999999999999999886210  0001 1 12222222             0


Q ss_pred             HhCCCCccccCCChhHHHHHHHHHhccCcEEEEEeccCCccccccccCCCCCCCCCcEEEEecCchhh------h-hccc
Q 048126          202 RIGFLDESWKNGSLEDKASDILRILSKKKFLLLLDDIWERVDLTKVGVPFPDPENKSKIVFTTRFLEI------C-GAMK  274 (863)
Q Consensus       202 ~l~~~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~~~l~~~~~gs~IivTtR~~~v------~-~~~~  274 (863)
                      ..       ...........+...-..++.+|++|  ........+...+.  ....++|.+|.....      . ....
T Consensus       247 ~~-------~g~~e~~~~~~~~~~~~~~~~iLfiD--~~~~a~~~L~~~L~--~g~v~vI~at~~~e~~~~~~~~~al~~  315 (468)
T 3pxg_A          247 KY-------RGEFEDRLKKVMDEIRQAGNIILFID--AAIDASNILKPSLA--RGELQCIGATTLDEYRKYIEKDAALER  315 (468)
T ss_dssp             -------------CTTHHHHHHHHHTCCCCEEEEC--C--------CCCTT--SSSCEEEEECCTTTTHHHHTTCSHHHH
T ss_pred             cc-------cchHHHHHHHHHHHHHhcCCeEEEEe--CchhHHHHHHHhhc--CCCEEEEecCCHHHHHHHhhcCHHHHH
Confidence            00       00001112222233333567889999  22222222333332  123556665554431      1 1111


Q ss_pred             ccceEeecCCChHHHHHHHHHHhcc
Q 048126          275 AHEFLKVECLGPEDAWRLFRENLRR  299 (863)
Q Consensus       275 ~~~~~~l~~L~~~e~~~lf~~~~~~  299 (863)
                      -..++.++..+.++..+++...+..
T Consensus       316 Rf~~i~v~~p~~e~~~~iL~~~~~~  340 (468)
T 3pxg_A          316 RFQPIQVDQPSVDESIQILQGLRDR  340 (468)
T ss_dssp             SEEEEECCCCCHHHHHHHHHHTTTT
T ss_pred             hCccceeCCCCHHHHHHHHHHHHHH
Confidence            2236889999999999999876543

>2gno_A DNA polymerase III, gamma subunit-related protein; structural genomics, joint center for structural genomics, J protein structure initiative; HET: DNA; 2.00A {Thermotoga maritima} SCOP: a.80.1.1 c.37.1.20

Probab=97.76  E-value=9.8e-05  Score=76.93  Aligned_cols=147  Identities=14%  Similarity=0.152  Sum_probs=90.5

Q ss_pred             chhHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHhhhcCCC-CCCCEEEEEEeCC-ccCHHHHHHHHHHHhCCCC
Q 048126          130 GLESMFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAP-NDFDVVIWVVVSK-DLQLEKIQEKIGRRIGFLD  207 (863)
Q Consensus       130 Gr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~-~~F~~~~wv~~s~-~~~~~~~~~~i~~~l~~~~  207 (863)
                      |-+..++.+.+.+..++.+.+.++|+.|+||||+|+.+++...... .+.+. .++..+. ..++..+ +++.+.+....
T Consensus         1 g~~~~~~~L~~~i~~~~~~~~Lf~Gp~G~GKtt~a~~la~~~~~~~~~~~d~-~~l~~~~~~~~id~i-r~li~~~~~~p   78 (305)
T 2gno_A            1 GAKDQLETLKRIIEKSEGISILINGEDLSYPREVSLELPEYVEKFPPKASDV-LEIDPEGENIGIDDI-RTIKDFLNYSP   78 (305)
T ss_dssp             ---CHHHHHHHHHHTCSSEEEEEECSSSSHHHHHHHHHHHHHHTSCCCTTTE-EEECCSSSCBCHHHH-HHHHHHHTSCC
T ss_pred             ChHHHHHHHHHHHHCCCCcEEEEECCCCCCHHHHHHHHHHhCchhhccCCCE-EEEcCCcCCCCHHHH-HHHHHHHhhcc
Confidence            3455677788888776677889999999999999999987531111 23343 4454432 3333333 33444443211


Q ss_pred             ccccCCChhHHHHHHHHHhccCcEEEEEeccCCc--cccccccCCCCCCCCCcEEEEecCch-hhhhcccccceEeecCC
Q 048126          208 ESWKNGSLEDKASDILRILSKKKFLLLLDDIWER--VDLTKVGVPFPDPENKSKIVFTTRFL-EICGAMKAHEFLKVECL  284 (863)
Q Consensus       208 ~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~--~~~~~~~~~l~~~~~gs~IivTtR~~-~v~~~~~~~~~~~l~~L  284 (863)
                                        ..+++-++|+|+++..  .....+...+......+.+|++|.+. .+....... .+++.++
T Consensus        79 ------------------~~~~~kvviIdead~lt~~a~naLLk~LEep~~~t~fIl~t~~~~kl~~tI~SR-~~~f~~l  139 (305)
T 2gno_A           79 ------------------ELYTRKYVIVHDCERMTQQAANAFLKALEEPPEYAVIVLNTRRWHYLLPTIKSR-VFRVVVN  139 (305)
T ss_dssp             ------------------SSSSSEEEEETTGGGBCHHHHHHTHHHHHSCCTTEEEEEEESCGGGSCHHHHTT-SEEEECC
T ss_pred             ------------------ccCCceEEEeccHHHhCHHHHHHHHHHHhCCCCCeEEEEEECChHhChHHHHce-eEeCCCC
Confidence                              1245678999999764  22333433333334567777666543 343333444 8999999


Q ss_pred             ChHHHHHHHHHHh
Q 048126          285 GPEDAWRLFRENL  297 (863)
Q Consensus       285 ~~~e~~~lf~~~~  297 (863)
                      ++++..+.+.+.+
T Consensus       140 ~~~~i~~~L~~~~  152 (305)
T 2gno_A          140 VPKEFRDLVKEKI  152 (305)
T ss_dssp             CCHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHh
Confidence            9999999998876

>1in4_A RUVB, holliday junction DNA helicase RUVB; AAA+-class ATPase, winged-helix domain, ATP hydrolysis, walker A, walker B, sensor 1, sensor 2; HET: ADP; 1.60A {Thermotoga maritima} SCOP: a.4.5.11 c.37.1.20 PDB: 1in5_A* 1in6_A* 1in8_A* 1in7_A* 1j7k_A*

Probab=97.75  E-value=0.00058  Score=72.49  Aligned_cols=171  Identities=20%  Similarity=0.172  Sum_probs=93.2

Q ss_pred             CCccchhHHHHHHHHHhcC-----CCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHH
Q 048126          126 EPTVGLESMFDKVWRCLGE-----EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIG  200 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~-----~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~  200 (863)
                      ..++|.+..++.+...+..     .....+.++|+.|+||||||+.+++..   ...|.   .....-.....+      
T Consensus        25 ~~~~g~~~~~~~l~~~i~~~~~~~~~~~~~ll~Gp~G~GKTTLa~~ia~~l---~~~~~---~~sg~~~~~~~~------   92 (334)
T 1in4_A           25 DEFIGQENVKKKLSLALEAAKMRGEVLDHVLLAGPPGLGKTTLAHIIASEL---QTNIH---VTSGPVLVKQGD------   92 (334)
T ss_dssp             GGCCSCHHHHHHHHHHHHHHHHHTCCCCCEEEESSTTSSHHHHHHHHHHHH---TCCEE---EEETTTCCSHHH------
T ss_pred             HHccCcHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCcHHHHHHHHHHHh---CCCEE---EEechHhcCHHH------
Confidence            4578988888877766643     234678999999999999999999987   22221   111110011111      


Q ss_pred             HHhCCCCccccCCChhHHHHHHHHHhccCcEEEEEeccCCcc--ccccccC---CCC------CC---------CCCcEE
Q 048126          201 RRIGFLDESWKNGSLEDKASDILRILSKKKFLLLLDDIWERV--DLTKVGV---PFP------DP---------ENKSKI  260 (863)
Q Consensus       201 ~~l~~~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~--~~~~~~~---~l~------~~---------~~gs~I  260 (863)
                                       ... +...+ .++-++++|++....  ..+.+..   ...      ..         -....+
T Consensus        93 -----------------l~~-~~~~~-~~~~v~~iDE~~~l~~~~~e~L~~~~~~~~~~i~~~~~~~~~~i~~~l~~~~l  153 (334)
T 1in4_A           93 -----------------MAA-ILTSL-ERGDVLFIDEIHRLNKAVEELLYSAIEDFQIDIMIGKGPSAKSIRIDIQPFTL  153 (334)
T ss_dssp             -----------------HHH-HHHHC-CTTCEEEEETGGGCCHHHHHHHHHHHHTSCCCC---------------CCCEE
T ss_pred             -----------------HHH-HHHHc-cCCCEEEEcchhhcCHHHHHHHHHHHHhcccceeeccCcccccccccCCCeEE
Confidence                             111 11111 234466778775421  1111100   000      00         011122


Q ss_pred             E-EecCchhhhhccc--ccceEeecCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCCchhHHHHHH
Q 048126          261 V-FTTRFLEICGAMK--AHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGLPLALITIG  330 (863)
Q Consensus       261 i-vTtR~~~v~~~~~--~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPlai~~~~  330 (863)
                      + .|++...+...+.  ....+.+++.+.++-.+++.+.+.....   .--.+.+..|++.+.|.|-.+..+.
T Consensus       154 i~at~~~~~Ls~~l~sR~~l~~~Ld~~~~~~l~~iL~~~~~~~~~---~~~~~~~~~ia~~~~G~~R~a~~ll  223 (334)
T 1in4_A          154 VGATTRSGLLSSPLRSRFGIILELDFYTVKELKEIIKRAASLMDV---EIEDAAAEMIAKRSRGTPRIAIRLT  223 (334)
T ss_dssp             EEEESCGGGSCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHTTC---CBCHHHHHHHHHTSTTCHHHHHHHH
T ss_pred             EEecCCcccCCHHHHHhcCceeeCCCCCHHHHHHHHHHHHHHcCC---CcCHHHHHHHHHhcCCChHHHHHHH
Confidence            2 3555443321111  1235789999999999999987643221   1225678999999999997654443

>1io0_A Tropomodulin; LRR protein, right-handed super-helix, protein binding; 1.45A {Gallus gallus} SCOP: c.10.1.1

Probab=97.74  E-value=3e-05  Score=74.71  Aligned_cols=118  Identities=17%  Similarity=0.133  Sum_probs=73.5

Q ss_pred             hhhcCCCccEEEccCC-Ccccc----CCccccccCCCCeEEccCCCcc-----ccchhhhcCCCCCEEecCCccccCC--
Q 048126          535 FFQFMPSLRVFNMSNN-HLLWK----LPSGISTLVSLEHLDLSGTAIT-----HLPIELQKLVNLKCLNLEYMYNLNQ--  602 (863)
Q Consensus       535 ~~~~l~~L~~L~L~~~-~~~~~----lp~~i~~l~~L~~L~L~~~~l~-----~lp~~~~~l~~L~~L~l~~~~~l~~--  602 (863)
                      .+...+.|++|+|++| .+...    +...+...++|++|+|++|.|.     .+...+...++|++|+|++| .+..  
T Consensus        31 ~l~~~~~L~~L~L~~n~~i~~~g~~~l~~~L~~~~~L~~L~Ls~n~i~~~g~~~l~~~L~~n~~L~~L~L~~N-~i~~~g  109 (185)
T 1io0_A           31 IQNNDPDLEEVNLNNIMNIPVPTLKACAEALKTNTYVKKFSIVGTRSNDPVAFALAEMLKVNNTLKSLNVESN-FISGSG  109 (185)
T ss_dssp             HHTTCTTCCEEECTTCTTCCHHHHHHHHHHHTTCCSCCEEECTTSCCCHHHHHHHHHHHHHCSSCCEEECCSS-CCCHHH
T ss_pred             HHhcCCCCCEEEecCCCCCCHHHHHHHHHHHHhCCCcCEEECcCCCCChHHHHHHHHHHHhCCCcCEEECcCC-cCCHHH
Confidence            3566777888888777 44322    3445556677888888887775     34555666677888888777 3332  


Q ss_pred             ---CcHHHhhcCCCCcEEEe--eccccccCchhhHHHHHcCCccCceEEEEEcChHH
Q 048126          603 ---FPRLVMSAFSKLQVLRI--LKSNVLFGGHQFLVEELMGMKHLMALTITLKSWEA  654 (863)
Q Consensus       603 ---lp~~~~~~L~~L~~L~l--~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~~  654 (863)
                         +.. .+...++|++|++  .+|.+...+.......+...++|+.|+++.+....
T Consensus       110 ~~~l~~-~L~~n~~L~~L~L~~~~N~i~~~g~~~l~~~L~~n~~L~~L~L~~n~i~~  165 (185)
T 1io0_A          110 ILALVE-ALQSNTSLIELRIDNQSQPLGNNVEMEIANMLEKNTTLLKFGYHFTQQGP  165 (185)
T ss_dssp             HHHHHH-GGGGCSSCCEEECCCCSSCCCHHHHHHHHHHHHHCSSCCEEECCCSSHHH
T ss_pred             HHHHHH-HHHhCCCceEEEecCCCCCCCHHHHHHHHHHHHhCCCcCEEeccCCCCCh
Confidence               222 2455667888887  56665543333344556666777788877776543

>2w58_A DNAI, primosome component (helicase loader); ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.50A {Geobacillus kaustophilus HTA426}

Probab=97.69  E-value=5.3e-05  Score=74.18  Aligned_cols=120  Identities=22%  Similarity=0.197  Sum_probs=64.3

Q ss_pred             CCccchh----HHHHHHHHHhcCC----CccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHH
Q 048126          126 EPTVGLE----SMFDKVWRCLGEE----QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQE  197 (863)
Q Consensus       126 ~~~vGr~----~~~~~l~~~L~~~----~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~  197 (863)
                      +.+++.+    ..++.+.+++...    ....+.|+|++|+|||+||+.+++...   .....++|++++      .+..
T Consensus        25 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~G~~GtGKT~la~~i~~~~~---~~~~~~~~~~~~------~~~~   95 (202)
T 2w58_A           25 SDVDLNDDGRIKAIRFAERFVAEYEPGKKMKGLYLHGSFGVGKTYLLAAIANELA---KRNVSSLIVYVP------ELFR   95 (202)
T ss_dssp             TSSCCSSHHHHHHHHHHHHHHHHCCSSCCCCEEEEECSTTSSHHHHHHHHHHHHH---TTTCCEEEEEHH------HHHH
T ss_pred             hhccCCChhHHHHHHHHHHHHHHhhhccCCCeEEEECCCCCCHHHHHHHHHHHHH---HcCCeEEEEEhH------HHHH
Confidence            4566543    3445555555432    126889999999999999999999872   223345666543      3444


Q ss_pred             HHHHHhCCCCccccCCChhHHHHHHHHHhccCcEEEEEeccCCc--ccccc--ccC-CCCC-CCCCcEEEEecCc
Q 048126          198 KIGRRIGFLDESWKNGSLEDKASDILRILSKKKFLLLLDDIWER--VDLTK--VGV-PFPD-PENKSKIVFTTRF  266 (863)
Q Consensus       198 ~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~--~~~~~--~~~-~l~~-~~~gs~IivTtR~  266 (863)
                      .+...+.       ..........    +.+. -+|||||++..  ..|..  +.. .+.. ...+.++|+||..
T Consensus        96 ~~~~~~~-------~~~~~~~~~~----~~~~-~~lilDei~~~~~~~~~~~~ll~~~l~~~~~~~~~~i~tsn~  158 (202)
T 2w58_A           96 ELKHSLQ-------DQTMNEKLDY----IKKV-PVLMLDDLGAEAMSSWVRDDVFGPILQYRMFENLPTFFTSNF  158 (202)
T ss_dssp             HHHHC----------CCCHHHHHH----HHHS-SEEEEEEECCC---CCGGGTTHHHHHHHHHHTTCCEEEEESS
T ss_pred             HHHHHhc-------cchHHHHHHH----hcCC-CEEEEcCCCCCcCCHHHHHHHHHHHHHHHHhCCCCEEEEcCC
Confidence            4433221       1112222222    2222 39999999653  33322  111 1111 1235568888874

>4b4t_J 26S protease regulatory subunit 8 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.65  E-value=0.0008  Score=71.79  Aligned_cols=171  Identities=18%  Similarity=0.173  Sum_probs=97.0

Q ss_pred             CCccchhHHHHHHHHHhcC-------------CCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCH
Q 048126          126 EPTVGLESMFDKVWRCLGE-------------EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQL  192 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~-------------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~  192 (863)
                      +++.|.+..+++|.+.+.-             ...+-|-++|++|+|||.||+++++..   ...|   +.|..+.-.+.
T Consensus       148 ~dIgGl~~~k~~l~e~v~~Pl~~pe~f~~~gi~~prGvLL~GPPGTGKTllAkAiA~e~---~~~f---~~v~~s~l~sk  221 (405)
T 4b4t_J          148 DMVGGLTKQIKEIKEVIELPVKHPELFESLGIAQPKGVILYGPPGTGKTLLARAVAHHT---DCKF---IRVSGAELVQK  221 (405)
T ss_dssp             GGSCSCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCCCEEEESCSSSSHHHHHHHHHHHH---TCEE---EEEEGGGGSCS
T ss_pred             HHhCCHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCceEEeCCCCCCHHHHHHHHHHhh---CCCc---eEEEhHHhhcc
Confidence            3457899988888776631             235678899999999999999999988   2222   34443322110


Q ss_pred             HHHHHHHHHHhCCCCccccCCChhHHHHHHHHHhccCcEEEEEeccCCcc----------c------cccccCCCC--CC
Q 048126          193 EKIQEKIGRRIGFLDESWKNGSLEDKASDILRILSKKKFLLLLDDIWERV----------D------LTKVGVPFP--DP  254 (863)
Q Consensus       193 ~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~----------~------~~~~~~~l~--~~  254 (863)
                                       +...+...+...+...-...+.+|++|+++...          +      ...+...+.  ..
T Consensus       222 -----------------~vGese~~vr~lF~~Ar~~aP~IIFiDEiDai~~~R~~~~~~~~~~~~~~l~~lL~~lDg~~~  284 (405)
T 4b4t_J          222 -----------------YIGEGSRMVRELFVMAREHAPSIIFMDEIDSIGSTRVEGSGGGDSEVQRTMLELLNQLDGFET  284 (405)
T ss_dssp             -----------------STTHHHHHHHHHHHHHHHTCSEEEEEESSSCCTTSCSCSSSGGGGHHHHHHHHHHHHHHTTTC
T ss_pred             -----------------ccchHHHHHHHHHHHHHHhCCceEeeecchhhccCCCCCCCCCcHHHHHHHHHHHHhhhccCC
Confidence                             011111111122222223578999999987421          0      011111111  12


Q ss_pred             CCCcEEEEecCchhh-----hhcccccceEeecCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCCch
Q 048126          255 ENKSKIVFTTRFLEI-----CGAMKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGLP  323 (863)
Q Consensus       255 ~~gs~IivTtR~~~v-----~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glP  323 (863)
                      ..+..||.||...+.     .+.-.-+..+.++.-+.++-.++|+.+........+-+    ...|++.+.|.-
T Consensus       285 ~~~V~vIaATNrpd~LDpAllRpGRfD~~I~i~lPd~~~R~~Il~~~~~~~~l~~dvd----l~~lA~~t~G~S  354 (405)
T 4b4t_J          285 SKNIKIIMATNRLDILDPALLRPGRIDRKIEFPPPSVAARAEILRIHSRKMNLTRGIN----LRKVAEKMNGCS  354 (405)
T ss_dssp             CCCEEEEEEESCSSSSCHHHHSTTSSCCEEECCCCCHHHHHHHHHHHHTTSBCCSSCC----HHHHHHHCCSCC
T ss_pred             CCCeEEEeccCChhhCCHhHcCCCcCceEEEcCCcCHHHHHHHHHHHhcCCCCCccCC----HHHHHHHCCCCC
Confidence            344556667765433     22113456788888888888899987765443222223    356777777753

>1qvr_A CLPB protein; coiled coil, AAA ATPase, chaperone; HET: ANP; 3.00A {Thermus thermophilus} SCOP: a.174.1.1 c.37.1.20 c.37.1.20

Probab=97.62  E-value=0.00011  Score=88.59  Aligned_cols=154  Identities=16%  Similarity=0.277  Sum_probs=84.3

Q ss_pred             CCccchhHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHhhhcC--CCCCC-C-EEEEEEeCCccCHHHHHHHHHH
Q 048126          126 EPTVGLESMFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLG--APNDF-D-VVIWVVVSKDLQLEKIQEKIGR  201 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~--~~~~F-~-~~~wv~~s~~~~~~~~~~~i~~  201 (863)
                      +++|||+.++..+++.+......-+.++|.+|+||||+|+.+++....  +.... + .++++.++.-..          
T Consensus       170 d~viGr~~~i~~l~~~l~~~~~~~vlL~G~pG~GKT~la~~la~~l~~~~~p~~l~~~~~~~l~~~~l~~----------  239 (854)
T 1qvr_A          170 DPVIGRDEEIRRVIQILLRRTKNNPVLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIVSLQMGSLLA----------  239 (854)
T ss_dssp             CCCCSCHHHHHHHHHHHHCSSCCCCEEEECTTSCHHHHHHHHHHHHHHTCSCTTSTTCEEEEECC---------------
T ss_pred             cccCCcHHHHHHHHHHHhcCCCCceEEEcCCCCCHHHHHHHHHHHHhcCCCchhhcCCeEEEeehHHhhc----------
Confidence            568999999999999997766666789999999999999999987621  11111 1 334443322100          


Q ss_pred             HhCCCCccccCCChhHHHHHHHHHhc--cCcEEEEEeccCCccc-------cc---cccCCCCCCCCCcEEEEecCchhh
Q 048126          202 RIGFLDESWKNGSLEDKASDILRILS--KKKFLLLLDDIWERVD-------LT---KVGVPFPDPENKSKIVFTTRFLEI  269 (863)
Q Consensus       202 ~l~~~~~~~~~~~~~~~~~~l~~~l~--~kr~LlVlDdv~~~~~-------~~---~~~~~l~~~~~gs~IivTtR~~~v  269 (863)
                        +..    ...........+.+.+.  +++.+|++|+++....       ++   .+...+.  ..+..+|.+|.....
T Consensus       240 --g~~----~~g~~~~~l~~~~~~~~~~~~~~iL~IDEi~~l~~~~~~~g~~~~~~~L~~~l~--~~~i~~I~at~~~~~  311 (854)
T 1qvr_A          240 --GAK----YRGEFEERLKAVIQEVVQSQGEVILFIDELHTVVGAGKAEGAVDAGNMLKPALA--RGELRLIGATTLDEY  311 (854)
T ss_dssp             ------------CHHHHHHHHHHHHHTTCSSEEEEECCC-------------------HHHHH--TTCCCEEEEECHHHH
T ss_pred             --cCc----cchHHHHHHHHHHHHHHhcCCCeEEEEecHHHHhccCCccchHHHHHHHHHHHh--CCCeEEEEecCchHH
Confidence              000    01122222333333332  3678999999975320       11   1111111  123456665554332


Q ss_pred             -----hhc-ccccceEeecCCChHHHHHHHHHHh
Q 048126          270 -----CGA-MKAHEFLKVECLGPEDAWRLFRENL  297 (863)
Q Consensus       270 -----~~~-~~~~~~~~l~~L~~~e~~~lf~~~~  297 (863)
                           ... ..-...+.+++++.++..+++....
T Consensus       312 ~~~~~d~aL~rRf~~i~l~~p~~~e~~~iL~~~~  345 (854)
T 1qvr_A          312 REIEKDPALERRFQPVYVDEPTVEETISILRGLK  345 (854)
T ss_dssp             HHHTTCTTTCSCCCCEEECCCCHHHHHHHHHHHH
T ss_pred             hhhccCHHHHhCCceEEeCCCCHHHHHHHHHhhh
Confidence                 111 1112358899999999999997544

>2r62_A Cell division protease FTSH homolog; ATPase domain, ATP-binding, cell CELL division, hydrolase, membrane, metal-binding; 3.30A {Helicobacter pylori} PDB: 2r65_A*

Probab=97.61  E-value=0.00013  Score=74.97  Aligned_cols=151  Identities=15%  Similarity=0.091  Sum_probs=82.0

Q ss_pred             CCccchhHHHHHHHHHhcC------------CCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHH
Q 048126          126 EPTVGLESMFDKVWRCLGE------------EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLE  193 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~------------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~  193 (863)
                      ..++|.+..++.+.+.+..            ...+-+.|+|++|+|||++|+.+++..   ...|   +.+..+.-.+  
T Consensus        11 ~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~~---~~~~---~~v~~~~~~~--   82 (268)
T 2r62_A           11 KDMAGNEEAKEEVVEIVDFLKYPERYANLGAKIPKGVLLVGPPGTGKTLLAKAVAGEA---HVPF---FSMGGSSFIE--   82 (268)
T ss_dssp             TTSSSCTTTHHHHHHHHHHHHCHHHHHHHSCCCCSCCCCBCSSCSSHHHHHHHHHHHH---TCCC---CCCCSCTTTT--
T ss_pred             HHhCCcHHHHHHHHHHHHHHHChHHHHHCCCCCCceEEEECCCCCcHHHHHHHHHHHh---CCCE---EEechHHHHH--
Confidence            5689999888877776541            123347799999999999999999987   2222   1111111000  


Q ss_pred             HHHHHHHHHhCCCCccccCCChhHHHHHHHHHhccCcEEEEEeccCCcc-----------------ccccccCCCCC---
Q 048126          194 KIQEKIGRRIGFLDESWKNGSLEDKASDILRILSKKKFLLLLDDIWERV-----------------DLTKVGVPFPD---  253 (863)
Q Consensus       194 ~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~-----------------~~~~~~~~l~~---  253 (863)
                              .+...    ........   +......++.+|++||++...                 ....+...+..   
T Consensus        83 --------~~~~~----~~~~~~~~---~~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~  147 (268)
T 2r62_A           83 --------MFVGL----GASRVRDL---FETAKKQAPSIIFIDEIDAIGKSRAAGGVVSGNDEREQTLNQLLAEMDGFGS  147 (268)
T ss_dssp             --------SCSSS----CSSSSSTT---HHHHHHSCSCEEEESCGGGTTC----------CCCSCSSTTTTTTTTTCSSC
T ss_pred             --------hhcch----HHHHHHHH---HHHHHhcCCeEEEEeChhhhcccccccccCCCchhHHHHHHHHHHHhhCccc
Confidence                    00000    01111111   222223467899999996431                 11222222221   


Q ss_pred             CCCCcEEEEecCchhhhh--cc---cccceEeecCCChHHHHHHHHHHhcc
Q 048126          254 PENKSKIVFTTRFLEICG--AM---KAHEFLKVECLGPEDAWRLFRENLRR  299 (863)
Q Consensus       254 ~~~gs~IivTtR~~~v~~--~~---~~~~~~~l~~L~~~e~~~lf~~~~~~  299 (863)
                      ......||.||.......  ..   .-...+.++..+.++-.+++...+..
T Consensus       148 ~~~~v~vi~ttn~~~~ld~~l~r~~Rf~~~i~i~~p~~~~r~~il~~~~~~  198 (268)
T 2r62_A          148 ENAPVIVLAATNRPEILDPALMRPGRFDRQVLVDKPDFNGRVEILKVHIKG  198 (268)
T ss_dssp             SCSCCEEEECBSCCTTSCGGGGSSSSSCCCCBCCCCCTTTHHHHHHHHTSS
T ss_pred             CCCCEEEEEecCCchhcCHhHcCCCCCCeEEEecCcCHHHHHHHHHHHHhc
Confidence            112245666776543211  11   12345788888999988998877644

>3n70_A Transport activator; sigma-54, ntpase, PSI, MCSG, structural genomics, center for structural genomics; 2.80A {Escherichia coli}

Probab=97.61  E-value=5.6e-05  Score=69.51  Aligned_cols=45  Identities=22%  Similarity=0.237  Sum_probs=35.6

Q ss_pred             CccchhHHHHHHHHHhcC--CCccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          127 PTVGLESMFDKVWRCLGE--EQVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       127 ~~vGr~~~~~~l~~~L~~--~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      .+||+...+.++.+.+..  ....-|.|+|..|+|||++|+.+++..
T Consensus         2 ~iiG~s~~~~~~~~~~~~~a~~~~~vll~G~~GtGKt~lA~~i~~~~   48 (145)
T 3n70_A            2 ELIGRSEWINQYRRRLQQLSETDIAVWLYGAPGTGRMTGARYLHQFG   48 (145)
T ss_dssp             --CCSSHHHHHHHHHHHHHTTCCSCEEEESSTTSSHHHHHHHHHHSS
T ss_pred             CceeCCHHHHHHHHHHHHHhCCCCCEEEECCCCCCHHHHHHHHHHhC
Confidence            478999999998887742  233456799999999999999999875

>3ec2_A DNA replication protein DNAC; helicase loader, replication initiation factor, ATP-binding, nucleotide-binding; HET: DNA ADP; 2.70A {Aquifex aeolicus} PDB: 3ecc_A*

Probab=97.59  E-value=2.9e-05  Score=74.48  Aligned_cols=117  Identities=14%  Similarity=0.091  Sum_probs=62.4

Q ss_pred             hhHHHHHHHHHhcC---CCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHHHHhCCCC
Q 048126          131 LESMFDKVWRCLGE---EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGRRIGFLD  207 (863)
Q Consensus       131 r~~~~~~l~~~L~~---~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~  207 (863)
                      ....++.+.+++..   .....+.|+|+.|+||||||+.+++... ....+ .+++++      ..++...+........
T Consensus        19 ~~~~~~~~~~~~~~~~~~~g~~~~l~G~~G~GKTtL~~~i~~~~~-~~~g~-~~~~~~------~~~~~~~~~~~~~~~~   90 (180)
T 3ec2_A           19 QNRALLTIRVFVHNFNPEEGKGLTFVGSPGVGKTHLAVATLKAIY-EKKGI-RGYFFD------TKDLIFRLKHLMDEGK   90 (180)
T ss_dssp             HHHHHHHHHHHHHSCCGGGCCEEEECCSSSSSHHHHHHHHHHHHH-HHSCC-CCCEEE------HHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHHHHhccccCCCEEEEECCCCCCHHHHHHHHHHHHH-HHcCC-eEEEEE------HHHHHHHHHHHhcCch
Confidence            34455555555543   2357899999999999999999998762 11122 123433      4444444444332111


Q ss_pred             ccccCCChhHHHHHHHHHhccCcEEEEEeccCC--ccccc--cccCCCCC-CCCCcEEEEecCch
Q 048126          208 ESWKNGSLEDKASDILRILSKKKFLLLLDDIWE--RVDLT--KVGVPFPD-PENKSKIVFTTRFL  267 (863)
Q Consensus       208 ~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~--~~~~~--~~~~~l~~-~~~gs~IivTtR~~  267 (863)
                             .......    +. +.-+|||||++.  .+.|.  .+...+.. ...|..||+||...
T Consensus        91 -------~~~~~~~----~~-~~~llilDE~~~~~~~~~~~~~l~~ll~~~~~~~~~ii~tsn~~  143 (180)
T 3ec2_A           91 -------DTKFLKT----VL-NSPVLVLDDLGSERLSDWQRELISYIITYRYNNLKSTIITTNYS  143 (180)
T ss_dssp             -------CSHHHHH----HH-TCSEEEEETCSSSCCCHHHHHHHHHHHHHHHHTTCEEEEECCCC
T ss_pred             -------HHHHHHH----hc-CCCEEEEeCCCCCcCCHHHHHHHHHHHHHHHHcCCCEEEEcCCC
Confidence                   1122222    22 456899999973  22332  11111111 12466788888643

>4b4t_L 26S protease subunit RPT4; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.56  E-value=0.0005  Score=74.60  Aligned_cols=171  Identities=14%  Similarity=0.161  Sum_probs=95.6

Q ss_pred             CCccchhHHHHHHHHHhcC-------------CCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCH
Q 048126          126 EPTVGLESMFDKVWRCLGE-------------EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQL  192 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~-------------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~  192 (863)
                      +++.|.+..+++|.+.+.-             ...+-|.++|++|+|||+||+++++..   ...   .+.|..+.-.+ 
T Consensus       181 ~digGl~~~k~~l~e~v~~pl~~p~~f~~~g~~~prGvLL~GPPGtGKTllAkAiA~e~---~~~---~~~v~~s~l~s-  253 (437)
T 4b4t_L          181 DGIGGLTEQIRELREVIELPLKNPEIFQRVGIKPPKGVLLYGPPGTGKTLLAKAVAATI---GAN---FIFSPASGIVD-  253 (437)
T ss_dssp             GGGCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCCEEEEESCTTSSHHHHHHHHHHHH---TCE---EEEEEGGGTCC-
T ss_pred             hHhCChHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCeEEEECCCCCcHHHHHHHHHHHh---CCC---EEEEehhhhcc-
Confidence            3457889888888776631             235788899999999999999999998   222   23444332211 


Q ss_pred             HHHHHHHHHHhCCCCccccCCChhHHHHHHHHHhccCcEEEEEeccCCcc--------c--------cccccCCCC--CC
Q 048126          193 EKIQEKIGRRIGFLDESWKNGSLEDKASDILRILSKKKFLLLLDDIWERV--------D--------LTKVGVPFP--DP  254 (863)
Q Consensus       193 ~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~--------~--------~~~~~~~l~--~~  254 (863)
                                  .    +...+...+...+...-...+.+|++|+++...        .        +..+...+.  ..
T Consensus       254 ------------k----~~Gese~~ir~~F~~A~~~~P~IifiDEiDai~~~R~~~~~~~~~~~~~~l~~lL~~lDg~~~  317 (437)
T 4b4t_L          254 ------------K----YIGESARIIREMFAYAKEHEPCIIFMDEVDAIGGRRFSEGTSADREIQRTLMELLTQMDGFDN  317 (437)
T ss_dssp             ------------S----SSSHHHHHHHHHHHHHHHSCSEEEEEECCCSSSCCCSSSCCSSTTHHHHHHHHHHHHHHSSSC
T ss_pred             ------------c----cchHHHHHHHHHHHHHHhcCCceeeeecccccccccccCCCCcchHHHHHHHHHHHHhhcccC
Confidence                        0    011111111122222233578999999997421        0        011111111  12


Q ss_pred             CCCcEEEEecCchhhhh-c-c---cccceEeecCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCCch
Q 048126          255 ENKSKIVFTTRFLEICG-A-M---KAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGLP  323 (863)
Q Consensus       255 ~~gs~IivTtR~~~v~~-~-~---~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glP  323 (863)
                      ..+..||.||....... . .   .-+..+.++.-+.++-.++|+.++.......+.++    ..|++.+.|.-
T Consensus       318 ~~~vivI~ATNrp~~LDpAllRpGRfD~~I~i~lPd~~~R~~Il~~~~~~~~~~~d~dl----~~lA~~t~G~s  387 (437)
T 4b4t_L          318 LGQTKIIMATNRPDTLDPALLRPGRLDRKVEIPLPNEAGRLEIFKIHTAKVKKTGEFDF----EAAVKMSDGFN  387 (437)
T ss_dssp             TTSSEEEEEESSTTSSCTTTTSTTSEEEEECCCCCCHHHHHHHHHHHHHTSCBCSCCCH----HHHHHTCCSCC
T ss_pred             CCCeEEEEecCCchhhCHHHhCCCccceeeecCCcCHHHHHHHHHHHhcCCCCCcccCH----HHHHHhCCCCC
Confidence            34556777776554321 1 1   12446788888888888888877654332222233    55667776643

>3rw6_A Nuclear RNA export factor 1; retroviral constitutive transport element (CTE), RNA recogni motif (RRM); HET: GTP CCC; 2.30A {Homo sapiens} PDB: 3rw7_A 1koo_A 1koh_A 1ft8_A 1fo1_A

Probab=97.54  E-value=0.00012  Score=74.10  Aligned_cols=79  Identities=29%  Similarity=0.397  Sum_probs=49.0

Q ss_pred             CCCccceEEccCCccccccc--hhhhcCCCccEEEccCCCccccCCccccccC--CCCeEEccCCCcc-ccc-------h
Q 048126          514 TCPHLLSLFLSDNSLKMIAG--DFFQFMPSLRVFNMSNNHLLWKLPSGISTLV--SLEHLDLSGTAIT-HLP-------I  581 (863)
Q Consensus       514 ~~~~L~~L~l~~~~l~~~~~--~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~--~L~~L~L~~~~l~-~lp-------~  581 (863)
                      ++++|++|+|++|.+..++.  ..+..+++|++|+|++|.+. .+ ..+..+.  +|++|+|++|.+. .+|       .
T Consensus       168 ~l~~L~~L~Ls~N~l~~l~~l~~~~~~l~~L~~L~Ls~N~i~-~~-~~l~~l~~l~L~~L~L~~Npl~~~~~~~~~y~~~  245 (267)
T 3rw6_A          168 NIPELLSLNLSNNRLYRLDDMSSIVQKAPNLKILNLSGNELK-SE-RELDKIKGLKLEELWLDGNSLCDTFRDQSTYISA  245 (267)
T ss_dssp             HCTTCCEEECTTSCCCCCGGGTTHHHHSTTCCEEECTTSCCC-SG-GGGGGGTTSCCSEEECTTSTTGGGCSSHHHHHHH
T ss_pred             hCCCCCEEECCCCCCCCCccchhHHhhCCCCCEEECCCCccC-Cc-hhhhhcccCCcceEEccCCcCccccCcchhHHHH
Confidence            35566666666666655442  34567777777777777433 32 2344444  7788888887775 343       2


Q ss_pred             hhhcCCCCCEEec
Q 048126          582 ELQKLVNLKCLNL  594 (863)
Q Consensus       582 ~~~~l~~L~~L~l  594 (863)
                      .+..+++|+.||-
T Consensus       246 il~~~P~L~~LDg  258 (267)
T 3rw6_A          246 IRERFPKLLRLDG  258 (267)
T ss_dssp             HHHHCTTCCEESS
T ss_pred             HHHHCcccCeECC
Confidence            3677788888863

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=97.52  E-value=0.00054  Score=81.50  Aligned_cols=152  Identities=13%  Similarity=0.135  Sum_probs=84.1

Q ss_pred             CCccchhHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCC--CEEEEEEeCCccCHHHHHHHHHHHh
Q 048126          126 EPTVGLESMFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDF--DVVIWVVVSKDLQLEKIQEKIGRRI  203 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F--~~~~wv~~s~~~~~~~~~~~i~~~l  203 (863)
                      .++|||+.+++.+...+......-+.++|++|+|||++|+.+++........+  ...-++.++-               
T Consensus       180 d~iiG~~~~i~~l~~~l~~~~~~~vLL~G~pGtGKT~la~~la~~l~~~~~p~~l~~~~~~~~~~---------------  244 (758)
T 3pxi_A          180 DPVIGRSKEIQRVIEVLSRRTKNNPVLIGEPGVGKTAIAEGLAQQIINNEVPEILRDKRVMTLDM---------------  244 (758)
T ss_dssp             CCCCCCHHHHHHHHHHHHCSSSCEEEEESCTTTTTHHHHHHHHHHHHSSCSCTTTSSCCEECC-----------------
T ss_pred             CCccCchHHHHHHHHHHhCCCCCCeEEECCCCCCHHHHHHHHHHHHhcCCCChhhcCCeEEEecc---------------
Confidence            46899999999999999776666678999999999999999998852111000  0111111111               


Q ss_pred             CCCCccccCCChhHHHHHHHHHhccCcEEEEEeccCCccccccccCCCCCCCCCcEEEEecCchhh------hh-ccccc
Q 048126          204 GFLDESWKNGSLEDKASDILRILSKKKFLLLLDDIWERVDLTKVGVPFPDPENKSKIVFTTRFLEI------CG-AMKAH  276 (863)
Q Consensus       204 ~~~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~~~l~~~~~gs~IivTtR~~~v------~~-~~~~~  276 (863)
                      +..   +.......+...+......++.+|++|  ........+...+.  ....++|.||.....      .. ...-.
T Consensus       245 g~~---~~G~~e~~l~~~~~~~~~~~~~iLfiD--~~~~~~~~L~~~l~--~~~v~~I~at~~~~~~~~~~~d~al~rRf  317 (758)
T 3pxi_A          245 GTK---YRGEFEDRLKKVMDEIRQAGNIILFID--AAIDASNILKPSLA--RGELQCIGATTLDEYRKYIEKDAALERRF  317 (758)
T ss_dssp             -----------CTTHHHHHHHHHTCCCCEEEEC--C--------CCCTT--SSSCEEEEECCTTTTHHHHTTCSHHHHSE
T ss_pred             ccc---ccchHHHHHHHHHHHHHhcCCEEEEEc--CchhHHHHHHHHHh--cCCEEEEeCCChHHHHHHhhccHHHHhhC
Confidence            000   011111222333333444678899999  22222222322222  234566666654431      00 01112


Q ss_pred             ceEeecCCChHHHHHHHHHHhcc
Q 048126          277 EFLKVECLGPEDAWRLFRENLRR  299 (863)
Q Consensus       277 ~~~~l~~L~~~e~~~lf~~~~~~  299 (863)
                      ..+.++..+.++..+++......
T Consensus       318 ~~i~v~~p~~~~~~~il~~~~~~  340 (758)
T 3pxi_A          318 QPIQVDQPSVDESIQILQGLRDR  340 (758)
T ss_dssp             EEEECCCCCHHHHHHHHHHTTTT
T ss_pred             cEEEeCCCCHHHHHHHHHHHHHH
Confidence            46889999999999999876543

>4b4t_H 26S protease regulatory subunit 7 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.51  E-value=0.0015  Score=70.61  Aligned_cols=170  Identities=16%  Similarity=0.142  Sum_probs=95.6

Q ss_pred             CccchhHHHHHHHHHhcC-------------CCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHH
Q 048126          127 PTVGLESMFDKVWRCLGE-------------EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLE  193 (863)
Q Consensus       127 ~~vGr~~~~~~l~~~L~~-------------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~  193 (863)
                      ++.|.+..+++|.+.+.-             ...+-|.++|++|+|||.||+++++..   ...   .+.|..+.-.+  
T Consensus       210 DIgGl~~~k~~L~e~V~~pl~~pe~f~~~Gi~pprGILLyGPPGTGKTlLAkAiA~e~---~~~---fi~vs~s~L~s--  281 (467)
T 4b4t_H          210 DVGGCKDQIEKLREVVELPLLSPERFATLGIDPPKGILLYGPPGTGKTLCARAVANRT---DAT---FIRVIGSELVQ--  281 (467)
T ss_dssp             SCTTCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCSEEEECSCTTSSHHHHHHHHHHHH---TCE---EEEEEGGGGCC--
T ss_pred             HhccHHHHHHHHHHHHHHHhcCHHHHHHCCCCCCCceEeeCCCCCcHHHHHHHHHhcc---CCC---eEEEEhHHhhc--
Confidence            457899888888776521             346788899999999999999999988   222   23444332110  


Q ss_pred             HHHHHHHHHhCCCCccccCCChhHHHHHHHHHhccCcEEEEEeccCCccc----------------cccccCCCC--CCC
Q 048126          194 KIQEKIGRRIGFLDESWKNGSLEDKASDILRILSKKKFLLLLDDIWERVD----------------LTKVGVPFP--DPE  255 (863)
Q Consensus       194 ~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~----------------~~~~~~~l~--~~~  255 (863)
                                 .    +...+...+...+...-...+++|++|+++....                ...+...+.  ...
T Consensus       282 -----------k----~vGesek~ir~lF~~Ar~~aP~IIfiDEiDai~~~R~~~~~~~~~~~~~~l~~lL~~lDg~~~~  346 (467)
T 4b4t_H          282 -----------K----YVGEGARMVRELFEMARTKKACIIFFDEIDAVGGARFDDGAGGDNEVQRTMLELITQLDGFDPR  346 (467)
T ss_dssp             -----------C----SSSHHHHHHHHHHHHHHHTCSEEEEEECCTTTSBCCSSSSCGGGGHHHHHHHHHHHHHHSSCCT
T ss_pred             -----------c----cCCHHHHHHHHHHHHHHhcCCceEeecccccccccccCcCCCccHHHHHHHHHHHHHhhccCCC
Confidence                       0    0111111122222223345789999999874210                001111111  122


Q ss_pred             CCcEEEEecCchhh-----hhcccccceEeecCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCCch
Q 048126          256 NKSKIVFTTRFLEI-----CGAMKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGLP  323 (863)
Q Consensus       256 ~gs~IivTtR~~~v-----~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glP  323 (863)
                      .+..||.||-....     .+.-.-+..+.++.-+.++-.++|+.++........-+    ...|++.+.|.-
T Consensus       347 ~~ViVIaATNrpd~LDpALlRpGRFD~~I~i~lPd~~~R~~Ilk~~l~~~~l~~dvd----l~~LA~~T~GfS  415 (467)
T 4b4t_H          347 GNIKVMFATNRPNTLDPALLRPGRIDRKVEFSLPDLEGRANIFRIHSKSMSVERGIR----WELISRLCPNST  415 (467)
T ss_dssp             TTEEEEEECSCTTSBCHHHHSTTTCCEEECCCCCCHHHHHHHHHHHHTTSCBCSSCC----HHHHHHHCCSCC
T ss_pred             CcEEEEeCCCCcccCChhhhccccccEEEEeCCcCHHHHHHHHHHHhcCCCCCCCCC----HHHHHHHCCCCC
Confidence            34455666654433     11112345788888888888899987765443222223    356677787753

>4gt6_A Cell surface protein; leucine rich repeats, putative protein binding, extracellula protein, structural genomics; HET: MSE; 1.80A {Faecalibacterium prausnitzii a2-165}

Probab=97.50  E-value=0.0013  Score=71.79  Aligned_cols=129  Identities=14%  Similarity=0.187  Sum_probs=91.1

Q ss_pred             ccccccceEEEEecccc---cccc--ccCCCCCccceEEccCCccccccchhhhcCCCccEEEccCCCccccCCcccccc
Q 048126          489 EIQNWRNVRRMSLMKNK---IENL--SETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTL  563 (863)
Q Consensus       489 ~~~~~~~lr~L~l~~~~---~~~l--~~~~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l  563 (863)
                      .+.++.+|+.+.+..+.   +..+  ..+..|.+|+.+.+..+ ++.++...|..+.+|+.+.+..+ ....-...+..+
T Consensus        82 AF~~C~~L~~i~~~~n~p~~l~~Ig~~aF~~c~~L~~i~~~~~-~~~I~~~aF~~c~~L~~i~lp~~-~~~I~~~~F~~c  159 (394)
T 4gt6_A           82 AFYNCTSLKRVTIQDNKPSCVKKIGRQAFMFCSELTDIPILDS-VTEIDSEAFHHCEELDTVTIPEG-VTSVADGMFSYC  159 (394)
T ss_dssp             TTTTCTTCCEEEEGGGCCCCCCEECTTTTTTCTTCCBCGGGTT-CSEECTTTTTTCTTCCEEECCTT-CCEECTTTTTTC
T ss_pred             HhhCCccCceEeecCCCCCeeeEechhhchhcccceeeccCCc-cceehhhhhhhhcccccccccce-eeeecccceecc
Confidence            35677889999988664   3333  23577889998887755 67788888999999999999866 333334567788


Q ss_pred             CCCCeEEccCCCccccchhhhcCCCCCEEecCCccccCCCcHHHhhcCCCCcEEEeecc
Q 048126          564 VSLEHLDLSGTAITHLPIELQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRILKS  622 (863)
Q Consensus       564 ~~L~~L~L~~~~l~~lp~~~~~l~~L~~L~l~~~~~l~~lp~~~~~~L~~L~~L~l~~~  622 (863)
                      .+|+.+.+..+ ++.+....-...+|+.+.+...  +..+....+..+.+|........
T Consensus       160 ~~L~~i~~~~~-~~~I~~~aF~~~~l~~i~ip~~--~~~i~~~af~~c~~l~~~~~~~~  215 (394)
T 4gt6_A          160 YSLHTVTLPDS-VTAIEERAFTGTALTQIHIPAK--VTRIGTNAFSECFALSTITSDSE  215 (394)
T ss_dssp             TTCCEEECCTT-CCEECTTTTTTCCCSEEEECTT--CCEECTTTTTTCTTCCEEEECCS
T ss_pred             cccccccccce-eeEeccccccccceeEEEECCc--ccccccchhhhccccceeccccc
Confidence            99999998764 5666554334567888888653  34555555677778877765443

>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A {Escherichia coli} SCOP: c.37.1.20

Probab=97.49  E-value=0.0018  Score=65.80  Aligned_cols=176  Identities=15%  Similarity=0.125  Sum_probs=93.4

Q ss_pred             CCccchhHHHHHHHHHhc---C---------CCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHH
Q 048126          126 EPTVGLESMFDKVWRCLG---E---------EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLE  193 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~---~---------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~  193 (863)
                      .+++|.+..++++.+.+.   .         ...+-+.|+|++|+||||+|+.+++..   ...|   +.+..+.-.+  
T Consensus        12 ~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~~---~~~~---~~i~~~~~~~--   83 (257)
T 1lv7_A           12 ADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEA---KVPF---FTISGSDFVE--   83 (257)
T ss_dssp             GGSCSCHHHHHHTHHHHHHHHCGGGC-----CCCCEEEEECCTTSCHHHHHHHHHHHH---TCCE---EEECSCSSTT--
T ss_pred             HHhcCcHHHHHHHHHHHHHHhCHHHHHHcCCCCCCeEEEECcCCCCHHHHHHHHHHHc---CCCE---EEEeHHHHHH--
Confidence            457899888877765542   1         123468899999999999999999887   2222   3333221100  


Q ss_pred             HHHHHHHHHhCCCCccccCCChhHHHHHHHHHhccCcEEEEEeccCCccc----------------cccccCCCC--CCC
Q 048126          194 KIQEKIGRRIGFLDESWKNGSLEDKASDILRILSKKKFLLLLDDIWERVD----------------LTKVGVPFP--DPE  255 (863)
Q Consensus       194 ~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~----------------~~~~~~~l~--~~~  255 (863)
                              .       ............+.......+.++++|+++....                ...+...+.  ...
T Consensus        84 --------~-------~~~~~~~~~~~~~~~a~~~~~~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~  148 (257)
T 1lv7_A           84 --------M-------FVGVGASRVRDMFEQAKKAAPCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFEGN  148 (257)
T ss_dssp             --------S-------CCCCCHHHHHHHHHHHHTTCSEEEEETTHHHHTCCCSTTSCCTTCHHHHHHHHHHHHHHTCCSS
T ss_pred             --------H-------hhhhhHHHHHHHHHHHHHcCCeeehhhhhhhhccCCCCCcCCCchHHHHHHHHHHHHhhCcccC
Confidence                    0       0111122223333334445678999999843210                001110000  112


Q ss_pred             CCcEEEEecCchhh-hhcc----cccceEeecCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCC-chhHHHH
Q 048126          256 NKSKIVFTTRFLEI-CGAM----KAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAG-LPLALIT  328 (863)
Q Consensus       256 ~gs~IivTtR~~~v-~~~~----~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g-lPlai~~  328 (863)
                      .+..||.||..... ....    .-...+.++..+.++-.+++...+..........    ...++..+.| .+--+..
T Consensus       149 ~~~~vI~~tn~~~~l~~~l~r~~rf~~~i~i~~P~~~~r~~il~~~~~~~~l~~~~~----~~~la~~~~G~~~~dl~~  223 (257)
T 1lv7_A          149 EGIIVIAATNRPDVLDPALLRPGRFDRQVVVGLPDVRGREQILKVHMRRVPLAPDID----AAIIARGTPGFSGADLAN  223 (257)
T ss_dssp             SCEEEEEEESCTTTSCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHHTTSCBCTTCC----HHHHHHTCTTCCHHHHHH
T ss_pred             CCEEEEEeeCCchhCCHHHcCCCcCCeEEEeCCCCHHHHHHHHHHHHhcCCCCcccc----HHHHHHHcCCCCHHHHHH
Confidence            34566777765432 1111    1234677788888888888877654322111111    3456667777 5544443

>4b4t_I 26S protease regulatory subunit 4 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.48  E-value=0.0019  Score=69.06  Aligned_cols=168  Identities=17%  Similarity=0.202  Sum_probs=93.1

Q ss_pred             CccchhHHHHHHHHHhc----C---------CCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHH
Q 048126          127 PTVGLESMFDKVWRCLG----E---------EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLE  193 (863)
Q Consensus       127 ~~vGr~~~~~~l~~~L~----~---------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~  193 (863)
                      ++.|.+..+++|.+.+.    .         ...+-|-++|++|+|||.||+++++..   ...|   +.+..+.-.+  
T Consensus       183 DIgGld~~k~~L~e~v~~Pl~~pe~f~~~Gi~~prGvLLyGPPGTGKTlLAkAiA~e~---~~~f---i~v~~s~l~s--  254 (437)
T 4b4t_I          183 DIGGLESQIQEIKESVELPLTHPELYEEMGIKPPKGVILYGAPGTGKTLLAKAVANQT---SATF---LRIVGSELIQ--  254 (437)
T ss_dssp             GTCSCHHHHHHHHHHHHHHHHCCHHHHHHTCCCCSEEEEESSTTTTHHHHHHHHHHHH---TCEE---EEEESGGGCC--
T ss_pred             ecCcHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCCCceECCCCchHHHHHHHHHHHh---CCCE---EEEEHHHhhh--
Confidence            34688988888877653    1         235788999999999999999999998   2222   3333222110  


Q ss_pred             HHHHHHHHHhCCCCccccCCChhHHHHHHH-HHhccCcEEEEEeccCCccc----------------cccccCCCC--CC
Q 048126          194 KIQEKIGRRIGFLDESWKNGSLEDKASDIL-RILSKKKFLLLLDDIWERVD----------------LTKVGVPFP--DP  254 (863)
Q Consensus       194 ~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~-~~l~~kr~LlVlDdv~~~~~----------------~~~~~~~l~--~~  254 (863)
                                  .   +.. ..+.....+. ..-+..+.+|++|+++....                ...+...+.  ..
T Consensus       255 ------------k---~vG-esek~ir~lF~~Ar~~aP~IIfiDEiDai~~~R~~~~~~~~~~~~~~l~~LL~~lDg~~~  318 (437)
T 4b4t_I          255 ------------K---YLG-DGPRLCRQIFKVAGENAPSIVFIDEIDAIGTKRYDSNSGGEREIQRTMLELLNQLDGFDD  318 (437)
T ss_dssp             ------------S---SSS-HHHHHHHHHHHHHHHTCSEEEEEEEESSSSCCCSCSSCSSCCHHHHHHHHHHHHHHHCCC
T ss_pred             ------------c---cCc-hHHHHHHHHHHHHHhcCCcEEEEehhhhhcccCCCCCCCccHHHHHHHHHHHHHhhCcCC
Confidence                        0   011 1112222222 22235689999999874210                001111111  12


Q ss_pred             CCCcEEEEecCchhhhh-cc----cccceEeecCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCCc
Q 048126          255 ENKSKIVFTTRFLEICG-AM----KAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGL  322 (863)
Q Consensus       255 ~~gs~IivTtR~~~v~~-~~----~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~gl  322 (863)
                      ..+..||.||-..+... .+    .-+..+.++.-+.++-.++|+.++.......+.++    ..|++.+.|.
T Consensus       319 ~~~ViVIaATNrpd~LDpALlRpGRfD~~I~v~lPd~~~R~~Il~~~l~~~~l~~dvdl----~~LA~~T~Gf  387 (437)
T 4b4t_I          319 RGDVKVIMATNKIETLDPALIRPGRIDRKILFENPDLSTKKKILGIHTSKMNLSEDVNL----ETLVTTKDDL  387 (437)
T ss_dssp             SSSEEEEEEESCSTTCCTTSSCTTTEEEEECCCCCCHHHHHHHHHHHHTTSCBCSCCCH----HHHHHHCCSC
T ss_pred             CCCEEEEEeCCChhhcCHHHhcCCceeEEEEcCCcCHHHHHHHHHHHhcCCCCCCcCCH----HHHHHhCCCC
Confidence            33455666776544321 11    12345778888888888888877654332222333    5566777665

>3hu3_A Transitional endoplasmic reticulum ATPase; VCP, transport protein; HET: AGS; 2.20A {Homo sapiens} PDB: 3hu2_A* 3hu1_A* 1e32_A* 1s3s_A*

Probab=97.48  E-value=0.00059  Score=75.91  Aligned_cols=177  Identities=12%  Similarity=0.124  Sum_probs=99.9

Q ss_pred             CCccchhHHHHHHHHHhcC-------------CCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCH
Q 048126          126 EPTVGLESMFDKVWRCLGE-------------EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQL  192 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~-------------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~  192 (863)
                      ..++|.+..+++|.+++..             ...+-|.|+|++|+|||++|+.+++..   ...   .+.+.++     
T Consensus       204 ~~i~G~~~~~~~l~~~i~~~l~~~~~~~~~g~~~~~~vLL~GppGtGKT~lAraia~~~---~~~---fv~vn~~-----  272 (489)
T 3hu3_A          204 DDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANET---GAF---FFLINGP-----  272 (489)
T ss_dssp             GGCCSCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCCEEEEECSTTSSHHHHHHHHHHHC---SSE---EEEEEHH-----
T ss_pred             HHcCCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCcEEEECcCCCCHHHHHHHHHHHh---CCC---EEEEEch-----
Confidence            3478999999999887742             344578899999999999999998876   222   2344321     


Q ss_pred             HHHHHHHHHHhCCCCccccCCChhHHHHHHHHHhccCcEEEEEeccCCccc-------------cccccCCCC--CCCCC
Q 048126          193 EKIQEKIGRRIGFLDESWKNGSLEDKASDILRILSKKKFLLLLDDIWERVD-------------LTKVGVPFP--DPENK  257 (863)
Q Consensus       193 ~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~-------------~~~~~~~l~--~~~~g  257 (863)
                       .    +...+       ...........+.....+++.+|+||+++....             ...+...+.  ....+
T Consensus       273 -~----l~~~~-------~g~~~~~~~~~f~~A~~~~p~iLfLDEId~l~~~~~~~~~~~~~~~~~~LL~~ld~~~~~~~  340 (489)
T 3hu3_A          273 -E----IMSKL-------AGESESNLRKAFEEAEKNAPAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQRAH  340 (489)
T ss_dssp             -H----HHTSC-------TTHHHHHHHHHHHHHHHTCSEEEEEESHHHHCBCTTSCCCHHHHHHHHHHHHHHHHSCTTSC
T ss_pred             -H----hhhhh-------cchhHHHHHHHHHHHHhcCCcEEEecchhhhccccccccchHHHHHHHHHHHHhhccccCCc
Confidence             1    11111       011112223334444456788999999942110             011111111  12234


Q ss_pred             cEEEEecCchhh-hhcc----cccceEeecCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCCc-hhHHHHH
Q 048126          258 SKIVFTTRFLEI-CGAM----KAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGL-PLALITI  329 (863)
Q Consensus       258 s~IivTtR~~~v-~~~~----~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~gl-Plai~~~  329 (863)
                      .+||.||..... ...+    .-...+.+...+.++-.+++...+.......+..+    .++++.+.|. +-.+..+
T Consensus       341 v~vIaaTn~~~~Ld~al~r~gRf~~~i~i~~P~~~eR~~IL~~~~~~~~l~~~~~l----~~la~~t~g~s~~dL~~L  414 (489)
T 3hu3_A          341 VIVMAATNRPNSIDPALRRFGRFDREVDIGIPDATGRLEILQIHTKNMKLADDVDL----EQVANETHGHVGADLAAL  414 (489)
T ss_dssp             EEEEEEESCGGGBCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHTTTSCBCTTCCH----HHHHHTCTTCCHHHHHHH
T ss_pred             eEEEEecCCccccCHHHhCCCcCceEEEeCCCCHHHHHHHHHHHHhcCCCcchhhH----HHHHHHccCCcHHHHHHH
Confidence            566666665432 1111    22346889999999999999988754332222233    4566666664 4444443

>1ofh_A ATP-dependent HSL protease ATP-binding subunit HSLU; chaperone, hydrolase, ATP-binding; HET: ADP; 2.5A {Haemophilus influenzae} SCOP: c.37.1.20 PDB: 1ofi_A*

Probab=97.47  E-value=0.0007  Score=71.05  Aligned_cols=46  Identities=22%  Similarity=0.213  Sum_probs=38.0

Q ss_pred             CCccchhHHHHHHHHHhcC--------------CCccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          126 EPTVGLESMFDKVWRCLGE--------------EQVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~--------------~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ..++|.+..++.+...+..              .....+.++|++|+|||++|+.+++..
T Consensus        15 ~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~l   74 (310)
T 1ofh_A           15 QHIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLA   74 (310)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHTTSSCHHHHHHCCCCCEEEECCTTSSHHHHHHHHHHHH
T ss_pred             hhcCChHHHHHHHHHHHHHHHhhhhhcccccccCCCceEEEECCCCCCHHHHHHHHHHHh
Confidence            3578999999998887743              234567899999999999999999887

>4b4t_K 26S protease regulatory subunit 6B homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.45  E-value=0.0019  Score=69.87  Aligned_cols=170  Identities=15%  Similarity=0.135  Sum_probs=90.1

Q ss_pred             CCccchhHHHHHHHHHhcC-------------CCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCH
Q 048126          126 EPTVGLESMFDKVWRCLGE-------------EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQL  192 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~-------------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~  192 (863)
                      +++.|.+..+++|.+.+.-             ...+-|.++|++|+|||++|+++++..   ...   .+.|..+.-.+ 
T Consensus       172 ~digGl~~~k~~l~e~v~~pl~~p~~~~~~g~~~prGiLL~GPPGtGKT~lakAiA~~~---~~~---~~~v~~~~l~~-  244 (428)
T 4b4t_K          172 ADVGGLDMQKQEIREAVELPLVQADLYEQIGIDPPRGVLLYGPPGTGKTMLVKAVANST---KAA---FIRVNGSEFVH-  244 (428)
T ss_dssp             GGSCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCCEEEEESCTTTTHHHHHHHHHHHH---TCE---EEEEEGGGTCC-
T ss_pred             HHhccHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCceEEEECCCCCCHHHHHHHHHHHh---CCC---eEEEecchhhc-
Confidence            3457899988888876631             245678899999999999999999988   222   23444332211 


Q ss_pred             HHHHHHHHHHhCCCCccccCCChhHHHHHHHHHhccCcEEEEEeccCCcc--------c--------cccccCCCC--CC
Q 048126          193 EKIQEKIGRRIGFLDESWKNGSLEDKASDILRILSKKKFLLLLDDIWERV--------D--------LTKVGVPFP--DP  254 (863)
Q Consensus       193 ~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~--------~--------~~~~~~~l~--~~  254 (863)
                                  .    +...+...+...+...-...+.+|++|+++...        .        ...+...+.  ..
T Consensus       245 ------------~----~~Ge~e~~ir~lF~~A~~~aP~IifiDEiD~i~~~R~~~~~~~~~~~~r~l~~lL~~ldg~~~  308 (428)
T 4b4t_K          245 ------------K----YLGEGPRMVRDVFRLARENAPSIIFIDEVDSIATKRFDAQTGSDREVQRILIELLTQMDGFDQ  308 (428)
T ss_dssp             ------------S----SCSHHHHHHHHHHHHHHHTCSEEEEEECTHHHHCSCSSSCSCCCCHHHHHHHHHHHHHHHSCS
T ss_pred             ------------c----ccchhHHHHHHHHHHHHHcCCCeeechhhhhhhccccCCCCCCChHHHHHHHHHHHHhhCCCC
Confidence                        0    011111111222222234568999999985310        0        111111111  12


Q ss_pred             CCCcEEEEecCchhh-----hhcccccceEeecCCChHHH-HHHHHHHhcccccCCCCChHHHHHHHHHHhCCc
Q 048126          255 ENKSKIVFTTRFLEI-----CGAMKAHEFLKVECLGPEDA-WRLFRENLRRDVLDNHPDIPELARSVAKEYAGL  322 (863)
Q Consensus       255 ~~gs~IivTtR~~~v-----~~~~~~~~~~~l~~L~~~e~-~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~gl  322 (863)
                      ..+..||.||...+.     .+...-+..+.++.++..++ ..+|+..+.......+.+    ...|++.+.|.
T Consensus       309 ~~~v~vI~aTN~~~~LD~AllRpGRfd~~I~~p~lPd~~~R~~Il~~~~~~~~l~~~~d----l~~lA~~t~G~  378 (428)
T 4b4t_K          309 STNVKVIMATNRADTLDPALLRPGRLDRKIEFPSLRDRRERRLIFGTIASKMSLAPEAD----LDSLIIRNDSL  378 (428)
T ss_dssp             SCSEEEEEEESCSSSCCHHHHSSSSEEEEEECCSSCCHHHHHHHHHHHHHSSCBCTTCC----HHHHHHHTTTC
T ss_pred             CCCEEEEEecCChhhcChhhhcCCcceEEEEcCCCCCHHHHHHHHHHHhcCCCCCcccC----HHHHHHHCCCC
Confidence            345566777765432     21112234567776755554 456665554332222223    35667777765

>2ce7_A Cell division protein FTSH; metalloprotease; HET: ADP; 2.44A {Thermotoga maritima} SCOP: a.269.1.1 c.37.1.20 PDB: 2cea_A* 3kds_E*

Probab=97.34  E-value=0.001  Score=73.42  Aligned_cols=171  Identities=16%  Similarity=0.149  Sum_probs=94.9

Q ss_pred             CCccchhHHHHHHHHHhc---CC---------CccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHH
Q 048126          126 EPTVGLESMFDKVWRCLG---EE---------QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLE  193 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~---~~---------~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~  193 (863)
                      .+++|.+..++++.+.+.   ..         -.+-|.|+|++|+|||+||+.+++..   ...|   +.++++.-... 
T Consensus        16 ~di~G~~~~~~~l~e~v~~l~~~~~~~~~g~~~p~gvLL~GppGtGKT~Laraia~~~---~~~f---~~is~~~~~~~-   88 (476)
T 2ce7_A           16 KDVGGAEEAIEELKEVVEFLKDPSKFNRIGARMPKGILLVGPPGTGKTLLARAVAGEA---NVPF---FHISGSDFVEL-   88 (476)
T ss_dssp             GGCCSCHHHHHHHHHHHHHHHCTHHHHTTTCCCCSEEEEECCTTSSHHHHHHHHHHHH---TCCE---EEEEGGGTTTC-
T ss_pred             HHhCCcHHHHHHHHHHHHHhhChHHHhhcCCCCCCeEEEECCCCCCHHHHHHHHHHHc---CCCe---eeCCHHHHHHH-
Confidence            457899988777766542   21         23458899999999999999999987   2222   33443322110 


Q ss_pred             HHHHHHHHHhCCCCccccCCChhHHHHHHHHHhccCcEEEEEeccCCccc----------------cccccCCCC--CCC
Q 048126          194 KIQEKIGRRIGFLDESWKNGSLEDKASDILRILSKKKFLLLLDDIWERVD----------------LTKVGVPFP--DPE  255 (863)
Q Consensus       194 ~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~----------------~~~~~~~l~--~~~  255 (863)
                               +       ...........+.......+.+|++|+++....                ...+...+.  ...
T Consensus        89 ---------~-------~g~~~~~~r~lf~~A~~~~p~ILfIDEid~l~~~r~~~~~g~~~~~~~~l~~LL~~ld~~~~~  152 (476)
T 2ce7_A           89 ---------F-------VGVGAARVRDLFAQAKAHAPCIVFIDEIDAVGRHRGAGLGGGHDEREQTLNQLLVEMDGFDSK  152 (476)
T ss_dssp             ---------C-------TTHHHHHHHHHHHHHHHTCSEEEEEETGGGTCCC---------CHHHHHHHHHHHHHHHSCGG
T ss_pred             ---------H-------hcccHHHHHHHHHHHHhcCCCEEEEechhhhhhhcccccCcCcHHHHHHHHHHHHHHhccCCC
Confidence                     0       000111222233444456789999999965210                111111110  112


Q ss_pred             CCcEEEEecCchhhhh-c-c---cccceEeecCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCCch
Q 048126          256 NKSKIVFTTRFLEICG-A-M---KAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGLP  323 (863)
Q Consensus       256 ~gs~IivTtR~~~v~~-~-~---~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glP  323 (863)
                      .+..||.||...+... . .   .-...+.++..+.++-.++++..+.........+    ...|++.+.|..
T Consensus       153 ~~viVIaaTn~~~~Ld~allR~gRFd~~i~i~~Pd~~~R~~Il~~~~~~~~l~~~v~----l~~la~~t~G~s  221 (476)
T 2ce7_A          153 EGIIVMAATNRPDILDPALLRPGRFDKKIVVDPPDMLGRKKILEIHTRNKPLAEDVN----LEIIAKRTPGFV  221 (476)
T ss_dssp             GTEEEEEEESCGGGSCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHHTTSCBCTTCC----HHHHHHTCTTCC
T ss_pred             CCEEEEEecCChhhhchhhcccCcceeEeecCCCCHHHHHHHHHHHHHhCCCcchhh----HHHHHHhcCCCc
Confidence            3566777776654421 1 1   1233678888888887888877665432121222    344777777766

>4b4t_M 26S protease regulatory subunit 6A; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.34  E-value=0.0013  Score=71.28  Aligned_cols=169  Identities=11%  Similarity=0.166  Sum_probs=93.9

Q ss_pred             CCccchhHHHHHHHHHhc----C---------CCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCH
Q 048126          126 EPTVGLESMFDKVWRCLG----E---------EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQL  192 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~----~---------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~  192 (863)
                      +++.|.+..+++|.+.+.    .         ...+-|-++|++|+|||.+|+++++..   ...   .+.|..+.-.+ 
T Consensus       181 ~digGl~~~k~~l~e~v~~pl~~pe~f~~~g~~~prGvLLyGPPGTGKTllAkAiA~e~---~~~---f~~v~~s~l~~-  253 (434)
T 4b4t_M          181 SDVGGLDKQIEELVEAIVLPMKRADKFKDMGIRAPKGALMYGPPGTGKTLLARACAAQT---NAT---FLKLAAPQLVQ-  253 (434)
T ss_dssp             GGSCSCHHHHHHHHHHTHHHHHCSHHHHHHCCCCCCEEEEESCTTSSHHHHHHHHHHHH---TCE---EEEEEGGGGCS-
T ss_pred             HhcCcHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCeeEEECcCCCCHHHHHHHHHHHh---CCC---EEEEehhhhhh-
Confidence            345799999988887652    1         245788899999999999999999988   222   23444332110 


Q ss_pred             HHHHHHHHHHhCCCCccccCCChhHHHHHH-HHHhccCcEEEEEeccCCc-------cc---------cccccCCCC--C
Q 048126          193 EKIQEKIGRRIGFLDESWKNGSLEDKASDI-LRILSKKKFLLLLDDIWER-------VD---------LTKVGVPFP--D  253 (863)
Q Consensus       193 ~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l-~~~l~~kr~LlVlDdv~~~-------~~---------~~~~~~~l~--~  253 (863)
                                   .   +... .+.....+ ...-...+++|++|+++..       ..         ...+...+.  .
T Consensus       254 -------------~---~vGe-se~~ir~lF~~A~~~aP~IifiDEiDal~~~R~~~~~~~~~~~~~~~~~lL~~ldg~~  316 (434)
T 4b4t_M          254 -------------M---YIGE-GAKLVRDAFALAKEKAPTIIFIDELDAIGTKRFDSEKSGDREVQRTMLELLNQLDGFS  316 (434)
T ss_dssp             -------------S---CSSH-HHHHHHHHHHHHHHHCSEEEEEECTHHHHCCCSSGGGGTTHHHHHHHHHHHHHHTTSC
T ss_pred             -------------c---ccch-HHHHHHHHHHHHHhcCCeEEeecchhhhhhccCCCCCCCchHHHHHHHHHHHHhhccC
Confidence                         0   0111 11122222 2222346899999998631       00         011111111  1


Q ss_pred             CCCCcEEEEecCchhhhh-cc----cccceEeecCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCCc
Q 048126          254 PENKSKIVFTTRFLEICG-AM----KAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGL  322 (863)
Q Consensus       254 ~~~gs~IivTtR~~~v~~-~~----~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~gl  322 (863)
                      ...+..||.||....... .+    .-+..+.++.-+.++-.++|+.++.......+-+    ...|++.+.|.
T Consensus       317 ~~~~ViVIaaTNrp~~LD~AllRpGRfD~~I~i~lPd~~~R~~Il~~~~~~~~~~~dvd----l~~lA~~t~G~  386 (434)
T 4b4t_M          317 SDDRVKVLAATNRVDVLDPALLRSGRLDRKIEFPLPSEDSRAQILQIHSRKMTTDDDIN----WQELARSTDEF  386 (434)
T ss_dssp             SSCSSEEEEECSSCCCCCTTTCSTTSEEEEEECCCCCHHHHHHHHHHHHHHSCBCSCCC----HHHHHHHCSSC
T ss_pred             CCCCEEEEEeCCCchhcCHhHhcCCceeEEEEeCCcCHHHHHHHHHHHhcCCCCCCcCC----HHHHHHhCCCC
Confidence            223445666776544321 11    2345678888888888888877665432222223    35667777764

>4fcw_A Chaperone protein CLPB; AAA domain; HET: ADP; 2.35A {Thermus thermophilus} PDB: 4fcv_A* 4fd2_A* 4fct_A*

Probab=97.33  E-value=0.00069  Score=71.17  Aligned_cols=61  Identities=21%  Similarity=0.346  Sum_probs=43.9

Q ss_pred             CCccchhHHHHHHHHHhcCC---------CccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCc
Q 048126          126 EPTVGLESMFDKVWRCLGEE---------QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKD  189 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~---------~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~  189 (863)
                      ..++|.+..++.+...+...         ....+.++|++|+|||++|+.+++...   ..-...+.+.++..
T Consensus        17 ~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~ll~G~~GtGKt~la~~la~~~~---~~~~~~~~~~~~~~   86 (311)
T 4fcw_A           17 KRVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATLF---DTEEAMIRIDMTEY   86 (311)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHTCSCTTSCSEEEEEESCSSSSHHHHHHHHHHHHH---SCGGGEEEEEGGGC
T ss_pred             hhcCCHHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCCcCHHHHHHHHHHHHc---CCCcceEEeecccc
Confidence            34789999988888877532         135799999999999999999998862   11123455665543

>1r6b_X CLPA protein; AAA+, N-terminal domain, CLPS, crystal, binding mechanism, hydrolase; HET: ADP; 2.25A {Escherichia coli} SCOP: a.174.1.1 c.37.1.20 c.37.1.20 PDB: 1ksf_X*

Probab=97.33  E-value=0.0014  Score=78.11  Aligned_cols=154  Identities=16%  Similarity=0.258  Sum_probs=89.7

Q ss_pred             CCccchhHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHhhhcCCC---CCCCEEEE-EEeCCccCHHHHHHHHHH
Q 048126          126 EPTVGLESMFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAP---NDFDVVIW-VVVSKDLQLEKIQEKIGR  201 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~---~~F~~~~w-v~~s~~~~~~~~~~~i~~  201 (863)
                      .++|||+.+++.+.+.|......-+.++|.+|+|||++|+.+++......   ......+| +.++.-            
T Consensus       186 d~~iGr~~~i~~l~~~l~~~~~~~vlL~G~~GtGKT~la~~la~~l~~~~v~~~~~~~~~~~~~~~~l------------  253 (758)
T 1r6b_X          186 DPLIGREKELERAIQVLCRRRKNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIGSL------------  253 (758)
T ss_dssp             CCCCSCHHHHHHHHHHHTSSSSCEEEEECCTTSSHHHHHHHHHHHHHHTCSCGGGTTCEEEECCCC--------------
T ss_pred             CCccCCHHHHHHHHHHHhccCCCCeEEEcCCCCCHHHHHHHHHHHHHhCCCChhhcCCEEEEEcHHHH------------
Confidence            46799999999999999876667788999999999999999998762100   01222222 111110            


Q ss_pred             HhCCCCccccCCChhHHHHHHHHHhc-cCcEEEEEeccCCcc--------c---cccccCCCCCCCCCcEEEEecCchhh
Q 048126          202 RIGFLDESWKNGSLEDKASDILRILS-KKKFLLLLDDIWERV--------D---LTKVGVPFPDPENKSKIVFTTRFLEI  269 (863)
Q Consensus       202 ~l~~~~~~~~~~~~~~~~~~l~~~l~-~kr~LlVlDdv~~~~--------~---~~~~~~~l~~~~~gs~IivTtR~~~v  269 (863)
                       +...  . .....+.....+.+.+. .++.+|++||++...        .   ...+...+.  ..+.++|.+|.....
T Consensus       254 -~~~~--~-~~g~~e~~l~~~~~~~~~~~~~iL~IDEi~~l~~~~~~~~~~~~~~~~L~~~l~--~~~~~~I~at~~~~~  327 (758)
T 1r6b_X          254 -LAGT--K-YRGDFEKRFKALLKQLEQDTNSILFIDEIHTIIGAGAASGGQVDAANLIKPLLS--SGKIRVIGSTTYQEF  327 (758)
T ss_dssp             --CCC--C-CSSCHHHHHHHHHHHHSSSSCEEEEETTTTTTTTSCCSSSCHHHHHHHHSSCSS--SCCCEEEEEECHHHH
T ss_pred             -hccc--c-ccchHHHHHHHHHHHHHhcCCeEEEEechHHHhhcCCCCcchHHHHHHHHHHHh--CCCeEEEEEeCchHH
Confidence             0000  0 11223333333433333 357899999997531        1   111222222  234566766665442


Q ss_pred             hhc-------ccccceEeecCCChHHHHHHHHHHh
Q 048126          270 CGA-------MKAHEFLKVECLGPEDAWRLFRENL  297 (863)
Q Consensus       270 ~~~-------~~~~~~~~l~~L~~~e~~~lf~~~~  297 (863)
                      ...       ......+.++..+.++..+++...+
T Consensus       328 ~~~~~~d~aL~~Rf~~i~v~~p~~~e~~~il~~l~  362 (758)
T 1r6b_X          328 SNIFEKDRALARRFQKIDITEPSIEETVQIINGLK  362 (758)
T ss_dssp             HCCCCCTTSSGGGEEEEECCCCCHHHHHHHHHHHH
T ss_pred             hhhhhcCHHHHhCceEEEcCCCCHHHHHHHHHHHH
Confidence            111       1112357899999999998887654

>2bjv_A PSP operon transcriptional activator; AAA, transcription activation, gene regulation, sigma54 activator, enhancer binding protein, PSPF; 1.7A {Escherichia coli} PDB: 2bjw_A 2c96_A* 2c98_A* 2c99_A* 2c9c_A* 2vii_A*

Probab=97.23  E-value=0.0007  Score=69.27  Aligned_cols=60  Identities=13%  Similarity=0.122  Sum_probs=39.7

Q ss_pred             CCccchhHHHHHHHHHhcC--CCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCC
Q 048126          126 EPTVGLESMFDKVWRCLGE--EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSK  188 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~--~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~  188 (863)
                      +.+||.+..+.++.+.+..  .....|.|+|..|+|||++|+.+++...+  .. ...+.++++.
T Consensus         6 ~~~ig~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKt~la~~i~~~~~~--~~-~~~~~v~~~~   67 (265)
T 2bjv_A            6 DNLLGEANSFLEVLEQVSHLAPLDKPVLIIGERGTGKELIASRLHYLSSR--WQ-GPFISLNCAA   67 (265)
T ss_dssp             ----CCCHHHHHHHHHHHHHTTSCSCEEEECCTTSCHHHHHHHHHHTSTT--TT-SCEEEEEGGG
T ss_pred             ccceeCCHHHHHHHHHHHHHhCCCCCEEEECCCCCcHHHHHHHHHHhcCc--cC-CCeEEEecCC
Confidence            4578999988888776642  23356779999999999999999987621  11 2245566554

>2c9o_A RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-binding, chromatin regulator, growth regulation, hydrolase, nuclear protein, DNA recombination; HET: ADP; 2.2A {Homo sapiens} PDB: 2xsz_A*

Probab=97.16  E-value=0.0029  Score=70.18  Aligned_cols=46  Identities=26%  Similarity=0.231  Sum_probs=36.1

Q ss_pred             CCccchhHHHHHHHHHh---cCC--CccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          126 EPTVGLESMFDKVWRCL---GEE--QVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L---~~~--~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ..++|.+..++.+..++   ..+  ..+-+.++|++|+|||++|+.+++..
T Consensus        37 ~~iiG~~~~~~~l~~~~~~~~~~~~~~~~iLl~GppGtGKT~la~ala~~l   87 (456)
T 2c9o_A           37 SGLVGQENAREACGVIVELIKSKKMAGRAVLLAGPPGTGKTALALAIAQEL   87 (456)
T ss_dssp             TTEESCHHHHHHHHHHHHHHHTTCCTTCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             hhccCHHHHHHHHHHHHHHHHhCCCCCCeEEEECCCcCCHHHHHHHHHHHh
Confidence            56899998887655444   333  23578899999999999999999887

>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic; photosynthesis, rubisco activase, AAA+ protein; 2.95A {Nicotiana tabacum} PDB: 3zw6_A

Probab=97.05  E-value=0.0066  Score=62.85  Aligned_cols=26  Identities=27%  Similarity=0.383  Sum_probs=23.4

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ..+.+.++|++|+|||+||+.+++..
T Consensus        35 ~p~~lLl~GppGtGKT~la~aiA~~l   60 (293)
T 3t15_A           35 VPLILGIWGGKGQGKSFQCELVFRKM   60 (293)
T ss_dssp             CCSEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            34678899999999999999999987

>1ojl_A Transcriptional regulatory protein ZRAR; response regulator, two component system, AAA domain, NTRC family, DNA-binding; HET: ATP; 3.0A {Salmonella typhimurium}

Probab=97.01  E-value=0.00087  Score=69.94  Aligned_cols=45  Identities=11%  Similarity=0.168  Sum_probs=37.1

Q ss_pred             CccchhHHHHHHHHHhcC--CCccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          127 PTVGLESMFDKVWRCLGE--EQVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       127 ~~vGr~~~~~~l~~~L~~--~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      .++|+...+.++.+.+..  .....|.|+|..|+|||++|+.+++..
T Consensus         3 ~iig~s~~~~~~~~~~~~~a~~~~~vLi~Ge~GtGKt~lAr~i~~~~   49 (304)
T 1ojl_A            3 HMIGSSPAMQHLLNEIAMVAPSDATVLIHGDSGTGKELVARALHACS   49 (304)
T ss_dssp             CCCCCSHHHHHHHHHHHHHCSTTSCEEEESCTTSCHHHHHHHHHHHS
T ss_pred             CcEECCHHHHHHHHHHHHHhCCCCcEEEECCCCchHHHHHHHHHHhC
Confidence            578999999988887753  334567799999999999999999865

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=96.97  E-value=0.00093  Score=79.49  Aligned_cols=60  Identities=22%  Similarity=0.361  Sum_probs=43.2

Q ss_pred             CCccchhHHHHHHHHHhcCC---------CccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCC
Q 048126          126 EPTVGLESMFDKVWRCLGEE---------QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSK  188 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~---------~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~  188 (863)
                      ..++|.+..++.+.+.+...         ....+.++|++|+|||++|+.+++...   ..-...+.+.++.
T Consensus       491 ~~viGq~~a~~~l~~~i~~~~~~~~~~~~p~~~~Ll~Gp~GtGKT~lA~ala~~l~---~~~~~~i~i~~s~  559 (758)
T 3pxi_A          491 SRVIGQDEAVVAVAKAVRRARAGLKDPKRPIGSFIFLGPTGVGKTELARALAESIF---GDEESMIRIDMSE  559 (758)
T ss_dssp             TTSCSCHHHHHHHHHHHHHHTTTCSCTTSCSEEEEEESCTTSSHHHHHHHHHHHHH---SCTTCEEEEEGGG
T ss_pred             CcCcChHHHHHHHHHHHHHHHcccCCCCCCceEEEEECCCCCCHHHHHHHHHHHhc---CCCcceEEEechh
Confidence            45789999998888887521         123689999999999999999998862   2222345566544

>2kjq_A DNAA-related protein; solution structure, NESG, structural genomics, PSI-2, protei structure initiative; NMR {Neisseria meningitidis serogroup B}

Probab=96.96  E-value=0.00035  Score=64.29  Aligned_cols=39  Identities=21%  Similarity=0.275  Sum_probs=29.2

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeC
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVS  187 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s  187 (863)
                      .-..++|+|..|+|||||++.++.... . ..+ .++++...
T Consensus        35 ~g~~~~l~G~~G~GKTtL~~~i~~~~~-~-~g~-~~~~~~~~   73 (149)
T 2kjq_A           35 HGQFIYVWGEEGAGKSHLLQAWVAQAL-E-AGK-NAAYIDAA   73 (149)
T ss_dssp             CCSEEEEESSSTTTTCHHHHHHHHHHH-T-TTC-CEEEEETT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHHH-h-cCC-cEEEEcHH
Confidence            456899999999999999999999873 2 222 25666544

>4h09_A Hypothetical leucine rich repeat protein; two LRR_5 domains, PF13306 family, structural genomics, JOIN for structural genomics, JCSG; 2.50A {Eubacterium ventriosum}

Probab=96.89  E-value=0.0089  Score=64.58  Aligned_cols=121  Identities=9%  Similarity=0.142  Sum_probs=66.9

Q ss_pred             ccceEEEEeccccccccc--cCCCCCccceEEccCCccccccchhhhcCCCccEEEccCCCccccCCccccccCCCCeEE
Q 048126          493 WRNVRRMSLMKNKIENLS--ETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLD  570 (863)
Q Consensus       493 ~~~lr~L~l~~~~~~~l~--~~~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~  570 (863)
                      ..+++.+.+.. .+..+.  .+.+|.+|+.+.+..+ ++.+....|.++ .|..+.+..+  +..++.......+|+.+.
T Consensus        45 ~~~i~~v~ip~-~vt~Ig~~aF~~C~~L~~I~lp~~-v~~Ig~~aF~~c-~l~~i~~~~~--l~~I~~~aF~~~~L~~i~  119 (379)
T 4h09_A           45 RDRISEVRVNS-GITSIGEANFNSCYNMTKVTVAST-VTSIGDGAFADT-KLQSYTGMER--VKKFGDYVFQGTDLDDFE  119 (379)
T ss_dssp             GGGCSEEEECT-TEEEECTTTTTTCTTCCEEEECTT-CCEECTTTTTTC-CCCEEEECTT--CCEECTTTTTTCCCSEEE
T ss_pred             ccCCEEEEeCC-CccChHHHHhhCCCCCCEEEeCCc-ceEechhhhcCC-CCceEECCce--eeEeccceeccCCccccc
Confidence            34677776653 344442  3577888888888644 677777777777 4666655443  223333333334677777


Q ss_pred             ccCCCccccchhhhcCCCCCEEecCCccccCCCcHHHhhcCCCCcEEEeec
Q 048126          571 LSGTAITHLPIELQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRILK  621 (863)
Q Consensus       571 L~~~~l~~lp~~~~~l~~L~~L~l~~~~~l~~lp~~~~~~L~~L~~L~l~~  621 (863)
                      +..+ +..+....-.-.+|..+.+..  .++.+....+..+.+|+.+.+..
T Consensus       120 lp~~-~~~i~~~~F~~~~l~~~~~~~--~v~~i~~~~f~~~~~l~~~~~~~  167 (379)
T 4h09_A          120 FPGA-TTEIGNYIFYNSSVKRIVIPK--SVTTIKDGIGYKAENLEKIEVSS  167 (379)
T ss_dssp             CCTT-CCEECTTTTTTCCCCEEEECT--TCCEECSCTTTTCTTCCEEEECT
T ss_pred             CCCc-cccccccccccceeeeeeccc--eeeccccchhccccccccccccc
Confidence            7654 333433322223555555543  23444444455666666665543

>3m6a_A ATP-dependent protease LA 1; alpha, beta, ATP-binding, hydrolase, nucleotide-binding, Pro serine protease, stress response; HET: ADP; 3.40A {Bacillus subtilis} PDB: 1x37_A

Probab=96.83  E-value=0.0054  Score=69.46  Aligned_cols=45  Identities=33%  Similarity=0.450  Sum_probs=35.0

Q ss_pred             CccchhHHHHHHHHHhc------CCCccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          127 PTVGLESMFDKVWRCLG------EEQVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       127 ~~vGr~~~~~~l~~~L~------~~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      .++|.+...+.+.+.+.      ......+.++|++|+||||||+.++...
T Consensus        82 di~G~~~vk~~i~~~~~l~~~~~~~~g~~vll~Gp~GtGKTtlar~ia~~l  132 (543)
T 3m6a_A           82 EHHGLEKVKERILEYLAVQKLTKSLKGPILCLAGPPGVGKTSLAKSIAKSL  132 (543)
T ss_dssp             HCSSCHHHHHHHHHHHHHHHHSSSCCSCEEEEESSSSSSHHHHHHHHHHHH
T ss_pred             HhccHHHHHHHHHHHHHHHHhcccCCCCEEEEECCCCCCHHHHHHHHHHhc
Confidence            36788877777655442      1245689999999999999999999887

>3cf2_A TER ATPase, transitional endoplasmic reticulum ATPase, valosi; AAA, CDC48, ERAD, transport protein; HET: ADP ANP; 3.50A {Mus musculus} PDB: 3cf1_A* 3cf3_A* 1r7r_A*

Probab=96.82  E-value=0.0056  Score=71.58  Aligned_cols=170  Identities=13%  Similarity=0.109  Sum_probs=94.2

Q ss_pred             CccchhHHHHHHHHHhc----C---------CCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHH
Q 048126          127 PTVGLESMFDKVWRCLG----E---------EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLE  193 (863)
Q Consensus       127 ~~vGr~~~~~~l~~~L~----~---------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~  193 (863)
                      ++.|.+..+++|.+.+.    .         ...+-|.++|++|+|||+||+.+++..   ..+   .+.|..+.     
T Consensus       205 dIgGl~~~~~~l~e~v~~pl~~p~~f~~~g~~~p~GILL~GPPGTGKT~LAraiA~el---g~~---~~~v~~~~-----  273 (806)
T 3cf2_A          205 DIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANET---GAF---FFLINGPE-----  273 (806)
T ss_dssp             GCCSCCTTHHHHHHHHHHHHHCCGGGTSCCCCCCCEEEEECCTTSCHHHHHHHHHTTT---TCE---EEEEEHHH-----
T ss_pred             hhcCHHHHHHHHHHHHHHHccCHHHHhhcCCCCCCeEEEECCCCCCHHHHHHHHHHHh---CCe---EEEEEhHH-----
Confidence            34688888887777652    1         235678999999999999999999887   222   24443221     


Q ss_pred             HHHHHHHHHhCCCCccccCCChhHHHHHHHHHhccCcEEEEEeccCCcc--------c-----cccccCCCC--CCCCCc
Q 048126          194 KIQEKIGRRIGFLDESWKNGSLEDKASDILRILSKKKFLLLLDDIWERV--------D-----LTKVGVPFP--DPENKS  258 (863)
Q Consensus       194 ~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~--------~-----~~~~~~~l~--~~~~gs  258 (863)
                       +    ..   ..    .......+...+....+..+.+|++|+++...        .     ...+...+.  ....+.
T Consensus       274 -l----~s---k~----~gese~~lr~lF~~A~~~~PsIIfIDEiDal~~~r~~~~~~~~~riv~~LL~~mdg~~~~~~V  341 (806)
T 3cf2_A          274 -I----MS---KL----AGESESNLRKAFEEAEKNAPAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQRAHV  341 (806)
T ss_dssp             -H----HS---SC----TTHHHHHHHHHHHHHTTSCSEEEEEESGGGTCCTTTTCCCTTHHHHHHHHHTHHHHCCGGGCE
T ss_pred             -h----hc---cc----chHHHHHHHHHHHHHHHcCCeEEEEehhcccccccCCCCChHHHHHHHHHHHHHhcccccCCE
Confidence             1    10   00    11112223333334445678999999986421        0     011111110  111234


Q ss_pred             EEEEecCchhh-hhcc----cccceEeecCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCCch
Q 048126          259 KIVFTTRFLEI-CGAM----KAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGLP  323 (863)
Q Consensus       259 ~IivTtR~~~v-~~~~----~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glP  323 (863)
                      .||.||...+. -..+    .-...+.++.-+.++=.++|+..........+.+    ...|++++.|.-
T Consensus       342 ~VIaaTN~~d~LD~ALrR~GRFd~~I~i~~Pd~~~R~~IL~~~l~~~~~~~dvd----l~~lA~~T~Gfs  407 (806)
T 3cf2_A          342 IVMAATNRPNSIDPALRRFGRFDREVDIGIPDATGRLEILQIHTKNMKLADDVD----LEQVANETHGHV  407 (806)
T ss_dssp             EEEEECSSTTTSCTTTTSTTSSCEEEECCCCCHHHHHHHHHHTCSSSEECTTCC----HHHHHHHCCSCC
T ss_pred             EEEEecCChhhcCHHHhCCcccceEEecCCCCHHHHHHHHHHHhcCCCCCcccC----HHHHHHhcCCCC
Confidence            45556654432 1111    1234678888888888888887765433222233    356777777764

>2dhr_A FTSH; AAA+ protein, hexameric Zn metalloprotease, hydrolase; HET: ADP; 3.90A {Thermus thermophilus}

Probab=96.81  E-value=0.015  Score=64.57  Aligned_cols=167  Identities=16%  Similarity=0.152  Sum_probs=89.9

Q ss_pred             CCccchhHHHHHHHHHhc---CC---------CccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHH
Q 048126          126 EPTVGLESMFDKVWRCLG---EE---------QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLE  193 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~---~~---------~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~  193 (863)
                      .+++|.+..++++.+...   ..         -.+-+.|+|++|+||||||+.++...   ...   .+.++.+.-.+  
T Consensus        31 ~dv~G~~~~k~~l~~lv~~l~~~~~~~~lg~~ip~GvLL~GppGtGKTtLaraIa~~~---~~~---~i~i~g~~~~~--  102 (499)
T 2dhr_A           31 KDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEA---RVP---FITASGSDFVE--  102 (499)
T ss_dssp             TSSCSCHHHHHHHHHHHHHHHCGGGTTTTSCCCCSEEEEECSSSSSHHHHHHHHHHHT---TCC---EEEEEGGGGTS--
T ss_pred             HHcCCcHHHHHHHHHHHHHhhchhhhhhccCCCCceEEEECCCCCCHHHHHHHHHHHh---CCC---EEEEehhHHHH--
Confidence            568899887777665542   21         12348999999999999999999886   222   34444332110  


Q ss_pred             HHHHHHHHHhCCCCccccCCChhHHHHHHHHHhcc----CcEEEEEeccCCccc----------------cccccCCCCC
Q 048126          194 KIQEKIGRRIGFLDESWKNGSLEDKASDILRILSK----KKFLLLLDDIWERVD----------------LTKVGVPFPD  253 (863)
Q Consensus       194 ~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~----kr~LlVlDdv~~~~~----------------~~~~~~~l~~  253 (863)
                                         .........+...++.    .+.++++|+++....                ...+...+..
T Consensus       103 -------------------~~~g~~~~~v~~lfq~a~~~~p~il~IDEId~l~~~r~~~~~~~~~e~~~~l~~LL~~Ldg  163 (499)
T 2dhr_A          103 -------------------MFVGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDG  163 (499)
T ss_dssp             -------------------SCTTHHHHHHHHHTTTSSSSSSCEEEEECGGGTCCCSSSSTTTSSHHHHHHHHHHHHHGGG
T ss_pred             -------------------hhhhhHHHHHHHHHHHHHhcCCCEEEEehHHHHHHhhccCcCCCcHHHHHHHHHHHHHhcc
Confidence                               0011112223333332    357999999964210                0111111111


Q ss_pred             --CCCCcEEEEecCchhhhhc--c---cccceEeecCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCCch
Q 048126          254 --PENKSKIVFTTRFLEICGA--M---KAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGLP  323 (863)
Q Consensus       254 --~~~gs~IivTtR~~~v~~~--~---~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glP  323 (863)
                        ...+..|+.||....+...  .   .-...+.++..+.++-.++++..+.......+..    ...|++.+.|..
T Consensus       164 ~~~~~~viviAatn~p~~LD~aLlr~gRfdr~i~i~~Pd~~~R~~IL~~~~~~~~l~~dv~----l~~lA~~t~G~~  236 (499)
T 2dhr_A          164 FEKDTAIVVMAATNRPDILDPALLRPGRFDRQIAIDAPDVKGREQILRIHARGKPLAEDVD----LALLAKRTPGFV  236 (499)
T ss_dssp             CCSSCCCEEEECCSCGGGSCTTTSSTTSSCCEEECCCCCHHHHHHHHHHTTSSSCCCCSST----THHHHTTSCSCC
T ss_pred             cccCccEEEEEecCChhhcCcccccccccceEEecCCCCHHHHHHHHHHHHhcCCCChHHH----HHHHHHhcCCCC
Confidence              1233455666666554221  1   1234678888888888888876654322111112    344666666654

>3co5_A Putative two-component system transcriptional RES regulator; structural genomics, APC89341.1; 2.40A {Neisseria gonorrhoeae}

Probab=96.81  E-value=0.00084  Score=61.31  Aligned_cols=45  Identities=13%  Similarity=0.118  Sum_probs=34.0

Q ss_pred             CccchhHHHHHHHHHhcC--CCccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          127 PTVGLESMFDKVWRCLGE--EQVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       127 ~~vGr~~~~~~l~~~L~~--~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      .++|++..++++.+.+..  ....-|.|+|..|+|||++|+.+++..
T Consensus         5 ~~iG~s~~~~~l~~~~~~~~~~~~~vll~G~~GtGKt~lA~~i~~~~   51 (143)
T 3co5_A            5 DKLGNSAAIQEMNREVEAAAKRTSPVFLTGEAGSPFETVARYFHKNG   51 (143)
T ss_dssp             ---CCCHHHHHHHHHHHHHHTCSSCEEEEEETTCCHHHHHGGGCCTT
T ss_pred             CceeCCHHHHHHHHHHHHHhCCCCcEEEECCCCccHHHHHHHHHHhC
Confidence            468999988888887753  233457799999999999999998765

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens}

Probab=96.72  E-value=0.027  Score=57.53  Aligned_cols=149  Identities=16%  Similarity=0.141  Sum_probs=80.3

Q ss_pred             CCccchhHHHHHHHHHhcC-------------CCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCH
Q 048126          126 EPTVGLESMFDKVWRCLGE-------------EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQL  192 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~-------------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~  192 (863)
                      .++.|.++.+++|.+.+..             .-.+-+.++|++|+||||||+.++... .  .   ..+++..+.-.+.
T Consensus        10 ~di~g~~~~~~~l~~~i~~~~~~~~~l~~~~l~~~~GvlL~Gp~GtGKTtLakala~~~-~--~---~~i~i~g~~l~~~   83 (274)
T 2x8a_A           10 ADIGALEDIREELTMAILAPVRNPDQFKALGLVTPAGVLLAGPPGCGKTLLAKAVANES-G--L---NFISVKGPELLNM   83 (274)
T ss_dssp             --CCHHHHHHHHHHHHHTHHHHSHHHHHHTTCCCCSEEEEESSTTSCHHHHHHHHHHHT-T--C---EEEEEETTTTCSS
T ss_pred             HHhCCHHHHHHHHHHHHHHHhhCHHHHHHcCCCCCCeEEEECCCCCcHHHHHHHHHHHc-C--C---CEEEEEcHHHHhh
Confidence            4567888888887765421             112339999999999999999999876 2  1   2344443221110


Q ss_pred             HHHHHHHHHHhCCCCccccCCChhHHHHHHHHHh-ccCcEEEEEeccCCccc---------c----ccccCCCCC--CCC
Q 048126          193 EKIQEKIGRRIGFLDESWKNGSLEDKASDILRIL-SKKKFLLLLDDIWERVD---------L----TKVGVPFPD--PEN  256 (863)
Q Consensus       193 ~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l-~~kr~LlVlDdv~~~~~---------~----~~~~~~l~~--~~~  256 (863)
                                        ...........+.+.. ...+.++++|+++....         .    ..+...+..  ...
T Consensus        84 ------------------~~~~~~~~i~~vf~~a~~~~p~i~~~Deid~~~~~r~~~~~~~~~~~~~~~l~~Lsgg~~~~  145 (274)
T 2x8a_A           84 ------------------YVGESERAVRQVFQRAKNSAPCVIFFDEVDALCPRRSDRETGASVRVVNQLLTEMDGLEARQ  145 (274)
T ss_dssp             ------------------TTHHHHHHHHHHHHHHHHTCSEEEEEETCTTTCC---------CTTHHHHHHHHHHTCCSTT
T ss_pred             ------------------hhhHHHHHHHHHHHHHHhcCCCeEeeehhhhhhcccCCCcchHHHHHHHHHHHhhhcccccC
Confidence                              0000011122222222 34578999999864210         0    001001111  112


Q ss_pred             CcEEEEecCchhhhhc-----ccccceEeecCCChHHHHHHHHHHhc
Q 048126          257 KSKIVFTTRFLEICGA-----MKAHEFLKVECLGPEDAWRLFRENLR  298 (863)
Q Consensus       257 gs~IivTtR~~~v~~~-----~~~~~~~~l~~L~~~e~~~lf~~~~~  298 (863)
                      ..-++.+|....+...     ..-+..+.++..+.++-.++|+....
T Consensus       146 ~~i~ia~tn~p~~LD~al~r~gRfd~~i~~~~P~~~~r~~il~~~~~  192 (274)
T 2x8a_A          146 QVFIMAATNRPDIIDPAILRPGRLDKTLFVGLPPPADRLAILKTITK  192 (274)
T ss_dssp             CEEEEEEESCGGGSCHHHHSTTSSCEEEECCSCCHHHHHHHHHHHTT
T ss_pred             CEEEEeecCChhhCCHhhcCcccCCeEEEeCCcCHHHHHHHHHHHHh
Confidence            3445566666554211     12345678888888888889887764

>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 3.20A {Thermus thermophilus} SCOP: c.37.1.20

Probab=96.61  E-value=0.014  Score=60.00  Aligned_cols=170  Identities=16%  Similarity=0.156  Sum_probs=86.5

Q ss_pred             CCccchhHHHHHHHHHhc---C---------CCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHH
Q 048126          126 EPTVGLESMFDKVWRCLG---E---------EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLE  193 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~---~---------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~  193 (863)
                      ++++|.+..++++.+...   .         .-.+-+.|+|+.|+||||||+.++...   ..   ..+.+...      
T Consensus        40 ~~i~g~~~~~~~l~~l~~~~~~~~~l~~~~~~~~~gvll~Gp~GtGKTtl~~~i~~~~---~~---~~i~~~~~------  107 (278)
T 1iy2_A           40 KDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEA---RV---PFITASGS------  107 (278)
T ss_dssp             GGSSSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCCEEEEECCTTSSHHHHHHHHHHHT---TC---CEEEEEHH------
T ss_pred             HHhCChHHHHHHHHHHHHHHHCHHHHHHcCCCCCCeEEEECCCcChHHHHHHHHHHHc---CC---CEEEecHH------
Confidence            457898877766655432   1         112238999999999999999999886   22   22333221      


Q ss_pred             HHHHHHHHHhCCCCccccCCChhHHHHHHHHH-hccCcEEEEEeccCCcc------------c----cccccCCCCCCC-
Q 048126          194 KIQEKIGRRIGFLDESWKNGSLEDKASDILRI-LSKKKFLLLLDDIWERV------------D----LTKVGVPFPDPE-  255 (863)
Q Consensus       194 ~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~-l~~kr~LlVlDdv~~~~------------~----~~~~~~~l~~~~-  255 (863)
                      .+    .... .       .........+.+. -...+.++|+|+++...            .    ...+...+..+. 
T Consensus       108 ~~----~~~~-~-------~~~~~~i~~~~~~~~~~~~~i~~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~lsgg~~  175 (278)
T 1iy2_A          108 DF----VEMF-V-------GVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEK  175 (278)
T ss_dssp             HH----HHST-T-------THHHHHHHHHHHHHHTSCSEEEEEETHHHHHCC--------CHHHHHHHHHHHHHHTTCCT
T ss_pred             HH----HHHH-h-------hHHHHHHHHHHHHHHhcCCcEEehhhhHhhhcccccccCCcchHHHHHHHHHHHHHhCCCC
Confidence            11    1100 0       0001112222222 22456899999995310            0    111111122111 


Q ss_pred             -CCcEEEEecCchhhh-----hcccccceEeecCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCCch
Q 048126          256 -NKSKIVFTTRFLEIC-----GAMKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGLP  323 (863)
Q Consensus       256 -~gs~IivTtR~~~v~-----~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glP  323 (863)
                       ....++.||....+.     ....-...+.++..+.++-.+++...+..........    ...+++.+.|..
T Consensus       176 ~~~~i~~a~t~~p~~ld~~l~r~~rf~~~i~i~~p~~~~r~~il~~~~~~~~~~~~~~----~~~la~~~~G~~  245 (278)
T 1iy2_A          176 DTAIVVMAATNRPDILDPALLRPGRFDRQIAIDAPDVKGREQILRIHARGKPLAEDVD----LALLAKRTPGFV  245 (278)
T ss_dssp             TCCEEEEEEESCTTSSCHHHHSTTSSCCEEECCCCCHHHHHHHHHHHHTTSCBCTTCC----HHHHHHTCTTCC
T ss_pred             CCCEEEEEecCCchhCCHhHcCCCcCCeEEEeCCcCHHHHHHHHHHHHccCCCCcccC----HHHHHHHcCCCC
Confidence             223344555554432     1112345678888888888888877654322111122    334666666643

>1ixz_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 2.20A {Thermus thermophilus} SCOP: c.37.1.20 PDB: 1iy0_A* 1iy1_A*

Probab=96.57  E-value=0.014  Score=58.98  Aligned_cols=46  Identities=22%  Similarity=0.233  Sum_probs=33.3

Q ss_pred             CCccchhHHHHHHHHHhc---C---------CCccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          126 EPTVGLESMFDKVWRCLG---E---------EQVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~---~---------~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ++++|.+..+.++.+...   .         .-.+-+.|+|+.|+||||||+.++...
T Consensus        16 ~~i~g~~~~~~~l~~l~~~~~~~~~~~~~~~~~~~g~ll~G~~G~GKTtl~~~i~~~~   73 (254)
T 1ixz_A           16 KDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEA   73 (254)
T ss_dssp             GGCCSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCSEEEEECCTTSSHHHHHHHHHHHT
T ss_pred             HHhCCcHHHHHHHHHHHHHHHCHHHHHHcCCCCCCeEEEECCCCCCHHHHHHHHHHHh
Confidence            457888876666554432   1         112338999999999999999999886

>3hr8_A Protein RECA; alpha and beta proteins (A/B, A+B), ATP-binding, cytoplasm, damage, DNA recombination, DNA repair, DNA-binding; 1.95A {Thermotoga maritima}

Probab=96.54  E-value=0.025  Score=59.64  Aligned_cols=97  Identities=15%  Similarity=0.115  Sum_probs=61.9

Q ss_pred             HHHHHhc-C--CCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHHHHhCCCCcc---c
Q 048126          137 KVWRCLG-E--EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGRRIGFLDES---W  210 (863)
Q Consensus       137 ~l~~~L~-~--~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~---~  210 (863)
                      .+-..|. .  ..-+++.|+|++|+||||||.+++.....   .=..++||+....++..     .+++++...+.   .
T Consensus        48 ~LD~~Lg~GGi~~G~i~~I~GppGsGKSTLal~la~~~~~---~gg~VlyId~E~s~~~~-----ra~rlgv~~~~l~i~  119 (356)
T 3hr8_A           48 AIDIATGVGGYPRGRIVEIFGQESSGKTTLALHAIAEAQK---MGGVAAFIDAEHALDPV-----YAKNLGVDLKSLLIS  119 (356)
T ss_dssp             HHHHHTSSSSEETTEEEEEEESTTSSHHHHHHHHHHHHHH---TTCCEEEEESSCCCCHH-----HHHHHTCCGGGCEEE
T ss_pred             HHHHHhccCCccCCcEEEEECCCCCCHHHHHHHHHHHHHh---cCCeEEEEecccccchH-----HHHHcCCchhhhhhh
Confidence            3444454 2  24469999999999999999999887621   11347888877666544     45566654322   1


Q ss_pred             cCCChhHHHHHHHHHhc-cCcEEEEEeccCCc
Q 048126          211 KNGSLEDKASDILRILS-KKKFLLLLDDIWER  241 (863)
Q Consensus       211 ~~~~~~~~~~~l~~~l~-~kr~LlVlDdv~~~  241 (863)
                      ...+.++....+...++ .+.-++|+|.+...
T Consensus       120 ~~~~~e~~l~~~~~l~~~~~~dlvVIDSi~~l  151 (356)
T 3hr8_A          120 QPDHGEQALEIVDELVRSGVVDLIVVDSVAAL  151 (356)
T ss_dssp             CCSSHHHHHHHHHHHHHTSCCSEEEEECTTTC
T ss_pred             hccCHHHHHHHHHHHhhhcCCCeEEehHhhhh
Confidence            23345555555555544 45568999998543

>2vhj_A Ntpase P4, P4; non- hydrolysable ATP analogue, hydrolase, virus dsRNA, molecular motor, packaging ATPase, hexameric helicase; HET: ADP; 1.80A {Pseudomonas phage PHI12} PDB: 2vhq_A* 1w44_A* 1w46_A* 1w47_A* 1w48_A* 1w49_A* 1w4a_A* 1w4b_A* 1w4c_A 2vht_A* 2vhu_A* 2vhc_A*

Probab=96.47  E-value=0.0015  Score=67.28  Aligned_cols=69  Identities=22%  Similarity=0.388  Sum_probs=46.2

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEe--CCccCHHHHHHHHHHHhCCCCccccCCChhHHHHHHHH
Q 048126          147 VGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVV--SKDLQLEKIQEKIGRRIGFLDESWKNGSLEDKASDILR  224 (863)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~--s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~  224 (863)
                      .+++.|+|++|+|||+||.+++... ..     .++|+++  .+..             ...    . .+.++....+.+
T Consensus       123 gsviLI~GpPGsGKTtLAlqlA~~~-G~-----~VlyIs~~~eE~v-------------~~~----~-~~le~~l~~i~~  178 (331)
T 2vhj_A          123 SGMVIVTGKGNSGKTPLVHALGEAL-GG-----KDKYATVRFGEPL-------------SGY----N-TDFNVFVDDIAR  178 (331)
T ss_dssp             SEEEEEECSCSSSHHHHHHHHHHHH-HT-----TSCCEEEEBSCSS-------------TTC----B-CCHHHHHHHHHH
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHhC-CC-----CEEEEEecchhhh-------------hhh----h-cCHHHHHHHHHH
Confidence            4577899999999999999998752 11     2456666  2221             110    1 344556666777


Q ss_pred             HhccCcEEEEEeccCC
Q 048126          225 ILSKKKFLLLLDDIWE  240 (863)
Q Consensus       225 ~l~~kr~LlVlDdv~~  240 (863)
                      .+...+ +||+|++..
T Consensus       179 ~l~~~~-LLVIDsI~a  193 (331)
T 2vhj_A          179 AMLQHR-VIVIDSLKN  193 (331)
T ss_dssp             HHHHCS-EEEEECCTT
T ss_pred             HHhhCC-EEEEecccc
Confidence            777767 999999954

>2cvh_A DNA repair and recombination protein RADB; filament formation, homologous recombination, ATPase domain, hyperthermophIle; HET: DNA; 2.20A {Thermococcus kodakarensis} PDB: 2cvf_A*

Probab=96.39  E-value=0.0075  Score=59.41  Aligned_cols=88  Identities=18%  Similarity=0.233  Sum_probs=53.0

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHHHHhCCCCcc-------ccCCCh---
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGRRIGFLDES-------WKNGSL---  215 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~-------~~~~~~---  215 (863)
                      .-.++.|+|.+|+||||||..++. . .    -..++|++....++...+.. +.+.++...+.       ......   
T Consensus        19 ~G~~~~i~G~~GsGKTtl~~~l~~-~-~----~~~v~~i~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~   91 (220)
T 2cvh_A           19 PGVLTQVYGPYASGKTTLALQTGL-L-S----GKKVAYVDTEGGFSPERLVQ-MAETRGLNPEEALSRFILFTPSDFKEQ   91 (220)
T ss_dssp             TTSEEEEECSTTSSHHHHHHHHHH-H-H----CSEEEEEESSCCCCHHHHHH-HHHTTTCCHHHHHHHEEEECCTTTSHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHH-H-c----CCcEEEEECCCCCCHHHHHH-HHHhcCCChHHHhhcEEEEecCCHHHH
Confidence            446999999999999999999987 3 1    13688888776555555443 33333321100       011122   


Q ss_pred             hHHHHHHHHHhccCcEEEEEeccCC
Q 048126          216 EDKASDILRILSKKKFLLLLDDIWE  240 (863)
Q Consensus       216 ~~~~~~l~~~l~~kr~LlVlDdv~~  240 (863)
                      .+....++..+..+.-+||+|.+..
T Consensus        92 ~~~~~~~~~l~~~~~~lliiD~~~~  116 (220)
T 2cvh_A           92 RRVIGSLKKTVDSNFALVVVDSITA  116 (220)
T ss_dssp             HHHHHHHHHHCCTTEEEEEEECCCC
T ss_pred             HHHHHHHHHHhhcCCCEEEEcCcHH
Confidence            2234444444444567899998854

>1n0w_A DNA repair protein RAD51 homolog 1; DNA repair, homologous recombination, breast cancer susceptibility, RECA-like ATPase, protein complex; HET: DNA MSE; 1.70A {Homo sapiens} SCOP: c.37.1.11

Probab=96.28  E-value=0.011  Score=59.08  Aligned_cols=93  Identities=13%  Similarity=0.182  Sum_probs=55.9

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhhcCCCC----CCCEEEEEEeCCccCHHHHHHHHHHHhCCCCc----c---ccCCC
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPN----DFDVVIWVVVSKDLQLEKIQEKIGRRIGFLDE----S---WKNGS  214 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~----~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~----~---~~~~~  214 (863)
                      .-.++.|+|.+|+|||||+..++... ....    .-..++|+.....++...+. .+++.++...+    .   ....+
T Consensus        23 ~G~~~~i~G~~GsGKTtl~~~l~~~~-~~~~~~g~~~~~~~~i~~~~~~~~~~~~-~~~~~~g~~~~~~~~~~~~~~~~~  100 (243)
T 1n0w_A           23 TGSITEMFGEFRTGKTQICHTLAVTC-QLPIDRGGGEGKAMYIDTEGTFRPERLL-AVAERYGLSGSDVLDNVAYARAFN  100 (243)
T ss_dssp             TTSEEEEECCTTSSHHHHHHHHHHHT-TSCGGGTCCSSEEEEEESSSCCCHHHHH-HHHHHTTCCHHHHHHTEEEEECCS
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHH-hCchhcCCCCCeEEEEECCCCcCHHHHH-HHHHHcCCCHHHHhhCeEEEecCC
Confidence            44699999999999999999998864 1111    13578899877655554443 34455554321    0   01122


Q ss_pred             hhH---HHHHHHHHhc-cCcEEEEEeccCC
Q 048126          215 LED---KASDILRILS-KKKFLLLLDDIWE  240 (863)
Q Consensus       215 ~~~---~~~~l~~~l~-~kr~LlVlDdv~~  240 (863)
                      ..+   ....+.+.+. .+.-+||+|++..
T Consensus       101 ~~~~~~~~~~~~~~~~~~~~~lliiD~~~~  130 (243)
T 1n0w_A          101 TDHQTQLLYQASAMMVESRYALLIVDSATA  130 (243)
T ss_dssp             HHHHHHHHHHHHHHHHHSCEEEEEEETSSG
T ss_pred             HHHHHHHHHHHHHHHhcCCceEEEEeCchH
Confidence            222   2233444444 3667899998854

>3lw7_A Adenylate kinase related protein (ADKA-like); AMP, PSI, MCSG, structural genomics, midwest center for structural genomics; HET: AMP; 2.30A {Sulfolobus solfataricus} PDB: 3h0k_A

Probab=96.23  E-value=0.038  Score=51.87  Aligned_cols=23  Identities=26%  Similarity=0.436  Sum_probs=20.3

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          148 GIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      .+|+|.|++|+||||+|+.+ ...
T Consensus         2 ~~I~l~G~~GsGKsT~a~~L-~~~   24 (179)
T 3lw7_A            2 KVILITGMPGSGKSEFAKLL-KER   24 (179)
T ss_dssp             CEEEEECCTTSCHHHHHHHH-HHT
T ss_pred             cEEEEECCCCCCHHHHHHHH-HHC
Confidence            47999999999999999999 443

>2z43_A DNA repair and recombination protein RADA; archaea, filament, DNA binding, molecular SWI RECA, DMC1; HET: DNA; 1.93A {Sulfolobus solfataricus} PDB: 2bke_A* 2dfl_A* 2zub_A* 2zuc_A* 2zud_A*

Probab=96.12  E-value=0.02  Score=60.08  Aligned_cols=92  Identities=15%  Similarity=0.289  Sum_probs=57.7

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhhcCCCC----CCCEEEEEEeCCccCHHHHHHHHHHHhCCCCcc-------ccCCC
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPN----DFDVVIWVVVSKDLQLEKIQEKIGRRIGFLDES-------WKNGS  214 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~----~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~-------~~~~~  214 (863)
                      .-.++.|+|.+|+||||||.+++.... ...    .-..++|++....++...+. ++++.++...+.       ....+
T Consensus       106 ~G~i~~i~G~~GsGKT~la~~la~~~~-~~~~~gg~~~~vlyi~~e~~~~~~~l~-~~~~~~g~~~~~~~~~l~~~~~~~  183 (324)
T 2z43_A          106 TRTMTEFFGEFGSGKTQLCHQLSVNVQ-LPPEKGGLSGKAVYIDTEGTFRWERIE-NMAKALGLDIDNVMNNIYYIRAIN  183 (324)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHTT-SCGGGTCCSCEEEEEESSSCCCHHHHH-HHHHHTTCCHHHHHHTEEEEECCS
T ss_pred             CCcEEEEECCCCCCHhHHHHHHHHHHh-cccccCCCCCeEEEEECCCCCCHHHHH-HHHHHhCCCHHHHhccEEEEeCCC
Confidence            456999999999999999999987751 111    02478999988877766655 345666553210       01122


Q ss_pred             hh---HHHHHHHHHhc--cCcEEEEEeccC
Q 048126          215 LE---DKASDILRILS--KKKFLLLLDDIW  239 (863)
Q Consensus       215 ~~---~~~~~l~~~l~--~kr~LlVlDdv~  239 (863)
                      .+   +....+...++  .+.-+||+|.+.
T Consensus       184 ~~~~~~~l~~l~~~~~~~~~~~lvVIDsl~  213 (324)
T 2z43_A          184 TDHQIAIVDDLQELVSKDPSIKLIVVDSVT  213 (324)
T ss_dssp             HHHHHHHHHHHHHHHHHCTTEEEEEETTTT
T ss_pred             HHHHHHHHHHHHHHHHhccCCCEEEEeCcH
Confidence            22   23344555554  345688888874

>2qgz_A Helicase loader, putative primosome component; structural genomics, PSI-2, protein structure initiative; 2.40A {Streptococcus pyogenes serotype M3}

Probab=96.03  E-value=0.0045  Score=64.55  Aligned_cols=40  Identities=25%  Similarity=0.394  Sum_probs=29.9

Q ss_pred             hHHHHHHHHHhcCC---CccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          132 ESMFDKVWRCLGEE---QVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       132 ~~~~~~l~~~L~~~---~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ...++.+.+++...   ....+.|+|+.|+|||+||+.+++..
T Consensus       134 ~~~~~~~~~~i~~~~~~~~~~lll~G~~GtGKT~La~aia~~~  176 (308)
T 2qgz_A          134 MEAFSAILDFVEQYPSAEQKGLYLYGDMGIGKSYLLAAMAHEL  176 (308)
T ss_dssp             HHHHHHHHHHHHHCSCSSCCEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccccCCceEEEECCCCCCHHHHHHHHHHHH
Confidence            33445555566431   24688899999999999999999976

>1v5w_A DMC1, meiotic recombination protein DMC1/LIM15 homolog; DNA-binding protein, ring protein, octamer, AAA ATPase; 3.20A {Homo sapiens} SCOP: c.37.1.11 PDB: 2zjb_A

Probab=96.03  E-value=0.026  Score=59.74  Aligned_cols=93  Identities=16%  Similarity=0.213  Sum_probs=57.1

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhhcCCCC----CCCEEEEEEeCCccCHHHHHHHHHHHhCCCCcc-------ccCCC
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPN----DFDVVIWVVVSKDLQLEKIQEKIGRRIGFLDES-------WKNGS  214 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~----~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~-------~~~~~  214 (863)
                      .-.++.|+|.+|+||||||.+++... ....    .-..++|++....++...+. .++..++.....       ....+
T Consensus       121 ~G~i~~I~G~~GsGKTtla~~la~~~-~~~~~~gg~~~~vlyi~~E~~~~~~~l~-~~~~~~g~~~~~~l~~l~~~~~~~  198 (343)
T 1v5w_A          121 SMAITEAFGEFRTGKTQLSHTLCVTA-QLPGAGGYPGGKIIFIDTENTFRPDRLR-DIADRFNVDHDAVLDNVLYARAYT  198 (343)
T ss_dssp             SSEEEEEECCTTCTHHHHHHHHHHHT-TSCBTTTBCCCEEEEEESSSCCCHHHHH-HHHHHTTCCHHHHHHTEEEEECCS
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH-hcccccCCCCCeEEEEECCCCCCHHHHH-HHHHHcCCCHHHHHhceeEeecCC
Confidence            45699999999999999999998874 1111    22478999988877766654 344555543210       01112


Q ss_pred             hh---HHHHHHHHHhc---cCcEEEEEeccCC
Q 048126          215 LE---DKASDILRILS---KKKFLLLLDDIWE  240 (863)
Q Consensus       215 ~~---~~~~~l~~~l~---~kr~LlVlDdv~~  240 (863)
                      .+   +....+.+.++   .+.-+||+|.+..
T Consensus       199 ~e~~~~ll~~l~~~i~~~~~~~~lvVIDsl~~  230 (343)
T 1v5w_A          199 SEHQMELLDYVAAKFHEEAGIFKLLIIDSIMA  230 (343)
T ss_dssp             TTHHHHHHHHHHHHHHHSCSSEEEEEEETSGG
T ss_pred             HHHHHHHHHHHHHHHHhcCCCccEEEEechHH
Confidence            22   23334444444   3456888888743

>1u94_A RECA protein, recombinase A; homologous recombination, ATPase, DNA repair, DNA binding protein; 1.90A {Escherichia coli} SCOP: c.37.1.11 d.48.1.1 PDB: 1u98_A 1u99_A 1xms_A* 1xmv_A* 2rec_A 2reb_A 1n03_A* 1rea_A 1aa3_A

Probab=96.03  E-value=0.015  Score=61.58  Aligned_cols=87  Identities=15%  Similarity=0.152  Sum_probs=55.2

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHHHHhCCCCccc---cCCChhHHHHHH
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGRRIGFLDESW---KNGSLEDKASDI  222 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~---~~~~~~~~~~~l  222 (863)
                      .-+++.|.|.+|+||||||.+++.....   .=..++|++....++..     .+..++...+..   ...+.++....+
T Consensus        62 ~G~ii~I~G~pGsGKTtLal~la~~~~~---~g~~vlyid~E~s~~~~-----~a~~~g~~~~~l~i~~~~~~e~~~~~~  133 (356)
T 1u94_A           62 MGRIVEIYGPESSGKTTLTLQVIAAAQR---EGKTCAFIDAEHALDPI-----YARKLGVDIDNLLCSQPDTGEQALEIC  133 (356)
T ss_dssp             TTSEEEEECSTTSSHHHHHHHHHHHHHH---TTCCEEEEESSCCCCHH-----HHHHTTCCGGGCEEECCSSHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHH---CCCeEEEEeCCCCccHH-----HHHHcCCChhheeeeCCCCHHHHHHHH
Confidence            4569999999999999999999877621   11358899987776643     245555443211   122344444444


Q ss_pred             HHHhc-cCcEEEEEeccCC
Q 048126          223 LRILS-KKKFLLLLDDIWE  240 (863)
Q Consensus       223 ~~~l~-~kr~LlVlDdv~~  240 (863)
                      ....+ .+.-+||+|.+..
T Consensus       134 ~~l~~~~~~~lVVIDsl~~  152 (356)
T 1u94_A          134 DALARSGAVDVIVVDSVAA  152 (356)
T ss_dssp             HHHHHHTCCSEEEEECGGG
T ss_pred             HHHHhccCCCEEEEcCHHH
Confidence            44333 3455899999853

>2b8t_A Thymidine kinase; deoxyribonucleoside kinase, zinc-binding domain, TK1, UU-TK, transferase; HET: THM; 2.00A {Ureaplasma parvum} SCOP: c.37.1.24 g.39.1.14 PDB: 2uz3_A*

Probab=96.02  E-value=0.0026  Score=62.44  Aligned_cols=113  Identities=15%  Similarity=-0.015  Sum_probs=63.7

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHHHHhCCCCccccCCChhHHHHHHHHH
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGRRIGFLDESWKNGSLEDKASDILRI  225 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~  225 (863)
                      .-.++.|+|..|+||||++..++.+..  .... .++.+....+.  + -..+++..++...+........+....+.+.
T Consensus        11 ~G~i~litG~mGsGKTT~ll~~~~r~~--~~g~-kVli~~~~~d~--r-~~~~i~srlG~~~~~~~~~~~~~i~~~i~~~   84 (223)
T 2b8t_A           11 IGWIEFITGPMFAGKTAELIRRLHRLE--YADV-KYLVFKPKIDT--R-SIRNIQSRTGTSLPSVEVESAPEILNYIMSN   84 (223)
T ss_dssp             CCEEEEEECSTTSCHHHHHHHHHHHHH--HTTC-CEEEEEECCCG--G-GCSSCCCCCCCSSCCEEESSTHHHHHHHHST
T ss_pred             CcEEEEEECCCCCcHHHHHHHHHHHHH--hcCC-EEEEEEeccCc--h-HHHHHHHhcCCCccccccCCHHHHHHHHHHH
Confidence            346888999999999999999988872  1223 34444433322  1 2224455555443222223344455555554


Q ss_pred             hccCcE-EEEEeccCCc--cccccccCCCCCCCCCcEEEEecCch
Q 048126          226 LSKKKF-LLLLDDIWER--VDLTKVGVPFPDPENKSKIVFTTRFL  267 (863)
Q Consensus       226 l~~kr~-LlVlDdv~~~--~~~~~~~~~l~~~~~gs~IivTtR~~  267 (863)
                      +.+.++ +||+|.+...  ...+.+.. +.+  .|..||+|.+..
T Consensus        85 ~~~~~~dvViIDEaQ~l~~~~ve~l~~-L~~--~gi~Vil~Gl~~  126 (223)
T 2b8t_A           85 SFNDETKVIGIDEVQFFDDRICEVANI-LAE--NGFVVIISGLDK  126 (223)
T ss_dssp             TSCTTCCEEEECSGGGSCTHHHHHHHH-HHH--TTCEEEEECCSB
T ss_pred             hhCCCCCEEEEecCccCcHHHHHHHHH-HHh--CCCeEEEEeccc
Confidence            444444 9999999642  12222211 111  267788888854

>1jr3_D DNA polymerase III, delta subunit; processivity, processivity clamp, clamp loader, AAA+ ATPase, transferase; HET: DNA; 2.70A {Escherichia coli} SCOP: a.80.1.1 c.37.1.20 PDB: 1jqj_C* 1xxh_A* 1xxi_A* 3glf_A* 3glg_A* 3glh_A* 3gli_A*

Probab=96.01  E-value=0.046  Score=57.94  Aligned_cols=165  Identities=11%  Similarity=-0.059  Sum_probs=98.7

Q ss_pred             HHHHhcCCCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHHHHhCCCCccccCCChhH
Q 048126          138 VWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGRRIGFLDESWKNGSLED  217 (863)
Q Consensus       138 l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~  217 (863)
                      +.+.+...-.++..++|..|.||++.|+.+.....  ...|+....+.+....++.++...+-.                
T Consensus         9 l~~~l~~~~~~~yl~~G~e~~~~~~~~~~l~~~~~--~~~~~~~~~~~~~~~~~~~~l~~~~~~----------------   70 (343)
T 1jr3_D            9 LRAQLNEGLRAAYLLLGNDPLLLQESQDAVRQVAA--AQGFEEHHTFSIDPNTDWNAIFSLCQA----------------   70 (343)
T ss_dssp             HHHHHHHCCCSEEEEEESCHHHHHHHHHHHHHHHH--HHTCCEEEEEECCTTCCHHHHHHHHHH----------------
T ss_pred             HHHHHhcCCCcEEEEECCcHHHHHHHHHHHHHHHH--hCCCCeeEEEEecCCCCHHHHHHHhcC----------------
Confidence            33444434457889999999999999999988652  224543222233333444443332210                


Q ss_pred             HHHHHHHHhccCcEEEEEeccCC-c--cccccccCCCCCCCCCcEEEEecCc-------hhhhhc-ccccceEeecCCCh
Q 048126          218 KASDILRILSKKKFLLLLDDIWE-R--VDLTKVGVPFPDPENKSKIVFTTRF-------LEICGA-MKAHEFLKVECLGP  286 (863)
Q Consensus       218 ~~~~l~~~l~~kr~LlVlDdv~~-~--~~~~~~~~~l~~~~~gs~IivTtR~-------~~v~~~-~~~~~~~~l~~L~~  286 (863)
                            .-+-+++-++|+|+++. .  ..+..+...+.....++.+|++|..       ..+... ......++..+++.
T Consensus        71 ------~plf~~~kvvii~~~~~kl~~~~~~aLl~~le~p~~~~~~il~~~~~~~~~~~~k~~~~i~sr~~~~~~~~l~~  144 (343)
T 1jr3_D           71 ------MSLFASRQTLLLLLPENGPNAAINEQLLTLTGLLHDDLLLIVRGNKLSKAQENAAWFTALANRSVQVTCQTPEQ  144 (343)
T ss_dssp             ------HHHCCSCEEEEEECCSSCCCTTHHHHHHHHHTTCBTTEEEEEEESCCCTTTTTSHHHHHHTTTCEEEEECCCCT
T ss_pred             ------cCCccCCeEEEEECCCCCCChHHHHHHHHHHhcCCCCeEEEEEcCCCChhhHhhHHHHHHHhCceEEEeeCCCH
Confidence                  12235567888999865 2  3444454444444457777766532       123222 22335788999999


Q ss_pred             HHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCCchhHHHHH
Q 048126          287 EDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGLPLALITI  329 (863)
Q Consensus       287 ~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPlai~~~  329 (863)
                      ++-...+.+.+......-   -.+.+..+++.++|.+.++...
T Consensus       145 ~~l~~~l~~~~~~~g~~i---~~~a~~~l~~~~~gdl~~~~~e  184 (343)
T 1jr3_D          145 AQLPRWVAARAKQLNLEL---DDAANQVLCYCYEGNLLALAQA  184 (343)
T ss_dssp             THHHHHHHHHHHHTTCEE---CHHHHHHHHHSSTTCHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCCC---CHHHHHHHHHHhchHHHHHHHH
Confidence            999988887765432111   1456788999999988777653

>1r6b_X CLPA protein; AAA+, N-terminal domain, CLPS, crystal, binding mechanism, hydrolase; HET: ADP; 2.25A {Escherichia coli} SCOP: a.174.1.1 c.37.1.20 c.37.1.20 PDB: 1ksf_X*

Probab=95.95  E-value=0.0096  Score=70.83  Aligned_cols=46  Identities=22%  Similarity=0.336  Sum_probs=37.1

Q ss_pred             CCccchhHHHHHHHHHhcC---------CCccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          126 EPTVGLESMFDKVWRCLGE---------EQVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~---------~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ..++|.+..++.+...+..         .....+.++|++|+|||++|+.+++..
T Consensus       458 ~~v~g~~~~~~~l~~~i~~~~~g~~~~~~p~~~~ll~G~~GtGKT~la~~la~~l  512 (758)
T 1r6b_X          458 MLVFGQDKAIEALTEAIKMARAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKAL  512 (758)
T ss_dssp             TTSCSCHHHHHHHHHHHHHHHTTCSCTTSCSEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             hhccCHHHHHHHHHHHHHHHhcccCCCCCCceEEEEECCCCCcHHHHHHHHHHHh
Confidence            4578999999888877642         122478899999999999999999887

>3io5_A Recombination and repair protein; storage dimer, inactive conformation, RECA like core domain, binding, DNA damage, DNA recombination; 2.40A {Enterobacteria phage T4}

Probab=95.95  E-value=0.02  Score=58.53  Aligned_cols=87  Identities=14%  Similarity=0.109  Sum_probs=56.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHHHHhCCCCccc---cCCChhHH-HHHHHH
Q 048126          149 IIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGRRIGFLDESW---KNGSLEDK-ASDILR  224 (863)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~---~~~~~~~~-~~~l~~  224 (863)
                      ++-|+|.+|+||||||.+++....+ ...=..++||+....++..     .+++++...+..   ...+.++. ...+..
T Consensus        30 iteI~G~pGsGKTtL~Lq~~~~~~~-~g~g~~vlyId~E~s~~~~-----ra~~lGvd~d~llv~~~~~~E~~~l~i~~~  103 (333)
T 3io5_A           30 LLILAGPSKSFKSNFGLTMVSSYMR-QYPDAVCLFYDSEFGITPA-----YLRSMGVDPERVIHTPVQSLEQLRIDMVNQ  103 (333)
T ss_dssp             EEEEEESSSSSHHHHHHHHHHHHHH-HCTTCEEEEEESSCCCCHH-----HHHHTTCCGGGEEEEECSBHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHHHHh-cCCCceEEEEeccchhhHH-----HHHHhCCCHHHeEEEcCCCHHHHHHHHHHH
Confidence            7899999999999999998877621 1012468999987777653     367777654321   22344444 332222


Q ss_pred             H--h-ccCcEEEEEeccCCc
Q 048126          225 I--L-SKKKFLLLLDDIWER  241 (863)
Q Consensus       225 ~--l-~~kr~LlVlDdv~~~  241 (863)
                      .  + +++.-++|+|-|...
T Consensus       104 l~~i~~~~~~lvVIDSI~aL  123 (333)
T 3io5_A          104 LDAIERGEKVVVFIDSLGNL  123 (333)
T ss_dssp             HHTCCTTCCEEEEEECSTTC
T ss_pred             HHHhhccCceEEEEeccccc
Confidence            2  2 346789999999653

>1xp8_A RECA protein, recombinase A; recombination, radioresistance, DNA-repair, ATPase, DNA-BIND protein, DNA binding protein; HET: AGS; 2.50A {Deinococcus radiodurans} SCOP: c.37.1.11 d.48.1.1

Probab=95.93  E-value=0.021  Score=60.70  Aligned_cols=87  Identities=16%  Similarity=0.148  Sum_probs=57.3

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHHHHhCCCCcc---ccCCChhHHHHHH
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGRRIGFLDES---WKNGSLEDKASDI  222 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~---~~~~~~~~~~~~l  222 (863)
                      .-.++.|+|.+|+||||||.+++.....   .-..++|++....++..     .+..++...+.   ....+.++....+
T Consensus        73 ~G~li~I~G~pGsGKTtlal~la~~~~~---~g~~vlyi~~E~s~~~~-----~a~~~g~d~~~l~i~~~~~~e~~l~~l  144 (366)
T 1xp8_A           73 RGRITEIYGPESGGKTTLALAIVAQAQK---AGGTCAFIDAEHALDPV-----YARALGVNTDELLVSQPDNGEQALEIM  144 (366)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHHHH---TTCCEEEEESSCCCCHH-----HHHHTTCCGGGCEEECCSSHHHHHHHH
T ss_pred             CCcEEEEEcCCCCChHHHHHHHHHHHHH---CCCeEEEEECCCChhHH-----HHHHcCCCHHHceeecCCcHHHHHHHH
Confidence            4468999999999999999999877621   12368899988766643     24555554321   1223455666666


Q ss_pred             HHHhcc-CcEEEEEeccCC
Q 048126          223 LRILSK-KKFLLLLDDIWE  240 (863)
Q Consensus       223 ~~~l~~-kr~LlVlDdv~~  240 (863)
                      ....+. ..-+||+|.+..
T Consensus       145 ~~l~~~~~~~lVVIDsl~~  163 (366)
T 1xp8_A          145 ELLVRSGAIDVVVVDSVAA  163 (366)
T ss_dssp             HHHHTTTCCSEEEEECTTT
T ss_pred             HHHHhcCCCCEEEEeChHH
Confidence            555543 455899999853

>1qvr_A CLPB protein; coiled coil, AAA ATPase, chaperone; HET: ANP; 3.00A {Thermus thermophilus} SCOP: a.174.1.1 c.37.1.20 c.37.1.20

Probab=95.85  E-value=0.0096  Score=71.61  Aligned_cols=45  Identities=27%  Similarity=0.395  Sum_probs=36.6

Q ss_pred             CccchhHHHHHHHHHhcCC---------CccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          127 PTVGLESMFDKVWRCLGEE---------QVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       127 ~~vGr~~~~~~l~~~L~~~---------~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      .++|.+..++.+...+...         ....+.|+|+.|+|||++|+.+++..
T Consensus       559 ~viG~~~a~~~l~~~i~~~~~g~~~~~~p~~~vLl~Gp~GtGKT~lA~~la~~~  612 (854)
T 1qvr_A          559 RVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATL  612 (854)
T ss_dssp             HSCSCHHHHHHHHHHHHHHGGGCSCSSSCSEEEEEBSCSSSSHHHHHHHHHHHH
T ss_pred             ccCCcHHHHHHHHHHHHHHhcccCCCCCCceEEEEECCCCCCHHHHHHHHHHHh
Confidence            4689999888888777421         12578899999999999999999876

>2zr9_A Protein RECA, recombinase A; recombination, RECA mutants, DNA-repair, ATP-binding, DNA DA recombination, DNA repair, DNA-binding; HET: DTP; 2.50A {Mycobacterium smegmatis str} PDB: 2zr0_A* 2zra_A* 2zrb_A 2zrm_A* 1ubc_A* 1ubf_A* 1ubg_A* 1ube_A* 2g88_A* 2odw_A* 2oe2_A 2oep_A* 2oes_A 2ofo_A 2zr7_A 2odn_A* 2zrn_A 2zro_A* 2zrp_A* 2zre_A* ...

Probab=95.81  E-value=0.024  Score=60.00  Aligned_cols=87  Identities=15%  Similarity=0.188  Sum_probs=56.5

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHHHHhCCCCcc---ccCCChhHHHHHH
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGRRIGFLDES---WKNGSLEDKASDI  222 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~---~~~~~~~~~~~~l  222 (863)
                      .-+++.|+|.+|+||||||.+++.....   .=..++|++....++..     .++.++...+.   ....+.++....+
T Consensus        60 ~G~iv~I~G~pGsGKTtLal~la~~~~~---~g~~vlyi~~E~~~~~~-----~a~~lG~~~~~l~i~~~~~~e~~l~~~  131 (349)
T 2zr9_A           60 RGRVIEIYGPESSGKTTVALHAVANAQA---AGGIAAFIDAEHALDPE-----YAKKLGVDTDSLLVSQPDTGEQALEIA  131 (349)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHHHH---TTCCEEEEESSCCCCHH-----HHHHTTCCGGGCEEECCSSHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHh---CCCeEEEEECCCCcCHH-----HHHHcCCCHHHeEEecCCCHHHHHHHH
Confidence            4579999999999999999999876521   12357899887766543     25556544321   1223445555555


Q ss_pred             HHHhc-cCcEEEEEeccCC
Q 048126          223 LRILS-KKKFLLLLDDIWE  240 (863)
Q Consensus       223 ~~~l~-~kr~LlVlDdv~~  240 (863)
                      ....+ .+.-+||+|.+..
T Consensus       132 ~~l~~~~~~~lIVIDsl~~  150 (349)
T 2zr9_A          132 DMLVRSGALDIIVIDSVAA  150 (349)
T ss_dssp             HHHHTTTCCSEEEEECGGG
T ss_pred             HHHHhcCCCCEEEEcChHh
Confidence            44443 3466999999854

>3dm5_A SRP54, signal recognition 54 kDa protein; protein-RNA, signal recognition particle, SRP-GTPase, protein targeting, cytoplasm, GTP-binding; HET: GDP; 2.51A {Pyrococcus furiosus}

Probab=95.81  E-value=0.047  Score=59.15  Aligned_cols=26  Identities=31%  Similarity=0.491  Sum_probs=23.7

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ...+|.++|.+|+||||++..++...
T Consensus        99 ~p~vIlivG~~G~GKTTt~~kLA~~l  124 (443)
T 3dm5_A           99 KPTILLMVGIQGSGKTTTVAKLARYF  124 (443)
T ss_dssp             SSEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECcCCCCHHHHHHHHHHHH
Confidence            46799999999999999999998877

>1g5t_A COB(I)alamin adenosyltransferase; P-loop protein, cobalamin biosynthesis, RECA fold; HET: ATP; 1.80A {Salmonella typhimurium} SCOP: c.37.1.11 PDB: 1g5r_A* 1g64_A*

Probab=95.79  E-value=0.0049  Score=58.59  Aligned_cols=118  Identities=18%  Similarity=0.144  Sum_probs=60.3

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCC---ccCHHHHHHHHHHHhCCCCcccc--CC-------C
Q 048126          147 VGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSK---DLQLEKIQEKIGRRIGFLDESWK--NG-------S  214 (863)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~---~~~~~~~~~~i~~~l~~~~~~~~--~~-------~  214 (863)
                      ...|-|++..|.||||.|--.+-+..  ...+ .+.++...+   ..+...++..+.-.+......+.  ..       .
T Consensus        28 ~g~i~v~tG~GkGKTTaA~GlalRA~--g~G~-rV~~vQF~Kg~~~~gE~~~l~~L~v~~~~~g~gf~~~~~~~~~~~~~  104 (196)
T 1g5t_A           28 RGIIIVFTGNGKGKTTAAFGTAARAV--GHGK-NVGVVQFIKGTWPNGERNLLEPHGVEFQVMATGFTWETQNREADTAA  104 (196)
T ss_dssp             CCCEEEEESSSSCHHHHHHHHHHHHH--HTTC-CEEEEESSCCSSCCHHHHHHGGGTCEEEECCTTCCCCGGGHHHHHHH
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHHH--HCCC-eEEEEEeeCCCCCccHHHHHHhCCcEEEEcccccccCCCCcHHHHHH
Confidence            35667777777999999999988862  2334 344554333   22333444333100000000111  00       1


Q ss_pred             hhHHHHHHHHHhccCcE-EEEEeccCCc-----cccccccCCCCCCCCCcEEEEecCch
Q 048126          215 LEDKASDILRILSKKKF-LLLLDDIWER-----VDLTKVGVPFPDPENKSKIVFTTRFL  267 (863)
Q Consensus       215 ~~~~~~~l~~~l~~kr~-LlVlDdv~~~-----~~~~~~~~~l~~~~~gs~IivTtR~~  267 (863)
                      ........++.+.+.+| |||||++-..     ...+++...+........||+|+|..
T Consensus       105 a~~~l~~a~~~l~~~~yDlvILDEi~~al~~g~l~~~ev~~~l~~Rp~~~~vIlTGr~a  163 (196)
T 1g5t_A          105 CMAVWQHGKRMLADPLLDMVVLDELTYMVAYDYLPLEEVISALNARPGHQTVIITGRGC  163 (196)
T ss_dssp             HHHHHHHHHHHTTCTTCSEEEEETHHHHHHTTSSCHHHHHHHHHTSCTTCEEEEECSSC
T ss_pred             HHHHHHHHHHHHhcCCCCEEEEeCCCccccCCCCCHHHHHHHHHhCcCCCEEEEECCCC
Confidence            11223344555555554 9999998432     22233322232333467799999985

>4h09_A Hypothetical leucine rich repeat protein; two LRR_5 domains, PF13306 family, structural genomics, JOIN for structural genomics, JCSG; 2.50A {Eubacterium ventriosum}

Probab=95.74  E-value=0.024  Score=61.19  Aligned_cols=103  Identities=16%  Similarity=0.118  Sum_probs=53.0

Q ss_pred             CCCCccceEEccCCccccccchhhhcCCCccEEEccCCCccccCCccccccCCCCeEEccCCCccccch-hhhcCCCCCE
Q 048126          513 PTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAITHLPI-ELQKLVNLKC  591 (863)
Q Consensus       513 ~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~~~l~~lp~-~~~~l~~L~~  591 (863)
                      ..|..|+.+.+..+ ++.+....|.++..|+.+.+..+ ....-...+.++.+|+.+.+.++.++.++. .+.++.+|+.
T Consensus       237 ~~~~~L~~i~lp~~-v~~I~~~aF~~~~~l~~i~l~~~-i~~i~~~aF~~c~~L~~i~l~~~~i~~I~~~aF~~c~~L~~  314 (379)
T 4h09_A          237 YGMKALDEIAIPKN-VTSIGSFLLQNCTALKTLNFYAK-VKTVPYLLCSGCSNLTKVVMDNSAIETLEPRVFMDCVKLSS  314 (379)
T ss_dssp             TTCSSCCEEEECTT-CCEECTTTTTTCTTCCEEEECCC-CSEECTTTTTTCTTCCEEEECCTTCCEECTTTTTTCTTCCE
T ss_pred             cCCccceEEEcCCC-ccEeCccccceeehhcccccccc-ceeccccccccccccccccccccccceehhhhhcCCCCCCE
Confidence            45555555555443 44555555555666666655443 221122344555566666665555555543 3555566666


Q ss_pred             EecCCccccCCCcHHHhhcCCCCcEEEe
Q 048126          592 LNLEYMYNLNQFPRLVMSAFSKLQVLRI  619 (863)
Q Consensus       592 L~l~~~~~l~~lp~~~~~~L~~L~~L~l  619 (863)
                      +.+..  .++.++...+.++++|+.+.+
T Consensus       315 i~lp~--~l~~I~~~aF~~C~~L~~i~i  340 (379)
T 4h09_A          315 VTLPT--ALKTIQVYAFKNCKALSTISY  340 (379)
T ss_dssp             EECCT--TCCEECTTTTTTCTTCCCCCC
T ss_pred             EEcCc--cccEEHHHHhhCCCCCCEEEE
Confidence            65543  244455444555555555544

>1rz3_A Hypothetical protein rbstp0775; MCSG, structural genomics, PSI, protein structure initiative; 1.90A {Geobacillus stearothermophilus} SCOP: c.37.1.6

Probab=95.54  E-value=0.013  Score=56.92  Aligned_cols=42  Identities=24%  Similarity=0.376  Sum_probs=33.8

Q ss_pred             chhHHHHHHHHHhcC---CCccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          130 GLESMFDKVWRCLGE---EQVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       130 Gr~~~~~~l~~~L~~---~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      .|++.++++.+.+..   ....+|+|.|..|+||||+++.+....
T Consensus         2 ~~~~~~~~l~~~~~~~~~~~~~~i~i~G~~GsGKstl~~~l~~~~   46 (201)
T 1rz3_A            2 ELRDRIDFLCKTILAIKTAGRLVLGIDGLSRSGKTTLANQLSQTL   46 (201)
T ss_dssp             CHHHHHHHHHHHHHTSCCSSSEEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHhccCCCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            356677778777754   345799999999999999999998765

>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2}

Probab=95.45  E-value=0.039  Score=54.69  Aligned_cols=47  Identities=28%  Similarity=0.301  Sum_probs=31.2

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHH
Q 048126          147 VGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEK  198 (863)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~  198 (863)
                      -.+++|+|..|+|||||++.++.....  .. ..++|+....  ....+...
T Consensus        23 G~~~~i~G~~GsGKTtl~~~l~~~~~~--~~-~~v~~~~~~~--~~~~~~~~   69 (235)
T 2w0m_A           23 GFFIALTGEPGTGKTIFSLHFIAKGLR--DG-DPCIYVTTEE--SRDSIIRQ   69 (235)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHHHHHH--HT-CCEEEEESSS--CHHHHHHH
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHHHH--CC-CeEEEEEccc--CHHHHHHH
Confidence            468999999999999999999866521  11 2466665433  34444433

>2px0_A Flagellar biosynthesis protein FLHF; SRP GTPase, flagellum, protein transport, biosynthetic protein; HET: GNP; 3.00A {Bacillus subtilis} PDB: 2px3_A* 3syn_A*

Probab=95.40  E-value=0.044  Score=56.48  Aligned_cols=86  Identities=15%  Similarity=0.141  Sum_probs=47.5

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCC-ccCHHHHHHHHHHHhCCCCccccCCChhHHHHHHHH
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSK-DLQLEKIQEKIGRRIGFLDESWKNGSLEDKASDILR  224 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~-~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~  224 (863)
                      ...+++++|.+|+||||++..++.... ..... .+.++.... .....+.+....+..+....  ...+..++...+. 
T Consensus       104 ~g~vi~lvG~~GsGKTTl~~~LA~~l~-~~~G~-~V~lv~~D~~r~~a~eqL~~~~~~~gl~~~--~~~~~~~l~~al~-  178 (296)
T 2px0_A          104 HSKYIVLFGSTGAGKTTTLAKLAAISM-LEKHK-KIAFITTDTYRIAAVEQLKTYAELLQAPLE--VCYTKEEFQQAKE-  178 (296)
T ss_dssp             CSSEEEEEESTTSSHHHHHHHHHHHHH-HTTCC-CEEEEECCCSSTTHHHHHHHHHTTTTCCCC--BCSSHHHHHHHHH-
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHH-HhcCC-EEEEEecCcccchHHHHHHHHHHhcCCCeE--ecCCHHHHHHHHH-
Confidence            457999999999999999999987762 11222 345555432 22233344444444444321  1122333333333 


Q ss_pred             HhccCcEEEEEec
Q 048126          225 ILSKKKFLLLLDD  237 (863)
Q Consensus       225 ~l~~kr~LlVlDd  237 (863)
                      .+ .+.=++|+|-
T Consensus       179 ~~-~~~dlvIiDT  190 (296)
T 2px0_A          179 LF-SEYDHVFVDT  190 (296)
T ss_dssp             HG-GGSSEEEEEC
T ss_pred             Hh-cCCCEEEEeC
Confidence            33 3445788884

>2i1q_A DNA repair and recombination protein RADA; ATPase, recombinase, ATP complex, calcium stimulation, RECA, DMC1; HET: DNA ANP; 1.90A {Methanococcus voltae} SCOP: a.60.4.1 c.37.1.11 PDB: 1xu4_A* 2b21_A* 2fpk_A* 2fpl_A* 2fpm_A* 1t4g_A* 3fyh_A* 2f1j_A* 2f1i_A* 2f1h_A* 3ntu_A* 3ewa_A* 3ew9_A* 3etl_A* 4dc9_A* 2gdj_A*

Probab=95.38  E-value=0.03  Score=58.85  Aligned_cols=92  Identities=15%  Similarity=0.272  Sum_probs=56.6

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhhcCCC------------CCC--CEEEEEEeCCccCHHHHHHHHHHHhCCCCcc--
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAP------------NDF--DVVIWVVVSKDLQLEKIQEKIGRRIGFLDES--  209 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~------------~~F--~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~--  209 (863)
                      .-.++.|+|.+|+|||+||.+++... ...            ...  ..++|++....++..++.. +++.++...+.  
T Consensus        97 ~g~i~~i~G~~gsGKT~la~~la~~~-~l~~~~~~~~~~~~~gg~~~~~v~yi~~e~~~~~~~l~~-~~~~~g~~~~~~~  174 (322)
T 2i1q_A           97 SQSVTEFAGVFGSGKTQIMHQSCVNL-QNPEFLFYDEEAVSKGEVAQPKAVYIDTEGTFRPERIMQ-MAEHAGIDGQTVL  174 (322)
T ss_dssp             TTEEEEEEESTTSSHHHHHHHHHHHT-TCGGGEECCTTTSCTTTTSSEEEEEEESSSCCCHHHHHH-HHHHHTCCHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH-hccccccccccccccCCCCCceEEEEECCCCCCHHHHHH-HHHHcCCCHHHHh
Confidence            45699999999999999999998763 111            111  4789999888777776653 45566553210  


Q ss_pred             -----ccCCChhH---HHHHHHHHhcc--CcEEEEEeccC
Q 048126          210 -----WKNGSLED---KASDILRILSK--KKFLLLLDDIW  239 (863)
Q Consensus       210 -----~~~~~~~~---~~~~l~~~l~~--kr~LlVlDdv~  239 (863)
                           ....+.++   ....+.+.++.  +.-+||+|.+.
T Consensus       175 ~~l~~~~~~~~~~~~~~l~~l~~~~~~~~~~~lvVIDsl~  214 (322)
T 2i1q_A          175 DNTFVARAYNSDMQMLFAEKIEDLIQEGNNIKLVVIDSLT  214 (322)
T ss_dssp             HTEEEEECSSHHHHHHHHHTHHHHHHTTCEEEEEEEECSS
T ss_pred             cCEEEEeCCCHHHHHHHHHHHHHHHhhccCccEEEEECcH
Confidence                 01122222   33344444443  34578888874

>2xxa_A Signal recognition particle protein; protein transport, RNA/RNA binding protein, hydrolase, gtpas; HET: GCP; 3.94A {Escherichia coli} PDB: 2j28_9

Probab=95.22  E-value=0.096  Score=57.01  Aligned_cols=91  Identities=21%  Similarity=0.185  Sum_probs=47.7

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCC-ccCHHHHHHHHHHHhCCCCccc-cCCChhHHHHHHH
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSK-DLQLEKIQEKIGRRIGFLDESW-KNGSLEDKASDIL  223 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~-~~~~~~~~~~i~~~l~~~~~~~-~~~~~~~~~~~l~  223 (863)
                      ..++|.++|.+|+||||++..++.... .+... .++.|++.. .......+.......++..-.. ...+..+......
T Consensus        99 ~~~vI~ivG~~GvGKTT~a~~LA~~l~-~~~G~-kVllvd~D~~r~~a~~ql~~~~~~~~l~v~~~~~~~dp~~i~~~~l  176 (433)
T 2xxa_A           99 PPAVVLMAGLQGAGKTTSVGKLGKFLR-EKHKK-KVLVVSADVYRPAAIKQLETLAEQVGVDFFPSDVGQKPVDIVNAAL  176 (433)
T ss_dssp             SSEEEEEECSTTSSHHHHHHHHHHHHH-HTSCC-CEEEEECCCSSTTHHHHHHHHHHHHTCEECCCCSSSCHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHH-HhcCC-eEEEEecCCCCccHHHHHHhhcccCCeeEEeCCCCCCHHHHHHHHH
Confidence            467999999999999999999998772 12133 345555432 2233333333444444321100 1123334433333


Q ss_pred             HHhccCcE-EEEEecc
Q 048126          224 RILSKKKF-LLLLDDI  238 (863)
Q Consensus       224 ~~l~~kr~-LlVlDdv  238 (863)
                      +.++.+.| ++|+|-.
T Consensus       177 ~~~~~~~~D~VIIDTp  192 (433)
T 2xxa_A          177 KEAKLKFYDVLLVDTA  192 (433)
T ss_dssp             HHHHHTTCSEEEEECC
T ss_pred             HHHHhCCCCEEEEECC
Confidence            33432233 6666764

>3c8u_A Fructokinase; YP_612366.1, putative fructose transport system kinase, STRU genomics, joint center for structural genomics, JCSG; 1.95A {Silicibacter SP}

Probab=95.14  E-value=0.017  Score=56.34  Aligned_cols=39  Identities=26%  Similarity=0.366  Sum_probs=30.8

Q ss_pred             HHHHHHHHHhcC--CCccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          133 SMFDKVWRCLGE--EQVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       133 ~~~~~l~~~L~~--~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      +.+++|.+.+..  ....+|+|+|+.|+|||||++.+....
T Consensus         6 ~~~~~~~~~~~~~~~~g~~v~I~G~sGsGKSTl~~~l~~~~   46 (208)
T 3c8u_A            6 ALCQGVLERLDPRQPGRQLVALSGAPGSGKSTLSNPLAAAL   46 (208)
T ss_dssp             HHHHHHHHHSCTTCCSCEEEEEECCTTSCTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCCCCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            345566666653  356799999999999999999998876

>3ice_A Transcription termination factor RHO; transcription, ATPase, hexamer, helicase, RNA, RECA, OB fold ATP-binding, hydrolase; HET: MSE ADP SPD; 2.80A {Escherichia coli k-12} PDB: 1pv4_A 1pvo_A* 1xpo_A* 1xpr_A* 1xpu_A* 2ht1_A

Probab=95.10  E-value=0.079  Score=55.67  Aligned_cols=53  Identities=15%  Similarity=0.086  Sum_probs=35.3

Q ss_pred             HHHHHhcC-CCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCcc
Q 048126          137 KVWRCLGE-EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDL  190 (863)
Q Consensus       137 ~l~~~L~~-~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~  190 (863)
                      ++++.+.. ..-..++|+|..|+|||||++.+.+........+. ++++-+++..
T Consensus       163 raID~~~pi~rGQr~~IvG~sG~GKTtLl~~Iar~i~~~~~~v~-~I~~lIGER~  216 (422)
T 3ice_A          163 RVLDLASPIGRGQRGLIVAPPKAGKTMLLQNIAQSIAYNHPDCV-LMVLLIDERP  216 (422)
T ss_dssp             HHHHHHSCCBTTCEEEEECCSSSSHHHHHHHHHHHHHHHCTTSE-EEEEEESSCH
T ss_pred             eeeeeeeeecCCcEEEEecCCCCChhHHHHHHHHHHhhcCCCee-EEEEEecCCh
Confidence            34455543 34568999999999999999998876521112343 4467777654

>3lda_A DNA repair protein RAD51; DNA binding protein, ATP-binding, DNA damage, DNA recombinat repair, nucleotide-binding; HET: DNA; 2.50A {Saccharomyces cerevisiae} PDB: 1szp_A*

Probab=95.10  E-value=0.093  Score=56.39  Aligned_cols=93  Identities=13%  Similarity=0.185  Sum_probs=53.9

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhhcCC---CCCCCEEEEEEeCCccCHHHHHHHHHHHhCCCCcc-------ccCCCh
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGA---PNDFDVVIWVVVSKDLQLEKIQEKIGRRIGFLDES-------WKNGSL  215 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~---~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~-------~~~~~~  215 (863)
                      .-.++.|+|..|+|||||+..++-.....   ...-..++|++....+....+ +.+++.++...+.       ....+.
T Consensus       177 ~Gei~~I~G~sGsGKTTLl~~la~~~~~p~~~Gg~~~~viyid~E~~~~~~rl-~~~a~~~gl~~~~vleni~~~~~~~~  255 (400)
T 3lda_A          177 TGSITELFGEFRTGKSQLCHTLAVTCQIPLDIGGGEGKCLYIDTEGTFRPVRL-VSIAQRFGLDPDDALNNVAYARAYNA  255 (400)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHTTSCGGGTCCSSEEEEEESSSCCCHHHH-HHHHHHTTCCHHHHHHTEEEEECCSH
T ss_pred             CCcEEEEEcCCCCChHHHHHHHHHHhccCcccCCCCCcEEEEeCCCccCHHHH-HHHHHHcCCChHhHhhcEEEeccCCh
Confidence            45699999999999999999876433110   012346889987766655544 3466666654210       011222


Q ss_pred             hH---HHHHHHHHhc-cCcEEEEEeccC
Q 048126          216 ED---KASDILRILS-KKKFLLLLDDIW  239 (863)
Q Consensus       216 ~~---~~~~l~~~l~-~kr~LlVlDdv~  239 (863)
                      ..   ....+.+.+. .+.-+||+|.+.
T Consensus       256 ~~~~~~l~~~~~~l~~~~~~llVIDs~t  283 (400)
T 3lda_A          256 DHQLRLLDAAAQMMSESRFSLIVVDSVM  283 (400)
T ss_dssp             HHHHHHHHHHHHHHHHSCEEEEEEETGG
T ss_pred             HHHHHHHHHHHHHHHhcCCceEEecchh
Confidence            22   2223333333 356788889874

>2ck3_D ATP synthase subunit beta\, mitochondrial; hydrolase; HET: ANP ADP; 1.9A {Bos taurus} SCOP: a.69.1.1 b.49.1.1 c.37.1.11 PDB: 1cow_D* 1bmf_D* 1e1q_D* 1e1r_D* 1efr_D* 1e79_D* 1h8h_D* 1ohh_D* 1qo1_D 1w0j_D* 1w0k_D* 1h8e_D* 2jdi_D* 2jiz_D* 2jj1_D* 2jj2_D* 2v7q_D* 2wss_D* 2w6j_D 2w6e_D ...

Probab=94.95  E-value=0.079  Score=57.41  Aligned_cols=100  Identities=20%  Similarity=0.263  Sum_probs=63.1

Q ss_pred             HHHHhcC-CCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccC-HHHHHHHHHHHhCCC------C--
Q 048126          138 VWRCLGE-EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQ-LEKIQEKIGRRIGFL------D--  207 (863)
Q Consensus       138 l~~~L~~-~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~-~~~~~~~i~~~l~~~------~--  207 (863)
                      +++.+.. .+-..++|+|..|+|||+|+.++.+...  +.+-+.++++-+.+... +.++.+.+.+.-...      .  
T Consensus       143 ~ID~l~pigkGQr~~Ifgg~G~GKT~L~~~i~~~~~--~~~~~v~V~~~iGER~rEv~e~~~~~~~~~~l~~~~~~~rtv  220 (482)
T 2ck3_D          143 VVDLLAPYAKGGKIGLFGGAGVGKTVLIMELINNVA--KAHGGYSVFAGVGERTREGNDLYHEMIESGVINLKDATSKVA  220 (482)
T ss_dssp             HHHHHSCEETTCEEEEEECTTSSHHHHHHHHHHHTT--TTCSSEEEEEEESCCHHHHHHHHHHHHHHTSSCSSSSCCCEE
T ss_pred             EEecccccccCCeeeeecCCCCChHHHHHHHHHhhH--hhCCCEEEEEECCCcchHHHHHHHHhhhccccccccCCceEE
Confidence            4555543 3446889999999999999999998752  33456788888887754 566777776543221      0  


Q ss_pred             ---ccccCCChh------HHHHHHHHHh---ccCcEEEEEeccCC
Q 048126          208 ---ESWKNGSLE------DKASDILRIL---SKKKFLLLLDDIWE  240 (863)
Q Consensus       208 ---~~~~~~~~~------~~~~~l~~~l---~~kr~LlVlDdv~~  240 (863)
                         .+ ...+..      ...-.+.+++   +++.+||++||+..
T Consensus       221 vV~~t-~d~p~~~r~~~~~~a~tiAEyfrd~~G~dVLll~DsitR  264 (482)
T 2ck3_D          221 LVYGQ-MNEPPGARARVALTGLTVAEYFRDQEGQDVLLFIDNIFR  264 (482)
T ss_dssp             EEEEC-TTSCHHHHHHHHHHHHHHHHHHHHTTCSCEEEEEECTHH
T ss_pred             EEEEC-CCCCHHHHHHHHHHHHHHHHHHHHhcCCcEEEEeccHHH
Confidence               00 111111      1122233444   46899999999854

>3kb2_A SPBC2 prophage-derived uncharacterized protein YORR; alpha-beta protein., structural genomics, PSI-2, protein structure initiative; HET: G3D; 2.20A {Bacillus subtilis} SCOP: c.37.1.1 PDB: 2axp_A*

Probab=94.93  E-value=0.014  Score=54.78  Aligned_cols=24  Identities=29%  Similarity=0.292  Sum_probs=22.3

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          148 GIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      .+|+|.|+.|+||||+|+.+....
T Consensus         2 ~~i~l~G~~GsGKsT~~~~L~~~l   25 (173)
T 3kb2_A            2 TLIILEGPDCCFKSTVAAKLSKEL   25 (173)
T ss_dssp             CEEEEECSSSSSHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            479999999999999999999886

>2orw_A Thymidine kinase; TMTK, TP4A, transferase; HET: 4TA; 1.50A {Thermotoga maritima} PDB: 2qpo_A 2qq0_A* 2qqe_A*

Probab=94.89  E-value=0.0021  Score=61.40  Aligned_cols=24  Identities=25%  Similarity=0.097  Sum_probs=20.8

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          148 GIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      .++.|+|+.|+||||++..++.+.
T Consensus         4 ~i~vi~G~~gsGKTT~ll~~~~~~   27 (184)
T 2orw_A            4 KLTVITGPMYSGKTTELLSFVEIY   27 (184)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHH
Confidence            478899999999999997777665

>3e70_C DPA, signal recognition particle receptor; FTSY, SRP-GTPase, protein-targeting, transport protein; HET: GDP; 1.97A {Pyrococcus furiosus} PDB: 3dmd_B 3dm9_B*

Probab=94.86  E-value=0.13  Score=53.63  Aligned_cols=58  Identities=29%  Similarity=0.385  Sum_probs=36.8

Q ss_pred             CCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCC-ccCHHHHHHHHHHHhCC
Q 048126          145 EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSK-DLQLEKIQEKIGRRIGF  205 (863)
Q Consensus       145 ~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~-~~~~~~~~~~i~~~l~~  205 (863)
                      ....+++|+|+.|+||||+++.++.... . ... .+.++...- .....+.+....+.++.
T Consensus       127 ~~g~vi~lvG~nGaGKTTll~~Lag~l~-~-~~g-~V~l~g~D~~r~~a~eql~~~~~~~gv  185 (328)
T 3e70_C          127 EKPYVIMFVGFNGSGKTTTIAKLANWLK-N-HGF-SVVIAASDTFRAGAIEQLEEHAKRIGV  185 (328)
T ss_dssp             CSSEEEEEECCTTSSHHHHHHHHHHHHH-H-TTC-CEEEEEECCSSTTHHHHHHHHHHHTTC
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHH-h-cCC-EEEEEeecccccchHHHHHHHHHHcCc
Confidence            3567999999999999999999988762 1 222 244443321 12334445555666664

>1j8m_F SRP54, signal recognition 54 kDa protein; signaling protein; 2.00A {Acidianus ambivalens} SCOP: a.24.13.1 c.37.1.10 PDB: 1j8y_F

Probab=94.85  E-value=0.11  Score=53.41  Aligned_cols=89  Identities=19%  Similarity=0.127  Sum_probs=49.9

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCc-cCHHHHHHHHHHHhCCCCccc-cCCChhHHHHHHHH
Q 048126          147 VGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKD-LQLEKIQEKIGRRIGFLDESW-KNGSLEDKASDILR  224 (863)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~-~~~~~~~~~i~~~l~~~~~~~-~~~~~~~~~~~l~~  224 (863)
                      ..+++++|.+|+||||++..++.....  .. ..+.++..... ......++...+..+...-.. ...+..+......+
T Consensus        98 ~~vi~i~G~~G~GKTT~~~~la~~~~~--~g-~~v~l~~~D~~r~~a~~ql~~~~~~~~v~v~~~~~~~~p~~~~~~~l~  174 (297)
T 1j8m_F           98 PYVIMLVGVQGTGKTTTAGKLAYFYKK--KG-FKVGLVGADVYRPAALEQLQQLGQQIGVPVYGEPGEKDVVGIAKRGVE  174 (297)
T ss_dssp             SEEEEEECSSCSSTTHHHHHHHHHHHH--TT-CCEEEEECCCSSSHHHHHHHHHHHHHTCCEECCTTCCCHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHH--CC-CeEEEEecCCCCHHHHHHHHHHhccCCeEEEecCCCCCHHHHHHHHHH
Confidence            569999999999999999999887621  12 23555554322 222333444555555432110 12234444444444


Q ss_pred             HhccCcE-EEEEecc
Q 048126          225 ILSKKKF-LLLLDDI  238 (863)
Q Consensus       225 ~l~~kr~-LlVlDdv  238 (863)
                      .++.++| ++|+|-.
T Consensus       175 ~~~~~~~D~ViIDTp  189 (297)
T 1j8m_F          175 KFLSEKMEIIIVDTA  189 (297)
T ss_dssp             HHHHTTCSEEEEECC
T ss_pred             HHHhCCCCEEEEeCC
Confidence            4442333 7778865

>1qhx_A CPT, protein (chloramphenicol phosphotransferase); kinase, antibiotic resistance, phosphorylation, mononucleoti binding fold; HET: ATP; 2.50A {Streptomyces venezuelae} SCOP: c.37.1.3 PDB: 1grr_A* 1grq_A 1qhs_A* 1qhn_A* 1qhy_A*

Probab=94.85  E-value=0.015  Score=55.01  Aligned_cols=24  Identities=25%  Similarity=0.364  Sum_probs=22.4

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          148 GIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      .+|.|.|+.|+||||+|+.+....
T Consensus         4 ~~i~l~G~~GsGKST~a~~La~~l   27 (178)
T 1qhx_A            4 RMIILNGGSSAGKSGIVRCLQSVL   27 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHHhc
Confidence            578999999999999999999886

>1vma_A Cell division protein FTSY; TM0570, structural genomics, JCS protein structure initiative, PSI, joint center for structu genomics; HET: CIT; 1.60A {Thermotoga maritima} SCOP: a.24.13.1 c.37.1.10

Probab=94.74  E-value=0.096  Score=54.08  Aligned_cols=90  Identities=18%  Similarity=0.217  Sum_probs=49.8

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCH--HHHHHHHHHHhCCCCcc-ccCCChhHH-HHH
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQL--EKIQEKIGRRIGFLDES-WKNGSLEDK-ASD  221 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~--~~~~~~i~~~l~~~~~~-~~~~~~~~~-~~~  221 (863)
                      ...+|+|+|.+|+||||++..++.... . .. ..+.++... .+..  .+.+...++..+...-. ....+.... ...
T Consensus       103 ~~~vi~ivG~~GsGKTTl~~~LA~~l~-~-~g-~kV~lv~~D-~~r~~a~eqL~~~~~~~gl~~~~~~s~~~~~~v~~~a  178 (306)
T 1vma_A          103 PPFVIMVVGVNGTGKTTSCGKLAKMFV-D-EG-KSVVLAAAD-TFRAAAIEQLKIWGERVGATVISHSEGADPAAVAFDA  178 (306)
T ss_dssp             SCEEEEEECCTTSSHHHHHHHHHHHHH-H-TT-CCEEEEEEC-TTCHHHHHHHHHHHHHHTCEEECCSTTCCHHHHHHHH
T ss_pred             CCeEEEEEcCCCChHHHHHHHHHHHHH-h-cC-CEEEEEccc-cccHHHHHHHHHHHHHcCCcEEecCCccCHHHHHHHH
Confidence            457999999999999999999998772 1 11 234555443 2222  22234455555543211 011122222 234


Q ss_pred             HHHHhccCcEEEEEeccC
Q 048126          222 ILRILSKKKFLLLLDDIW  239 (863)
Q Consensus       222 l~~~l~~kr~LlVlDdv~  239 (863)
                      +...+....-++|+|-.-
T Consensus       179 l~~a~~~~~dvvIiDtpg  196 (306)
T 1vma_A          179 VAHALARNKDVVIIDTAG  196 (306)
T ss_dssp             HHHHHHTTCSEEEEEECC
T ss_pred             HHHHHhcCCCEEEEECCC
Confidence            444455555588888663

>3kl4_A SRP54, signal recognition 54 kDa protein; signal recognition particle, SRP, SRP54, FFH, signal sequenc peptide; 3.50A {Sulfolobus solfataricus} PDB: 1qzx_A 1qzw_A

Probab=94.72  E-value=0.14  Score=55.33  Aligned_cols=58  Identities=26%  Similarity=0.202  Sum_probs=35.8

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCC-ccCHHHHHHHHHHHhCCC
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSK-DLQLEKIQEKIGRRIGFL  206 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~-~~~~~~~~~~i~~~l~~~  206 (863)
                      ...+|.++|.+|+||||++..++....  .... .++.+.... .....+.+.......+.+
T Consensus        96 ~~~vI~lvG~~GsGKTTt~~kLA~~l~--~~G~-kVllv~~D~~r~~a~eqL~~~~~~~gv~  154 (433)
T 3kl4_A           96 LPFIIMLVGVQGSGKTTTAGKLAYFYK--KRGY-KVGLVAADVYRPAAYDQLLQLGNQIGVQ  154 (433)
T ss_dssp             SSEEEEECCCTTSCHHHHHHHHHHHHH--HTTC-CEEEEEECCSCHHHHHHHHHHHHTTTCC
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHH--HcCC-eEEEEecCccchhHHHHHHHHHHhcCCc
Confidence            467999999999999999999988773  1223 344444332 112233444455555543

>2ffh_A Protein (FFH); SRP54, signal recognition particle, GTPase, M domain, RNA-binding, signal sequence-binding, helix-turn-helix, protein targeting; 3.20A {Thermus aquaticus} SCOP: a.24.13.1 a.36.1.1 c.37.1.10 PDB: 2iy3_A

Probab=94.70  E-value=0.17  Score=54.64  Aligned_cols=89  Identities=18%  Similarity=0.150  Sum_probs=47.7

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHH--HHHHHHHHHhCCCCccc-cCCChhHHHHHH
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLE--KIQEKIGRRIGFLDESW-KNGSLEDKASDI  222 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~--~~~~~i~~~l~~~~~~~-~~~~~~~~~~~l  222 (863)
                      ...+|+|+|.+|+||||++..++.... . ... .+..+.. +.+...  ..+.......+...-.. ...+..++....
T Consensus        97 ~~~vi~i~G~~GsGKTT~~~~LA~~l~-~-~g~-~Vllvd~-D~~r~aa~~qL~~~~~~~gv~v~~~~~~~~p~~i~~~~  172 (425)
T 2ffh_A           97 DRNLWFLVGLQGSGKTTTAAKLALYYK-G-KGR-RPLLVAA-DTQRPAAREQLRLLGEKVGVPVLEVMDGESPESIRRRV  172 (425)
T ss_dssp             SSEEEEEECCTTSSHHHHHHHHHHHHH-T-TTC-CEEEEEC-CSSCHHHHHHHHHHHHHHTCCEEECCTTCCHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHH-H-cCC-eEEEeec-cccCchhHHHHHHhcccCCccEEecCCCCCHHHHHHHH
Confidence            346899999999999999999998872 2 222 3444544 223322  22344455555432110 112333443333


Q ss_pred             HHHhccCcE-EEEEecc
Q 048126          223 LRILSKKKF-LLLLDDI  238 (863)
Q Consensus       223 ~~~l~~kr~-LlVlDdv  238 (863)
                      .+.++.+.| ++|+|-.
T Consensus       173 l~~~~~~~~DvVIIDTa  189 (425)
T 2ffh_A          173 EEKARLEARDLILVDTA  189 (425)
T ss_dssp             HHHHHHTTCSEEEEECC
T ss_pred             HHHHHHCCCCEEEEcCC
Confidence            334432333 6666754

>2ga8_A Hypothetical 39.9 kDa protein; YFR007W, YFH7, unknown function; HET: CME; 1.77A {Saccharomyces cerevisiae} PDB: 2gaa_A*

Probab=94.63  E-value=0.034  Score=58.09  Aligned_cols=43  Identities=23%  Similarity=0.314  Sum_probs=33.0

Q ss_pred             cchhHHHHHHHHHhc----CCCccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          129 VGLESMFDKVWRCLG----EEQVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       129 vGr~~~~~~l~~~L~----~~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      |+.+...+++++.+.    .+....|.|+|+.|+||||+++.++...
T Consensus         2 ~~~~~L~~~il~~l~~~i~~g~~~~i~l~G~~G~GKTTl~~~la~~l   48 (359)
T 2ga8_A            2 VDTHKLADDVLQLLDNRIEDNYRVCVILVGSPGSGKSTIAEELCQII   48 (359)
T ss_dssp             CCHHHHHHHHHHHHHHTTTTCSCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHHHhccCCeeEEEEECCCCCcHHHHHHHHHHHh
Confidence            455666666666663    3456679999999999999999998765

>1pzn_A RAD51, DNA repair and recombination protein RAD51, RADA; heptameric ring, heptamer, ring, oligomer, RAD51 polymerizat motif; HET: DNA; 2.85A {Pyrococcus furiosus} SCOP: a.60.4.1 c.37.1.11

Probab=94.62  E-value=0.061  Score=56.94  Aligned_cols=93  Identities=19%  Similarity=0.275  Sum_probs=54.0

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCC----CEEEEEEeCCccCHHHHHHHHHHHhCCCCcc------c-cCCC
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDF----DVVIWVVVSKDLQLEKIQEKIGRRIGFLDES------W-KNGS  214 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F----~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~------~-~~~~  214 (863)
                      .-.++.|+|..|+|||||+..++... ......    ..++||+....+....+ ..+++..+.....      . ...+
T Consensus       130 ~G~i~~I~G~~GsGKTTL~~~l~~~~-~~~~~~Gg~~G~vi~i~~e~~~~~~~i-~~i~q~~~~~~~~v~~ni~~~~~~~  207 (349)
T 1pzn_A          130 TQAITEVFGEFGSGKTQLAHTLAVMV-QLPPEEGGLNGSVIWIDTENTFRPERI-REIAQNRGLDPDEVLKHIYVARAFN  207 (349)
T ss_dssp             SSEEEEEEESTTSSHHHHHHHHHHHT-TSCGGGTSCSCEEEEEESSSCCCHHHH-HHHHHTTTCCHHHHGGGEEEEECCS
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHh-ccchhcCCCCCeEEEEeCCCCCCHHHH-HHHHHHcCCCHHHHhhCEEEEecCC
Confidence            45799999999999999999998775 111111    25689887655443333 3455554432210      0 0111


Q ss_pred             ---hhHHHHHHHHHhc------cCcEEEEEeccCC
Q 048126          215 ---LEDKASDILRILS------KKKFLLLLDDIWE  240 (863)
Q Consensus       215 ---~~~~~~~l~~~l~------~kr~LlVlDdv~~  240 (863)
                         ..+....+...+.      .+.-+||+|.+-.
T Consensus       208 ~~~~~~~l~~~~~~~~~lS~G~~~~~llIlDs~ta  242 (349)
T 1pzn_A          208 SNHQMLLVQQAEDKIKELLNTDRPVKLLIVDSLTS  242 (349)
T ss_dssp             HHHHHHHHHHHHHHHHHSSSSSSCEEEEEEETSST
T ss_pred             hHHHHHHHHHHHHHHHHhccccCCCCEEEEeCchH
Confidence               1223344444444      3567889998854

>3vaa_A Shikimate kinase, SK; structural genomics, center for structural genomics of infec diseases, csgid, metal binding, transferase; 1.70A {Bacteroides thetaiotaomicron}

Probab=94.61  E-value=0.02  Score=55.34  Aligned_cols=26  Identities=42%  Similarity=0.367  Sum_probs=23.6

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ...+|.|+|+.|+||||+|+.++...
T Consensus        24 ~~~~i~l~G~~GsGKsTl~~~La~~l   49 (199)
T 3vaa_A           24 AMVRIFLTGYMGAGKTTLGKAFARKL   49 (199)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHHHHc
Confidence            45689999999999999999999886

>2hf9_A Probable hydrogenase nickel incorporation protein HYPB; alpha and beta protein; HET: GSP; 1.90A {Methanocaldococcus jannaschii} PDB: 2hf8_A*

Probab=94.59  E-value=0.029  Score=55.35  Aligned_cols=39  Identities=31%  Similarity=0.409  Sum_probs=30.5

Q ss_pred             HHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          133 SMFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       133 ~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ...+.+.+.+......+|+|+|.+|+|||||+..+....
T Consensus        24 ~~a~~~r~~~~~~~~~~i~ivG~~gvGKTtl~~~l~~~~   62 (226)
T 2hf9_A           24 RLADKNRKLLNKHGVVAFDFMGAIGSGKTLLIEKLIDNL   62 (226)
T ss_dssp             HHHHHHHHHHHHTTCEEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCCeEEEEEcCCCCCHHHHHHHHHHHh
Confidence            334555555555567899999999999999999998875

>1pgv_A TMD-1, tropomodulin TMD-1; structural genomics, PSI, protein structure initiative, southeast collaboratory for structural genomics secsg; 1.80A {Caenorhabditis elegans} SCOP: c.10.1.1

Probab=94.55  E-value=0.062  Score=51.22  Aligned_cols=21  Identities=14%  Similarity=0.262  Sum_probs=11.7

Q ss_pred             HHHHHcCCccCceEEEEEcCh
Q 048126          632 LVEELMGMKHLMALTITLKSW  652 (863)
Q Consensus       632 ~~~~l~~L~~L~~L~l~~~~~  652 (863)
                      ....|..-+.|..|++.++..
T Consensus       149 ia~aL~~N~tL~~L~l~~~~~  169 (197)
T 1pgv_A          149 MMMAIEENESLLRVGISFASM  169 (197)
T ss_dssp             HHHHHHHCSSCCEEECCCCCH
T ss_pred             HHHHHHhCCCcCeEeccCCCc
Confidence            334455556666777665543

>2r44_A Uncharacterized protein; putative ATPase, structural genomics, joint center for struc genomics, JCSG; HET: MSE PG4; 2.00A {Cytophaga hutchinsonii atcc 33406}

Probab=94.53  E-value=0.022  Score=60.18  Aligned_cols=44  Identities=23%  Similarity=0.347  Sum_probs=37.6

Q ss_pred             CCccchhHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          126 EPTVGLESMFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ..++|++..++.+...+..+  .-+.++|++|+|||++|+.+++..
T Consensus        27 ~~i~g~~~~~~~l~~~l~~~--~~vll~G~pGtGKT~la~~la~~~   70 (331)
T 2r44_A           27 KVVVGQKYMINRLLIGICTG--GHILLEGVPGLAKTLSVNTLAKTM   70 (331)
T ss_dssp             TTCCSCHHHHHHHHHHHHHT--CCEEEESCCCHHHHHHHHHHHHHT
T ss_pred             cceeCcHHHHHHHHHHHHcC--CeEEEECCCCCcHHHHHHHHHHHh
Confidence            45899999999988887654  357799999999999999999876

>3bh0_A DNAB-like replicative helicase; ATPase, replication; 2.35A {Bacillus phage SPP1}

Probab=94.46  E-value=0.12  Score=53.74  Aligned_cols=52  Identities=17%  Similarity=0.182  Sum_probs=38.0

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHHHH
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGRR  202 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~  202 (863)
                      .-.++.|.|.+|+||||+|..++.....  .. ..++|++.-  .+..++...+...
T Consensus        67 ~G~l~li~G~pG~GKTtl~l~ia~~~a~--~g-~~vl~~slE--~s~~~l~~R~~~~  118 (315)
T 3bh0_A           67 RRNFVLIAARPSMGKTAFALKQAKNMSD--ND-DVVNLHSLE--MGKKENIKRLIVT  118 (315)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHHHHHT--TT-CEEEEEESS--SCHHHHHHHHHHH
T ss_pred             CCcEEEEEeCCCCCHHHHHHHHHHHHHH--cC-CeEEEEECC--CCHHHHHHHHHHH
Confidence            4468999999999999999999877622  22 578888755  4566666666554

>2yvu_A Probable adenylyl-sulfate kinase; transferase, structural genomics, NPPSFA, national P protein structural and functional analyses; 2.10A {Aeropyrum pernix}

Probab=94.43  E-value=0.024  Score=54.03  Aligned_cols=26  Identities=35%  Similarity=0.508  Sum_probs=23.6

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ...+|.|.|+.|+||||+++.++...
T Consensus        12 ~~~~i~l~G~~GsGKsT~~~~L~~~l   37 (186)
T 2yvu_A           12 KGIVVWLTGLPGSGKTTIATRLADLL   37 (186)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHHH
Confidence            45689999999999999999999886

>3trf_A Shikimate kinase, SK; amino acid biosynthesis, transferase; 2.60A {Coxiella burnetii}

Probab=94.42  E-value=0.022  Score=54.20  Aligned_cols=25  Identities=28%  Similarity=0.373  Sum_probs=22.8

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          147 VGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      .+.|.|+|+.|+||||+|+.++...
T Consensus         5 ~~~i~l~G~~GsGKst~a~~La~~l   29 (185)
T 3trf_A            5 LTNIYLIGLMGAGKTSVGSQLAKLT   29 (185)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHh
Confidence            4578999999999999999999886

>1fx0_B ATP synthase beta chain; latent ATPase, thermal stability, potential tentoxin binding hydrolase; 3.20A {Spinacia oleracea} SCOP: a.69.1.1 b.49.1.1 c.37.1.11 PDB: 1kmh_B*

Probab=94.41  E-value=0.11  Score=56.42  Aligned_cols=101  Identities=22%  Similarity=0.311  Sum_probs=64.3

Q ss_pred             HHHHhcC-CCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccC-HHHHHHHHHHHhCCC-------Cc
Q 048126          138 VWRCLGE-EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQ-LEKIQEKIGRRIGFL-------DE  208 (863)
Q Consensus       138 l~~~L~~-~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~-~~~~~~~i~~~l~~~-------~~  208 (863)
                      +++.|.. .+-..++|.|..|+|||+|+.++.+...  +.+-+.++|+-+.+... ..++.+.+.+.-...       ..
T Consensus       155 vID~l~pigkGqr~gIfgg~GvGKT~L~~~l~~~~a--~~~~~v~V~~~iGER~rEv~e~~~~~~~~~~l~~~~l~~~rt  232 (498)
T 1fx0_B          155 VVNLLAPYRRGGKIGLFGGAGVGKTVLIMELINNIA--KAHGGVSVFGGVGERTREGNDLYMEMKESGVINEQNIAESKV  232 (498)
T ss_dssp             THHHHSCCCTTCCEEEEECSSSSHHHHHHHHHHHTT--TTCSSCEEEEEESCCSHHHHHHHHHHHHTTSSCSSTTCCCCE
T ss_pred             EeeeecccccCCeEEeecCCCCCchHHHHHHHHHHH--hhCCCEEEEEEcccCcHHHHHHHHhhhcccccccccccccce
Confidence            4455543 3445789999999999999999998752  34457888998888764 567777776542221       00


Q ss_pred             c--c--cCCC------hhHHHHHHHHHhc---cCcEEEEEeccCC
Q 048126          209 S--W--KNGS------LEDKASDILRILS---KKKFLLLLDDIWE  240 (863)
Q Consensus       209 ~--~--~~~~------~~~~~~~l~~~l~---~kr~LlVlDdv~~  240 (863)
                      .  .  ...+      .....-.+.++++   ++.+||++||+..
T Consensus       233 vvV~~t~d~p~~~R~~~~~~altiAEyfrd~~G~dVLl~~DsitR  277 (498)
T 1fx0_B          233 ALVYGQMNEPPGARMRVGLTALTMAEYFRDVNEQDVLLFIDNIFR  277 (498)
T ss_dssp             EEEEECTTSCHHHHTTHHHHHHHTHHHHTTTSCCEEEEEEECSHH
T ss_pred             EEEEeCCCCCHHHHHHHHHHHHHHHHHHHHhcCCcEEEEeccHHH
Confidence            0  0  0111      1122334455665   4789999999854

>1sky_E F1-ATPase, F1-ATP synthase; F1FO ATP synthase, alpha3BETA3 SUBC F1-ATPase, hydrolase; 3.20A {Bacillus SP} SCOP: a.69.1.1 b.49.1.1 c.37.1.11

Probab=94.39  E-value=0.071  Score=57.94  Aligned_cols=91  Identities=18%  Similarity=0.288  Sum_probs=52.0

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccC-HHHHHHHHHHHhCCCC-----ccccCCChhHH---
Q 048126          148 GIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQ-LEKIQEKIGRRIGFLD-----ESWKNGSLEDK---  218 (863)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~-~~~~~~~i~~~l~~~~-----~~~~~~~~~~~---  218 (863)
                      ..++|+|..|+|||||++.+.....  ...-+.++++-+++..+ ..++.+.+...-....     ...........   
T Consensus       152 q~~~i~G~sGvGKTtL~~~l~~~~~--~~~~~i~V~~~iGerttev~el~~~l~~~~~l~~tvvv~~~~~d~pg~r~~~~  229 (473)
T 1sky_E          152 GKIGLFGGAGVGKTVLIQELIHNIA--QEHGGISVFAGVGERTREGNDLYHEMKDSGVISKTAMVFGQMNEPPGARMRVA  229 (473)
T ss_dssp             CEEEEECCSSSCHHHHHHHHHHHHH--HHTCCCEEEEEESSCHHHHHHHHHHHHHTSGGGGEEEEEECTTSCHHHHHHHH
T ss_pred             CEEEEECCCCCCccHHHHHHHhhhh--hccCcEEEEeeeccCchHHHHHHHHhhhcCCcceeEEEEEcCCCCHHHHHHHH
Confidence            4688999999999999999987752  11224567777777653 4455555543210000     00011111111   


Q ss_pred             --HHHHHHHh---ccCcEEEEEeccCC
Q 048126          219 --ASDILRIL---SKKKFLLLLDDIWE  240 (863)
Q Consensus       219 --~~~l~~~l---~~kr~LlVlDdv~~  240 (863)
                        .-.+.+++   +++.+||++||+..
T Consensus       230 ~~~ltiAEyFrd~~G~~VLl~~D~itR  256 (473)
T 1sky_E          230 LTGLTMAEYFRDEQGQDGLLFIDNIFR  256 (473)
T ss_dssp             HHHHHHHHHHHHHSCCEEEEEEECTHH
T ss_pred             HHHHHHHHHHHHhcCCcEEEEeccHHH
Confidence              11233333   57899999999854

>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer, structural genomics; HET: ADP; 2.00A {Pyrococcus horikoshii}

Probab=94.30  E-value=0.1  Score=52.06  Aligned_cols=40  Identities=23%  Similarity=0.194  Sum_probs=29.3

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCC
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSK  188 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~  188 (863)
                      .-.++.|.|.+|+||||||.+++.....   .=..++|++...
T Consensus        22 ~G~~~~i~G~~GsGKTtl~~~~~~~~~~---~~~~v~~~~~e~   61 (247)
T 2dr3_A           22 ERNVVLLSGGPGTGKTIFSQQFLWNGLK---MGEPGIYVALEE   61 (247)
T ss_dssp             TTCEEEEEECTTSSHHHHHHHHHHHHHH---TTCCEEEEESSS
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHHh---cCCeEEEEEccC
Confidence            3468999999999999999988766521   123577877554

>1kag_A SKI, shikimate kinase I; transferase, structural genomics, PSI, protein structure initiative; 2.05A {Escherichia coli} SCOP: c.37.1.2

Probab=94.29  E-value=0.02  Score=53.84  Aligned_cols=24  Identities=33%  Similarity=0.383  Sum_probs=22.2

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          148 GIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      .+|+|+|+.|+||||+++.++...
T Consensus         5 ~~i~l~G~~GsGKSTl~~~La~~l   28 (173)
T 1kag_A            5 RNIFLVGPMGAGKSTIGRQLAQQL   28 (173)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHHT
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHh
Confidence            479999999999999999999876

>1ly1_A Polynucleotide kinase; PNK, phosphatase, transferase; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.1

Probab=94.29  E-value=0.024  Score=53.69  Aligned_cols=22  Identities=32%  Similarity=0.320  Sum_probs=20.6

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHh
Q 048126          148 GIIGLYGMGGVGKTTLLTKINN  169 (863)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~  169 (863)
                      .+|.|.|++|+||||+|+.+..
T Consensus         3 ~~I~i~G~~GsGKST~a~~L~~   24 (181)
T 1ly1_A            3 KIILTIGCPGSGKSTWAREFIA   24 (181)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEecCCCCCHHHHHHHHHh
Confidence            4789999999999999999987

>1kgd_A CASK, peripheral plasma membrane CASK; maguk, guanylate kinase like domain, protein binding; 1.31A {Homo sapiens} SCOP: c.37.1.1

Probab=94.29  E-value=0.024  Score=53.78  Aligned_cols=24  Identities=25%  Similarity=0.393  Sum_probs=22.1

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          148 GIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      .+++|+|+.|+|||||++.+....
T Consensus         6 ~~i~i~GpsGsGKSTL~~~L~~~~   29 (180)
T 1kgd_A            6 KTLVLLGAHGVGRRHIKNTLITKH   29 (180)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHC
T ss_pred             CEEEEECCCCCCHHHHHHHHHhhC
Confidence            589999999999999999998865

>1zp6_A Hypothetical protein ATU3015; alpha-beta protein., structural genomics, PSI, protein struc initiative; 3.20A {Agrobacterium tumefaciens str} SCOP: c.37.1.25

Probab=94.28  E-value=0.025  Score=54.16  Aligned_cols=26  Identities=31%  Similarity=0.344  Sum_probs=22.7

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      .-.+|+|+|+.|+|||||++.++...
T Consensus         8 ~g~~i~l~G~~GsGKSTl~~~La~~~   33 (191)
T 1zp6_A            8 GGNILLLSGHPGSGKSTIAEALANLP   33 (191)
T ss_dssp             TTEEEEEEECTTSCHHHHHHHHHTCS
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHhcc
Confidence            34689999999999999999998754

>3hws_A ATP-dependent CLP protease ATP-binding subunit CL; CLPXP, AAA+ molecular machine, hexamer, asymmetric,, ATP-BIN chaperone, metal-binding; HET: ADP; 3.25A {Escherichia coli} PDB: 3hte_A

Probab=94.22  E-value=0.041  Score=58.83  Aligned_cols=44  Identities=25%  Similarity=0.173  Sum_probs=36.1

Q ss_pred             ccchhHHHHHHHHHhc-------------C--CCccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          128 TVGLESMFDKVWRCLG-------------E--EQVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       128 ~vGr~~~~~~l~~~L~-------------~--~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ++|.+..++.+...+.             .  .....|.++|++|+|||++|+.+++..
T Consensus        17 i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~~~~vll~GppGtGKT~la~~ia~~~   75 (363)
T 3hws_A           17 VIGQEQAKKVLAVAVYNHYKRLRNGDTSNGVELGKSNILLIGPTGSGKTLLAETLARLL   75 (363)
T ss_dssp             CCSCHHHHHHHHHHHHHHHHHHHTTSCSSSCCCCCCCEEEECCTTSSHHHHHHHHHHHT
T ss_pred             ccCHHHHHHHHHHHHHHHHhhhccccccccccCCCCeEEEECCCCCCHHHHHHHHHHHc
Confidence            5899998888888772             1  134568899999999999999999886

>2wsm_A Hydrogenase expression/formation protein (HYPB); metal binding protein; 2.30A {Archaeoglobus fulgidus}

Probab=94.21  E-value=0.03  Score=55.07  Aligned_cols=42  Identities=21%  Similarity=0.310  Sum_probs=32.7

Q ss_pred             chhHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          130 GLESMFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       130 Gr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      +.+...+.+.+.+......+|+|+|.+|+|||||+..+....
T Consensus        13 ~~~~~~~~~~~~~~~~~~~~i~i~G~~g~GKTTl~~~l~~~~   54 (221)
T 2wsm_A           13 ENKRLAEKNREALRESGTVAVNIMGAIGSGKTLLIERTIERI   54 (221)
T ss_dssp             HHHHHHHHHHHHHHHHTCEEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             hcHHHHHHHHHhhcccCceEEEEEcCCCCCHHHHHHHHHHHh
Confidence            334455556655555577899999999999999999998876

>3uie_A Adenylyl-sulfate kinase 1, chloroplastic; rossmann fold, transferase-transferase complex; HET: ADX ANP; 1.79A {Arabidopsis thaliana} SCOP: c.37.1.0 PDB: 4fxp_A*

Probab=94.15  E-value=0.03  Score=54.09  Aligned_cols=27  Identities=33%  Similarity=0.518  Sum_probs=24.4

Q ss_pred             CCccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          145 EQVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       145 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ....+|+|+|+.|+||||+|+.++...
T Consensus        23 ~~g~~i~l~G~sGsGKSTl~~~La~~l   49 (200)
T 3uie_A           23 QKGCVIWVTGLSGSGKSTLACALNQML   49 (200)
T ss_dssp             SCCEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            456799999999999999999999876

>3t61_A Gluconokinase; PSI-biology, structural genomics, protein structure initiati YORK structural genomics research consortium, nysgrc; 2.20A {Sinorhizobium meliloti}

Probab=94.12  E-value=0.024  Score=54.96  Aligned_cols=25  Identities=28%  Similarity=0.426  Sum_probs=23.0

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          147 VGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ..+|+|.|+.|+||||+|+.+....
T Consensus        18 ~~~I~l~G~~GsGKSTla~~L~~~l   42 (202)
T 3t61_A           18 PGSIVVMGVSGSGKSSVGEAIAEAC   42 (202)
T ss_dssp             SSCEEEECSTTSCHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHh
Confidence            4689999999999999999999886

>1nks_A Adenylate kinase; thermophilic, transferase; HET: AMP ADP; 2.57A {Sulfolobus acidocaldarius} SCOP: c.37.1.1

Probab=94.09  E-value=0.028  Score=53.86  Aligned_cols=24  Identities=42%  Similarity=0.576  Sum_probs=22.3

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          148 GIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      .+|.|.|+.|+||||+|+.+....
T Consensus         2 ~~I~i~G~~GsGKsT~~~~L~~~l   25 (194)
T 1nks_A            2 KIGIVTGIPGVGKSTVLAKVKEIL   25 (194)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHH
Confidence            478999999999999999999987

>4eun_A Thermoresistant glucokinase; putative sugar kinase, enzyme function initiative, EFI, STRU genomics, transferase; 1.60A {Janibacter SP}

Probab=94.08  E-value=0.031  Score=54.06  Aligned_cols=27  Identities=26%  Similarity=0.442  Sum_probs=23.5

Q ss_pred             CCccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          145 EQVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       145 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ....+|+|+|+.|+||||+++.++...
T Consensus        27 ~~g~~i~l~G~~GsGKSTl~~~L~~~~   53 (200)
T 4eun_A           27 EPTRHVVVMGVSGSGKTTIAHGVADET   53 (200)
T ss_dssp             -CCCEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHhh
Confidence            345799999999999999999998875

>1kht_A Adenylate kinase; phosphotransferase, signaling protein, transferase; HET: AMP; 2.50A {Methanococcus voltae} SCOP: c.37.1.1 PDB: 3h86_B* 1ki9_A

Probab=94.00  E-value=0.03  Score=53.52  Aligned_cols=24  Identities=29%  Similarity=0.386  Sum_probs=22.3

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          148 GIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      .+|.|.|+.|+||||+|+.+....
T Consensus         4 ~~I~i~G~~GsGKsT~~~~L~~~l   27 (192)
T 1kht_A            4 KVVVVTGVPGVGSTTSSQLAMDNL   27 (192)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHH
Confidence            579999999999999999999876

>2rhm_A Putative kinase; P-loop containing nucleoside triphosphate hydrolases fold, S genomics, joint center for structural genomics, JCSG; HET: MSE; 1.70A {Chloroflexus aurantiacus}

Probab=94.00  E-value=0.033  Score=53.32  Aligned_cols=25  Identities=32%  Similarity=0.365  Sum_probs=22.8

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          147 VGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ..+|.|.|+.|+||||+|+.+....
T Consensus         5 ~~~I~l~G~~GsGKST~~~~L~~~l   29 (193)
T 2rhm_A            5 PALIIVTGHPATGKTTLSQALATGL   29 (193)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHc
Confidence            4689999999999999999999876

>1odf_A YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser2 intergenic region; yeast protein, ATP binding protein; 2.25A {Saccharomyces cerevisiae} SCOP: c.37.1.6

Probab=93.98  E-value=0.045  Score=56.22  Aligned_cols=27  Identities=30%  Similarity=0.235  Sum_probs=23.9

Q ss_pred             CCccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          145 EQVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       145 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ....+|+|+|..|+||||||+.+....
T Consensus        29 ~~~~ii~I~G~sGsGKSTla~~L~~~l   55 (290)
T 1odf_A           29 KCPLFIFFSGPQGSGKSFTSIQIYNHL   55 (290)
T ss_dssp             CSCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            356799999999999999999998776

>1um8_A ATP-dependent CLP protease ATP-binding subunit CL; CLPP binding loop, chaperone; HET: ADP; 2.60A {Helicobacter pylori} SCOP: c.37.1.20

Probab=93.97  E-value=0.052  Score=58.40  Aligned_cols=45  Identities=24%  Similarity=0.193  Sum_probs=35.2

Q ss_pred             CccchhHHHHHHHHHhc------------------------------CCCccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          127 PTVGLESMFDKVWRCLG------------------------------EEQVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       127 ~~vGr~~~~~~l~~~L~------------------------------~~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      .++|.+..++.|...+.                              ......+.++|++|+|||++|+.+++..
T Consensus        22 ~viGq~~ak~~l~~~~~~~~~~~~~g~~~~~~~~~~~~~p~~~~~~~~~~~~~ill~Gp~GtGKT~la~~la~~l   96 (376)
T 1um8_A           22 YVIGQEQAKKVFSVAVYNHYKRLSFKEKLKKQDNQDSNVELEHLEEVELSKSNILLIGPTGSGKTLMAQTLAKHL   96 (376)
T ss_dssp             TCCSCHHHHHHHHHHHHHHHHHHHHHHHHHHHCSHHHHHHHHHHHHTTCCCCCEEEECCTTSSHHHHHHHHHHHT
T ss_pred             HccCcHHHHHHHHHHHHHHHHHHHhhhhhhhccccccccccccccccccCCCCEEEECCCCCCHHHHHHHHHHHh
Confidence            46888888888777662                              0123468899999999999999999876

>3iij_A Coilin-interacting nuclear ATPase protein; alpha and beta proteins (A/B), protein binding, transferase, phosphotransferase; HET: ADP; 1.76A {Homo sapiens} SCOP: c.37.1.1 PDB: 3iik_A 3iil_A* 3iim_A* 1rkb_A

Probab=93.95  E-value=0.029  Score=53.18  Aligned_cols=25  Identities=44%  Similarity=0.450  Sum_probs=22.7

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          147 VGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ..+|.|+|+.|+||||+|+.++...
T Consensus        11 ~~~i~i~G~~GsGKst~~~~l~~~~   35 (180)
T 3iij_A           11 LPNILLTGTPGVGKTTLGKELASKS   35 (180)
T ss_dssp             CCCEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEeCCCCCHHHHHHHHHHHh
Confidence            4578899999999999999999876

>4a1f_A DNAB helicase, replicative DNA helicase; hydrolase, DNA replication, ATPase; HET: FLC; 2.50A {Helicobacter pylori}

Probab=93.90  E-value=0.4  Score=50.00  Aligned_cols=52  Identities=15%  Similarity=0.151  Sum_probs=37.0

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHHHH
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGRR  202 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~  202 (863)
                      .-.++.|.|.+|+||||+|..++.....   .=..++|++.  ..+..++...++..
T Consensus        45 ~G~LiiIaG~pG~GKTt~al~ia~~~a~---~g~~Vl~fSl--Ems~~ql~~Rlls~   96 (338)
T 4a1f_A           45 KGSLVIIGARPSMGKTSLMMNMVLSALN---DDRGVAVFSL--EMSAEQLALRALSD   96 (338)
T ss_dssp             TTCEEEEEECTTSCHHHHHHHHHHHHHH---TTCEEEEEES--SSCHHHHHHHHHHH
T ss_pred             CCcEEEEEeCCCCCHHHHHHHHHHHHHH---cCCeEEEEeC--CCCHHHHHHHHHHH
Confidence            3468999999999999999999888622   2235677665  44566666666544

>1ex7_A Guanylate kinase; substrate-induced FIT, domain movement, GMP, ATP, substrate specificity, X-RAY diffraction, transferase; HET: 5GP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1ex6_A* 1gky_A* 3sqk_A 4f4j_A

Probab=93.88  E-value=0.022  Score=54.02  Aligned_cols=24  Identities=38%  Similarity=0.486  Sum_probs=21.5

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          148 GIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      +.|.|+|+.|+|||||++.+..+.
T Consensus         2 RpIVi~GPSG~GK~Tl~~~L~~~~   25 (186)
T 1ex7_A            2 RPIVISGPSGTGKSTLLKKLFAEY   25 (186)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHC
T ss_pred             CEEEEECCCCCCHHHHHHHHHHhC
Confidence            458899999999999999998876

>3nbx_X ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structure, rossman fold, hydro; HET: ADP; 2.91A {Escherichia coli}

Probab=93.83  E-value=0.04  Score=61.14  Aligned_cols=43  Identities=9%  Similarity=0.033  Sum_probs=37.0

Q ss_pred             CccchhHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          127 PTVGLESMFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       127 ~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      .+||.+..++.+...+..+  .-|.++|++|+|||+||+.+++..
T Consensus        23 ~ivGq~~~i~~l~~al~~~--~~VLL~GpPGtGKT~LAraLa~~l   65 (500)
T 3nbx_X           23 GLYERSHAIRLCLLAALSG--ESVFLLGPPGIAKSLIARRLKFAF   65 (500)
T ss_dssp             TCSSCHHHHHHHHHHHHHT--CEEEEECCSSSSHHHHHHHGGGGB
T ss_pred             hhHHHHHHHHHHHHHHhcC--CeeEeecCchHHHHHHHHHHHHHH
Confidence            4799999999888877654  367799999999999999999876

>1via_A Shikimate kinase; structural genomics, transferase; HET: MSE; 1.57A {Campylobacter jejuni} SCOP: c.37.1.2

Probab=93.82  E-value=0.029  Score=52.88  Aligned_cols=24  Identities=33%  Similarity=0.448  Sum_probs=22.0

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          148 GIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ..|.|.|+.|+||||+|+.++...
T Consensus         5 ~~i~i~G~~GsGKsTla~~La~~l   28 (175)
T 1via_A            5 KNIVFIGFMGSGKSTLARALAKDL   28 (175)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CEEEEEcCCCCCHHHHHHHHHHHc
Confidence            368999999999999999999887

>1knq_A Gluconate kinase; ALFA/beta structure, transferase; 2.00A {Escherichia coli} SCOP: c.37.1.17 PDB: 1ko1_A 1ko4_A 1ko5_A* 1ko8_A* 1kof_A*

Probab=93.80  E-value=0.035  Score=52.27  Aligned_cols=25  Identities=28%  Similarity=0.525  Sum_probs=22.5

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          147 VGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ..+|+|+|+.|+||||+++.+....
T Consensus         8 g~~i~l~G~~GsGKSTl~~~l~~~~   32 (175)
T 1knq_A            8 HHIYVLMGVSGSGKSAVASEVAHQL   32 (175)
T ss_dssp             SEEEEEECSTTSCHHHHHHHHHHHH
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHhh
Confidence            4689999999999999999998765

>3rfe_A Platelet glycoprotein IB beta chain; platelet surface receptor, GPIX, cell adhesion; HET: NAG; 1.25A {Homo sapiens} PDB: 3rez_A*

Probab=93.79  E-value=0.095  Score=46.47  Aligned_cols=34  Identities=24%  Similarity=0.450  Sum_probs=19.9

Q ss_pred             ccceEEccCCccccccchhhhcCCCccEEEccCC
Q 048126          517 HLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNN  550 (863)
Q Consensus       517 ~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~  550 (863)
                      +|+.|+|++|.++.++...|..+++|++|+|++|
T Consensus        32 ~l~~L~Ls~N~l~~l~~~~f~~l~~L~~L~L~~N   65 (130)
T 3rfe_A           32 DTTELVLTGNNLTALPPGLLDALPALRTAHLGAN   65 (130)
T ss_dssp             TCSEEECTTSCCSSCCTTTGGGCTTCCEEECCSS
T ss_pred             CCCEEECCCCcCCccChhhhhhccccCEEEecCC
Confidence            4555666666555555555555555555555555

>2jaq_A Deoxyguanosine kinase; transferase, deoxyribonucleoside kinase; HET: DCP; 2.3A {Mycoplasma mycoides subsp} PDB: 2jat_A* 2jas_A*

Probab=93.78  E-value=0.035  Score=53.75  Aligned_cols=23  Identities=39%  Similarity=0.709  Sum_probs=21.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 048126          149 IIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      .|+|.|+.|+||||+|+.++...
T Consensus         2 ~I~i~G~~GsGKsT~~~~L~~~l   24 (205)
T 2jaq_A            2 KIAIFGTVGAGKSTISAEISKKL   24 (205)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHH
T ss_pred             EEEEECCCccCHHHHHHHHHHhc
Confidence            68999999999999999999987

>2bbw_A Adenylate kinase 4, AK4; nucleotide kinase, nucleotide binding, human, structura genomics, structural genomics consortium, SGC, transferase; HET: GP5; 2.05A {Homo sapiens} PDB: 2ar7_A* 3ndp_A

Probab=93.76  E-value=0.037  Score=55.55  Aligned_cols=26  Identities=23%  Similarity=0.319  Sum_probs=23.5

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ...+|+|+|+.|+||||+++.++...
T Consensus        26 ~~~~i~l~G~~GsGKSTl~k~La~~l   51 (246)
T 2bbw_A           26 KLLRAVILGPPGSGKGTVCQRIAQNF   51 (246)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            35799999999999999999999776

>2c95_A Adenylate kinase 1; transferase, AP4A, nucleotide kinase, transferase ATP-bindi; HET: B4P; 1.71A {Homo sapiens} PDB: 1z83_A* 3adk_A

Probab=93.74  E-value=0.038  Score=53.06  Aligned_cols=26  Identities=38%  Similarity=0.378  Sum_probs=23.5

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ...+|+|.|+.|+||||+|+.++...
T Consensus         8 ~~~~I~l~G~~GsGKsT~~~~La~~l   33 (196)
T 2c95_A            8 KTNIIFVVGGPGSGKGTQCEKIVQKY   33 (196)
T ss_dssp             TSCEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHh
Confidence            44689999999999999999999876

>2ze6_A Isopentenyl transferase; crown GALL tumor, cytokinin biosynthesis; HET: DST AMP; 2.10A {Agrobacterium tumefaciens} PDB: 2ze5_A* 2ze7_A* 2ze8_A

Probab=93.74  E-value=0.034  Score=55.98  Aligned_cols=24  Identities=25%  Similarity=0.302  Sum_probs=22.2

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          148 GIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      .+|.|.|+.|+||||||+.++...
T Consensus         2 ~li~I~G~~GSGKSTla~~La~~~   25 (253)
T 2ze6_A            2 LLHLIYGPTCSGKTDMAIQIAQET   25 (253)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             eEEEEECCCCcCHHHHHHHHHhcC
Confidence            478999999999999999999886

>1zuh_A Shikimate kinase; alpha-beta protein, transferase; 1.80A {Helicobacter pylori} PDB: 1zui_A* 3hr7_A 3muf_A* 3mrs_A 3n2e_A*

Probab=93.73  E-value=0.037  Score=51.69  Aligned_cols=25  Identities=28%  Similarity=0.429  Sum_probs=22.6

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          147 VGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ..+|+|.|+.|+||||+|+.++...
T Consensus         7 ~~~i~l~G~~GsGKSTva~~La~~l   31 (168)
T 1zuh_A            7 MQHLVLIGFMGSGKSSLAQELGLAL   31 (168)
T ss_dssp             -CEEEEESCTTSSHHHHHHHHHHHH
T ss_pred             cceEEEECCCCCCHHHHHHHHHHHh
Confidence            4689999999999999999999886

>3tau_A Guanylate kinase, GMP kinase; structural genomics, center for structural genomics of infec diseases, csgid, putative guanylate kinase; HET: MSE; 2.05A {Listeria monocytogenes}

Probab=93.73  E-value=0.039  Score=53.69  Aligned_cols=26  Identities=31%  Similarity=0.300  Sum_probs=23.5

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ...+|+|+|+.|+|||||++.+....
T Consensus         7 ~g~~i~l~GpsGsGKsTl~~~L~~~~   32 (208)
T 3tau_A            7 RGLLIVLSGPSGVGKGTVREAVFKDP   32 (208)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHHST
T ss_pred             CCcEEEEECcCCCCHHHHHHHHHhhC
Confidence            45689999999999999999999876

>3rfe_A Platelet glycoprotein IB beta chain; platelet surface receptor, GPIX, cell adhesion; HET: NAG; 1.25A {Homo sapiens} PDB: 3rez_A*

Probab=93.72  E-value=0.07  Score=47.31  Aligned_cols=53  Identities=23%  Similarity=0.293  Sum_probs=24.7

Q ss_pred             eEEccCCCcc--ccchhhhcCCCCCEEecCCccccCCCcHHHhhcCCCCcEEEeeccc
Q 048126          568 HLDLSGTAIT--HLPIELQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRILKSN  623 (863)
Q Consensus       568 ~L~L~~~~l~--~lp~~~~~l~~L~~L~l~~~~~l~~lp~~~~~~L~~L~~L~l~~~~  623 (863)
                      .++.+++.++  .+|..+.  .+|++|+|++| .++.+|.+.+..+++|+.|++.+|.
T Consensus        12 ~v~Cs~~~L~~~~vP~~lp--~~l~~L~Ls~N-~l~~l~~~~f~~l~~L~~L~L~~NP   66 (130)
T 3rfe_A           12 LVDCGRRGLTWASLPTAFP--VDTTELVLTGN-NLTALPPGLLDALPALRTAHLGANP   66 (130)
T ss_dssp             EEECCSSCCCTTTSCSCCC--TTCSEEECTTS-CCSSCCTTTGGGCTTCCEEECCSSC
T ss_pred             EEEeCCCCCccccCCCCCC--cCCCEEECCCC-cCCccChhhhhhccccCEEEecCCC
Confidence            3444444444  4443221  24555555554 3445554444555555555555443

>2j37_W Signal recognition particle 54 kDa protein (SRP54); ribosome, SRP, translation/RNA; 8.00A {Canis SP} PDB: 1wgw_A

Probab=93.71  E-value=0.37  Score=53.26  Aligned_cols=26  Identities=31%  Similarity=0.445  Sum_probs=22.4

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ..++|+|+|.+|+||||++..++...
T Consensus       100 ~~~vI~ivG~~GvGKTTl~~kLA~~l  125 (504)
T 2j37_W          100 KQNVIMFVGLQGSGKTTTCSKLAYYY  125 (504)
T ss_dssp             --EEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            35699999999999999999998776

>1y63_A LMAJ004144AAA protein; structural genomics, protein structure initiative, PSI, SGPP structural genomics of pathogenic protozoa consortium; HET: ADP; 1.70A {Leishmania major} SCOP: c.37.1.1

Probab=93.70  E-value=0.04  Score=52.44  Aligned_cols=25  Identities=28%  Similarity=0.280  Sum_probs=22.6

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhh
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNK  170 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~  170 (863)
                      ....|+|+|+.|+||||+|+.+...
T Consensus         9 ~~~~I~l~G~~GsGKSTv~~~La~~   33 (184)
T 1y63_A            9 KGINILITGTPGTGKTSMAEMIAAE   33 (184)
T ss_dssp             SSCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHh
Confidence            3468999999999999999999987

>3tr0_A Guanylate kinase, GMP kinase; purines, pyrimidines, nucleosides, nucleotides, transferase; HET: 5GP; 1.85A {Coxiella burnetii}

Probab=93.70  E-value=0.035  Score=53.75  Aligned_cols=25  Identities=24%  Similarity=0.400  Sum_probs=22.4

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          147 VGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      -.+++|+|+.|+|||||++.+....
T Consensus         7 g~ii~l~Gp~GsGKSTl~~~L~~~~   31 (205)
T 3tr0_A            7 ANLFIISAPSGAGKTSLVRALVKAL   31 (205)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHS
T ss_pred             CcEEEEECcCCCCHHHHHHHHHhhC
Confidence            3589999999999999999998764

>1g8p_A Magnesium-chelatase 38 kDa subunit; parallel beta sheet, P-loop, rossman fold, AAA+, photosynthesis, metal transport; 2.10A {Rhodobacter capsulatus} SCOP: c.37.1.20 PDB: 2x31_G

Probab=93.68  E-value=0.027  Score=59.95  Aligned_cols=46  Identities=24%  Similarity=0.306  Sum_probs=34.7

Q ss_pred             CCccchhHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          126 EPTVGLESMFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ..++|.+..++.+...+......-+.|+|.+|+|||++|+.+++..
T Consensus        24 ~~i~G~~~~~~~l~~~~~~~~~~~vLl~G~~GtGKT~la~~la~~~   69 (350)
T 1g8p_A           24 SAIVGQEDMKLALLLTAVDPGIGGVLVFGDRGTGKSTAVRALAALL   69 (350)
T ss_dssp             GGSCSCHHHHHHHHHHHHCGGGCCEEEECCGGGCTTHHHHHHHHHS
T ss_pred             hhccChHHHHHHHHHHhhCCCCceEEEECCCCccHHHHHHHHHHhC
Confidence            4578998876665544433333348899999999999999999876

>2qor_A Guanylate kinase; phosphotransferase, purine metabolism, structural genomics, structural genomics of pathogenic protozoa consortium; HET: 5GP POP; 1.80A {Plasmodium vivax}

Probab=93.68  E-value=0.033  Score=54.07  Aligned_cols=26  Identities=31%  Similarity=0.530  Sum_probs=23.2

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ...+|+|+|+.|+||||+++.+....
T Consensus        11 ~~~~i~l~G~sGsGKsTl~~~L~~~~   36 (204)
T 2qor_A           11 RIPPLVVCGPSGVGKGTLIKKVLSEF   36 (204)
T ss_dssp             CCCCEEEECCTTSCHHHHHHHHHHHC
T ss_pred             cCCEEEEECCCCCCHHHHHHHHHHhC
Confidence            34689999999999999999998876

>1pgv_A TMD-1, tropomodulin TMD-1; structural genomics, PSI, protein structure initiative, southeast collaboratory for structural genomics secsg; 1.80A {Caenorhabditis elegans} SCOP: c.10.1.1

Probab=93.65  E-value=0.14  Score=48.83  Aligned_cols=39  Identities=10%  Similarity=0.061  Sum_probs=19.6

Q ss_pred             cCCCCcEEEeeccccccCchhhHHHHHcCCccCceEEEE
Q 048126          610 AFSKLQVLRILKSNVLFGGHQFLVEELMGMKHLMALTIT  648 (863)
Q Consensus       610 ~L~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~~L~l~  648 (863)
                      .-+.|++|++..|.+...+.......|..-+.|+.|+++
T Consensus        96 ~N~tL~~L~L~~N~Ig~~Ga~ala~aL~~N~tL~~L~L~  134 (197)
T 1pgv_A           96 TSPSLRVLNVESNFLTPELLARLLRSTLVTQSIVEFKAD  134 (197)
T ss_dssp             HCSSCCEEECCSSBCCHHHHHHHHHHTTTTCCCSEEECC
T ss_pred             cCCccCeEecCCCcCCHHHHHHHHHHHhhCCceeEEECC
Confidence            334555555555554433223344445554556666664

>2bdt_A BH3686; alpha-beta protein, structural genomics, PSI, protein struct initiative, northeast structural genomics consortium, NESG, function; 2.40A {Bacillus halodurans} SCOP: c.37.1.25

Probab=93.62  E-value=0.038  Score=52.82  Aligned_cols=23  Identities=26%  Similarity=0.430  Sum_probs=20.8

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHhh
Q 048126          148 GIIGLYGMGGVGKTTLLTKINNK  170 (863)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~  170 (863)
                      .+++|+|+.|+||||+++.+...
T Consensus         3 ~ii~l~G~~GaGKSTl~~~L~~~   25 (189)
T 2bdt_A            3 KLYIITGPAGVGKSTTCKRLAAQ   25 (189)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCcHHHHHHHHhcc
Confidence            47899999999999999999863

>1tev_A UMP-CMP kinase; ploop, NMP binding region, LID region, conformational changes, transferase; 2.10A {Homo sapiens} SCOP: c.37.1.1

Probab=93.59  E-value=0.04  Score=52.80  Aligned_cols=25  Identities=28%  Similarity=0.296  Sum_probs=22.6

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          147 VGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ..+|+|.|+.|+||||+|+.+....
T Consensus         3 ~~~I~l~G~~GsGKsT~a~~L~~~~   27 (196)
T 1tev_A            3 PLVVFVLGGPGAGKGTQCARIVEKY   27 (196)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHHh
Confidence            3579999999999999999999876

>1ukz_A Uridylate kinase; transferase; HET: ADP AMP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1uky_A*

Probab=93.58  E-value=0.043  Score=53.09  Aligned_cols=26  Identities=35%  Similarity=0.405  Sum_probs=23.5

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ...+|+|.|+.|+||||+|+.+++..
T Consensus        14 ~~~~I~l~G~~GsGKsT~~~~L~~~~   39 (203)
T 1ukz_A           14 QVSVIFVLGGPGAGKGTQCEKLVKDY   39 (203)
T ss_dssp             TCEEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHc
Confidence            45789999999999999999999875

>2iyv_A Shikimate kinase, SK; transferase, aromatic amino acid biosynthesis, P-loop kinase, metal- binding, shikimate pathway; HET: ADP; 1.35A {Mycobacterium tuberculosis} SCOP: c.37.1.2 PDB: 2iyr_A* 2iyq_A* 2iyt_A 2iyu_A* 2iys_A* 2iyw_A* 2iyx_A* 2iyy_A* 2iyz_A* 2g1k_A* 1l4y_A* 1u8a_A* 1we2_A* 1zyu_A* 2dfn_A* 2dft_A* 2g1j_A 1l4u_A* 3baf_A*

Probab=93.54  E-value=0.032  Score=53.06  Aligned_cols=24  Identities=29%  Similarity=0.419  Sum_probs=22.0

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          148 GIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      .+|.|.|++|+||||+|+.+....
T Consensus         3 ~~I~l~G~~GsGKsT~a~~La~~l   26 (184)
T 2iyv_A            3 PKAVLVGLPGSGKSTIGRRLAKAL   26 (184)
T ss_dssp             CSEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHc
Confidence            368999999999999999999876

>1ye8_A Protein THEP1, hypothetical UPF0334 kinase-like protein AQ_1292; mixed alpha-beta protein, rossman fold, signaling protein, transferase; 1.40A {Aquifex aeolicus} SCOP: c.37.1.11

Probab=93.52  E-value=0.041  Score=51.95  Aligned_cols=23  Identities=52%  Similarity=0.647  Sum_probs=21.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 048126          149 IIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      .++|+|+.|+|||||++.++...
T Consensus         2 ~i~l~G~nGsGKTTLl~~l~g~l   24 (178)
T 1ye8_A            2 KIIITGEPGVGKTTLVKKIVERL   24 (178)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            58999999999999999998876

>3umf_A Adenylate kinase; rossmann fold, transferase; 2.05A {Schistosoma mansoni}

Probab=93.50  E-value=0.044  Score=53.41  Aligned_cols=27  Identities=30%  Similarity=0.359  Sum_probs=24.7

Q ss_pred             CCccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          145 EQVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       145 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      .+.++|.|.|++|+||||.|+.+++.+
T Consensus        27 ~k~kiI~llGpPGsGKgTqa~~L~~~~   53 (217)
T 3umf_A           27 AKAKVIFVLGGPGSGKGTQCEKLVQKF   53 (217)
T ss_dssp             TSCEEEEEECCTTCCHHHHHHHHHHHH
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            356899999999999999999999987

>1uf9_A TT1252 protein; P-loop, nucleotide binding domain, structural genomics, riken structural genomics/proteomics initiative, RSGI; HET: ATP; 2.80A {Thermus thermophilus} SCOP: c.37.1.1

Probab=93.50  E-value=0.045  Score=52.85  Aligned_cols=26  Identities=31%  Similarity=0.392  Sum_probs=23.0

Q ss_pred             CCccEEEEEcCCCCcHHHHHHHHHhh
Q 048126          145 EQVGIIGLYGMGGVGKTTLLTKINNK  170 (863)
Q Consensus       145 ~~~~vi~I~G~gGiGKTtLa~~v~~~  170 (863)
                      .+..+|+|+|+.|+||||+|+.+...
T Consensus         6 ~~~~~I~i~G~~GsGKST~~~~La~~   31 (203)
T 1uf9_A            6 KHPIIIGITGNIGSGKSTVAALLRSW   31 (203)
T ss_dssp             CCCEEEEEEECTTSCHHHHHHHHHHT
T ss_pred             cCceEEEEECCCCCCHHHHHHHHHHC
Confidence            35679999999999999999999864

>2if2_A Dephospho-COA kinase; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative, northeast structural genomics consortium, NESG; 3.00A {Aquifex aeolicus}

Probab=93.49  E-value=0.04  Score=53.37  Aligned_cols=22  Identities=36%  Similarity=0.469  Sum_probs=20.5

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHh
Q 048126          148 GIIGLYGMGGVGKTTLLTKINN  169 (863)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~  169 (863)
                      .+|+|+|+.|+||||+++.+..
T Consensus         2 ~~i~i~G~~GsGKSTl~~~L~~   23 (204)
T 2if2_A            2 KRIGLTGNIGCGKSTVAQMFRE   23 (204)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCcCHHHHHHHHHH
Confidence            4799999999999999999987

>1tue_A Replication protein E1; helicase, replication, E1E2 complex, AAA+ protein; 2.10A {Human papillomavirus type 18} SCOP: c.37.1.20

Probab=93.47  E-value=0.059  Score=51.39  Aligned_cols=37  Identities=11%  Similarity=0.103  Sum_probs=28.1

Q ss_pred             HHHHHHHhcC-CCccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          135 FDKVWRCLGE-EQVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       135 ~~~l~~~L~~-~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      +..+..++.. +..+.+.|+|++|+||||+|..+++..
T Consensus        45 ~~~l~~~~~~iPkkn~ili~GPPGtGKTt~a~ala~~l   82 (212)
T 1tue_A           45 LGALKSFLKGTPKKNCLVFCGPANTGKSYFGMSFIHFI   82 (212)
T ss_dssp             HHHHHHHHHTCTTCSEEEEESCGGGCHHHHHHHHHHHH
T ss_pred             HHHHHHHHhcCCcccEEEEECCCCCCHHHHHHHHHHHh
Confidence            4445555543 233579999999999999999999887

>3fwy_A Light-independent protochlorophyllide reductase I ATP-binding protein; BCHL, electron donor, DPOR, Fe protein, nitrogenase; HET: ADP; 1.63A {Rhodobacter sphaeroides 2}

Probab=93.46  E-value=0.041  Score=57.24  Aligned_cols=41  Identities=20%  Similarity=0.324  Sum_probs=30.1

Q ss_pred             CCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCC
Q 048126          145 EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSK  188 (863)
Q Consensus       145 ~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~  188 (863)
                      ++.+||+|.|-|||||||.|..++--..+  ..+ .+.-|.+..
T Consensus        46 ~~aKVIAIaGKGGVGKTTtavNLA~aLA~--~Gk-kVllID~Dp   86 (314)
T 3fwy_A           46 TGAKVFAVYGKGGIGKSTTSSNLSAAFSI--LGK-RVLQIGCDP   86 (314)
T ss_dssp             -CCEEEEEECSTTSSHHHHHHHHHHHHHH--TTC-CEEEEEESS
T ss_pred             CCceEEEEECCCccCHHHHHHHHHHHHHH--CCC-eEEEEecCC
Confidence            46789999999999999999988777632  222 366666653

>2bwj_A Adenylate kinase 5; phosphoryl transfer reaction, transferase; HET: AMP; 2.3A {Homo sapiens}

Probab=93.43  E-value=0.043  Score=52.82  Aligned_cols=25  Identities=36%  Similarity=0.359  Sum_probs=23.0

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          147 VGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ..+|+|.|+.|+||||+|+.+....
T Consensus        12 ~~~I~l~G~~GsGKsT~a~~L~~~l   36 (199)
T 2bwj_A           12 CKIIFIIGGPGSGKGTQCEKLVEKY   36 (199)
T ss_dssp             SCEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHh
Confidence            3589999999999999999999886

>1cke_A CK, MSSA, protein (cytidine monophosphate kinase); nucleotide monophosphate kinase,, transferase; 1.75A {Escherichia coli} SCOP: c.37.1.1 PDB: 1kdo_A* 1kdp_A* 1kdr_A* 1kdt_A* 2cmk_A* 2fem_A 2feo_A*

Probab=93.43  E-value=0.042  Score=54.26  Aligned_cols=24  Identities=33%  Similarity=0.498  Sum_probs=22.3

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          148 GIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      .+|+|+|+.|+||||+|+.+....
T Consensus         6 ~~i~i~G~~GsGKSTl~~~L~~~~   29 (227)
T 1cke_A            6 PVITIDGPSGAGKGTLCKAMAEAL   29 (227)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            589999999999999999999876

>1e6c_A Shikimate kinase; phosphoryl transfer, ADP, shikimate pathway, P-loop protein, transferase; 1.8A {Erwinia chrysanthemi} SCOP: c.37.1.2 PDB: 1shk_A 2shk_A*

Probab=93.40  E-value=0.038  Score=51.87  Aligned_cols=24  Identities=29%  Similarity=0.329  Sum_probs=22.1

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          148 GIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      .+|.|.|+.|+||||+|+.+....
T Consensus         3 ~~I~l~G~~GsGKsT~a~~La~~l   26 (173)
T 1e6c_A            3 EPIFMVGARGCGMTTVGRELARAL   26 (173)
T ss_dssp             CCEEEESCTTSSHHHHHHHHHHHH
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHh
Confidence            468999999999999999999876

>2j41_A Guanylate kinase; GMP, GMK, transferase, ATP-binding, nucleotide- binding; HET: 5GP; 1.9A {Staphylococcus aureus}

Probab=93.36  E-value=0.049  Score=52.77  Aligned_cols=25  Identities=36%  Similarity=0.349  Sum_probs=22.5

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          147 VGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ..+|+|+|+.|+||||+++.+....
T Consensus         6 g~~i~l~G~~GsGKSTl~~~L~~~~   30 (207)
T 2j41_A            6 GLLIVLSGPSGVGKGTVRKRIFEDP   30 (207)
T ss_dssp             CCEEEEECSTTSCHHHHHHHHHHCT
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHhh
Confidence            4589999999999999999998765

>3cm0_A Adenylate kinase; ATP-binding, cytoplasm, nucleotide biosynthesis, nucleotide-binding, transferase, structural genomics; 1.80A {Thermus thermophilus}

Probab=93.35  E-value=0.046  Score=52.02  Aligned_cols=24  Identities=25%  Similarity=0.405  Sum_probs=22.1

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          148 GIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ..|++.|+.|+||||+|+.+++..
T Consensus         5 ~~I~l~G~~GsGKST~~~~La~~l   28 (186)
T 3cm0_A            5 QAVIFLGPPGAGKGTQASRLAQEL   28 (186)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            478999999999999999999876

>3asz_A Uridine kinase; cytidine phosphorylation, transferase; HET: C5P; 2.25A {Thermus thermophilus} PDB: 3asy_A*

Probab=93.34  E-value=0.047  Score=53.21  Aligned_cols=26  Identities=35%  Similarity=0.442  Sum_probs=23.3

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ...+|+|+|+.|+|||||++.+....
T Consensus         5 ~~~~i~i~G~~GsGKSTl~~~l~~~~   30 (211)
T 3asz_A            5 KPFVIGIAGGTASGKTTLAQALARTL   30 (211)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CcEEEEEECCCCCCHHHHHHHHHHHh
Confidence            44689999999999999999998875

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli}

Probab=93.29  E-value=0.18  Score=64.53  Aligned_cols=86  Identities=15%  Similarity=0.163  Sum_probs=56.6

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHHHHhCCCCccc---cCCChhHHHHHH
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGRRIGFLDESW---KNGSLEDKASDI  222 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~---~~~~~~~~~~~l  222 (863)
                      ..+.|.|+|++|+|||+||.+++....  +.. ..++|+++...++...     ++.++...+..   ...+.++....+
T Consensus      1426 ~g~~vll~GppGtGKT~LA~ala~ea~--~~G-~~v~Fi~~e~~~~~l~-----a~~~G~dl~~l~v~~~~~~E~~l~~~ 1497 (2050)
T 3cmu_A         1426 MGRIVEIYGPESSGKTTLTLQVIAAAQ--REG-KTCAFIDAEHALDPIY-----ARKLGVDIDNLLCSQPDTGEQALEIC 1497 (2050)
T ss_dssp             TTSEEEEECCTTSSHHHHHHHHHHHHH--TTT-CCEEEECTTSCCCHHH-----HHHTTCCTTTCEEECCSSHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHH--HcC-CcEEEEEcccccCHHH-----HHHcCCCchhceeecCChHHHHHHHH
Confidence            567999999999999999999988762  122 3578888877766555     44555332111   122334445555


Q ss_pred             HHHhc-cCcEEEEEeccC
Q 048126          223 LRILS-KKKFLLLLDDIW  239 (863)
Q Consensus       223 ~~~l~-~kr~LlVlDdv~  239 (863)
                      .+..+ .+.-+||+|.+.
T Consensus      1498 ~~lvr~~~~~lVVIDsi~ 1515 (2050)
T 3cmu_A         1498 DALARSGAVDVIVVDSVA 1515 (2050)
T ss_dssp             HHHHHHTCCSEEEESCGG
T ss_pred             HHHHhcCCCCEEEEcChh
Confidence            54443 466799999995

>3a4m_A L-seryl-tRNA(SEC) kinase; P-loop motif, walker A motif, ATP binding motif, ATP- binding, nucleotide-binding, transferase; HET: ADP; 1.79A {Methanocaldococcus jannaschii} PDB: 3a4l_A* 3a4n_A 3am1_A* 3add_A* 3adc_A* 3adb_A*

Probab=93.26  E-value=0.049  Score=55.15  Aligned_cols=25  Identities=36%  Similarity=0.555  Sum_probs=22.7

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          147 VGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ..+|.|.|++|+||||+|+.+....
T Consensus         4 ~~lIvl~G~pGSGKSTla~~La~~L   28 (260)
T 3a4m_A            4 IMLIILTGLPGVGKSTFSKNLAKIL   28 (260)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHH
Confidence            4689999999999999999999874

>1gvn_B Zeta; postsegregational killing system, plasmid; 1.95A {Streptococcus pyogenes} SCOP: c.37.1.21 PDB: 3q8x_B*

Probab=93.24  E-value=0.071  Score=54.73  Aligned_cols=26  Identities=31%  Similarity=0.272  Sum_probs=23.1

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ...+|.|.|++|+||||+|+.+....
T Consensus        32 ~~~livl~G~sGsGKSTla~~L~~~~   57 (287)
T 1gvn_B           32 SPTAFLLGGQPGSGKTSLRSAIFEET   57 (287)
T ss_dssp             SCEEEEEECCTTSCTHHHHHHHHHHT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            35689999999999999999998875

>2plr_A DTMP kinase, probable thymidylate kinase; TMP-binding, ATP-binding, structural GEN NPPSFA; HET: 1PE PGE EPE PG4; 1.60A {Sulfolobus tokodaii}

Probab=93.23  E-value=0.051  Score=52.89  Aligned_cols=24  Identities=25%  Similarity=0.468  Sum_probs=22.6

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          148 GIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      .+|+|.|+.|+||||+|+.+....
T Consensus         5 ~~I~i~G~~GsGKsT~~~~L~~~l   28 (213)
T 2plr_A            5 VLIAFEGIDGSGKSSQATLLKDWI   28 (213)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             eEEEEEcCCCCCHHHHHHHHHHHH
Confidence            579999999999999999999987

>2vli_A Antibiotic resistance protein; transferase, tunicamycin, phosphotransferase; 1.95A {Deinococcus radiodurans}

Probab=93.23  E-value=0.034  Score=52.74  Aligned_cols=25  Identities=36%  Similarity=0.437  Sum_probs=18.7

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          147 VGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ..+|.|.|+.|+||||+|+.+....
T Consensus         5 ~~~I~l~G~~GsGKST~a~~La~~l   29 (183)
T 2vli_A            5 SPIIWINGPFGVGKTHTAHTLHERL   29 (183)
T ss_dssp             CCEEEEECCC----CHHHHHHHHHS
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHhc
Confidence            4589999999999999999999876

>2qt1_A Nicotinamide riboside kinase 1; non-protein kinase, NAD+, NRK1, nicotinic acid riboside kinase activity, NAD biosynthesis; HET: NNR; 1.32A {Homo sapiens} PDB: 2qsy_A* 2qsz_A* 2qt0_A* 2p0e_A* 2qg6_A* 2ql6_A*

Probab=93.23  E-value=0.05  Score=52.85  Aligned_cols=26  Identities=38%  Similarity=0.586  Sum_probs=22.8

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ...+|+|+|+.|+||||+|+.+....
T Consensus        20 ~~~~i~i~G~~GsGKSTl~~~L~~~~   45 (207)
T 2qt1_A           20 KTFIIGISGVTNSGKTTLAKNLQKHL   45 (207)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHTTS
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHhc
Confidence            45689999999999999999998754

>4gp7_A Metallophosphoesterase; polynucleotide kinase phosphatase, RNA repair, transferase; HET: ATP CIT; 2.00A {Clostridium thermocellum} PDB: 4gp6_A*

Probab=93.18  E-value=0.038  Score=51.87  Aligned_cols=23  Identities=30%  Similarity=0.488  Sum_probs=19.7

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHH
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKIN  168 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~  168 (863)
                      .-.+++|+|+.|+|||||++.++
T Consensus         8 ~gei~~l~G~nGsGKSTl~~~~~   30 (171)
T 4gp7_A            8 ELSLVVLIGSSGSGKSTFAKKHF   30 (171)
T ss_dssp             SSEEEEEECCTTSCHHHHHHHHS
T ss_pred             CCEEEEEECCCCCCHHHHHHHHc
Confidence            34689999999999999999643

>1jjv_A Dephospho-COA kinase; P-loop nucleotide-binding fold, structure 2 function project, S2F, structural genomics, transferase; HET: ATP; 2.00A {Haemophilus influenzae} SCOP: c.37.1.1

Probab=93.17  E-value=0.046  Score=53.06  Aligned_cols=22  Identities=41%  Similarity=0.523  Sum_probs=20.3

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHh
Q 048126          148 GIIGLYGMGGVGKTTLLTKINN  169 (863)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~  169 (863)
                      .+|+|+|+.|+||||+++.+..
T Consensus         3 ~~i~l~G~~GsGKST~~~~La~   24 (206)
T 1jjv_A            3 YIVGLTGGIGSGKTTIANLFTD   24 (206)
T ss_dssp             EEEEEECSTTSCHHHHHHHHHT
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            4799999999999999999976

>2pt5_A Shikimate kinase, SK; aromatic amino acid biosynthesis, P-loop kinase, SHI kinase, shikimate pathway; 2.10A {Aquifex aeolicus}

Probab=93.17  E-value=0.051  Score=50.63  Aligned_cols=23  Identities=30%  Similarity=0.310  Sum_probs=21.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 048126          149 IIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      .|+|.|+.|+||||+|+.+.+..
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~l   24 (168)
T 2pt5_A            2 RIYLIGFMCSGKSTVGSLLSRSL   24 (168)
T ss_dssp             EEEEESCTTSCHHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHHh
Confidence            58999999999999999999876

>3cf2_A TER ATPase, transitional endoplasmic reticulum ATPase, valosi; AAA, CDC48, ERAD, transport protein; HET: ADP ANP; 3.50A {Mus musculus} PDB: 3cf1_A* 3cf3_A* 1r7r_A*

Probab=93.16  E-value=0.39  Score=56.19  Aligned_cols=92  Identities=18%  Similarity=0.212  Sum_probs=56.4

Q ss_pred             CCccchhHHHHHHHHHhcC-------------CCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCH
Q 048126          126 EPTVGLESMFDKVWRCLGE-------------EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQL  192 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~-------------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~  192 (863)
                      ..+.|.++.+++|.+.+.-             ...+-|.++|++|.|||.+|+++++..   ..     -++.++.    
T Consensus       477 ~diggl~~~k~~l~e~v~~p~~~p~~f~~~g~~~~~gvLl~GPPGtGKT~lAkaiA~e~---~~-----~f~~v~~----  544 (806)
T 3cf2_A          477 EDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANEC---QA-----NFISIKG----  544 (806)
T ss_dssp             TTCCSCHHHHHHHTTTTTTTTTCSGGGSSSCCCCCSCCEEESSTTSSHHHHHHHHHHTT---TC-----EEEECCH----
T ss_pred             HHhCCHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCceEEEecCCCCCchHHHHHHHHHh---CC-----ceEEecc----
Confidence            3456888888888776531             123457899999999999999999987   22     2333321    


Q ss_pred             HHHHHHHHHHhCCCCccccCCChhHHHHHHHHHhccCcEEEEEeccCC
Q 048126          193 EKIQEKIGRRIGFLDESWKNGSLEDKASDILRILSKKKFLLLLDDIWE  240 (863)
Q Consensus       193 ~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~  240 (863)
                      .++    +..       +...+...+...+...-+..+.+|++|+++.
T Consensus       545 ~~l----~s~-------~vGese~~vr~lF~~Ar~~~P~IifiDEiDs  581 (806)
T 3cf2_A          545 PEL----LTM-------WFGESEANVREIFDKARQAAPCVLFFDELDS  581 (806)
T ss_dssp             HHH----HTT-------TCSSCHHHHHHHHHHHHTTCSEEEECSCGGG
T ss_pred             chh----hcc-------ccchHHHHHHHHHHHHHHcCCceeechhhhH
Confidence            121    111       1222333333333333345789999999864

>1lvg_A Guanylate kinase, GMP kinase; transferase; HET: ADP 5GP; 2.10A {Mus musculus} SCOP: c.37.1.1

Probab=93.16  E-value=0.041  Score=53.06  Aligned_cols=24  Identities=38%  Similarity=0.479  Sum_probs=21.9

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          148 GIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ++++|+|+.|+|||||++.+....
T Consensus         5 ~~i~lvGpsGaGKSTLl~~L~~~~   28 (198)
T 1lvg_A            5 RPVVLSGPSGAGKSTLLKKLFQEH   28 (198)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHhhC
Confidence            578999999999999999998765

>3ney_A 55 kDa erythrocyte membrane protein; structural genomics consortium, SGC, 55 kDa erythrocyte MEMB protein; 2.26A {Homo sapiens} SCOP: c.37.1.0

Probab=93.16  E-value=0.055  Score=51.75  Aligned_cols=26  Identities=19%  Similarity=0.321  Sum_probs=23.3

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ..++|+|+|+.|+|||||++.+....
T Consensus        18 ~g~~ivl~GPSGaGKsTL~~~L~~~~   43 (197)
T 3ney_A           18 GRKTLVLIGASGVGRSHIKNALLSQN   43 (197)
T ss_dssp             SCCEEEEECCTTSSHHHHHHHHHHHC
T ss_pred             CCCEEEEECcCCCCHHHHHHHHHhhC
Confidence            45789999999999999999998775

>3l0o_A Transcription termination factor RHO; helicase, RHO factor, RNA capture mechanism, ATP-binding, hydrolase, nucleotide-binding, RN binding; 2.35A {Thermotoga maritima}

Probab=93.14  E-value=0.39  Score=50.40  Aligned_cols=53  Identities=17%  Similarity=0.119  Sum_probs=35.5

Q ss_pred             HHHHHhcC-CCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCcc
Q 048126          137 KVWRCLGE-EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDL  190 (863)
Q Consensus       137 ~l~~~L~~-~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~  190 (863)
                      ++++.+.. .+-..++|+|..|+|||+|+.++++........+. ++++-+++..
T Consensus       164 raID~l~PigrGQR~lIfg~~g~GKT~Ll~~Ia~~i~~~~~dv~-~V~~lIGER~  217 (427)
T 3l0o_A          164 RLIDLFAPIGKGQRGMIVAPPKAGKTTILKEIANGIAENHPDTI-RIILLIDERP  217 (427)
T ss_dssp             HHHHHHSCCBTTCEEEEEECTTCCHHHHHHHHHHHHHHHCTTSE-EEEEECSCCH
T ss_pred             hhhhhcccccCCceEEEecCCCCChhHHHHHHHHHHhhcCCCeE-EEEEEeccCc
Confidence            45666654 34468899999999999999999887521112333 3567666553

>2cdn_A Adenylate kinase; phosphoryl transfer, associative mechanism, ATP-binding, nucleotide biosynthesis, nucleotide-binding, transferase; HET: ADP; 1.9A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1p4s_A

Probab=93.13  E-value=0.051  Score=52.50  Aligned_cols=26  Identities=35%  Similarity=0.341  Sum_probs=23.2

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ...+|.|.|+.|+||||+|+.+....
T Consensus        19 ~~~~I~l~G~~GsGKST~a~~La~~l   44 (201)
T 2cdn_A           19 SHMRVLLLGPPGAGKGTQAVKLAEKL   44 (201)
T ss_dssp             SCCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            34589999999999999999999876

>1xjc_A MOBB protein homolog; structural genomics, midwest center for structural GEN PSI, protein structure initiative, MCSG; 2.10A {Geobacillus stearothermophilus} SCOP: c.37.1.10

Probab=93.12  E-value=0.057  Score=50.15  Aligned_cols=26  Identities=27%  Similarity=0.316  Sum_probs=23.2

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ..++++|+|..|+|||||+..+....
T Consensus         3 ~~~~i~i~G~sGsGKTTl~~~L~~~l   28 (169)
T 1xjc_A            3 AMNVWQVVGYKHSGKTTLMEKWVAAA   28 (169)
T ss_dssp             -CCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHhh
Confidence            45799999999999999999999876

>1qf9_A UMP/CMP kinase, protein (uridylmonophosphate/cytidylmonophosphate kinase); nucleoside monophosphate kinase, NMP kinase; HET: ADP C5P; 1.70A {Dictyostelium discoideum} SCOP: c.37.1.1 PDB: 1uke_A* 2ukd_A* 3ukd_A* 4ukd_A* 5ukd_A*

Probab=93.11  E-value=0.052  Score=51.91  Aligned_cols=25  Identities=24%  Similarity=0.303  Sum_probs=22.8

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          147 VGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ..+|+|.|+.|+||||+|+.+....
T Consensus         6 ~~~I~l~G~~GsGKsT~~~~L~~~l   30 (194)
T 1qf9_A            6 PNVVFVLGGPGSGKGTQCANIVRDF   30 (194)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHh
Confidence            3689999999999999999999876

>1g41_A Heat shock protein HSLU; AAA-ATPase, CLPY, ATP-dependent proteolysis, chaperone; HET: ADP; 2.30A {Haemophilus influenzae} SCOP: c.37.1.20 PDB: 1g3i_A* 1im2_A* 1kyi_A* 1g4a_E* 1g4b_E 1yyf_A* 1do0_A* 1do2_A* 1e94_E* 1hqy_E* 1ht1_E* 1ht2_E*

Probab=93.11  E-value=0.062  Score=58.30  Aligned_cols=46  Identities=22%  Similarity=0.213  Sum_probs=36.2

Q ss_pred             CCccchhHHHHHHHHHhcC--------------CCccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          126 EPTVGLESMFDKVWRCLGE--------------EQVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~--------------~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ..++|.+..++.+...+..              ...+-|.++|++|+||||+|+.++...
T Consensus        15 ~~IvGqe~ak~~l~~av~~~~~r~~~~~~~~~~~~~~~iLl~GppGtGKT~lar~lA~~l   74 (444)
T 1g41_A           15 QHIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLA   74 (444)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHHHHSCTTTTTTCCCCCEEEECCTTSSHHHHHHHHHHHT
T ss_pred             HHhCCHHHHHHHHHHHHHHHHhhhccccccccccCCceEEEEcCCCCCHHHHHHHHHHHc
Confidence            3578988888888766621              124568899999999999999999887

>2pbr_A DTMP kinase, thymidylate kinase; transferase, nucleotide biosynthesis, TMP-binding, A binding, structural genomics, NPPSFA; 1.96A {Aquifex aeolicus}

Probab=93.06  E-value=0.054  Score=51.85  Aligned_cols=23  Identities=39%  Similarity=0.593  Sum_probs=21.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 048126          149 IIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      +|+|.|+.|+||||+|+.+.+..
T Consensus         2 ~I~l~G~~GsGKsT~~~~L~~~l   24 (195)
T 2pbr_A            2 LIAFEGIDGSGKTTQAKKLYEYL   24 (195)
T ss_dssp             EEEEECSTTSCHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            68999999999999999999876

>3tlx_A Adenylate kinase 2; structural genomics, structural genomics consortium, SGC, RO fold, transferase, ATP binding, phosphorylation; HET: ADP ATP AMP; 2.75A {Plasmodium falciparum}

Probab=93.06  E-value=0.089  Score=52.56  Aligned_cols=27  Identities=22%  Similarity=0.231  Sum_probs=23.9

Q ss_pred             CCccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          145 EQVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       145 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ....+|+|.|+.|+||||+|+.+.+..
T Consensus        27 ~~~~~I~l~G~~GsGKsT~a~~L~~~~   53 (243)
T 3tlx_A           27 KPDGRYIFLGAPGSGKGTQSLNLKKSH   53 (243)
T ss_dssp             SCCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            355689999999999999999999876

>2grj_A Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosphocoenzyme kinase, structural genomics, joint center for structural GE JCSG; HET: ADP COD; 2.60A {Thermotoga maritima}

Probab=93.02  E-value=0.055  Score=51.72  Aligned_cols=26  Identities=35%  Similarity=0.502  Sum_probs=23.2

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ...+|+|+|+.|+||||+|+.+....
T Consensus        11 ~~~iIgltG~~GSGKSTva~~L~~~l   36 (192)
T 2grj_A           11 HHMVIGVTGKIGTGKSTVCEILKNKY   36 (192)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             cceEEEEECCCCCCHHHHHHHHHHhc
Confidence            45689999999999999999999874

>1ls1_A Signal recognition particle protein; FFH, SRP54, SRP, GTPase, ultrahigh resolution, protein transport; 1.10A {Thermus aquaticus} SCOP: a.24.13.1 c.37.1.10 PDB: 1jpn_B* 1jpj_A* 1ry1_U* 2j45_A* 1o87_A* 2c04_A* 2j46_A* 1rj9_B* 2c03_A* 2j7p_A* 1okk_A* 2cnw_A* 1ng1_A* 2xkv_A 3ng1_A 1ffh_A 2ng1_A*

Probab=92.96  E-value=0.28  Score=50.44  Aligned_cols=90  Identities=18%  Similarity=0.145  Sum_probs=48.2

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccC-HHHHHHHHHHHhCCCCccc-cCCChhHHHH-HH
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQ-LEKIQEKIGRRIGFLDESW-KNGSLEDKAS-DI  222 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~-~~~~~~~i~~~l~~~~~~~-~~~~~~~~~~-~l  222 (863)
                      ...+++|+|.+|+||||++..++.... . .. ..+.++....... ....+....+..+...-.. ...+..++.. .+
T Consensus        97 ~~~~i~i~g~~G~GKTT~~~~la~~~~-~-~~-~~v~l~~~d~~~~~~~~ql~~~~~~~~l~~~~~~~~~~p~~l~~~~l  173 (295)
T 1ls1_A           97 DRNLWFLVGLQGSGKTTTAAKLALYYK-G-KG-RRPLLVAADTQRPAAREQLRLLGEKVGVPVLEVMDGESPESIRRRVE  173 (295)
T ss_dssp             SSEEEEEECCTTTTHHHHHHHHHHHHH-H-TT-CCEEEEECCSSCHHHHHHHHHHHHHHTCCEEECCTTCCHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHH-H-cC-CeEEEecCCcccHhHHHHHHHhcccCCeEEEEcCCCCCHHHHHHHHH
Confidence            346999999999999999999988762 1 11 2345554432211 1122334455555432110 1223334433 33


Q ss_pred             HHHhccCcEEEEEecc
Q 048126          223 LRILSKKKFLLLLDDI  238 (863)
Q Consensus       223 ~~~l~~kr~LlVlDdv  238 (863)
                      ........=++|+|-.
T Consensus       174 ~~~~~~~~D~viiDtp  189 (295)
T 1ls1_A          174 EKARLEARDLILVDTA  189 (295)
T ss_dssp             HHHHHHTCCEEEEECC
T ss_pred             HHHHhCCCCEEEEeCC
Confidence            3333344557888876

>2wwf_A Thymidilate kinase, putative; transferase, malaria; HET: TMP ADP; 1.89A {Plasmodium falciparum} PDB: 2wwg_A* 2wwh_A* 2wwi_A*

Probab=92.90  E-value=0.062  Score=52.30  Aligned_cols=25  Identities=24%  Similarity=0.210  Sum_probs=22.9

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          147 VGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ..+|+|.|+.|+||||+|+.+....
T Consensus        10 ~~~I~l~G~~GsGKST~~~~L~~~l   34 (212)
T 2wwf_A           10 GKFIVFEGLDRSGKSTQSKLLVEYL   34 (212)
T ss_dssp             SCEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHH
Confidence            4689999999999999999999876

>1zd8_A GTP:AMP phosphotransferase mitochondrial; ATP:AMP phosphotransferase, myokinase, structural genomics, structural genomics consortium, SGC; 1.48A {Homo sapiens} PDB: 2ak3_A*

Probab=92.90  E-value=0.057  Score=53.33  Aligned_cols=25  Identities=24%  Similarity=0.349  Sum_probs=22.8

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          147 VGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ...|.|.|+.|+||||+|+.++...
T Consensus         7 ~~~I~l~G~~GsGKsT~a~~La~~l   31 (227)
T 1zd8_A            7 LLRAVIMGAPGSGKGTVSSRITTHF   31 (227)
T ss_dssp             CCEEEEEECTTSSHHHHHHHHHHHS
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHc
Confidence            4689999999999999999999876

>1zu4_A FTSY; GTPase, signal recognition particle, SRP, receptor, protein transport; 1.95A {Mycoplasma mycoides} PDB: 1zu5_A

Probab=92.83  E-value=0.2  Score=52.12  Aligned_cols=26  Identities=42%  Similarity=0.612  Sum_probs=23.6

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ...+|+|+|.+|+||||++..++...
T Consensus       104 ~~~vI~ivG~~G~GKTT~~~~LA~~l  129 (320)
T 1zu4_A          104 RLNIFMLVGVNGTGKTTSLAKMANYY  129 (320)
T ss_dssp             SCEEEEEESSTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            45799999999999999999998876

>1nn5_A Similar to deoxythymidylate kinase (thymidylate K; P-loop, D4TMP, transferase; HET: 2DT ANP; 1.50A {Homo sapiens} SCOP: c.37.1.1 PDB: 1e2e_A* 1e2d_A* 1e2g_A* 1e2q_A* 1e99_A* 1e9a_A* 1e9b_A* 1nmx_A* 1nmz_A* 1nn0_A* 1nn1_A* 1e2f_A* 1nn3_A* 2xx3_A* 1e9c_A* 1e9d_A* 1e9e_A* 1e98_A* 1nmy_A* 1e9f_A*

Probab=92.83  E-value=0.064  Score=52.31  Aligned_cols=25  Identities=32%  Similarity=0.369  Sum_probs=23.0

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          147 VGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ..+|+|.|+.|+||||+|+.+.+..
T Consensus         9 ~~~I~l~G~~GsGKsT~~~~L~~~l   33 (215)
T 1nn5_A            9 GALIVLEGVDRAGKSTQSRKLVEAL   33 (215)
T ss_dssp             CCEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHH
Confidence            4689999999999999999999876

>1aky_A Adenylate kinase; ATP:AMP phosphotransferase, myokinase, transferase (phosphotransferase); HET: AP5; 1.63A {Saccharomyces cerevisiae} SCOP: c.37.1.1 g.41.2.1 PDB: 2aky_A* 3aky_A* 1dvr_A*

Probab=92.80  E-value=0.065  Score=52.61  Aligned_cols=25  Identities=24%  Similarity=0.299  Sum_probs=22.8

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          147 VGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ...|.|.|+.|+||||+|+.++...
T Consensus         4 ~~~I~l~G~~GsGKsT~a~~La~~l   28 (220)
T 1aky_A            4 SIRMVLIGPPGAGKGTQAPNLQERF   28 (220)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHc
Confidence            3578999999999999999999887

>2yhs_A FTSY, cell division protein FTSY; cell cycle, protein targeting, simibi class GTPase, GTP-BIND membrane, nucleotide-binding; 1.60A {Escherichia coli} PDB: 2qy9_A 2xxa_B* 1fts_A

Probab=92.76  E-value=0.29  Score=53.53  Aligned_cols=26  Identities=35%  Similarity=0.520  Sum_probs=23.4

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ...+++|+|..|+|||||++.++...
T Consensus       292 ~GeVI~LVGpNGSGKTTLl~~LAgll  317 (503)
T 2yhs_A          292 APFVILMVGVNGVGKTTTIGKLARQF  317 (503)
T ss_dssp             TTEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCcccHHHHHHHHHHHh
Confidence            35699999999999999999998876

>3fb4_A Adenylate kinase; psychrophIle, phosphotransferase, ATP-binding, nucleotide-binding, transferase; HET: AP5; 2.00A {Marinibacillus marinus}

Probab=92.72  E-value=0.062  Score=52.53  Aligned_cols=23  Identities=39%  Similarity=0.455  Sum_probs=21.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 048126          149 IIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      .|+|.|+.|+||||+|+.++...
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~~   24 (216)
T 3fb4_A            2 NIVLMGLPGAGKGTQAEQIIEKY   24 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            47899999999999999998876

>3tqc_A Pantothenate kinase; biosynthesis of cofactors, prosthetic groups, carriers, TRAN; HET: ADP; 2.30A {Coxiella burnetii}

Probab=92.67  E-value=0.097  Score=54.31  Aligned_cols=43  Identities=23%  Similarity=0.183  Sum_probs=30.2

Q ss_pred             cchhHHHHHHHHHhcC----CCccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          129 VGLESMFDKVWRCLGE----EQVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       129 vGr~~~~~~l~~~L~~----~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      +|-...+..+...+..    ....+|+|.|+.|+||||+|+.+..-.
T Consensus        70 ~~~~~~l~~~~~~~l~~~~~~~p~iigI~GpsGSGKSTl~~~L~~ll  116 (321)
T 3tqc_A           70 VTARQTLQQATYQFLGKPEPKVPYIIGIAGSVAVGKSTTSRVLKALL  116 (321)
T ss_dssp             HHHHHHHHHHHHHHHTCCCCCCCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             hcchHHHHHHHHHHhccCCCCCCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            3444444444444432    245699999999999999999998776

>1znw_A Guanylate kinase, GMP kinase; ATP:GMP-phosphotransferase, TR; 2.10A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1znx_A* 1zny_A* 1znz_A* 1s4q_A 1z8f_A

Probab=92.66  E-value=0.064  Score=52.10  Aligned_cols=26  Identities=23%  Similarity=0.406  Sum_probs=23.2

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      .-.+++|+|+.|+|||||++.+..-.
T Consensus        19 ~Gei~~l~GpnGsGKSTLl~~l~gl~   44 (207)
T 1znw_A           19 VGRVVVLSGPSAVGKSTVVRCLRERI   44 (207)
T ss_dssp             CCCEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhhC
Confidence            34699999999999999999998875

>1zak_A Adenylate kinase; ATP:AMP-phosphotransferase, transferase; HET: AP5; 3.50A {Zea mays} SCOP: c.37.1.1 g.41.2.1

Probab=92.66  E-value=0.061  Score=52.90  Aligned_cols=26  Identities=23%  Similarity=0.147  Sum_probs=23.2

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ....|.|.|+.|+||||+|+.++...
T Consensus         4 ~~~~I~l~G~~GsGKsT~~~~La~~l   29 (222)
T 1zak_A            4 DPLKVMISGAPASGKGTQCELIKTKY   29 (222)
T ss_dssp             CSCCEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            34578999999999999999999887

>4a74_A DNA repair and recombination protein RADA; hydrolase, recombinase; HET: DNA ANP; 1.48A {Pyrococcus furiosus} PDB: 4a6x_A* 4a6p_A* 4a7o_A*

Probab=92.65  E-value=0.21  Score=49.10  Aligned_cols=43  Identities=26%  Similarity=0.387  Sum_probs=30.7

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhhcCCC----CCCCEEEEEEeCCc
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAP----NDFDVVIWVVVSKD  189 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~----~~F~~~~wv~~s~~  189 (863)
                      .-.+++|+|+.|+|||||++.++... ...    ..-..++|+.-...
T Consensus        24 ~G~~~~l~G~nGsGKSTll~~l~g~~-~~~~~~g~~~~~~i~~~~~~~   70 (231)
T 4a74_A           24 TQAITEVFGEFGSGKTQLAHTLAVMV-QLPPEEGGLNGSVIWIDTENT   70 (231)
T ss_dssp             SSEEEEEEESTTSSHHHHHHHHHHHT-TSCGGGTCCSCEEEEEESSSC
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHH-hcccccCCCCCEEEEEECCCC
Confidence            34699999999999999999998754 111    12346788775443

>4e22_A Cytidylate kinase; P-loop, CMP/ATP binding, transferase; 2.32A {Yersinia pseudotuberculosis}

Probab=92.64  E-value=0.064  Score=53.96  Aligned_cols=26  Identities=31%  Similarity=0.434  Sum_probs=23.4

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ...+|+|+|+.|+||||+++.++...
T Consensus        26 ~g~~I~I~G~~GsGKSTl~k~La~~L   51 (252)
T 4e22_A           26 IAPVITVDGPSGAGKGTLCKALAESL   51 (252)
T ss_dssp             TSCEEEEECCTTSSHHHHHHHHHHHT
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHhc
Confidence            34699999999999999999999876

>1uj2_A Uridine-cytidine kinase 2; alpha/beta mononucleotide-binding HOLD, transferase; HET: C5P ADP; 1.80A {Homo sapiens} SCOP: c.37.1.6 PDB: 1uei_A* 1uej_A* 1udw_A 1ufq_A* 1xrj_A*

Probab=92.63  E-value=0.069  Score=53.71  Aligned_cols=27  Identities=30%  Similarity=0.372  Sum_probs=23.5

Q ss_pred             CCccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          145 EQVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       145 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ....+|+|.|+.|+||||+|+.+....
T Consensus        20 ~~~~iI~I~G~~GSGKST~a~~L~~~l   46 (252)
T 1uj2_A           20 GEPFLIGVSGGTASGKSSVCAKIVQLL   46 (252)
T ss_dssp             -CCEEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             CCcEEEEEECCCCCCHHHHHHHHHHHh
Confidence            355789999999999999999998865

>1htw_A HI0065; nucleotide-binding fold, structural genomics, structure 2 function project, S2F, unknown function; HET: ADP; 1.70A {Haemophilus influenzae} SCOP: c.37.1.18 PDB: 1fl9_A

Probab=92.63  E-value=0.069  Score=49.20  Aligned_cols=26  Identities=31%  Similarity=0.326  Sum_probs=23.1

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      .-.+++|+|+.|+|||||++.++.-.
T Consensus        32 ~Ge~v~L~G~nGaGKTTLlr~l~g~l   57 (158)
T 1htw_A           32 KAIMVYLNGDLGAGKTTLTRGMLQGI   57 (158)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHhC
Confidence            44699999999999999999998865

>2p5t_B PEZT; postsegregational killing system, phosphoryltransferase, HEL helix motif, transcription regulator; 3.20A {Streptococcus pneumoniae}

Probab=92.58  E-value=0.082  Score=53.18  Aligned_cols=26  Identities=35%  Similarity=0.308  Sum_probs=23.4

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ...+|.|+|++|+||||+|+.+....
T Consensus        31 ~~~~i~l~G~~GsGKSTla~~L~~~l   56 (253)
T 2p5t_B           31 QPIAILLGGQSGAGKTTIHRIKQKEF   56 (253)
T ss_dssp             SCEEEEEESCGGGTTHHHHHHHHHHT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHhc
Confidence            35689999999999999999999876

>1gtv_A TMK, thymidylate kinase; transferase, transferase (ATP:TMP phosphotransferase); HET: TYD TMP; 1.55A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1g3u_A* 1gsi_A* 1mrn_A* 1mrs_A* 1n5i_A* 1n5j_A* 1n5k_A* 1n5l_A* 1w2g_A* 1w2h_A*

Probab=92.54  E-value=0.041  Score=53.75  Aligned_cols=24  Identities=33%  Similarity=0.634  Sum_probs=22.0

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          148 GIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      .+|+|.|+.|+||||+|+.+....
T Consensus         1 ~~I~i~G~~GsGKsTl~~~L~~~l   24 (214)
T 1gtv_A            1 MLIAIEGVDGAGKRTLVEKLSGAF   24 (214)
T ss_dssp             CEEEEEEEEEEEHHHHHHHHHHHH
T ss_pred             CEEEEEcCCCCCHHHHHHHHHHHH
Confidence            378999999999999999998876

>3dl0_A Adenylate kinase; phosphotransferase, zinc coordination, ATP-binding, binding, nucleotide biosynthesis, nucleotide-binding, trans; HET: AP5; 1.58A {Bacillus subtilis} PDB: 1p3j_A* 2ori_A* 2eu8_A* 2oo7_A* 2p3s_A* 2qaj_A* 2osb_A* 3dkv_A* 1zin_A* 1zio_A* 1zip_A* 1s3g_A*

Probab=92.53  E-value=0.067  Score=52.31  Aligned_cols=23  Identities=35%  Similarity=0.417  Sum_probs=21.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 048126          149 IIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      .|+|.|+.|+||||+|+.++...
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~~   24 (216)
T 3dl0_A            2 NLVLMGLPGAGKGTQGERIVEKY   24 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            47899999999999999998876

>3aez_A Pantothenate kinase; transferase, homodimer, COA biosynthesis, nucleotide binding binding, cytoplasm, nucleotide-binding; HET: GDP PAZ; 2.20A {Mycobacterium tuberculosis} PDB: 2ges_A* 2geu_A* 2gev_A* 2zs7_A* 2zs8_A* 2zs9_A* 2zsa_A* 2zsb_A* 2zsd_A* 2zse_A* 2zsf_A* 2get_A* 3af0_A* 3af1_A* 3af2_A* 3af3_A* 3af4_A* 3avp_A* 3avo_A* 3avq_A*

Probab=92.49  E-value=0.073  Score=55.26  Aligned_cols=27  Identities=33%  Similarity=0.316  Sum_probs=24.0

Q ss_pred             CCccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          145 EQVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       145 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ....+|+|+|..|+|||||++.+..-.
T Consensus        88 ~~g~ivgI~G~sGsGKSTL~~~L~gll  114 (312)
T 3aez_A           88 PVPFIIGVAGSVAVGKSTTARVLQALL  114 (312)
T ss_dssp             CCCEEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCchHHHHHHHHHhhc
Confidence            345799999999999999999998876

>2jeo_A Uridine-cytidine kinase 1; UCK, transferase, ATP-binding, nucleoside kinase, nucleotide-binding; 2.50A {Homo sapiens} PDB: 2uvq_A*

Probab=92.49  E-value=0.076  Score=53.16  Aligned_cols=26  Identities=35%  Similarity=0.400  Sum_probs=23.0

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ...+|+|.|+.|+|||||++.+....
T Consensus        24 ~g~iigI~G~~GsGKSTl~k~L~~~l   49 (245)
T 2jeo_A           24 RPFLIGVSGGTASGKSTVCEKIMELL   49 (245)
T ss_dssp             CSEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            45689999999999999999998764

>3jvv_A Twitching mobility protein; hexameric P-loop ATPase, secretion ATPase, ATP-binding, FIMB nucleotide-binding, transport; HET: ACP CIT; 2.60A {Pseudomonas aeruginosa} PDB: 3jvu_A*

Probab=92.48  E-value=0.059  Score=57.01  Aligned_cols=113  Identities=13%  Similarity=0.136  Sum_probs=62.1

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHHHHhCCCCccccCCChhHHHHHHHHH
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGRRIGFLDESWKNGSLEDKASDILRI  225 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~  225 (863)
                      ...+++|+|+.|+||||+.+.+.....   ......+ +++.++....  ..   .......+.............+...
T Consensus       122 ~~g~i~I~GptGSGKTTlL~~l~g~~~---~~~~~~i-~t~ed~~e~~--~~---~~~~~v~q~~~~~~~~~~~~~La~a  192 (356)
T 3jvv_A          122 PRGLVLVTGPTGSGKSTTLAAMLDYLN---NTKYHHI-LTIEDPIEFV--HE---SKKCLVNQREVHRDTLGFSEALRSA  192 (356)
T ss_dssp             SSEEEEEECSTTSCHHHHHHHHHHHHH---HHCCCEE-EEEESSCCSC--CC---CSSSEEEEEEBTTTBSCHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhccc---CCCCcEE-EEccCcHHhh--hh---ccccceeeeeeccccCCHHHHHHHH
Confidence            345999999999999999999877651   1111122 2222221100  00   0000000000111223455678888


Q ss_pred             hccCcEEEEEeccCCccccccccCCCCCCCCCcEEEEecCchhhh
Q 048126          226 LSKKKFLLLLDDIWERVDLTKVGVPFPDPENKSKIVFTTRFLEIC  270 (863)
Q Consensus       226 l~~kr~LlVlDdv~~~~~~~~~~~~l~~~~~gs~IivTtR~~~v~  270 (863)
                      |...+=+|++|++.+...+..+...   ...|.-|++||-..+.+
T Consensus       193 L~~~PdvillDEp~d~e~~~~~~~~---~~~G~~vl~t~H~~~~~  234 (356)
T 3jvv_A          193 LREDPDIILVGEMRDLETIRLALTA---AETGHLVFGTLHTTSAA  234 (356)
T ss_dssp             TTSCCSEEEESCCCSHHHHHHHHHH---HHTTCEEEEEESCSSHH
T ss_pred             hhhCcCEEecCCCCCHHHHHHHHHH---HhcCCEEEEEEccChHH
Confidence            9999999999999875544433222   12355688888765543

>2v54_A DTMP kinase, thymidylate kinase; nucleotide biosynthesis, ATP-binding, nucleotide-binding, poxvirus, transferase; HET: TYD POP; 2.4A {Vaccinia virus copenhagen} PDB: 2w0s_A*

Probab=92.48  E-value=0.075  Score=51.35  Aligned_cols=25  Identities=28%  Similarity=0.334  Sum_probs=22.5

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          147 VGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ..+|+|.|+.|+||||+++.+.+..
T Consensus         4 ~~~I~l~G~~GsGKsT~~~~L~~~l   28 (204)
T 2v54_A            4 GALIVFEGLDKSGKTTQCMNIMESI   28 (204)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHTS
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHHH
Confidence            3589999999999999999999865

>1z6g_A Guanylate kinase; structural genomics, SGC, structural genom consortium, transferase; HET: EPE; 2.18A {Plasmodium falciparum}

Probab=92.45  E-value=0.059  Score=52.87  Aligned_cols=26  Identities=35%  Similarity=0.535  Sum_probs=22.8

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      .-.+++|+|+.|+|||||++.+....
T Consensus        22 ~G~~~~lvGpsGsGKSTLl~~L~g~~   47 (218)
T 1z6g_A           22 NIYPLVICGPSGVGKGTLIKKLLNEF   47 (218)
T ss_dssp             CCCCEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhhC
Confidence            34689999999999999999998764

>2r6a_A DNAB helicase, replicative helicase; replication, DNAB; 2.90A {Geobacillus stearothermophilus} PDB: 2r6c_A 2r6d_A 2r6e_A 2vyf_A 2vye_A

Probab=92.40  E-value=2.1  Score=46.92  Aligned_cols=51  Identities=14%  Similarity=0.139  Sum_probs=35.0

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHH
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIG  200 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~  200 (863)
                      .-.++.|.|.+|+||||||..++..... . .=..++|++...  +..++...++
T Consensus       202 ~G~liiI~G~pG~GKTtl~l~ia~~~~~-~-~g~~Vl~~s~E~--s~~~l~~r~~  252 (454)
T 2r6a_A          202 RSDLIIVAARPSVGKTAFALNIAQNVAT-K-TNENVAIFSLEM--SAQQLVMRML  252 (454)
T ss_dssp             TTCEEEEECCTTSCHHHHHHHHHHHHHH-H-SSCCEEEEESSS--CHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHHHH-h-CCCcEEEEECCC--CHHHHHHHHH
Confidence            4469999999999999999999887621 1 112577776543  4455555553

>1rj9_A FTSY, signal recognition protein; SRP-GTPase domain, heterodimer, nucleotide twinning, protein complex, protein transport; HET: GCP; 1.90A {Thermus aquaticus} SCOP: a.24.13.1 c.37.1.10 PDB: 2q9c_A* 2q9b_A* 2q9a_A* 1okk_D* 2xkv_D 2iyl_D* 2cnw_D* 2j7p_D*

Probab=92.31  E-value=0.083  Score=54.60  Aligned_cols=26  Identities=31%  Similarity=0.511  Sum_probs=23.7

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ...+|+|+|+.|+||||+++.++.-.
T Consensus       101 ~g~vi~lvG~nGsGKTTll~~Lagll  126 (304)
T 1rj9_A          101 KGRVVLVVGVNGVGKTTTIAKLGRYY  126 (304)
T ss_dssp             SSSEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHH
Confidence            45799999999999999999998877

>1s96_A Guanylate kinase, GMP kinase; E.coli, dimer, SAD, transferase; 2.00A {Escherichia coli} SCOP: c.37.1.1 PDB: 2an9_A* 2anb_A* 2anc_A 2f3r_A* 2f3t_A*

Probab=92.10  E-value=0.083  Score=51.73  Aligned_cols=26  Identities=19%  Similarity=0.249  Sum_probs=23.3

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      .-.+++|+|+.|+|||||++.+....
T Consensus        15 ~G~ii~l~GpsGsGKSTLlk~L~g~~   40 (219)
T 1s96_A           15 QGTLYIVSAPSGAGKSSLIQALLKTQ   40 (219)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHHHS
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhccC
Confidence            34699999999999999999998876

>2v3c_C SRP54, signal recognition 54 kDa protein; nucleotide-binding, signal recognition particle, GTP-binding, RNA-binding; 2.50A {Methanocaldococcus jannaschii} PDB: 3ndb_B

Probab=92.06  E-value=0.1  Score=56.77  Aligned_cols=25  Identities=36%  Similarity=0.505  Sum_probs=22.8

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          147 VGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ..+|+|+|.+|+||||+|..++...
T Consensus        99 ~~vI~ivG~~GvGKTTla~~La~~l  123 (432)
T 2v3c_C           99 QNVILLVGIQGSGKTTTAAKLARYI  123 (432)
T ss_dssp             CCCEEEECCSSSSTTHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHH
Confidence            4689999999999999999998876

>2pez_A Bifunctional 3'-phosphoadenosine 5'- phosphosulfate synthetase 1 (PAPS synthetase...; NMP-kinase fold, protein in complex with nucleic acid; HET: GGZ DAT; 1.40A {Homo sapiens} PDB: 2pey_A* 2ax4_A*

Probab=92.05  E-value=0.085  Score=49.77  Aligned_cols=25  Identities=32%  Similarity=0.425  Sum_probs=22.5

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          147 VGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      -.+|+|.|+.|+||||+++.+....
T Consensus         5 g~~i~l~G~~GsGKST~~~~L~~~l   29 (179)
T 2pez_A            5 GCTVWLTGLSGAGKTTVSMALEEYL   29 (179)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHH
Confidence            3588999999999999999998875

>3sr0_A Adenylate kinase; phosphoryl transfer analogue, ALF4, transferase (phosphotran phosphoryl transfer, nucleotide-binding; HET: ADP AMP; 1.56A {Aquifex aeolicus} PDB: 2rh5_A 2rgx_A*

Probab=92.04  E-value=0.088  Score=50.91  Aligned_cols=23  Identities=26%  Similarity=0.413  Sum_probs=21.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 048126          149 IIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      +|.|.|++|+||||.|+.++..+
T Consensus         2 ~Iil~GpPGsGKgTqa~~La~~~   24 (206)
T 3sr0_A            2 ILVFLGPPGAGKGTQAKRLAKEK   24 (206)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            57899999999999999999987

>1m7g_A Adenylylsulfate kinase; APS kinase, transferase, sulfate Met nucleotide 2 kinase; HET: AV2 ADX ADP; 1.43A {Penicillium chrysogenum} SCOP: c.37.1.4 PDB: 1d6j_A* 1m7h_A* 3cr7_A*

Probab=92.01  E-value=0.088  Score=51.28  Aligned_cols=27  Identities=30%  Similarity=0.427  Sum_probs=23.7

Q ss_pred             CCccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          145 EQVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       145 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ....+|.|.|+.|+||||+|+.+....
T Consensus        23 ~~~~~i~~~G~~GsGKsT~~~~l~~~l   49 (211)
T 1m7g_A           23 QRGLTIWLTGLSASGKSTLAVELEHQL   49 (211)
T ss_dssp             SSCEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHHHh
Confidence            345689999999999999999998876

>3oaa_A ATP synthase subunit alpha; rossmann fold, hydrolase, hydrolase-transport PROT complex; HET: ANP ADP; 3.26A {Escherichia coli DH1} PDB: 2a7u_A

Probab=91.99  E-value=0.54  Score=51.06  Aligned_cols=99  Identities=13%  Similarity=0.134  Sum_probs=56.2

Q ss_pred             HHHHhcC-CCccEEEEEcCCCCcHHHHH-HHHHhhhcCCCCCCCEEEEEEeCCccC-HHHHHHHHHHHhCCCCc-----c
Q 048126          138 VWRCLGE-EQVGIIGLYGMGGVGKTTLL-TKINNKLLGAPNDFDVVIWVVVSKDLQ-LEKIQEKIGRRIGFLDE-----S  209 (863)
Q Consensus       138 l~~~L~~-~~~~vi~I~G~gGiGKTtLa-~~v~~~~~~~~~~F~~~~wv~~s~~~~-~~~~~~~i~~~l~~~~~-----~  209 (863)
                      .++.+.. .+-..++|.|..|+|||+|| ..+.+..    ..-..++++-+++... +.++.+.+.+.-.....     .
T Consensus       152 aID~l~PigrGQR~~Ifg~~g~GKT~l~l~~I~n~~----~~dv~~V~~~IGeR~~ev~e~~~~l~~~g~m~~tvvV~at  227 (513)
T 3oaa_A          152 AVDSMIPIGRGQRELIIGDRQTGKTALAIDAIINQR----DSGIKCIYVAIGQKASTISNVVRKLEEHGALANTIVVVAT  227 (513)
T ss_dssp             HHHHHSCCBTTCBCEEEESSSSSHHHHHHHHHHTTS----SSSCEEEEEEESCCHHHHHHHHHHHHHHSCSTTEEEEEEC
T ss_pred             eeccccccccCCEEEeecCCCCCcchHHHHHHHhhc----cCCceEEEEEecCChHHHHHHHHHHhhcCcccceEEEEEC
Confidence            3444433 34457889999999999996 5666643    2222467888887754 55666666543222110     0


Q ss_pred             ccCCChhH-----HHHHHHHHh--ccCcEEEEEeccCC
Q 048126          210 WKNGSLED-----KASDILRIL--SKKKFLLLLDDIWE  240 (863)
Q Consensus       210 ~~~~~~~~-----~~~~l~~~l--~~kr~LlVlDdv~~  240 (863)
                      .+......     ..-.+-+++  +++.+||++||+..
T Consensus       228 ad~p~~~r~~a~~~a~tiAEyfrd~G~dVLli~Dsltr  265 (513)
T 3oaa_A          228 ASESAALQYLAPYAGCAMGEYFRDRGEDALIIYDDLSK  265 (513)
T ss_dssp             TTSCHHHHHHHHHHHHHHHHHHHHTTCEEEEEEETHHH
T ss_pred             CCCChHHHHHHHHHHHHHHHHHHhcCCCEEEEecChHH
Confidence            01111111     111223333  47899999999854

>2i3b_A HCR-ntpase, human cancer-related ntpase; AAA, rossmann, hydrolase; NMR {Homo sapiens} SCOP: c.37.1.11

Probab=91.96  E-value=0.076  Score=50.62  Aligned_cols=24  Identities=46%  Similarity=0.517  Sum_probs=21.6

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          148 GIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      .+++|+|+.|+|||||++.++...
T Consensus         2 ~~i~i~G~nG~GKTTll~~l~g~~   25 (189)
T 2i3b_A            2 RHVFLTGPPGVGKTTLIHKASEVL   25 (189)
T ss_dssp             CCEEEESCCSSCHHHHHHHHHHHH
T ss_pred             CEEEEECCCCChHHHHHHHHHhhc
Confidence            368999999999999999998876

>3vr4_D V-type sodium ATPase subunit D; V-ATPase, rotary motor, P-loop, hydrolas ATPase, ATP binding; HET: MSE B3P; 2.17A {Enterococcus hirae} PDB: 3vr3_D* 3vr2_D* 3vr5_D 3vr6_D*

Probab=91.95  E-value=0.17  Score=54.39  Aligned_cols=89  Identities=12%  Similarity=0.143  Sum_probs=54.3

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCC----EEEEEEeCCcc-CHHHHHHHHHHHhCCCC-----ccccCCChhH
Q 048126          148 GIIGLYGMGGVGKTTLLTKINNKLLGAPNDFD----VVIWVVVSKDL-QLEKIQEKIGRRIGFLD-----ESWKNGSLED  217 (863)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~----~~~wv~~s~~~-~~~~~~~~i~~~l~~~~-----~~~~~~~~~~  217 (863)
                      ..++|.|..|+|||+|+.++++.. .  .+-+    .++++-+.+.. .+.++.+.+.+.-....     .. ...+...
T Consensus       152 Qr~~Ifgg~G~GKt~L~~~Ia~~~-~--~~~d~~~~~~V~~~iGeR~~Ev~e~~~~~~~~g~~~rtvvV~at-sd~p~~~  227 (465)
T 3vr4_D          152 QKLPVFSGSGLPHKELAAQIARQA-T--VLDSSDDFAVVFAAIGITFEEAEFFMEDFRQTGAIDRSVMFMNL-ANDPAIE  227 (465)
T ss_dssp             CBCCEEECTTSCHHHHHHHHHHHC-B--CSSCSSCEEEEEEEEEECHHHHHHHHHHHHHHTGGGGEEEEEEE-TTSCHHH
T ss_pred             CEEEEeCCCCcChHHHHHHHHHHH-H--hccCCCceEEEEEEecCCcHHHHHHHHHHhhcCCccceEEEEEC-CCCCHHH
Confidence            457899999999999999999886 2  2223    66777777654 35566666554311100     01 1111111


Q ss_pred             ------HHHHHHHHhc---cCcEEEEEeccCC
Q 048126          218 ------KASDILRILS---KKKFLLLLDDIWE  240 (863)
Q Consensus       218 ------~~~~l~~~l~---~kr~LlVlDdv~~  240 (863)
                            ..-.+.++++   ++.+||++||+..
T Consensus       228 r~~a~~~a~tiAEyfrd~~G~~VLl~~DslTr  259 (465)
T 3vr4_D          228 RIATPRMALTAAEYLAYEKGMHVLVIMTDMTN  259 (465)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCCEEEEEEECHHH
T ss_pred             HHHHHHHHHHHHHHHHHhcCCeEEEEEcChHH
Confidence                  1223445554   6899999999854

>2f1r_A Molybdopterin-guanine dinucleotide biosynthesis protein B (MOBB); structural genomics, PSI, protein structure initiative; 2.10A {Archaeoglobus fulgidus}

Probab=91.95  E-value=0.061  Score=50.30  Aligned_cols=24  Identities=38%  Similarity=0.530  Sum_probs=22.2

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          148 GIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      .+++|+|..|+|||||++.+..-.
T Consensus         3 ~~v~IvG~SGsGKSTL~~~L~~~~   26 (171)
T 2f1r_A            3 LILSIVGTSDSGKTTLITRMMPIL   26 (171)
T ss_dssp             CEEEEEESCHHHHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            589999999999999999998776

>3mfy_A V-type ATP synthase alpha chain; A-type ATP synthase, P loop, phenylalanine mutant, hydrolase; 2.35A {Pyrococcus horikoshii} PDB: 3i4l_A* 3i72_A 3i73_A* 3p20_A 3ikj_A 3qg1_A 3nd8_A 3nd9_A 1vdz_A 3qia_A 3qjy_A 3m4y_A 3se0_A 3sdz_A

Probab=91.91  E-value=0.34  Score=53.28  Aligned_cols=57  Identities=21%  Similarity=0.267  Sum_probs=42.1

Q ss_pred             HHHHhcC-CCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccC-HHHHHHHH
Q 048126          138 VWRCLGE-EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQ-LEKIQEKI  199 (863)
Q Consensus       138 l~~~L~~-~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~-~~~~~~~i  199 (863)
                      +++.+.. .+-..++|.|..|+|||+|+.++++..     +-+.++++-+++... +.++.+.+
T Consensus       217 vID~l~PigkGqr~~I~g~~g~GKT~L~~~ia~~~-----~~~~~V~~~iGER~~Ev~e~~~~~  275 (588)
T 3mfy_A          217 VIDTFFPQAKGGTAAIPGPAGSGKTVTQHQLAKWS-----DAQVVIYIGCGERGNEMTDVLEEF  275 (588)
T ss_dssp             HHHHHSCEETTCEEEECSCCSHHHHHHHHHHHHHS-----SCSEEEEEECCSSSSHHHHHHHHT
T ss_pred             hhhccCCcccCCeEEeecCCCCCHHHHHHHHHhcc-----CCCEEEEEEecccHHHHHHHHHHH
Confidence            4555543 345688999999999999999998764     235788999988765 45566654

>3nwj_A ATSK2; P loop, shikimate, nucleoside monophosphate kinase, shikimat ATP binding, chloroplast, transferase; 2.35A {Arabidopsis thaliana}

Probab=91.86  E-value=0.076  Score=53.11  Aligned_cols=25  Identities=36%  Similarity=0.336  Sum_probs=22.8

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          147 VGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      -.+|+|+|+.|+||||+++.++...
T Consensus        48 g~~i~l~G~~GsGKSTl~~~La~~l   72 (250)
T 3nwj_A           48 GRSMYLVGMMGSGKTTVGKIMARSL   72 (250)
T ss_dssp             TCCEEEECSTTSCHHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHhc
Confidence            3589999999999999999999876

>3r20_A Cytidylate kinase; structural genomics, seattle structural genomics center for infectious disease, ssgcid, ADP, DCMP, D transferase; 2.00A {Mycobacterium smegmatis} SCOP: c.37.1.0 PDB: 3r8c_A 4die_A*

Probab=91.86  E-value=0.094  Score=51.65  Aligned_cols=25  Identities=20%  Similarity=0.391  Sum_probs=23.0

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          147 VGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ..+|+|.|+.|+||||+|+.++...
T Consensus         9 ~~~i~i~G~~GsGKsTla~~la~~l   33 (233)
T 3r20_A            9 SLVVAVDGPAGTGKSSVSRGLARAL   33 (233)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHh
Confidence            4589999999999999999999887

>2f6r_A COA synthase, bifunctional coenzyme A synthase; 18044849, bifunctional coenzyme A synthase (COA synthase), S genomics; HET: ACO UNL; 1.70A {Mus musculus}

Probab=91.86  E-value=0.092  Score=53.74  Aligned_cols=23  Identities=26%  Similarity=0.670  Sum_probs=21.3

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHH
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKIN  168 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~  168 (863)
                      ...+|+|.|+.|+||||+|+.+.
T Consensus        74 ~~~iI~I~G~~GSGKSTva~~La   96 (281)
T 2f6r_A           74 GLYVLGLTGISGSGKSSVAQRLK   96 (281)
T ss_dssp             TCEEEEEEECTTSCHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHH
Confidence            45689999999999999999998

>3p32_A Probable GTPase RV1496/MT1543; structural genomics, seattle structural genomics center for infectious disease, ssgcid, MEAB, MMAA; HET: GDP PGE; 1.90A {Mycobacterium tuberculosis} PDB: 3md0_A* 4gt1_A* 3nxs_A* 3tk1_A*

Probab=91.80  E-value=0.17  Score=53.79  Aligned_cols=37  Identities=24%  Similarity=0.366  Sum_probs=28.9

Q ss_pred             HHHHHHHhc--CCCccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          135 FDKVWRCLG--EEQVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       135 ~~~l~~~L~--~~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ..++.+.+.  ..+..+|+|+|.+|+|||||+..+....
T Consensus        65 ~~~~~~~~~~~~~~~~~I~i~G~~G~GKSTl~~~L~~~l  103 (355)
T 3p32_A           65 AQQLLLRLLPDSGNAHRVGITGVPGVGKSTAIEALGMHL  103 (355)
T ss_dssp             HHHHHHHHGGGCCCSEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             HHHHHHHhHhhcCCceEEEEECCCCCCHHHHHHHHHHHH
Confidence            444555554  3467899999999999999999998776

>1vht_A Dephospho-COA kinase; structural genomics, transferase; HET: BA3; 1.59A {Escherichia coli} SCOP: c.37.1.1 PDB: 1vhl_A* 1viy_A 1t3h_A 1n3b_A

Probab=91.77  E-value=0.1  Score=51.15  Aligned_cols=23  Identities=30%  Similarity=0.368  Sum_probs=20.9

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHh
Q 048126          147 VGIIGLYGMGGVGKTTLLTKINN  169 (863)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~  169 (863)
                      ..+|+|.|+.|+||||+++.+..
T Consensus         4 ~~~I~i~G~~GSGKST~~~~L~~   26 (218)
T 1vht_A            4 RYIVALTGGIGSGKSTVANAFAD   26 (218)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHH
Confidence            35899999999999999999976

>3ake_A Cytidylate kinase; CMP kinase, CMP complex, open conformation, nucleotide metab transferase; HET: C5P; 1.50A {Thermus thermophilus} PDB: 3akc_A* 3akd_A*

Probab=91.76  E-value=0.097  Score=50.69  Aligned_cols=23  Identities=22%  Similarity=0.466  Sum_probs=21.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 048126          149 IIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      +|+|.|+.|+||||+|+.++...
T Consensus         4 ~i~i~G~~GsGKst~~~~la~~l   26 (208)
T 3ake_A            4 IVTIDGPSASGKSSVARRVAAAL   26 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHhc
Confidence            89999999999999999999876

>3be4_A Adenylate kinase; malaria, cryptosporidium parvum nonprotein inhibitors, nucleotide-binding, transferase; HET: AP5; 1.60A {Cryptosporidium parvum iowa II}

Probab=91.75  E-value=0.095  Score=51.28  Aligned_cols=24  Identities=29%  Similarity=0.263  Sum_probs=22.2

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          148 GIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ..|.|.|+.|+||||+|+.++...
T Consensus         6 ~~I~l~G~~GsGKsT~a~~La~~l   29 (217)
T 3be4_A            6 HNLILIGAPGSGKGTQCEFIKKEY   29 (217)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            478999999999999999999887

>3d3q_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2; 2.70A {Staphylococcus epidermidis atcc 12228}

Probab=91.75  E-value=0.095  Score=54.60  Aligned_cols=24  Identities=29%  Similarity=0.364  Sum_probs=22.4

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          148 GIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      .+|+|.|+.|+||||||+.++...
T Consensus         8 ~lI~I~GptgSGKTtla~~La~~l   31 (340)
T 3d3q_A            8 FLIVIVGPTASGKTELSIEVAKKF   31 (340)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             ceEEEECCCcCcHHHHHHHHHHHc
Confidence            489999999999999999999876

>1e4v_A Adenylate kinase; transferase(phosphotransferase); HET: AP5; 1.85A {Escherichia coli} SCOP: c.37.1.1 g.41.2.1 PDB: 1e4y_A* 1ake_A* 1ank_A* 2eck_A* 3hpq_A* 4ake_A 3hpr_A*

Probab=91.66  E-value=0.099  Score=51.00  Aligned_cols=23  Identities=35%  Similarity=0.193  Sum_probs=21.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 048126          149 IIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      .|.|.|+.|+||||+|+.+....
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~~   24 (214)
T 1e4v_A            2 RIILLGAPVAGKGTQAQFIMEKY   24 (214)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            47899999999999999999876

>2xb4_A Adenylate kinase; ATP-binding, nucleotide-binding, transferase; HET: SRT; 1.80A {Desulfovibrio gigas} PDB: 3l0s_A* 3l0p_A*

Probab=91.66  E-value=0.099  Score=51.41  Aligned_cols=23  Identities=30%  Similarity=0.404  Sum_probs=21.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 048126          149 IIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      .|.|.|+.|+||||+|+.++...
T Consensus         2 ~I~l~G~~GsGKsT~a~~La~~l   24 (223)
T 2xb4_A            2 NILIFGPNGSGKGTQGNLVKDKY   24 (223)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            58899999999999999999876

>4akg_A Glutathione S-transferase class-MU 26 kDa isozyme heavy chain cytoplasmic; motor protein, AAA+ protein, ASCE protein, P-loop ntpase; HET: ATP ADP; 3.30A {Schistosoma japonicum} PDB: 4ai6_A* 4akh_A* 4aki_A* 3qmz_A

Probab=91.65  E-value=0.64  Score=61.72  Aligned_cols=79  Identities=27%  Similarity=0.283  Sum_probs=49.4

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHHHHhCCCCccccCCChhHHHHHHHHHhc
Q 048126          148 GIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGRRIGFLDESWKNGSLEDKASDILRILS  227 (863)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~  227 (863)
                      +-|-++|++|+|||++|+.+....    ..+ ..+.+..+...+...+++.+...+...... ......       -.-.
T Consensus      1268 ~~vLL~GPpGtGKT~la~~~l~~~----~~~-~~~~infsa~ts~~~~~~~i~~~~~~~~~~-~g~~~~-------P~~~ 1334 (2695)
T 4akg_A         1268 RGIILCGPPGSGKTMIMNNALRNS----SLY-DVVGINFSKDTTTEHILSALHRHTNYVTTS-KGLTLL-------PKSD 1334 (2695)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHSC----SSC-EEEEEECCTTCCHHHHHHHHHHHBCCEEET-TTEEEE-------EBSS
T ss_pred             CeEEEECCCCCCHHHHHHHHHhcC----CCC-ceEEEEeecCCCHHHHHHHHHHHhhhcccc-CCcccc-------CCCC
Confidence            566799999999999998877654    223 356677888777777777776655321100 000000       0003


Q ss_pred             cCcEEEEEeccC
Q 048126          228 KKKFLLLLDDIW  239 (863)
Q Consensus       228 ~kr~LlVlDdv~  239 (863)
                      +++.++.+||+.
T Consensus      1335 gk~~VlFiDEin 1346 (2695)
T 4akg_A         1335 IKNLVLFCDEIN 1346 (2695)
T ss_dssp             SSCEEEEEETTT
T ss_pred             CceEEEEecccc
Confidence            578888899964

>1ak2_A Adenylate kinase isoenzyme-2; nucleoside monophosphate kinase, phosphotransferase; 1.92A {Bos taurus} SCOP: c.37.1.1 g.41.2.1 PDB: 2ak2_A 2c9y_A*

Probab=91.63  E-value=0.11  Score=51.38  Aligned_cols=26  Identities=27%  Similarity=0.252  Sum_probs=23.3

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ....|.|.|+.|+||||+|+.+++..
T Consensus        15 ~~~~I~l~G~~GsGKsT~a~~La~~l   40 (233)
T 1ak2_A           15 KGVRAVLLGPPGAGKGTQAPKLAKNF   40 (233)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            34579999999999999999999887

>3k1j_A LON protease, ATP-dependent protease LON; ATP-binding, nucleotide-binding, Pro hydrolase; HET: ADP PE8; 2.00A {Thermococcus onnurineus}

Probab=91.60  E-value=0.23  Score=56.99  Aligned_cols=44  Identities=20%  Similarity=0.302  Sum_probs=37.8

Q ss_pred             CCccchhHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          126 EPTVGLESMFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ..++|.+..++.+...+..+  ..+.|+|+.|+||||||+.++...
T Consensus        41 ~~i~G~~~~l~~l~~~i~~g--~~vll~Gp~GtGKTtlar~ia~~l   84 (604)
T 3k1j_A           41 DQVIGQEHAVEVIKTAANQK--RHVLLIGEPGTGKSMLGQAMAELL   84 (604)
T ss_dssp             HHCCSCHHHHHHHHHHHHTT--CCEEEECCTTSSHHHHHHHHHHTS
T ss_pred             ceEECchhhHhhccccccCC--CEEEEEeCCCCCHHHHHHHHhccC
Confidence            34789999888888887655  588999999999999999999876

>2onk_A Molybdate/tungstate ABC transporter, ATP-binding protein; membrane protein; 3.10A {Archaeoglobus fulgidus} SCOP: c.37.1.12

Probab=91.53  E-value=0.11  Score=51.74  Aligned_cols=26  Identities=27%  Similarity=0.365  Sum_probs=23.3

Q ss_pred             CCccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          145 EQVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       145 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      +. .+++|+|+.|+|||||.+.++.-.
T Consensus        23 ~~-e~~~liG~nGsGKSTLl~~l~Gl~   48 (240)
T 2onk_A           23 GR-DYCVLLGPTGAGKSVFLELIAGIV   48 (240)
T ss_dssp             CS-SEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             CC-EEEEEECCCCCCHHHHHHHHhCCC
Confidence            46 899999999999999999998754

>1np6_A Molybdopterin-guanine dinucleotide biosynthesis protein B; mixed alpha-beta fold, elongated beta-sheet, walker A motif, P-loop structural motif; 1.90A {Escherichia coli} SCOP: c.37.1.10 PDB: 1p9n_A

Probab=91.53  E-value=0.12  Score=48.51  Aligned_cols=26  Identities=35%  Similarity=0.535  Sum_probs=23.3

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ...+++|+|..|+|||||+..+....
T Consensus         5 ~~~~i~i~G~sGsGKTTl~~~l~~~l   30 (174)
T 1np6_A            5 MIPLLAFAAWSGTGKTTLLKKLIPAL   30 (174)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             cceEEEEEeCCCCCHHHHHHHHHHhc
Confidence            35789999999999999999998875

>1sq5_A Pantothenate kinase; P-loop, transferase; HET: PAU ADP; 2.20A {Escherichia coli} SCOP: c.37.1.6 PDB: 1esm_A* 1esn_A*

Probab=91.42  E-value=0.18  Score=52.26  Aligned_cols=27  Identities=30%  Similarity=0.273  Sum_probs=23.8

Q ss_pred             CCccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          145 EQVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       145 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ....+|+|+|+.|+|||||++.+....
T Consensus        78 ~~g~iigI~G~~GsGKSTl~~~L~~~l  104 (308)
T 1sq5_A           78 RIPYIISIAGSVAVGKSTTARVLQALL  104 (308)
T ss_dssp             CCCEEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHH
Confidence            345699999999999999999998875

>3b9q_A Chloroplast SRP receptor homolog, alpha subunit CPFTSY; protein translocation, GTP-binding, nucleotide-binding, protein transport; 1.75A {Arabidopsis thaliana}

Probab=91.40  E-value=0.11  Score=53.55  Aligned_cols=26  Identities=38%  Similarity=0.598  Sum_probs=23.4

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ...+++|+|+.|+||||+++.++...
T Consensus        99 ~g~vi~lvG~nGsGKTTll~~Lag~l  124 (302)
T 3b9q_A           99 KPAVIMIVGVNGGGKTTSLGKLAHRL  124 (302)
T ss_dssp             SCEEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHHH
Confidence            34699999999999999999998876

>3lnc_A Guanylate kinase, GMP kinase; ALS collaborative crystallography, emerald biostructures, ATP-binding, cytoplasm, nucleotide-binding; HET: 5GP; 1.95A {Anaplasma phagocytophilum}

Probab=91.35  E-value=0.071  Score=52.78  Aligned_cols=25  Identities=32%  Similarity=0.309  Sum_probs=16.6

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHH-hhh
Q 048126          147 VGIIGLYGMGGVGKTTLLTKIN-NKL  171 (863)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~-~~~  171 (863)
                      -.+++|+|+.|+|||||++.+. ...
T Consensus        27 G~ii~l~Gp~GsGKSTl~~~L~~~~~   52 (231)
T 3lnc_A           27 GVILVLSSPSGCGKTTVANKLLEKQK   52 (231)
T ss_dssp             CCEEEEECSCC----CHHHHHHC---
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhcCC
Confidence            4689999999999999999998 654

>2og2_A Putative signal recognition particle receptor; nucleotide-binding, protein transport; 2.00A {Arabidopsis thaliana}

Probab=91.30  E-value=0.2  Score=52.85  Aligned_cols=26  Identities=38%  Similarity=0.598  Sum_probs=23.4

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ...+++|+|..|+||||+++.++...
T Consensus       156 ~g~vi~lvG~nGsGKTTll~~Lag~l  181 (359)
T 2og2_A          156 KPAVIMIVGVNGGGKTTSLGKLAHRL  181 (359)
T ss_dssp             SSEEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCeEEEEEcCCCChHHHHHHHHHhhc
Confidence            34699999999999999999998876

>3crm_A TRNA delta(2)-isopentenylpyrophosphate transferase; ATP-binding, nucleotide-binding, nucleotidyltransferase, tRNA processing; 1.90A {Pseudomonas aeruginosa} PDB: 3crq_A 3crr_A

Probab=91.28  E-value=0.11  Score=53.71  Aligned_cols=24  Identities=33%  Similarity=0.366  Sum_probs=22.3

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          148 GIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      .+|.|+|+.|+||||||+.++...
T Consensus         6 ~~i~i~GptGsGKTtla~~La~~l   29 (323)
T 3crm_A            6 PAIFLMGPTAAGKTDLAMALADAL   29 (323)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHHS
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHc
Confidence            589999999999999999999876

>3a8t_A Adenylate isopentenyltransferase; rossmann fold protein; HET: ATP; 2.37A {Humulus lupulus}

Probab=91.24  E-value=0.11  Score=53.78  Aligned_cols=25  Identities=24%  Similarity=0.430  Sum_probs=22.8

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          147 VGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      .++|.|+|+.|+||||||..++...
T Consensus        40 ~~lIvI~GPTgsGKTtLa~~LA~~l   64 (339)
T 3a8t_A           40 EKLLVLMGATGTGKSRLSIDLAAHF   64 (339)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHTTS
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHC
Confidence            4689999999999999999999876

>3exa_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2, protein structure initiative; 2.30A {Bacillus halodurans} PDB: 2qgn_A

Probab=91.21  E-value=0.13  Score=52.73  Aligned_cols=24  Identities=25%  Similarity=0.440  Sum_probs=22.1

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          148 GIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ++|.|.|+.|+||||||..++...
T Consensus         4 ~~i~i~GptgsGKt~la~~La~~~   27 (322)
T 3exa_A            4 KLVAIVGPTAVGKTKTSVMLAKRL   27 (322)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHTT
T ss_pred             cEEEEECCCcCCHHHHHHHHHHhC
Confidence            589999999999999999999875

>3bgw_A DNAB-like replicative helicase; ATPase, replication; 3.91A {Bacillus phage SPP1}

Probab=91.17  E-value=0.5  Score=51.65  Aligned_cols=51  Identities=14%  Similarity=0.069  Sum_probs=34.9

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHHH
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGR  201 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~  201 (863)
                      .-.++.|.|.+|+||||+|..++..... .  =..++|++.-.  +..++...++.
T Consensus       196 ~G~liiIaG~pG~GKTtlal~ia~~~a~-~--g~~vl~fSlEm--s~~ql~~R~~~  246 (444)
T 3bgw_A          196 RRNFVLIAARPSMGKTAFALKQAKNMSD-N--DDVVNLHSLEM--GKKENIKRLIV  246 (444)
T ss_dssp             SSCEEEEEECSSSSHHHHHHHHHHHHHH-T--TCEEEEECSSS--CTTHHHHHHHH
T ss_pred             CCcEEEEEeCCCCChHHHHHHHHHHHHH-c--CCEEEEEECCC--CHHHHHHHHHH
Confidence            3468999999999999999999888732 2  13577775443  34445544443

>1q57_A DNA primase/helicase; dntpase, DNA replication, transferase; HET: DNA; 3.45A {Enterobacteria phage T7} SCOP: c.37.1.11 e.13.1.2

Probab=91.04  E-value=0.59  Score=52.23  Aligned_cols=52  Identities=12%  Similarity=0.008  Sum_probs=36.7

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHHH
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGR  201 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~  201 (863)
                      .-.++.|.|.+|+||||+|.+++.... . .+=..++|++...  +..++...++.
T Consensus       241 ~G~l~li~G~pG~GKT~lal~~a~~~a-~-~~g~~vl~~s~E~--s~~~l~~r~~~  292 (503)
T 1q57_A          241 GGEVIMVTSGSGMVMSTFVRQQALQWG-T-AMGKKVGLAMLEE--SVEETAEDLIG  292 (503)
T ss_dssp             TTCEEEEEESSCHHHHHHHHHHHHHHT-T-TSCCCEEEEESSS--CHHHHHHHHHH
T ss_pred             CCeEEEEeecCCCCchHHHHHHHHHHH-H-hcCCcEEEEeccC--CHHHHHHHHHH
Confidence            346899999999999999999998872 1 1123577776544  45666666544

>2qe7_A ATP synthase subunit alpha; blockage of ATP hydrolysis, F1-ATPase, single analysis, thermoalkaliphilic, hydrolase; 3.06A {Bacillus SP} PDB: 1sky_B

Probab=91.02  E-value=0.41  Score=52.14  Aligned_cols=98  Identities=16%  Similarity=0.126  Sum_probs=57.3

Q ss_pred             HHHHhcC-CCccEEEEEcCCCCcHHHHH-HHHHhhhcCCCCCCC-EEEEEEeCCccC-HHHHHHHHHHHhCCCCc-----
Q 048126          138 VWRCLGE-EQVGIIGLYGMGGVGKTTLL-TKINNKLLGAPNDFD-VVIWVVVSKDLQ-LEKIQEKIGRRIGFLDE-----  208 (863)
Q Consensus       138 l~~~L~~-~~~~vi~I~G~gGiGKTtLa-~~v~~~~~~~~~~F~-~~~wv~~s~~~~-~~~~~~~i~~~l~~~~~-----  208 (863)
                      .++.+.. .+-..++|.|..|+|||+|| ..+++..     +-+ .++++-+++... +.++.+.+.+.-.....     
T Consensus       152 aID~l~PigrGQR~~Ifg~~g~GKT~Lal~~I~~~~-----~~dv~~V~~~iGeR~~Ev~~~~~~~~~~g~m~~tvvV~a  226 (502)
T 2qe7_A          152 AIDSMIPIGRGQRELIIGDRQTGKTTIAIDTIINQK-----GQDVICIYVAIGQKQSTVAGVVETLRQHDALDYTIVVTA  226 (502)
T ss_dssp             HHHHSSCCBTTCBCEEEECSSSCHHHHHHHHHHGGG-----SCSEEEEEEEESCCHHHHHHHHHHHHHTTCSTTEEEEEE
T ss_pred             ecccccccccCCEEEEECCCCCCchHHHHHHHHHhh-----cCCcEEEEEECCCcchHHHHHHHHHhhCCCcceeEEEEE
Confidence            4455543 34457889999999999995 4777764     245 457888887654 55666666653222110     


Q ss_pred             cccCCChhHH-----HHHHHHHh--ccCcEEEEEeccCC
Q 048126          209 SWKNGSLEDK-----ASDILRIL--SKKKFLLLLDDIWE  240 (863)
Q Consensus       209 ~~~~~~~~~~-----~~~l~~~l--~~kr~LlVlDdv~~  240 (863)
                      ..+.......     .-.+.+++  +++.+||++||+..
T Consensus       227 tad~p~~~r~~a~~~a~tiAEyfrd~G~dVLl~~Dsltr  265 (502)
T 2qe7_A          227 SASEPAPLLYLAPYAGCAMGEYFMYKGKHALVVYDDLSK  265 (502)
T ss_dssp             CTTSCHHHHHHHHHHHHHHHHHHHTTTCEEEEEEECHHH
T ss_pred             CCCCCHHHHHHHHHHHHHHHHHHHHcCCcEEEEEecHHH
Confidence            0011111111     12233444  46899999999854

>2pcj_A ABC transporter, lipoprotein-releasing system ATP-binding protein; structural genomics; 1.70A {Aquifex aeolicus} PDB: 2pcl_A

Probab=90.98  E-value=0.1  Score=51.30  Aligned_cols=26  Identities=27%  Similarity=0.358  Sum_probs=22.5

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      .-.+++|+|+.|+|||||++.++.-.
T Consensus        29 ~Ge~~~iiG~nGsGKSTLl~~l~Gl~   54 (224)
T 2pcj_A           29 KGEFVSIIGASGSGKSTLLYILGLLD   54 (224)
T ss_dssp             TTCEEEEEECTTSCHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            34689999999999999999998654

>3tif_A Uncharacterized ABC transporter ATP-binding prote; nucleotide-binding domain, ABC transporter ATPase; HET: ADP; 1.80A {Methanocaldococcus jannaschii dsm 2661ORGANISM_TAXID} PDB: 1l2t_A* 1f3o_A*

Probab=90.92  E-value=0.1  Score=51.68  Aligned_cols=26  Identities=27%  Similarity=0.391  Sum_probs=22.6

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      .-.+++|+|+.|+|||||++.+..-.
T Consensus        30 ~Ge~~~iiG~nGsGKSTLl~~l~Gl~   55 (235)
T 3tif_A           30 EGEFVSIMGPSGSGKSTMLNIIGCLD   55 (235)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhcCC
Confidence            44689999999999999999998654

>1cr0_A DNA primase/helicase; RECA-type protein fold, transferase; HET: DNA; 2.30A {Enterobacteria phage T7} SCOP: c.37.1.11 PDB: 1cr1_A* 1cr2_A* 1cr4_A* 1e0j_A* 1e0k_A*

Probab=90.85  E-value=0.26  Score=50.76  Aligned_cols=52  Identities=15%  Similarity=0.144  Sum_probs=33.9

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHHH
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGR  201 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~  201 (863)
                      .-.+++|+|.+|+|||||++.++.... .... ..++|+....  +..++.+.+..
T Consensus        34 ~G~~~~i~G~~G~GKTTl~~~ia~~~~-~~~G-~~v~~~~~e~--~~~~~~~r~~~   85 (296)
T 1cr0_A           34 GGEVIMVTSGSGMGKSTFVRQQALQWG-TAMG-KKVGLAMLEE--SVEETAEDLIG   85 (296)
T ss_dssp             TTCEEEEEESTTSSHHHHHHHHHHHHH-HTSC-CCEEEEESSS--CHHHHHHHHHH
T ss_pred             CCeEEEEEeCCCCCHHHHHHHHHHHHH-HHcC-CeEEEEeCcC--CHHHHHHHHHH
Confidence            446999999999999999999988762 1111 1466665432  34444444443

>1oix_A RAS-related protein RAB-11A; small G protein, intracellular trafficking, GTP-binding, lipoprotein, prenylation, protein transport; HET: GDP; 1.7A {Homo sapiens} SCOP: c.37.1.8 PDB: 1oiw_A* 1oiv_A* 3rwo_B* 3rwm_B*

Probab=90.75  E-value=0.14  Score=48.94  Aligned_cols=25  Identities=32%  Similarity=0.473  Sum_probs=22.1

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          147 VGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      .-.|+|+|..|+|||||++.+....
T Consensus        29 ~~kv~lvG~~g~GKSTLl~~l~~~~   53 (191)
T 1oix_A           29 LFKVVLIGDSGVGKSNLLSRFTRNE   53 (191)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHHSC
T ss_pred             ceEEEEECcCCCCHHHHHHHHhcCC
Confidence            4578999999999999999998764

>4eaq_A DTMP kinase, thymidylate kinase; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, MTBI, transferase; HET: ATM; 1.85A {Staphylococcus aureus subsp} PDB: 4dwj_A* 4f4i_A

Probab=90.72  E-value=0.24  Score=48.81  Aligned_cols=26  Identities=31%  Similarity=0.531  Sum_probs=23.8

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ...+|+|.|+.|+||||+++.+.+..
T Consensus        25 ~g~~i~i~G~~GsGKsT~~~~l~~~l   50 (229)
T 4eaq_A           25 MSAFITFEGPEGSGKTTVINEVYHRL   50 (229)
T ss_dssp             CCEEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHH
Confidence            34689999999999999999999998

>3io3_A DEHA2D07832P; chaperone, membrane traffic, ATPase; HET: ADP; 1.80A {Debaryomyces hansenii}

Probab=90.69  E-value=0.28  Score=51.66  Aligned_cols=49  Identities=22%  Similarity=0.261  Sum_probs=33.4

Q ss_pred             hcCCCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccC
Q 048126          142 LGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQ  191 (863)
Q Consensus       142 L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~  191 (863)
                      +.....+++.+.|-||+||||+|..++...... ..=..++-|+.....+
T Consensus        13 l~~~~~~i~~~~gkGGvGKTt~a~~lA~~la~~-~~g~~vllid~D~~~~   61 (348)
T 3io3_A           13 VQHDSLKWIFVGGKGGVGKTTTSSSVAVQLALA-QPNEQFLLISTDPAHN   61 (348)
T ss_dssp             HTCTTCSEEEEECSTTSSHHHHHHHHHHHHHHH-CTTSCEEEEECCSSCH
T ss_pred             hcCCCcEEEEEeCCCCCcHHHHHHHHHHHHHHh-cCCCeEEEEECCCCCC
Confidence            334567899999999999999999998877200 1222466666654433

>1nlf_A Regulatory protein REPA; replicative DNA helicase structural changes, replication; 1.95A {Escherichia coli} SCOP: c.37.1.11 PDB: 1g8y_A 1olo_A

Probab=90.67  E-value=0.2  Score=51.14  Aligned_cols=26  Identities=23%  Similarity=0.372  Sum_probs=22.8

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      .-.++.|+|.+|+|||||+..++...
T Consensus        29 ~G~i~~i~G~~GsGKTtl~~~l~~~~   54 (279)
T 1nlf_A           29 AGTVGALVSPGGAGKSMLALQLAAQI   54 (279)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHHHHH
Confidence            34699999999999999999998755

>3b85_A Phosphate starvation-inducible protein; PHOH2, ATPase, PFAM: PF02562, ST genomics, PSI-2, protein structure initiative; 2.35A {Corynebacterium glutamicum atcc 13032}

Probab=90.66  E-value=0.097  Score=50.72  Aligned_cols=23  Identities=30%  Similarity=0.231  Sum_probs=20.9

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHhh
Q 048126          148 GIIGLYGMGGVGKTTLLTKINNK  170 (863)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~  170 (863)
                      .+++|+|+.|+|||||++.++.-
T Consensus        23 e~~~liG~nGsGKSTLl~~l~Gl   45 (208)
T 3b85_A           23 TIVFGLGPAGSGKTYLAMAKAVQ   45 (208)
T ss_dssp             SEEEEECCTTSSTTHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhcC
Confidence            58999999999999999999764

>3iqw_A Tail-anchored protein targeting factor GET3; ATPase, Zn binding, protein transport; HET: ANP; 3.00A {Chaetomium thermophilum} PDB: 3iqx_A* 3ibg_A*

Probab=90.52  E-value=0.34  Score=50.71  Aligned_cols=49  Identities=27%  Similarity=0.281  Sum_probs=34.4

Q ss_pred             hcCCCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHH
Q 048126          142 LGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLE  193 (863)
Q Consensus       142 L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~  193 (863)
                      +.....+++.+.|-||+||||+|..++....   ..=..++-|+.....++.
T Consensus        11 l~~~~~~i~~~sgkGGvGKTt~a~~lA~~la---~~g~~vllid~D~~~~l~   59 (334)
T 3iqw_A           11 LDQRSLRWIFVGGKGGVGKTTTSCSLAIQLA---KVRRSVLLLSTDPAHNLS   59 (334)
T ss_dssp             HHCTTCCEEEEECSTTSSHHHHHHHHHHHHT---TSSSCEEEEECCSSCHHH
T ss_pred             hcCCCeEEEEEeCCCCccHHHHHHHHHHHHH---hCCCcEEEEECCCCCChh
Confidence            3344567888899999999999999998873   222346667666444333

>1yrb_A ATP(GTP)binding protein; GTPase, P-loop, rossman fold, GDP, HYDR; HET: GDP; 1.75A {Pyrococcus abyssi} SCOP: c.37.1.10 PDB: 1yr6_A* 1yr8_A* 1yr9_A* 1yra_A* 1yr7_A* 2oxr_A*

Probab=90.50  E-value=0.15  Score=51.52  Aligned_cols=26  Identities=35%  Similarity=0.428  Sum_probs=23.2

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ...++.+.|.||+||||++..++...
T Consensus        13 ~~~i~~~~GkgGvGKTTl~~~La~~l   38 (262)
T 1yrb_A           13 ASMIVVFVGTAGSGKTTLTGEFGRYL   38 (262)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             ceEEEEEeCCCCCCHHHHHHHHHHHH
Confidence            45688899999999999999999876

>2r9v_A ATP synthase subunit alpha; TM1612, structural genomics, JOI for structural genomics, JCSG, protein structure initiative ATP synthesis; HET: ATP PG4; 2.10A {Thermotoga maritima MSB8}

Probab=90.50  E-value=0.36  Score=52.61  Aligned_cols=98  Identities=15%  Similarity=0.136  Sum_probs=56.7

Q ss_pred             HHHHhcC-CCccEEEEEcCCCCcHHHHHH-HHHhhhcCCCCCCC-EEEEEEeCCccC-HHHHHHHHHHHhCCCC-----c
Q 048126          138 VWRCLGE-EQVGIIGLYGMGGVGKTTLLT-KINNKLLGAPNDFD-VVIWVVVSKDLQ-LEKIQEKIGRRIGFLD-----E  208 (863)
Q Consensus       138 l~~~L~~-~~~~vi~I~G~gGiGKTtLa~-~v~~~~~~~~~~F~-~~~wv~~s~~~~-~~~~~~~i~~~l~~~~-----~  208 (863)
                      .++.+.. .+-..++|.|..|+|||+||. .+++..     .-+ .++++-+++... +.++.+.+.+.-....     .
T Consensus       165 aID~l~PigrGQR~~I~g~~g~GKT~Lal~~I~~~~-----~~dv~~V~~~IGeR~~Ev~e~~~~~~~~g~m~rtvvV~a  239 (515)
T 2r9v_A          165 AIDSMIPIGRGQRELIIGDRQTGKTAIAIDTIINQK-----GQGVYCIYVAIGQKKSAIARIIDKLRQYGAMEYTTVVVA  239 (515)
T ss_dssp             HHHHHSCEETTCBEEEEEETTSSHHHHHHHHHHTTT-----TTTEEEEEEEESCCHHHHHHHHHHHHHTTGGGGEEEEEE
T ss_pred             ccccccccccCCEEEEEcCCCCCccHHHHHHHHHhh-----cCCcEEEEEEcCCCcHHHHHHHHHHHhCCCcceeEEEEE
Confidence            4444443 344578899999999999964 676654     345 357888887654 5566666654221110     0


Q ss_pred             cccCCChhH-----HHHHHHHHh--ccCcEEEEEeccCC
Q 048126          209 SWKNGSLED-----KASDILRIL--SKKKFLLLLDDIWE  240 (863)
Q Consensus       209 ~~~~~~~~~-----~~~~l~~~l--~~kr~LlVlDdv~~  240 (863)
                      ..+......     ..-.+.+++  +++.+||++||+..
T Consensus       240 tad~p~~~r~~a~~~a~tiAEyfrd~G~dVLli~DslTr  278 (515)
T 2r9v_A          240 SASDPASLQYIAPYAGCAMGEYFAYSGRDALVVYDDLSK  278 (515)
T ss_dssp             CTTSCHHHHHHHHHHHHHHHHHHHTTTCEEEEEEETHHH
T ss_pred             CCCCCHHHHHHHHHHHHHHHHHHHHcCCcEEEEeccHHH
Confidence            001111111     112233444  46899999999854

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli}

Probab=90.47  E-value=0.5  Score=60.50  Aligned_cols=97  Identities=15%  Similarity=0.132  Sum_probs=62.4

Q ss_pred             HHHHHHhc-C--CCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHHHHhCCCCccc--
Q 048126          136 DKVWRCLG-E--EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGRRIGFLDESW--  210 (863)
Q Consensus       136 ~~l~~~L~-~--~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~--  210 (863)
                      ..|-..|. .  ..-+++.|+|.+|+||||||.+++.....   .=..++|++....++...     ++.++...+..  
T Consensus       369 ~~LD~lLG~GGl~~G~lilI~G~pGsGKTtLaLqia~~~a~---~G~~vlyis~E~s~~~~~-----a~~lGvd~~~L~I  440 (2050)
T 3cmu_A          369 LSLDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIAAAQR---EGKTCAFIDAEHALDPIY-----ARKLGVDIDNLLC  440 (2050)
T ss_dssp             HHHHHHHSSSSEETTSEEEEECCTTSSHHHHHHHHHHHHHT---TTCCEEEECTTSCCCHHH-----HHHTTCCTTTCEE
T ss_pred             HHHHHHhccCCccCCcEEEEEeCCCCCHHHHHHHHHHHHHh---cCCeEEEEEcCCCHHHHH-----HHHcCCCHHHeEE
Confidence            34444454 2  24579999999999999999999888732   223688888777666432     55666543211  


Q ss_pred             -cCCChhHHHHHHHHHhc-cCcEEEEEeccCC
Q 048126          211 -KNGSLEDKASDILRILS-KKKFLLLLDDIWE  240 (863)
Q Consensus       211 -~~~~~~~~~~~l~~~l~-~kr~LlVlDdv~~  240 (863)
                       +..+.++....+....+ .+.-+||+|-+..
T Consensus       441 ~~~~~~e~il~~~~~lv~~~~~~lIVIDSL~a  472 (2050)
T 3cmu_A          441 SQPDTGEQALEICDALARSGAVDVIVVDSVAA  472 (2050)
T ss_dssp             ECCSSHHHHHHHHHHHHHHTCCSEEEESCGGG
T ss_pred             eCCCCHHHHHHHHHHHHHhcCCcEEEECCHHH
Confidence             23355555555554443 3566999999854

>3foz_A TRNA delta(2)-isopentenylpyrophosphate transferas; nucleoside modification, isopentenyl-tRNA transferase, transferase-RNA complex; 2.50A {Escherichia coli k-12} PDB: 2zxu_A* 2zm5_A

Probab=90.45  E-value=0.15  Score=52.01  Aligned_cols=26  Identities=31%  Similarity=0.284  Sum_probs=23.3

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ..++|.|.|+.|+||||||..++...
T Consensus         9 ~~~~i~i~GptgsGKt~la~~La~~~   34 (316)
T 3foz_A            9 LPKAIFLMGPTASGKTALAIELRKIL   34 (316)
T ss_dssp             CCEEEEEECCTTSCHHHHHHHHHHHS
T ss_pred             CCcEEEEECCCccCHHHHHHHHHHhC
Confidence            34689999999999999999999876

>2cbz_A Multidrug resistance-associated protein 1; ABC proteins, MRP1/ABCC1, nucleotide-binding domain, ATP- binding, hydrolysis, transport; HET: ATP; 1.5A {Homo sapiens}

Probab=90.44  E-value=0.12  Score=51.21  Aligned_cols=26  Identities=23%  Similarity=0.517  Sum_probs=22.7

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      .-.+++|+|+.|+|||||++.++.-.
T Consensus        30 ~Ge~~~i~G~nGsGKSTLl~~l~Gl~   55 (237)
T 2cbz_A           30 EGALVAVVGQVGCGKSSLLSALLAEM   55 (237)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTCS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            44699999999999999999997654

>2dyk_A GTP-binding protein; GTPase, ribosome-binding protein, structural genomics; HET: GDP; 1.96A {Thermus thermophilus}

Probab=90.38  E-value=0.16  Score=46.51  Aligned_cols=24  Identities=25%  Similarity=0.400  Sum_probs=21.2

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          148 GIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ..|.|+|.+|+|||||+..+....
T Consensus         2 ~ki~v~G~~~~GKSsli~~l~~~~   25 (161)
T 2dyk_A            2 HKVVIVGRPNVGKSSLFNRLLKKR   25 (161)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHCC
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCC
Confidence            468899999999999999998764

>3lv8_A DTMP kinase, thymidylate kinase; structural genomics, in diseases, center for structural genomics of infectious DISE ATP-binding; HET: ADP TMP TYD; 1.80A {Vibrio cholerae o1 biovar eltor} PDB: 3n2i_A*

Probab=90.32  E-value=0.33  Score=47.91  Aligned_cols=36  Identities=25%  Similarity=0.394  Sum_probs=28.0

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEE
Q 048126          147 VGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWV  184 (863)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv  184 (863)
                      ...|.|.|+.|+||||+++.+++...  ..++..+...
T Consensus        27 ~~~i~~eG~~GsGKsT~~~~l~~~l~--~~~~~~~~~~   62 (236)
T 3lv8_A           27 AKFIVIEGLEGAGKSTAIQVVVETLQ--QNGIDHITRT   62 (236)
T ss_dssp             CCEEEEEESTTSCHHHHHHHHHHHHH--HTTCCCEEEE
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHH--hcCCCeeeee
Confidence            46899999999999999999998873  3456534443

>2d2e_A SUFC protein; ABC-ATPase, SUF protein, 310-helix, riken structural genomics/proteomics initiative, RSGI, structural genomics, binding; 1.70A {Thermus thermophilus} PDB: 2d2f_A*

Probab=90.32  E-value=0.15  Score=51.08  Aligned_cols=25  Identities=28%  Similarity=0.384  Sum_probs=22.2

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhh
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNK  170 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~  170 (863)
                      .-.+++|+|+.|+|||||++.++.-
T Consensus        28 ~Ge~~~l~G~nGsGKSTLlk~l~Gl   52 (250)
T 2d2e_A           28 KGEVHALMGPNGAGKSTLGKILAGD   52 (250)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHHTC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            3468999999999999999999874

>1a7j_A Phosphoribulokinase; transferase, calvin cycle; 2.50A {Rhodobacter sphaeroides} SCOP: c.37.1.6

Probab=90.31  E-value=0.089  Score=54.06  Aligned_cols=26  Identities=23%  Similarity=0.418  Sum_probs=20.2

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      +..+|+|.|..|+||||+|+.+....
T Consensus         4 ~~~iIgItG~sGSGKSTva~~L~~~l   29 (290)
T 1a7j_A            4 KHPIISVTGSSGAGTSTVKHTFDQIF   29 (290)
T ss_dssp             TSCEEEEESCC---CCTHHHHHHHHH
T ss_pred             CceEEEEECCCCCCHHHHHHHHHHHH
Confidence            45689999999999999999998865

>3gfo_A Cobalt import ATP-binding protein CBIO 1; structural genomics, cell membrane, cobalt transport, hydrolase, ION transport; 2.30A {Clostridium perfringens atcc 13124}

Probab=90.29  E-value=0.12  Score=52.34  Aligned_cols=26  Identities=35%  Similarity=0.570  Sum_probs=22.4

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      .-.+++|+|+.|+|||||++.++.-.
T Consensus        33 ~Ge~~~iiGpnGsGKSTLl~~l~Gl~   58 (275)
T 3gfo_A           33 RGEVTAILGGNGVGKSTLFQNFNGIL   58 (275)
T ss_dssp             TTSEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHcCC
Confidence            34689999999999999999997654

>1b0u_A Histidine permease; ABC transporter, transport protein; HET: ATP; 1.50A {Salmonella typhimurium} SCOP: c.37.1.12

Probab=90.27  E-value=0.13  Score=52.01  Aligned_cols=26  Identities=35%  Similarity=0.437  Sum_probs=22.7

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      .-.+++|+|+.|+|||||++.++.-.
T Consensus        31 ~Ge~~~liG~nGsGKSTLlk~l~Gl~   56 (262)
T 1b0u_A           31 AGDVISIIGSSGSGKSTFLRCINFLE   56 (262)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            44699999999999999999998654

>2r8r_A Sensor protein; KDPD, PFAM02702, MCSG, structural genomics, protein structure initiative, midwest center for structural genomics, kinase; 2.30A {Pseudomonas syringae PV}

Probab=90.25  E-value=0.23  Score=48.17  Aligned_cols=37  Identities=27%  Similarity=0.219  Sum_probs=26.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCC
Q 048126          149 IIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSK  188 (863)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~  188 (863)
                      .|.+.|.||+||||+|..++....  ...++. .++.+..
T Consensus         8 ~I~~~~kgGvGKTt~a~~la~~l~--~~G~~V-~v~d~D~   44 (228)
T 2r8r_A            8 KVFLGAAPGVGKTYAMLQAAHAQL--RQGVRV-MAGVVET   44 (228)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHHHH--HTTCCE-EEEECCC
T ss_pred             EEEEECCCCCcHHHHHHHHHHHHH--HCCCCE-EEEEeCC
Confidence            477899999999999999988863  334543 3444443

>2c61_A A-type ATP synthase non-catalytic subunit B; hydrolase, H+ ATPase, A1AO, ATP synthesis, hydrogen ION transport, ION transport; 1.5A {Methanosarcina mazei GO1} PDB: 3dsr_A* 3b2q_A* 2rkw_A* 3eiu_A*

Probab=90.22  E-value=0.25  Score=53.58  Aligned_cols=101  Identities=9%  Similarity=0.107  Sum_probs=59.2

Q ss_pred             HHHHhcC-CCccEEEEEcCCCCcHHHHHHHHHhhhcCC-CCC-CCEEEEEEeCCccC-HHHHHHHHHHHhCCCC-----c
Q 048126          138 VWRCLGE-EQVGIIGLYGMGGVGKTTLLTKINNKLLGA-PND-FDVVIWVVVSKDLQ-LEKIQEKIGRRIGFLD-----E  208 (863)
Q Consensus       138 l~~~L~~-~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~-~~~-F~~~~wv~~s~~~~-~~~~~~~i~~~l~~~~-----~  208 (863)
                      +++.+.. .+-..++|.|..|+|||+|+.++++.. .. +.. =+.++++-+++... +.++.+.+...-....     .
T Consensus       142 ~ID~l~pigrGQr~~Ifgg~G~GKt~Ll~~Ia~~~-~~n~~~~~~~~V~~~iGER~~Ev~e~~~~~~~~g~m~rtvvV~~  220 (469)
T 2c61_A          142 TIDGTNTLVRGQKLPIFSASGLPHNEIALQIARQA-SVPGSESAFAVVFAAMGITNEEAQYFMSDFEKTGALERAVVFLN  220 (469)
T ss_dssp             HHHTTSCCBTTCBCCEEECTTSCHHHHHHHHHHHC-BCTTCSSCEEEEEEEEEECHHHHHHHHHHHHHHSGGGGEEEEEE
T ss_pred             eeeeeeccccCCEEEEECCCCCCHHHHHHHHHHHH-hhccCCCCcEEEEEEccCCcHHHHHHHHHHHhccCccceEEEEE
Confidence            3444433 233467789999999999999999987 22 111 14677887877653 5566666654321110     0


Q ss_pred             cccCCChhH------HHHHHHHHhc---cCcEEEEEeccCC
Q 048126          209 SWKNGSLED------KASDILRILS---KKKFLLLLDDIWE  240 (863)
Q Consensus       209 ~~~~~~~~~------~~~~l~~~l~---~kr~LlVlDdv~~  240 (863)
                      + ...+...      ..-.+.++++   ++.+||++||+..
T Consensus       221 t-sd~p~~~r~~~~~~a~tiAEyfrdd~G~dVLl~~DsltR  260 (469)
T 2c61_A          221 L-ADDPAVERIVTPRMALTAAEYLAYEHGMHVLVILTDITN  260 (469)
T ss_dssp             E-TTSCHHHHHHHHHHHHHHHHHHHHHHCCEEEEEEECHHH
T ss_pred             C-CCCCHHHHHHHHHHHHHHHHHHHHhcCCeEEEEEeCHHH
Confidence            0 1111111      1223445554   5899999999743

>3cmw_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 2.80A {Escherichia coli} PDB: 3cmt_A* 3cmx_A* 3cmv_A*

Probab=90.21  E-value=0.46  Score=60.03  Aligned_cols=87  Identities=15%  Similarity=0.152  Sum_probs=58.5

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHHHHhCCCCccc---cCCChhHHHHHH
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGRRIGFLDESW---KNGSLEDKASDI  222 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~---~~~~~~~~~~~l  222 (863)
                      .-+++.|+|.+|+||||||.+++.....   .=..++|++.....+..     .++.++...+..   ...+.++....+
T Consensus       382 ~G~lilI~G~pGsGKTtLaLq~a~~~~~---~G~~vlyis~E~s~~~~-----~a~~lGvd~~~L~i~~~~~~e~~l~~l  453 (1706)
T 3cmw_A          382 MGRIVEIYGPESSGKTTLTLQVIAAAQR---EGKTCAFIDAEHALDPI-----YARKLGVDIDNLLCSQPDTGEQALEIC  453 (1706)
T ss_dssp             TTSEEEEECSTTSSHHHHHHHHHHHHHH---TTCCEEEECTTSCCCHH-----HHHHTTCCGGGCEEECCSSHHHHHHHH
T ss_pred             CCcEEEEEeCCCCCHHHHHHHHHHHHHH---hCCCeEEEEccCchHHH-----HHHHcCCCHHHeEEcCCCCHHHHHHHH
Confidence            4579999999999999999999887621   22368899887776653     256666543321   233455555555


Q ss_pred             HHHhc-cCcEEEEEeccCC
Q 048126          223 LRILS-KKKFLLLLDDIWE  240 (863)
Q Consensus       223 ~~~l~-~kr~LlVlDdv~~  240 (863)
                      ....+ .+.-+||+|-+..
T Consensus       454 ~~lv~~~~~~lVVIDSL~a  472 (1706)
T 3cmw_A          454 DALARSGAVDVIVVDSVAA  472 (1706)
T ss_dssp             HHHHHHTCCSEEEESCSTT
T ss_pred             HHHHHhcCCCEEEECCHHH
Confidence            54443 3556999999864

>1ji0_A ABC transporter; ATP binding protein, structural genomics, PSI, protein structure initiative, midwest center for structural genomics, MCSG; HET: ATP; 2.00A {Thermotoga maritima} SCOP: c.37.1.12

Probab=90.16  E-value=0.13  Score=51.06  Aligned_cols=26  Identities=38%  Similarity=0.538  Sum_probs=22.6

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      .-.+++|+|+.|+|||||.+.++.-.
T Consensus        31 ~Ge~~~l~G~nGsGKSTLl~~l~Gl~   56 (240)
T 1ji0_A           31 RGQIVTLIGANGAGKTTTLSAIAGLV   56 (240)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            34689999999999999999998654

>2zu0_C Probable ATP-dependent transporter SUFC; iron-sulfur cluster, ABC-ATPase, ATP-binding, cytoplasm, nucleotide-binding; HET: MES; 2.20A {Escherichia coli} PDB: 2d3w_A

Probab=90.13  E-value=0.15  Score=51.53  Aligned_cols=25  Identities=24%  Similarity=0.426  Sum_probs=22.4

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhh
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNK  170 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~  170 (863)
                      .-.+++|+|+.|+|||||++.++.-
T Consensus        45 ~Ge~~~l~G~NGsGKSTLlk~l~Gl   69 (267)
T 2zu0_C           45 PGEVHAIMGPNGSGKSTLSATLAGR   69 (267)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHTC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            4469999999999999999999874

>2wji_A Ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GNP; 1.90A {Methanocaldococcus jannaschii} PDB: 2wjj_A* 2wjh_A*

Probab=90.09  E-value=0.16  Score=47.08  Aligned_cols=23  Identities=30%  Similarity=0.455  Sum_probs=20.7

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHhh
Q 048126          148 GIIGLYGMGGVGKTTLLTKINNK  170 (863)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~  170 (863)
                      ..|+|+|.+|+|||||.+.+...
T Consensus         4 ~~v~lvG~~gvGKStL~~~l~~~   26 (165)
T 2wji_A            4 YEIALIGNPNVGKSTIFNALTGE   26 (165)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHCC
T ss_pred             cEEEEECCCCCCHHHHHHHHhCC
Confidence            46899999999999999999864

>3gqb_B V-type ATP synthase beta chain; A3B3, V-ATPase, ATP synthesis, ATP-binding, hydrogen ION TRA hydrolase, ION transport; 2.80A {Thermus thermophilus HB8} PDB: 3a5c_D* 3a5d_D 3j0j_D*

Probab=90.09  E-value=0.21  Score=53.82  Aligned_cols=102  Identities=11%  Similarity=0.170  Sum_probs=57.9

Q ss_pred             HHHHhcC-CCccEEEEEcCCCCcHHHHHHHHHhhhcCCC--------CCCC-EEEEEEeCCcc-CHHHHHHHHHHHhCCC
Q 048126          138 VWRCLGE-EQVGIIGLYGMGGVGKTTLLTKINNKLLGAP--------NDFD-VVIWVVVSKDL-QLEKIQEKIGRRIGFL  206 (863)
Q Consensus       138 l~~~L~~-~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~--------~~F~-~~~wv~~s~~~-~~~~~~~~i~~~l~~~  206 (863)
                      .++.+.. .+-..++|.|..|+|||+|+.++++.. ...        ++-+ .++++-+.+.. .+.++.+.+.+.-...
T Consensus       137 aID~l~pigrGQr~~Ifgg~G~GKt~L~~~Ia~~~-~a~~~~~~~~~d~~~~~~V~~~iGeR~~Ev~e~~~~l~~~g~~~  215 (464)
T 3gqb_B          137 TIDVMNTLVRGQKLPIFSGSGLPANEIAAQIARQA-TVRPDLSGEGEKEEPFAVVFAAMGITQRELSYFIQEFERTGALS  215 (464)
T ss_dssp             HHHTTSCCBTTCBCCEEEETTSCHHHHHHHHHHHC-BCCHHHHCCCSTTCCEEEEEEEEEECHHHHHHHHHHHHHTSGGG
T ss_pred             eeecccccccCCEEEEecCCCCCchHHHHHHHHHH-HhcccccccccCCCceEEEEEEecCchHHHHHHHHHhhhccccc
Confidence            3444432 233467899999999999999999886 321        1222 56777777654 3456666654421010


Q ss_pred             -----CccccCCChhH-----HHHHHHHHhc---cCcEEEEEeccCC
Q 048126          207 -----DESWKNGSLED-----KASDILRILS---KKKFLLLLDDIWE  240 (863)
Q Consensus       207 -----~~~~~~~~~~~-----~~~~l~~~l~---~kr~LlVlDdv~~  240 (863)
                           ....+......     ..-.+.++++   ++.+||++||+..
T Consensus       216 rtvvv~~t~d~p~~~r~~~~~~a~tiAEyfrd~~G~~VLl~~DdlTr  262 (464)
T 3gqb_B          216 RSVLFLNKADDPTIERILTPRMALTVAEYLAFEHDYHVLVILTDMTN  262 (464)
T ss_dssp             GEEEEEEETTSCTHHHHHHHHHHHHHHHHHHHTTCCEEEEEEETHHH
T ss_pred             ceEEEEECCCCCHHHHHHHHHHHHHHHHHHHHhcCCeEEEEEcChHH
Confidence                 00111112221     1223445554   6899999999854

>2pze_A Cystic fibrosis transmembrane conductance regulat; NBD, ABC transporter, CFTR, hydrolase; HET: ATP; 1.70A {Homo sapiens} PDB: 2pzg_A* 2pzf_A* 1ckx_A 1cky_A 1ckw_A 1ckz_A

Probab=90.07  E-value=0.14  Score=50.56  Aligned_cols=26  Identities=35%  Similarity=0.525  Sum_probs=22.8

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      .-.+++|+|+.|+|||||.+.++.-.
T Consensus        33 ~Ge~~~i~G~nGsGKSTLl~~l~Gl~   58 (229)
T 2pze_A           33 RGQLLAVAGSTGAGKTSLLMMIMGEL   58 (229)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            34689999999999999999998765

>1sgw_A Putative ABC transporter; structural genomics, P protein structure initiative, southeast collaboratory for S genomics, secsg; 1.70A {Pyrococcus furiosus} SCOP: c.37.1.12

Probab=90.04  E-value=0.12  Score=50.35  Aligned_cols=26  Identities=38%  Similarity=0.636  Sum_probs=22.4

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      .-.+++|+|+.|+|||||++.++.-.
T Consensus        34 ~Ge~~~iiG~NGsGKSTLlk~l~Gl~   59 (214)
T 1sgw_A           34 KGNVVNFHGPNGIGKTTLLKTISTYL   59 (214)
T ss_dssp             TTCCEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            34589999999999999999998654

>2olj_A Amino acid ABC transporter; ABC domain, ATPase, hydrolase; HET: ADP; 2.05A {Geobacillus stearothermophilus} PDB: 2olk_A* 2ouk_A 2q0h_A* 3c4j_A* 3c41_J*

Probab=90.03  E-value=0.14  Score=51.67  Aligned_cols=26  Identities=27%  Similarity=0.351  Sum_probs=22.7

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      .-.+++|+|+.|+|||||++.++.-.
T Consensus        49 ~Gei~~liG~NGsGKSTLlk~l~Gl~   74 (263)
T 2olj_A           49 EGEVVVVIGPSGSGKSTFLRCLNLLE   74 (263)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEEcCCCCcHHHHHHHHHcCC
Confidence            44699999999999999999998654

>4g1u_C Hemin import ATP-binding protein HMUV; membrane transporter, type II ABC importer, HMUT, plasma MEM transport protein-hydrolase complex; 3.01A {Yersinia pestis}

Probab=90.03  E-value=0.14  Score=51.82  Aligned_cols=26  Identities=31%  Similarity=0.523  Sum_probs=22.8

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      .-.+++|+|+.|+|||||++.++.-.
T Consensus        36 ~Ge~~~liG~nGsGKSTLl~~l~Gl~   61 (266)
T 4g1u_C           36 SGEMVAIIGPNGAGKSTLLRLLTGYL   61 (266)
T ss_dssp             TTCEEEEECCTTSCHHHHHHHHTSSS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhcCC
Confidence            44689999999999999999998755

>3vr4_A V-type sodium ATPase catalytic subunit A; V-ATPase, rotary motor, P-loop, hydrolas ATPase, ATP binding; HET: MSE B3P; 2.17A {Enterococcus hirae} PDB: 3vr3_A* 3vr2_A* 3vr5_A 3vr6_A*

Probab=90.01  E-value=1.1  Score=49.53  Aligned_cols=57  Identities=21%  Similarity=0.272  Sum_probs=41.2

Q ss_pred             HHHHhcC-CCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCcc-CHHHHHHHH
Q 048126          138 VWRCLGE-EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDL-QLEKIQEKI  199 (863)
Q Consensus       138 l~~~L~~-~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~-~~~~~~~~i  199 (863)
                      +++.|.. .+-..++|.|..|+|||+|+.++++..     +-+.++++-+.+.. .+.++++.+
T Consensus       222 vID~l~PigrGqr~~Ifgg~g~GKT~L~~~ia~~~-----~~~v~V~~~iGER~~Ev~e~~~~~  280 (600)
T 3vr4_A          222 VIDTFFPVTKGGAAAVPGPFGAGKTVVQHQIAKWS-----DVDLVVYVGCGERGNEMTDVVNEF  280 (600)
T ss_dssp             HHHHHSCCBTTCEEEEECCTTSCHHHHHHHHHHHS-----SCSEEEEEEEEECHHHHHHHHHHT
T ss_pred             hhhccCCccCCCEEeeecCCCccHHHHHHHHHhcc-----CCCEEEEEEecccHHHHHHHHHHH
Confidence            4555543 345689999999999999999998875     23578888888763 344555544

>3zvl_A Bifunctional polynucleotide phosphatase/kinase; hydrolase-transferase complex, base excision repair, BER, non-homologous END-joining, NHEJ; 1.65A {Mus musculus} PDB: 3zvm_A* 3zvn_A* 1yj5_A 3u7e_B* 3u7f_B* 3u7h_B* 3u7g_A*

Probab=90.01  E-value=0.16  Score=55.23  Aligned_cols=27  Identities=19%  Similarity=0.283  Sum_probs=24.0

Q ss_pred             CCccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          145 EQVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       145 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ....+|.|+|++|+||||+|+.++.+.
T Consensus       256 ~~~~lIil~G~pGSGKSTla~~L~~~~  282 (416)
T 3zvl_A          256 PNPEVVVAVGFPGAGKSTFIQEHLVSA  282 (416)
T ss_dssp             SSCCEEEEESCTTSSHHHHHHHHTGGG
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHhc
Confidence            356799999999999999999998765

>1ltq_A Polynucleotide kinase; phosphatase, alpha/beta, P-loop, transferase; HET: ADP; 2.33A {Enterobacteria phage T4} SCOP: c.108.1.9 c.37.1.1 PDB: 1rc8_A* 1rpz_A* 1rrc_A* 2ia5_A

Probab=90.00  E-value=0.16  Score=52.51  Aligned_cols=24  Identities=33%  Similarity=0.296  Sum_probs=21.5

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          148 GIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      .+|.|.|++|+||||+|+.+....
T Consensus         3 ~~I~l~G~~GsGKST~a~~L~~~~   26 (301)
T 1ltq_A            3 KIILTIGCPGSGKSTWAREFIAKN   26 (301)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHHhC
Confidence            578999999999999999998753

>2f9l_A RAB11B, member RAS oncogene family; RAB11B GTPase, vesicle transport, hydrolase; HET: GDP; 1.55A {Homo sapiens} SCOP: c.37.1.8 PDB: 2f9m_A* 1yzk_A* 2hv8_A* 2gzd_A* 2gzh_A* 2d7c_A* 3bfk_A*

Probab=90.00  E-value=0.17  Score=48.51  Aligned_cols=24  Identities=33%  Similarity=0.468  Sum_probs=21.4

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          148 GIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      -.|+|+|..|+|||||.+.+....
T Consensus         6 ~kv~lvG~~g~GKSTLl~~l~~~~   29 (199)
T 2f9l_A            6 FKVVLIGDSGVGKSNLLSRFTRNE   29 (199)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHSC
T ss_pred             EEEEEECcCCCCHHHHHHHHhcCC
Confidence            468999999999999999998763

>1g6h_A High-affinity branched-chain amino acid transport ATP-binding protein; beta-core domain; HET: ADP; 1.60A {Methanocaldococcus jannaschii} SCOP: c.37.1.12 PDB: 1gaj_A 1g9x_A*

Probab=89.96  E-value=0.14  Score=51.55  Aligned_cols=26  Identities=31%  Similarity=0.433  Sum_probs=22.6

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      .-.+++|+|+.|+|||||.+.++.-.
T Consensus        32 ~Ge~~~liG~nGsGKSTLlk~l~Gl~   57 (257)
T 1g6h_A           32 KGDVTLIIGPNGSGKSTLINVITGFL   57 (257)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            34689999999999999999998654

>3hjn_A DTMP kinase, thymidylate kinase; ATP-binding, nucleotide biosynth nucleotide-binding, transferase, structural genomics; HET: ADP TYD; 2.10A {Thermotoga maritima}

Probab=89.95  E-value=0.44  Score=45.62  Aligned_cols=23  Identities=30%  Similarity=0.523  Sum_probs=21.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 048126          149 IIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      .|+|=|..|+||||.++.+++..
T Consensus         2 fI~~EG~DGsGKsTq~~~L~~~L   24 (197)
T 3hjn_A            2 FITFEGIDGSGKSTQIQLLAQYL   24 (197)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            47888999999999999999988

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae}

Probab=89.93  E-value=0.32  Score=46.18  Aligned_cols=26  Identities=31%  Similarity=0.264  Sum_probs=22.6

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ....|+|+|.+|+|||||+..+....
T Consensus        47 ~~~~i~vvG~~g~GKSsll~~l~~~~   72 (193)
T 2ged_A           47 YQPSIIIAGPQNSGKTSLLTLLTTDS   72 (193)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            44588999999999999999998764

>2q6t_A DNAB replication FORK helicase; hydrolase; 2.90A {Thermus aquaticus}

Probab=89.93  E-value=0.78  Score=50.27  Aligned_cols=53  Identities=9%  Similarity=-0.032  Sum_probs=36.8

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHHHH
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGRR  202 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~  202 (863)
                      .-.++.|.|.+|+||||+|..++.....  ..=..++|++..  .+..++...++..
T Consensus       199 ~G~l~ii~G~pg~GKT~lal~ia~~~a~--~~g~~vl~~slE--~~~~~l~~R~~~~  251 (444)
T 2q6t_A          199 PGSLNIIAARPAMGKTAFALTIAQNAAL--KEGVGVGIYSLE--MPAAQLTLRMMCS  251 (444)
T ss_dssp             TTCEEEEEECTTSCHHHHHHHHHHHHHH--TTCCCEEEEESS--SCHHHHHHHHHHH
T ss_pred             CCcEEEEEeCCCCCHHHHHHHHHHHHHH--hCCCeEEEEECC--CCHHHHHHHHHHH
Confidence            3468999999999999999999887621  111357777654  4456666665543

>4tmk_A Protein (thymidylate kinase); ATP:DTMP phosphotransferase, transferase; HET: T5A; 1.98A {Escherichia coli} SCOP: c.37.1.1 PDB: 5tmp_A*

Probab=89.88  E-value=0.4  Score=46.50  Aligned_cols=52  Identities=19%  Similarity=0.167  Sum_probs=32.9

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHHH
Q 048126          148 GIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGR  201 (863)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~  201 (863)
                      ..|.|-|+.|+||||+++.+++...  ...+..+++..-.....+.+..++++.
T Consensus         4 ~~i~~eG~~gsGKsT~~~~l~~~l~--~~~~~~v~~~rep~~t~~g~~ir~~l~   55 (213)
T 4tmk_A            4 KYIVIEGLEGAGKTTARNVVVETLE--QLGIRDMVFTREPGGTQLAEKLRSLLL   55 (213)
T ss_dssp             CEEEEEECTTSCHHHHHHHHHHHHH--HTTCCCEEEEESSCSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHH--HcCCCcceeeeCCCCCHHHHHHHHHHh
Confidence            5789999999999999999998873  234433333322222223444555543

>1q3t_A Cytidylate kinase; nucleotide monophosphate kinase, CMP kinase, transferase; NMR {Streptococcus pneumoniae} SCOP: c.37.1.1

Probab=89.82  E-value=0.21  Score=49.55  Aligned_cols=26  Identities=23%  Similarity=0.298  Sum_probs=23.5

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ...+|+|.|+.|+||||+++.+....
T Consensus        15 ~~~~i~i~G~~gsGKst~~~~l~~~l   40 (236)
T 1q3t_A           15 KTIQIAIDGPASSGKSTVAKIIAKDF   40 (236)
T ss_dssp             CCCEEEEECSSCSSHHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHc
Confidence            45689999999999999999999876

>2v9p_A Replication protein E1; AAA+ molecular motor, DNA replication, DNA translocation, nucleotide-binding, DNA-binding; 3.00A {Bovine papillomavirus type 1} PDB: 2gxa_A*

Probab=89.82  E-value=0.18  Score=51.88  Aligned_cols=27  Identities=19%  Similarity=0.272  Sum_probs=23.6

Q ss_pred             CCccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          145 EQVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       145 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      +.-.+++|+|+.|+|||||++.+..-.
T Consensus       124 ~~Ge~vaIvGpsGsGKSTLl~lL~gl~  150 (305)
T 2v9p_A          124 PKKNCLAFIGPPNTGKSMLCNSLIHFL  150 (305)
T ss_dssp             TTCSEEEEECSSSSSHHHHHHHHHHHH
T ss_pred             cCCCEEEEECCCCCcHHHHHHHHhhhc
Confidence            455799999999999999999998764

>2ff7_A Alpha-hemolysin translocation ATP-binding protein HLYB; ABC-transporter, transport protein; HET: ADP; 1.60A {Escherichia coli} SCOP: c.37.1.12 PDB: 2ffb_A* 2fgk_A* 2ffa_A* 2fgj_A* 2pmk_A* 3b5j_A* 1mt0_A 1xef_A*

Probab=89.81  E-value=0.15  Score=51.00  Aligned_cols=26  Identities=38%  Similarity=0.528  Sum_probs=22.6

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      .-.+++|+|+.|+|||||++.++.-.
T Consensus        34 ~Ge~~~i~G~nGsGKSTLl~~l~Gl~   59 (247)
T 2ff7_A           34 QGEVIGIVGRSGSGKSTLTKLIQRFY   59 (247)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            34689999999999999999997764

>2qmh_A HPR kinase/phosphorylase; V267F mutation, ATP-binding, carbohydrate metabolism, magnesium, metal-binding, multifunctional enzyme; 2.60A {Lactobacillus casei} PDB: 1jb1_A 1kkl_A 1kkm_A*

Probab=89.78  E-value=0.16  Score=48.13  Aligned_cols=25  Identities=20%  Similarity=0.130  Sum_probs=22.1

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          147 VGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      -+.|.|.|+.|+||||||..++.+.
T Consensus        34 g~~ilI~GpsGsGKStLA~~La~~g   58 (205)
T 2qmh_A           34 GLGVLITGDSGVGKSETALELVQRG   58 (205)
T ss_dssp             TEEEEEECCCTTTTHHHHHHHHTTT
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHhC
Confidence            3578899999999999999998765

>1vpl_A ABC transporter, ATP-binding protein; TM0544, structural GENO joint center for structural genomics, JCSG, protein structu initiative, PSI; 2.10A {Thermotoga maritima} SCOP: c.37.1.12

Probab=89.76  E-value=0.15  Score=51.23  Aligned_cols=26  Identities=42%  Similarity=0.579  Sum_probs=22.6

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      .-.+++|+|+.|+|||||.+.++.-.
T Consensus        40 ~Gei~~l~G~NGsGKSTLlk~l~Gl~   65 (256)
T 1vpl_A           40 EGEIFGLIGPNGAGKTTTLRIISTLI   65 (256)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhcCC
Confidence            44699999999999999999997654

>2ocp_A DGK, deoxyguanosine kinase; protein-nucleotide complex, transferase; HET: DTP; 2.80A {Homo sapiens} SCOP: c.37.1.1

Probab=89.72  E-value=0.2  Score=49.92  Aligned_cols=25  Identities=20%  Similarity=0.291  Sum_probs=22.8

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          147 VGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ...|+|.|..|+||||+++.+++..
T Consensus         2 ~~~i~~~G~~g~GKtt~~~~l~~~l   26 (241)
T 2ocp_A            2 PRRLSIEGNIAVGKSTFVKLLTKTY   26 (241)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHHC
T ss_pred             CeEEEEEcCCCCCHHHHHHHHHHHc
Confidence            3579999999999999999999886

>1mv5_A LMRA, multidrug resistance ABC transporter ATP-binding and permease protein; asymmetric dimer, tetramer, P-glycoprotein; HET: ATP ADP; 3.10A {Lactococcus lactis} SCOP: c.37.1.12

Probab=89.70  E-value=0.15  Score=50.83  Aligned_cols=26  Identities=27%  Similarity=0.423  Sum_probs=22.5

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      .-.+++|+|+.|+|||||++.++.-.
T Consensus        27 ~Ge~~~i~G~nGsGKSTLl~~l~Gl~   52 (243)
T 1mv5_A           27 PNSIIAFAGPSGGGKSTIFSLLERFY   52 (243)
T ss_dssp             TTEEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            44699999999999999999997654

>2ce2_X GTPase HRAS; signaling protein, guanine nucleotide binding protein, fluor membrane, lipoprotein, palmitate, prenylation; HET: GDP XY2; 1.0A {Homo sapiens} PDB: 2cl0_X* 2cl6_X* 2cl7_X* 2clc_X* 2evw_X* 2cld_X* 1aa9_A* 1ioz_A* 1q21_A* 6q21_A* 3k9l_A* 3k9n_A* 1ctq_A* 1bkd_R 1crp_A* 1crq_A* 1crr_A* 121p_A* 1gnp_A* 1gnq_A* ...

Probab=89.68  E-value=0.18  Score=46.33  Aligned_cols=23  Identities=30%  Similarity=0.518  Sum_probs=20.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 048126          149 IIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      .|.++|.+|+|||||+..+....
T Consensus         5 ~i~v~G~~~~GKssl~~~l~~~~   27 (166)
T 2ce2_X            5 KLVVVGAGGVGKSALTIQLIQNH   27 (166)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCCCHHHHHHHHHhCc
Confidence            47899999999999999998764

>2qi9_C Vitamin B12 import ATP-binding protein BTUD; inner membrane, membrane, transmembrane, transport, ATP- binding, hydrolase, nucleotide-binding, periplasm; HET: 1PE; 2.60A {Escherichia coli} PDB: 1l7v_C* 4dbl_C

Probab=89.58  E-value=0.16  Score=50.77  Aligned_cols=26  Identities=35%  Similarity=0.517  Sum_probs=22.8

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      .-.+++|+|+.|+|||||++.++.-.
T Consensus        25 ~Ge~~~liG~NGsGKSTLlk~l~Gl~   50 (249)
T 2qi9_C           25 AGEILHLVGPNGAGKSTLLARMAGMT   50 (249)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhCCC
Confidence            34589999999999999999998765

>2zej_A Dardarin, leucine-rich repeat kinase 2; parkinson'S disease, LRRK2, ROC, GTPase, ROCO, ATP-B disease mutation, GTP-binding, GTPase activation; HET: GDP; 2.00A {Homo sapiens} PDB: 3d6t_B*

Probab=89.57  E-value=0.14  Score=48.48  Aligned_cols=22  Identities=36%  Similarity=0.510  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhh
Q 048126          149 IIGLYGMGGVGKTTLLTKINNK  170 (863)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~  170 (863)
                      .|+|+|.+|+|||||++.+...
T Consensus         4 kv~ivG~~gvGKStLl~~l~~~   25 (184)
T 2zej_A            4 KLMIVGNTGSGKTTLLQQLMKT   25 (184)
T ss_dssp             EEEEESCTTSSHHHHHHHHTCC
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            5789999999999999998864

>2ghi_A Transport protein; multidrug resistance protein, MDR, structural genomics, structural genomics consortium, SGC; 2.20A {Plasmodium yoelii yoelii str}

Probab=89.54  E-value=0.16  Score=51.18  Aligned_cols=26  Identities=23%  Similarity=0.247  Sum_probs=22.7

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      .-.+++|+|+.|+|||||++.++.-.
T Consensus        45 ~Ge~~~i~G~nGsGKSTLl~~l~Gl~   70 (260)
T 2ghi_A           45 SGTTCALVGHTGSGKSTIAKLLYRFY   70 (260)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhccC
Confidence            44699999999999999999998654

>2eyu_A Twitching motility protein PILT; pilus retraction motor, C-terminal domain PILT, protein transport; 1.87A {Aquifex aeolicus}

Probab=89.47  E-value=0.29  Score=49.32  Aligned_cols=113  Identities=11%  Similarity=0.131  Sum_probs=56.2

Q ss_pred             CCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHHHHhCCCCccccCCChhHHHHHHHH
Q 048126          145 EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGRRIGFLDESWKNGSLEDKASDILR  224 (863)
Q Consensus       145 ~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~  224 (863)
                      ..-.+++|+|+.|+||||+++.+..-..   ..+...+++.- .+...  +.+.   ......+.....+.......+..
T Consensus        23 ~~g~~v~i~Gp~GsGKSTll~~l~g~~~---~~~~G~I~~~g-~~i~~--~~~~---~~~~v~q~~~gl~~~~l~~~la~   93 (261)
T 2eyu_A           23 RKMGLILVTGPTGSGKSTTIASMIDYIN---QTKSYHIITIE-DPIEY--VFKH---KKSIVNQREVGEDTKSFADALRA   93 (261)
T ss_dssp             CSSEEEEEECSTTCSHHHHHHHHHHHHH---HHCCCEEEEEE-SSCCS--CCCC---SSSEEEEEEBTTTBSCHHHHHHH
T ss_pred             CCCCEEEEECCCCccHHHHHHHHHHhCC---CCCCCEEEEcC-Cccee--ecCC---cceeeeHHHhCCCHHHHHHHHHH
Confidence            3456999999999999999999987651   11122333221 11000  0000   00000000000011233456666


Q ss_pred             HhccCcEEEEEeccCCccccccccCCCCCCCCCcEEEEecCchhh
Q 048126          225 ILSKKKFLLLLDDIWERVDLTKVGVPFPDPENKSKIVFTTRFLEI  269 (863)
Q Consensus       225 ~l~~kr~LlVlDdv~~~~~~~~~~~~l~~~~~gs~IivTtR~~~v  269 (863)
                      .+...+=+|++|+..+......+...   ...|.-|++||-...+
T Consensus        94 aL~~~p~illlDEp~D~~~~~~~l~~---~~~g~~vl~t~H~~~~  135 (261)
T 2eyu_A           94 ALREDPDVIFVGEMRDLETVETALRA---AETGHLVFGTLHTNTA  135 (261)
T ss_dssp             HHHHCCSEEEESCCCSHHHHHHHHHH---HHTTCEEEEEECCSSH
T ss_pred             HHhhCCCEEEeCCCCCHHHHHHHHHH---HccCCEEEEEeCcchH
Confidence            77667778889998644332222111   1235557777766543

>2ixe_A Antigen peptide transporter 1; ABC ATPase, hydrolase; HET: ATP; 2.0A {Rattus norvegicus} PDB: 2ixg_A* 2ixf_A* 1jj7_A*

Probab=89.47  E-value=0.16  Score=51.48  Aligned_cols=26  Identities=27%  Similarity=0.381  Sum_probs=22.8

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      .-.+++|+|+.|+|||||++.++.-.
T Consensus        44 ~Ge~~~i~G~nGsGKSTLlk~l~Gl~   69 (271)
T 2ixe_A           44 PGKVTALVGPNGSGKSTVAALLQNLY   69 (271)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            44699999999999999999997654

>2nq2_C Hypothetical ABC transporter ATP-binding protein HI1470; putative iron chelatin ABC transporter, nucleotide binding domain; 2.40A {Haemophilus influenzae}

Probab=89.34  E-value=0.17  Score=50.77  Aligned_cols=26  Identities=31%  Similarity=0.461  Sum_probs=22.7

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      .-.+++|+|+.|+|||||.+.++.-.
T Consensus        30 ~Ge~~~l~G~nGsGKSTLl~~l~Gl~   55 (253)
T 2nq2_C           30 KGDILAVLGQNGCGKSTLLDLLLGIH   55 (253)
T ss_dssp             TTCEEEEECCSSSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            34589999999999999999998764

>2yz2_A Putative ABC transporter ATP-binding protein TM_0; cobalt transport, TM02 hydrolase, inner membrane, membrane, nucleotide-binding; 2.30A {Thermotoga maritima}

Probab=89.33  E-value=0.17  Score=51.23  Aligned_cols=26  Identities=27%  Similarity=0.348  Sum_probs=22.6

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      .-.+++|+|+.|+|||||++.++.-.
T Consensus        32 ~Ge~~~liG~nGsGKSTLl~~i~Gl~   57 (266)
T 2yz2_A           32 EGECLLVAGNTGSGKSTLLQIVAGLI   57 (266)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhCCC
Confidence            44699999999999999999997654

>1g8f_A Sulfate adenylyltransferase; alpha-beta protein, beta-barrel, rossmann-fold, kinase fold; 1.95A {Saccharomyces cerevisiae} SCOP: b.122.1.3 c.26.1.5 c.37.1.15 PDB: 1g8g_A* 1g8h_A* 1j70_A 1jec_A 1jed_A* 1jee_A*

Probab=89.27  E-value=0.34  Score=53.61  Aligned_cols=43  Identities=12%  Similarity=-0.045  Sum_probs=32.1

Q ss_pred             cchhHHHHHHHHHhc--CCCccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          129 VGLESMFDKVWRCLG--EEQVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       129 vGr~~~~~~l~~~L~--~~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      +.|.+..+.+.+...  .....+|.+.|+.|+||||+|+.++...
T Consensus       375 f~rpeV~~vLr~~~~~~~~~~~~I~l~GlsGsGKSTIa~~La~~L  419 (511)
T 1g8f_A          375 FSYPEVVKILRESNPPRPKQGFSIVLGNSLTVSREQLSIALLSTF  419 (511)
T ss_dssp             TSCHHHHHHHHHHSCCGGGCCEEEEECTTCCSCHHHHHHHHHHHH
T ss_pred             ccChhhHHHHHHhcccccccceEEEecccCCCCHHHHHHHHHHHH
Confidence            445555555555542  2345689999999999999999999998

>3sop_A Neuronal-specific septin-3; hydrolase; HET: GDP; 2.88A {Homo sapiens}

Probab=89.25  E-value=0.2  Score=50.68  Aligned_cols=23  Identities=30%  Similarity=0.465  Sum_probs=21.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 048126          149 IIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      .++|+|..|+|||||.+.++...
T Consensus         4 ~v~lvG~nGaGKSTLln~L~g~~   26 (270)
T 3sop_A            4 NIMVVGQSGLGKSTLVNTLFKSQ   26 (270)
T ss_dssp             EEEEEESSSSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            58999999999999999999876

>2ihy_A ABC transporter, ATP-binding protein; ATPase, ABC cassette, hydrolase; HET: MSE; 1.90A {Staphylococcus aureus}

Probab=89.25  E-value=0.17  Score=51.56  Aligned_cols=26  Identities=42%  Similarity=0.524  Sum_probs=22.8

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      .-.+++|+|+.|+|||||++.++.-.
T Consensus        46 ~Ge~~~liG~NGsGKSTLlk~l~Gl~   71 (279)
T 2ihy_A           46 KGDKWILYGLNGAGKTTLLNILNAYE   71 (279)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhCCC
Confidence            44689999999999999999998765

>2wjg_A FEOB, ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GDP; 2.20A {Methanocaldococcus jannaschii}

Probab=89.23  E-value=0.21  Score=47.24  Aligned_cols=23  Identities=30%  Similarity=0.455  Sum_probs=20.9

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHhh
Q 048126          148 GIIGLYGMGGVGKTTLLTKINNK  170 (863)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~  170 (863)
                      ..|+|+|.+|+|||||...+...
T Consensus         8 ~~i~lvG~~gvGKStL~~~l~~~   30 (188)
T 2wjg_A            8 YEIALIGNPNVGKSTIFNALTGE   30 (188)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHTT
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            47899999999999999999874

>1svm_A Large T antigen; AAA+ fold, viral protein; HET: ATP; 1.94A {Simian virus 40} SCOP: c.37.1.20 PDB: 1svl_A* 1svo_A 1n25_A 2h1l_A

Probab=89.22  E-value=0.22  Score=52.90  Aligned_cols=27  Identities=22%  Similarity=0.064  Sum_probs=23.9

Q ss_pred             CCccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          145 EQVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       145 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ....+++|+|+.|+|||||++.++...
T Consensus       167 ~~~~~i~l~G~~GsGKSTl~~~l~~~~  193 (377)
T 1svm_A          167 PKKRYWLFKGPIDSGKTTLAAALLELC  193 (377)
T ss_dssp             TTCCEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHhhc
Confidence            455799999999999999999999765

>1z2a_A RAS-related protein RAB-23; RAB GTPase, vesicular trafficking, protein transport; HET: GDP; 1.90A {Mus musculus} SCOP: c.37.1.8 PDB: 1z22_A*

Probab=89.21  E-value=0.2  Score=46.19  Aligned_cols=24  Identities=21%  Similarity=0.408  Sum_probs=21.1

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          148 GIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      -.|.|+|.+|+|||||+..+....
T Consensus         6 ~~i~v~G~~~~GKssl~~~l~~~~   29 (168)
T 1z2a_A            6 IKMVVVGNGAVGKSSMIQRYCKGI   29 (168)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHCC
T ss_pred             EEEEEECcCCCCHHHHHHHHHcCC
Confidence            467899999999999999998764

>3con_A GTPase NRAS; structural genomics consortium, SGC, GDP, oncogene, disease mutation, golgi apparatus, GTP-binding, lipoprotein membrane, methylation; HET: GDP; 1.65A {Homo sapiens} PDB: 2pmx_A* 3gft_A* 4q21_A*

Probab=89.11  E-value=0.2  Score=47.46  Aligned_cols=24  Identities=29%  Similarity=0.441  Sum_probs=21.1

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          148 GIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      -.|+|+|.+|+|||||+..+....
T Consensus        22 ~ki~vvG~~~~GKSsli~~l~~~~   45 (190)
T 3con_A           22 YKLVVVGAGGVGKSALTIQLIQNH   45 (190)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSS
T ss_pred             eEEEEECcCCCCHHHHHHHHHcCC
Confidence            367899999999999999998764

>4gzl_A RAS-related C3 botulinum toxin substrate 1; rossmann fold, GTP binding, membrane, hydrolase; HET: GNP; 2.00A {Homo sapiens} PDB: 3th5_A* 4gzm_A*

Probab=89.06  E-value=0.23  Score=47.93  Aligned_cols=41  Identities=24%  Similarity=0.118  Sum_probs=21.7

Q ss_pred             hhHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          131 LESMFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       131 r~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ++...+.+.+.......-.|+|+|.+|+|||||+..+.+..
T Consensus        14 ~~~~~~~m~~~~~~~~~~ki~vvG~~~~GKSsLi~~l~~~~   54 (204)
T 4gzl_A           14 LVPRGSHMENLYFQGQAIKCVVVGDGAVGKTCLLISYTTNA   54 (204)
T ss_dssp             ----------------CEEEEEEESTTSSHHHHHHHHHHSC
T ss_pred             cccchhHHHhHhhcCCeEEEEEECcCCCCHHHHHHHHHhCC
Confidence            33334444444444445578899999999999999988654

>2ck3_A ATP synthase subunit alpha\, mitochondrial; hydrolase; HET: ANP ADP; 1.9A {Bos taurus} SCOP: a.69.1.1 b.49.1.1 c.37.1.11 PDB: 1bmf_A* 1e1q_A* 1e1r_A* 1e79_A* 1h8h_A* 1nbm_A* 1ohh_A* 1qo1_A 1w0j_A* 1w0k_A* 1h8e_A* 2jdi_A* 2wss_A* 2w6j_A 2w6e_A 2w6g_A 2w6f_A 2w6h_A 2w6i_A 1cow_A* ...

Probab=89.05  E-value=0.61  Score=50.90  Aligned_cols=103  Identities=13%  Similarity=0.109  Sum_probs=57.9

Q ss_pred             HHHHhcC-CCccEEEEEcCCCCcHHHHH-HHHHhhhcC---CCCCCC-EEEEEEeCCccC-HHHHHHHHHHHhCCCCc--
Q 048126          138 VWRCLGE-EQVGIIGLYGMGGVGKTTLL-TKINNKLLG---APNDFD-VVIWVVVSKDLQ-LEKIQEKIGRRIGFLDE--  208 (863)
Q Consensus       138 l~~~L~~-~~~~vi~I~G~gGiGKTtLa-~~v~~~~~~---~~~~F~-~~~wv~~s~~~~-~~~~~~~i~~~l~~~~~--  208 (863)
                      .++.+.. .+-..++|.|..|+|||+|| ..+.+....   ..++-+ .++++-+++... +.++.+.+.+.-.....  
T Consensus       152 aID~l~PigrGQR~~I~g~~g~GKT~Lal~~I~~q~~~~~~~~~~~d~~~V~~~IGeR~~Ev~~~~~~~~~~g~m~~tvv  231 (510)
T 2ck3_A          152 AVDSLVPIGRGQRELIIGDRQTGKTSIAIDTIINQKRFNDGTDEKKKLYCIYVAIGQKRSTVAQLVKRLTDADAMKYTIV  231 (510)
T ss_dssp             HHHHHSCCBTTCBCEEEESTTSSHHHHHHHHHHHTHHHHTSCCTTTCCEEEEEEESCCHHHHHHHHHHHHHTTCGGGEEE
T ss_pred             eeccccccccCCEEEEecCCCCCchHHHHHHHHHHHhhccccccCCCeEEEEEECCCCcHHHHHHHHHHHhcCCcccceE
Confidence            4444443 34457889999999999995 567666510   012344 578888887654 55666666553211110  


Q ss_pred             ---cccCCChhHH-----HHHHHHHh--ccCcEEEEEeccCC
Q 048126          209 ---SWKNGSLEDK-----ASDILRIL--SKKKFLLLLDDIWE  240 (863)
Q Consensus       209 ---~~~~~~~~~~-----~~~l~~~l--~~kr~LlVlDdv~~  240 (863)
                         ..+.......     .-.+.+++  +++.+||++||+..
T Consensus       232 V~atad~p~~~r~~a~~~a~tiAEyfrd~G~dVLli~Dsltr  273 (510)
T 2ck3_A          232 VSATASDAAPLQYLAPYSGCSMGEYFRDNGKHALIIYDDLSK  273 (510)
T ss_dssp             EEECTTSCHHHHHHHHHHHHHHHHHHHTTTCEEEEEEETHHH
T ss_pred             EEECCCCCHHHHHHHHHHHHHHHHHHHHcCCcEEEEEcCHHH
Confidence               0011111111     11233444  46899999999854

>3eph_A TRNA isopentenyltransferase; transferase, alternative initiation, ATP-binding, cytoplasm, mitochondrion, nucleotide-binding, nucleus; 2.95A {Saccharomyces cerevisiae} PDB: 3epj_A 3epk_A* 3epl_A*

Probab=89.04  E-value=0.22  Score=52.97  Aligned_cols=24  Identities=33%  Similarity=0.566  Sum_probs=22.4

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          148 GIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      .+|+|.|+.|+||||||..++...
T Consensus         3 ~~i~i~GptgsGKttla~~La~~~   26 (409)
T 3eph_A            3 KVIVIAGTTGVGKSQLSIQLAQKF   26 (409)
T ss_dssp             EEEEEEECSSSSHHHHHHHHHHHH
T ss_pred             cEEEEECcchhhHHHHHHHHHHHC
Confidence            589999999999999999999887

>4edh_A DTMP kinase, thymidylate kinase; structural genomics, PSI-biology; HET: TMP ADP; 1.32A {Pseudomonas aeruginosa PAO1} PDB: 4e5u_A* 4esh_A* 4gmd_A* 3uwk_A* 3uwo_A* 3uxm_A*

Probab=89.03  E-value=0.53  Score=45.66  Aligned_cols=31  Identities=26%  Similarity=0.339  Sum_probs=25.6

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCE
Q 048126          148 GIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDV  180 (863)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~  180 (863)
                      ..|.|-|+.|+||||+++.+.+...  ...+..
T Consensus         7 ~~i~~eG~~gsGKsT~~~~l~~~l~--~~~~~v   37 (213)
T 4edh_A            7 LFVTLEGPEGAGKSTNRDYLAERLR--ERGIEV   37 (213)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHHH--TTTCCE
T ss_pred             eEEEEEcCCCCCHHHHHHHHHHHHH--HcCCCc
Confidence            5889999999999999999999873  334554

>1cp2_A CP2, nitrogenase iron protein; oxidoreductase; 1.93A {Clostridium pasteurianum} SCOP: c.37.1.10

Probab=89.02  E-value=0.37  Score=48.74  Aligned_cols=38  Identities=24%  Similarity=0.421  Sum_probs=28.6

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCC
Q 048126          148 GIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSK  188 (863)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~  188 (863)
                      ++|+|.|-||+||||+|..++....  +... .++.|....
T Consensus         2 ~vI~vs~KGGvGKTT~a~nLA~~la--~~G~-~VlliD~D~   39 (269)
T 1cp2_A            2 RQVAIYGKGGIGKSTTTQNLTSGLH--AMGK-TIMVVGCDP   39 (269)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHHHH--TTTC-CEEEEEECT
T ss_pred             cEEEEecCCCCcHHHHHHHHHHHHH--HCCC-cEEEEcCCC
Confidence            5788899999999999999998873  2222 456666553

>1zj6_A ADP-ribosylation factor-like protein 5; ARL, GTP-binding, transport protein; HET: G3D; 2.00A {Homo sapiens} SCOP: c.37.1.8

Probab=89.01  E-value=0.35  Score=45.69  Aligned_cols=35  Identities=31%  Similarity=0.582  Sum_probs=26.4

Q ss_pred             HHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHhh
Q 048126          135 FDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNK  170 (863)
Q Consensus       135 ~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~  170 (863)
                      +..+.+ +.......|+|+|.+|+|||||...+...
T Consensus         5 ~~~~~~-~~~~~~~~i~v~G~~~~GKssl~~~l~~~   39 (187)
T 1zj6_A            5 FTRIWR-LFNHQEHKVIIVGLDNAGKTTILYQFSMN   39 (187)
T ss_dssp             HHHHHH-HHTTSCEEEEEEESTTSSHHHHHHHHHTT
T ss_pred             HHHHHH-hcCCCccEEEEECCCCCCHHHHHHHHhcC
Confidence            344555 33345567889999999999999999854

>1u0j_A DNA replication protein; AAA+ protein, P-loop atpases, helicase; HET: DNA ADP; 2.10A {Adeno-associated virus - 2} SCOP: c.37.1.20 PDB: 1s9h_A

Probab=88.94  E-value=0.42  Score=47.76  Aligned_cols=37  Identities=19%  Similarity=0.242  Sum_probs=28.6

Q ss_pred             HHHHHHHhcCC--CccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          135 FDKVWRCLGEE--QVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       135 ~~~l~~~L~~~--~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ...+..++...  ....|.++|++|+|||.+|..+++..
T Consensus        90 ~~~l~~~l~~~~~~~n~~~l~GppgtGKt~~a~ala~~~  128 (267)
T 1u0j_A           90 ASVFLGWATKKFGKRNTIWLFGPATTGKTNIAEAIAHTV  128 (267)
T ss_dssp             HHHHHHHHTTCSTTCCEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             HHHHHHHHhCCCCCCcEEEEECCCCCCHHHHHHHHHhhh
Confidence            34466666543  24579999999999999999999864

>3upu_A ATP-dependent DNA helicase DDA; RECA-like domain, SH3 domain, PIN-tower interface, coupling hydrolysis to DNA unwinding, ssDNA; 3.30A {Enterobacteria phage T4}

Probab=88.93  E-value=0.43  Score=52.62  Aligned_cols=40  Identities=28%  Similarity=0.401  Sum_probs=30.4

Q ss_pred             hhHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          131 LESMFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       131 r~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      -...++.+.+.+...+ +.+.|.|.+|+||||++..+....
T Consensus        30 Q~~av~~~~~~i~~~~-~~~li~G~aGTGKT~ll~~~~~~l   69 (459)
T 3upu_A           30 QKNAFNIVMKAIKEKK-HHVTINGPAGTGATTLTKFIIEAL   69 (459)
T ss_dssp             HHHHHHHHHHHHHSSS-CEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCC-CEEEEEeCCCCCHHHHHHHHHHHH
Confidence            3445555555665433 489999999999999999998877

>1fx0_A ATP synthase alpha chain; latent ATPase, thermal stability, potential tentoxin binding hydrolase; 3.20A {Spinacia oleracea} SCOP: a.69.1.1 b.49.1.1 c.37.1.11 PDB: 1kmh_A*

Probab=88.73  E-value=0.56  Score=51.17  Aligned_cols=89  Identities=13%  Similarity=0.201  Sum_probs=51.0

Q ss_pred             ccEEEEEcCCCCcHHHHH-HHHHhhhcCCCCCCC-EEEEEEeCCccC-HHHHHHHHHHHhCCCC-----ccccCCCh---
Q 048126          147 VGIIGLYGMGGVGKTTLL-TKINNKLLGAPNDFD-VVIWVVVSKDLQ-LEKIQEKIGRRIGFLD-----ESWKNGSL---  215 (863)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa-~~v~~~~~~~~~~F~-~~~wv~~s~~~~-~~~~~~~i~~~l~~~~-----~~~~~~~~---  215 (863)
                      -..++|.|..|+|||+|| ..+++..     .-+ .++++-+++... +.++.+.+.+.-....     ...+....   
T Consensus       163 GQR~~Ifg~~g~GKT~Lal~~I~~~~-----~~dv~~V~~~iGeR~~Ev~~~~~~~~~~g~m~rtvvV~atad~p~~~r~  237 (507)
T 1fx0_A          163 GQRELIIGDRQTGKTAVATDTILNQQ-----GQNVICVYVAIGQKASSVAQVVTNFQERGAMEYTIVVAETADSPATLQY  237 (507)
T ss_dssp             TCBCBEEESSSSSHHHHHHHHHHTCC-----TTTCEEEEEEESCCHHHHHHHHHHTGGGTGGGSEEEEEECTTSCGGGTT
T ss_pred             CCEEEEecCCCCCccHHHHHHHHHhh-----cCCcEEEEEEcCCCchHHHHHHHHHHhcCccccceEEEECCCCCHHHHH
Confidence            346789999999999996 4676654     234 467888887653 4555555544211100     00011111   


Q ss_pred             --hHHHHHHHHHh--ccCcEEEEEeccCC
Q 048126          216 --EDKASDILRIL--SKKKFLLLLDDIWE  240 (863)
Q Consensus       216 --~~~~~~l~~~l--~~kr~LlVlDdv~~  240 (863)
                        ....-.+.+++  +++.+||++||+..
T Consensus       238 ~a~~~a~tiAEyfrd~G~dVLli~Dsltr  266 (507)
T 1fx0_A          238 LAPYTGAALAEYFMYRERHTLIIYDDLSK  266 (507)
T ss_dssp             HHHHHHHHHHHHHHHTTCEEEEEEECHHH
T ss_pred             HHHHHHHHHHHHHHHcCCcEEEEEecHHH
Confidence              11122223333  47899999999854

>4hlc_A DTMP kinase, thymidylate kinase; TMK, MRSA, pipiridine, transfera transferase inhibitor complex; HET: T05; 1.55A {Staphylococcus aureus subsp} PDB: 2cck_A 4gfd_A* 4gsy_A* 4hdc_A* 4hej_A* 2ccj_A* 4hld_A* 2ccg_A*

Probab=88.70  E-value=0.42  Score=46.04  Aligned_cols=24  Identities=33%  Similarity=0.603  Sum_probs=22.3

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          148 GIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      +.|+|-|..|+||||+++.+++..
T Consensus         3 kFI~~EG~dGsGKsTq~~~L~~~L   26 (205)
T 4hlc_A            3 AFITFEGPEGSGKTTVINEVYHRL   26 (205)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCcHHHHHHHHHHHH
Confidence            468899999999999999999988

>1u8z_A RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNHP, GDP, GTPase, signaling protein; HET: GDP; 1.50A {Saguinus oedipus} SCOP: c.37.1.8 PDB: 1u8y_A* 1u90_A* 1uad_A* 1zc3_A* 1zc4_A* 2kwi_A* 2ke5_A*

Probab=88.63  E-value=0.23  Score=45.62  Aligned_cols=24  Identities=29%  Similarity=0.397  Sum_probs=21.0

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          148 GIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      .-|+|+|.+|+|||||+..+....
T Consensus         5 ~~i~v~G~~~~GKssl~~~l~~~~   28 (168)
T 1u8z_A            5 HKVIMVGSGGVGKSALTLQFMYDE   28 (168)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEEECCCCCCHHHHHHHHHhCc
Confidence            357899999999999999998764

>2vp4_A Deoxynucleoside kinase; ATP-binding, DNA synthesis, phosphoprotein, feedback inhibition, deoxyribonucleoside kinase, salvage pathway; HET: DCP; 2.20A {Drosophila melanogaster} SCOP: c.37.1.1 PDB: 1j90_A* 2jj8_A* 2vp2_A* 1oe0_A* 2vp5_A* 2vp6_A* 2vp9_A* 2vpp_A* 2vqs_A* 2vp0_A* 1ot3_A* 2jcs_A* 1zm7_A* 1zmx_A*

Probab=88.62  E-value=0.18  Score=49.84  Aligned_cols=25  Identities=32%  Similarity=0.267  Sum_probs=22.0

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhh
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNK  170 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~  170 (863)
                      .-.+|+|.|+.|+||||+++.++..
T Consensus        19 ~g~~i~i~G~~GsGKSTl~~~L~~~   43 (230)
T 2vp4_A           19 QPFTVLIEGNIGSGKTTYLNHFEKY   43 (230)
T ss_dssp             CCEEEEEECSTTSCHHHHHHTTGGG
T ss_pred             CceEEEEECCCCCCHHHHHHHHHhc
Confidence            4469999999999999999998764

>3gmt_A Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucleotide biosynthesis, nucleotide-BIND transferase, structural genomics; 2.10A {Burkholderia pseudomallei 1710B}

Probab=88.56  E-value=0.25  Score=48.34  Aligned_cols=24  Identities=33%  Similarity=0.333  Sum_probs=22.0

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          148 GIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ..++|.|++|+||||+|+.+++..
T Consensus         9 ~~~~~~G~pGsGKsT~a~~L~~~~   32 (230)
T 3gmt_A            9 MRLILLGAPGAGKGTQANFIKEKF   32 (230)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             cceeeECCCCCCHHHHHHHHHHHh
Confidence            468999999999999999999887

>2orv_A Thymidine kinase; TP4A (P1-(5'-adenosyl)P4-(5'- (2'deoxythymidil))tetraphosphate, transferase; HET: 4TA; 2.30A {Homo sapiens} SCOP: c.37.1.24 g.39.1.14

Probab=88.53  E-value=0.47  Score=46.13  Aligned_cols=108  Identities=11%  Similarity=-0.010  Sum_probs=53.3

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeC-CccCHHHHHHHHHHHhCCCCccccCCChhHHHHHHHHH
Q 048126          147 VGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVS-KDLQLEKIQEKIGRRIGFLDESWKNGSLEDKASDILRI  225 (863)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s-~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~  225 (863)
                      -.+..++|.-|.||||-+...+.+..  .....+.++-..- ..+. .    .++..++...+.....+..+...    .
T Consensus        19 g~l~v~~G~MgsGKTT~lL~~~~r~~--~~g~kvli~kp~~D~Ryg-~----~i~sr~G~~~~a~~i~~~~di~~----~   87 (234)
T 2orv_A           19 GQIQVILGPMFSGKSTELMRRVRRFQ--IAQYKCLVIKYAKDTRYS-S----SFCTHDRNTMEALPACLLRDVAQ----E   87 (234)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHHHHH--TTTCCEEEEEETTCCCC----------------CEEEEESSGGGGHH----H
T ss_pred             eEEEEEECCCCCcHHHHHHHHHHHHH--HCCCeEEEEeecCCccch-H----HHHhhcCCeeEEEecCCHHHHHH----H
Confidence            35888999999999988887777762  2344444433322 2222 2    34444444332211122222222    2


Q ss_pred             hccCcEEEEEeccCCccccccccCCCCCCCCCcEEEEecCchh
Q 048126          226 LSKKKFLLLLDDIWERVDLTKVGVPFPDPENKSKIVFTTRFLE  268 (863)
Q Consensus       226 l~~kr~LlVlDdv~~~~~~~~~~~~l~~~~~gs~IivTtR~~~  268 (863)
                      . ++--+|++|.+.--.+..++...+..  .|-.||+|.++.+
T Consensus        88 ~-~~~dvViIDEaQF~~~v~el~~~l~~--~gi~VI~~GL~~D  127 (234)
T 2orv_A           88 A-LGVAVIGIDEGQFFPDIVEFCEAMAN--AGKTVIVAALDGT  127 (234)
T ss_dssp             H-TTCSEEEESSGGGCTTHHHHHHHHHH--TTCEEEEECCSBC
T ss_pred             h-ccCCEEEEEchhhhhhHHHHHHHHHh--CCCEEEEEecccc
Confidence            2 22239999998643333333222221  5778999999843

>1p9r_A General secretion pathway protein E; bacterial type II secretion system cytoplasmic protein - GSPE, putative ATPase/ ATP binding protein; 2.50A {Vibrio cholerae} SCOP: c.37.1.11 PDB: 1p9w_A*

Probab=88.50  E-value=0.65  Score=50.11  Aligned_cols=28  Identities=36%  Similarity=0.368  Sum_probs=24.5

Q ss_pred             CCCccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          144 EEQVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       144 ~~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ...-.+++|+|+.|+||||+++.+....
T Consensus       164 ~~~ggii~I~GpnGSGKTTlL~allg~l  191 (418)
T 1p9r_A          164 KRPHGIILVTGPTGSGKSTTLYAGLQEL  191 (418)
T ss_dssp             TSSSEEEEEECSTTSCHHHHHHHHHHHH
T ss_pred             HhcCCeEEEECCCCCCHHHHHHHHHhhc
Confidence            3455799999999999999999998876

>3cmw_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 2.80A {Escherichia coli} PDB: 3cmt_A* 3cmx_A* 3cmv_A*

Probab=88.49  E-value=0.68  Score=58.51  Aligned_cols=87  Identities=15%  Similarity=0.162  Sum_probs=61.1

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHHHHhCCCCccc---cCCChhHHHHHH
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGRRIGFLDESW---KNGSLEDKASDI  222 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~---~~~~~~~~~~~l  222 (863)
                      +-++|-|+|+.|+||||||.++....   +..=..++|+.+-...+..-     ++.+++..+..   ...+.++....+
T Consensus      1430 rg~~iei~g~~~sGkttl~~~~~a~~---~~~g~~~~~i~~e~~~~~~~-----~~~~Gv~~~~l~~~~p~~~e~~l~~~ 1501 (1706)
T 3cmw_A         1430 MGRIVEIYGPESSGKTTLTLQVIAAA---QREGKTCAFIDAEHALDPIY-----ARKLGVDIDNLLCSQPDTGEQALEIC 1501 (1706)
T ss_dssp             TTSEEEEECSTTSSHHHHHHHHHHHH---HHTTCCEEEECTTSCCCHHH-----HHHTTCCGGGCEEECCSSHHHHHHHH
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHHHHH---HhcCCeEEEEecCCCCCHHH-----HHHcCCCHHHeEEeCCCcHHHHHHHH
Confidence            45799999999999999999998766   23335688998877766553     77777765432   233445555555


Q ss_pred             HHHhcc-CcEEEEEeccCC
Q 048126          223 LRILSK-KKFLLLLDDIWE  240 (863)
Q Consensus       223 ~~~l~~-kr~LlVlDdv~~  240 (863)
                      ...++. ..-+||+|-|..
T Consensus      1502 ~~~~~s~~~~~vvvDsv~a 1520 (1706)
T 3cmw_A         1502 DALARSGAVDVIVVDSVAA 1520 (1706)
T ss_dssp             HHHHHHTCCSEEEESCSTT
T ss_pred             HHHHHcCCCCEEEEccHHh
Confidence            555554 566999999843

---

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	863
d2a5yb3	277	c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenor	1e-34
d1xkua_	305	c.10.2.7 (A:) Decorin {Cow (Bos taurus) [TaxId: 99	2e-08
d2omza2	384	c.10.2.1 (A:33-416) Internalin A {Listeria monocyt	6e-08
d2omza2	384	c.10.2.1 (A:33-416) Internalin A {Listeria monocyt	1e-07
d2omza2	384	c.10.2.1 (A:33-416) Internalin A {Listeria monocyt	3e-05
d2omza2	384	c.10.2.1 (A:33-416) Internalin A {Listeria monocyt	2e-04
d1jl5a_	353	c.10.2.6 (A:) Leucine rich effector protein YopM {	5e-07
d1jl5a_	353	c.10.2.6 (A:) Leucine rich effector protein YopM {	7e-04
d1dcea3	124	c.10.2.2 (A:444-567) Rab geranylgeranyltransferase	2e-06
d1dcea3	124	c.10.2.2 (A:444-567) Rab geranylgeranyltransferase	2e-04
d1ogqa_	313	c.10.2.8 (A:) Polygalacturonase inhibiting protein	1e-05
d1ogqa_	313	c.10.2.8 (A:) Polygalacturonase inhibiting protein	4e-04
d1xwdc1	242	c.10.2.7 (C:18-259) Follicle-stimulating hormone r	8e-05
d1h6ua2	227	c.10.2.1 (A:36-262) Internalin H {Listeria monocyt	9e-05
d1h6ua2	227	c.10.2.1 (A:36-262) Internalin H {Listeria monocyt	3e-04
d1z7xw1	460	c.10.1.1 (W:1-460) Ribonuclease inhibitor {Human (	1e-04
d1z7xw1	460	c.10.1.1 (W:1-460) Ribonuclease inhibitor {Human (	0.001
d1m9la_	198	c.10.3.1 (A:) Outer arm dynein light chain 1 {Gree	7e-04
d2astb2	284	c.10.1.3 (B:2136-2419) Cyclin A/CDK2-associated p1	0.002
d2astb2	284	c.10.1.3 (B:2136-2419) Cyclin A/CDK2-associated p1	0.004
d1a9na_	162	c.10.2.4 (A:) Splicesomal U2A' protein {Human (Hom	0.002
d1h6ta2	210	c.10.2.1 (A:31-240) Internalin B {Listeria monocyt	0.003
d1koha1	162	c.10.2.3 (A:201-362) mRNA export factor tap {Human	0.003

>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 =  131 bits (330), Expect = 1e-34
 Identities = 43/274 (15%), Positives = 90/274 (32%), Gaps = 30/274 (10%)

Query: 124 PCEPTV-GLESMFDKVWRCL---GEEQVGIIGLYGMGGVGKTTLLTKI-NNKLLGAPNDF 178
           P + T    E   D+V + L    +     + L+G  G GK+ + ++  +        ++
Sbjct: 17  PKQMTCYIREYHVDRVIKKLDEMCDLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINY 76

Query: 179 DVVIWVVVSKDLQLEKIQEKIGRRIGFLDESWKNG--------SLEDKASDILRILSKKK 230
           D ++W+  S               +    E             S+  K      ++ +  
Sbjct: 77  DSIVWLKDSGTAPKSTFDLFTDILLMLKSEDDLLNFPSVEHVTSVVLKRMICNALIDRPN 136

Query: 231 FLLLLDDIWERVDLTKVGVPFPDPENKSKIVFTTRFLEICGAMK-AHEFLKVECLGPEDA 289
            L + DD+ +              E + + + TTR +EI  A     EF++V  L  ++ 
Sbjct: 137 TLFVFDDVVQEET------IRWAQELRLRCLVTTRDVEISNAASQTCEFIEVTSLEIDEC 190

Query: 290 WRLFRENLRRDVLDNHPDIPELARSVAKEYAGLPLALITIGRAMTCKKTTQEWHHAIQIL 349
           +           +       ++     +  +G P  L+   ++    KT ++       L
Sbjct: 191 YDFLEAYGMPMPVGEKE--EDVLNKTIELSSGNPATLMMFFKSC-EPKTFEKMAQLNNKL 247

Query: 350 RRSSSEFPGMGKEVYPLLKFSYDSLPDDTIRSCF 383
                        V  +  +SY SL    ++ C 
Sbjct: 248 ESRGLV------GVECITPYSYKSLAMA-LQRCV 274

>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 = 54.7 bits (130), Expect = 2e-08
 Identities = 50/299 (16%), Positives = 100/299 (33%), Gaps = 20/299 (6%)

Query: 508 NLSETPTC--PHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVS 565
            L + P    P    L L +N +  I    F+ + +L    + NN +    P   + LV 
Sbjct: 21  GLEKVPKDLPPDTALLDLQNNKITEIKDGDFKNLKNLHTLILINNKISKISPGAFAPLVK 80

Query: 566 LEHLDLSGTAITHLPIELQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRILKSNVL 625
           LE L LS   +  LP ++           E   + N+  ++  S F+ L  + ++   + 
Sbjct: 81  LERLYLSKNQLKELPEKMP------KTLQELRVHENEITKVRKSVFNGLNQMIVV--ELG 132

Query: 626 FGGHQFLVEELMGMKHLMALTITLKSWEALQELLISQELQRCTQSLFLRCFNDSKSLDIF 685
               +    E    + +  L+    +   +    I Q L      L L   N    +D  
Sbjct: 133 TNPLKSSGIENGAFQGMKKLSYIRIADTNITT--IPQGLPPSLTELHLDG-NKITKVDAA 189

Query: 686 CLACLHNLNKLYVAGRKHLEDFQMTVQRSSVNQLARGFHSLHTVKVGFCFKLKDLTWLVF 745
            L  L+NL KL ++          ++  +   +     ++      G     K +  +  
Sbjct: 190 SLKGLNNLAKLGLSFNSISAVDNGSLANTPHLRELHLNNNKLVKVPGGLADHKYIQVVYL 249

Query: 746 AP-SLKSIVVLSCCNMEQIIKAEKLS--QLHHHPERKKSVFAKLQFLSLENLRNLCCIN 801
              ++ +I     C      K    S   L  +P +    + ++Q  +   +     + 
Sbjct: 250 HNNNISAIGSNDFCPPGYNTKKASYSGVSLFSNPVQ----YWEIQPSTFRCVYVRAAVQ 304

>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 = 53.5 bits (127), Expect = 6e-08
 Identities = 26/188 (13%), Positives = 63/188 (33%), Gaps = 50/188 (26%)

Query: 475 NFLVHAGLGLTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGD 534
             L+     +++   +    N+  +SL  N+++++    +  +L  L L++N +  +A  
Sbjct: 200 ESLIATNNQISDITPLGILTNLDELSLNGNQLKDIGTLASLTNLTDLDLANNQISNLAP- 258

Query: 535 FFQFMPSLRVFNMSNNHLLWKLP------------------------------------- 557
               +  L    +  N +    P                                     
Sbjct: 259 -LSGLTKLTELKLGANQISNISPLAGLTALTNLELNENQLEDISPISNLKNLTYLTLYFN 317

Query: 558 -----SGISTLVSLEHLDLSGTAITHLPIELQKLVNLKCLNLEYMYNLNQFPRLV-MSAF 611
                S +S+L  L+ L  +   ++ +   L  L N+  L+  +    NQ   L  ++  
Sbjct: 318 NISDISPVSSLTKLQRLFFANNKVSDVS-SLANLTNINWLSAGH----NQISDLTPLANL 372

Query: 612 SKLQVLRI 619
           +++  L +
Sbjct: 373 TRITQLGL 380

>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 = 52.3 bits (124), Expect = 1e-07
 Identities = 16/85 (18%), Positives = 38/85 (44%), Gaps = 4/85 (4%)

Query: 491 QNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNN 550
            N +N+  ++L  N I ++S   +   L  LF ++N +  ++      + ++   +  +N
Sbjct: 304 SNLKNLTYLTLYFNNISDISPVSSLTKLQRLFFANNKVSDVSS--LANLTNINWLSAGHN 361

Query: 551 HLLWKLPSGISTLVSLEHLDLSGTA 575
            +    P  ++ L  +  L L+  A
Sbjct: 362 QISDLTP--LANLTRITQLGLNDQA 384

>d2omza2 c.10.2.1 (A:33-416) Internalin A {Listeria monocytogenes [TaxId: 1639]} Length = 384

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin A
species: Listeria monocytogenes [TaxId: 1639]

 Score = 44.6 bits (104), Expect = 3e-05
 Identities = 8/98 (8%), Positives = 35/98 (35%), Gaps = 2/98 (2%)

Query: 453 KMHDVIRDMVLWIACKIEKEKENFLVHAGLGLTEAPEIQNWRNVRRMSLMKNKIENLSET 512
              ++  + +  I+     +   +L      +++   + +   ++R+    NK+ ++S  
Sbjct: 288 TNLELNENQLEDISPISNLKNLTYLTLYFNNISDISPVSSLTKLQRLFFANNKVSDVSSL 347

Query: 513 PTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNN 550
               ++  L    N +  +       +  +    +++ 
Sbjct: 348 ANLTNINWLSAGHNQISDLTP--LANLTRITQLGLNDQ 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 = 42.3 bits (98), Expect = 2e-04
 Identities = 38/209 (18%), Positives = 68/209 (32%), Gaps = 21/209 (10%)

Query: 492 NWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNH 551
              N+  +    N+I +++      +L  L L+ N LK I       + +L   +++NN 
Sbjct: 195 KLTNLESLIATNNQISDITPLGILTNLDELSLNGNQLKDI--GTLASLTNLTDLDLANNQ 252

Query: 552 LLWKLPSGISTLVSLEHLDLSGTAITHLPIELQKLVNLKCLNLEYMYNLNQFPRLVMSAF 611
           +    P  +S L  L  L L    I+++      L  L  L    +          +S  
Sbjct: 253 ISNLAP--LSGLTKLTELKLGANQISNIS----PLAGLTALTNLELNENQLEDISPISNL 306

Query: 612 SKLQVLRILKSNVLFGGHQFLVEELMGMKHLMALTITLKSWEALQELLISQELQRCTQSL 671
             L  L  L  N +       +  +  +  L  L         +  L     +      L
Sbjct: 307 KNLTYLT-LYFNNISD-----ISPVSSLTKLQRLFFANNKVSDVSSLANLTNI----NWL 356

Query: 672 FLRCFNDSKSLDIFCLACLHNLNKLYVAG 700
                  S   D+  LA L  + +L +  
Sbjct: 357 SAGHNQIS---DLTPLANLTRITQLGLND 382

>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 = 50.2 bits (118), Expect = 5e-07
 Identities = 29/132 (21%), Positives = 47/132 (35%), Gaps = 12/132 (9%)

Query: 488 PEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNM 547
            +            +     + +       L       N+            PSL   N+
Sbjct: 232 RDNYLTDLPELPQSLTFLDVSENIFSGLSELPPNLYYLNASSNEIRSLCDLPPSLEELNV 291

Query: 548 SNNHLLWKLPSGISTLVSLEHLDLSGTAITHLPIELQKLVNLKCLNLEYMYNLNQFPRLV 607
           SNN L+ +LP+       LE L  S   +  +P   Q   NLK L++EY   L +FP + 
Sbjct: 292 SNNKLI-ELPALPP---RLERLIASFNHLAEVPELPQ---NLKQLHVEYN-PLREFPDI- 342

Query: 608 MSAFSKLQVLRI 619
                 ++ LR+
Sbjct: 343 ---PESVEDLRM 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 = 40.2 bits (92), Expect = 7e-04
 Identities = 18/113 (15%), Positives = 36/113 (31%), Gaps = 7/113 (6%)

Query: 454 MHDVIRDMVLWIACKIEKEKENFLVHAGLGLTEAPEIQNWRNVRRMSLMKNKIENLSETP 513
                 D+   I   + +   N                   ++  +++  NK+  L   P
Sbjct: 244 QSLTFLDVSENIFSGLSELPPNLYYLNASSNEIRSLCDLPPSLEELNVSNNKLIELPALP 303

Query: 514 TCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSL 566
             P L  L  S N L  +     +   +L+  ++  N L  + P    ++  L
Sbjct: 304 --PRLERLIASFNHLAEVP----ELPQNLKQLHVEYNPLR-EFPDIPESVEDL 349

>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 = 45.1 bits (106), Expect = 2e-06
 Identities = 18/115 (15%), Positives = 34/115 (29%), Gaps = 22/115 (19%)

Query: 497 RRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQ------------------- 537
           R + L    +  L        +  L LS N L+ +                         
Sbjct: 1   RVLHLAHKDLTVLCHLEQLLLVTHLDLSHNRLRALPPALAALRCLEVLQASDNALENVDG 60

Query: 538 --FMPSLRVFNMSNNHLL-WKLPSGISTLVSLEHLDLSGTAITHLPIELQKLVNL 589
              +P L+   + NN L        + +   L  L+L G ++       ++L  +
Sbjct: 61  VANLPRLQELLLCNNRLQQSAAIQPLVSCPRLVLLNLQGNSLCQEEGIQERLAEM 115

>d1dcea3 c.10.2.2 (A:444-567) Rab geranylgeranyltransferase alpha-subunit, C-terminal domain {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 124

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Rab geranylgeranyltransferase alpha-subunit, C-terminal domain
domain: Rab geranylgeranyltransferase alpha-subunit, C-terminal domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

 Score = 39.7 bits (92), Expect = 2e-04
 Identities = 23/105 (21%), Positives = 42/105 (40%), Gaps = 8/105 (7%)

Query: 543 RVFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAITHLPIELQKLVNLKCLNLEYMYNLNQ 602
           RV ++++  L   +   +  L+ + HLDLS   +  LP  L  L  L+ L        N 
Sbjct: 1   RVLHLAHKDL--TVLCHLEQLLLVTHLDLSHNRLRALPPALAALRCLEVLQASDNALENV 58

Query: 603 FPRLVMSAFSKLQVLRILKSNVLFGGHQFLVEELMGMKHLMALTI 647
                +    +L    +L +N L       ++ L+    L+ L +
Sbjct: 59  DGVANLPRLQEL----LLCNNRLQQSA--AIQPLVSCPRLVLLNL 97

>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 = 45.9 bits (107), Expect = 1e-05
 Identities = 13/70 (18%), Positives = 23/70 (32%)

Query: 535 FFQFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAITHLPIELQKLVNLKCLNL 594
                 +L   ++ NN +   LP G++ L  L  L++S   +     +   L        
Sbjct: 239 KVGLSKNLNGLDLRNNRIYGTLPQGLTQLKFLHSLNVSFNNLCGEIPQGGNLQRFDVSAY 298

Query: 595 EYMYNLNQFP 604
                L   P
Sbjct: 299 ANNKCLCGSP 308

>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 = 40.9 bits (94), Expect = 4e-04
 Identities = 12/59 (20%), Positives = 22/59 (37%), Gaps = 1/59 (1%)

Query: 515 CPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSG 573
             +L  L L +N +          +  L   N+S N+L  ++P G   L   +    + 
Sbjct: 243 SKNLNGLDLRNNRIYGTLPQGLTQLKFLHSLNVSFNNLCGEIPQG-GNLQRFDVSAYAN 300

>d1xwdc1 c.10.2.7 (C:18-259) Follicle-stimulating hormone receptor {Human (Homo sapiens) [TaxId: 9606]} Length = 242

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]

 Score = 42.6 bits (98), Expect = 8e-05
 Identities = 27/117 (23%), Positives = 43/117 (36%), Gaps = 4/117 (3%)

Query: 491 QNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNN 550
           Q      + ++  + IE  S        + L+L+ N ++ I    F       +    NN
Sbjct: 128 QKVLLDIQDNINIHTIERNSFVGLSFESVILWLNKNGIQEIHNCAFNGTQLDELNLSDNN 187

Query: 551 HLLWKLPSGISTLVSLEHLDLSGTAITHLPIE-LQKLVNLKCLNLEYMYNLNQFPRL 606
           +L                LD+S T I  LP   L+ L  L+  +    YNL + P L
Sbjct: 188 NLEELPNDVFHGASGPVILDISRTRIHSLPSYGLENLKKLRARST---YNLKKLPTL 241

>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 = 42.7 bits (99), Expect = 9e-05
 Identities = 15/103 (14%), Positives = 34/103 (33%), Gaps = 3/103 (2%)

Query: 493 WRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHL 552
                   L  +  +  + +P        +LS  + ++        +  L      +N +
Sbjct: 126 AGLSNLQVLYLDLNQITNISPLAGLTNLQYLSIGNAQVSDLTPLANLSKLTTLKADDNKI 185

Query: 553 LWKLPSGISTLVSLEHLDLSGTAITHLPIELQKLVNLKCLNLE 595
                S +++L +L  + L    I+ +   L    NL  + L 
Sbjct: 186 --SDISPLASLPNLIEVHLKNNQISDVS-PLANTSNLFIVTLT 225

>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 = 41.2 bits (95), Expect = 3e-04
 Identities = 11/62 (17%), Positives = 27/62 (43%), Gaps = 2/62 (3%)

Query: 488 PEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNM 547
             + N   +  +    NKI ++S   + P+L+ + L +N +  +         +L +  +
Sbjct: 167 TPLANLSKLTTLKADDNKISDISPLASLPNLIEVHLKNNQISDV--SPLANTSNLFIVTL 224

Query: 548 SN 549
           +N
Sbjct: 225 TN 226

>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 = 43.4 bits (100), Expect = 1e-04
 Identities = 20/106 (18%), Positives = 37/106 (34%), Gaps = 10/106 (9%)

Query: 525 DNSLKMIAGDFFQFMPSLRVFNMSNNHL----LWKLPSGISTLVSLEHLDLSGTAITHLP 580
           D  ++ +     Q    LRV  +++  +       L + +    SL  LDLS   +    
Sbjct: 354 DAGVRELCQGLGQPGSVLRVLWLADCDVSDSSCSSLAATLLANHSLRELDLSNNCLGDAG 413

Query: 581 IEL------QKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRIL 620
           I        Q    L+ L L  +Y   +    + +       LR++
Sbjct: 414 ILQLVESVRQPGCLLEQLVLYDIYWSEEMEDRLQALEKDKPSLRVI 459

>d1z7xw1 c.10.1.1 (W:1-460) Ribonuclease inhibitor {Human (Homo sapiens) [TaxId: 9606]} Length = 460

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Ribonuclease inhibitor
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 40.0 bits (91), Expect = 0.001
 Identities = 18/137 (13%), Positives = 41/137 (29%), Gaps = 11/137 (8%)

Query: 518 LLSLFLSDNSLK-MIAGDFFQFMPSLRVFNMSNNHL----LWKLPSGISTLVSLEHLDLS 572
           + SL +    L      +    +   +V  + +  L       + S +    +L  L+L 
Sbjct: 4   IQSLDIQCEELSDARWAELLPLLQQCQVVRLDDCGLTEARCKDISSALRVNPALAELNLR 63

Query: 573 GTAITHLPIEL------QKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRILKSNVLF 626
              +  + +             ++ L+L+          ++ S    L  L+ L  +   
Sbjct: 64  SNELGDVGVHCVLQGLQTPSCKIQKLSLQNCCLTGAGCGVLSSTLRTLPTLQELHLSDNL 123

Query: 627 GGHQFLVEELMGMKHLM 643
            G   L     G+    
Sbjct: 124 LGDAGLQLLCEGLLDPQ 140

>d1m9la_ c.10.3.1 (A:) Outer arm dynein light chain 1 {Green algae (Chlamydomonas reinhardtii) [TaxId: 3055]} Length = 198

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: Outer arm dynein light chain 1
family: Outer arm dynein light chain 1
domain: Outer arm dynein light chain 1
species: Green algae (Chlamydomonas reinhardtii) [TaxId: 3055]

 Score = 39.3 bits (90), Expect = 7e-04
 Identities = 27/142 (19%), Positives = 50/142 (35%), Gaps = 1/142 (0%)

Query: 555 KLPSGISTLVSLEHLDLSGTAITHLPIELQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKL 614
           K+ + +STL + +HL LS   I  +   L  + NL+ L+L             ++   + 
Sbjct: 39  KMDATLSTLKACKHLALSTNNIEKIS-SLSGMENLRILSLGRNLIKKIENLDAVADTLEE 97

Query: 615 QVLRILKSNVLFGGHQFLVEELMGMKHLMALTITLKSWEALQELLISQELQRCTQSLFLR 674
             +   +   L G  + +   ++ M +            A  + L    L         +
Sbjct: 98  LWISYNQIASLSGIEKLVNLRVLYMSNNKITNWGEIDKLAALDKLEDLLLAGNPLYNDYK 157

Query: 675 CFNDSKSLDIFCLACLHNLNKL 696
             N +    I  +  L NL KL
Sbjct: 158 ENNATSEYRIEVVKRLPNLKKL 179

>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 = 38.5 bits (88), Expect = 0.002
 Identities = 37/270 (13%), Positives = 84/270 (31%), Gaps = 21/270 (7%)

Query: 568 HLDLSGTAITHLPIELQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRILKSNVLFG 627
            LDL+G  +   P    +L++   +      +    P     +  ++Q + +  S +   
Sbjct: 4   TLDLTGKNL--HPDVTGRLLSQGVIAFRCPRSFMDQPLAEHFSPFRVQHMDLSNSVIEVS 61

Query: 628 GHQFLVEELMGMKHLMALTITLKSWEALQELLISQELQRCTQSLFLRCFNDSKSLDIFCL 687
               ++ +   +++L    + L S   +  L  +  L R   S        +    +   
Sbjct: 62  TLHGILSQCSKLQNLSLEGLRL-SDPIVNTLAKNSNLVRLNLSGCSGFSEFALQTLLSSC 120

Query: 688 ACLHNLNKLYVAGRKHLEDFQMTVQRSSVNQLARGFHSLHTVKVGFCFKLKDLTWLVFAP 747
           + L  LN  +              ++     +A    ++  + +    K    + L    
Sbjct: 121 SRLDELNLSW---------CFDFTEKHVQVAVAHVSETITQLNLSGYRKNLQKSDLSTLV 171

Query: 748 SLKSIVVLSCCNMEQIIKAEKLSQLHHHPERKKSVFAKLQFLSLENLRNLCCINWEALA- 806
                +V    +   ++K +   +              LQ LSL    ++       L  
Sbjct: 172 RRCPNLVHLDLSDSVMLKNDCFQEFFQLN--------YLQHLSLSRCYDIIPETLLELGE 223

Query: 807 FPNLKEIRVEGCPKLFKLPLDSNSAKGCKV 836
            P LK ++V G      L L   +    ++
Sbjct: 224 IPTLKTLQVFGIVPDGTLQLLKEALPHLQI 253

>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 = 37.8 bits (86), Expect = 0.004
 Identities = 36/227 (15%), Positives = 74/227 (32%), Gaps = 13/227 (5%)

Query: 541 SLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAIT--HLPIELQKLVNLKCLNLEYMY 598
            +  F    + +   L    S    ++H+DLS + I    L   L +   L+ L+LE + 
Sbjct: 24  GVIAFRCPRSFMDQPLAEHFS-PFRVQHMDLSNSVIEVSTLHGILSQCSKLQNLSLEGLR 82

Query: 599 NLNQFPRLVMSAFSKLQVLRILKSNVLFGGHQFLVEELMGMKHLMALTITLKSWEALQEL 658
             +     +    + +++     S       Q L+     +  L        + + +Q  
Sbjct: 83  LSDPIVNTLAKNSNLVRLNLSGCSGFSEFALQTLLSSCSRLDELNLSWCFDFTEKHVQVA 142

Query: 659 LISQELQRCTQSLFLRCFNDSKSLDIFCLACLHNLNKLYVAGRKHLEDFQMTVQRSSVNQ 718
           +          +L     N  KS     +    NL  L ++    L++           Q
Sbjct: 143 VAHVSETITQLNLSGYRKNLQKSDLSTLVRRCPNLVHLDLSDSVMLKN--------DCFQ 194

Query: 719 LARGFHSLHTVKVGFCFKLKDLTWLVFA--PSLKSIVVLSCCNMEQI 763
                + L  + +  C+ +   T L     P+LK++ V        +
Sbjct: 195 EFFQLNYLQHLSLSRCYDIIPETLLELGEIPTLKTLQVFGIVPDGTL 241

>d1a9na_ c.10.2.4 (A:) Splicesomal U2A' protein {Human (Homo sapiens) [TaxId: 9606]} Length = 162

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: U2A'-like
domain: Splicesomal U2A' protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 37.2 bits (85), Expect = 0.002
 Identities = 20/147 (13%), Positives = 45/147 (30%), Gaps = 3/147 (2%)

Query: 499 MSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPS 558
           + L    IE  ++         L L    + +I       +      + S+N +      
Sbjct: 1   VKLTAELIEQAAQYTNAVRDRELDLRGYKIPVIEN-LGATLDQFDAIDFSDNEIRK--LD 57

Query: 559 GISTLVSLEHLDLSGTAITHLPIELQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLR 618
           G   L  L+ L ++   I  +   L + +      +    +L +   L   A  K     
Sbjct: 58  GFPLLRRLKTLLVNNNRICRIGEGLDQALPDLTELILTNNSLVELGDLDPLASLKSLTYL 117

Query: 619 ILKSNVLFGGHQFLVEELMGMKHLMAL 645
            +  N +     + +  +  +  +  L
Sbjct: 118 CILRNPVTNKKHYRLYVIYKVPQVRVL 144

>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 = 37.7 bits (86), Expect = 0.003
 Identities = 14/65 (21%), Positives = 24/65 (36%), Gaps = 2/65 (3%)

Query: 530 MIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAITHLPIELQKLVNL 589
            I         +        ++ +  +   ++ L  L++L LS   I+ L   L  L NL
Sbjct: 145 KITDITVLSRLTKLDTLSLEDNQISDIVP-LAGLTKLQNLYLSKNHISDLR-ALAGLKNL 202

Query: 590 KCLNL 594
             L L
Sbjct: 203 DVLEL 207

>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 = 36.7 bits (84), Expect = 0.003
 Identities = 26/121 (21%), Positives = 46/121 (38%), Gaps = 11/121 (9%)

Query: 484 LTEAPEIQNWRNVRRMSLMKNKIENLSETP-TCPHLLSLFLSDNSLKMIAG--DFFQFMP 540
           L   P++        ++   +    L       P LLSL LS+N L  +       Q  P
Sbjct: 32  LRSDPDLVAQNIDVVLNRRSSMAATLRIIEENIPELLSLNLSNNRLYRLDDMSSIVQKAP 91

Query: 541 SLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAITHLPIE--------LQKLVNLKCL 592
           +L++ N+S N L  +        + LE L L G +++    +         ++   L  L
Sbjct: 92  NLKILNLSGNELKSERELDKIKGLKLEELWLDGNSLSDTFRDQSTYISAIRERFPKLLRL 151

Query: 593 N 593
           +
Sbjct: 152 D 152

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	863
d2a5yb3	277	CED-4, NB-ARC domain {Caenorhabditis elegans [TaxI	100.0
d2omza2	384	Internalin A {Listeria monocytogenes [TaxId: 1639]	99.79
d1xkua_	305	Decorin {Cow (Bos taurus) [TaxId: 9913]}	99.76
d2omza2	384	Internalin A {Listeria monocytogenes [TaxId: 1639]	99.75
d1ogqa_	313	Polygalacturonase inhibiting protein PGIP {Kidney	99.66
d1xkua_	305	Decorin {Cow (Bos taurus) [TaxId: 9913]}	99.64
d1ogqa_	313	Polygalacturonase inhibiting protein PGIP {Kidney	99.58
d1jl5a_	353	Leucine rich effector protein YopM {Yersinia pesti	99.55
d1p9ag_	266	von Willebrand factor binding domain of glycoprote	99.54
d2astb2	284	Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sa	99.53
d1h6ua2	227	Internalin H {Listeria monocytogenes [TaxId: 1639]	99.53
d1h6ua2	227	Internalin H {Listeria monocytogenes [TaxId: 1639]	99.52
d2astb2	284	Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sa	99.49
d1h6ta2	210	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.47
d1ozna_	284	Reticulon 4 receptor (Nogo-66 receptor, Ngr) {Huma	99.46
d2omxa2	199	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.43
d1ozna_	284	Reticulon 4 receptor (Nogo-66 receptor, Ngr) {Huma	99.42
d1h6ta2	210	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.41
d2omxa2	199	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.4
d1jl5a_	353	Leucine rich effector protein YopM {Yersinia pesti	99.37
d1p9ag_	266	von Willebrand factor binding domain of glycoprote	99.36
d1dcea3	124	Rab geranylgeranyltransferase alpha-subunit, C-ter	99.36
d1a9na_	162	Splicesomal U2A' protein {Human (Homo sapiens) [Ta	99.33
d1dcea3	124	Rab geranylgeranyltransferase alpha-subunit, C-ter	99.32
d1a9na_	162	Splicesomal U2A' protein {Human (Homo sapiens) [Ta	99.32
d1xwdc1	242	Follicle-stimulating hormone receptor {Human (Homo	99.29
d1xwdc1	242	Follicle-stimulating hormone receptor {Human (Homo	99.23
d1w8aa_	192	Slit {Fruit fly (Drosophila melanogaster) [TaxId:	99.22
d2fnaa2	283	Archaeal ATPase SSO1545 {Sulfolobus solfataricus [	99.14
d1w8aa_	192	Slit {Fruit fly (Drosophila melanogaster) [TaxId:	99.0
d1m9la_	198	Outer arm dynein light chain 1 {Green algae (Chlam	98.96
d1m9la_	198	Outer arm dynein light chain 1 {Green algae (Chlam	98.95
d1z7xw1	460	Ribonuclease inhibitor {Human (Homo sapiens) [TaxI	98.93
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	98.8
d2ifga3	156	High affinity nerve growth factor receptor, N-term	98.76
d2ifga3	156	High affinity nerve growth factor receptor, N-term	98.74
d1sxjc2	227	Replication factor C3 {Baker's yeast (Saccharomyce	98.65
d2ca6a1	344	Rna1p (RanGAP1), N-terminal domain {Fission yeast	98.62
d1sxjb2	224	Replication factor C4 {Baker's yeast (Saccharomyce	98.61
d1sxjd2	237	Replication factor C2 {Baker's yeast (Saccharomyce	98.61
d1iqpa2	231	Replication factor C {Archaeon Pyrococcus furiosus	98.53
d1njfa_	239	delta prime subunit of DNA polymerase III, N-domai	98.53
d1z7xw1	460	Ribonuclease inhibitor {Human (Homo sapiens) [TaxI	98.52
d1r6bx2	268	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	98.51
d2ca6a1	344	Rna1p (RanGAP1), N-terminal domain {Fission yeast	98.47
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	98.43
d1sxje2	252	Replication factor C5 {Baker's yeast (Saccharomyce	98.4
d1jbka_	195	ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}	98.33
d1sxja2	253	Replication factor C1 {Baker's yeast (Saccharomyce	98.25
d1in4a2	238	Holliday junction helicase RuvB {Thermotoga mariti	98.18
d1a5ta2	207	delta prime subunit of DNA polymerase III, N-domai	98.15
d1ixsb2	239	Holliday junction helicase RuvB {Thermus thermophi	98.12
d1qvra2	387	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	98.07
d1ixza_	247	AAA domain of cell division protein FtsH {Thermus	98.03
d1lv7a_	256	AAA domain of cell division protein FtsH {Escheric	97.99
d1l8qa2	213	Chromosomal replication initiation factor DnaA {Aq	97.97
d1e32a2	258	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	97.85
d1koha1	162	mRNA export factor tap {Human (Homo sapiens) [TaxI	97.62
d1koha1	162	mRNA export factor tap {Human (Homo sapiens) [TaxI	97.61
d1d2na_	246	Hexamerization domain of N-ethylmalemide-sensitive	97.59
d1r7ra3	265	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	97.54
d2gnoa2	198	gamma subunit of DNA polymerase III, N-domain {The	97.05
d2qy9a2	211	GTPase domain of the signal recognition particle r	96.74
d1io0a_	166	Tropomodulin C-terminal domain {Chicken (Gallus ga	96.61
d1pgva_	167	Tropomodulin C-terminal domain {nematode (Caenorha	96.57
d1lw7a2	192	Transcriptional regulator NadR, ribosylnicotinamid	96.39
d1kaga_	169	Shikimate kinase (AroK) {Escherichia coli [TaxId:	96.32
d1okkd2	207	GTPase domain of the signal recognition particle r	96.32
d1m8pa3	183	ATP sulfurylase C-terminal domain {Fungus (Penicil	96.28
d1vmaa2	213	GTPase domain of the signal recognition particle r	96.27
d1mo6a1	269	RecA protein, ATPase-domain {Mycobacterium tubercu	96.26
d1pgva_	167	Tropomodulin C-terminal domain {nematode (Caenorha	96.21
d1np6a_	170	Molybdopterin-guanine dinucleotide biosynthesis pr	96.2
d1u94a1	263	RecA protein, ATPase-domain {Escherichia coli [Tax	96.13
d2bdta1	176	Hypothetical protein BH3686 {Bacillus halodurans [	96.12
d1ly1a_	152	Polynucleotide kinase, kinase domain {Bacteriophag	96.1
d1j8yf2	211	GTPase domain of the signal sequence recognition p	96.04
d1xp8a1	268	RecA protein, ATPase-domain {Deinococcus radiodura	96.03
d1rkba_	173	Adenylate kinase {Human (Homo sapiens), isoenzyme	95.95
d1ls1a2	207	GTPase domain of the signal sequence recognition p	95.9
d1rz3a_	198	Hypothetical protein rbstp0775 {Bacillus stearothe	95.86
d1qf9a_	194	UMP/CMP kinase {Dictyostelium discoideum [TaxId: 4	95.82
d2i3ba1	189	Cancer-related NTPase, C1orf57 {Human (Homo sapien	95.77
d1viaa_	161	Shikimate kinase (AroK) {Campylobacter jejuni [Tax	95.7
d2jdid3	276	Central domain of beta subunit of F1 ATP synthase	95.67
d2iyva1	165	Shikimate kinase (AroK) {Mycobacterium tuberculosi	95.66
d1ofha_	309	HslU {Haemophilus influenzae [TaxId: 727]}	95.64
d1khta_	190	Adenylate kinase {Archaeon Methanococcus voltae [T	95.6
d1ukza_	196	Uridylate kinase {Baker's yeast (Saccharomyces cer	95.58
d1x6va3	195	Adenosine-5'phosphosulfate kinase (APS kinase) {Hu	95.58
d1knqa_	171	Gluconate kinase {Escherichia coli [TaxId: 562]}	95.58
d1gvnb_	273	Plasmid maintenance system epsilon/zeta, toxin zet	95.5
d1y63a_	174	Probable kinase LmjF30.1890 {Leishmania major [Tax	95.5
d1e6ca_	170	Shikimate kinase (AroK) {Erwinia chrysanthemi [Tax	95.5
d1qhxa_	178	Chloramphenicol phosphotransferase {Streptomyces v	95.49
d1xjca_	165	Molybdopterin-guanine dinucleotide biosynthesis pr	95.47
d1ckea_	225	CMP kinase {Escherichia coli [TaxId: 562]}	95.45
d1io0a_	166	Tropomodulin C-terminal domain {Chicken (Gallus ga	95.4
d1zp6a1	176	Hypothetical protein Atu3015 {Agrobacterium tumefa	95.36
d1tf7a2	242	Circadian clock protein KaiC {Synechococcus sp. st	95.36
d1bifa1	213	6-phosphofructo-2-kinase/fructose-2,6-bisphosphata	95.25
d1yj5a2	172	5' polynucleotide kinase-3' phosphatase, C-termina	95.21
d1nksa_	194	Adenylate kinase {Archaeon Sulfolobus acidocaldari	95.15
d1ye8a1	178	Hypothetical kinase-like protein Aq_1292 {Aquifex	94.97
d1teva_	194	UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]	94.87
d1qvra3	315	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	94.83
d1ihua2	279	Arsenite-translocating ATPase ArsA {Escherichia co	94.81
d1cp2a_	269	Nitrogenase iron protein {Clostridium pasteurianum	94.65
d1m7ga_	208	Adenosine-5'phosphosulfate kinase (APS kinase) {Fu	94.65
d1q3ta_	223	CMP kinase {Streptococcus pneumoniae [TaxId: 1313]	94.44
d1uj2a_	213	Uridine-cytidine kinase 2 {Human (Homo sapiens) [T	94.42
d3adka_	194	Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}	94.33
d1zaka1	189	Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}	94.32
d1zina1	182	Adenylate kinase {Bacillus stearothermophilus [Tax	94.28
d1gkya_	186	Guanylate kinase {Baker's yeast (Saccharomyces cer	94.27
d1sq5a_	308	Pantothenate kinase PanK {Escherichia coli [TaxId:	94.19
d1ak2a1	190	Adenylate kinase {Cow (Bos taurus), mitochondrial	94.16
d1lvga_	190	Guanylate kinase {Mouse (Mus musculus) [TaxId: 100	94.09
d2ak3a1	189	Adenylate kinase {Cow (Bos taurus), mitochondrial	94.06
d2cdna1	181	Adenylate kinase {Mycobacterium tuberculosis [TaxI	93.97
d1s3ga1	182	Adenylate kinase {Bacillus globisporus [TaxId: 145	93.94
d1w44a_	321	NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}	93.88
d1r6bx3	315	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	93.87
d1znwa1	182	Guanylate kinase {Mycobacterium tuberculosis [TaxI	93.86
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	93.73
d1kgda_	178	Guanylate kinase-like domain of Cask {Human (Homo	93.68
d2qm8a1	323	Metallochaperone MeaB {Methylobacterium extorquens	93.68
d1akya1	180	Adenylate kinase {Baker's yeast (Saccharomyces cer	93.53
d1ihua1	296	Arsenite-translocating ATPase ArsA {Escherichia co	93.45
d1g8pa_	333	ATPase subunit of magnesium chelatase, BchI {Rhodo	93.37
d1fx0a3	276	Central domain of alpha subunit of F1 ATP synthase	93.37
d1e4va1	179	Adenylate kinase {Escherichia coli [TaxId: 562]}	93.35
d1uf9a_	191	Dephospho-CoA kinase {Thermus thermophilus [TaxId:	93.05
d1xpua3	289	Transcription termination factor Rho, ATPase domai	92.92
d1nn5a_	209	Thymidylate kinase {Human (Homo sapiens) [TaxId: 9	92.76
d2vp4a1	197	Deoxyribonucleoside kinase {Fruit fly (Drosophila	92.55
d2afhe1	289	Nitrogenase iron protein {Azotobacter vinelandii [	92.51
d1pzna2	254	DNA repair protein Rad51, catalytic domain {Archae	92.11
d1hyqa_	232	Cell division regulator MinD {Archaeon Archaeoglob	92.1
d1ny5a2	247	Transcriptional activator sigm54 (NtrC1), C-termin	92.09
d1szpa2	251	DNA repair protein Rad51, catalytic domain {Baker'	92.08
d1odfa_	286	Hypothetical protein Ygr205W {Baker's yeast (Sacch	92.07
d2ocpa1	241	Deoxyguanosine kinase {Human (Homo sapiens) [TaxId	92.05
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	92.0
d2jdia3	285	Central domain of alpha subunit of F1 ATP synthase	91.99
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	91.94
d1gsia_	208	Thymidylate kinase {Mycobacterium tuberculosis [Ta	91.92
d1s96a_	205	Guanylate kinase {Escherichia coli [TaxId: 562]}	91.77
d1g2912	240	Maltose transport protein MalK, N-terminal domain	91.72
d1sgwa_	200	Putative ABC transporter PF0895 {Pyrococcus furios	91.53
d1nlfa_	274	Hexameric replicative helicase repA {Escherichia c	91.48
d1um8a_	364	ClpX {Helicobacter pylori [TaxId: 210]}	91.48
d2awna2	232	Maltose transport protein MalK, N-terminal domain	91.41
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	91.4
d1p5zb_	241	Deoxycytidine kinase {Human (Homo sapiens) [TaxId:	91.35
d1l2ta_	230	MJ0796 {Archaeon Methanococcus jannaschii [TaxId:	91.3
d4tmka_	210	Thymidylate kinase {Escherichia coli [TaxId: 562]}	91.23
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	91.19
d1v43a3	239	Hypothetical protein PH0022, N-terminal domain {Py	91.13
d3dhwc1	240	Methionine import ATP-binding protein MetN {Escher	90.97
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	90.95
d1svma_	362	Papillomavirus large T antigen helicase domain {Si	90.94
d1a7ja_	288	Phosphoribulokinase {Rhodobacter sphaeroides [TaxI	90.84
d2onka1	240	Molybdate/tungstate import ATP-binding protein Wtp	90.83
d2pmka1	241	Haemolysin B ATP-binding protein {Escherichia coli	90.72
d1b0ua_	258	ATP-binding subunit of the histidine permease {Sal	90.65
d3d31a2	229	Sulfate/molybdate ABC transporter, ATP-binding pro	90.58
d3b60a1	253	Multidrug resistance ABC transporter MsbA, C-termi	90.57
d1vhta_	208	Dephospho-CoA kinase {Escherichia coli [TaxId: 562	90.55
d1tmka_	214	Thymidylate kinase {Baker's yeast (Saccharomyces c	90.53
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	90.52
d1r0wa_	281	Cystic fibrosis transmembrane conductance regulato	90.43
d1g3qa_	237	Cell division regulator MinD {Archaeon Pyrococcus	90.41
d1v5wa_	258	Meiotic recombination protein DMC1/LIM15 homolog {	90.38
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	90.36
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	90.31
d1jj7a_	251	Peptide transporter Tap1, C-terminal ABC domain {H	90.27
d1mv5a_	242	Multidrug resistance ABC transporter LmrA, C-termi	90.16
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	90.07
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	89.82
d1jjva_	205	Dephospho-CoA kinase {Haemophilus influenzae [TaxI	89.78
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	89.63
d2erxa1	171	di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	89.62
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	89.61
d2ew1a1	171	Rab30 {Human (Homo sapiens) [TaxId: 9606]}	89.61
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	89.48
d1kaoa_	167	Rap2a {Human (Homo sapiens) [TaxId: 9606]}	89.44
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	89.36
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	89.32
d1oxxk2	242	Glucose transport protein GlcV, N-terminal domain	89.26
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	89.23
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	89.22
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	89.22
d1deka_	241	Deoxynucleoside monophosphate kinase {Bacteriophag	89.2
d2gjsa1	168	Rad {Human (Homo sapiens) [TaxId: 9606]}	89.15
d1ji0a_	240	Branched chain aminoacid ABC transporter {Thermoto	89.12
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	89.12
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	89.09
d1htwa_	158	Hypothetical protein HI0065 {Haemophilus influenza	89.07
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	89.01
d1vpla_	238	Putative ABC transporter TM0544 {Thermotoga mariti	88.95
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	88.93
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	88.88
d2erya1	171	r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	88.83
d1egaa1	179	GTPase Era, N-terminal domain {Escherichia coli [T	88.82
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	88.76
d1n0wa_	242	DNA repair protein Rad51, catalytic domain {Human	88.73
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	88.71
d1nrjb_	209	Signal recognition particle receptor beta-subunit	88.66
d1g6ha_	254	MJ1267 {Archaeon Methanococcus jannaschii [TaxId:	88.66
d1c1ya_	167	Rap1A {Human (Homo sapiens) [TaxId: 9606]}	88.64
d1byia_	224	Dethiobiotin synthetase {Escherichia coli [TaxId:	88.64
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	88.5
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	88.45
d2fh5b1	207	Signal recognition particle receptor beta-subunit	88.39
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	88.36
d1kmqa_	177	RhoA {Human (Homo sapiens) [TaxId: 9606]}	88.15
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	88.08
d1mh1a_	183	Rac {Human (Homo sapiens) [TaxId: 9606]}	88.04
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	88.01
d1nija1	222	Hypothetical protein YjiA, N-terminal domain {Esch	88.0
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	87.97
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	87.93
d2g6ba1	170	Rab26 {Human (Homo sapiens) [TaxId: 9606]}	87.75
d1svsa1	195	Transducin (alpha subunit) {Rat (Rattus norvegicus	87.71
d2atxa1	185	RhoQ {Human (Homo sapiens) [TaxId: 9606]}	87.69
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	87.6
d1l7vc_	231	ABC transporter involved in vitamin B12 uptake, Bt	87.55
d1udxa2	180	Obg GTP-binding protein middle domain {Thermus the	87.44
d1e0sa_	173	ADP-ribosylation factor {Human (Homo sapiens), ARF	87.33
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	87.3
d2cxxa1	184	GTP-binding protein engB {Pyrococcus horikoshii [T	87.28
d1u8za_	168	Ras-related protein RalA {Cotton-top tamarin (Sagu	87.11
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	86.99
d1wmsa_	174	Rab9a {Human (Homo sapiens) [TaxId: 9606]}	86.8
d2hyda1	255	Putative multidrug export ATP-binding/permease pro	86.79
d1x1ra1	169	Ras-related protein M-Ras (XRas) {Mouse (Mus muscu	86.76
d1w36d1	359	Exodeoxyribonuclease V alpha chain (RecD) {Escheri	86.57
d1m7ba_	179	RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}	86.49
d2g3ya1	172	GTP-binding protein GEM {Human (Homo sapiens) [Tax	86.48
d2bcjq2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	86.45
d1zcba2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	86.35
d2bmja1	175	Centaurin gamma 1, G domain {Human (Homo sapiens)	86.34
d2i1qa2	258	DNA repair protein Rad51, catalytic domain {Archae	86.29
d2gj8a1	161	Probable tRNA modification GTPase TrmE (MnmE), G d	86.29
d1lnza2	185	Obg GTP-binding protein middle domain {Bacillus su	86.27
d2ngra_	191	CDC42 {Human (Homo sapiens) [TaxId: 9606]}	86.23
d1i2ma_	170	Ran {Human (Homo sapiens) [TaxId: 9606]}	85.93
d1mkya2	186	Probable GTPase Der, N-terminal and middle domains	85.68
d1puia_	188	Probable GTPase EngB {Escherichia coli [TaxId: 562	84.77
d1moza_	182	ADP-ribosylation factor {Baker's yeast (Saccharomy	84.68
d1kkma_	176	HPr kinase HprK C-terminal domain {Lactobacillus c	84.21
d2fu5c1	173	Rab8a {Mouse (Mus musculus) [TaxId: 10090]}	84.12
d1p6xa_	333	Thymidine kinase {Equine herpesvirus type 4 [TaxId	84.0
d1azta2	221	Transducin (alpha subunit) {Cow (Bos taurus) [TaxI	83.96
d1knxa2	177	HPr kinase HprK C-terminal domain {Mycoplasma pneu	83.02
d1ko7a2	169	HPr kinase HprK C-terminal domain {Staphylococcus	82.6
d1tf7a1	242	Circadian clock protein KaiC {Synechococcus sp. st	82.04
d1cr2a_	277	Gene 4 protein (g4p, DNA primase), helicase domain	81.97
d1g41a_	443	HslU {Haemophilus influenzae [TaxId: 727]}	81.9
d2bv3a2	276	Elongation factor G (EF-G), N-terminal (G) domain	81.85
d1xzpa2	160	TrmE GTPase domain {Thermotoga maritima [TaxId: 23	81.37
d1tuea_	205	Replication protein E1 helicase domain {Human papi	81.27
d1h65a_	257	Chloroplast protein translocon GTPase Toc34 {Garde	80.05

>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=1.1e-39  Score=337.58  Aligned_cols=245  Identities=18%  Similarity=0.152  Sum_probs=196.6

Q ss_pred             CCccchhHHHHHHHHHhcC---CCccEEEEEcCCCCcHHHHHHHHHhhhcC-CCCCCCEEEEEEeCCccCHHHHHHHHHH
Q 048126          126 EPTVGLESMFDKVWRCLGE---EQVGIIGLYGMGGVGKTTLLTKINNKLLG-APNDFDVVIWVVVSKDLQLEKIQEKIGR  201 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~---~~~~vi~I~G~gGiGKTtLa~~v~~~~~~-~~~~F~~~~wv~~s~~~~~~~~~~~i~~  201 (863)
                      ..++||+.++++|+++|..   .+.++|+|+||||+||||||+++|++... .+.+|++++||++++.++...+...+..
T Consensus        20 ~~~~gR~~~~~~i~~~L~~~~~~~~~~v~I~GmgGiGKTtLA~~v~~~~~~~~~~~f~~~~Wv~vs~~~~~~~l~~~~~~   99 (277)
T d2a5yb3          20 MTCYIREYHVDRVIKKLDEMCDLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINYDSIVWLKDSGTAPKSTFDLFTDI   99 (277)
T ss_dssp             CCSCCCHHHHHHHHHHHHHHTTSSSEEEEEECSTTSSHHHHHHHHHHHCSSTBTTTBSEEEEEECCCCSTTHHHHHHHHH
T ss_pred             CceeCcHHHHHHHHHHHHhccCCCceEEEEECCCCCCHHHHHHHHHHhhhhhhhhcCceEEEEEecCCCCHHHHHHHHHH
Confidence            4578999999999999853   46789999999999999999999998522 5678999999999999887776655544


Q ss_pred             Hh---CCCCcc-----ccCCChhHHHHHHHHHhccCcEEEEEeccCCccccccccCCCCCCCCCcEEEEecCchhhhhcc
Q 048126          202 RI---GFLDES-----WKNGSLEDKASDILRILSKKKFLLLLDDIWERVDLTKVGVPFPDPENKSKIVFTTRFLEICGAM  273 (863)
Q Consensus       202 ~l---~~~~~~-----~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~~~l~~~~~gs~IivTtR~~~v~~~~  273 (863)
                      .+   +.....     ............+.+.+.++|+|+||||||+...|..+.      ..|||||||||+..++..+
T Consensus       100 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~kr~LlVLDDv~~~~~~~~~~------~~~srilvTTR~~~v~~~~  173 (277)
T d2a5yb3         100 LLMLKSEDDLLNFPSVEHVTSVVLKRMICNALIDRPNTLFVFDDVVQEETIRWAQ------ELRLRCLVTTRDVEISNAA  173 (277)
T ss_dssp             HHHHTTTSCCTTCCCCTTCCHHHHHHHHHHHHTTSTTEEEEEEEECCHHHHHHHH------HTTCEEEEEESBGGGGGGC
T ss_pred             HHHHhcchhhcCCccchhhhhHHHHHHHHHHHhccCCeeEecchhhHHhhhhhhc------ccCceEEEEeehHHHHHhc
Confidence            33   222110     011122234446778899999999999999988887653      2489999999999998876


Q ss_pred             ccc-ceEeecCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCCchhHHHHHHHHhcCCCChhHHHHHHHHHHhc
Q 048126          274 KAH-EFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGLPLALITIGRAMTCKKTTQEWHHAIQILRRS  352 (863)
Q Consensus       274 ~~~-~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPlai~~~~~~l~~~~~~~~w~~~l~~l~~~  352 (863)
                      ... +.|++++|+.+|||+||.+.++...  ..+..++++++|+++|+|+|||++++|+.|+. ++.++|.+..+.|.+.
T Consensus       174 ~~~~~~~~l~~L~~~ea~~Lf~~~~~~~~--~~~~~~~~~~~iv~~c~GlPLAl~~ig~~l~~-k~~~~~~~~~~~L~~~  250 (277)
T d2a5yb3         174 SQTCEFIEVTSLEIDECYDFLEAYGMPMP--VGEKEEDVLNKTIELSSGNPATLMMFFKSCEP-KTFEKMAQLNNKLESR  250 (277)
T ss_dssp             CSCEEEEECCCCCHHHHHHHHHHTSCCCC----CHHHHHHHHHHHHHTTCHHHHHHHHTTCCS-SSHHHHHHHHHHHHHH
T ss_pred             CCCCceEECCCCCHHHHHHHHHHHhCCcc--CchhhHHHHHHHHHHhCCCHHHHHHHHHHhcc-CCHHHHHHHHHHHhcC
Confidence            654 6799999999999999999887653  34556889999999999999999999999986 6889999998888764


Q ss_pred             CCCCCCCcchhhhhhhhhcCCCCchhhHHHHhHh
Q 048126          353 SSEFPGMGKEVYPLLKFSYDSLPDDTIRSCFLYC  386 (863)
Q Consensus       353 ~~~~~~~~~~~~~~l~~sy~~L~~~~~k~cfl~~  386 (863)
                      ..      .++..++.+||++||+ ++|.||-++
T Consensus       251 ~~------~~v~~il~~sY~~L~~-~lk~c~~~l  277 (277)
T d2a5yb3         251 GL------VGVECITPYSYKSLAM-ALQRCVEVL  277 (277)
T ss_dssp             CS------STTCCCSSSSSSSHHH-HHHHHHHTS
T ss_pred             cH------HHHHHHHHHHHhcccH-HHHHHHHhC
Confidence            22      3788999999999999 899999753

>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=99.79  E-value=1.3e-18  Score=189.28  Aligned_cols=301  Identities=18%  Similarity=0.164  Sum_probs=216.9

Q ss_pred             ccccceEEEEeccccccccccCCCCCccceEEccCCccccccchhhhcCCCccEEEccCCCccccCCccccccCCCCeEE
Q 048126          491 QNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLD  570 (863)
Q Consensus       491 ~~~~~lr~L~l~~~~~~~l~~~~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~  570 (863)
                      ..+.+++.|++.++.+..+..+..+++|++|++++|.++.+++  ++++++|++|++++|.+ ..++ .++++++|++|+
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~  116 (384)
T d2omza2          41 TDLDQVTTLQADRLGIKSIDGVEYLNNLTQINFSNNQLTDITP--LKNLTKLVDILMNNNQI-ADIT-PLANLTNLTGLT  116 (384)
T ss_dssp             HHHTTCCEEECCSSCCCCCTTGGGCTTCCEEECCSSCCCCCGG--GTTCTTCCEEECCSSCC-CCCG-GGTTCTTCCEEE
T ss_pred             HHhCCCCEEECCCCCCCCccccccCCCCCEEeCcCCcCCCCcc--ccCCccccccccccccc-cccc-cccccccccccc
Confidence            4556899999999999888878899999999999999999875  89999999999999954 4555 488999999999


Q ss_pred             ccCCCccccchhhhcCCCCCEEecCCcc-----------------------------------------ccCCCcHHHhh
Q 048126          571 LSGTAITHLPIELQKLVNLKCLNLEYMY-----------------------------------------NLNQFPRLVMS  609 (863)
Q Consensus       571 L~~~~l~~lp~~~~~l~~L~~L~l~~~~-----------------------------------------~l~~lp~~~~~  609 (863)
                      ++++.++.++... ....+..+....+.                                         .....+. ...
T Consensus       117 ~~~~~~~~~~~~~-~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~  194 (384)
T d2omza2         117 LFNNQITDIDPLK-NLTNLNRLELSSNTISDISALSGLTSLQQLSFGNQVTDLKPLANLTTLERLDISSNKVSDIS-VLA  194 (384)
T ss_dssp             CCSSCCCCCGGGT-TCTTCSEEEEEEEEECCCGGGTTCTTCSEEEEEESCCCCGGGTTCTTCCEEECCSSCCCCCG-GGG
T ss_pred             ccccccccccccc-ccccccccccccccccccccccccccccccccccccchhhhhcccccccccccccccccccc-ccc
Confidence            9998877654322 22233332221110                                         0011112 267


Q ss_pred             cCCCCcEEEeeccccccCchhhHHHHHcCCccCceEEEEEcChHHHHHHhhhhhhhhcceeeeeccccCCCcccccchhh
Q 048126          610 AFSKLQVLRILKSNVLFGGHQFLVEELMGMKHLMALTITLKSWEALQELLISQELQRCTQSLFLRCFNDSKSLDIFCLAC  689 (863)
Q Consensus       610 ~L~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~~~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~~~l~~  689 (863)
                      .+++++.+.+.++.+...      ......++|+.|+++.+....++.+    ...++|+.|.+.++.-..   +..+..
T Consensus       195 ~l~~~~~l~l~~n~i~~~------~~~~~~~~L~~L~l~~n~l~~~~~l----~~l~~L~~L~l~~n~l~~---~~~~~~  261 (384)
T d2omza2         195 KLTNLESLIATNNQISDI------TPLGILTNLDELSLNGNQLKDIGTL----ASLTNLTDLDLANNQISN---LAPLSG  261 (384)
T ss_dssp             GCTTCSEEECCSSCCCCC------GGGGGCTTCCEEECCSSCCCCCGGG----GGCTTCSEEECCSSCCCC---CGGGTT
T ss_pred             cccccceeeccCCccCCC------CcccccCCCCEEECCCCCCCCcchh----hcccccchhccccCccCC---CCcccc
Confidence            788999999888766532      1245677899999987766554322    233588888888764322   234677


Q ss_pred             cCCCceEEEcCCcccccceeccccccccccccccCcccEEEEeccCCCCCCchhhccCCCcEEEEeccccchhhcccccc
Q 048126          690 LHNLNKLYVAGRKHLEDFQMTVQRSSVNQLARGFHSLHTVKVGFCFKLKDLTWLVFAPSLKSIVVLSCCNMEQIIKAEKL  769 (863)
Q Consensus       690 ~~~L~~L~l~~~~~~~~l~~~~~~~~~~~~~~~l~~L~~L~L~~c~~l~~l~~l~~l~~L~~L~l~~~~~l~~i~~~~~~  769 (863)
                      +++|+.|+++++.... +. .+         ..++.++.+.+.+| .++.++.+..+++++.|+++++ .++.+.     
T Consensus       262 ~~~L~~L~l~~~~l~~-~~-~~---------~~~~~l~~l~~~~n-~l~~~~~~~~~~~l~~L~ls~n-~l~~l~-----  323 (384)
T d2omza2         262 LTKLTELKLGANQISN-IS-PL---------AGLTALTNLELNEN-QLEDISPISNLKNLTYLTLYFN-NISDIS-----  323 (384)
T ss_dssp             CTTCSEEECCSSCCCC-CG-GG---------TTCTTCSEEECCSS-CCSCCGGGGGCTTCSEEECCSS-CCSCCG-----
T ss_pred             cccCCEeeccCcccCC-CC-cc---------cccccccccccccc-ccccccccchhcccCeEECCCC-CCCCCc-----
Confidence            8999999998865432 22 22         34788999999887 6777888889999999999986 455541     


Q ss_pred             ccccCCCCCCCCcCCccceeccCCCccccccccCCCCCCCcceEeecCCCCCCCCCCCCCCCCCCceEEEc
Q 048126          770 SQLHHHPERKKSVFAKLQFLSLENLRNLCCINWEALAFPNLKEIRVEGCPKLFKLPLDSNSAKGCKVVIKG  840 (863)
Q Consensus       770 ~~~~~~~~~~~~~~p~L~~L~l~~~~~L~~i~~~~~~~p~L~~L~i~~C~~L~~lp~~~~~~~L~~l~i~~  840 (863)
                               .+..+|+|++|++++| .++.++. ...+|+|++|++++| +++.+|.....++|+.++|++
T Consensus       324 ---------~l~~l~~L~~L~L~~n-~l~~l~~-l~~l~~L~~L~l~~N-~l~~l~~l~~l~~L~~L~L~~  382 (384)
T d2omza2         324 ---------PVSSLTKLQRLFFANN-KVSDVSS-LANLTNINWLSAGHN-QISDLTPLANLTRITQLGLND  382 (384)
T ss_dssp             ---------GGGGCTTCCEEECCSS-CCCCCGG-GGGCTTCCEEECCSS-CCCBCGGGTTCTTCSEEECCC
T ss_pred             ---------ccccCCCCCEEECCCC-CCCCChh-HcCCCCCCEEECCCC-cCCCChhhccCCCCCEeeCCC
Confidence                     3567999999999997 6777663 556899999999876 788887533348899988864

>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=99.76  E-value=4.9e-18  Score=178.26  Aligned_cols=285  Identities=18%  Similarity=0.166  Sum_probs=195.4

Q ss_pred             EEEEeccccccccccCCCCCccceEEccCCccccccchhhhcCCCccEEEccCCCccccCCccccccCCCCeEEccCCCc
Q 048126          497 RRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAI  576 (863)
Q Consensus       497 r~L~l~~~~~~~l~~~~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~~~l  576 (863)
                      +.++-.++.+..+|.. -.+++++|++++|.++.+++..|.++++|++|++++|.+....|..+.++++|++|++++|++
T Consensus        13 ~~~~C~~~~L~~lP~~-l~~~l~~L~Ls~N~i~~l~~~~f~~l~~L~~L~l~~n~~~~i~~~~f~~l~~L~~L~l~~n~l   91 (305)
T d1xkua_          13 RVVQCSDLGLEKVPKD-LPPDTALLDLQNNKITEIKDGDFKNLKNLHTLILINNKISKISPGAFAPLVKLERLYLSKNQL   91 (305)
T ss_dssp             TEEECTTSCCCSCCCS-CCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSSCC
T ss_pred             CEEEecCCCCCccCCC-CCCCCCEEECcCCcCCCcChhHhhccccccccccccccccccchhhhhCCCccCEecccCCcc
Confidence            3444445556666542 236799999999999999887789999999999999966655677899999999999999999


Q ss_pred             cccchhhhcCCCCCEEecCCccccCCCcHHHhhcCCCCcEEEeeccccccCchhhHHHHHcCCccCceEEEEEcChHHHH
Q 048126          577 THLPIELQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRILKSNVLFGGHQFLVEELMGMKHLMALTITLKSWEALQ  656 (863)
Q Consensus       577 ~~lp~~~~~l~~L~~L~l~~~~~l~~lp~~~~~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~~~~  656 (863)
                      +.+|..+  ...|..|++.++ .+..++...+.....+..+....+.....  ......+..+++|+.+.+..+....++
T Consensus        92 ~~l~~~~--~~~l~~L~~~~n-~l~~l~~~~~~~~~~~~~l~~~~n~~~~~--~~~~~~~~~l~~L~~l~l~~n~l~~l~  166 (305)
T d1xkua_          92 KELPEKM--PKTLQELRVHEN-EITKVRKSVFNGLNQMIVVELGTNPLKSS--GIENGAFQGMKKLSYIRIADTNITTIP  166 (305)
T ss_dssp             SBCCSSC--CTTCCEEECCSS-CCCBBCHHHHTTCTTCCEEECCSSCCCGG--GBCTTGGGGCTTCCEEECCSSCCCSCC
T ss_pred             CcCccch--hhhhhhhhcccc-chhhhhhhhhhcccccccccccccccccc--CCCccccccccccCccccccCCccccC
Confidence            9998654  358889998887 56777776677778888888766544321  222345667788888887766544322


Q ss_pred             HHhhhhhhhhcceeeeeccccCCCcccccchhhcCCCceEEEcCCcccccceeccccccccccccccCcccEEEEeccCC
Q 048126          657 ELLISQELQRCTQSLFLRCFNDSKSLDIFCLACLHNLNKLYVAGRKHLEDFQMTVQRSSVNQLARGFHSLHTVKVGFCFK  736 (863)
Q Consensus       657 ~l~~~~~~~~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~l~~~~~~~~~~~~~~~l~~L~~L~L~~c~~  736 (863)
                           ....++++.|++.++..... ....+..++.+++|++++| .++++.+.++        ..+++|++|+|++| .
T Consensus       167 -----~~~~~~L~~L~l~~n~~~~~-~~~~~~~~~~l~~L~~s~n-~l~~~~~~~~--------~~l~~L~~L~L~~N-~  230 (305)
T d1xkua_         167 -----QGLPPSLTELHLDGNKITKV-DAASLKGLNNLAKLGLSFN-SISAVDNGSL--------ANTPHLRELHLNNN-K  230 (305)
T ss_dssp             -----SSCCTTCSEEECTTSCCCEE-CTGGGTTCTTCCEEECCSS-CCCEECTTTG--------GGSTTCCEEECCSS-C
T ss_pred             -----cccCCccCEEECCCCcCCCC-ChhHhhccccccccccccc-cccccccccc--------cccccceeeecccc-c
Confidence                 12345788888876543322 2345677788888888876 4444544444        24788888888887 5


Q ss_pred             CCCCc-hhhccCCCcEEEEeccccchhhccccccccccCCCCCCCCcCCccceeccCCCccccccccCCCCCCCcc
Q 048126          737 LKDLT-WLVFAPSLKSIVVLSCCNMEQIIKAEKLSQLHHHPERKKSVFAKLQFLSLENLRNLCCINWEALAFPNLK  811 (863)
Q Consensus       737 l~~l~-~l~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~~~p~L~~L~l~~~~~L~~i~~~~~~~p~L~  811 (863)
                      ++.+| .+..+++|+.|+|+++ .++.+....|.+      .......++|+.|.|++++ ++.++.....|++|+
T Consensus       231 L~~lp~~l~~l~~L~~L~Ls~N-~i~~i~~~~f~~------~~~~~~~~~L~~L~L~~N~-~~~~~~~~~~f~~~~  298 (305)
T d1xkua_         231 LVKVPGGLADHKYIQVVYLHNN-NISAIGSNDFCP------PGYNTKKASYSGVSLFSNP-VQYWEIQPSTFRCVY  298 (305)
T ss_dssp             CSSCCTTTTTCSSCCEEECCSS-CCCCCCTTSSSC------SSCCTTSCCCSEEECCSSS-SCGGGSCGGGGTTCC
T ss_pred             ccccccccccccCCCEEECCCC-ccCccChhhccC------cchhcccCCCCEEECCCCc-CccCcCCHhHhcccc
Confidence            66665 5677888888888884 577663322211      1234456778888888765 555555555666654

>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=99.75  E-value=1.5e-17  Score=180.72  Aligned_cols=292  Identities=15%  Similarity=0.234  Sum_probs=196.3

Q ss_pred             EEEcCCCcccCcccccccceEEEEeccccccccccCCCCCccceEEccCCccccccchhhhcCCCccEEEccCCCccccC
Q 048126          477 LVHAGLGLTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKL  556 (863)
Q Consensus       477 ~~~~~~~~~~~~~~~~~~~lr~L~l~~~~~~~l~~~~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~l  556 (863)
                      +...+.+....+.+..+++++.|++++|.+..++.+.++++|++|++++|.+..+++  ++++++|++|+++++... .+
T Consensus        49 L~l~~~~I~~l~gl~~L~nL~~L~Ls~N~l~~l~~l~~L~~L~~L~L~~n~i~~i~~--l~~l~~L~~L~~~~~~~~-~~  125 (384)
T d2omza2          49 LQADRLGIKSIDGVEYLNNLTQINFSNNQLTDITPLKNLTKLVDILMNNNQIADITP--LANLTNLTGLTLFNNQIT-DI  125 (384)
T ss_dssp             EECCSSCCCCCTTGGGCTTCCEEECCSSCCCCCGGGTTCTTCCEEECCSSCCCCCGG--GTTCTTCCEEECCSSCCC-CC
T ss_pred             EECCCCCCCCccccccCCCCCEEeCcCCcCCCCccccCCcccccccccccccccccc--cccccccccccccccccc-cc
Confidence            334455555666778889999999999999999889999999999999999988875  789999999999988433 22


Q ss_pred             CccccccCCCCeEEccCCC------------------------------------------ccccchhhhcCCCCCEEec
Q 048126          557 PSGISTLVSLEHLDLSGTA------------------------------------------ITHLPIELQKLVNLKCLNL  594 (863)
Q Consensus       557 p~~i~~l~~L~~L~L~~~~------------------------------------------l~~lp~~~~~l~~L~~L~l  594 (863)
                      +. ......+..+....+.                                          ....+.....+++++.|++
T Consensus       126 ~~-~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~l~l  204 (384)
T d2omza2         126 DP-LKNLTNLNRLELSSNTISDISALSGLTSLQQLSFGNQVTDLKPLANLTTLERLDISSNKVSDISVLAKLTNLESLIA  204 (384)
T ss_dssp             GG-GTTCTTCSEEEEEEEEECCCGGGTTCTTCSEEEEEESCCCCGGGTTCTTCCEEECCSSCCCCCGGGGGCTTCSEEEC
T ss_pred             cc-ccccccccccccccccccccccccccccccccccccccchhhhhccccccccccccccccccccccccccccceeec
Confidence            21 1111112211111110                                          0112234566777888888


Q ss_pred             CCccccCCCcHHHhhcCCCCcEEEeeccccccCchhhHHHHHcCCccCceEEEEEcChHHHHHHhhhhhhhhcceeeeec
Q 048126          595 EYMYNLNQFPRLVMSAFSKLQVLRILKSNVLFGGHQFLVEELMGMKHLMALTITLKSWEALQELLISQELQRCTQSLFLR  674 (863)
Q Consensus       595 ~~~~~l~~lp~~~~~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~~~~~l~~~~~~~~~L~~L~l~  674 (863)
                      ++| .+..++.  .+.+++|++|++.+|.+..      +..+..+++|+.|++..+....+..+    ...++|+.|.++
T Consensus       205 ~~n-~i~~~~~--~~~~~~L~~L~l~~n~l~~------~~~l~~l~~L~~L~l~~n~l~~~~~~----~~~~~L~~L~l~  271 (384)
T d2omza2         205 TNN-QISDITP--LGILTNLDELSLNGNQLKD------IGTLASLTNLTDLDLANNQISNLAPL----SGLTKLTELKLG  271 (384)
T ss_dssp             CSS-CCCCCGG--GGGCTTCCEEECCSSCCCC------CGGGGGCTTCSEEECCSSCCCCCGGG----TTCTTCSEEECC
T ss_pred             cCC-ccCCCCc--ccccCCCCEEECCCCCCCC------cchhhcccccchhccccCccCCCCcc----cccccCCEeecc
Confidence            777 4555554  4567788888887776542      22456677777777776655443322    223477777776


Q ss_pred             cccCCCcccccchhhcCCCceEEEcCCcccccceeccccccccccccccCcccEEEEeccCCCCCCchhhccCCCcEEEE
Q 048126          675 CFNDSKSLDIFCLACLHNLNKLYVAGRKHLEDFQMTVQRSSVNQLARGFHSLHTVKVGFCFKLKDLTWLVFAPSLKSIVV  754 (863)
Q Consensus       675 ~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~l~~~~~~~~~~~~~~~l~~L~~L~L~~c~~l~~l~~l~~l~~L~~L~l  754 (863)
                      ++.-..   +..+..++.++.+.+..+.... + ...         ..+++++.|+++++ +++.++.+..+|+|++|++
T Consensus       272 ~~~l~~---~~~~~~~~~l~~l~~~~n~l~~-~-~~~---------~~~~~l~~L~ls~n-~l~~l~~l~~l~~L~~L~L  336 (384)
T d2omza2         272 ANQISN---ISPLAGLTALTNLELNENQLED-I-SPI---------SNLKNLTYLTLYFN-NISDISPVSSLTKLQRLFF  336 (384)
T ss_dssp             SSCCCC---CGGGTTCTTCSEEECCSSCCSC-C-GGG---------GGCTTCSEEECCSS-CCSCCGGGGGCTTCCEEEC
T ss_pred             CcccCC---CCcccccccccccccccccccc-c-ccc---------chhcccCeEECCCC-CCCCCcccccCCCCCEEEC
Confidence            654222   2236667788888887764322 2 111         34788899999887 6777877888899999999


Q ss_pred             eccccchhhccccccccccCCCCCCCCcCCccceeccCCCccccccccCCCCCCCcceEeecC
Q 048126          755 LSCCNMEQIIKAEKLSQLHHHPERKKSVFAKLQFLSLENLRNLCCINWEALAFPNLKEIRVEG  817 (863)
Q Consensus       755 ~~~~~l~~i~~~~~~~~~~~~~~~~~~~~p~L~~L~l~~~~~L~~i~~~~~~~p~L~~L~i~~  817 (863)
                      ++| .++.+             + .+..+|+|++|+++++ .+++++. ...+++|+.|++++
T Consensus       337 ~~n-~l~~l-------------~-~l~~l~~L~~L~l~~N-~l~~l~~-l~~l~~L~~L~L~~  382 (384)
T d2omza2         337 ANN-KVSDV-------------S-SLANLTNINWLSAGHN-QISDLTP-LANLTRITQLGLND  382 (384)
T ss_dssp             CSS-CCCCC-------------G-GGGGCTTCCEEECCSS-CCCBCGG-GTTCTTCSEEECCC
T ss_pred             CCC-CCCCC-------------h-hHcCCCCCCEEECCCC-cCCCChh-hccCCCCCEeeCCC
Confidence            886 45554             1 3556889999999875 5677653 55688899888875

>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=99.66  E-value=6.7e-17  Score=170.13  Aligned_cols=107  Identities=21%  Similarity=0.300  Sum_probs=60.2

Q ss_pred             ccceEEccCCcccc---ccchhhhcCCCccEEEccC-CCccccCCccccccCCCCeEEccCCCcccc-chhhhcCCCCCE
Q 048126          517 HLLSLFLSDNSLKM---IAGDFFQFMPSLRVFNMSN-NHLLWKLPSGISTLVSLEHLDLSGTAITHL-PIELQKLVNLKC  591 (863)
Q Consensus       517 ~L~~L~l~~~~l~~---~~~~~~~~l~~L~~L~L~~-~~~~~~lp~~i~~l~~L~~L~L~~~~l~~l-p~~~~~l~~L~~  591 (863)
                      +++.|+|+++.+.+   +|+. ++++++|++|+|++ |.+.+.+|..|++|++|++|+|++|++..+ |..+..+.+|++
T Consensus        51 ~v~~L~L~~~~l~g~~~lp~~-l~~L~~L~~L~Ls~~N~l~g~iP~~i~~L~~L~~L~Ls~N~l~~~~~~~~~~~~~L~~  129 (313)
T d1ogqa_          51 RVNNLDLSGLNLPKPYPIPSS-LANLPYLNFLYIGGINNLVGPIPPAIAKLTQLHYLYITHTNVSGAIPDFLSQIKTLVT  129 (313)
T ss_dssp             CEEEEEEECCCCSSCEECCGG-GGGCTTCSEEEEEEETTEESCCCGGGGGCTTCSEEEEEEECCEEECCGGGGGCTTCCE
T ss_pred             EEEEEECCCCCCCCCCCCChH-HhcCccccccccccccccccccccccccccccchhhhccccccccccccccchhhhcc
Confidence            34555555554442   3333 55666666666654 334455666666666666666666665543 334556666666


Q ss_pred             EecCCccccCCCcHHHhhcCCCCcEEEeeccccc
Q 048126          592 LNLEYMYNLNQFPRLVMSAFSKLQVLRILKSNVL  625 (863)
Q Consensus       592 L~l~~~~~l~~lp~~~~~~L~~L~~L~l~~~~~~  625 (863)
                      +++++|.....+|.. ++++++|+++++.++...
T Consensus       130 l~l~~N~~~~~~p~~-l~~l~~L~~l~l~~n~l~  162 (313)
T d1ogqa_         130 LDFSYNALSGTLPPS-ISSLPNLVGITFDGNRIS  162 (313)
T ss_dssp             EECCSSEEESCCCGG-GGGCTTCCEEECCSSCCE
T ss_pred             cccccccccccCchh-hccCcccceeeccccccc
Confidence            666666544555554 566666666666655443

>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=99.64  E-value=3e-15  Score=156.67  Aligned_cols=262  Identities=16%  Similarity=0.156  Sum_probs=178.2

Q ss_pred             ccceEEccCCccccccchhhhcCCCccEEEccCCCccccCCc-cccccCCCCeEEccCCCcccc-chhhhcCCCCCEEec
Q 048126          517 HLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPS-GISTLVSLEHLDLSGTAITHL-PIELQKLVNLKCLNL  594 (863)
Q Consensus       517 ~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~-~i~~l~~L~~L~L~~~~l~~l-p~~~~~l~~L~~L~l  594 (863)
                      .+++++.++..++.+|..+   .+++++|+|++| .+..+|. .+.++++|++|++++|.+..+ |..+.++++|++|++
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   86 (305)
T d1xkua_          11 HLRVVQCSDLGLEKVPKDL---PPDTALLDLQNN-KITEIKDGDFKNLKNLHTLILINNKISKISPGAFAPLVKLERLYL   86 (305)
T ss_dssp             ETTEEECTTSCCCSCCCSC---CTTCCEEECCSS-CCCCBCTTTTTTCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEEC
T ss_pred             cCCEEEecCCCCCccCCCC---CCCCCEEECcCC-cCCCcChhHhhccccccccccccccccccchhhhhCCCccCEecc
Confidence            5677888888899998864   367999999999 5667775 689999999999999999987 556999999999999


Q ss_pred             CCccccCCCcHHHhhcCCCCcEEEeeccccccCchhhHHHHHcCCccCceEEEEEcChHHHHHHhhhhhhhhcceeeeec
Q 048126          595 EYMYNLNQFPRLVMSAFSKLQVLRILKSNVLFGGHQFLVEELMGMKHLMALTITLKSWEALQELLISQELQRCTQSLFLR  674 (863)
Q Consensus       595 ~~~~~l~~lp~~~~~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~~~~~l~~~~~~~~~L~~L~l~  674 (863)
                      ++| .++.+|..   ....|..|....+....-    ....+.....+..+....+...                     
T Consensus        87 ~~n-~l~~l~~~---~~~~l~~L~~~~n~l~~l----~~~~~~~~~~~~~l~~~~n~~~---------------------  137 (305)
T d1xkua_          87 SKN-QLKELPEK---MPKTLQELRVHENEITKV----RKSVFNGLNQMIVVELGTNPLK---------------------  137 (305)
T ss_dssp             CSS-CCSBCCSS---CCTTCCEEECCSSCCCBB----CHHHHTTCTTCCEEECCSSCCC---------------------
T ss_pred             cCC-ccCcCccc---hhhhhhhhhccccchhhh----hhhhhhcccccccccccccccc---------------------
Confidence            999 67888864   356788888877665432    1222333333444333222110                     


Q ss_pred             cccCCCcccccchhhcCCCceEEEcCCcccccceeccccccccccccccCcccEEEEeccCCCCCCc-hhhccCCCcEEE
Q 048126          675 CFNDSKSLDIFCLACLHNLNKLYVAGRKHLEDFQMTVQRSSVNQLARGFHSLHTVKVGFCFKLKDLT-WLVFAPSLKSIV  753 (863)
Q Consensus       675 ~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~l~~~~~~~~~~~~~~~l~~L~~L~L~~c~~l~~l~-~l~~l~~L~~L~  753 (863)
                          ........+..+++|+.+.+.+|.... ++ .          ..+++|++|+++++......+ .+..+++++.|.
T Consensus       138 ----~~~~~~~~~~~l~~L~~l~l~~n~l~~-l~-~----------~~~~~L~~L~l~~n~~~~~~~~~~~~~~~l~~L~  201 (305)
T d1xkua_         138 ----SSGIENGAFQGMKKLSYIRIADTNITT-IP-Q----------GLPPSLTELHLDGNKITKVDAASLKGLNNLAKLG  201 (305)
T ss_dssp             ----GGGBCTTGGGGCTTCCEEECCSSCCCS-CC-S----------SCCTTCSEEECTTSCCCEECTGGGTTCTTCCEEE
T ss_pred             ----ccCCCccccccccccCccccccCCccc-cC-c----------ccCCccCEEECCCCcCCCCChhHhhccccccccc
Confidence                001111235567788888887764332 21 1          236788888888875433332 456778888888


Q ss_pred             EeccccchhhccccccccccCCCCCCCCcCCccceeccCCCccccccccCCCCCCCcceEeecCCCCCCCCCCCC-----
Q 048126          754 VLSCCNMEQIIKAEKLSQLHHHPERKKSVFAKLQFLSLENLRNLCCINWEALAFPNLKEIRVEGCPKLFKLPLDS-----  828 (863)
Q Consensus       754 l~~~~~l~~i~~~~~~~~~~~~~~~~~~~~p~L~~L~l~~~~~L~~i~~~~~~~p~L~~L~i~~C~~L~~lp~~~-----  828 (863)
                      ++++ .++.+.            +..+..+++|++|+|+++ +++.++.....+|+|+.|+++++ +|++++...     
T Consensus       202 ~s~n-~l~~~~------------~~~~~~l~~L~~L~L~~N-~L~~lp~~l~~l~~L~~L~Ls~N-~i~~i~~~~f~~~~  266 (305)
T d1xkua_         202 LSFN-SISAVD------------NGSLANTPHLRELHLNNN-KLVKVPGGLADHKYIQVVYLHNN-NISAIGSNDFCPPG  266 (305)
T ss_dssp             CCSS-CCCEEC------------TTTGGGSTTCCEEECCSS-CCSSCCTTTTTCSSCCEEECCSS-CCCCCCTTSSSCSS
T ss_pred             cccc-cccccc------------cccccccccceeeecccc-cccccccccccccCCCEEECCCC-ccCccChhhccCcc
Confidence            8875 344441            234567788888888886 67777766667888888888885 688875422     


Q ss_pred             -C--CCCCCceEEEccc
Q 048126          829 -N--SAKGCKVVIKGEE  842 (863)
Q Consensus       829 -~--~~~L~~l~i~~~~  842 (863)
                       .  .++|+.+.+.+.+
T Consensus       267 ~~~~~~~L~~L~L~~N~  283 (305)
T d1xkua_         267 YNTKKASYSGVSLFSNP  283 (305)
T ss_dssp             CCTTSCCCSEEECCSSS
T ss_pred             hhcccCCCCEEECCCCc
Confidence             1  2677788887654

>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=99.58  E-value=3.4e-15  Score=156.79  Aligned_cols=246  Identities=17%  Similarity=0.155  Sum_probs=166.7

Q ss_pred             ceEEEEeccccccc---c-ccCCCCCccceEEccC-Cccc-cccchhhhcCCCccEEEccCCCccccCCccccccCCCCe
Q 048126          495 NVRRMSLMKNKIEN---L-SETPTCPHLLSLFLSD-NSLK-MIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSLEH  568 (863)
Q Consensus       495 ~lr~L~l~~~~~~~---l-~~~~~~~~L~~L~l~~-~~l~-~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~  568 (863)
                      +++.|++.++.+.+   + +.+.++++|++|+|++ |.+. .+|+. |+++++|++|+|++|.+.+..|..+..+.+|++
T Consensus        51 ~v~~L~L~~~~l~g~~~lp~~l~~L~~L~~L~Ls~~N~l~g~iP~~-i~~L~~L~~L~Ls~N~l~~~~~~~~~~~~~L~~  129 (313)
T d1ogqa_          51 RVNNLDLSGLNLPKPYPIPSSLANLPYLNFLYIGGINNLVGPIPPA-IAKLTQLHYLYITHTNVSGAIPDFLSQIKTLVT  129 (313)
T ss_dssp             CEEEEEEECCCCSSCEECCGGGGGCTTCSEEEEEEETTEESCCCGG-GGGCTTCSEEEEEEECCEEECCGGGGGCTTCCE
T ss_pred             EEEEEECCCCCCCCCCCCChHHhcCccccccccccccccccccccc-cccccccchhhhccccccccccccccchhhhcc
Confidence            68999999988764   3 3468999999999997 6776 46655 899999999999999877778888999999999


Q ss_pred             EEccCCCcc-ccchhhhcCCCCCEEecCCccccCCCcHHHhhcCCCC-cEEEeeccccccCchhhHHHHHcCCccCceEE
Q 048126          569 LDLSGTAIT-HLPIELQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKL-QVLRILKSNVLFGGHQFLVEELMGMKHLMALT  646 (863)
Q Consensus       569 L~L~~~~l~-~lp~~~~~l~~L~~L~l~~~~~l~~lp~~~~~~L~~L-~~L~l~~~~~~~~~~~~~~~~l~~L~~L~~L~  646 (863)
                      +++++|.+. .+|..+.++++|+++++++|.....+|.. +..+.++ +.+.+..+.....    .+..+..+..+ .+ 
T Consensus       130 l~l~~N~~~~~~p~~l~~l~~L~~l~l~~n~l~~~ip~~-~~~l~~l~~~l~~~~n~l~~~----~~~~~~~l~~~-~l-  202 (313)
T d1ogqa_         130 LDFSYNALSGTLPPSISSLPNLVGITFDGNRISGAIPDS-YGSFSKLFTSMTISRNRLTGK----IPPTFANLNLA-FV-  202 (313)
T ss_dssp             EECCSSEEESCCCGGGGGCTTCCEEECCSSCCEEECCGG-GGCCCTTCCEEECCSSEEEEE----CCGGGGGCCCS-EE-
T ss_pred             cccccccccccCchhhccCcccceeeccccccccccccc-ccccccccccccccccccccc----ccccccccccc-cc-
Confidence            999999655 78999999999999999999655578876 6677765 7777776655422    11222222211 12 


Q ss_pred             EEEcChHHHHHHhhhhhhhhcceeeeeccccCCCcccccchhhcCCCceEEEcCCcccccceeccccccccccccccCcc
Q 048126          647 ITLKSWEALQELLISQELQRCTQSLFLRCFNDSKSLDIFCLACLHNLNKLYVAGRKHLEDFQMTVQRSSVNQLARGFHSL  726 (863)
Q Consensus       647 l~~~~~~~~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~l~~~~~~~~~~~~~~~l~~L  726 (863)
                                               .+..+...... ...+..+++|+.|++.++..... ++. +        ..+++|
T Consensus       203 -------------------------~l~~~~~~~~~-~~~~~~~~~l~~l~~~~~~l~~~-~~~-~--------~~~~~L  246 (313)
T d1ogqa_         203 -------------------------DLSRNMLEGDA-SVLFGSDKNTQKIHLAKNSLAFD-LGK-V--------GLSKNL  246 (313)
T ss_dssp             -------------------------ECCSSEEEECC-GGGCCTTSCCSEEECCSSEECCB-GGG-C--------CCCTTC
T ss_pred             -------------------------ccccccccccc-ccccccccccccccccccccccc-ccc-c--------cccccc
Confidence                                     22211111111 12244567888888877654332 222 2        236788


Q ss_pred             cEEEEeccCCCCCCc-hhhccCCCcEEEEeccccch-hhccccccccccCCCCCCCCcCCccceeccCCCccccc
Q 048126          727 HTVKVGFCFKLKDLT-WLVFAPSLKSIVVLSCCNME-QIIKAEKLSQLHHHPERKKSVFAKLQFLSLENLRNLCC  799 (863)
Q Consensus       727 ~~L~L~~c~~l~~l~-~l~~l~~L~~L~l~~~~~l~-~i~~~~~~~~~~~~~~~~~~~~p~L~~L~l~~~~~L~~  799 (863)
                      +.|+|++|.-...+| .++.+++|++|+|+++. ++ .+             + ....+++|+.+.+.+.+.+..
T Consensus       247 ~~L~Ls~N~l~g~iP~~l~~L~~L~~L~Ls~N~-l~g~i-------------P-~~~~L~~L~~l~l~~N~~l~g  306 (313)
T d1ogqa_         247 NGLDLRNNRIYGTLPQGLTQLKFLHSLNVSFNN-LCGEI-------------P-QGGNLQRFDVSAYANNKCLCG  306 (313)
T ss_dssp             CEEECCSSCCEECCCGGGGGCTTCCEEECCSSE-EEEEC-------------C-CSTTGGGSCGGGTCSSSEEES
T ss_pred             ccccCccCeecccCChHHhCCCCCCEEECcCCc-ccccC-------------C-CcccCCCCCHHHhCCCccccC
Confidence            888888874322454 57788888888888743 33 22             1 234566777777776655544

>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=99.55  E-value=4.1e-14  Score=151.06  Aligned_cols=287  Identities=23%  Similarity=0.204  Sum_probs=158.4

Q ss_pred             ceEEEEeccccccccccCCCCCccceEEccCCccccccchhhhcCCCccEEEccCCCccccCCccccccCCCCeEEccCC
Q 048126          495 NVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGT  574 (863)
Q Consensus       495 ~lr~L~l~~~~~~~l~~~~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~~  574 (863)
                      ++++|+++++.+..+|..  .++|++|++++|.++.+|..    +.+|+.|++++| .+..++..   .+.|++|++++|
T Consensus        39 ~l~~LdLs~~~L~~lp~~--~~~L~~L~Ls~N~l~~lp~~----~~~L~~L~l~~n-~l~~l~~l---p~~L~~L~L~~n  108 (353)
T d1jl5a_          39 QAHELELNNLGLSSLPEL--PPHLESLVASCNSLTELPEL----PQSLKSLLVDNN-NLKALSDL---PPLLEYLGVSNN  108 (353)
T ss_dssp             TCSEEECTTSCCSCCCSC--CTTCSEEECCSSCCSSCCCC----CTTCCEEECCSS-CCSCCCSC---CTTCCEEECCSS
T ss_pred             CCCEEEeCCCCCCCCCCC--CCCCCEEECCCCCCcccccc----hhhhhhhhhhhc-ccchhhhh---cccccccccccc
Confidence            577889998888888753  57899999999988888753    567888899888 34455431   135899999999


Q ss_pred             CccccchhhhcCCCCCEEecCCccccCCCcHHHhhcCCCCcEEEeeccccccCchhhHHHHHcCCccCceEEEEEcChHH
Q 048126          575 AITHLPIELQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRILKSNVLFGGHQFLVEELMGMKHLMALTITLKSWEA  654 (863)
Q Consensus       575 ~l~~lp~~~~~l~~L~~L~l~~~~~l~~lp~~~~~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~~  654 (863)
                      .+..+|. ++++++|++|++++| .+...|.    ....+..+.+..+....      ...+..++.++.+.+..+....
T Consensus       109 ~l~~lp~-~~~l~~L~~L~l~~~-~~~~~~~----~~~~l~~l~~~~~~~~~------~~~l~~l~~l~~L~l~~n~~~~  176 (353)
T d1jl5a_         109 QLEKLPE-LQNSSFLKIIDVDNN-SLKKLPD----LPPSLEFIAAGNNQLEE------LPELQNLPFLTAIYADNNSLKK  176 (353)
T ss_dssp             CCSSCCC-CTTCTTCCEEECCSS-CCSCCCC----CCTTCCEEECCSSCCSS------CCCCTTCTTCCEEECCSSCCSS
T ss_pred             ccccccc-hhhhccceeeccccc-ccccccc----ccccccchhhccccccc------cccccccccceecccccccccc
Confidence            9998884 678899999999887 4454443    23455666655443321      1234556667777666544322


Q ss_pred             HHHHhhhhhhhhcceeeeeccccCCCcccccchhhcCCCceEEEcCCcccccceecccccc---------ccccccccCc
Q 048126          655 LQELLISQELQRCTQSLFLRCFNDSKSLDIFCLACLHNLNKLYVAGRKHLEDFQMTVQRSS---------VNQLARGFHS  725 (863)
Q Consensus       655 ~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~l~~~~~~~~---------~~~~~~~l~~  725 (863)
                      ...      .......+...+.. ..  .......++.|+.++++++.... + +......         ........++
T Consensus       177 ~~~------~~~~~~~l~~~~~~-~~--~~~~~~~l~~L~~l~l~~n~~~~-~-~~~~~~l~~~~~~~~~~~~~~~~~~~  245 (353)
T d1jl5a_         177 LPD------LPLSLESIVAGNNI-LE--ELPELQNLPFLTTIYADNNLLKT-L-PDLPPSLEALNVRDNYLTDLPELPQS  245 (353)
T ss_dssp             CCC------CCTTCCEEECCSSC-CS--SCCCCTTCTTCCEEECCSSCCSS-C-CSCCTTCCEEECCSSCCSCCCCCCTT
T ss_pred             ccc------cccccccccccccc-cc--ccccccccccccccccccccccc-c-cccccccccccccccccccccccccc
Confidence            110      01122222222211 11  11224445667777766653322 1 1110000         0000011222


Q ss_pred             ccEEEEeccC--CCCCC--------------c-hhhccCCCcEEEEeccccchhhccccccccccCCCCCCCCcCCccce
Q 048126          726 LHTVKVGFCF--KLKDL--------------T-WLVFAPSLKSIVVLSCCNMEQIIKAEKLSQLHHHPERKKSVFAKLQF  788 (863)
Q Consensus       726 L~~L~L~~c~--~l~~l--------------~-~l~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~~~p~L~~  788 (863)
                      +..+.+..+.  .+..+              + ....+++|++|+|++|. ++.+             +   ..+|+|+.
T Consensus       246 l~~~~~~~~~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~L~~L~Ls~N~-l~~l-------------p---~~~~~L~~  308 (353)
T d1jl5a_         246 LTFLDVSENIFSGLSELPPNLYYLNASSNEIRSLCDLPPSLEELNVSNNK-LIEL-------------P---ALPPRLER  308 (353)
T ss_dssp             CCEEECCSSCCSEESCCCTTCCEEECCSSCCSEECCCCTTCCEEECCSSC-CSCC-------------C---CCCTTCCE
T ss_pred             ccccccccccccccccccchhcccccccCccccccccCCCCCEEECCCCc-cCcc-------------c---cccCCCCE
Confidence            3333322210  00001              0 01235677777777753 4433             1   23677777


Q ss_pred             eccCCCccccccccCCCCCCCcceEeecCCCCCCCCCCCCCCCCCCceEE
Q 048126          789 LSLENLRNLCCINWEALAFPNLKEIRVEGCPKLFKLPLDSNSAKGCKVVI  838 (863)
Q Consensus       789 L~l~~~~~L~~i~~~~~~~p~L~~L~i~~C~~L~~lp~~~~~~~L~~l~i  838 (863)
                      |+|+++ ++++++.   .+++|++|++++|+ |+++|...  .+|+.+.|
T Consensus       309 L~L~~N-~L~~l~~---~~~~L~~L~L~~N~-L~~lp~~~--~~L~~L~~  351 (353)
T d1jl5a_         309 LIASFN-HLAEVPE---LPQNLKQLHVEYNP-LREFPDIP--ESVEDLRM  351 (353)
T ss_dssp             EECCSS-CCSCCCC---CCTTCCEEECCSSC-CSSCCCCC--TTCCEEEC
T ss_pred             EECCCC-cCCcccc---ccCCCCEEECcCCc-CCCCCccc--cccCeeEC
Confidence            777764 5666653   24677778877774 77777532  45666554

>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=99.54  E-value=1.2e-14  Score=148.42  Aligned_cols=127  Identities=24%  Similarity=0.227  Sum_probs=97.9

Q ss_pred             ceEEEEeccccccccccCCCCCccceEEccCCccccccchhhhcCCCccEEEccCCCccccCCccccccCCCCeEEccCC
Q 048126          495 NVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGT  574 (863)
Q Consensus       495 ~lr~L~l~~~~~~~l~~~~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~~  574 (863)
                      .+..++.+++.+..+|..- .++|++|+|++|.++.+++..|.++++|++|+|++| .+..+| .++.+++|++|+|++|
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   87 (266)
T d1p9ag_          11 SHLEVNCDKRNLTALPPDL-PKDTTILHLSENLLYTFSLATLMPYTRLTQLNLDRA-ELTKLQ-VDGTLPVLGTLDLSHN   87 (266)
T ss_dssp             TCCEEECTTSCCSSCCSCC-CTTCCEEECTTSCCSEEEGGGGTTCTTCCEEECTTS-CCCEEE-CCSCCTTCCEEECCSS
T ss_pred             CCeEEEccCCCCCeeCcCc-CcCCCEEECcCCcCCCcCHHHhhccccccccccccc-cccccc-cccccccccccccccc
Confidence            4445666677777766421 257899999999998888888889999999999998 455666 3578899999999999


Q ss_pred             CccccchhhhcCCCCCEEecCCccccCCCcHHHhhcCCCCcEEEeeccccc
Q 048126          575 AITHLPIELQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRILKSNVL  625 (863)
Q Consensus       575 ~l~~lp~~~~~l~~L~~L~l~~~~~l~~lp~~~~~~L~~L~~L~l~~~~~~  625 (863)
                      +++..|..+..+++|+.|+++++ .+..++......+.+|++|++.++.+.
T Consensus        88 ~l~~~~~~~~~l~~L~~L~l~~~-~~~~~~~~~~~~l~~l~~L~l~~n~l~  137 (266)
T d1p9ag_          88 QLQSLPLLGQTLPALTVLDVSFN-RLTSLPLGALRGLGELQELYLKGNELK  137 (266)
T ss_dssp             CCSSCCCCTTTCTTCCEEECCSS-CCCCCCSSTTTTCTTCCEEECTTSCCC
T ss_pred             ccccccccccccccccccccccc-ccceeeccccccccccccccccccccc
Confidence            99888888888999999999888 445566555677888888887766543

>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=99.53  E-value=5e-15  Score=152.64  Aligned_cols=249  Identities=16%  Similarity=0.184  Sum_probs=137.4

Q ss_pred             ceEEccCCccccccchhhhcC--CCccEEEccCCCccccCCccccccCCCCeEEccCCCcc--ccchhhhcCCCCCEEec
Q 048126          519 LSLFLSDNSLKMIAGDFFQFM--PSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAIT--HLPIELQKLVNLKCLNL  594 (863)
Q Consensus       519 ~~L~l~~~~l~~~~~~~~~~l--~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~~~l~--~lp~~~~~l~~L~~L~l  594 (863)
                      ++|+++++.+.   ++.+..+  ..+..+.+..+ .............+|++|++++|.+.  .++..+.++++|++|++
T Consensus         3 ~~lDLs~~~l~---~~~l~~l~~~~~~~lrl~~~-~~~~~~~~~~~~~~L~~LdLs~~~i~~~~l~~l~~~c~~L~~L~L   78 (284)
T d2astb2           3 QTLDLTGKNLH---PDVTGRLLSQGVIAFRCPRS-FMDQPLAEHFSPFRVQHMDLSNSVIEVSTLHGILSQCSKLQNLSL   78 (284)
T ss_dssp             SEEECTTCBCC---HHHHHHHHHTTCSEEECTTC-EECSCCCSCCCCBCCCEEECTTCEECHHHHHHHHTTBCCCSEEEC
T ss_pred             CEEECCCCCCC---chHHHHHHhccceEeecccc-ccccchhhhccCCCCCEEECCCCccCHHHHHHHHHhCCCcccccc
Confidence            46788877542   2222211  23456666655 22222233445668889999888765  35666788888888888


Q ss_pred             CCccccCC-CcHHHhhcCCCCcEEEeeccccccCchhhHHHHHcCCccCceEEEEEcChHHHHHHhhhhhhhhcceeeee
Q 048126          595 EYMYNLNQ-FPRLVMSAFSKLQVLRILKSNVLFGGHQFLVEELMGMKHLMALTITLKSWEALQELLISQELQRCTQSLFL  673 (863)
Q Consensus       595 ~~~~~l~~-lp~~~~~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~~~~~l~~~~~~~~~L~~L~l  673 (863)
                      ++|. +.. .+. .+.++++|++|++.+|...++  .....-..++++|+.|+++++                       
T Consensus        79 ~~~~-l~~~~~~-~l~~~~~L~~L~Ls~c~~itd--~~l~~l~~~~~~L~~L~ls~c-----------------------  131 (284)
T d2astb2          79 EGLR-LSDPIVN-TLAKNSNLVRLNLSGCSGFSE--FALQTLLSSCSRLDELNLSWC-----------------------  131 (284)
T ss_dssp             TTCB-CCHHHHH-HHTTCTTCSEEECTTCBSCCH--HHHHHHHHHCTTCCEEECCCC-----------------------
T ss_pred             cccC-CCcHHHH-HHhcCCCCcCccccccccccc--cccchhhHHHHhccccccccc-----------------------
Confidence            8883 332 233 367788888888887655432  111122334566666666543                       


Q ss_pred             ccccCCCccccc-chh-hcCCCceEEEcCCc-ccccceeccccccccccccccCcccEEEEeccCCCC--CCchhhccCC
Q 048126          674 RCFNDSKSLDIF-CLA-CLHNLNKLYVAGRK-HLEDFQMTVQRSSVNQLARGFHSLHTVKVGFCFKLK--DLTWLVFAPS  748 (863)
Q Consensus       674 ~~~~~~~~~~~~-~l~-~~~~L~~L~l~~~~-~~~~l~~~~~~~~~~~~~~~l~~L~~L~L~~c~~l~--~l~~l~~l~~  748 (863)
                         ...+...+. .+. ..++|+.|++++|. .+++.....+       ...+|+|++|+|++|..++  .+..+..+|+
T Consensus       132 ---~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~i~~~~l~~l-------~~~~~~L~~L~L~~~~~itd~~~~~l~~~~~  201 (284)
T d2astb2         132 ---FDFTEKHVQVAVAHVSETITQLNLSGYRKNLQKSDLSTL-------VRRCPNLVHLDLSDSVMLKNDCFQEFFQLNY  201 (284)
T ss_dssp             ---TTCCHHHHHHHHHHSCTTCCEEECCSCGGGSCHHHHHHH-------HHHCTTCSEEECTTCTTCCGGGGGGGGGCTT
T ss_pred             ---cccccccchhhhcccccccchhhhccccccccccccccc-------ccccccccccccccccCCCchhhhhhcccCc
Confidence               222211110 111 13567777776653 2221111111       1236777777777776665  3345667788


Q ss_pred             CcEEEEeccccchhhccccccccccCCCCCCCCcCCccceeccCCCccccccccCCCCCCCcceEeecCCCCCCCC
Q 048126          749 LKSIVVLSCCNMEQIIKAEKLSQLHHHPERKKSVFAKLQFLSLENLRNLCCINWEALAFPNLKEIRVEGCPKLFKL  824 (863)
Q Consensus       749 L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~~~p~L~~L~l~~~~~L~~i~~~~~~~p~L~~L~i~~C~~L~~l  824 (863)
                      |++|+|++|+.+++...            ..+..+|+|+.|++.+|-.-..+..-...+|.|+   + +|.+++.+
T Consensus       202 L~~L~L~~C~~i~~~~l------------~~L~~~~~L~~L~l~~~~~d~~l~~l~~~lp~L~---i-~~~~ls~~  261 (284)
T d2astb2         202 LQHLSLSRCYDIIPETL------------LELGEIPTLKTLQVFGIVPDGTLQLLKEALPHLQ---I-NCSHFTTI  261 (284)
T ss_dssp             CCEEECTTCTTCCGGGG------------GGGGGCTTCCEEECTTSSCTTCHHHHHHHSTTSE---E-SCCCSCCT
T ss_pred             CCEEECCCCCCCChHHH------------HHHhcCCCCCEEeeeCCCCHHHHHHHHHhCcccc---c-cCccCCCC
Confidence            88888888776654311            1344578888888887722222221112355554   4 56677664

>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=99.53  E-value=1.6e-14  Score=143.75  Aligned_cols=101  Identities=20%  Similarity=0.349  Sum_probs=50.2

Q ss_pred             CCCCccceEEccCCccccccchhhhcCCCccEEEccCCCccccCCccccccCCCCeEEccCCCccccchhhhcCCCCCEE
Q 048126          513 PTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAITHLPIELQKLVNLKCL  592 (863)
Q Consensus       513 ~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~~~l~~lp~~~~~l~~L~~L  592 (863)
                      ..+.+|+.|++.+|.++.+. . ++++++|++|++++|.+. .++ .+.++++|+++++++|.++.++ .+..+++|+.+
T Consensus        38 ~~l~~L~~L~l~~~~i~~l~-~-l~~l~~L~~L~ls~n~i~-~~~-~l~~l~~l~~l~~~~n~~~~i~-~l~~l~~L~~l  112 (227)
T d1h6ua2          38 ADLDGITTLSAFGTGVTTIE-G-VQYLNNLIGLELKDNQIT-DLA-PLKNLTKITELELSGNPLKNVS-AIAGLQSIKTL  112 (227)
T ss_dssp             HHHHTCCEEECTTSCCCCCT-T-GGGCTTCCEEECCSSCCC-CCG-GGTTCCSCCEEECCSCCCSCCG-GGTTCTTCCEE
T ss_pred             HHcCCcCEEECCCCCCCcch-h-HhcCCCCcEeecCCceee-ccc-cccccccccccccccccccccc-ccccccccccc
Confidence            34455555555555555542 2 455556666666555322 222 2555555566666555555554 34555555555


Q ss_pred             ecCCccccCCCcHHHhhcCCCCcEEEeec
Q 048126          593 NLEYMYNLNQFPRLVMSAFSKLQVLRILK  621 (863)
Q Consensus       593 ~l~~~~~l~~lp~~~~~~L~~L~~L~l~~  621 (863)
                      ++++|. ...++.  +...+.++.+.+..
T Consensus       113 ~l~~~~-~~~~~~--~~~~~~~~~l~~~~  138 (227)
T d1h6ua2         113 DLTSTQ-ITDVTP--LAGLSNLQVLYLDL  138 (227)
T ss_dssp             ECTTSC-CCCCGG--GTTCTTCCEEECCS
T ss_pred             cccccc-ccccch--hccccchhhhhchh
Confidence            555552 222222  33444444444433

>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=99.52  E-value=1.6e-13  Score=136.36  Aligned_cols=193  Identities=21%  Similarity=0.276  Sum_probs=144.2

Q ss_pred             CcccccccceEEEEeccccccccccCCCCCccceEEccCCccccccchhhhcCCCccEEEccCCCccccCCccccccCCC
Q 048126          487 APEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSL  566 (863)
Q Consensus       487 ~~~~~~~~~lr~L~l~~~~~~~l~~~~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L  566 (863)
                      ......+.+++.|++.+|.+..++.+..+++|++|++++|.+..+++  +..+++|+++++++| ....++ .+..+++|
T Consensus        34 ~~~~~~l~~L~~L~l~~~~i~~l~~l~~l~~L~~L~ls~n~i~~~~~--l~~l~~l~~l~~~~n-~~~~i~-~l~~l~~L  109 (227)
T d1h6ua2          34 TVTQADLDGITTLSAFGTGVTTIEGVQYLNNLIGLELKDNQITDLAP--LKNLTKITELELSGN-PLKNVS-AIAGLQSI  109 (227)
T ss_dssp             EECHHHHHTCCEEECTTSCCCCCTTGGGCTTCCEEECCSSCCCCCGG--GTTCCSCCEEECCSC-CCSCCG-GGTTCTTC
T ss_pred             cCCHHHcCCcCEEECCCCCCCcchhHhcCCCCcEeecCCceeecccc--ccccccccccccccc-cccccc-cccccccc
Confidence            33455678999999999999999888999999999999999988765  899999999999999 445665 68899999


Q ss_pred             CeEEccCCCccccchhhhcCCCCCEEecCCccccCCCcHHHhhcCCCCcEEEeeccccccCchhhHHHHHcCCccCceEE
Q 048126          567 EHLDLSGTAITHLPIELQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRILKSNVLFGGHQFLVEELMGMKHLMALT  646 (863)
Q Consensus       567 ~~L~L~~~~l~~lp~~~~~l~~L~~L~l~~~~~l~~lp~~~~~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~~L~  646 (863)
                      ++++++++....++ .+...+.+..+.++++ .+...+.  +.++++|++|++.+|.....                   
T Consensus       110 ~~l~l~~~~~~~~~-~~~~~~~~~~l~~~~~-~~~~~~~--~~~~~~L~~L~l~~n~~~~~-------------------  166 (227)
T d1h6ua2         110 KTLDLTSTQITDVT-PLAGLSNLQVLYLDLN-QITNISP--LAGLTNLQYLSIGNAQVSDL-------------------  166 (227)
T ss_dssp             CEEECTTSCCCCCG-GGTTCTTCCEEECCSS-CCCCCGG--GGGCTTCCEEECCSSCCCCC-------------------
T ss_pred             cccccccccccccc-hhccccchhhhhchhh-hhchhhh--hccccccccccccccccccc-------------------
Confidence            99999999877665 4677889999999887 3444443  56777888887765543210                   


Q ss_pred             EEEcChHHHHHHhhhhhhhhcceeeeeccccCCCcccccchhhcCCCceEEEcCCcccccceeccccccccccccccCcc
Q 048126          647 ITLKSWEALQELLISQELQRCTQSLFLRCFNDSKSLDIFCLACLHNLNKLYVAGRKHLEDFQMTVQRSSVNQLARGFHSL  726 (863)
Q Consensus       647 l~~~~~~~~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~l~~~~~~~~~~~~~~~l~~L  726 (863)
                                                            ..+..+++|+.|++++| .++++++  +        ..+++|
T Consensus       167 --------------------------------------~~l~~l~~L~~L~Ls~n-~l~~l~~--l--------~~l~~L  197 (227)
T d1h6ua2         167 --------------------------------------TPLANLSKLTTLKADDN-KISDISP--L--------ASLPNL  197 (227)
T ss_dssp             --------------------------------------GGGTTCTTCCEEECCSS-CCCCCGG--G--------GGCTTC
T ss_pred             --------------------------------------hhhcccccceecccCCC-ccCCChh--h--------cCCCCC
Confidence                                                  11334566677777665 3443321  1        237788


Q ss_pred             cEEEEeccCCCCCCchhhccCCCcEEEEec
Q 048126          727 HTVKVGFCFKLKDLTWLVFAPSLKSIVVLS  756 (863)
Q Consensus       727 ~~L~L~~c~~l~~l~~l~~l~~L~~L~l~~  756 (863)
                      ++|+|++| +++.+++++.+++|+.|+|++
T Consensus       198 ~~L~Ls~N-~lt~i~~l~~l~~L~~L~lsn  226 (227)
T d1h6ua2         198 IEVHLKNN-QISDVSPLANTSNLFIVTLTN  226 (227)
T ss_dssp             CEEECTTS-CCCBCGGGTTCTTCCEEEEEE
T ss_pred             CEEECcCC-cCCCCcccccCCCCCEEEeeC
Confidence            88888887 577777778888888888764

>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=99.49  E-value=5.4e-14  Score=144.77  Aligned_cols=223  Identities=15%  Similarity=0.151  Sum_probs=131.0

Q ss_pred             EEEeccccccc--cccCCCCCccceEEccCCccccccchhhhcCCCccEEEccCCCcccc-CCccccccCCCCeEEccCC
Q 048126          498 RMSLMKNKIEN--LSETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWK-LPSGISTLVSLEHLDLSGT  574 (863)
Q Consensus       498 ~L~l~~~~~~~--l~~~~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~-lp~~i~~l~~L~~L~L~~~  574 (863)
                      +++++++.+..  +..... ..+..+.+....+...... ......|++||+++|.+... ++..+..+++|++|++++|
T Consensus         4 ~lDLs~~~l~~~~l~~l~~-~~~~~lrl~~~~~~~~~~~-~~~~~~L~~LdLs~~~i~~~~l~~l~~~c~~L~~L~L~~~   81 (284)
T d2astb2           4 TLDLTGKNLHPDVTGRLLS-QGVIAFRCPRSFMDQPLAE-HFSPFRVQHMDLSNSVIEVSTLHGILSQCSKLQNLSLEGL   81 (284)
T ss_dssp             EEECTTCBCCHHHHHHHHH-TTCSEEECTTCEECSCCCS-CCCCBCCCEEECTTCEECHHHHHHHHTTBCCCSEEECTTC
T ss_pred             EEECCCCCCCchHHHHHHh-ccceEeeccccccccchhh-hccCCCCCEEECCCCccCHHHHHHHHHhCCCccccccccc
Confidence            57777665531  110100 1234555555433322222 33456899999999955433 5566788999999999999


Q ss_pred             Ccc-ccchhhhcCCCCCEEecCCccccCCCc-HHHhhcCCCCcEEEeeccccccCchhhHHHHHcC-CccCceEEEEEcC
Q 048126          575 AIT-HLPIELQKLVNLKCLNLEYMYNLNQFP-RLVMSAFSKLQVLRILKSNVLFGGHQFLVEELMG-MKHLMALTITLKS  651 (863)
Q Consensus       575 ~l~-~lp~~~~~l~~L~~L~l~~~~~l~~lp-~~~~~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~-L~~L~~L~l~~~~  651 (863)
                      .+. ..+..+..+++|++|++++|..++... ..+..++++|++|++.+|....+  ......+.. .++|+.|.++.+.
T Consensus        82 ~l~~~~~~~l~~~~~L~~L~Ls~c~~itd~~l~~l~~~~~~L~~L~ls~c~~~~~--~~~~~~~~~~~~~L~~L~l~~~~  159 (284)
T d2astb2          82 RLSDPIVNTLAKNSNLVRLNLSGCSGFSEFALQTLLSSCSRLDELNLSWCFDFTE--KHVQVAVAHVSETITQLNLSGYR  159 (284)
T ss_dssp             BCCHHHHHHHTTCTTCSEEECTTCBSCCHHHHHHHHHHCTTCCEEECCCCTTCCH--HHHHHHHHHSCTTCCEEECCSCG
T ss_pred             CCCcHHHHHHhcCCCCcCccccccccccccccchhhHHHHhcccccccccccccc--ccchhhhcccccccchhhhcccc
Confidence            887 556778899999999999996665322 12346799999999998865432  112222222 3456666654321


Q ss_pred             hHHHHHHhhhhhhhhcceeeeeccccCCCcccccc-hhhcCCCceEEEcCCcccccceeccccccccccccccCcccEEE
Q 048126          652 WEALQELLISQELQRCTQSLFLRCFNDSKSLDIFC-LACLHNLNKLYVAGRKHLEDFQMTVQRSSVNQLARGFHSLHTVK  730 (863)
Q Consensus       652 ~~~~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~~~-l~~~~~L~~L~l~~~~~~~~l~~~~~~~~~~~~~~~l~~L~~L~  730 (863)
                      .                         ..+...+.. ...+++|++|++++|..+++..+..+        ..+++|++|+
T Consensus       160 ~-------------------------~i~~~~l~~l~~~~~~L~~L~L~~~~~itd~~~~~l--------~~~~~L~~L~  206 (284)
T d2astb2         160 K-------------------------NLQKSDLSTLVRRCPNLVHLDLSDSVMLKNDCFQEF--------FQLNYLQHLS  206 (284)
T ss_dssp             G-------------------------GSCHHHHHHHHHHCTTCSEEECTTCTTCCGGGGGGG--------GGCTTCCEEE
T ss_pred             c-------------------------ccccccccccccccccccccccccccCCCchhhhhh--------cccCcCCEEE
Confidence            1                         111111111 23356666777766655543322222        2356777777


Q ss_pred             EeccCCCCCC--chhhccCCCcEEEEecc
Q 048126          731 VGFCFKLKDL--TWLVFAPSLKSIVVLSC  757 (863)
Q Consensus       731 L~~c~~l~~l--~~l~~l~~L~~L~l~~~  757 (863)
                      |++|..+++-  ..++.+|+|+.|++.+|
T Consensus       207 L~~C~~i~~~~l~~L~~~~~L~~L~l~~~  235 (284)
T d2astb2         207 LSRCYDIIPETLLELGEIPTLKTLQVFGI  235 (284)
T ss_dssp             CTTCTTCCGGGGGGGGGCTTCCEEECTTS
T ss_pred             CCCCCCCChHHHHHHhcCCCCCEEeeeCC
Confidence            7777655432  24556677777777665

>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=99.47  E-value=7.3e-14  Score=136.79  Aligned_cols=145  Identities=20%  Similarity=0.318  Sum_probs=114.0

Q ss_pred             cccceEEEEeccccccccccCCCCCccceEEccCCccccccchhhhcCCCccEEEccCCCccccCCccccccCCCCeEEc
Q 048126          492 NWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDL  571 (863)
Q Consensus       492 ~~~~lr~L~l~~~~~~~l~~~~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L  571 (863)
                      .+.+++.|++.++.+..++.+..+++|++|++++|.++.+++  ++.+++|++|++++|. +..+| .++++++|+.|++
T Consensus        44 ~L~~L~~L~l~~~~i~~l~~l~~l~~L~~L~L~~n~i~~l~~--~~~l~~L~~L~l~~n~-i~~l~-~l~~l~~L~~L~l  119 (210)
T d1h6ta2          44 ELNSIDQIIANNSDIKSVQGIQYLPNVTKLFLNGNKLTDIKP--LANLKNLGWLFLDENK-VKDLS-SLKDLKKLKSLSL  119 (210)
T ss_dssp             HHHTCCEEECTTSCCCCCTTGGGCTTCCEEECCSSCCCCCGG--GTTCTTCCEEECCSSC-CCCGG-GGTTCTTCCEEEC
T ss_pred             HhcCccEEECcCCCCCCchhHhhCCCCCEEeCCCccccCccc--cccCcccccccccccc-ccccc-ccccccccccccc
Confidence            456788999999988888778889999999999998888774  6789999999999984 55666 5888999999999


Q ss_pred             cCCCccccchhhhcCCCCCEEecCCccccCCCcHHHhhcCCCCcEEEeeccccccCchhhHHHHHcCCccCceEEEEEc
Q 048126          572 SGTAITHLPIELQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRILKSNVLFGGHQFLVEELMGMKHLMALTITLK  650 (863)
Q Consensus       572 ~~~~l~~lp~~~~~l~~L~~L~l~~~~~l~~lp~~~~~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~  650 (863)
                      ++|.+..++ .+..+++|+.+++++| .+..++.  .+.+++|+++++.+|.+..      +..+.++++|+.|+++.+
T Consensus       120 ~~~~~~~~~-~l~~l~~l~~l~~~~n-~l~~~~~--~~~l~~L~~l~l~~n~l~~------i~~l~~l~~L~~L~Ls~N  188 (210)
T d1h6ta2         120 EHNGISDIN-GLVHLPQLESLYLGNN-KITDITV--LSRLTKLDTLSLEDNQISD------IVPLAGLTKLQNLYLSKN  188 (210)
T ss_dssp             TTSCCCCCG-GGGGCTTCCEEECCSS-CCCCCGG--GGGCTTCSEEECCSSCCCC------CGGGTTCTTCCEEECCSS
T ss_pred             ccccccccc-cccccccccccccccc-ccccccc--ccccccccccccccccccc------cccccCCCCCCEEECCCC
Confidence            998887775 5788889999999887 4566554  6788999999988886642      123666777777666543

>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=99.46  E-value=3.7e-13  Score=138.72  Aligned_cols=200  Identities=19%  Similarity=0.207  Sum_probs=115.4

Q ss_pred             CccceEEccCCccccccchhhhcCCCccEEEccCCCccccCCccccccCCCCeEEccCC-Ccccc-chhhhcCCCCCEEe
Q 048126          516 PHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGT-AITHL-PIELQKLVNLKCLN  593 (863)
Q Consensus       516 ~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~~-~l~~l-p~~~~~l~~L~~L~  593 (863)
                      +++++|+|++|.++.+++..|.++++|++|+++++.+....+..+..+..++.+....+ .++.+ |..+.++++|++|+
T Consensus        32 ~~~~~L~Ls~N~i~~i~~~~f~~l~~L~~L~ls~n~l~~i~~~~~~~~~~~~~l~~~~~~~~~~l~~~~~~~l~~L~~L~  111 (284)
T d1ozna_          32 AASQRIFLHGNRISHVPAASFRACRNLTILWLHSNVLARIDAAAFTGLALLEQLDLSDNAQLRSVDPATFHGLGRLHTLH  111 (284)
T ss_dssp             TTCSEEECTTSCCCEECTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSCTTCCCCCTTTTTTCTTCCEEE
T ss_pred             CCCCEEECcCCcCCCCCHHHhhccccccccccccccccccccccccccccccccccccccccccccchhhcccccCCEEe
Confidence            45677777777777777666677777777777776544444455566666666665543 55555 34466677777777


Q ss_pred             cCCccccCCCcHHHhhcCCCCcEEEeeccccccCchhhHHHHHcCCccCceEEEEEcChHHHHHHhhhhhhhhcceeeee
Q 048126          594 LEYMYNLNQFPRLVMSAFSKLQVLRILKSNVLFGGHQFLVEELMGMKHLMALTITLKSWEALQELLISQELQRCTQSLFL  673 (863)
Q Consensus       594 l~~~~~l~~lp~~~~~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~~~~~l~~~~~~~~~L~~L~l  673 (863)
                      +++| .+..++...++.+.+|+.+++.++.+..-    ....+..+++|+.|+++.+.                      
T Consensus       112 l~~n-~~~~~~~~~~~~~~~L~~l~l~~N~l~~i----~~~~f~~~~~L~~L~l~~N~----------------------  164 (284)
T d1ozna_         112 LDRC-GLQELGPGLFRGLAALQYLYLQDNALQAL----PDDTFRDLGNLTHLFLHGNR----------------------  164 (284)
T ss_dssp             CTTS-CCCCCCTTTTTTCTTCCEEECCSSCCCCC----CTTTTTTCTTCCEEECCSSC----------------------
T ss_pred             cCCc-ccccccccccchhcccchhhhcccccccc----ChhHhccccchhhcccccCc----------------------
Confidence            7766 33445444456666777777666655321    11123334444444433221                      


Q ss_pred             ccccCCCcccccchhhcCCCceEEEcCCcccccceeccccccccccccccCcccEEEEeccCCCCCCc--hhhccCCCcE
Q 048126          674 RCFNDSKSLDIFCLACLHNLNKLYVAGRKHLEDFQMTVQRSSVNQLARGFHSLHTVKVGFCFKLKDLT--WLVFAPSLKS  751 (863)
Q Consensus       674 ~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~l~~~~~~~~~~~~~~~l~~L~~L~L~~c~~l~~l~--~l~~l~~L~~  751 (863)
                           ...++...+..+++|+.|.+++|... .+.+.++        ..+++|++|+++++ .+..++  .++.+++|++
T Consensus       165 -----l~~l~~~~f~~l~~L~~l~l~~N~l~-~i~~~~f--------~~l~~L~~L~l~~N-~i~~~~~~~~~~~~~L~~  229 (284)
T d1ozna_         165 -----ISSVPERAFRGLHSLDRLLLHQNRVA-HVHPHAF--------RDLGRLMTLYLFAN-NLSALPTEALAPLRALQY  229 (284)
T ss_dssp             -----CCEECTTTTTTCTTCCEEECCSSCCC-EECTTTT--------TTCTTCCEEECCSS-CCSCCCHHHHTTCTTCCE
T ss_pred             -----ccccchhhhccccccchhhhhhcccc-ccChhHh--------hhhhhccccccccc-ccccccccccccccccCE
Confidence                 12222234556677777777766433 3434443        24677777777776 445554  3566777777


Q ss_pred             EEEecc
Q 048126          752 IVVLSC  757 (863)
Q Consensus       752 L~l~~~  757 (863)
                      |++++.
T Consensus       230 L~l~~N  235 (284)
T d1ozna_         230 LRLNDN  235 (284)
T ss_dssp             EECCSS
T ss_pred             EEecCC
Confidence            777763

>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=99.43  E-value=1.8e-13  Score=132.69  Aligned_cols=148  Identities=22%  Similarity=0.282  Sum_probs=115.6

Q ss_pred             cccccceEEEEeccccccccccCCCCCccceEEccCCccccccchhhhcCCCccEEEccCCCccccCCccccccCCCCeE
Q 048126          490 IQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHL  569 (863)
Q Consensus       490 ~~~~~~lr~L~l~~~~~~~l~~~~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L  569 (863)
                      ...+.+++.|++.++.+..+..+..+++|++|++++|.++.+++  ++++++|++|++++| ....+| .++++++|++|
T Consensus        36 ~~~l~~l~~L~l~~~~i~~l~~l~~l~nL~~L~Ls~N~l~~~~~--l~~l~~L~~L~l~~n-~~~~~~-~l~~l~~L~~L  111 (199)
T d2omxa2          36 QTDLDQVTTLQADRLGIKSIDGVEYLNNLTQINFSNNQLTDITP--LKNLTKLVDILMNNN-QIADIT-PLANLTNLTGL  111 (199)
T ss_dssp             HHHHTTCCEEECTTSCCCCCTTGGGCTTCCEEECCSSCCCCCGG--GTTCTTCCEEECCSS-CCCCCG-GGTTCTTCSEE
T ss_pred             HHHhcCCCEEECCCCCCCCccccccCCCcCcCccccccccCccc--ccCCccccccccccc-cccccc-ccccccccccc
Confidence            34567889999999988888778889999999999998888765  788999999999998 444555 47889999999


Q ss_pred             EccCCCccccchhhhcCCCCCEEecCCccccCCCcHHHhhcCCCCcEEEeeccccccCchhhHHHHHcCCccCceEEEEE
Q 048126          570 DLSGTAITHLPIELQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRILKSNVLFGGHQFLVEELMGMKHLMALTITL  649 (863)
Q Consensus       570 ~L~~~~l~~lp~~~~~l~~L~~L~l~~~~~l~~lp~~~~~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~  649 (863)
                      +++++.+..++ .+..+++|+.|++++| .+..+|.  +..+++|+.|++.+|.+..      +..++++++|+.|+++.
T Consensus       112 ~l~~~~~~~~~-~~~~l~~L~~L~l~~n-~l~~~~~--l~~~~~L~~L~l~~n~l~~------l~~l~~l~~L~~L~ls~  181 (199)
T d2omxa2         112 TLFNNQITDID-PLKNLTNLNRLELSSN-TISDISA--LSGLTSLQQLNFSSNQVTD------LKPLANLTTLERLDISS  181 (199)
T ss_dssp             ECCSSCCCCCG-GGTTCTTCSEEECCSS-CCCCCGG--GTTCTTCSEEECCSSCCCC------CGGGTTCTTCCEEECCS
T ss_pred             ccccccccccc-ccchhhhhHHhhhhhh-hhccccc--ccccccccccccccccccC------CccccCCCCCCEEECCC
Confidence            99988777665 4778899999999988 5666664  7788999999988876642      12366667777666654


Q ss_pred             cC
Q 048126          650 KS  651 (863)
Q Consensus       650 ~~  651 (863)
                      +.
T Consensus       182 N~  183 (199)
T d2omxa2         182 NK  183 (199)
T ss_dssp             SC
T ss_pred             CC
Confidence            43

>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=99.42  E-value=3.8e-13  Score=138.64  Aligned_cols=217  Identities=19%  Similarity=0.215  Sum_probs=163.5

Q ss_pred             EEEcCCCcccCcccccccceEEEEecccccccccc--CCCCCccceEEccCCccccccchhhhcCCCccEEEccCCCccc
Q 048126          477 LVHAGLGLTEAPEIQNWRNVRRMSLMKNKIENLSE--TPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLW  554 (863)
Q Consensus       477 ~~~~~~~~~~~~~~~~~~~lr~L~l~~~~~~~l~~--~~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~  554 (863)
                      +...+.+++.+|.. -.+.++.|++++|.+..++.  +.++++|++|++++|.+..++...+.++..++.++...+..+.
T Consensus        16 v~c~~~~L~~iP~~-ip~~~~~L~Ls~N~i~~i~~~~f~~l~~L~~L~ls~n~l~~i~~~~~~~~~~~~~l~~~~~~~~~   94 (284)
T d1ozna_          16 TSCPQQGLQAVPVG-IPAASQRIFLHGNRISHVPAASFRACRNLTILWLHSNVLARIDAAAFTGLALLEQLDLSDNAQLR   94 (284)
T ss_dssp             EECCSSCCSSCCTT-CCTTCSEEECTTSCCCEECTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSCTTCC
T ss_pred             EEcCCCCCCccCCC-CCCCCCEEECcCCcCCCCCHHHhhccccccccccccccccccccccccccccccccccccccccc
Confidence            44445555666532 22578999999999998865  6889999999999999999998889999999999887665555


Q ss_pred             cC-CccccccCCCCeEEccCCCccccch-hhhcCCCCCEEecCCccccCCCcHHHhhcCCCCcEEEeeccccccCchhhH
Q 048126          555 KL-PSGISTLVSLEHLDLSGTAITHLPI-ELQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRILKSNVLFGGHQFL  632 (863)
Q Consensus       555 ~l-p~~i~~l~~L~~L~L~~~~l~~lp~-~~~~l~~L~~L~l~~~~~l~~lp~~~~~~L~~L~~L~l~~~~~~~~~~~~~  632 (863)
                      .+ |..+.++++|++|++++|.+..++. .+..+.+|+.+++++| .++.+|...+..+++|++|++.+|.+..-    .
T Consensus        95 ~l~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~~~L~~l~l~~N-~l~~i~~~~f~~~~~L~~L~l~~N~l~~l----~  169 (284)
T d1ozna_          95 SVDPATFHGLGRLHTLHLDRCGLQELGPGLFRGLAALQYLYLQDN-ALQALPDDTFRDLGNLTHLFLHGNRISSV----P  169 (284)
T ss_dssp             CCCTTTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECCSS-CCCCCCTTTTTTCTTCCEEECCSSCCCEE----C
T ss_pred             cccchhhcccccCCEEecCCcccccccccccchhcccchhhhccc-cccccChhHhccccchhhcccccCccccc----c
Confidence            55 6778999999999999999887654 5778899999999998 67889877788999999999998876532    2


Q ss_pred             HHHHcCCccCceEEEEEcChHHHHHHhhhhhhhhcceeeeeccccCCCcccccchhhcCCCceEEEcCCcccccceeccc
Q 048126          633 VEELMGMKHLMALTITLKSWEALQELLISQELQRCTQSLFLRCFNDSKSLDIFCLACLHNLNKLYVAGRKHLEDFQMTVQ  712 (863)
Q Consensus       633 ~~~l~~L~~L~~L~l~~~~~~~~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~l~~~~~  712 (863)
                      ...+.++++|+.+.+..+..                           .......+..+++|++|++++|.. ..+++.++
T Consensus       170 ~~~f~~l~~L~~l~l~~N~l---------------------------~~i~~~~f~~l~~L~~L~l~~N~i-~~~~~~~~  221 (284)
T d1ozna_         170 ERAFRGLHSLDRLLLHQNRV---------------------------AHVHPHAFRDLGRLMTLYLFANNL-SALPTEAL  221 (284)
T ss_dssp             TTTTTTCTTCCEEECCSSCC---------------------------CEECTTTTTTCTTCCEEECCSSCC-SCCCHHHH
T ss_pred             hhhhccccccchhhhhhccc---------------------------cccChhHhhhhhhccccccccccc-cccccccc
Confidence            23455666676666654322                           122223466778999999988754 33444444


Q ss_pred             cccccccccccCcccEEEEeccC
Q 048126          713 RSSVNQLARGFHSLHTVKVGFCF  735 (863)
Q Consensus       713 ~~~~~~~~~~l~~L~~L~L~~c~  735 (863)
                              ..+++|++|+|++++
T Consensus       222 --------~~~~~L~~L~l~~N~  236 (284)
T d1ozna_         222 --------APLRALQYLRLNDNP  236 (284)
T ss_dssp             --------TTCTTCCEEECCSSC
T ss_pred             --------ccccccCEEEecCCC
Confidence                    247889999998853

>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=99.41  E-value=1.3e-12  Score=127.79  Aligned_cols=159  Identities=25%  Similarity=0.373  Sum_probs=134.0

Q ss_pred             EEEcCCCcccCcccccccceEEEEeccccccccccCCCCCccceEEccCCccccccchhhhcCCCccEEEccCCCccccC
Q 048126          477 LVHAGLGLTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKL  556 (863)
Q Consensus       477 ~~~~~~~~~~~~~~~~~~~lr~L~l~~~~~~~l~~~~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~l  556 (863)
                      +...+......+.+..+++++.|++++|.+..++....+++|++|++++|.++.++.  +..+++|++|++++|. ...+
T Consensus        51 L~l~~~~i~~l~~l~~l~~L~~L~L~~n~i~~l~~~~~l~~L~~L~l~~n~i~~l~~--l~~l~~L~~L~l~~~~-~~~~  127 (210)
T d1h6ta2          51 IIANNSDIKSVQGIQYLPNVTKLFLNGNKLTDIKPLANLKNLGWLFLDENKVKDLSS--LKDLKKLKSLSLEHNG-ISDI  127 (210)
T ss_dssp             EECTTSCCCCCTTGGGCTTCCEEECCSSCCCCCGGGTTCTTCCEEECCSSCCCCGGG--GTTCTTCCEEECTTSC-CCCC
T ss_pred             EECcCCCCCCchhHhhCCCCCEEeCCCccccCccccccCcccccccccccccccccc--cccccccccccccccc-cccc
Confidence            444455555666778889999999999999999888999999999999999998874  7899999999999994 4444


Q ss_pred             CccccccCCCCeEEccCCCccccchhhhcCCCCCEEecCCccccCCCcHHHhhcCCCCcEEEeeccccccCchhhHHHHH
Q 048126          557 PSGISTLVSLEHLDLSGTAITHLPIELQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRILKSNVLFGGHQFLVEEL  636 (863)
Q Consensus       557 p~~i~~l~~L~~L~L~~~~l~~lp~~~~~l~~L~~L~l~~~~~l~~lp~~~~~~L~~L~~L~l~~~~~~~~~~~~~~~~l  636 (863)
                      + .+..+++|+++++++|.++.++ .+.++++|+++++++| .+..++.  ++++++|++|++.+|.+..      +..+
T Consensus       128 ~-~l~~l~~l~~l~~~~n~l~~~~-~~~~l~~L~~l~l~~n-~l~~i~~--l~~l~~L~~L~Ls~N~i~~------l~~l  196 (210)
T d1h6ta2         128 N-GLVHLPQLESLYLGNNKITDIT-VLSRLTKLDTLSLEDN-QISDIVP--LAGLTKLQNLYLSKNHISD------LRAL  196 (210)
T ss_dssp             G-GGGGCTTCCEEECCSSCCCCCG-GGGGCTTCSEEECCSS-CCCCCGG--GTTCTTCCEEECCSSCCCB------CGGG
T ss_pred             c-cccccccccccccccccccccc-cccccccccccccccc-ccccccc--ccCCCCCCEEECCCCCCCC------Chhh
Confidence            4 6889999999999999998765 5788999999999999 6678875  7899999999999987642      2358


Q ss_pred             cCCccCceEEEEE
Q 048126          637 MGMKHLMALTITL  649 (863)
Q Consensus       637 ~~L~~L~~L~l~~  649 (863)
                      .++++|+.|+++.
T Consensus       197 ~~l~~L~~L~Ls~  209 (210)
T d1h6ta2         197 AGLKNLDVLELFS  209 (210)
T ss_dssp             TTCTTCSEEEEEE
T ss_pred             cCCCCCCEEEccC
Confidence            8899999999874

>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=99.40  E-value=1.3e-12  Score=126.60  Aligned_cols=156  Identities=19%  Similarity=0.356  Sum_probs=130.2

Q ss_pred             EEEEcCCCcccCcccccccceEEEEeccccccccccCCCCCccceEEccCCccccccchhhhcCCCccEEEccCCCcccc
Q 048126          476 FLVHAGLGLTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWK  555 (863)
Q Consensus       476 ~~~~~~~~~~~~~~~~~~~~lr~L~l~~~~~~~l~~~~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~  555 (863)
                      .+...+......+.+..+++++.|++++|.+..++.+..+++|+.|++++|.+..++.  +.++++|++|+++++... .
T Consensus        44 ~L~l~~~~i~~l~~l~~l~nL~~L~Ls~N~l~~~~~l~~l~~L~~L~l~~n~~~~~~~--l~~l~~L~~L~l~~~~~~-~  120 (199)
T d2omxa2          44 TLQADRLGIKSIDGVEYLNNLTQINFSNNQLTDITPLKNLTKLVDILMNNNQIADITP--LANLTNLTGLTLFNNQIT-D  120 (199)
T ss_dssp             EEECTTSCCCCCTTGGGCTTCCEEECCSSCCCCCGGGTTCTTCCEEECCSSCCCCCGG--GTTCTTCSEEECCSSCCC-C
T ss_pred             EEECCCCCCCCccccccCCCcCcCccccccccCcccccCCcccccccccccccccccc--cccccccccccccccccc-c
Confidence            3444555566666788889999999999999998888999999999999998888764  789999999999999543 3


Q ss_pred             CCccccccCCCCeEEccCCCccccchhhhcCCCCCEEecCCccccCCCcHHHhhcCCCCcEEEeeccccccCchhhHHHH
Q 048126          556 LPSGISTLVSLEHLDLSGTAITHLPIELQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRILKSNVLFGGHQFLVEE  635 (863)
Q Consensus       556 lp~~i~~l~~L~~L~L~~~~l~~lp~~~~~l~~L~~L~l~~~~~l~~lp~~~~~~L~~L~~L~l~~~~~~~~~~~~~~~~  635 (863)
                      . ..+..+++|++|++++|.+..+| .+..+++|+.|++.+| .++.++.  ++++++|++|++.+|.+..      +..
T Consensus       121 ~-~~~~~l~~L~~L~l~~n~l~~~~-~l~~~~~L~~L~l~~n-~l~~l~~--l~~l~~L~~L~ls~N~i~~------i~~  189 (199)
T d2omxa2         121 I-DPLKNLTNLNRLELSSNTISDIS-ALSGLTSLQQLNFSSN-QVTDLKP--LANLTTLERLDISSNKVSD------ISV  189 (199)
T ss_dssp             C-GGGTTCTTCSEEECCSSCCCCCG-GGTTCTTCSEEECCSS-CCCCCGG--GTTCTTCCEEECCSSCCCC------CGG
T ss_pred             c-cccchhhhhHHhhhhhhhhcccc-cccccccccccccccc-cccCCcc--ccCCCCCCEEECCCCCCCC------Ccc
Confidence            3 35889999999999999998876 5889999999999998 6788875  8899999999999997642      224


Q ss_pred             HcCCccCceE
Q 048126          636 LMGMKHLMAL  645 (863)
Q Consensus       636 l~~L~~L~~L  645 (863)
                      +.++++|+.|
T Consensus       190 l~~L~~L~~L  199 (199)
T d2omxa2         190 LAKLTNLESL  199 (199)
T ss_dssp             GGGCTTCSEE
T ss_pred             ccCCCCCCcC
Confidence            6777887765

>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=99.37  E-value=4.1e-12  Score=135.12  Aligned_cols=289  Identities=19%  Similarity=0.210  Sum_probs=170.9

Q ss_pred             EEEcCCCcccCcccccccceEEEEeccccccccccCCCCCccceEEccCCccccccchhhhcCCCccEEEccCCCccccC
Q 048126          477 LVHAGLGLTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKL  556 (863)
Q Consensus       477 ~~~~~~~~~~~~~~~~~~~lr~L~l~~~~~~~l~~~~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~l  556 (863)
                      +...+.+++..|..  .++++.|++++|.+..+|..  ..+|+.|++++|.++.++.  +  .+.|++|++++| .+..+
T Consensus        43 LdLs~~~L~~lp~~--~~~L~~L~Ls~N~l~~lp~~--~~~L~~L~l~~n~l~~l~~--l--p~~L~~L~L~~n-~l~~l  113 (353)
T d1jl5a_          43 LELNNLGLSSLPEL--PPHLESLVASCNSLTELPEL--PQSLKSLLVDNNNLKALSD--L--PPLLEYLGVSNN-QLEKL  113 (353)
T ss_dssp             EECTTSCCSCCCSC--CTTCSEEECCSSCCSSCCCC--CTTCCEEECCSSCCSCCCS--C--CTTCCEEECCSS-CCSSC
T ss_pred             EEeCCCCCCCCCCC--CCCCCEEECCCCCCcccccc--hhhhhhhhhhhcccchhhh--h--cccccccccccc-ccccc
Confidence            34444455555543  46899999999999988754  5789999999998887753  1  246999999999 56678


Q ss_pred             CccccccCCCCeEEccCCCccccchhhhcCCCCCEEecCCccccCCCcHHHhhcCCCCcEEEeeccccccCc--------
Q 048126          557 PSGISTLVSLEHLDLSGTAITHLPIELQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRILKSNVLFGG--------  628 (863)
Q Consensus       557 p~~i~~l~~L~~L~L~~~~l~~lp~~~~~l~~L~~L~l~~~~~l~~lp~~~~~~L~~L~~L~l~~~~~~~~~--------  628 (863)
                      |. ++.+.+|++|+++++.+...|..+   ..+..+.+.++.. .....  ++.++.++.|.+..+......        
T Consensus       114 p~-~~~l~~L~~L~l~~~~~~~~~~~~---~~l~~l~~~~~~~-~~~~~--l~~l~~l~~L~l~~n~~~~~~~~~~~~~~  186 (353)
T d1jl5a_         114 PE-LQNSSFLKIIDVDNNSLKKLPDLP---PSLEFIAAGNNQL-EELPE--LQNLPFLTAIYADNNSLKKLPDLPLSLES  186 (353)
T ss_dssp             CC-CTTCTTCCEEECCSSCCSCCCCCC---TTCCEEECCSSCC-SSCCC--CTTCTTCCEEECCSSCCSSCCCCCTTCCE
T ss_pred             cc-hhhhccceeecccccccccccccc---ccccchhhccccc-ccccc--ccccccceecccccccccccccccccccc
Confidence            85 688999999999999888776543   4555666655422 22222  566777777777655432210        


Q ss_pred             ------hhhHHHHHcCCccCceEEEEEcChHHHHHHhhhhhhhhcceeeeeccccCCCcccccchhhcCCCceEEEcCCc
Q 048126          629 ------HQFLVEELMGMKHLMALTITLKSWEALQELLISQELQRCTQSLFLRCFNDSKSLDIFCLACLHNLNKLYVAGRK  702 (863)
Q Consensus       629 ------~~~~~~~l~~L~~L~~L~l~~~~~~~~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~~~  702 (863)
                            ..........++.|+.+.+..+....+.      ....++..+.+..........     ..+.+..+.+..+.
T Consensus       187 l~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~------~~~~~l~~~~~~~~~~~~~~~-----~~~~l~~~~~~~~~  255 (353)
T d1jl5a_         187 IVAGNNILEELPELQNLPFLTTIYADNNLLKTLP------DLPPSLEALNVRDNYLTDLPE-----LPQSLTFLDVSENI  255 (353)
T ss_dssp             EECCSSCCSSCCCCTTCTTCCEEECCSSCCSSCC------SCCTTCCEEECCSSCCSCCCC-----CCTTCCEEECCSSC
T ss_pred             cccccccccccccccccccccccccccccccccc------ccccccccccccccccccccc-----cccccccccccccc
Confidence                  0001122344566666666544332211      111233333333322111110     11233333322211


Q ss_pred             c--cccceeccccc-----cccccccccCcccEEEEeccCCCCCCchhhccCCCcEEEEeccccchhhccccccccccCC
Q 048126          703 H--LEDFQMTVQRS-----SVNQLARGFHSLHTVKVGFCFKLKDLTWLVFAPSLKSIVVLSCCNMEQIIKAEKLSQLHHH  775 (863)
Q Consensus       703 ~--~~~l~~~~~~~-----~~~~~~~~l~~L~~L~L~~c~~l~~l~~l~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~  775 (863)
                      .  +..++......     ........+++|++|+|++| .++.+|.  .+++|+.|++++| .++++            
T Consensus       256 ~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~L~~L~Ls~N-~l~~lp~--~~~~L~~L~L~~N-~L~~l------------  319 (353)
T d1jl5a_         256 FSGLSELPPNLYYLNASSNEIRSLCDLPPSLEELNVSNN-KLIELPA--LPPRLERLIASFN-HLAEV------------  319 (353)
T ss_dssp             CSEESCCCTTCCEEECCSSCCSEECCCCTTCCEEECCSS-CCSCCCC--CCTTCCEEECCSS-CCSCC------------
T ss_pred             ccccccccchhcccccccCccccccccCCCCCEEECCCC-ccCcccc--ccCCCCEEECCCC-cCCcc------------
Confidence            1  11000000000     00001134689999999998 6777773  4799999999886 46655            


Q ss_pred             CCCCCCcCCccceeccCCCccccccccCCCCCCCcceEeec
Q 048126          776 PERKKSVFAKLQFLSLENLRNLCCINWEALAFPNLKEIRVE  816 (863)
Q Consensus       776 ~~~~~~~~p~L~~L~l~~~~~L~~i~~~~~~~p~L~~L~i~  816 (863)
                       +   ..+++|++|++++++ ++.++..   .++|+.|.+.
T Consensus       320 -~---~~~~~L~~L~L~~N~-L~~lp~~---~~~L~~L~~~  352 (353)
T d1jl5a_         320 -P---ELPQNLKQLHVEYNP-LREFPDI---PESVEDLRMN  352 (353)
T ss_dssp             -C---CCCTTCCEEECCSSC-CSSCCCC---CTTCCEEECC
T ss_pred             -c---cccCCCCEEECcCCc-CCCCCcc---ccccCeeECc
Confidence             1   135689999999986 8888752   3578888774

>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=99.36  E-value=8.7e-13  Score=134.36  Aligned_cols=187  Identities=24%  Similarity=0.199  Sum_probs=142.4

Q ss_pred             EcCCCcccCcccccccceEEEEecccccccccc--CCCCCccceEEccCCccccccchhhhcCCCccEEEccCCCccccC
Q 048126          479 HAGLGLTEAPEIQNWRNVRRMSLMKNKIENLSE--TPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKL  556 (863)
Q Consensus       479 ~~~~~~~~~~~~~~~~~lr~L~l~~~~~~~l~~--~~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~l  556 (863)
                      +.+.+++.+|... .++++.|++++|.+..++.  +..+++|+.|+|++|.++.++.  +..+++|++|+|++| .+...
T Consensus        17 C~~~~L~~iP~~l-p~~l~~L~Ls~N~i~~l~~~~f~~l~~L~~L~L~~N~l~~l~~--~~~l~~L~~L~Ls~N-~l~~~   92 (266)
T d1p9ag_          17 CDKRNLTALPPDL-PKDTTILHLSENLLYTFSLATLMPYTRLTQLNLDRAELTKLQV--DGTLPVLGTLDLSHN-QLQSL   92 (266)
T ss_dssp             CTTSCCSSCCSCC-CTTCCEEECTTSCCSEEEGGGGTTCTTCCEEECTTSCCCEEEC--CSCCTTCCEEECCSS-CCSSC
T ss_pred             ccCCCCCeeCcCc-CcCCCEEECcCCcCCCcCHHHhhcccccccccccccccccccc--ccccccccccccccc-ccccc
Confidence            3444555555311 1478999999999887753  5788999999999999888765  578999999999999 45567


Q ss_pred             CccccccCCCCeEEccCCCccccch-hhhcCCCCCEEecCCccccCCCcHHHhhcCCCCcEEEeeccccccCchhhHHHH
Q 048126          557 PSGISTLVSLEHLDLSGTAITHLPI-ELQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRILKSNVLFGGHQFLVEE  635 (863)
Q Consensus       557 p~~i~~l~~L~~L~L~~~~l~~lp~-~~~~l~~L~~L~l~~~~~l~~lp~~~~~~L~~L~~L~l~~~~~~~~~~~~~~~~  635 (863)
                      |..+..+++|++|+++++.+..++. .+..+.+|++|++++| .+..+|...+..+++|+.|++.+|.+...    ....
T Consensus        93 ~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~l~~L~l~~n-~l~~l~~~~~~~l~~l~~l~l~~N~l~~~----~~~~  167 (266)
T d1p9ag_          93 PLLGQTLPALTVLDVSFNRLTSLPLGALRGLGELQELYLKGN-ELKTLPPGLLTPTPKLEKLSLANNNLTEL----PAGL  167 (266)
T ss_dssp             CCCTTTCTTCCEEECCSSCCCCCCSSTTTTCTTCCEEECTTS-CCCCCCTTTTTTCTTCCEEECTTSCCSCC----CTTT
T ss_pred             ccccccccccccccccccccceeecccccccccccccccccc-ccceeccccccccccchhccccccccccc----Cccc
Confidence            7788899999999999998887654 4678889999999988 66788877678899999999998877532    3344


Q ss_pred             HcCCccCceEEEEEcChHHHHHHhhhhhhhhcceeeeecccc
Q 048126          636 LMGMKHLMALTITLKSWEALQELLISQELQRCTQSLFLRCFN  677 (863)
Q Consensus       636 l~~L~~L~~L~l~~~~~~~~~~l~~~~~~~~~L~~L~l~~~~  677 (863)
                      +..+++|+.|+++.+....++.   .....++|+.|.|.+.+
T Consensus       168 ~~~l~~L~~L~Ls~N~L~~lp~---~~~~~~~L~~L~L~~Np  206 (266)
T d1p9ag_         168 LNGLENLDTLLLQENSLYTIPK---GFFGSHLLPFAFLHGNP  206 (266)
T ss_dssp             TTTCTTCCEEECCSSCCCCCCT---TTTTTCCCSEEECCSCC
T ss_pred             cccccccceeecccCCCcccCh---hHCCCCCCCEEEecCCC
Confidence            6788899999998887765543   12223578888887643

>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=99.36  E-value=1.6e-12  Score=114.72  Aligned_cols=98  Identities=23%  Similarity=0.265  Sum_probs=54.4

Q ss_pred             EEEEeccccccccccCCCCCccceEEccCCccccccchhhhcCCCccEEEccCCCccccCCccccccCCCCeEEccCCCc
Q 048126          497 RRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAI  576 (863)
Q Consensus       497 r~L~l~~~~~~~l~~~~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~~~l  576 (863)
                      |.|++++|.+..++.+..+++|+.|++++|.++.+|+. ++.+++|++|++++| .+..+| .++.+++|++|++++|+|
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   77 (124)
T d1dcea3           1 RVLHLAHKDLTVLCHLEQLLLVTHLDLSHNRLRALPPA-LAALRCLEVLQASDN-ALENVD-GVANLPRLQELLLCNNRL   77 (124)
T ss_dssp             SEEECTTSCCSSCCCGGGGTTCCEEECCSSCCCCCCGG-GGGCTTCCEEECCSS-CCCCCG-GGTTCSSCCEEECCSSCC
T ss_pred             CEEEcCCCCCCCCcccccCCCCCEEECCCCccCcchhh-hhhhhcccccccccc-cccccC-ccccccccCeEECCCCcc
Confidence            34555556555555555555666666666655555543 455566666666665 333444 355556666666666655


Q ss_pred             cccch--hhhcCCCCCEEecCCc
Q 048126          577 THLPI--ELQKLVNLKCLNLEYM  597 (863)
Q Consensus       577 ~~lp~--~~~~l~~L~~L~l~~~  597 (863)
                      +.+|.  .+..+++|++|++++|
T Consensus        78 ~~~~~~~~l~~~~~L~~L~l~~N  100 (124)
T d1dcea3          78 QQSAAIQPLVSCPRLVLLNLQGN  100 (124)
T ss_dssp             CSSSTTGGGGGCTTCCEEECTTS
T ss_pred             CCCCCchhhcCCCCCCEEECCCC
Confidence            55442  3555555666665554

>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=99.33  E-value=1.9e-12  Score=120.17  Aligned_cols=110  Identities=21%  Similarity=0.210  Sum_probs=54.4

Q ss_pred             cCCCCCccceEEccCCccccccchhhhcCCCccEEEccCCCccccCCccccccCCCCeEEccCCCccccchh-hhcCCCC
Q 048126          511 ETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAITHLPIE-LQKLVNL  589 (863)
Q Consensus       511 ~~~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~~~l~~lp~~-~~~l~~L  589 (863)
                      .+.++.+||.|+|++|.++.++. .+..+++|++|+|++| .+..++ .+..+++|++|++++|.++.+|.. +..+++|
T Consensus        13 ~~~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_          13 QYTNAVRDRELDLRGYKIPVIEN-LGATLDQFDAIDFSDN-EIRKLD-GFPLLRRLKTLLVNNNRICRIGEGLDQALPDL   89 (162)
T ss_dssp             EEECTTSCEEEECTTSCCCSCCC-GGGGTTCCSEEECCSS-CCCEEC-CCCCCSSCCEEECCSSCCCEECSCHHHHCTTC
T ss_pred             hccCcCcCcEEECCCCCCCccCc-cccccccCCEEECCCC-CCCccC-CcccCcchhhhhcccccccCCCcccccccccc
Confidence            33444455555555555555532 2344555555555555 233332 345555555555555555555443 2345555


Q ss_pred             CEEecCCccccCCCcH-HHhhcCCCCcEEEeecccc
Q 048126          590 KCLNLEYMYNLNQFPR-LVMSAFSKLQVLRILKSNV  624 (863)
Q Consensus       590 ~~L~l~~~~~l~~lp~-~~~~~L~~L~~L~l~~~~~  624 (863)
                      ++|++++| .+..++. ..+..+++|++|++.+|.+
T Consensus        90 ~~L~L~~N-~i~~~~~l~~l~~l~~L~~L~l~~N~i  124 (162)
T d1a9na_          90 TELILTNN-SLVELGDLDPLASLKSLTYLCILRNPV  124 (162)
T ss_dssp             CEEECCSC-CCCCGGGGGGGGGCTTCCEEECCSSGG
T ss_pred             ccceeccc-cccccccccccccccccchhhcCCCcc
Confidence            55555555 3344432 1244555555555555544

>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=99.32  E-value=3.2e-12  Score=112.64  Aligned_cols=103  Identities=21%  Similarity=0.281  Sum_probs=90.7

Q ss_pred             ceEEccCCccccccchhhhcCCCccEEEccCCCccccCCccccccCCCCeEEccCCCccccchhhhcCCCCCEEecCCcc
Q 048126          519 LSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAITHLPIELQKLVNLKCLNLEYMY  598 (863)
Q Consensus       519 ~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~~~l~~lp~~~~~l~~L~~L~l~~~~  598 (863)
                      |+|++++|.++.++.  +.++++|++|++++| .+..+|..++.+++|++|++++|.|+.+| .++++++|++|++++| 
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-   75 (124)
T d1dcea3           1 RVLHLAHKDLTVLCH--LEQLLLVTHLDLSHN-RLRALPPALAALRCLEVLQASDNALENVD-GVANLPRLQELLLCNN-   75 (124)
T ss_dssp             SEEECTTSCCSSCCC--GGGGTTCCEEECCSS-CCCCCCGGGGGCTTCCEEECCSSCCCCCG-GGTTCSSCCEEECCSS-
T ss_pred             CEEEcCCCCCCCCcc--cccCCCCCEEECCCC-ccCcchhhhhhhhcccccccccccccccC-ccccccccCeEECCCC-
Confidence            689999999998874  789999999999999 56689989999999999999999999997 5999999999999998 


Q ss_pred             ccCCCcH-HHhhcCCCCcEEEeecccccc
Q 048126          599 NLNQFPR-LVMSAFSKLQVLRILKSNVLF  626 (863)
Q Consensus       599 ~l~~lp~-~~~~~L~~L~~L~l~~~~~~~  626 (863)
                      .+..+|. ..++.+++|++|++.+|.+..
T Consensus        76 ~i~~~~~~~~l~~~~~L~~L~l~~N~i~~  104 (124)
T d1dcea3          76 RLQQSAAIQPLVSCPRLVLLNLQGNSLCQ  104 (124)
T ss_dssp             CCCSSSTTGGGGGCTTCCEEECTTSGGGG
T ss_pred             ccCCCCCchhhcCCCCCCEEECCCCcCCc
Confidence            6677764 347889999999999987754

>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=99.32  E-value=1.7e-12  Score=120.50  Aligned_cols=129  Identities=21%  Similarity=0.293  Sum_probs=107.0

Q ss_pred             cccccccceEEEEeccccccccccC-CCCCccceEEccCCccccccchhhhcCCCccEEEccCCCccccCCcc-ccccCC
Q 048126          488 PEIQNWRNVRRMSLMKNKIENLSET-PTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSG-ISTLVS  565 (863)
Q Consensus       488 ~~~~~~~~lr~L~l~~~~~~~l~~~-~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~-i~~l~~  565 (863)
                      +.+.++.++|.|++++|.+..++.. ..+++|++|++++|.++.++.  |..+++|++|++++|. +..+|.. +..+++
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~~   88 (162)
T d1a9na_          12 AQYTNAVRDRELDLRGYKIPVIENLGATLDQFDAIDFSDNEIRKLDG--FPLLRRLKTLLVNNNR-ICRIGEGLDQALPD   88 (162)
T ss_dssp             CEEECTTSCEEEECTTSCCCSCCCGGGGTTCCSEEECCSSCCCEECC--CCCCSSCCEEECCSSC-CCEECSCHHHHCTT
T ss_pred             HhccCcCcCcEEECCCCCCCccCccccccccCCEEECCCCCCCccCC--cccCcchhhhhccccc-ccCCCccccccccc
Confidence            4455667899999999999988765 678999999999999998853  7899999999999995 4455544 568999


Q ss_pred             CCeEEccCCCccccch--hhhcCCCCCEEecCCccccCCCcH---HHhhcCCCCcEEEee
Q 048126          566 LEHLDLSGTAITHLPI--ELQKLVNLKCLNLEYMYNLNQFPR---LVMSAFSKLQVLRIL  620 (863)
Q Consensus       566 L~~L~L~~~~l~~lp~--~~~~l~~L~~L~l~~~~~l~~lp~---~~~~~L~~L~~L~l~  620 (863)
                      |++|++++|.|+.++.  .+..+++|++|++++| .+...|.   .++..+++|+.|+..
T Consensus        89 L~~L~L~~N~i~~~~~l~~l~~l~~L~~L~l~~N-~i~~~~~~r~~~i~~lp~L~~LD~~  147 (162)
T d1a9na_          89 LTELILTNNSLVELGDLDPLASLKSLTYLCILRN-PVTNKKHYRLYVIYKVPQVRVLDFQ  147 (162)
T ss_dssp             CCEEECCSCCCCCGGGGGGGGGCTTCCEEECCSS-GGGGSTTHHHHHHHHCTTCSEETTE
T ss_pred             cccceeccccccccccccccccccccchhhcCCC-ccccccchHHHHHHHCCCcCeeCCC
Confidence            9999999999998874  5889999999999999 4566663   357888999988743

>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=99.29  E-value=6.4e-12  Score=125.93  Aligned_cols=81  Identities=20%  Similarity=0.246  Sum_probs=37.8

Q ss_pred             ccceEEccCCccccccchhhhcCCCccEEEccCCCccccC-CccccccCCCCeEEccC-CCccccc-hhhhcCCCCCEEe
Q 048126          517 HLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKL-PSGISTLVSLEHLDLSG-TAITHLP-IELQKLVNLKCLN  593 (863)
Q Consensus       517 ~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~l-p~~i~~l~~L~~L~L~~-~~l~~lp-~~~~~l~~L~~L~  593 (863)
                      ++++|++++|.++.+++..|.++++|++|++++|.....+ +..+.+++++++|.+.. +.+..++ ..+.++++|++|+
T Consensus        30 ~l~~L~Ls~n~i~~l~~~~f~~l~~L~~L~ls~n~~~~~i~~~~f~~l~~l~~l~~~~~n~l~~~~~~~~~~l~~L~~l~  109 (242)
T d1xwdc1          30 NAIELRFVLTKLRVIQKGAFSGFGDLEKIEISQNDVLEVIEADVFSNLPKLHEIRIEKANNLLYINPEAFQNLPNLQYLL  109 (242)
T ss_dssp             CCSEEEEESCCCCEECTTTTTTCTTCCEEEEESCTTCCEECSSSEESCTTCCEEEEECCTTCCEECTTSEECCTTCCEEE
T ss_pred             CCCEEECcCCcCCccChhHhhccchhhhhhhccccccceeeccccccccccccccccccccccccccccccccccccccc
Confidence            4555555555555555544555555555555555333222 22344455555554433 2333332 2244445555555


Q ss_pred             cCCc
Q 048126          594 LEYM  597 (863)
Q Consensus       594 l~~~  597 (863)
                      +++|
T Consensus       110 l~~~  113 (242)
T d1xwdc1         110 ISNT  113 (242)
T ss_dssp             EESC
T ss_pred             cchh
Confidence            5444

>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=99.23  E-value=7.5e-12  Score=125.41  Aligned_cols=87  Identities=26%  Similarity=0.418  Sum_probs=52.0

Q ss_pred             cceEEEEecccccccccc--CCCCCccceEEccCCcccc-ccchhhhcCCCccEEEccCC-CccccCCccccccCCCCeE
Q 048126          494 RNVRRMSLMKNKIENLSE--TPTCPHLLSLFLSDNSLKM-IAGDFFQFMPSLRVFNMSNN-HLLWKLPSGISTLVSLEHL  569 (863)
Q Consensus       494 ~~lr~L~l~~~~~~~l~~--~~~~~~L~~L~l~~~~l~~-~~~~~~~~l~~L~~L~L~~~-~~~~~lp~~i~~l~~L~~L  569 (863)
                      ++++.|++++|.+..++.  +.++++|++|++++|.+.. ++...|.+++.+++|.+..+ ......|..+.++++|++|
T Consensus        29 ~~l~~L~Ls~n~i~~l~~~~f~~l~~L~~L~ls~n~~~~~i~~~~f~~l~~l~~l~~~~~n~l~~~~~~~~~~l~~L~~l  108 (242)
T d1xwdc1          29 RNAIELRFVLTKLRVIQKGAFSGFGDLEKIEISQNDVLEVIEADVFSNLPKLHEIRIEKANNLLYINPEAFQNLPNLQYL  108 (242)
T ss_dssp             SCCSEEEEESCCCCEECTTTTTTCTTCCEEEEESCTTCCEECSSSEESCTTCCEEEEECCTTCCEECTTSEECCTTCCEE
T ss_pred             CCCCEEECcCCcCCccChhHhhccchhhhhhhccccccceeecccccccccccccccccccccccccccccccccccccc
Confidence            356667777666666543  3566677777777665443 44445666666666665543 2333344556666777777


Q ss_pred             EccCCCccccc
Q 048126          570 DLSGTAITHLP  580 (863)
Q Consensus       570 ~L~~~~l~~lp  580 (863)
                      +++++.+...|
T Consensus       109 ~l~~~~l~~~~  119 (242)
T d1xwdc1         109 LISNTGIKHLP  119 (242)
T ss_dssp             EEESCCCCSCC
T ss_pred             ccchhhhcccc
Confidence            77776666544

>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=99.22  E-value=1.5e-11  Score=118.11  Aligned_cols=128  Identities=18%  Similarity=0.226  Sum_probs=107.7

Q ss_pred             EEEEeccccccccccCCCCCccceEEccCCcccc-ccchhhhcCCCccEEEccCCCccccCCccccccCCCCeEEccCCC
Q 048126          497 RRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKM-IAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGTA  575 (863)
Q Consensus       497 r~L~l~~~~~~~l~~~~~~~~L~~L~l~~~~l~~-~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~~~  575 (863)
                      +.++.+++.+..+|.. -.+++++|+|++|.++. ++...|.++++|++|+|++|.+....+..+..+++|++|+|++|+
T Consensus        11 ~~v~Cs~~~L~~iP~~-lp~~l~~L~Ls~N~i~~~~~~~~f~~l~~L~~L~L~~N~i~~~~~~~~~~~~~L~~L~Ls~N~   89 (192)
T d1w8aa_          11 TTVDCTGRGLKEIPRD-IPLHTTELLLNDNELGRISSDGLFGRLPHLVKLELKRNQLTGIEPNAFEGASHIQELQLGENK   89 (192)
T ss_dssp             TEEECTTSCCSSCCSC-CCTTCSEEECCSCCCCSBCCSCSGGGCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSCC
T ss_pred             CEEEEeCCCcCccCCC-CCCCCCEEEeCCCCCcccccccccCCCceEeeeeccccccccccccccccccccceeeecccc
Confidence            3567777777777653 23689999999999975 667778999999999999997776778889999999999999999


Q ss_pred             ccccchh-hhcCCCCCEEecCCccccCCCcHHHhhcCCCCcEEEeecccccc
Q 048126          576 ITHLPIE-LQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQVLRILKSNVLF  626 (863)
Q Consensus       576 l~~lp~~-~~~l~~L~~L~l~~~~~l~~lp~~~~~~L~~L~~L~l~~~~~~~  626 (863)
                      |+.+|.. |.++++|++|+|++| .++.+|.+.+..+++|++|++.++....
T Consensus        90 l~~l~~~~F~~l~~L~~L~L~~N-~l~~i~~~~f~~l~~L~~l~L~~N~~~~  140 (192)
T d1w8aa_          90 IKEISNKMFLGLHQLKTLNLYDN-QISCVMPGSFEHLNSLTSLNLASNPFNC  140 (192)
T ss_dssp             CCEECSSSSTTCTTCCEEECCSS-CCCEECTTSSTTCTTCCEEECTTCCBCC
T ss_pred             ccccCHHHHhCCCcccccccCCc-cccccCHHHhcCCccccccccccccccc
Confidence            9998764 889999999999998 7788888778899999999998887653

>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=99.14  E-value=1.5e-10  Score=118.54  Aligned_cols=196  Identities=17%  Similarity=0.215  Sum_probs=114.4

Q ss_pred             CCccchhHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCC-----ccCHHHHHHHHH
Q 048126          126 EPTVGLESMFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSK-----DLQLEKIQEKIG  200 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~-----~~~~~~~~~~i~  200 (863)
                      +.||||+++++++.+.    ..++|.|+|++|+|||+|++++.++.   ...   ..|+.+..     ......+...+.
T Consensus        12 ~~f~GR~~el~~l~~~----~~~~i~i~G~~G~GKTsLl~~~~~~~---~~~---~~~i~~~~~~~~~~~~~~~~~~~~~   81 (283)
T d2fnaa2          12 KDFFDREKEIEKLKGL----RAPITLVLGLRRTGKSSIIKIGINEL---NLP---YIYLDLRKFEERNYISYKDFLLELQ   81 (283)
T ss_dssp             GGSCCCHHHHHHHHHT----CSSEEEEEESTTSSHHHHHHHHHHHH---TCC---EEEEEGGGGTTCSCCCHHHHHHHHH
T ss_pred             hhCCChHHHHHHHHhc----cCCEEEEEcCCCCcHHHHHHHHHHHC---CCC---eEEEEeccccccccccHHHHHHHHH
Confidence            6799999999998774    34689999999999999999999887   222   34555432     122333333333


Q ss_pred             HHhC--------------CCC-------------ccccCCChhHHHHHHHHHhccCcEEEEEeccCCccccc------cc
Q 048126          201 RRIG--------------FLD-------------ESWKNGSLEDKASDILRILSKKKFLLLLDDIWERVDLT------KV  247 (863)
Q Consensus       201 ~~l~--------------~~~-------------~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~~~------~~  247 (863)
                      ....              ...             .........+....+ ....+++.++|+|++.......      .+
T Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l-~~~~~~~~~i~id~~~~~~~~~~~~~~~~l  160 (283)
T d2fnaa2          82 KEINKLVKRLPSLLKALKNIQGIVIMGNEIKFNWNRKDRLSFANLLESF-EQASKDNVIIVLDEAQELVKLRGVNLLPAL  160 (283)
T ss_dssp             HHHHHHHHHCTTHHHHTTTSTTEEECSSSEEEC-----CCCHHHHHHHH-HHTCSSCEEEEEETGGGGGGCTTCCCHHHH
T ss_pred             HHhhhhhhhhHHHHHHHHhhhcccccccccccccchhhhhHHHHHHHHH-HhhcccccccccchhhhhcccchHHHHHHH
Confidence            2221              000             000111222222222 2345689999999985432111      11


Q ss_pred             cCCCCCCCCCcEEEEecCchhhhhcc------------cccceEeecCCChHHHHHHHHHHhcccccCCCCChHHHHHHH
Q 048126          248 GVPFPDPENKSKIVFTTRFLEICGAM------------KAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSV  315 (863)
Q Consensus       248 ~~~l~~~~~gs~IivTtR~~~v~~~~------------~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i  315 (863)
                      ... .........+++++........            .....+.|++++.+++.+++.+.+...... .++    ..+|
T Consensus       161 ~~~-~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~L~~l~~~e~~~~l~~~~~~~~~~-~~~----~~~i  234 (283)
T d2fnaa2         161 AYA-YDNLKRIKFIMSGSEMGLLYDYLRVEDPESPLFGRAFSTVELKPFSREEAIEFLRRGFQEADID-FKD----YEVV  234 (283)
T ss_dssp             HHH-HHHCTTEEEEEEESSHHHHHHHTTTTCTTSTTTTCCCEEEEECCCCHHHHHHHHHHHHHHHTCC-CCC----HHHH
T ss_pred             HHH-HHhhhhhhhhhccccchHHHHHHHhhhhcchhcccceeEEeeCCCCHHHHHHHHHhhhhhcCCC-HHH----HHHH
Confidence            100 0112344555555544331111            012467899999999999998876543311 112    5789


Q ss_pred             HHHhCCchhHHHHHHHHhcCCCC
Q 048126          316 AKEYAGLPLALITIGRAMTCKKT  338 (863)
Q Consensus       316 ~~~c~glPlai~~~~~~l~~~~~  338 (863)
                      ++.++|+|.++..+|..+....+
T Consensus       235 ~~~~~G~P~~L~~~~~~~~~~~~  257 (283)
T d2fnaa2         235 YEKIGGIPGWLTYFGFIYLDNKN  257 (283)
T ss_dssp             HHHHCSCHHHHHHHHHHHHHHCC
T ss_pred             HHHhCCCHHHHHHHHHHHHhccc
Confidence            99999999999999877654333

>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=99.00  E-value=6.2e-10  Score=106.53  Aligned_cols=121  Identities=22%  Similarity=0.201  Sum_probs=99.5

Q ss_pred             EEcCCCcccCcccccccceEEEEeccccccc-c--ccCCCCCccceEEccCCccccccchhhhcCCCccEEEccCCCccc
Q 048126          478 VHAGLGLTEAPEIQNWRNVRRMSLMKNKIEN-L--SETPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLW  554 (863)
Q Consensus       478 ~~~~~~~~~~~~~~~~~~lr~L~l~~~~~~~-l--~~~~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~  554 (863)
                      ...+.+++.+|.-. .+++++|++++|.+.. +  ..+..+++|+.|++++|.+..+++..|..+++|++|+|++|++..
T Consensus        14 ~Cs~~~L~~iP~~l-p~~l~~L~Ls~N~i~~~~~~~~f~~l~~L~~L~L~~N~i~~~~~~~~~~~~~L~~L~Ls~N~l~~   92 (192)
T d1w8aa_          14 DCTGRGLKEIPRDI-PLHTTELLLNDNELGRISSDGLFGRLPHLVKLELKRNQLTGIEPNAFEGASHIQELQLGENKIKE   92 (192)
T ss_dssp             ECTTSCCSSCCSCC-CTTCSEEECCSCCCCSBCCSCSGGGCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSCCCCE
T ss_pred             EEeCCCcCccCCCC-CCCCCEEEeCCCCCcccccccccCCCceEeeeeccccccccccccccccccccceeeeccccccc
Confidence            33444555555321 2589999999999965 3  234789999999999999999999989999999999999996555


Q ss_pred             cCCccccccCCCCeEEccCCCccccchh-hhcCCCCCEEecCCccc
Q 048126          555 KLPSGISTLVSLEHLDLSGTAITHLPIE-LQKLVNLKCLNLEYMYN  599 (863)
Q Consensus       555 ~lp~~i~~l~~L~~L~L~~~~l~~lp~~-~~~l~~L~~L~l~~~~~  599 (863)
                      .-|..|.++++|++|+|++|.|+.+|.. +..+++|++|++++|+.
T Consensus        93 l~~~~F~~l~~L~~L~L~~N~l~~i~~~~f~~l~~L~~l~L~~N~~  138 (192)
T d1w8aa_          93 ISNKMFLGLHQLKTLNLYDNQISCVMPGSFEHLNSLTSLNLASNPF  138 (192)
T ss_dssp             ECSSSSTTCTTCCEEECCSSCCCEECTTSSTTCTTCCEEECTTCCB
T ss_pred             cCHHHHhCCCcccccccCCccccccCHHHhcCCccccccccccccc
Confidence            4566789999999999999999999765 78999999999999843

>d1m9la_ c.10.3.1 (A:) Outer arm dynein light chain 1 {Green algae (Chlamydomonas reinhardtii) [TaxId: 3055]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: Outer arm dynein light chain 1
family: Outer arm dynein light chain 1
domain: Outer arm dynein light chain 1
species: Green algae (Chlamydomonas reinhardtii) [TaxId: 3055]

Probab=98.96  E-value=9.3e-11  Score=112.63  Aligned_cols=109  Identities=16%  Similarity=0.196  Sum_probs=72.7

Q ss_pred             hhcCCCccEEEccCCCccccCCccccccCCCCeEEccCCCccccchhhhcCCCCCEEecCCccccCCCcHHHhhcCCCCc
Q 048126          536 FQFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAITHLPIELQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQ  615 (863)
Q Consensus       536 ~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~~~l~~lp~~~~~l~~L~~L~l~~~~~l~~lp~~~~~~L~~L~  615 (863)
                      ++.+++|++|+|++| .+..++ .+..|++|++|++++|.|+.+|.....+++|++|++++| .++.++.  +..+++|+
T Consensus        44 l~~L~~L~~L~Ls~n-~I~~i~-~l~~l~~L~~L~Ls~N~i~~i~~~~~~~~~L~~L~l~~N-~i~~l~~--~~~l~~L~  118 (198)
T d1m9la_          44 LSTLKACKHLALSTN-NIEKIS-SLSGMENLRILSLGRNLIKKIENLDAVADTLEELWISYN-QIASLSG--IEKLVNLR  118 (198)
T ss_dssp             HHHTTTCCEEECSEE-EESCCC-CHHHHTTCCEEECCEEEECSCSSHHHHHHHCCEEECSEE-ECCCHHH--HHHHHHSS
T ss_pred             HhcccccceeECccc-CCCCcc-cccCCccccChhhcccccccccccccccccccccccccc-ccccccc--cccccccc
Confidence            667777777777777 344554 467777777777777777777655555667777777776 5566653  66777777


Q ss_pred             EEEeeccccccCchhhHHHHHcCCccCceEEEEEcCh
Q 048126          616 VLRILKSNVLFGGHQFLVEELMGMKHLMALTITLKSW  652 (863)
Q Consensus       616 ~L~l~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~  652 (863)
                      +|++.+|.+..   ...+..+..+++|+.|+++.+..
T Consensus       119 ~L~L~~N~i~~---~~~~~~l~~l~~L~~L~L~~N~l  152 (198)
T d1m9la_         119 VLYMSNNKITN---WGEIDKLAALDKLEDLLLAGNPL  152 (198)
T ss_dssp             EEEESEEECCC---HHHHHHHTTTTTCSEEEECSSHH
T ss_pred             ccccccchhcc---ccccccccCCCccceeecCCCcc
Confidence            77777766542   12345567777777777776543

>d1m9la_ c.10.3.1 (A:) Outer arm dynein light chain 1 {Green algae (Chlamydomonas reinhardtii) [TaxId: 3055]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: Outer arm dynein light chain 1
family: Outer arm dynein light chain 1
domain: Outer arm dynein light chain 1
species: Green algae (Chlamydomonas reinhardtii) [TaxId: 3055]

Probab=98.95  E-value=2.8e-11  Score=116.33  Aligned_cols=109  Identities=26%  Similarity=0.318  Sum_probs=81.2

Q ss_pred             CCCCCccceEEccCCccccccchhhhcCCCccEEEccCCCccccCCccccccCCCCeEEccCCCccccchhhhcCCCCCE
Q 048126          512 TPTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAITHLPIELQKLVNLKC  591 (863)
Q Consensus       512 ~~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~~~l~~lp~~~~~l~~L~~  591 (863)
                      +..+++|+.|++++|.++.++.  +.++++|++|+|++| .+..+|.....+++|++|++++|.++.++ .+..+++|++
T Consensus        44 l~~L~~L~~L~Ls~n~I~~i~~--l~~l~~L~~L~Ls~N-~i~~i~~~~~~~~~L~~L~l~~N~i~~l~-~~~~l~~L~~  119 (198)
T d1m9la_          44 LSTLKACKHLALSTNNIEKISS--LSGMENLRILSLGRN-LIKKIENLDAVADTLEELWISYNQIASLS-GIEKLVNLRV  119 (198)
T ss_dssp             HHHTTTCCEEECSEEEESCCCC--HHHHTTCCEEECCEE-EECSCSSHHHHHHHCCEEECSEEECCCHH-HHHHHHHSSE
T ss_pred             HhcccccceeECcccCCCCccc--ccCCccccChhhccc-ccccccccccccccccccccccccccccc-cccccccccc
Confidence            4567788888888888777753  778888888888888 45567766666677888888888888775 4777888888


Q ss_pred             EecCCccccCCCcH-HHhhcCCCCcEEEeeccccc
Q 048126          592 LNLEYMYNLNQFPR-LVMSAFSKLQVLRILKSNVL  625 (863)
Q Consensus       592 L~l~~~~~l~~lp~-~~~~~L~~L~~L~l~~~~~~  625 (863)
                      |++++| .+..++. ..++.+++|++|++.+|.+.
T Consensus       120 L~L~~N-~i~~~~~~~~l~~l~~L~~L~L~~N~l~  153 (198)
T d1m9la_         120 LYMSNN-KITNWGEIDKLAALDKLEDLLLAGNPLY  153 (198)
T ss_dssp             EEESEE-ECCCHHHHHHHTTTTTCSEEEECSSHHH
T ss_pred             cccccc-hhccccccccccCCCccceeecCCCccc
Confidence            888887 5566653 23677888888888877653

>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=98.93  E-value=2.1e-10  Score=126.34  Aligned_cols=161  Identities=15%  Similarity=0.024  Sum_probs=85.2

Q ss_pred             hcceeeeeccccCCCcc---cccchhhcCCCceEEEcCCcccccceeccccccccccccccCcccEEEEeccCCCCCCc-
Q 048126          666 RCTQSLFLRCFNDSKSL---DIFCLACLHNLNKLYVAGRKHLEDFQMTVQRSSVNQLARGFHSLHTVKVGFCFKLKDLT-  741 (863)
Q Consensus       666 ~~L~~L~l~~~~~~~~~---~~~~l~~~~~L~~L~l~~~~~~~~l~~~~~~~~~~~~~~~l~~L~~L~L~~c~~l~~l~-  741 (863)
                      ..++.|+++++......   ....+...+.++.++++++.... .....+..   ........|+.+.+++|. +.... 
T Consensus       255 ~~l~~l~l~~n~i~~~~~~~~~~~l~~~~~l~~l~l~~n~i~~-~~~~~l~~---~l~~~~~~L~~l~l~~~~-l~~~~~  329 (460)
T d1z7xw1         255 SRLRTLWIWECGITAKGCGDLCRVLRAKESLKELSLAGNELGD-EGARLLCE---TLLEPGCQLESLWVKSCS-FTAACC  329 (460)
T ss_dssp             CCCCEEECTTSCCCHHHHHHHHHHHHHCTTCCEEECTTCCCHH-HHHHHHHH---HHTSTTCCCCEEECTTSC-CBGGGH
T ss_pred             ccccccccccccccccccccccccccccccccccccccccccc-cccchhhc---cccccccccccccccccc-hhhhhh
Confidence            45666666654321111   01234456777888777654321 11110000   001234679999999884 43321 


Q ss_pred             -h----hhccCCCcEEEEeccccchhhccccccccccCCCCCCCCcCCccceeccCCCcccccc-----ccCCCCCCCcc
Q 048126          742 -W----LVFAPSLKSIVVLSCCNMEQIIKAEKLSQLHHHPERKKSVFAKLQFLSLENLRNLCCI-----NWEALAFPNLK  811 (863)
Q Consensus       742 -~----l~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~~~p~L~~L~l~~~~~L~~i-----~~~~~~~p~L~  811 (863)
                       .    +...++|++|+|+++ .+.+.+......       ......+.|++|+|++| .+++.     ......+++|+
T Consensus       330 ~~l~~~~~~~~~L~~L~Ls~N-~i~~~g~~~l~~-------~l~~~~~~L~~L~Ls~n-~i~~~~~~~l~~~l~~~~~L~  400 (460)
T d1z7xw1         330 SHFSSVLAQNRFLLELQISNN-RLEDAGVRELCQ-------GLGQPGSVLRVLWLADC-DVSDSSCSSLAATLLANHSLR  400 (460)
T ss_dssp             HHHHHHHHHCSSCCEEECCSS-BCHHHHHHHHHH-------HHTSTTCCCCEEECTTS-CCCHHHHHHHHHHHHHCCCCC
T ss_pred             hhcccccccccchhhhheeee-cccCcccchhhh-------hhhcccCCCCEEECCCC-CCChHHHHHHHHHHhcCCCCC
Confidence             1    235678999999986 455431110000       01124567999999998 45542     21222468999


Q ss_pred             eEeecCCCCCCC-----CCCCC--CCCCCCceEEEcc
Q 048126          812 EIRVEGCPKLFK-----LPLDS--NSAKGCKVVIKGE  841 (863)
Q Consensus       812 ~L~i~~C~~L~~-----lp~~~--~~~~L~~l~i~~~  841 (863)
                      +|+++++ +++.     +...+  ....|+.+.+.++
T Consensus       401 ~L~Ls~N-~i~~~g~~~l~~~l~~~~~~L~~l~l~~~  436 (460)
T d1z7xw1         401 ELDLSNN-CLGDAGILQLVESVRQPGCLLEQLVLYDI  436 (460)
T ss_dssp             EEECCSS-SCCHHHHHHHHHHHTSTTCCCCEEECTTC
T ss_pred             EEECCCC-cCCHHHHHHHHHHHHhCCCccCEEECCCC
Confidence            9999886 5653     11111  1246777777643

>d1fnna2 c.37.1.20 (A:1-276) CDC6, N-domain {Archaeon Pyrobaculum aerophilum [TaxId: 13773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CDC6, N-domain
species: Archaeon Pyrobaculum aerophilum [TaxId: 13773]

Probab=98.80  E-value=2.4e-07  Score=93.51  Aligned_cols=170  Identities=13%  Similarity=0.139  Sum_probs=111.7

Q ss_pred             CCccchhHHHHHHHHHhcC------CCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHH
Q 048126          126 EPTVGLESMFDKVWRCLGE------EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKI  199 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i  199 (863)
                      ..++||+.++++|.++|..      ...+.+.|+|++|+||||+|+.+++.. ..... ...+|+..............+
T Consensus        16 ~~l~~Re~ei~~l~~~l~~~l~~~~~~~~~lll~GppGtGKT~l~~~l~~~l-~~~~~-~~~~~~~~~~~~~~~~~~~~~   93 (276)
T d1fnna2          16 KRLPHREQQLQQLDILLGNWLRNPGHHYPRATLLGRPGTGKTVTLRKLWELY-KDKTT-ARFVYINGFIYRNFTAIIGEI   93 (276)
T ss_dssp             SCCTTCHHHHHHHHHHHHHHHHSTTSSCCEEEEECCTTSSHHHHHHHHHHHH-TTSCC-CEEEEEETTTCCSHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHHHHHHhCCCCCCCceEEECCCCCCHHHHHHHHHHHH-hcccC-CcEEEecchhhhhhhhhhhhh
Confidence            4589999999999999853      245789999999999999999999988 22222 245677777888888888889


Q ss_pred             HHHhCCCCccccCCChhHHHHHHHHHhcc--CcEEEEEeccCCccc-----cccccCCCC-CCCCCcEEEEecCchhhhh
Q 048126          200 GRRIGFLDESWKNGSLEDKASDILRILSK--KKFLLLLDDIWERVD-----LTKVGVPFP-DPENKSKIVFTTRFLEICG  271 (863)
Q Consensus       200 ~~~l~~~~~~~~~~~~~~~~~~l~~~l~~--kr~LlVlDdv~~~~~-----~~~~~~~l~-~~~~gs~IivTtR~~~v~~  271 (863)
                      ....+..... ...........+.+.+..  ....+++|++++...     ...+..... .......+|.++.......
T Consensus        94 ~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~  172 (276)
T d1fnna2          94 ARSLNIPFPR-RGLSRDEFLALLVEHLRERDLYMFLVLDDAFNLAPDILSTFIRLGQEADKLGAFRIALVIVGHNDAVLN  172 (276)
T ss_dssp             HHHTTCCCCS-SCCCHHHHHHHHHHHHHHTTCCEEEEEETGGGSCHHHHHHHHHHTTCHHHHSSCCEEEEEEESSTHHHH
T ss_pred             HHhhhhhhhh-hccchhHHHHHHHHHHhhcccccccchhHHHHhhhhhhhhHHHHHhccccccccceEEeecCCchhhhh
Confidence            8887765432 334455555656555543  567788888876421     111111111 1122344555555433321


Q ss_pred             cc-------cccceEeecCCChHHHHHHHHHHhc
Q 048126          272 AM-------KAHEFLKVECLGPEDAWRLFRENLR  298 (863)
Q Consensus       272 ~~-------~~~~~~~l~~L~~~e~~~lf~~~~~  298 (863)
                      .+       .....+.+.+.+.++.++++.+.+.
T Consensus       173 ~~~~~~~~r~~~~~i~~~~~~~~e~~~il~~r~~  206 (276)
T d1fnna2         173 NLDPSTRGIMGKYVIRFSPYTKDQIFDILLDRAK  206 (276)
T ss_dssp             TSCHHHHHHHTTCEEECCCCBHHHHHHHHHHHHH
T ss_pred             hcchhhhhhhcchhccccchhHHHHHHHHHHHHH
Confidence            11       1234578999999999999988654

>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=98.76  E-value=1.3e-08  Score=92.98  Aligned_cols=85  Identities=20%  Similarity=0.239  Sum_probs=39.9

Q ss_pred             CCCCccceEEccCC-ccccccchhhhcCCCccEEEccCCCccccCCccccccCCCCeEEccCCCccccchhhhcCCCCCE
Q 048126          513 PTCPHLLSLFLSDN-SLKMIAGDFFQFMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAITHLPIELQKLVNLKC  591 (863)
Q Consensus       513 ~~~~~L~~L~l~~~-~l~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~~~l~~lp~~~~~l~~L~~  591 (863)
                      ..+++|+.|++.++ .++.++...|.++++|++|+|++|.+...-|..+..+++|++|+|++|+|+.+|..+....+|++
T Consensus        28 ~~l~~l~~L~l~~n~~l~~i~~~~f~~l~~L~~L~Ls~N~l~~i~~~~f~~l~~L~~L~Ls~N~l~~l~~~~~~~~~l~~  107 (156)
T d2ifga3          28 PGAENLTELYIENQQHLQHLELRDLRGLGELRNLTIVKSGLRFVAPDAFHFTPRLSRLNLSFNALESLSWKTVQGLSLQE  107 (156)
T ss_dssp             CSCSCCSEEECCSCSSCCEECGGGSCSCCCCSEEECCSSCCCEECTTGGGSCSCCCEEECCSSCCSCCCSTTTCSCCCCE
T ss_pred             cCccccCeeecCCCccccccCchhhccccccCcceeeccccCCcccccccccccccceeccCCCCcccChhhhccccccc
Confidence            34445555555433 34445444455555555555555532222233444555555555555555555444333334445


Q ss_pred             EecCCc
Q 048126          592 LNLEYM  597 (863)
Q Consensus       592 L~l~~~  597 (863)
                      |+|++|
T Consensus       108 L~L~~N  113 (156)
T d2ifga3         108 LVLSGN  113 (156)
T ss_dssp             EECCSS
T ss_pred             cccCCC
Confidence            544444

>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=98.74  E-value=1.7e-08  Score=92.28  Aligned_cols=110  Identities=15%  Similarity=0.096  Sum_probs=89.3

Q ss_pred             CCCCccceEEccCCccccccchhhhcCCCccEEEccCCCccccCC-ccccccCCCCeEEccCCCccccch-hhhcCCCCC
Q 048126          513 PTCPHLLSLFLSDNSLKMIAGDFFQFMPSLRVFNMSNNHLLWKLP-SGISTLVSLEHLDLSGTAITHLPI-ELQKLVNLK  590 (863)
Q Consensus       513 ~~~~~L~~L~l~~~~l~~~~~~~~~~l~~L~~L~L~~~~~~~~lp-~~i~~l~~L~~L~L~~~~l~~lp~-~~~~l~~L~  590 (863)
                      ..|.....+..+++.+..+|.. +..+++|++|+++++..+..++ ..|.++++|+.|++++|+|+.++. .+..+++|+
T Consensus         5 C~c~~~~~l~c~~~~~~~~p~~-l~~l~~l~~L~l~~n~~l~~i~~~~f~~l~~L~~L~Ls~N~l~~i~~~~f~~l~~L~   83 (156)
T d2ifga3           5 CCPHGSSGLRCTRDGALDSLHH-LPGAENLTELYIENQQHLQHLELRDLRGLGELRNLTIVKSGLRFVAPDAFHFTPRLS   83 (156)
T ss_dssp             SCCSSSSCEECCSSCCCTTTTT-SCSCSCCSEEECCSCSSCCEECGGGSCSCCCCSEEECCSSCCCEECTTGGGSCSCCC
T ss_pred             CCcCCCCeEEecCCCCccCccc-ccCccccCeeecCCCccccccCchhhccccccCcceeeccccCCccccccccccccc
Confidence            3445566788888888777766 7789999999998775565665 568999999999999999999854 589999999


Q ss_pred             EEecCCccccCCCcHHHhhcCCCCcEEEeeccccc
Q 048126          591 CLNLEYMYNLNQFPRLVMSAFSKLQVLRILKSNVL  625 (863)
Q Consensus       591 ~L~l~~~~~l~~lp~~~~~~L~~L~~L~l~~~~~~  625 (863)
                      +|+|++| .++.+|.+.+.. .+|++|++.+|...
T Consensus        84 ~L~Ls~N-~l~~l~~~~~~~-~~l~~L~L~~Np~~  116 (156)
T d2ifga3          84 RLNLSFN-ALESLSWKTVQG-LSLQELVLSGNPLH  116 (156)
T ss_dssp             EEECCSS-CCSCCCSTTTCS-CCCCEEECCSSCCC
T ss_pred             ceeccCC-CCcccChhhhcc-ccccccccCCCccc
Confidence            9999999 678999875544 47999999888653

>d1sxjc2 c.37.1.20 (C:12-238) Replication factor C3 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C3
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=98.65  E-value=3.1e-08  Score=97.28  Aligned_cols=177  Identities=15%  Similarity=0.199  Sum_probs=107.2

Q ss_pred             CCccchhHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHHHHhCC
Q 048126          126 EPTVGLESMFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGRRIGF  205 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~  205 (863)
                      .++||.+..++.|.+++..+..+.+.++|++|+||||+|+.+++.. ........+.-+..+...+..............
T Consensus        14 ~divg~~~~~~~L~~~i~~~~~~~lLl~Gp~G~GKttl~~~la~~l-~~~~~~~~~~e~~~~~~~~~~~~~~~~~~~~~~   92 (227)
T d1sxjc2          14 DEVYGQNEVITTVRKFVDEGKLPHLLFYGPPGTGKTSTIVALAREI-YGKNYSNMVLELNASDDRGIDVVRNQIKDFAST   92 (227)
T ss_dssp             GGCCSCHHHHHHHHHHHHTTCCCCEEEECSSSSSHHHHHHHHHHHH-HTTSHHHHEEEECTTSCCSHHHHHTHHHHHHHB
T ss_pred             HHccCcHHHHHHHHHHHHcCCCCeEEEECCCCCChhHHHHHHHHHh-hcCCCcceeEEecccccCCeeeeecchhhcccc
Confidence            5689999999999999988777667799999999999999999886 211111122223333333333222211111100


Q ss_pred             CCccccCCChhHHHHHHHHHhccCcEEEEEeccCCccc--cccccCCCCCCCCCcEEEEecCchh-hhh-cccccceEee
Q 048126          206 LDESWKNGSLEDKASDILRILSKKKFLLLLDDIWERVD--LTKVGVPFPDPENKSKIVFTTRFLE-ICG-AMKAHEFLKV  281 (863)
Q Consensus       206 ~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~--~~~~~~~l~~~~~gs~IivTtR~~~-v~~-~~~~~~~~~l  281 (863)
                      .                 ....+++-++|+|++.....  -..+...+......++++++|.+.. +.. .......+++
T Consensus        93 ~-----------------~~~~~~~kiiiiDe~d~~~~~~~~~Ll~~le~~~~~~~~~~~~~~~~~i~~~i~sr~~~i~~  155 (227)
T d1sxjc2          93 R-----------------QIFSKGFKLIILDEADAMTNAAQNALRRVIERYTKNTRFCVLANYAHKLTPALLSQCTRFRF  155 (227)
T ss_dssp             C-----------------CSSSCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSEEEEC
T ss_pred             c-----------------cccCCCeEEEEEeccccchhhHHHHHHHHhhhcccceeeccccCcHHHhHHHHHHHHhhhcc
Confidence            0                 00123445888999976421  1222222223345677877776643 221 1223457899


Q ss_pred             cCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCCch
Q 048126          282 ECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGLP  323 (863)
Q Consensus       282 ~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glP  323 (863)
                      .+++.++-..++.+.+.......   -.+....|++.++|-.
T Consensus       156 ~~~~~~~i~~~l~~I~~~e~i~i---~~~~l~~i~~~s~Gd~  194 (227)
T d1sxjc2         156 QPLPQEAIERRIANVLVHEKLKL---SPNAEKALIELSNGDM  194 (227)
T ss_dssp             CCCCHHHHHHHHHHHHHTTTCCB---CHHHHHHHHHHHTTCH
T ss_pred             ccccccccccccccccccccccC---CHHHHHHHHHHcCCcH
Confidence            99999999999988775543221   1456788999998864

>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=98.62  E-value=2.7e-08  Score=104.57  Aligned_cols=36  Identities=28%  Similarity=0.151  Sum_probs=18.6

Q ss_pred             ccCCCCeEEccCCCccc-----cchhhhcCCCCCEEecCCc
Q 048126          562 TLVSLEHLDLSGTAITH-----LPIELQKLVNLKCLNLEYM  597 (863)
Q Consensus       562 ~l~~L~~L~L~~~~l~~-----lp~~~~~l~~L~~L~l~~~  597 (863)
                      .+++|+.|+|++|.+..     +...+...++|++|++++|
T Consensus        91 ~~~~L~~L~L~~n~i~~~~~~~l~~~l~~~~~L~~L~l~~n  131 (344)
T d2ca6a1          91 KCPKLHTVRLSDNAFGPTAQEPLIDFLSKHTPLEHLYLHNN  131 (344)
T ss_dssp             TCTTCCEEECCSCCCCTTTHHHHHHHHHHCTTCCEEECCSS
T ss_pred             hCCCcccccccccccccccccchhhhhcccccchheecccc
Confidence            44555555555554432     3334445555666665555

>d1sxjb2 c.37.1.20 (B:7-230) Replication factor C4 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C4
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=98.61  E-value=6.4e-08  Score=94.61  Aligned_cols=180  Identities=15%  Similarity=0.163  Sum_probs=110.4

Q ss_pred             CCccchhHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCC-EEEEEEeCCccCHHHHHHHHHHHhC
Q 048126          126 EPTVGLESMFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFD-VVIWVVVSKDLQLEKIQEKIGRRIG  204 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~-~~~wv~~s~~~~~~~~~~~i~~~l~  204 (863)
                      .++||.+..++.+.+++.++...-+.++|++|+||||+|+.+++... . ..+. .++-+..+...+...+...+.....
T Consensus        15 ~d~ig~~~~~~~L~~~~~~~~~~~~ll~Gp~G~GKTt~a~~la~~l~-~-~~~~~~~~~~n~~~~~~~~~i~~~~~~~~~   92 (224)
T d1sxjb2          15 SDIVGNKETIDRLQQIAKDGNMPHMIISGMPGIGKTTSVHCLAHELL-G-RSYADGVLELNASDDRGIDVVRNQIKHFAQ   92 (224)
T ss_dssp             GGCCSCTHHHHHHHHHHHSCCCCCEEEECSTTSSHHHHHHHHHHHHH-G-GGHHHHEEEECTTSCCSHHHHHTHHHHHHH
T ss_pred             HHhcCCHHHHHHHHHHHHcCCCCeEEEECCCCCCchhhHHHHHHHHh-c-cccccccccccccccCCceehhhHHHHHHH
Confidence            56899999999999999988777778999999999999999988761 1 1111 2333444444444333322222111


Q ss_pred             CCCccccCCChhHHHHHHHHHhccCcEEEEEeccCCccc--cccccCCCCCCCCCcEEEEecCch-hhhh-cccccceEe
Q 048126          205 FLDESWKNGSLEDKASDILRILSKKKFLLLLDDIWERVD--LTKVGVPFPDPENKSKIVFTTRFL-EICG-AMKAHEFLK  280 (863)
Q Consensus       205 ~~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~--~~~~~~~l~~~~~gs~IivTtR~~-~v~~-~~~~~~~~~  280 (863)
                      ....                .-.++.-++|+|+++....  ...+...+......+++++||.+. .+.. .......++
T Consensus        93 ~~~~----------------~~~~~~kviiiDe~d~~~~~~~~~ll~~~e~~~~~~~~i~~~~~~~~i~~~l~sr~~~i~  156 (224)
T d1sxjb2          93 KKLH----------------LPPGKHKIVILDEADSMTAGAQQALRRTMELYSNSTRFAFACNQSNKIIEPLQSQCAILR  156 (224)
T ss_dssp             BCCC----------------CCTTCCEEEEEESGGGSCHHHHHTTHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSEEEE
T ss_pred             hhcc----------------CCCcceEEEEEecccccchhHHHHHhhhccccccceeeeeccCchhhhhhHHHHHHHHhh
Confidence            1000                0023566888999976422  222222222233456666666653 2211 122335789


Q ss_pred             ecCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCCchhHH
Q 048126          281 VECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGLPLAL  326 (863)
Q Consensus       281 l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPlai  326 (863)
                      +++++.++-..++.+.+.......   -.+....|++.|+|-+..+
T Consensus       157 ~~~~~~~~i~~~l~~i~~~e~~~i---~~~~l~~I~~~s~Gd~R~a  199 (224)
T d1sxjb2         157 YSKLSDEDVLKRLLQIIKLEDVKY---TNDGLEAIIFTAEGDMRQA  199 (224)
T ss_dssp             CCCCCHHHHHHHHHHHHHHHTCCB---CHHHHHHHHHHHTTCHHHH
T ss_pred             hcccchhhhHHHHHHHHHhcccCC---CHHHHHHHHHHcCCcHHHH
Confidence            999999999999988776443222   2456789999999987543

>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=98.61  E-value=3.5e-08  Score=97.54  Aligned_cols=188  Identities=12%  Similarity=0.126  Sum_probs=110.6

Q ss_pred             CCccchhHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHHHHhCC
Q 048126          126 EPTVGLESMFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGRRIGF  205 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~  205 (863)
                      ++++|.+..++.+..++.....+.+.++|++|+||||+|+.+++..............+..+...........+-.....
T Consensus        12 ~diig~~~~~~~l~~~i~~~~~~~lll~Gp~G~GKTtl~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   91 (237)
T d1sxjd2          12 DEVTAQDHAVTVLKKTLKSANLPHMLFYGPPGTGKTSTILALTKELYGPDLMKSRILELNASDERGISIVREKVKNFARL   91 (237)
T ss_dssp             TTCCSCCTTHHHHHHHTTCTTCCCEEEECSTTSSHHHHHHHHHHHHHHHHHHTTSEEEECSSSCCCHHHHTTHHHHHHHS
T ss_pred             HHccCcHHHHHHHHHHHHcCCCCeEEEECCCCCChHHHHHHHHHHHcCCcccccchhheeccccccchHHHHHHHHHhhh
Confidence            56899999999999999887777788999999999999999988741101112223444455554444333333221111


Q ss_pred             CCccccCCChhHHHHHHHHHhccCcEEEEEeccCCcc--ccccccCCCCCCCCCcEEEEecCchh-hhh-cccccceEee
Q 048126          206 LDESWKNGSLEDKASDILRILSKKKFLLLLDDIWERV--DLTKVGVPFPDPENKSKIVFTTRFLE-ICG-AMKAHEFLKV  281 (863)
Q Consensus       206 ~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~--~~~~~~~~l~~~~~gs~IivTtR~~~-v~~-~~~~~~~~~l  281 (863)
                      ..   .....    ..+......+.-++|+|++....  .+..+...+.......++|+|+.+.. +.. .......+++
T Consensus        92 ~~---~~~~~----~~~~~~~~~~~~viiiDe~d~l~~~~~~~l~~~~~~~~~~~~~i~~~~~~~~~~~~l~sr~~~i~f  164 (237)
T d1sxjd2          92 TV---SKPSK----HDLENYPCPPYKIIILDEADSMTADAQSALRRTMETYSGVTRFCLICNYVTRIIDPLASQCSKFRF  164 (237)
T ss_dssp             CC---CCCCT----THHHHSCCCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHHHSEEEEC
T ss_pred             hh---hhhhH----HHHhhccccCceEEEEecccccCHHHHHHHhhccccccccccccccccccccccccccchhhhhcc
Confidence            10   00111    11222223344578999997542  22222211222334566776665532 211 1112357899


Q ss_pred             cCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCCch
Q 048126          282 ECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGLP  323 (863)
Q Consensus       282 ~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glP  323 (863)
                      ++++.++...++.+.+......-   -.+..+.|++.++|-.
T Consensus       165 ~~~~~~~~~~~L~~i~~~e~i~i---~~~~l~~ia~~s~gd~  203 (237)
T d1sxjd2         165 KALDASNAIDRLRFISEQENVKC---DDGVLERILDISAGDL  203 (237)
T ss_dssp             CCCCHHHHHHHHHHHHHTTTCCC---CHHHHHHHHHHTSSCH
T ss_pred             ccccccccchhhhhhhhhhcCcC---CHHHHHHHHHHcCCCH
Confidence            99999999999998876543222   2466789999998754

>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=98.53  E-value=1.2e-07  Score=93.22  Aligned_cols=177  Identities=15%  Similarity=0.130  Sum_probs=105.4

Q ss_pred             CCccchhHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCC-EEEEEEeCCccCHHHHHHHHHHHhC
Q 048126          126 EPTVGLESMFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFD-VVIWVVVSKDLQLEKIQEKIGRRIG  204 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~-~~~wv~~s~~~~~~~~~~~i~~~l~  204 (863)
                      .++||.+..++++..++..+..+-+.++|++|+||||+|+.+++...  ...+. ..+-+..+...+...+...+.....
T Consensus        24 ~diig~~~~~~~l~~~i~~~~~~~lll~Gp~G~GKTtla~~iak~l~--~~~~~~~~~e~n~s~~~~~~~~~~~~~~~~~  101 (231)
T d1iqpa2          24 DDIVGQEHIVKRLKHYVKTGSMPHLLFAGPPGVGKTTAALALARELF--GENWRHNFLELNASDERGINVIREKVKEFAR  101 (231)
T ss_dssp             TTCCSCHHHHHHHHHHHHHTCCCEEEEESCTTSSHHHHHHHHHHHHH--GGGHHHHEEEEETTCHHHHHTTHHHHHHHHH
T ss_pred             HHccCcHHHHHHHHHHHHcCCCCeEEEECCCCCcHHHHHHHHHHHHH--hcccCCCeeEEecCcccchhHHHHHHHHHHh
Confidence            56899999999999999888888888999999999999999998751  11121 1223333332222111111111110


Q ss_pred             CCCccccCCChhHHHHHHHHHhccCcEEEEEeccCCc--cccccccCCCCCCCCCcEEEEecCc-hhhhhc-ccccceEe
Q 048126          205 FLDESWKNGSLEDKASDILRILSKKKFLLLLDDIWER--VDLTKVGVPFPDPENKSKIVFTTRF-LEICGA-MKAHEFLK  280 (863)
Q Consensus       205 ~~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~--~~~~~~~~~l~~~~~gs~IivTtR~-~~v~~~-~~~~~~~~  280 (863)
                      ..                 .....++.++++||+...  ..+..+...+........+|.||.. ..+... ......+.
T Consensus       102 ~~-----------------~~~~~~~~iilide~d~~~~~~~~~ll~~l~~~~~~~~~i~~~n~~~~i~~~l~sR~~~i~  164 (231)
T d1iqpa2         102 TK-----------------PIGGASFKIIFLDEADALTQDAQQALRRTMEMFSSNVRFILSCNYSSKIIEPIQSRCAIFR  164 (231)
T ss_dssp             SC-----------------CGGGCSCEEEEEETGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHHTEEEEE
T ss_pred             hh-----------------hccCCCceEEeehhhhhcchhHHHHHhhhcccCCcceEEEeccCChhhchHhHhCcccccc
Confidence            00                 011236778999999753  2223332222222233455555544 333221 12235688


Q ss_pred             ecCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCCchh
Q 048126          281 VECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGLPL  324 (863)
Q Consensus       281 l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPl  324 (863)
                      +.+.+.++....+.+.+......   --.+..+.|++.|+|-.-
T Consensus       165 ~~~~~~~~~~~~l~~~~~~e~i~---i~~~~l~~I~~~~~gdiR  205 (231)
T d1iqpa2         165 FRPLRDEDIAKRLRYIAENEGLE---LTEEGLQAILYIAEGDMR  205 (231)
T ss_dssp             CCCCCHHHHHHHHHHHHHTTTCE---ECHHHHHHHHHHHTTCHH
T ss_pred             ccccchhhHHHHHHHHHHHhCCC---CCHHHHHHHHHHcCCCHH
Confidence            99999999999998887643311   124567889999988654

>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=98.53  E-value=9.7e-07  Score=86.79  Aligned_cols=192  Identities=15%  Similarity=0.136  Sum_probs=107.6

Q ss_pred             CCccchhHHHHHHHHHhcCCC-ccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHHHHhC
Q 048126          126 EPTVGLESMFDKVWRCLGEEQ-VGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGRRIG  204 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~-~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~  204 (863)
                      .+++|.+..++.+.+++..++ .+.+.++|+.|+||||+|+.+++... .....+       ............+...-.
T Consensus        12 ~dlig~~~~~~~L~~~i~~~~~~~~~Ll~Gp~G~GKtt~a~~~~~~l~-~~~~~~-------~~~~~~~~~~~~i~~~~~   83 (239)
T d1njfa_          12 ADVVGQEHVLTALANGLSLGRIHHAYLFSGTRGVGKTSIARLLAKGLN-CETGIT-------ATPCGVCDNCREIEQGRF   83 (239)
T ss_dssp             GGSCSCHHHHHHHHHHHHTTCCCSEEEEECSTTSSHHHHHHHHHHHHH-CTTCSC-------SSCCSCSHHHHHHHHTCC
T ss_pred             HHccChHHHHHHHHHHHHcCCCCeeEEEECCCCCcHHHHHHHHHHHhc-Cccccc-------cCccccchHHHHHHcCCC
Confidence            468999999999999998765 45688999999999999999987751 111110       000111111111111100


Q ss_pred             CCC---ccccCCChhHHHHHHHHHh-----ccCcEEEEEeccCCcc--ccccccCCCCCCCCCcEEEEecCchhh-hhcc
Q 048126          205 FLD---ESWKNGSLEDKASDILRIL-----SKKKFLLLLDDIWERV--DLTKVGVPFPDPENKSKIVFTTRFLEI-CGAM  273 (863)
Q Consensus       205 ~~~---~~~~~~~~~~~~~~l~~~l-----~~kr~LlVlDdv~~~~--~~~~~~~~l~~~~~gs~IivTtR~~~v-~~~~  273 (863)
                      ...   ........++. ..+.+..     .+++-++|+|+++...  .-..+...+......+++|++|.+..- ....
T Consensus        84 ~~~~~~~~~~~~~i~~i-r~~~~~~~~~~~~~~~kviiIde~d~l~~~~q~~Llk~lE~~~~~~~~il~tn~~~~i~~~i  162 (239)
T d1njfa_          84 VDLIEIDAASRTKVEDT-RDLLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLPVTI  162 (239)
T ss_dssp             TTEEEEETTCSSSHHHH-HHHHHSCCCSCSSSSSEEEEEETGGGSCHHHHHHHHHHHHSCCTTEEEEEEESCGGGSCHHH
T ss_pred             CeEEEecchhcCCHHHH-HHHHHHHHhccccCCCEEEEEECcccCCHHHHHHHHHHHhcCCCCeEEEEEcCCccccChhH
Confidence            000   00001111111 1122211     2355689999998642  122232223233456777777766432 1111


Q ss_pred             -cccceEeecCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCCchh-HHHHH
Q 048126          274 -KAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGLPL-ALITI  329 (863)
Q Consensus       274 -~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPl-ai~~~  329 (863)
                       .....+.+.+++.++-.+.+...+......   --++....|++.++|.+- |+..+
T Consensus       163 ~SRc~~i~~~~~~~~~i~~~l~~i~~~e~~~---~~~~~l~~i~~~s~Gd~R~ain~l  217 (239)
T d1njfa_         163 LSRCLQFHLKALDVEQIRHQLEHILNEEHIA---HEPRALQLLARAAEGSLRDALSLT  217 (239)
T ss_dssp             HTTSEEEECCCCCHHHHHHHHHHHHHHHTCC---BCHHHHHHHHHHTTTCHHHHHHHH
T ss_pred             hhhhcccccccCcHHHhhhHHHHHHhhhccC---CCHHHHHHHHHHcCCCHHHHHHHH
Confidence             123578999999999999888776543311   224567889999999885 44443

>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=98.52  E-value=2.1e-08  Score=109.74  Aligned_cols=157  Identities=17%  Similarity=0.209  Sum_probs=97.3

Q ss_pred             ceEEEEecccccccc---ccCCCCCccceEEccCCcccccc----chhhhcCCCccEEEccCCCcccc----CCcccc-c
Q 048126          495 NVRRMSLMKNKIENL---SETPTCPHLLSLFLSDNSLKMIA----GDFFQFMPSLRVFNMSNNHLLWK----LPSGIS-T  562 (863)
Q Consensus       495 ~lr~L~l~~~~~~~l---~~~~~~~~L~~L~l~~~~l~~~~----~~~~~~l~~L~~L~L~~~~~~~~----lp~~i~-~  562 (863)
                      +++.|+++++.+...   .-++.++++++|+|++|.++...    ...+..+++|++|||++|.+...    +...+. .
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
Confidence            688999999988653   22367889999999999876322    23467899999999999954321    222222 2


Q ss_pred             cCCCCeEEccCCCccc-----cchhhhcCCCCCEEecCCccccCCCcHHHh-----hcCCCCcEEEeeccccccCchhhH
Q 048126          563 LVSLEHLDLSGTAITH-----LPIELQKLVNLKCLNLEYMYNLNQFPRLVM-----SAFSKLQVLRILKSNVLFGGHQFL  632 (863)
Q Consensus       563 l~~L~~L~L~~~~l~~-----lp~~~~~l~~L~~L~l~~~~~l~~lp~~~~-----~~L~~L~~L~l~~~~~~~~~~~~~  632 (863)
                      ..+|++|++++|.++.     ++..+..+++|++|++++|. +...+...+     ........+...............
T Consensus        83 ~~~L~~L~L~~n~it~~~~~~l~~~l~~~~~L~~L~L~~N~-i~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~  161 (460)
T d1z7xw1          83 SCKIQKLSLQNCCLTGAGCGVLSSTLRTLPTLQELHLSDNL-LGDAGLQLLCEGLLDPQCRLEKLQLEYCSLSAASCEPL  161 (460)
T ss_dssp             TCCCCEEECTTSCCBGGGHHHHHHHTTSCTTCCEEECCSSB-CHHHHHHHHHHHHTSTTCCCCEEECTTSCCBGGGHHHH
T ss_pred             CCCCCEEECCCCCccccccccccchhhcccccccccccccc-chhhhhhhhhhcccccccccccccccccccchhhhccc
Confidence            3479999999998863     56678889999999999983 332211111     111222333333322222212233


Q ss_pred             HHHHcCCccCceEEEEEcCh
Q 048126          633 VEELMGMKHLMALTITLKSW  652 (863)
Q Consensus       633 ~~~l~~L~~L~~L~l~~~~~  652 (863)
                      ...+.....++.+.++....
T Consensus       162 ~~~l~~~~~~~~~~ls~~~~  181 (460)
T d1z7xw1         162 ASVLRAKPDFKELTVSNNDI  181 (460)
T ss_dssp             HHHHHHCTTCCEEECCSSBC
T ss_pred             cccccccccccccccccccc
Confidence            44455566677777665443

>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=98.51  E-value=5.4e-07  Score=88.65  Aligned_cols=155  Identities=17%  Similarity=0.272  Sum_probs=99.1

Q ss_pred             CCccchhHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHhhhcC--CCCC-CCEEEEE-EeCCccCHHHHHHHHHH
Q 048126          126 EPTVGLESMFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLG--APND-FDVVIWV-VVSKDLQLEKIQEKIGR  201 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~--~~~~-F~~~~wv-~~s~~~~~~~~~~~i~~  201 (863)
                      ++.|||++++++++..|....-.-+.+||.+|+|||+++..++.+...  +... .+..+|. +++.-          +.
T Consensus        18 d~~igRd~Ei~~l~~iL~r~~k~n~lLVG~~GvGKTalv~~la~ri~~~~vp~~l~~~~i~~l~~~~l----------ia   87 (268)
T d1r6bx2          18 DPLIGREKELERAIQVLCRRRKNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIGSL----------LA   87 (268)
T ss_dssp             CCCCSCHHHHHHHHHHHTSSSSCEEEEECCTTSSHHHHHHHHHHHHHHTCSCGGGTTCEEEECCCC-------------C
T ss_pred             CcccChHHHHHHHHHHHhcCccCCcEEECCCCCcHHHHHHHHHHHHHhCCcccccccceeEEeeechH----------hc
Confidence            357999999999999998766667779999999999999999987621  1111 2234443 22210          00


Q ss_pred             HhCCCCccccCCChhHHHHHHHHHhc-cCcEEEEEeccCCcc----------ccccccCCCCCCCCCcEEEEecCchhhh
Q 048126          202 RIGFLDESWKNGSLEDKASDILRILS-KKKFLLLLDDIWERV----------DLTKVGVPFPDPENKSKIVFTTRFLEIC  270 (863)
Q Consensus       202 ~l~~~~~~~~~~~~~~~~~~l~~~l~-~kr~LlVlDdv~~~~----------~~~~~~~~l~~~~~gs~IivTtR~~~v~  270 (863)
                         ..   ......++....+.+.+. ..+.++++|++....          +...+..|.-. ...-++|.||..++..
T Consensus        88 ---g~---~~~g~~e~r~~~i~~~~~~~~~iIlfiDeih~l~~~g~~~g~~~d~a~~Lkp~L~-rg~i~vIgatT~eey~  160 (268)
T d1r6bx2          88 ---GT---KYRGDFEKRFKALLKQLEQDTNSILFIDEIHTIIGAGAASGGQVDAANLIKPLLS-SGKIRVIGSTTYQEFS  160 (268)
T ss_dssp             ---CC---CCSSCHHHHHHHHHHHHSSSSCEEEEETTTTTTTTSCCSSSCHHHHHHHHSSCSS-SCCCEEEEEECHHHHH
T ss_pred             ---cC---ccchhHHHHHHHHHHHhhccCCceEEecchHHHhcCCCCCCccccHHHHhhHHHh-CCCCeEEEeCCHHHHH
Confidence               00   022344555555555544 467999999987531          22333333222 3357889999888775


Q ss_pred             hccc-------ccceEeecCCChHHHHHHHHHHh
Q 048126          271 GAMK-------AHEFLKVECLGPEDAWRLFRENL  297 (863)
Q Consensus       271 ~~~~-------~~~~~~l~~L~~~e~~~lf~~~~  297 (863)
                      ....       ....+.++..+.+++.+++....
T Consensus       161 ~~~e~d~al~rrF~~I~V~Eps~e~t~~IL~~~~  194 (268)
T d1r6bx2         161 NIFEKDRALARRFQKIDITEPSIEETVQIINGLK  194 (268)
T ss_dssp             CCCCCTTSSGGGEEEEECCCCCHHHHHHHHHHHH
T ss_pred             HHHhhcHHHHhhhcccccCCCCHHHHHHHHHHhh
Confidence            4332       23478999999999999987654

>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=98.47  E-value=1.2e-07  Score=99.48  Aligned_cols=237  Identities=15%  Similarity=0.108  Sum_probs=143.6

Q ss_pred             cccceEEEEeccccccc-----c-ccCCCCCccceEEccCCcccccc----------chhhhcCCCccEEEccCCCcccc
Q 048126          492 NWRNVRRMSLMKNKIEN-----L-SETPTCPHLLSLFLSDNSLKMIA----------GDFFQFMPSLRVFNMSNNHLLWK  555 (863)
Q Consensus       492 ~~~~lr~L~l~~~~~~~-----l-~~~~~~~~L~~L~l~~~~l~~~~----------~~~~~~l~~L~~L~L~~~~~~~~  555 (863)
                      ....++.|++++|.+..     + ..+...++|+.|+++++......          ...+..+++|++|+|++|.+...
T Consensus        29 ~~~~l~~L~Ls~n~i~~~~~~~l~~~l~~~~~L~~l~l~~~~~~~~~~~~~~~~~~l~~~l~~~~~L~~L~L~~n~i~~~  108 (344)
T d2ca6a1          29 EDDSVKEIVLSGNTIGTEAARWLSENIASKKDLEIAEFSDIFTGRVKDEIPEALRLLLQALLKCPKLHTVRLSDNAFGPT  108 (344)
T ss_dssp             HCSCCCEEECTTSEECHHHHHHHHHTTTTCTTCCEEECCSCCTTSCGGGSHHHHHHHHHHHTTCTTCCEEECCSCCCCTT
T ss_pred             hCCCCCEEECcCCcCCHHHHHHHHHHHHhCCCCCEEECCCCcccccccccchHHHHHHHHHhhCCCcccccccccccccc
Confidence            34578888888887633     2 23467788888888877433221          11245678899999998854332


Q ss_pred             ----CCccccccCCCCeEEccCCCccc-----cch---------hhhcCCCCCEEecCCccccCC-----CcHHHhhcCC
Q 048126          556 ----LPSGISTLVSLEHLDLSGTAITH-----LPI---------ELQKLVNLKCLNLEYMYNLNQ-----FPRLVMSAFS  612 (863)
Q Consensus       556 ----lp~~i~~l~~L~~L~L~~~~l~~-----lp~---------~~~~l~~L~~L~l~~~~~l~~-----lp~~~~~~L~  612 (863)
                          +...+...++|+.|++++|.+..     +..         .....+.|+.|.++++. +..     +.. .+...+
T Consensus       109 ~~~~l~~~l~~~~~L~~L~l~~n~l~~~~~~~l~~~l~~~~~~~~~~~~~~L~~l~l~~n~-i~~~~~~~l~~-~l~~~~  186 (344)
T d2ca6a1         109 AQEPLIDFLSKHTPLEHLYLHNNGLGPQAGAKIARALQELAVNKKAKNAPPLRSIICGRNR-LENGSMKEWAK-TFQSHR  186 (344)
T ss_dssp             THHHHHHHHHHCTTCCEEECCSSCCHHHHHHHHHHHHHHHHHHHHHHTCCCCCEEECCSSC-CTGGGHHHHHH-HHHHCT
T ss_pred             cccchhhhhcccccchheecccccccccccccccccccccccccccccCcccceeeccccc-ccccccccccc-hhhhhh
Confidence                44455677889999999887641     111         12356788888888762 221     222 256678


Q ss_pred             CCcEEEeeccccccCchhh-HHHHHcCCccCceEEEEEcChHH--HHHHhhhhhhhhcceeeeeccccCCCccccc----
Q 048126          613 KLQVLRILKSNVLFGGHQF-LVEELMGMKHLMALTITLKSWEA--LQELLISQELQRCTQSLFLRCFNDSKSLDIF----  685 (863)
Q Consensus       613 ~L~~L~l~~~~~~~~~~~~-~~~~l~~L~~L~~L~l~~~~~~~--~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~~----  685 (863)
                      +|+.|++..|.+...+... ....+..+++|+.|+++.+....  ...+.......++|+.|.|++|.- ......    
T Consensus       187 ~L~~L~L~~n~i~~~g~~~~l~~~l~~~~~L~~L~Ls~N~i~~~g~~~L~~~l~~~~~L~~L~Ls~n~i-~~~g~~~l~~  265 (344)
T d2ca6a1         187 LLHTVKMVQNGIRPEGIEHLLLEGLAYCQELKVLDLQDNTFTHLGSSALAIALKSWPNLRELGLNDCLL-SARGAAAVVD  265 (344)
T ss_dssp             TCCEEECCSSCCCHHHHHHHHHTTGGGCTTCCEEECCSSCCHHHHHHHHHHHGGGCTTCCEEECTTCCC-CHHHHHHHHH
T ss_pred             hhcccccccccccccccccchhhhhcchhhhcccccccccccccccccccccccccccchhhhhhcCcc-CchhhHHHHH
Confidence            8999999888765321111 22346677889999988776543  233444444456888999988752 222111    


Q ss_pred             chh--hcCCCceEEEcCCcccccceeccccccccccccccCcccEEEEeccC
Q 048126          686 CLA--CLHNLNKLYVAGRKHLEDFQMTVQRSSVNQLARGFHSLHTVKVGFCF  735 (863)
Q Consensus       686 ~l~--~~~~L~~L~l~~~~~~~~l~~~~~~~~~~~~~~~l~~L~~L~L~~c~  735 (863)
                      .+.  ..+.|++|++++|. ++.-....+..   .....+++|++|+|+++.
T Consensus       266 ~l~~~~~~~L~~L~ls~N~-i~~~~~~~l~~---~l~~~~~~L~~L~l~~N~  313 (344)
T d2ca6a1         266 AFSKLENIGLQTLRLQYNE-IELDAVRTLKT---VIDEKMPDLLFLELNGNR  313 (344)
T ss_dssp             HHHTCSSCCCCEEECCSSC-CBHHHHHHHHH---HHHHHCTTCCEEECTTSB
T ss_pred             HhhhccCCCCCEEECCCCc-CChHHHHHHHH---HHHccCCCCCEEECCCCc
Confidence            222  23679999999875 33111111100   000236789999999874

>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=98.43  E-value=1.9e-06  Score=87.17  Aligned_cols=192  Identities=14%  Similarity=0.104  Sum_probs=114.0

Q ss_pred             CCccchhHHHHHHHHHhcC----C----C-ccEEEEEcCCCCcHHHHHHHHHhhhcC---CCCCCCEEEEEEeCCccCHH
Q 048126          126 EPTVGLESMFDKVWRCLGE----E----Q-VGIIGLYGMGGVGKTTLLTKINNKLLG---APNDFDVVIWVVVSKDLQLE  193 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~----~----~-~~vi~I~G~gGiGKTtLa~~v~~~~~~---~~~~F~~~~wv~~s~~~~~~  193 (863)
                      +.++||+.++++|.+.+..    +    . ..++.|+|++|+|||++|+.+++...+   .........++.+.......
T Consensus        16 ~~~~~Re~e~~~l~~~l~~~~~~~~~~~~~~~~l~l~GppGtGKT~l~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~   95 (287)
T d1w5sa2          16 PELRVRRGEAEALARIYLNRLLSGAGLSDVNMIYGSIGRVGIGKTTLAKFTVKRVSEAAAKEGLTVKQAYVNAFNAPNLY   95 (287)
T ss_dssp             SSCSSSCHHHHHHHHHHHHHHHTSSCBCCEEEEEECTTCCSSSHHHHHHHHHHHHHHHHHHTTCCEEEEEEEGGGCCSHH
T ss_pred             CCCCCHHHHHHHHHHHHHHHHHcCCCCCCcceEEEeECCCCCCHHHHHHHHHHHHHhhcccccCCceeeeeccccccchh
Confidence            5689999999999887632    1    1 224667899999999999999987521   01222456778888887888


Q ss_pred             HHHHHHHHHhCCCCccccCCChhHHHHHHHHHhc--cCcEEEEEeccCCccc-----------ccccc---CCCCCCCCC
Q 048126          194 KIQEKIGRRIGFLDESWKNGSLEDKASDILRILS--KKKFLLLLDDIWERVD-----------LTKVG---VPFPDPENK  257 (863)
Q Consensus       194 ~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~--~kr~LlVlDdv~~~~~-----------~~~~~---~~l~~~~~g  257 (863)
                      .....+...++..... ...........+.+...  +...++++|.++....           +..+.   ........-
T Consensus        96 ~~~~~~~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~~iide~d~l~~~~~~~~~~~~~l~~l~~~l~~~~~~~~~  174 (287)
T d1w5sa2          96 TILSLIVRQTGYPIQV-RGAPALDILKALVDNLYVENHYLLVILDEFQSMLSSPRIAAEDLYTLLRVHEEIPSRDGVNRI  174 (287)
T ss_dssp             HHHHHHHHHHTCCCCC-TTCCHHHHHHHHHHHHHHHTCEEEEEEESTHHHHSCTTSCHHHHHHHHTHHHHSCCTTSCCBE
T ss_pred             hHHHHHhhhccccccc-ccchHHHHHHHHHHHHHhccCccccceeEEEEeccccccchhHHHHHHHHHHhcchhhcccce
Confidence            8888888887654422 33444555555655553  3567778887753211           11111   111112222


Q ss_pred             cEEEEecCchhhh-------h-cccccceEeecCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHh
Q 048126          258 SKIVFTTRFLEIC-------G-AMKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEY  319 (863)
Q Consensus       258 s~IivTtR~~~v~-------~-~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c  319 (863)
                      ..|++++......       . ...-...+.+++++.++..+++...+.... ....--.+..+.|+++.
T Consensus       175 ~~i~i~~~~~~~~~~~~~~~~~~~r~~~~i~f~~y~~~el~~Il~~r~~~~~-~~~~~~~~al~~ia~~~  243 (287)
T d1w5sa2         175 GFLLVASDVRALSYMREKIPQVESQIGFKLHLPAYKSRELYTILEQRAELGL-RDTVWEPRHLELISDVY  243 (287)
T ss_dssp             EEEEEEEETHHHHHHHHHCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHHB-CTTSCCHHHHHHHHHHH
T ss_pred             eEEeecccHHHHHHHHhhccchhcccceeeeccCCcHHHHHHHHhhhHHHhh-ccCCCCHHHHHHHHHHH
Confidence            3344444443221       1 111235678999999999999998764321 11111245566666655

>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=98.40  E-value=2.1e-07  Score=92.74  Aligned_cols=190  Identities=9%  Similarity=0.137  Sum_probs=98.3

Q ss_pred             CCccchhHHHHHHHHHhcCC-CccEEEEEcCCCCcHHHHHHHHHhhhcC---CCCCCCEEEEEEeCCc------------
Q 048126          126 EPTVGLESMFDKVWRCLGEE-QVGIIGLYGMGGVGKTTLLTKINNKLLG---APNDFDVVIWVVVSKD------------  189 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~-~~~vi~I~G~gGiGKTtLa~~v~~~~~~---~~~~F~~~~wv~~s~~------------  189 (863)
                      ++++|.+..++.|.+++... ...-+.++|++|+||||+|+.+++....   ....++...+...+..            
T Consensus        11 ~diig~~~~~~~L~~~~~~~~~~~~lll~Gp~G~GKTt~~~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   90 (252)
T d1sxje2          11 NALSHNEELTNFLKSLSDQPRDLPHLLLYGPNGTGKKTRCMALLESIFGPGVYRLKIDVRQFVTASNRKLELNVVSSPYH   90 (252)
T ss_dssp             GGCCSCHHHHHHHHTTTTCTTCCCCEEEECSTTSSHHHHHHTHHHHHSCTTCCC------------------CCEECSSE
T ss_pred             HHccCcHHHHHHHHHHHHcCCCCCeEEEECCCCCCHHHHHHHHHHhhcCccccccccccccccccccchhhhhhccCCcc
Confidence            45899999999998888654 3455779999999999999999987511   0111222222211110            


Q ss_pred             ---------cCHHHHHHHHHHHhCCCCccccCCChhHHHHHHHHHhccCcEEEEEeccCCc--cccccccCCCCCCCCCc
Q 048126          190 ---------LQLEKIQEKIGRRIGFLDESWKNGSLEDKASDILRILSKKKFLLLLDDIWER--VDLTKVGVPFPDPENKS  258 (863)
Q Consensus       190 ---------~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~--~~~~~~~~~l~~~~~gs  258 (863)
                               ...................      .  ....-.....++.-++|+|+++..  ..+..+...+......+
T Consensus        91 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~------~--~~~~~~~~~~~~~~iiiide~d~l~~~~~~~l~~~~e~~~~~~  162 (252)
T d1sxje2          91 LEITPSDMGNNDRIVIQELLKEVAQMEQ------V--DFQDSKDGLAHRYKCVIINEANSLTKDAQAALRRTMEKYSKNI  162 (252)
T ss_dssp             EEECCC----CCHHHHHHHHHHHTTTTC--------------------CCEEEEEECTTSSCHHHHHHHHHHHHHSTTTE
T ss_pred             ceeeecccccCCcceeeehhhhhhhhhh------h--hhhhcccccCCCceEEEeccccccccccchhhhcccccccccc
Confidence                     0001111111111110000      0  000000111234558889999764  22222222222234557


Q ss_pred             EEEEecCchh-hhh-cccccceEeecCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCCchhH
Q 048126          259 KIVFTTRFLE-ICG-AMKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGLPLA  325 (863)
Q Consensus       259 ~IivTtR~~~-v~~-~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPla  325 (863)
                      ++|+||.+.. +.. .......+++.+++.++..+++...+......  ...+++...|++.+.|.+..
T Consensus       163 ~~Il~tn~~~~i~~~l~sR~~~i~~~~~~~~~~~~~l~~i~~~e~~~--~~~~~~l~~i~~~s~Gd~R~  229 (252)
T d1sxje2         163 RLIMVCDSMSPIIAPIKSQCLLIRCPAPSDSEISTILSDVVTNERIQ--LETKDILKRIAQASNGNLRV  229 (252)
T ss_dssp             EEEEEESCSCSSCHHHHTTSEEEECCCCCHHHHHHHHHHHHHHHTCE--ECCSHHHHHHHHHHTTCHHH
T ss_pred             cceeeeccccchhhhhhcchheeeecccchhhHHHHHHHHHHHcCCC--CCcHHHHHHHHHHcCCcHHH
Confidence            7777776542 211 11112468899999999999998766443211  12245678899999988654

>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=98.33  E-value=2e-06  Score=79.54  Aligned_cols=151  Identities=17%  Similarity=0.237  Sum_probs=89.4

Q ss_pred             CCccchhHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHhhhcC--CC-CCCCEEEEEEeCCccCHHHHHHHHHHH
Q 048126          126 EPTVGLESMFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLG--AP-NDFDVVIWVVVSKDLQLEKIQEKIGRR  202 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~--~~-~~F~~~~wv~~s~~~~~~~~~~~i~~~  202 (863)
                      ++.|||+++++++...|....-.-+.++|.+|+|||+++..++.+...  +. .-.+..+|.-     +...+.    ..
T Consensus        22 d~~igRd~Ei~~l~~iL~r~~k~n~lLvG~pGVGKTalv~~LA~ri~~~~vp~~L~~~~i~~l-----d~~~Li----Ag   92 (195)
T d1jbka_          22 DPVIGRDEEIRRTIQVLQRRTKNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLAL-----DMGALV----AG   92 (195)
T ss_dssp             CCCCSCHHHHHHHHHHHTSSSSCEEEEECCTTSCHHHHHHHHHHHHHHTCSCGGGTTCEEEEE-----CHHHHH----TT
T ss_pred             CCCcCcHHHHHHHHHHHhccCCCCeEEEecCCcccHHHHHHHHHHHHhCCCCHHHcCceEEEe-----eHHHHh----cc
Confidence            347999999999999998766667789999999999999999987621  11 1123344432     222221    10


Q ss_pred             hCCCCccccCCChhHHHHHHHHHh-c-cCcEEEEEeccCCccc---------cccccCCCCCCCCCcEEEEecCchhhhh
Q 048126          203 IGFLDESWKNGSLEDKASDILRIL-S-KKKFLLLLDDIWERVD---------LTKVGVPFPDPENKSKIVFTTRFLEICG  271 (863)
Q Consensus       203 l~~~~~~~~~~~~~~~~~~l~~~l-~-~kr~LlVlDdv~~~~~---------~~~~~~~l~~~~~gs~IivTtR~~~v~~  271 (863)
                      ..      .....++....+.+.+ + ..+.+|++||+.....         ...+..|.-. ...-++|.||..++...
T Consensus        93 ~~------~rG~~E~rl~~il~e~~~~~~~iILfIDeih~l~~~g~~~g~~d~~~~Lkp~L~-rg~l~~IgatT~eey~~  165 (195)
T d1jbka_          93 AK------YRGEFEERLKGVLNDLAKQEGNVILFIDELHTMVGAGKADGAMDAGNMLKPALA-RGELHCVGATTLDEYRQ  165 (195)
T ss_dssp             TC------SHHHHHHHHHHHHHHHHHSTTTEEEEEETGGGGTT------CCCCHHHHHHHHH-TTSCCEEEEECHHHHHH
T ss_pred             CC------ccHHHHHHHHHHHHHHhcCCCcEEEEcchHHHHhcCCCCCCcccHHHHHHHHHh-CCCceEEecCCHHHHHH
Confidence            00      0012233333333333 2 3479999999975421         1122111111 23467888888766543


Q ss_pred             ccc-------ccceEeecCCChHHHHHH
Q 048126          272 AMK-------AHEFLKVECLGPEDAWRL  292 (863)
Q Consensus       272 ~~~-------~~~~~~l~~L~~~e~~~l  292 (863)
                      ...       ....+.++..+.+++..+
T Consensus       166 ~~e~d~aL~rrF~~I~V~Ep~~e~t~~I  193 (195)
T d1jbka_         166 YIEKDAALERRFQKVFVAEPSVEDTIAI  193 (195)
T ss_dssp             HTTTCHHHHTTEEEEECCCCCHHHHHTT
T ss_pred             HHHcCHHHHhcCCEeecCCCCHHHHHHH
Confidence            222       235678888888887654

>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=98.25  E-value=2.2e-06  Score=85.10  Aligned_cols=182  Identities=12%  Similarity=0.058  Sum_probs=103.0

Q ss_pred             CCccchhHHHHHHHHHhcC-----------------CCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCC
Q 048126          126 EPTVGLESMFDKVWRCLGE-----------------EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSK  188 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~-----------------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~  188 (863)
                      .+++|.+..+++|.+++..                 ...+.+.++|++|+||||+|+.+++..     .+ .++++..+.
T Consensus        14 ~dlig~~~~~~~L~~~l~~~~~~~~~~~~~~~~~~~~~~~~lll~GPpG~GKTt~a~~la~~~-----~~-~~~~~~~~~   87 (253)
T d1sxja2          14 QQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVAQEL-----GY-DILEQNASD   87 (253)
T ss_dssp             GGCCSCHHHHHHHHHHHHTHHHHHHTTTCCCCTTSTTSCSEEEEECSTTSSHHHHHHHHHHHT-----TC-EEEEECTTS
T ss_pred             HHhcCCHHHHHHHHHHHHhhhhcchhhhhhhcccCCCCCceEEEECCCCCCHHHHHHHHHHHH-----Hh-hhhcccccc
Confidence            4689999999999998842                 234678999999999999999999986     12 245666655


Q ss_pred             ccCHHHHHHHHHHHhCCCCccccCCChhHHHHHHHHHhccCcEEEEEeccCCccc-----cccccCCCCCCCCCcEEEEe
Q 048126          189 DLQLEKIQEKIGRRIGFLDESWKNGSLEDKASDILRILSKKKFLLLLDDIWERVD-----LTKVGVPFPDPENKSKIVFT  263 (863)
Q Consensus       189 ~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~-----~~~~~~~l~~~~~gs~IivT  263 (863)
                      ..+...+.. .................    ........++..++++|++.....     +..+......  ....|++|
T Consensus        88 ~~~~~~~~~-~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~vi~ide~~~~~~~~~~~~~~~~~~~~~--~~~~ii~i  160 (253)
T d1sxja2          88 VRSKTLLNA-GVKNALDNMSVVGYFKH----NEEAQNLNGKHFVIIMDEVDGMSGGDRGGVGQLAQFCRK--TSTPLILI  160 (253)
T ss_dssp             CCCHHHHHH-TGGGGTTBCCSTTTTTC--------CCSSTTSEEEEECSGGGCCTTSTTHHHHHHHHHHH--CSSCEEEE
T ss_pred             chhhHHHHH-HHHHHhhcchhhhhhhh----hhhcccccccceEEEeeeccccccchhhhhHHHhhhhcc--cccccccc
Confidence            544443322 22222111100000000    001112335678899999865321     1122111111  12234444


Q ss_pred             cC--chh-hhhcccccceEeecCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCCch
Q 048126          264 TR--FLE-ICGAMKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGLP  323 (863)
Q Consensus       264 tR--~~~-v~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glP  323 (863)
                      +.  ... +.........+++.+.+.++-...+...+......-++   +...+|++.++|-.
T Consensus       161 ~~~~~~~~~~~l~~~~~~i~f~~~~~~~i~~~l~~i~~~e~i~i~~---~~l~~i~~~s~GDi  220 (253)
T d1sxja2         161 CNERNLPKMRPFDRVCLDIQFRRPDANSIKSRLMTIAIREKFKLDP---NVIDRLIQTTRGDI  220 (253)
T ss_dssp             ESCTTSSTTGGGTTTSEEEECCCCCHHHHHHHHHHHHHHHTCCCCT---THHHHHHHHTTTCH
T ss_pred             cccccccccccccceeeeeeccccchhHHHHHHHHHHHHhCCCCCH---HHHHHHHHhCCCcH
Confidence            32  222 22222334578999999999999888776543322222   34688999999966

>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=98.18  E-value=4.2e-05  Score=74.68  Aligned_cols=171  Identities=16%  Similarity=0.111  Sum_probs=98.6

Q ss_pred             CCccchhHHHHHHHHHhcC-----CCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHH
Q 048126          126 EPTVGLESMFDKVWRCLGE-----EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIG  200 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~-----~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~  200 (863)
                      +++||-+..++++..++..     ...+-+.++|++|+||||+|+.+++..   ...   .+.++.+.......+.. ++
T Consensus         9 ~divGqe~~~~~l~~~i~~~~~~~~~~~~~L~~GPpGtGKT~lA~~la~~~---~~~---~~~~~~~~~~~~~~~~~-~~   81 (238)
T d1in4a2           9 DEFIGQENVKKKLSLALEAAKMRGEVLDHVLLAGPPGLGKTTLAHIIASEL---QTN---IHVTSGPVLVKQGDMAA-IL   81 (238)
T ss_dssp             GGCCSCHHHHHHHHHHHHHHHHHTCCCCCEEEESSTTSSHHHHHHHHHHHH---TCC---EEEEETTTCCSHHHHHH-HH
T ss_pred             HHcCChHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCcHHHHHHHHHhcc---CCC---cccccCcccccHHHHHH-HH
Confidence            5689999999999988852     234557799999999999999999987   222   22333333323222211 11


Q ss_pred             HHhCCCCccccCCChhHHHHHHHHHhccCcEEEEEeccCCccc---------ccccc-----------CCCCCCCCCcEE
Q 048126          201 RRIGFLDESWKNGSLEDKASDILRILSKKKFLLLLDDIWERVD---------LTKVG-----------VPFPDPENKSKI  260 (863)
Q Consensus       201 ~~l~~~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~---------~~~~~-----------~~l~~~~~gs~I  260 (863)
                      ..                        .+++..+++|++.....         .+...           ...........+
T Consensus        82 ~~------------------------~~~~~~~~ide~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  137 (238)
T d1in4a2          82 TS------------------------LERGDVLFIDEIHRLNKAVEELLYSAIEDFQIDIMIGKGPSAKSIRIDIQPFTL  137 (238)
T ss_dssp             HH------------------------CCTTCEEEEETGGGCCHHHHHHHHHHHHTSCCCC---------------CCCEE
T ss_pred             Hh------------------------hccCCchHHHHHHHhhhHHHhhcccceeeeeeeeeecCcccccccccCCCCeEE
Confidence            11                        23345566666543210         00000           000011223445


Q ss_pred             EEecCch-hhh--hcccccceEeecCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCCchhHHHHHH
Q 048126          261 VFTTRFL-EIC--GAMKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGLPLALITIG  330 (863)
Q Consensus       261 ivTtR~~-~v~--~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPlai~~~~  330 (863)
                      |.+|... .+.  ........+.++..+.++...++...+....   .....+....|++.++|-+-.+..+.
T Consensus       138 I~at~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~l~~~~~~~~---~~~~~~~l~~i~~~s~gd~R~ai~~l  207 (238)
T d1in4a2         138 VGATTRSGLLSSPLRSRFGIILELDFYTVKELKEIIKRAASLMD---VEIEDAAAEMIAKRSRGTPRIAIRLT  207 (238)
T ss_dssp             EEEESCGGGSCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHTT---CCBCHHHHHHHHHTSTTCHHHHHHHH
T ss_pred             EEecCCCccccccceeeeeEEEEecCCCHHHHHHHHHHhhhhcc---chhhHHHHHHHHHhCCCCHHHHHHHH
Confidence            5555443 331  1122334678999999999999988776543   12335568899999999876665433

>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=98.15  E-value=1.4e-05  Score=76.15  Aligned_cols=181  Identities=12%  Similarity=0.054  Sum_probs=102.0

Q ss_pred             chhHHHHHHHHHhcCCC-ccEEEEEcCCCCcHHHHHHHHHhhhcCCCC-CCCEEEEEEeCCccCHHHHHHHHHHHhCCCC
Q 048126          130 GLESMFDKVWRCLGEEQ-VGIIGLYGMGGVGKTTLLTKINNKLLGAPN-DFDVVIWVVVSKDLQLEKIQEKIGRRIGFLD  207 (863)
Q Consensus       130 Gr~~~~~~l~~~L~~~~-~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~-~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~  207 (863)
                      +-+...+++.+.+..++ .+.+.++|+.|+||||+|+.+++....... ...     .+....+    ...+........
T Consensus         6 w~~~~~~~l~~~~~~~~l~h~lLl~Gp~G~GKtt~a~~~a~~l~~~~~~~~~-----~~~~~~~----~~~i~~~~~~~~   76 (207)
T d1a5ta2           6 WLRPDFEKLVASYQAGRGHHALLIQALPGMGDDALIYALSRYLLCQQPQGHK-----SCGHCRG----CQLMQAGTHPDY   76 (207)
T ss_dssp             GGHHHHHHHHHHHHTTCCCSEEEEECCTTSCHHHHHHHHHHHHTCSSCBTTB-----CCSCSHH----HHHHHHTCCTTE
T ss_pred             ccHHHHHHHHHHHHcCCcCeEEEEECCCCCcHHHHHHHHHHhcccccccccc-----cccccch----hhhhhhcccccc
Confidence            34556788888887766 456899999999999999999886510000 000     0000101    111111110000


Q ss_pred             ccc-----cCCChhHHHHHHHHHh-----ccCcEEEEEeccCCcc--ccccccCCCCCCCCCcEEEEecCchh-hhhcc-
Q 048126          208 ESW-----KNGSLEDKASDILRIL-----SKKKFLLLLDDIWERV--DLTKVGVPFPDPENKSKIVFTTRFLE-ICGAM-  273 (863)
Q Consensus       208 ~~~-----~~~~~~~~~~~l~~~l-----~~kr~LlVlDdv~~~~--~~~~~~~~l~~~~~gs~IivTtR~~~-v~~~~-  273 (863)
                      ...     ...-..+.+..+.+.+     .+++-++|+||++...  ....+...+.....++++|+||++.. +.... 
T Consensus        77 ~~~~~~~~~~~i~~~~ir~l~~~~~~~~~~~~~kviIide~d~l~~~a~n~Llk~lEep~~~~~fIl~t~~~~~ll~tI~  156 (207)
T d1a5ta2          77 YTLAPEKGKNTLGVDAVREVTEKLNEHARLGGAKVVWVTDAALLTDAAANALLKTLEEPPAETWFFLATREPERLLATLR  156 (207)
T ss_dssp             EEECCCTTCSSBCHHHHHHHHHHTTSCCTTSSCEEEEESCGGGBCHHHHHHHHHHHTSCCTTEEEEEEESCGGGSCHHHH
T ss_pred             chhhhhhcccccccchhhHHhhhhhhccccCccceEEechhhhhhhhhhHHHHHHHHhhcccceeeeeecChhhhhhhhc
Confidence            000     0000112223333333     2456799999998642  23344333444456788888777753 32222 


Q ss_pred             cccceEeecCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCCchhHHH
Q 048126          274 KAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGLPLALI  327 (863)
Q Consensus       274 ~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPlai~  327 (863)
                      .-...+.+.+++.++....+.+....        -++.+..|++.++|.|-.+.
T Consensus       157 SRc~~i~~~~~~~~~~~~~L~~~~~~--------~~~~~~~i~~~s~Gs~r~al  202 (207)
T d1a5ta2         157 SRCRLHYLAPPPEQYAVTWLSREVTM--------SQDALLAALRLSAGSPGAAL  202 (207)
T ss_dssp             TTSEEEECCCCCHHHHHHHHHHHCCC--------CHHHHHHHHHHTTTCHHHHH
T ss_pred             ceeEEEecCCCCHHHHHHHHHHcCCC--------CHHHHHHHHHHcCCCHHHHH
Confidence            22357899999999999988765321        14668889999999886543

>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=98.12  E-value=7.3e-05  Score=72.94  Aligned_cols=172  Identities=17%  Similarity=0.095  Sum_probs=97.2

Q ss_pred             CCccchhHHHHHHHHHhcC-----CCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHH
Q 048126          126 EPTVGLESMFDKVWRCLGE-----EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIG  200 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~-----~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~  200 (863)
                      +++||-+..++++..++..     ..++-+.++|++|+||||+|+.+++..   ...   ..+++.+...........+ 
T Consensus         9 ddivGq~~~~~~L~~~i~~~~~~~~~~~~~Ll~GPpG~GKTtla~~la~~~---~~~---~~~~~~~~~~~~~~~~~~~-   81 (239)
T d1ixsb2           9 DEYIGQERLKQKLRVYLEAAKARKEPLEHLLLFGPPGLGKTTLAHVIAHEL---GVN---LRVTSGPAIEKPGDLAAIL-   81 (239)
T ss_dssp             GGSCSCHHHHHHHHHHHHHHTTSSSCCCCEEEECCTTSCHHHHHHHHHHHH---TCC---EEEEETTTCCSHHHHHHHH-
T ss_pred             HHhCCHHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHh---CCC---eEeccCCccccchhhHHHH-
Confidence            4689999999998888742     235567799999999999999999987   222   2334433322222222111 


Q ss_pred             HHhCCCCccccCCChhHHHHHHHHHhccCcEEEEEeccCCccc-------------cccccCCC-------CCCCCCcEE
Q 048126          201 RRIGFLDESWKNGSLEDKASDILRILSKKKFLLLLDDIWERVD-------------LTKVGVPF-------PDPENKSKI  260 (863)
Q Consensus       201 ~~l~~~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~-------------~~~~~~~l-------~~~~~gs~I  260 (863)
                                            ...+ +.+.++++|+++....             ........       ....+...+
T Consensus        82 ----------------------~~~~-~~~~i~~iDe~~~~~~~~~~~l~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~  138 (239)
T d1ixsb2          82 ----------------------ANSL-EEGDILFIDEIHRLSRQAEEHLYPAMEDFVMDIVIGQGPAARTIRLELPRFTL  138 (239)
T ss_dssp             ----------------------HTTC-CTTCEEEEETGGGCCHHHHHHHHHHHHHSEEEEECSCTTCCCEEEEECCCCEE
T ss_pred             ----------------------Hhhc-cCCCeeeeecccccchhHHHhhhhhhhhhhhhhhhccchhhhhcccCCCCEEE
Confidence                                  1111 2233455676653200             00000000       001122334


Q ss_pred             EE-ecCchhh--hhcccccceEeecCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCCchhHHHHHH
Q 048126          261 VF-TTRFLEI--CGAMKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGLPLALITIG  330 (863)
Q Consensus       261 iv-TtR~~~v--~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPlai~~~~  330 (863)
                      +. |++....  .........+.+...+.++..++....+.....   ....+....|++.+.|.+-.+..+.
T Consensus       139 i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~i~~~~~~~~~i---~~~~~~l~~ia~~s~gd~R~a~~~l  208 (239)
T d1ixsb2         139 IGATTRPGLITAPLLSRFGIVEHLEYYTPEELAQGVMRDARLLGV---RITEEAALEIGRRSRGTMRVAKRLF  208 (239)
T ss_dssp             EEEESCCSSCSCGGGGGCSEEEECCCCCHHHHHHHHHHHHGGGCC---CBCHHHHHHHHHHTTSSHHHHHHHH
T ss_pred             EeeccCcccccchhhcccceeeEeeccChhhhhHHHHHHHHHhCC---ccchHHHHHHHHHcCCCHHHHHHHH
Confidence            43 4443322  222233456788999999999988877655432   2235678999999999876554433

>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=98.07  E-value=1.8e-05  Score=82.23  Aligned_cols=155  Identities=15%  Similarity=0.212  Sum_probs=89.0

Q ss_pred             CCccchhHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHhhhcC--C-CCCCCEEEEE-EeCCccCHHHHHHHHHH
Q 048126          126 EPTVGLESMFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLG--A-PNDFDVVIWV-VVSKDLQLEKIQEKIGR  201 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~--~-~~~F~~~~wv-~~s~~~~~~~~~~~i~~  201 (863)
                      +++|||+.+++++++.|....-.-+.+||.+|||||+++..++.+...  + ..-.+.++|. +++.      +.    .
T Consensus        22 d~~~gr~~ei~~~~~~L~r~~k~n~llvG~~GvGKtaiv~~la~~i~~~~vp~~l~~~~i~~ld~~~------l~----a   91 (387)
T d1qvra2          22 DPVIGRDEEIRRVIQILLRRTKNNPVLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIVSLQMGS------LL----A   91 (387)
T ss_dssp             CCCCSCHHHHHHHHHHHHCSSCCCCEEEECTTSCHHHHHHHHHHHHHHTCSCTTSTTCEEEEECC---------------
T ss_pred             CCCcCcHHHHHHHHHHHhcCCCCCCeEECCCCCCHHHHHHHHHHHHHhCCCCHHHcCceEEEeeHhh------hh----c
Confidence            357999999999999998655555678899999999998877766421  1 1223444543 3221      11    1


Q ss_pred             HhCCCCccccCCChhHHHHHHHHHh-cc-CcEEEEEeccCCcc---------ccccccCCCCCCCCCcEEEEecCchhhh
Q 048126          202 RIGFLDESWKNGSLEDKASDILRIL-SK-KKFLLLLDDIWERV---------DLTKVGVPFPDPENKSKIVFTTRFLEIC  270 (863)
Q Consensus       202 ~l~~~~~~~~~~~~~~~~~~l~~~l-~~-kr~LlVlDdv~~~~---------~~~~~~~~l~~~~~gs~IivTtR~~~v~  270 (863)
                      ..+      .....++....+...+ .. .+++|++|++....         +...+..|.. ....-++|-||...+..
T Consensus        92 g~~------~~g~~e~r~~~i~~~~~~~~~~~ilfide~h~l~~~g~~~g~~d~a~~Lkp~L-~rg~~~~I~~tT~~ey~  164 (387)
T d1qvra2          92 GAK------YRGEFEERLKAVIQEVVQSQGEVILFIDELHTVVGAGKAEGAVDAGNMLKPAL-ARGELRLIGATTLDEYR  164 (387)
T ss_dssp             ------------CHHHHHHHHHHHHHTTCSSEEEEECCC-------------------HHHH-HTTCCCEEEEECHHHHH
T ss_pred             ccC------cchhHHHHHHHHHHHhccCCCceEEEeccHHHHhcCCCCCCcccHHHHHHHHH-hCCCcceeeecCHHHHH
Confidence            000      1123344444444444 33 47999999997642         1112211111 12346788877776653


Q ss_pred             hc------ccccceEeecCCChHHHHHHHHHHh
Q 048126          271 GA------MKAHEFLKVECLGPEDAWRLFRENL  297 (863)
Q Consensus       271 ~~------~~~~~~~~l~~L~~~e~~~lf~~~~  297 (863)
                      ..      ......+.++..+.+++..++....
T Consensus       165 ~~e~d~al~rrF~~v~v~ep~~~~~~~il~~~~  197 (387)
T d1qvra2         165 EIEKDPALERRFQPVYVDEPTVEETISILRGLK  197 (387)
T ss_dssp             HHTTCTTTCSCCCCEEECCCCHHHHHHHHHHHH
T ss_pred             HhcccHHHHHhcccccCCCCcHHHHHHHHHHHH
Confidence            21      1223578999999999999988654

>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=98.03  E-value=1.5e-05  Score=77.94  Aligned_cols=171  Identities=16%  Similarity=0.134  Sum_probs=94.4

Q ss_pred             CCccchhHHHHHHHHHh---cC---------CCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHH
Q 048126          126 EPTVGLESMFDKVWRCL---GE---------EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLE  193 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L---~~---------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~  193 (863)
                      .+++|.++.+++|.+.+   ..         ...+-|.++|++|+|||++|+.+++..   ...   .+.+..+      
T Consensus         9 ~di~G~~~~k~~l~~~i~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~aia~~~---~~~---~~~i~~~------   76 (247)
T d1ixza_           9 KDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEA---RVP---FITASGS------   76 (247)
T ss_dssp             GGCCSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCSEEEEECCTTSSHHHHHHHHHHHT---TCC---EEEEEHH------
T ss_pred             HHHccHHHHHHHHHHHHHHHHCHHHHHHcCCCCCceEEEecCCCCChhHHHHHHHHHc---CCC---EEEEEhH------
Confidence            45789988877765543   21         234578899999999999999999887   222   2333321      


Q ss_pred             HHHHHHHHHhCCCCccccCCChhHHHHHHHHHhccCcEEEEEeccCCcc----------------ccccccCCCC--CCC
Q 048126          194 KIQEKIGRRIGFLDESWKNGSLEDKASDILRILSKKKFLLLLDDIWERV----------------DLTKVGVPFP--DPE  255 (863)
Q Consensus       194 ~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~----------------~~~~~~~~l~--~~~  255 (863)
                      .+..    .       +.......+...+...-+..+.+|++||++...                ....+...+.  ...
T Consensus        77 ~l~~----~-------~~g~~~~~l~~~f~~a~~~~p~Ii~iDeid~l~~~r~~~~~~~~~~~~~~~~~ll~~~d~~~~~  145 (247)
T d1ixza_          77 DFVE----M-------FVGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEKD  145 (247)
T ss_dssp             HHHH----S-------CTTHHHHHHHHHHHHHTTSSSEEEEEETHHHHHC---------CHHHHHHHHHHHHHHHTCCTT
T ss_pred             Hhhh----c-------cccHHHHHHHHHHHHHHHcCCEEEEEEChhhhCccCCCCCCCCcHHHHHHHHHHHHHhhCCCCC
Confidence            2111    0       011111122222223334578999999986310                0111111111  112


Q ss_pred             CCcEEEEecCchhh-hhcc----cccceEeecCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCCch
Q 048126          256 NKSKIVFTTRFLEI-CGAM----KAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGLP  323 (863)
Q Consensus       256 ~gs~IivTtR~~~v-~~~~----~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glP  323 (863)
                      .+.-||-||....- ...+    .-...+.++..+.++-.++|+..........+.+    ...+++.+.|..
T Consensus       146 ~~vivi~tTn~~~~ld~al~R~~Rf~~~i~~~~P~~~eR~~il~~~l~~~~~~~~~~----~~~la~~t~g~s  214 (247)
T d1ixza_         146 TAIVVMAATNRPDILDPALLRPGRFDRQIAIDAPDVKGREQILRIHARGKPLAEDVD----LALLAKRTPGFV  214 (247)
T ss_dssp             CCEEEEEEESCGGGSCGGGGSTTSSCEEEECCSCCHHHHHHHHHHHHTTSCBCTTCC----HHHHHHTCTTCC
T ss_pred             CCEEEEEeCCCccccCHhHcCCCCCcEEEEECCcCHHHHHHHHHHHhcccCCccccC----HHHHHHHCCCCC
Confidence            23333346655432 2222    2345789999999999999998876543223333    356677777753

>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=97.99  E-value=7.7e-05  Score=72.95  Aligned_cols=171  Identities=15%  Similarity=0.133  Sum_probs=98.7

Q ss_pred             CCccchhHHHHHHHHHh---cC---------CCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHH
Q 048126          126 EPTVGLESMFDKVWRCL---GE---------EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLE  193 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L---~~---------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~  193 (863)
                      .+++|.++.+++|.+.+   ..         ...+.+.++|++|+|||++|+.+++..   ..+   .+.|..+.-.+  
T Consensus        12 ~Di~Gl~~~k~~l~e~v~~~~~~~~~~~~g~~~~~~iLL~GppGtGKT~la~~iA~~~---~~~---~~~i~~~~l~~--   83 (256)
T d1lv7a_          12 ADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEA---KVP---FFTISGSDFVE--   83 (256)
T ss_dssp             GGSCSCHHHHHHTHHHHHHHHCGGGC-----CCCCEEEEECCTTSCHHHHHHHHHHHH---TCC---EEEECSCSSTT--
T ss_pred             HHHhchHHHHHHHHHHHHHHHCHHHHHHcCCCCCCeEEeeCCCCCCccHHHHHHHHHc---CCC---EEEEEhHHhhh--
Confidence            46789998888876543   21         235678899999999999999999987   222   23333322111  


Q ss_pred             HHHHHHHHHhCCCCccccCCChhHHHHHHHHHhccCcEEEEEeccCCc------------cc----cccccCCCC--CCC
Q 048126          194 KIQEKIGRRIGFLDESWKNGSLEDKASDILRILSKKKFLLLLDDIWER------------VD----LTKVGVPFP--DPE  255 (863)
Q Consensus       194 ~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~------------~~----~~~~~~~l~--~~~  255 (863)
                                     .+.......+...+...-+..+.+|++||++..            ..    +..+...+.  ...
T Consensus        84 ---------------~~~g~~~~~l~~~f~~A~~~~P~il~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~~d~~~~~  148 (256)
T d1lv7a_          84 ---------------MFVGVGASRVRDMFEQAKKAAPCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFEGN  148 (256)
T ss_dssp             ---------------SCCCCCHHHHHHHHHHHHTTCSEEEEETTHHHHTCCCSTTSCCTTCHHHHHHHHHHHHHHTCCSS
T ss_pred             ---------------cchhHHHHHHHHHHHHHHHcCCEEEEEEChhhhCccCCCCCCCCcHHHHHHHHHHHHHhhCCCCC
Confidence                           011222333333344444567899999998531            00    111111111  123


Q ss_pred             CCcEEEEecCchhhh-hcc----cccceEeecCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCCch
Q 048126          256 NKSKIVFTTRFLEIC-GAM----KAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGLP  323 (863)
Q Consensus       256 ~gs~IivTtR~~~v~-~~~----~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glP  323 (863)
                      .+.-||-||...... ..+    .-++.+.++..+.++-.++|+............+    ...+++.+.|..
T Consensus       149 ~~v~vIatTn~~~~ld~al~R~gRfd~~i~i~~P~~~~R~~il~~~l~~~~~~~~~~----~~~la~~t~G~s  217 (256)
T d1lv7a_         149 EGIIVIAATNRPDVLDPALLRPGRFDRQVVVGLPDVRGREQILKVHMRRVPLAPDID----AAIIARGTPGFS  217 (256)
T ss_dssp             SCEEEEEEESCTTTSCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHHTTSCBCTTCC----HHHHHHTCTTCC
T ss_pred             CCEEEEEeCCCcccCCHhHcCCCCCCEEEECCCcCHHHHHHHHHHhccCCCcCcccC----HHHHHHhCCCCC
Confidence            344455577654332 211    2346788999999999999988775543222223    356677787764

>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=97.97  E-value=3e-05  Score=73.91  Aligned_cols=148  Identities=18%  Similarity=0.205  Sum_probs=83.9

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHHHHhCCCCccccCCChhHHHHHHHHHh
Q 048126          147 VGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGRRIGFLDESWKNGSLEDKASDILRIL  226 (863)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l  226 (863)
                      ...+.|+|+.|+|||.|++++++...   .....++|++.      .++...+...+...       ...    .+.+.+
T Consensus        36 ~n~l~l~G~~G~GKTHLl~A~~~~~~---~~~~~~~~~~~------~~~~~~~~~~~~~~-------~~~----~~~~~~   95 (213)
T d1l8qa2          36 YNPIFIYGSVGTGKTHLLQAAGNEAK---KRGYRVIYSSA------DDFAQAMVEHLKKG-------TIN----EFRNMY   95 (213)
T ss_dssp             CSSEEEECSSSSSHHHHHHHHHHHHH---HTTCCEEEEEH------HHHHHHHHHHHHHT-------CHH----HHHHHH
T ss_pred             CCcEEEECCCCCcHHHHHHHHHHHhc---cCccceEEech------HHHHHHHHHHHHcc-------chh----hHHHHH
Confidence            34588999999999999999999982   33345666643      34444444433211       111    122222


Q ss_pred             ccCcEEEEEeccCCc---ccccc-ccCCCCC-CCCCcEEEEecCchh---------hhhcccccceEeecCCChHHHHHH
Q 048126          227 SKKKFLLLLDDIWER---VDLTK-VGVPFPD-PENKSKIVFTTRFLE---------ICGAMKAHEFLKVECLGPEDAWRL  292 (863)
Q Consensus       227 ~~kr~LlVlDdv~~~---~~~~~-~~~~l~~-~~~gs~IivTtR~~~---------v~~~~~~~~~~~l~~L~~~e~~~l  292 (863)
                      + .--+|++||++..   ..|+. +...+.. ...|.+||+|++...         +..++....++.++ .++++-.++
T Consensus        96 ~-~~dll~iDDi~~i~~~~~~~~~lf~lin~~~~~~~~iiits~~~p~~l~~~~~dL~SRL~~g~~~~i~-p~d~~~~~i  173 (213)
T d1l8qa2          96 K-SVDLLLLDDVQFLSGKERTQIEFFHIFNTLYLLEKQIILASDRHPQKLDGVSDRLVSRFEGGILVEIE-LDNKTRFKI  173 (213)
T ss_dssp             H-TCSEEEEECGGGGTTCHHHHHHHHHHHHHHHHTTCEEEEEESSCGGGCTTSCHHHHHHHHTSEEEECC-CCHHHHHHH
T ss_pred             h-hccchhhhhhhhhcCchHHHHHHHHHHHHHhhccceEEEecCCcchhccccchHHHHHhhCceEEEEC-CCcHHHHHH
Confidence            2 3458999999754   23332 1111111 235778999998643         23334445577786 577777778


Q ss_pred             HHHHhcccccCCCCChHHHHHHHHHHh
Q 048126          293 FRENLRRDVLDNHPDIPELARSVAKEY  319 (863)
Q Consensus       293 f~~~~~~~~~~~~~~~~~~~~~i~~~c  319 (863)
                      +++.+......-+   .++..-|++++
T Consensus       174 L~~~a~~rgl~l~---~~v~~yl~~~~  197 (213)
T d1l8qa2         174 IKEKLKEFNLELR---KEVIDYLLENT  197 (213)
T ss_dssp             HHHHHHHTTCCCC---HHHHHHHHHHC
T ss_pred             HHHHHHHcCCCCC---HHHHHHHHHhc
Confidence            8777754332211   34445555444

>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=97.85  E-value=8.3e-05  Score=73.22  Aligned_cols=171  Identities=12%  Similarity=0.088  Sum_probs=99.5

Q ss_pred             CCccchhHHHHHHHHHhc----C---------CCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCH
Q 048126          126 EPTVGLESMFDKVWRCLG----E---------EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQL  192 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~----~---------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~  192 (863)
                      ++++|.+..+++|.+.+.    .         ...+-|-++|++|+|||++|+.+++..   ..+   .+.+..+     
T Consensus         4 ~dv~G~~~~k~~l~~~i~~~l~~~~~~~~~g~~~~~giLL~GppGtGKT~l~~ala~~~---~~~---~~~i~~~-----   72 (258)
T d1e32a2           4 DDVGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANET---GAF---FFLINGP-----   72 (258)
T ss_dssp             GGCCSCSHHHHHHHHHHHHHHHCHHHHHHCCCCCCCEEEEECCTTSSHHHHHHHHHHHT---TCE---EEEECHH-----
T ss_pred             hhhccHHHHHHHHHHHHHHHhcCHHHHHhCCCCCCceeEEecCCCCCchHHHHHHHHHh---CCe---EEEEEch-----
Confidence            357899999888888642    1         235678899999999999999999986   222   2233211     


Q ss_pred             HHHHHHHHHHhCCCCccccCCChhHHHHHHHHHhccCcEEEEEeccCCcc---------c----cccccCC--CCCCCCC
Q 048126          193 EKIQEKIGRRIGFLDESWKNGSLEDKASDILRILSKKKFLLLLDDIWERV---------D----LTKVGVP--FPDPENK  257 (863)
Q Consensus       193 ~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~---------~----~~~~~~~--l~~~~~g  257 (863)
                       .+.        ..   +.......+...+...-+.++.+|++||++...         .    ...+...  ......+
T Consensus        73 -~l~--------~~---~~g~~~~~l~~~f~~A~~~~p~il~iDeid~l~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~  140 (258)
T d1e32a2          73 -EIM--------SK---LAGESESNLRKAFEEAEKNAPAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQRAH  140 (258)
T ss_dssp             -HHT--------TS---CTTHHHHHHHHHHHHHHHTCSEEEEESSGGGTCCHHHHCCCTTHHHHHHHHHHHHHTCCCSSC
T ss_pred             -hhc--------cc---ccccHHHHHHHHHHHHHhcCCeEEEehhhhhhccCCCCCCCchHHHHHHHhccccccccccCC
Confidence             110        00   011111222223333345688999999997531         0    0111100  1123344


Q ss_pred             cEEEEecCchhhhh-cc----cccceEeecCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCCch
Q 048126          258 SKIVFTTRFLEICG-AM----KAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGLP  323 (863)
Q Consensus       258 s~IivTtR~~~v~~-~~----~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glP  323 (863)
                      .-||.||....-.. .+    .-+..+.++..+.++-.++|+..........+.+    ...|++.+.|.-
T Consensus       141 vlvi~tTn~~~~ld~al~r~gRfd~~i~~~~P~~~~R~~il~~~l~~~~~~~~~~----~~~la~~t~G~s  207 (258)
T d1e32a2         141 VIVMAATNRPNSIDPALRRFGRFDREVDIGIPDATGRLEILQIHTKNMKLADDVD----LEQVANETHGHV  207 (258)
T ss_dssp             EEEEEEESCGGGSCGGGTSTTSSCEEEECCCCCHHHHHHHHHHTTTTSCBCTTCC----HHHHHHHCTTCC
T ss_pred             ccEEEeCCCccccchhhhhcccccceeECCCCCHHHHHHHhhhhccCcccccccc----hhhhhhcccCCC
Confidence            55566887654421 11    2346789999999999999988775433222222    367888888853

>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=97.62  E-value=5.6e-06  Score=75.56  Aligned_cols=86  Identities=26%  Similarity=0.248  Sum_probs=55.0

Q ss_pred             chhhhcCCCccEEEccCCCccc--cCCccccccCCCCeEEccCCCccccch-hhhcCCCCCEEecCCccccCCCcH----
Q 048126          533 GDFFQFMPSLRVFNMSNNHLLW--KLPSGISTLVSLEHLDLSGTAITHLPI-ELQKLVNLKCLNLEYMYNLNQFPR----  605 (863)
Q Consensus       533 ~~~~~~l~~L~~L~L~~~~~~~--~lp~~i~~l~~L~~L~L~~~~l~~lp~-~~~~l~~L~~L~l~~~~~l~~lp~----  605 (863)
                      ...+..+++|++|+|++|.+..  .++..+..+++|++|+|++|.|+.++. ......+|+.|++++|+.......    
T Consensus        58 ~~~~~~~~~L~~L~Ls~N~i~~l~~~~~~~~~l~~L~~L~Ls~N~i~~l~~l~~l~~~~L~~L~L~~Npl~~~~~~~~~y  137 (162)
T d1koha1          58 RIIEENIPELLSLNLSNNRLYRLDDMSSIVQKAPNLKILNLSGNELKSERELDKIKGLKLEELWLDGNSLSDTFRDQSTY  137 (162)
T ss_dssp             HHHHHHCTTCCCCCCCSSCCCCCSGGGTHHHHSTTCCCCCCTTSCCCCGGGHHHHTTCCCSSCCCTTSTTSSSSSSHHHH
T ss_pred             HHHHHhCCCCCEeeCCCccccCCchhHHHHhhCCcccccccccCccccchhhhhhhccccceeecCCCCcCcCcccchhH
Confidence            3445678888888888884432  234456678888888888888887765 233445688888888743222221    


Q ss_pred             --HHhhcCCCCcEEE
Q 048126          606 --LVMSAFSKLQVLR  618 (863)
Q Consensus       606 --~~~~~L~~L~~L~  618 (863)
                        .++..+++|+.|+
T Consensus       138 ~~~i~~~~P~L~~LD  152 (162)
T d1koha1         138 ISAIRERFPKLLRLD  152 (162)
T ss_dssp             HHHHHTTSTTCCEET
T ss_pred             HHHHHHHCCCCCEEC
Confidence              2345677777765

>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=97.61  E-value=4.5e-06  Score=76.25  Aligned_cols=106  Identities=22%  Similarity=0.090  Sum_probs=71.2

Q ss_pred             CCCccEEEccCCCccccCCccccccCCCCeEEccCCCccccc---hhhhcCCCCCEEecCCccccCCCcHHHhhcCCCCc
Q 048126          539 MPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSGTAITHLP---IELQKLVNLKCLNLEYMYNLNQFPRLVMSAFSKLQ  615 (863)
Q Consensus       539 l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~~~l~~lp---~~~~~l~~L~~L~l~~~~~l~~lp~~~~~~L~~L~  615 (863)
                      +..+..++..++ ....++.....+++|++|+|++|+|+.++   ..+..+++|+.|++++| .+..++.....+..+|+
T Consensus        41 ~~~~~~l~~~~~-~~~~l~~~~~~~~~L~~L~Ls~N~i~~l~~~~~~~~~l~~L~~L~Ls~N-~i~~l~~l~~l~~~~L~  118 (162)
T d1koha1          41 QNIDVVLNRRSS-MAATLRIIEENIPELLSLNLSNNRLYRLDDMSSIVQKAPNLKILNLSGN-ELKSERELDKIKGLKLE  118 (162)
T ss_dssp             TTCCCCTTSHHH-HHHHHHHHHHHCTTCCCCCCCSSCCCCCSGGGTHHHHSTTCCCCCCTTS-CCCCGGGHHHHTTCCCS
T ss_pred             ccchhhcchhhh-HhhhhHHHHHhCCCCCEeeCCCccccCCchhHHHHhhCCcccccccccC-ccccchhhhhhhccccc
Confidence            333444444333 33334444567899999999999998664   45788999999999998 67888764344556799


Q ss_pred             EEEeeccccccCc---hhhHHHHHcCCccCceEE
Q 048126          616 VLRILKSNVLFGG---HQFLVEELMGMKHLMALT  646 (863)
Q Consensus       616 ~L~l~~~~~~~~~---~~~~~~~l~~L~~L~~L~  646 (863)
                      .|++.+|.+....   ......-+..+++|+.|+
T Consensus       119 ~L~L~~Npl~~~~~~~~~y~~~i~~~~P~L~~LD  152 (162)
T d1koha1         119 ELWLDGNSLSDTFRDQSTYISAIRERFPKLLRLD  152 (162)
T ss_dssp             SCCCTTSTTSSSSSSHHHHHHHHHTTSTTCCEET
T ss_pred             eeecCCCCcCcCcccchhHHHHHHHHCCCCCEEC
Confidence            9999998775421   122233455667777664

>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=97.59  E-value=0.0011  Score=64.06  Aligned_cols=46  Identities=20%  Similarity=0.109  Sum_probs=35.1

Q ss_pred             CCccchhHHHHHHHHHhc-------C---CCccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          126 EPTVGLESMFDKVWRCLG-------E---EQVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~-------~---~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ..+||..+.++.+++-..       .   ...+-|.++|++|+|||++|+.+++..
T Consensus         9 ~~~i~~~~~i~~i~~~~~~~~~~~~~~~~~p~~~vLL~GppGtGKT~la~alA~~~   64 (246)
T d1d2na_           9 NGIIKWGDPVTRVLDDGELLVQQTKNSDRTPLVSVLLEGPPHSGKTALAAKIAEES   64 (246)
T ss_dssp             TCCCCCSHHHHHHHHHHHHHHHHHHHCSSCSEEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             cCCcCcCHHHHHHHHHHHHHHHHHhccCCCCCeEEEEECcCCCCHHHHHHHHhhcc
Confidence            457888777776665543       1   234568899999999999999999987

>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=97.54  E-value=0.00023  Score=70.13  Aligned_cols=173  Identities=17%  Similarity=0.196  Sum_probs=95.4

Q ss_pred             CCccchhHHHHHHHHHhc----C---------CCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCH
Q 048126          126 EPTVGLESMFDKVWRCLG----E---------EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQL  192 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~----~---------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~  192 (863)
                      .+++|.+..+++|.+.+.    .         ...+.|-++|++|+|||+||+.+++..   ..+     ++.++    .
T Consensus         7 ~di~G~~~~k~~l~~~i~~~l~~~~~~~~~g~~~~~giLL~Gp~GtGKT~l~~ala~~~---~~~-----~~~~~----~   74 (265)
T d1r7ra3           7 EDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANEC---QAN-----FISIK----G   74 (265)
T ss_dssp             SSCSSSSCCCCHHHHHTHHHHHCHHHHHHCCCCCCCEEEEBCCTTSSHHHHHHHHHHHT---TCE-----EEEEC----H
T ss_pred             HHhcCHHHHHHHHHHHHHHHhhCHHHHHhCCCCCCCeEEEECCCCCcchhHHHHHHHHh---CCc-----EEEEE----H
Confidence            456788877666666542    1         234578899999999999999999987   222     12222    1


Q ss_pred             HHHHHHHHHHhCCCCccccCCChhHHHHHHHHHhccCcEEEEEeccCCcc--------c--------cccccCCCCC--C
Q 048126          193 EKIQEKIGRRIGFLDESWKNGSLEDKASDILRILSKKKFLLLLDDIWERV--------D--------LTKVGVPFPD--P  254 (863)
Q Consensus       193 ~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~--------~--------~~~~~~~l~~--~  254 (863)
                      ..+.       +..    .......+...+...-...+.+|++||++...        .        ...+...+..  .
T Consensus        75 ~~l~-------~~~----~~~~~~~l~~~f~~A~~~~p~il~ideid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~  143 (265)
T d1r7ra3          75 PELL-------TMW----FGESEANVREIFDKARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMST  143 (265)
T ss_dssp             HHHH-------TSC----TTTHHHHHHHHHHHHHHTCSEEEEESSGGGTCCHHHHCCCTTHHHHHHHHHHHHHTCC----
T ss_pred             HHhh-------hcc----ccchHHHHHHHHHHHHhcCCcceeHHhhhhccccCCCcCCCCcHHHHHHHHHHHHHhhCcCC
Confidence            1111       000    11112222233333444678999999997421        0        1112222211  2


Q ss_pred             CCCcEEEEecCchhh-hhcc----cccceEeecCCChHHHHHHHHHHhcccccCCCCChHHHHHHHHHHhCCchhH
Q 048126          255 ENKSKIVFTTRFLEI-CGAM----KAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAKEYAGLPLA  325 (863)
Q Consensus       255 ~~gs~IivTtR~~~v-~~~~----~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPla  325 (863)
                      ..+.-||.||....- ...+    .-...++++..+.++-.++|+..+.......+.+    ..+|++++.|...|
T Consensus       144 ~~~v~vi~ttn~~~~ld~al~r~gRf~~~i~~~~p~~~~R~~il~~~l~~~~~~~~~~----l~~la~~t~g~s~~  215 (265)
T d1r7ra3         144 KKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDEKSRVAILKANLRKSPVAKDVD----LEFLAKMTNGFSGA  215 (265)
T ss_dssp             --CCEEEECCBSCTTTSCGGGSSTTSEEEEECCCCCCHHHHHHHHHHTTCC----CCC----CHHHHHHHCSSCCH
T ss_pred             CCCEEEEEeCCCchhCCHHHhCCCCccEEEEecchHHHHHHHHHHHHhccCCchhhhh----HHHHHhcCCCCCHH
Confidence            234455667665432 1211    2345789999999999999987765432222223    36677788776533

>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=97.05  E-value=0.0015  Score=60.87  Aligned_cols=115  Identities=12%  Similarity=0.116  Sum_probs=68.7

Q ss_pred             HHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHhhhcC-CCCCCCEEEEEEe-CCccCHHHHHHHHHHHhCCCCcccc
Q 048126          134 MFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLG-APNDFDVVIWVVV-SKDLQLEKIQEKIGRRIGFLDESWK  211 (863)
Q Consensus       134 ~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~-~~~~F~~~~wv~~-s~~~~~~~~~~~i~~~l~~~~~~~~  211 (863)
                      .++-+.+++.......+.++|.+|+||||+|..+.+.... ...|.|. +++.- +....++++. ++.+.+....    
T Consensus         2 ~~~~l~~~i~~~~~~~~l~~G~~g~gk~~~a~~l~~~i~~~~~~h~D~-~~i~~~~~~I~Id~IR-~i~~~~~~~~----   75 (198)
T d2gnoa2           2 QLETLKRIIEKSEGISILINGEDLSYPREVSLELPEYVEKFPPKASDV-LEIDPEGENIGIDDIR-TIKDFLNYSP----   75 (198)
T ss_dssp             HHHHHHHHHHTCSSEEEEEECSSSSHHHHHHHHHHHHHHTSCCCTTTE-EEECCSSSCBCHHHHH-HHHHHHTSCC----
T ss_pred             HHHHHHHHHhcCCCceEEEECCCCCCHHHHHHHHHHHHhccccCCCCE-EEEeCCcCCCCHHHHH-HHHHHHhhCc----
Confidence            3556667777778889999999999999999999886521 1233443 33432 2222344332 3444443321    


Q ss_pred             CCChhHHHHHHHHHhccCcEEEEEeccCCc--cccccccCCCCCCCCCcEEEEecCchh
Q 048126          212 NGSLEDKASDILRILSKKKFLLLLDDIWER--VDLTKVGVPFPDPENKSKIVFTTRFLE  268 (863)
Q Consensus       212 ~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~--~~~~~~~~~l~~~~~gs~IivTtR~~~  268 (863)
                                    ..+++=++|+|+++..  .....+...+.....++.+|++|.+..
T Consensus        76 --------------~~~~~KviIId~ad~l~~~aqNaLLK~LEEPp~~t~fiLit~~~~  120 (198)
T d2gnoa2          76 --------------ELYTRKYVIVHDCERMTQQAANAFLKALEEPPEYAVIVLNTRRWH  120 (198)
T ss_dssp             --------------SSSSSEEEEETTGGGBCHHHHHHTHHHHHSCCTTEEEEEEESCGG
T ss_pred             --------------ccCCCEEEEEeCccccchhhhhHHHHHHhCCCCCceeeeccCChh
Confidence                          1245558999999864  334444444434445677776666643

>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=96.74  E-value=0.0026  Score=59.17  Aligned_cols=91  Identities=15%  Similarity=0.201  Sum_probs=54.6

Q ss_pred             CCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCH--HHHHHHHHHHhCCCCccc-cCCChhHHHHH
Q 048126          145 EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQL--EKIQEKIGRRIGFLDESW-KNGSLEDKASD  221 (863)
Q Consensus       145 ~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~--~~~~~~i~~~l~~~~~~~-~~~~~~~~~~~  221 (863)
                      ....||.++|+.|+||||.+.+++... . +..  ..+.+-..+.+.+  .+.++..++.++++.... ...+.......
T Consensus         7 ~~p~vi~lvGptGvGKTTTiAKLA~~~-~-~~g--~kV~lit~Dt~R~gA~eQL~~~a~~l~v~~~~~~~~~d~~~~l~~   82 (211)
T d2qy9a2           7 KAPFVILMVGVNGVGKTTTIGKLARQF-E-QQG--KSVMLAAGDTFRAAAVEQLQVWGQRNNIPVIAQHTGADSASVIFD   82 (211)
T ss_dssp             CTTEEEEEECCTTSCHHHHHHHHHHHH-H-TTT--CCEEEECCCTTCHHHHHHHHHHHHHTTCCEECCSTTCCHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHH-H-HCC--CcEEEEecccccccchhhhhhhhhhcCCcccccccCCCHHHHHHH
Confidence            457899999999999999999998887 2 222  2344444455544  566788888888765321 12223333333


Q ss_pred             HHHHhccCcE-EEEEeccC
Q 048126          222 ILRILSKKKF-LLLLDDIW  239 (863)
Q Consensus       222 l~~~l~~kr~-LlVlDdv~  239 (863)
                      ..+..+.+.+ ++++|=.-
T Consensus        83 ~~~~a~~~~~d~ilIDTaG  101 (211)
T d2qy9a2          83 AIQAAKARNIDVLIADTAG  101 (211)
T ss_dssp             HHHHHHHTTCSEEEECCCC
T ss_pred             HHHHHHHcCCCEEEeccCC
Confidence            3332223333 66777654

>d1io0a_ c.10.1.1 (A:) Tropomodulin C-terminal domain {Chicken (Gallus gallus) [TaxId: 9031]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Tropomodulin C-terminal domain
species: Chicken (Gallus gallus) [TaxId: 9031]

Probab=96.61  E-value=0.00081  Score=60.93  Aligned_cols=116  Identities=17%  Similarity=0.121  Sum_probs=57.9

Q ss_pred             hcCCCccEEEccCCCccc-----cCCccccccCCCCeEEccCCCcc-----ccchhhhcCCCCCEEecCCccccC----C
Q 048126          537 QFMPSLRVFNMSNNHLLW-----KLPSGISTLVSLEHLDLSGTAIT-----HLPIELQKLVNLKCLNLEYMYNLN----Q  602 (863)
Q Consensus       537 ~~l~~L~~L~L~~~~~~~-----~lp~~i~~l~~L~~L~L~~~~l~-----~lp~~~~~l~~L~~L~l~~~~~l~----~  602 (863)
                      .+.+.|++|+|+++..++     .+-..+...++|+.|++++|.+.     .+-..+...++|+.|++++|..-.    .
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
Confidence            445556666665532221     12233445566666666666554     233345555667777766652110    1


Q ss_pred             CcHHHhhcCCCCcEEEeecc--ccccCchhhHHHHHcCCccCceEEEEEcChH
Q 048126          603 FPRLVMSAFSKLQVLRILKS--NVLFGGHQFLVEELMGMKHLMALTITLKSWE  653 (863)
Q Consensus       603 lp~~~~~~L~~L~~L~l~~~--~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~  653 (863)
                      +.. .+...++|+.+++..+  .+...+.......+...++|+.|++.++...
T Consensus        94 l~~-~l~~~~~L~~l~L~l~~n~i~~~~~~~La~~L~~n~~L~~L~l~~~~~~  145 (166)
T d1io0a_          94 LVE-ALQSNTSLIELRIDNQSQPLGNNVEMEIANMLEKNTTLLKFGYHFTQQG  145 (166)
T ss_dssp             HHH-GGGGCSSCCEEECCCCSSCCCHHHHHHHHHHHHHCSSCCEEECCCSSHH
T ss_pred             HHH-HHHhCccccEEeeccCCCcCcHHHHHHHHHHHHhCCCcCEEeCcCCCCc
Confidence            111 1345566766555433  2222222334455666677777777665543

>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=96.57  E-value=0.00077  Score=61.11  Aligned_cols=19  Identities=16%  Similarity=0.258  Sum_probs=10.2

Q ss_pred             HHHHcCCccCceEEEEEcC
Q 048126          633 VEELMGMKHLMALTITLKS  651 (863)
Q Consensus       633 ~~~l~~L~~L~~L~l~~~~  651 (863)
                      ...+..-+.|+.|++++..
T Consensus       124 ~~~L~~n~sL~~l~l~~~~  142 (167)
T d1pgva_         124 MMAIEENESLLRVGISFAS  142 (167)
T ss_dssp             HHHHHHCSSCCEEECCCCC
T ss_pred             HHHHHhCCCccEeeCcCCC
Confidence            3444445566666665543

>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=96.39  E-value=0.00078  Score=62.27  Aligned_cols=25  Identities=20%  Similarity=0.399  Sum_probs=23.4

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          147 VGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      .+.|+|.|+.|+||||||+.+++..
T Consensus         7 ~K~I~i~G~~GsGKTTla~~La~~~   31 (192)
T d1lw7a2           7 AKTVAILGGESSGKSVLVNKLAAVF   31 (192)
T ss_dssp             CEEEEEECCTTSHHHHHHHHHHHHT
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHHh
Confidence            5789999999999999999999986

>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=96.32  E-value=0.00078  Score=60.76  Aligned_cols=24  Identities=33%  Similarity=0.383  Sum_probs=22.1

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          148 GIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      +.|.++|++|+||||+|+.++...
T Consensus         3 k~I~l~G~~GsGKSTvak~La~~L   26 (169)
T d1kaga_           3 RNIFLVGPMGAGKSTIGRQLAQQL   26 (169)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHHT
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHh
Confidence            468899999999999999999987

>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=96.32  E-value=0.0066  Score=56.30  Aligned_cols=60  Identities=18%  Similarity=0.238  Sum_probs=45.2

Q ss_pred             CCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCC-ccCHHHHHHHHHHHhCCCC
Q 048126          145 EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSK-DLQLEKIQEKIGRRIGFLD  207 (863)
Q Consensus       145 ~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~-~~~~~~~~~~i~~~l~~~~  207 (863)
                      ++.++|.++|+.|+||||.+.+++.... . .. ..+..|++.. .....+.++..++.++.+.
T Consensus         4 ~~~~vi~lvGptGvGKTTTiaKLA~~~~-~-~g-~kV~lit~Dt~R~gA~eQL~~~a~~l~i~~   64 (207)
T d1okkd2           4 PKGRVVLVVGVNGVGKTTTIAKLGRYYQ-N-LG-KKVMFCAGDTFRAAGGTQLSEWGKRLSIPV   64 (207)
T ss_dssp             CSSSEEEEECSTTSSHHHHHHHHHHHHH-T-TT-CCEEEECCCCSSTTHHHHHHHHHHHHTCCE
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHH-H-CC-CcEEEEEeccccccchhhHhhcccccCceE
Confidence            4568999999999999999999988773 2 23 3466776543 4456778888899888764

>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=96.28  E-value=0.001  Score=61.02  Aligned_cols=37  Identities=22%  Similarity=0.069  Sum_probs=28.0

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEE
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWV  184 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv  184 (863)
                      +-.+|.++|++|+||||+|+.++....  ..+++...++
T Consensus         5 ~g~~I~l~G~~GsGKTTia~~La~~L~--~~~~~~~~~~   41 (183)
T d1m8pa3           5 QGFTIFLTGYMNSGKDAIARALQVTLN--QQGGRSVSLL   41 (183)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHHH--HHCSSCEEEE
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHh--hcCCCchhhh
Confidence            346889999999999999999998872  2344545444

>d1vmaa2 c.37.1.10 (A:82-294) GTPase domain of the signal recognition particle receptor FtsY {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Thermotoga maritima [TaxId: 2336]

Probab=96.27  E-value=0.0054  Score=57.14  Aligned_cols=60  Identities=22%  Similarity=0.258  Sum_probs=43.5

Q ss_pred             CCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCC-ccCHHHHHHHHHHHhCCCC
Q 048126          145 EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSK-DLQLEKIQEKIGRRIGFLD  207 (863)
Q Consensus       145 ~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~-~~~~~~~~~~i~~~l~~~~  207 (863)
                      ....||.++|+.|+||||.+.+++.... . .+ ..+..|++.. .....+.++..++.++.+.
T Consensus         9 ~~p~vi~lvGptGvGKTTTiAKLAa~~~-~-~~-~kV~lit~Dt~R~gA~eQL~~~a~~l~i~~   69 (213)
T d1vmaa2           9 EPPFVIMVVGVNGTGKTTSCGKLAKMFV-D-EG-KSVVLAAADTFRAAAIEQLKIWGERVGATV   69 (213)
T ss_dssp             SSCEEEEEECCTTSSHHHHHHHHHHHHH-H-TT-CCEEEEEECTTCHHHHHHHHHHHHHHTCEE
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHH-H-CC-CceEEEeecccccchhHHHHHHhhhcCccc
Confidence            4567999999999999999888888772 2 22 3466776553 3345567888888888754

>d1mo6a1 c.37.1.11 (A:1-269) RecA protein, ATPase-domain {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=96.26  E-value=0.0073  Score=58.50  Aligned_cols=87  Identities=15%  Similarity=0.182  Sum_probs=61.2

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHHHHhCCCCcc---ccCCChhHHHHHH
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGRRIGFLDES---WKNGSLEDKASDI  222 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~---~~~~~~~~~~~~l  222 (863)
                      .-+++-|+|..|+||||+|.+++....   ..=..++||+.-..++.+.     +++++...+.   ....+.++..+.+
T Consensus        59 ~g~i~e~~G~~~~GKT~l~l~~~~~~q---~~g~~~vyIDtE~~~~~e~-----a~~~GvD~d~il~~~~~~~E~~~~~~  130 (269)
T d1mo6a1          59 RGRVIEIYGPESSGKTTVALHAVANAQ---AAGGVAAFIDAEHALDPDY-----AKKLGVDTDSLLVSQPDTGEQALEIA  130 (269)
T ss_dssp             SSSEEEEECSSSSSHHHHHHHHHHHHH---HTTCEEEEEESSCCCCHHH-----HHHHTCCGGGCEEECCSSHHHHHHHH
T ss_pred             cceeEEEecCCCcHHHHHHHHHHHHHh---cCCCEEEEEECCccCCHHH-----HHHhCCCHHHeEEecCCCHHHHHHHH
Confidence            457999999999999999988887762   2224689999888888664     5566665443   1334566666655


Q ss_pred             HHHhcc-CcEEEEEeccCC
Q 048126          223 LRILSK-KKFLLLLDDIWE  240 (863)
Q Consensus       223 ~~~l~~-kr~LlVlDdv~~  240 (863)
                      ....+. +.-|||+|.+-.
T Consensus       131 ~~l~~~~~~~liIiDSi~a  149 (269)
T d1mo6a1         131 DMLIRSGALDIVVIDSVAA  149 (269)
T ss_dssp             HHHHHTTCEEEEEEECSTT
T ss_pred             HHHHhcCCCCEEEEecccc
Confidence            555544 467888998843

>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=96.21  E-value=0.0043  Score=55.90  Aligned_cols=43  Identities=9%  Similarity=0.065  Sum_probs=23.1

Q ss_pred             hhcCCCCcEEEeeccccccCchhhHHHHHcCCccCceEEEEEc
Q 048126          608 MSAFSKLQVLRILKSNVLFGGHQFLVEELMGMKHLMALTITLK  650 (863)
Q Consensus       608 ~~~L~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~  650 (863)
                      +...++|++|++.+|.+...+.......+..-+.|+.|+++.+
T Consensus        68 L~~n~~L~~L~L~~n~i~~~g~~~l~~aL~~n~sL~~L~l~~n  110 (167)
T d1pgva_          68 IETSPSLRVLNVESNFLTPELLARLLRSTLVTQSIVEFKADNQ  110 (167)
T ss_dssp             HHHCSSCCEEECCSSBCCHHHHHHHHHHTTTTCCCSEEECCCC
T ss_pred             hhhcccccceeeehhhcchHHHHHHHHHHHhCCcCCEEECCCC
Confidence            3444556666665555443323334445556666777766544

>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=96.20  E-value=0.0012  Score=59.79  Aligned_cols=25  Identities=36%  Similarity=0.570  Sum_probs=23.1

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          147 VGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      .+||+|+|..|+|||||++++.+..
T Consensus         2 ~Pvi~itG~~GSGKTTL~~~L~~~l   26 (170)
T d1np6a_           2 IPLLAFAAWSGTGKTTLLKKLIPAL   26 (170)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHH
Confidence            4699999999999999999999876

>d1u94a1 c.37.1.11 (A:6-268) RecA protein, ATPase-domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Escherichia coli [TaxId: 562]

Probab=96.13  E-value=0.0068  Score=58.73  Aligned_cols=86  Identities=15%  Similarity=0.164  Sum_probs=59.1

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHHHHhCCCCccc---cCCChhHHHHHH
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGRRIGFLDESW---KNGSLEDKASDI  222 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~---~~~~~~~~~~~l  222 (863)
                      .-+++-|+|.+|+||||+|.+++....   ..=..++|++....++..     .++.++...+..   ...+.++..+.+
T Consensus        53 ~g~itei~G~~gsGKTtl~l~~~~~~q---~~g~~~vyidtE~~~~~~-----~a~~~Gvd~d~v~~~~~~~~E~~~~~i  124 (263)
T d1u94a1          53 MGRIVEIYGPESSGKTTLTLQVIAAAQ---REGKTCAFIDAEHALDPI-----YARKLGVDIDNLLCSQPDTGEQALEIC  124 (263)
T ss_dssp             TTSEEEEECSTTSSHHHHHHHHHHHHH---HTTCCEEEEESSCCCCHH-----HHHHTTCCGGGCEEECCSSHHHHHHHH
T ss_pred             CceEEEEecCCCcHHHHHHHHHHHHHH---cCCCEEEEEccccccCHH-----HHHHhCCCHHHEEEecCCCHHHHHHHH
Confidence            446999999999999999999988873   222357899988887764     356677654321   234455555555


Q ss_pred             HHHhcc-CcEEEEEeccC
Q 048126          223 LRILSK-KKFLLLLDDIW  239 (863)
Q Consensus       223 ~~~l~~-kr~LlVlDdv~  239 (863)
                      ....+. ..-|+|+|-+.
T Consensus       125 ~~l~~~~~~~liViDSi~  142 (263)
T d1u94a1         125 DALARSGAVDVIVVDSVA  142 (263)
T ss_dssp             HHHHHHTCCSEEEEECGG
T ss_pred             HHHHhcCCCCEEEEECcc
Confidence            555543 34588889884

>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=96.12  E-value=0.0013  Score=59.73  Aligned_cols=24  Identities=29%  Similarity=0.468  Sum_probs=22.2

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          148 GIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ++|.|.|++|+||||+|+.++...
T Consensus         3 klI~i~G~~GsGKTTva~~L~~~~   26 (176)
T d2bdta1           3 KLYIITGPAGVGKSTTCKRLAAQL   26 (176)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHc
Confidence            589999999999999999999876

>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=96.10  E-value=0.0014  Score=58.10  Aligned_cols=24  Identities=33%  Similarity=0.296  Sum_probs=21.3

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          148 GIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ++|.|+|++|+||||+|+.+....
T Consensus         3 klIii~G~pGsGKTTla~~L~~~~   26 (152)
T d1ly1a_           3 KIILTIGCPGSGKSTWAREFIAKN   26 (152)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHHhC
Confidence            578899999999999999987664

>d1j8yf2 c.37.1.10 (F:87-297) GTPase domain of the signal sequence recognition protein Ffh {Archaeon Acidianus ambivalens [TaxId: 2283]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal sequence recognition protein Ffh
species: Archaeon Acidianus ambivalens [TaxId: 2283]

Probab=96.04  E-value=0.0078  Score=55.91  Aligned_cols=60  Identities=23%  Similarity=0.212  Sum_probs=38.5

Q ss_pred             CCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCC-ccCHHHHHHHHHHHhCCCC
Q 048126          145 EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSK-DLQLEKIQEKIGRRIGFLD  207 (863)
Q Consensus       145 ~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~-~~~~~~~~~~i~~~l~~~~  207 (863)
                      ....||.++|+.|+||||.+.+++... . .... .+..|++.. .....+.++..++.++.+.
T Consensus        10 k~p~vi~lvGptGvGKTTTiAKLA~~~-~-~~g~-kV~lit~Dt~R~ga~eQL~~~a~~l~v~~   70 (211)
T d1j8yf2          10 KIPYVIMLVGVQGTGKATTAGKLAYFY-K-KKGF-KVGLVGADVYRPAALEQLQQLGQQIGVPV   70 (211)
T ss_dssp             SSSEEEEEECSCCC----HHHHHHHHH-H-HTTC-CEEEEECCCSSHHHHHHHHHHHHHHTCCE
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHH-H-HCCC-ceEEEEeeccccchhHHHHHhccccCcce
Confidence            357899999999999999988888777 2 2233 366666543 2234566777888888764

>d1xp8a1 c.37.1.11 (A:15-282) RecA protein, ATPase-domain {Deinococcus radiodurans [TaxId: 1299]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Deinococcus radiodurans [TaxId: 1299]

Probab=96.03  E-value=0.0094  Score=57.77  Aligned_cols=87  Identities=16%  Similarity=0.182  Sum_probs=62.9

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHHHHhCCCCccc---cCCChhHHHHHH
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGRRIGFLDESW---KNGSLEDKASDI  222 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~---~~~~~~~~~~~l  222 (863)
                      .-+++-|+|.+|+|||++|.+++....+ .+  ..++|++.-..++.+     ++++++...+..   ...+.++..+.+
T Consensus        56 ~g~itei~G~~~sGKT~l~l~~~~~aqk-~g--~~v~yiDtE~~~~~~-----~a~~~Gvd~d~i~~~~~~~~E~~~~~~  127 (268)
T d1xp8a1          56 RGRITEIYGPESGGKTTLALAIVAQAQK-AG--GTCAFIDAEHALDPV-----YARALGVNTDELLVSQPDNGEQALEIM  127 (268)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHHHH-TT--CCEEEEESSCCCCHH-----HHHHTTCCGGGCEEECCSSHHHHHHHH
T ss_pred             CceEEEEecCCccchHHHHHHHHHHHHh-CC--CEEEEEECCccCCHH-----HHHHhCCCchhEEEEcCCCHHHHHHHH
Confidence            4579999999999999999999888732 22  358999988888874     677777765431   344566666666


Q ss_pred             HHHhcc-CcEEEEEeccCC
Q 048126          223 LRILSK-KKFLLLLDDIWE  240 (863)
Q Consensus       223 ~~~l~~-kr~LlVlDdv~~  240 (863)
                      ....+. ..-|||+|-+-.
T Consensus       128 ~~l~~~~~~~liIiDSi~a  146 (268)
T d1xp8a1         128 ELLVRSGAIDVVVVDSVAA  146 (268)
T ss_dssp             HHHHTTTCCSEEEEECTTT
T ss_pred             HHHHhcCCCcEEEEecccc
Confidence            665554 456889998843

>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=95.95  E-value=0.0016  Score=59.19  Aligned_cols=24  Identities=46%  Similarity=0.444  Sum_probs=21.8

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          148 GIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ..|.|.|++|+||||+|+.++++.
T Consensus         5 ~~I~i~G~pGsGKTTia~~La~~l   28 (173)
T d1rkba_           5 PNILLTGTPGVGKTTLGKELASKS   28 (173)
T ss_dssp             CCEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHH
Confidence            457799999999999999999887

>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=95.90  E-value=0.014  Score=54.12  Aligned_cols=60  Identities=18%  Similarity=0.161  Sum_probs=42.1

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCC-ccCHHHHHHHHHHHhCCCCc
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSK-DLQLEKIQEKIGRRIGFLDE  208 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~-~~~~~~~~~~i~~~l~~~~~  208 (863)
                      +.+||.++|+.|+||||.+.+++....  +... .+..+++.. .....+.++..++.++.+..
T Consensus         9 ~~~vi~lvGp~GvGKTTTiaKLA~~~~--~~g~-kV~lit~Dt~R~gA~eQL~~~a~~l~v~~~   69 (207)
T d1ls1a2           9 DRNLWFLVGLQGSGKTTTAAKLALYYK--GKGR-RPLLVAADTQRPAAREQLRLLGEKVGVPVL   69 (207)
T ss_dssp             SSEEEEEECCTTTTHHHHHHHHHHHHH--HTTC-CEEEEECCSSCHHHHHHHHHHHHHHTCCEE
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHH--HCCC-cEEEEecccccchHHHHHHHHHHhcCCccc
Confidence            457999999999999999999888773  2233 355555432 22345677888888887643

>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=95.86  E-value=0.0031  Score=58.52  Aligned_cols=28  Identities=29%  Similarity=0.488  Sum_probs=24.7

Q ss_pred             CCCccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          144 EEQVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       144 ~~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ..+.-+|+|.|..|+||||||+.+....
T Consensus        19 ~~~~~iIgI~G~~GSGKSTla~~L~~~l   46 (198)
T d1rz3a_          19 TAGRLVLGIDGLSRSGKTTLANQLSQTL   46 (198)
T ss_dssp             CSSSEEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            3456689999999999999999999877

>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=95.82  E-value=0.0025  Score=59.26  Aligned_cols=27  Identities=22%  Similarity=0.301  Sum_probs=24.7

Q ss_pred             CCccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          145 EQVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       145 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ..+.+|.|+|++|+||||+|+.+++..
T Consensus         4 ~kp~iI~i~G~pGSGKsT~a~~La~~~   30 (194)
T d1qf9a_           4 SKPNVVFVLGGPGSGKGTQCANIVRDF   30 (194)
T ss_dssp             CCCEEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            467799999999999999999999887

>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=95.77  E-value=0.002  Score=59.20  Aligned_cols=24  Identities=46%  Similarity=0.517  Sum_probs=22.2

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          148 GIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      +.|.|+|++|+|||||+++++...
T Consensus         2 k~v~ItG~~GtGKTtl~~~i~~~l   25 (189)
T d2i3ba1           2 RHVFLTGPPGVGKTTLIHKASEVL   25 (189)
T ss_dssp             CCEEEESCCSSCHHHHHHHHHHHH
T ss_pred             cEEEEECCCCCcHHHHHHHHHHHH
Confidence            468999999999999999999887

>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=95.70  E-value=0.0025  Score=57.19  Aligned_cols=22  Identities=36%  Similarity=0.548  Sum_probs=20.8

Q ss_pred             EEEEcCCCCcHHHHHHHHHhhh
Q 048126          150 IGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       150 i~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      |.|+||+|+||||+|+.++.+.
T Consensus         3 I~liG~~GsGKsTi~k~La~~l   24 (161)
T d1viaa_           3 IVFIGFMGSGKSTLARALAKDL   24 (161)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            7788999999999999999998

>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=95.67  E-value=0.02  Score=55.14  Aligned_cols=102  Identities=22%  Similarity=0.285  Sum_probs=63.6

Q ss_pred             HHHHHhcC-CCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCcc-CHHHHHHHHHHHhCCC--C---cc
Q 048126          137 KVWRCLGE-EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDL-QLEKIQEKIGRRIGFL--D---ES  209 (863)
Q Consensus       137 ~l~~~L~~-~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~-~~~~~~~~i~~~l~~~--~---~~  209 (863)
                      ++++.+.. .+-..++|.|..|+|||+|+..+.+...  +.+=+.++++-+.+.. ...++.+.+.+.--..  .   ..
T Consensus        57 raID~l~pigkGQr~~If~~~g~GKt~l~~~i~~~~~--~~~~~v~V~~~iGer~~ev~~~~~~~~~~~~~~~~~~~~~t  134 (276)
T d2jdid3          57 KVVDLLAPYAKGGKIGLFGGAGVGKTVLIMELINNVA--KAHGGYSVFAGVGERTREGNDLYHEMIESGVINLKDATSKV  134 (276)
T ss_dssp             HHHHHHSCEETTCEEEEEECTTSSHHHHHHHHHHHHT--TTCSSEEEEEEESCCHHHHHHHHHHHHHHTSSCSSSSCCCE
T ss_pred             eeeeeeccccCCCEEEeeCCCCCCHHHHHHHHHHHHH--hhCCCeEEEEEeccChHHHHHHHHHHHhcCccccccccceE
Confidence            35555543 3334699999999999999999988751  3445678899888765 4567777776642111  0   00


Q ss_pred             c-----cCCChhH------HHHHHHHHhc---cCcEEEEEeccCC
Q 048126          210 W-----KNGSLED------KASDILRILS---KKKFLLLLDDIWE  240 (863)
Q Consensus       210 ~-----~~~~~~~------~~~~l~~~l~---~kr~LlVlDdv~~  240 (863)
                      .     ...+...      .+-.+.+++.   ++.+|+++||+..
T Consensus       135 vvv~~~s~~~~~~r~~~~~~a~~iAEyf~~~~G~~VLv~~Dsltr  179 (276)
T d2jdid3         135 ALVYGQMNEPPGARARVALTGLTVAEYFRDQEGQDVLLFIDNIFR  179 (276)
T ss_dssp             EEEEECTTSCHHHHHHHHHHHHHHHHHHHHTTCSCEEEEEECTHH
T ss_pred             EEEEECCCCCHHHHHHHHHHHHHHHHHHHhcCCCeEEEEEcchhH
Confidence            0     0111111      1223455654   6899999999854

>d2iyva1 c.37.1.2 (A:2-166) Shikimate kinase (AroK) {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=95.66  E-value=0.0027  Score=57.22  Aligned_cols=22  Identities=32%  Similarity=0.513  Sum_probs=19.8

Q ss_pred             EEEEcCCCCcHHHHHHHHHhhh
Q 048126          150 IGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       150 i~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      |.++|++|+||||+|+.+++..
T Consensus         4 IvliG~~G~GKSTig~~La~~l   25 (165)
T d2iyva1           4 AVLVGLPGSGKSTIGRRLAKAL   25 (165)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            4466999999999999999988

>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=95.64  E-value=0.0043  Score=62.25  Aligned_cols=45  Identities=22%  Similarity=0.211  Sum_probs=35.6

Q ss_pred             CccchhHHHHHHHHHhc--------C------CCccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          127 PTVGLESMFDKVWRCLG--------E------EQVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       127 ~~vGr~~~~~~l~~~L~--------~------~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      .++|-++.++.|...+.        .      ...+.+.++|++|+|||.||+.+++..
T Consensus        15 ~ViGQd~A~~~l~~av~~~~~r~~~~~~~~~~~~~~~iLl~GPpG~GKT~lAkalA~~~   73 (309)
T d1ofha_          15 HIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLA   73 (309)
T ss_dssp             TCCSCHHHHHHHHHHHHHHHHTTSSCHHHHHHCCCCCEEEECCTTSSHHHHHHHHHHHH
T ss_pred             cccChHHHHHHHHHHHHHHHHHhccCCCCccCCCCceEEEECCCCCCHHHHHHHHhhcc
Confidence            46898888888876551        0      134667799999999999999999886

>d1khta_ c.37.1.1 (A:) Adenylate kinase {Archaeon Methanococcus voltae [TaxId: 2188]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Archaeon Methanococcus voltae [TaxId: 2188]

Probab=95.60  E-value=0.003  Score=58.06  Aligned_cols=24  Identities=29%  Similarity=0.386  Sum_probs=22.8

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          148 GIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ++|+|.|+.|+||||+++.++...
T Consensus         2 kiI~i~G~~GsGKsT~~~~L~~~l   25 (190)
T d1khta_           2 KVVVVTGVPGVGSTTSSQLAMDNL   25 (190)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHH
Confidence            689999999999999999999887

>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=95.58  E-value=0.0034  Score=58.42  Aligned_cols=27  Identities=33%  Similarity=0.423  Sum_probs=24.9

Q ss_pred             CCccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          145 EQVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       145 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      +..++|.|.|++|+||||+|+.+++..
T Consensus         6 ~~~~iI~i~GppGSGKsT~a~~La~~~   32 (196)
T d1ukza_           6 DQVSVIFVLGGPGAGKGTQCEKLVKDY   32 (196)
T ss_dssp             TTCEEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            467899999999999999999999886

>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=95.58  E-value=0.002  Score=59.81  Aligned_cols=25  Identities=32%  Similarity=0.425  Sum_probs=22.7

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          147 VGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      -.+|.++|++|+||||+|+.++...
T Consensus        19 g~vI~L~G~pGSGKTTiAk~La~~l   43 (195)
T d1x6va3          19 GCTVWLTGLSGAGKTTVSMALEEYL   43 (195)
T ss_dssp             CEEEEEESSCHHHHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHH
Confidence            3588899999999999999999877

>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=95.58  E-value=0.0034  Score=56.75  Aligned_cols=26  Identities=27%  Similarity=0.516  Sum_probs=24.0

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ..+++.|.|++|+||||+|+.++...
T Consensus         5 ~~~iivl~G~~GsGKsT~a~~La~~l   30 (171)
T d1knqa_           5 DHHIYVLMGVSGSGKSAVASEVAHQL   30 (171)
T ss_dssp             TSEEEEEECSTTSCHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            56899999999999999999999887

>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=95.50  E-value=0.0058  Score=60.03  Aligned_cols=26  Identities=31%  Similarity=0.272  Sum_probs=23.6

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      .++.|.++|++|+||||||+.+++..
T Consensus        31 ~P~~ilL~GpPGtGKT~la~~la~~~   56 (273)
T d1gvnb_          31 SPTAFLLGGQPGSGKTSLRSAIFEET   56 (273)
T ss_dssp             SCEEEEEECCTTSCTHHHHHHHHHHT
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            45678899999999999999999987

>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=95.50  E-value=0.004  Score=56.38  Aligned_cols=26  Identities=31%  Similarity=0.321  Sum_probs=23.0

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ....|.|.|++|+||||+|+.+++..
T Consensus         4 k~~~I~i~G~~GsGKTT~~~~La~~l   29 (174)
T d1y63a_           4 KGINILITGTPGTGKTSMAEMIAAEL   29 (174)
T ss_dssp             SSCEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCCEEEEEeCCCCCHHHHHHHHHHHh
Confidence            44578999999999999999999876

>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=95.50  E-value=0.0029  Score=57.30  Aligned_cols=24  Identities=29%  Similarity=0.329  Sum_probs=21.5

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          148 GIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      +.|.++|++|+||||+|+.+++..
T Consensus         3 ~~Iil~G~~GsGKSTia~~LA~~L   26 (170)
T d1e6ca_           3 EPIFMVGARGCGMTTVGRELARAL   26 (170)
T ss_dssp             CCEEEESCTTSSHHHHHHHHHHHH
T ss_pred             CCEEEECCCCCCHHHHHHHHHHHh
Confidence            346788999999999999999987

>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=95.49  E-value=0.0034  Score=57.00  Aligned_cols=25  Identities=24%  Similarity=0.349  Sum_probs=23.2

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          147 VGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      .++|.|.|+.|+||||+|+.+++..
T Consensus         3 ~kiI~l~G~~GsGKsTva~~L~~~l   27 (178)
T d1qhxa_           3 TRMIILNGGSSAGKSGIVRCLQSVL   27 (178)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHS
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHc
Confidence            4689999999999999999999987

>d1xjca_ c.37.1.10 (A:) Molybdopterin-guanine dinucleotide biosynthesis protein MobB {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Molybdopterin-guanine dinucleotide biosynthesis protein MobB
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=95.47  E-value=0.0038  Score=56.16  Aligned_cols=24  Identities=29%  Similarity=0.322  Sum_probs=22.7

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          148 GIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ++++|+|..|+|||||+.++....
T Consensus         2 kii~I~G~~gSGKTTli~~l~~~L   25 (165)
T d1xjca_           2 NVWQVVGYKHSGKTTLMEKWVAAA   25 (165)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             cEEEEEeCCCCCHHHHHHHHHHHH
Confidence            689999999999999999999887

>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=95.45  E-value=0.0072  Score=57.30  Aligned_cols=42  Identities=21%  Similarity=0.347  Sum_probs=32.2

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHHHH
Q 048126          147 VGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGRR  202 (863)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~  202 (863)
                      .+||+|.|++|+||||+|+.+++++     .|.+   +      +.-+++++++..
T Consensus         3 ~piI~I~GppGSGKgT~ak~La~~~-----gl~~---i------StGdLlR~~a~~   44 (225)
T d1ckea_           3 APVITIDGPSGAGKGTLCKAMAEAL-----QWHL---L------DSGAIYRVLALA   44 (225)
T ss_dssp             SCEEEEECCTTSSHHHHHHHHHHHH-----TCEE---E------EHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHh-----CCcE---E------CHHHHHHHHHHH
Confidence            3699999999999999999999998     3322   1      455677776653

>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=95.40  E-value=0.015  Score=51.99  Aligned_cols=87  Identities=20%  Similarity=0.196  Sum_probs=56.3

Q ss_pred             ccccCCCCeEEccCC-Ccc-----ccchhhhcCCCCCEEecCCccccCC-----CcHHHhhcCCCCcEEEeeccccccCc
Q 048126          560 ISTLVSLEHLDLSGT-AIT-----HLPIELQKLVNLKCLNLEYMYNLNQ-----FPRLVMSAFSKLQVLRILKSNVLFGG  628 (863)
Q Consensus       560 i~~l~~L~~L~L~~~-~l~-----~lp~~~~~l~~L~~L~l~~~~~l~~-----lp~~~~~~L~~L~~L~l~~~~~~~~~  628 (863)
                      ..+.++|++|+++++ .++     .+-..+...++|++|++++| .+..     +.. .+...++|+.+++.++.....+
T Consensus        13 ~~~~~~L~~L~L~~~~~i~~~~~~~l~~al~~n~~L~~L~Ls~n-~l~~~~~~~L~~-~l~~~~~l~~l~l~~~~~~~~g   90 (166)
T d1io0a_          13 QNNDPDLEEVNLNNIMNIPVPTLKACAEALKTNTYVKKFSIVGT-RSNDPVAFALAE-MLKVNNTLKSLNVESNFISGSG   90 (166)
T ss_dssp             HTTCTTCCEEECTTCTTCCHHHHHHHHHHHTTCCSCCEEECTTS-CCCHHHHHHHHH-HHHHCSSCCEEECCSSCCCHHH
T ss_pred             HhcCCCCcEEEcCCCCCCCHHHHHHHHHHHhcCCccCeeeccCC-cccHHHHHHHHH-HHhhcccchhhhhccccccchh
Confidence            345678888998874 565     24445667788888888887 3322     111 2456778888888877766544


Q ss_pred             hhhHHHHHcCCccCceEEEE
Q 048126          629 HQFLVEELMGMKHLMALTIT  648 (863)
Q Consensus       629 ~~~~~~~l~~L~~L~~L~l~  648 (863)
                      .......+...++|+.+++.
T Consensus        91 ~~~l~~~l~~~~~L~~l~L~  110 (166)
T d1io0a_          91 ILALVEALQSNTSLIELRID  110 (166)
T ss_dssp             HHHHHHGGGGCSSCCEEECC
T ss_pred             HHHHHHHHHhCccccEEeec
Confidence            44455666666777766654

>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=95.36  E-value=0.0036  Score=56.84  Aligned_cols=25  Identities=32%  Similarity=0.371  Sum_probs=22.5

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          147 VGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      -++|.|.|++|+||||+|+.+.+..
T Consensus         4 g~iI~l~G~~GsGKSTia~~La~~l   28 (176)
T d1zp6a1           4 GNILLLSGHPGSGKSTIAEALANLP   28 (176)
T ss_dssp             TEEEEEEECTTSCHHHHHHHHHTCS
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHh
Confidence            4689999999999999999998765

>d1tf7a2 c.37.1.11 (A:256-497) Circadian clock protein KaiC {Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Circadian clock protein KaiC
species: Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]

Probab=95.36  E-value=0.027  Score=53.85  Aligned_cols=41  Identities=22%  Similarity=0.260  Sum_probs=33.7

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCc
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKD  189 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~  189 (863)
                      .-+++.|+|.+|+|||++|.+++...   ......++|++....
T Consensus        25 ~gsl~li~G~pGsGKT~l~~qia~~~---~~~~~~~~~is~e~~   65 (242)
T d1tf7a2          25 KDSIILATGATGTGKTLLVSRFVENA---CANKERAILFAYEES   65 (242)
T ss_dssp             SSCEEEEEECTTSSHHHHHHHHHHHH---HTTTCCEEEEESSSC
T ss_pred             CCeEEEEEeCCCCCHHHHHHHHHHHH---HHhccccceeeccCC
Confidence            56799999999999999999999987   355666888876543

>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=95.25  E-value=0.0046  Score=58.11  Aligned_cols=25  Identities=28%  Similarity=0.381  Sum_probs=22.4

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          147 VGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      +.+|.++|.+|+||||+|++++...
T Consensus         2 p~li~l~GlpgsGKSTla~~L~~~l   26 (213)
T d1bifa1           2 PTLIVMVGLPARGKTYISKKLTRYL   26 (213)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHH
Confidence            3578999999999999999999876

>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=95.21  E-value=0.0048  Score=55.86  Aligned_cols=27  Identities=19%  Similarity=0.283  Sum_probs=23.5

Q ss_pred             CCccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          145 EQVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       145 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      +...+|.++|++|+||||+|+.++...
T Consensus        12 ~~p~liil~G~pGsGKST~a~~l~~~~   38 (172)
T d1yj5a2          12 PNPEVVVAVGFPGAGKSTFIQEHLVSA   38 (172)
T ss_dssp             SSCCEEEEECCTTSSHHHHHHHHTGGG
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHhc
Confidence            456799999999999999999987654

>d1nksa_ c.37.1.1 (A:) Adenylate kinase {Archaeon Sulfolobus acidocaldarius [TaxId: 2285]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Archaeon Sulfolobus acidocaldarius [TaxId: 2285]

Probab=95.15  E-value=0.0076  Score=55.40  Aligned_cols=24  Identities=42%  Similarity=0.576  Sum_probs=22.6

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          148 GIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ++|.|.|+.|+||||+|+.++...
T Consensus         2 kiivi~G~~GsGKTT~~~~La~~L   25 (194)
T d1nksa_           2 KIGIVTGIPGVGKSTVLAKVKEIL   25 (194)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHH
Confidence            688999999999999999999987

>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=94.97  E-value=0.0058  Score=55.57  Aligned_cols=23  Identities=52%  Similarity=0.647  Sum_probs=21.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 048126          149 IIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      -|+|+|+.|+|||||++.+....
T Consensus         2 ki~I~G~~G~GKSTLl~~i~~~l   24 (178)
T d1ye8a1           2 KIIITGEPGVGKTTLVKKIVERL   24 (178)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCcHHHHHHHHHHhcC
Confidence            37899999999999999999876

>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=94.87  E-value=0.0071  Score=55.96  Aligned_cols=24  Identities=29%  Similarity=0.333  Sum_probs=22.5

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          148 GIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      .+|.|.|++|+||||+|+.+++..
T Consensus         2 ~iI~i~GppGSGKsT~a~~La~~~   25 (194)
T d1teva_           2 LVVFVLGGPGAGKGTQCARIVEKY   25 (194)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHh
Confidence            589999999999999999999887

>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=94.83  E-value=0.012  Score=58.70  Aligned_cols=45  Identities=27%  Similarity=0.414  Sum_probs=35.5

Q ss_pred             CccchhHHHHHHHHHhcC--------CC-ccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          127 PTVGLESMFDKVWRCLGE--------EQ-VGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       127 ~~vGr~~~~~~l~~~L~~--------~~-~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      .++|.+..++.|.+.+..        .+ ..++.++|+.|+|||.+|+.+++..
T Consensus        24 ~v~GQ~~ai~~v~~~i~~~~~~l~~~~kp~~~~lf~Gp~G~GKt~lak~la~~l   77 (315)
T d1qvra3          24 RVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATL   77 (315)
T ss_dssp             HSCSCHHHHHHHHHHHHHHGGGCSCSSSCSEEEEEBSCSSSSHHHHHHHHHHHH
T ss_pred             eEeCHHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCcchHHHHHHHHHHHh
Confidence            468988888888776631        12 3478899999999999999999875

>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=94.81  E-value=0.011  Score=58.16  Aligned_cols=51  Identities=29%  Similarity=0.411  Sum_probs=38.1

Q ss_pred             HHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCC
Q 048126          135 FDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSK  188 (863)
Q Consensus       135 ~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~  188 (863)
                      +..+.+.+...+.++|.+.|-||+||||+|..++....+  ..+ .++-|....
T Consensus         8 ~~~~~~~~~~~~~~iii~sGKGGVGKTT~a~nLA~~lA~--~G~-rVllvD~Dp   58 (279)
T d1ihua2           8 LSALVDDIARNEHGLIMLMGKGGVGKTTMAAAIAVRLAD--MGF-DVHLTTSDP   58 (279)
T ss_dssp             HHHHHHHHHTTSCEEEEEECSTTSSHHHHHHHHHHHHHH--TTC-CEEEEESCC
T ss_pred             HHHHHHHhhcCCCEEEEEECCCCCCHHHHHHHHHHHHHH--CCC-cEEEEeCCC
Confidence            566777777788899999999999999998888777632  222 356666543

>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=94.65  E-value=0.012  Score=57.47  Aligned_cols=37  Identities=24%  Similarity=0.438  Sum_probs=28.9

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeC
Q 048126          148 GIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVS  187 (863)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s  187 (863)
                      +.|+|+|-||+||||+|..++....  +..+ .++-|++.
T Consensus         2 r~Iai~gKGGvGKTT~a~nLA~~LA--~~G~-rVllID~D   38 (269)
T d1cp2a_           2 RQVAIYGKGGIGKSTTTQNLTSGLH--AMGK-TIMVVGCD   38 (269)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHHHH--TTTC-CEEEEEEC
T ss_pred             CEEEEECCCcCCHHHHHHHHHHHHH--hCCC-cEEEEecC
Confidence            6899999999999999999998884  2344 35556654

>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=94.65  E-value=0.013  Score=54.59  Aligned_cols=29  Identities=28%  Similarity=0.397  Sum_probs=25.0

Q ss_pred             cCCCccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          143 GEEQVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       143 ~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ...+..+|.+.|++|+||||+|+++....
T Consensus        20 ~~~kg~vIwltGlsGsGKTTia~~L~~~l   48 (208)
T d1m7ga_          20 RNQRGLTIWLTGLSASGKSTLAVELEHQL   48 (208)
T ss_dssp             HTSSCEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             hCCCCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            34566799999999999999999998765

>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=94.44  E-value=0.0097  Score=56.36  Aligned_cols=41  Identities=17%  Similarity=0.263  Sum_probs=31.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHHHHh
Q 048126          149 IIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGRRI  203 (863)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l  203 (863)
                      +|+|-|++|+||||+|+.++..+     .|.   ++      +.-.+++.++...
T Consensus         5 ~IaIdGp~GsGKgT~ak~La~~l-----g~~---~i------stGdl~R~~a~~~   45 (223)
T d1q3ta_           5 QIAIDGPASSGKSTVAKIIAKDF-----GFT---YL------DTGAMYRAATYMA   45 (223)
T ss_dssp             EEEEECSSCSSHHHHHHHHHHHH-----CCE---EE------EHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh-----CCc---EE------CHHHHHHHHHHHH
Confidence            68899999999999999999998     232   22      4556777766543

>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=94.42  E-value=0.011  Score=55.56  Aligned_cols=25  Identities=32%  Similarity=0.389  Sum_probs=22.7

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          147 VGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      +-+|+|.|..|+||||+|+.+.+..
T Consensus         2 P~iIgI~G~~gSGKSTla~~L~~~l   26 (213)
T d1uj2a_           2 PFLIGVSGGTASGKSSVCAKIVQLL   26 (213)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHh
Confidence            4589999999999999999998876

>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=94.33  E-value=0.012  Score=54.36  Aligned_cols=26  Identities=38%  Similarity=0.346  Sum_probs=23.9

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      +.++|.|.|++|+||||+|+.+++..
T Consensus         7 ~~~iI~l~G~pGSGKsT~a~~La~~~   32 (194)
T d3adka_           7 KSKIIFVVGGPGSGKGTQCEKIVQKY   32 (194)
T ss_dssp             TSCEEEEEECTTSSHHHHHHHHHHHT
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            45799999999999999999999886

>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=94.32  E-value=0.01  Score=54.62  Aligned_cols=25  Identities=24%  Similarity=0.141  Sum_probs=22.2

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          147 VGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      +..|.|.|++|+||||+|+.+++..
T Consensus         3 Pm~I~i~GppGsGKsT~a~~La~~~   27 (189)
T d1zaka1           3 PLKVMISGAPASGKGTQCELIKTKY   27 (189)
T ss_dssp             SCCEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHH
Confidence            3457799999999999999999887

>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=94.28  E-value=0.011  Score=53.96  Aligned_cols=22  Identities=36%  Similarity=0.462  Sum_probs=20.8

Q ss_pred             EEEEcCCCCcHHHHHHHHHhhh
Q 048126          150 IGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       150 i~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      |.|.|++|+||||+|+.++...
T Consensus         3 I~i~G~pGSGKsT~a~~La~~~   24 (182)
T d1zina1           3 LVLMGLPGAGKGTQAEKIVAAY   24 (182)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
Confidence            7799999999999999999987

>d1gkya_ c.37.1.1 (A:) Guanylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=94.27  E-value=0.0099  Score=54.51  Aligned_cols=24  Identities=38%  Similarity=0.486  Sum_probs=21.7

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          148 GIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      +.|.|+|+.|+|||||++.+.++.
T Consensus         2 rpIvl~GpsG~GK~tl~~~L~~~~   25 (186)
T d1gkya_           2 RPIVISGPSGTGKSTLLKKLFAEY   25 (186)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHC
T ss_pred             CeEEEECCCCCCHHHHHHHHHHhC
Confidence            347899999999999999999887

>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=94.19  E-value=0.14  Score=50.14  Aligned_cols=82  Identities=16%  Similarity=0.045  Sum_probs=45.6

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHHHHhCCCCccccCCChhHHHHHHHHH
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGRRIGFLDESWKNGSLEDKASDILRI  225 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~  225 (863)
                      .+-+|+|.|..|+||||+|+.+.....+..... .+.-|+...-+-....+..  ..+....+....-+.+.+.+.+...
T Consensus        79 ~P~iIGIaG~sgSGKSTla~~L~~lL~~~~~~~-~v~~Is~D~F~~~~~~l~~--~~~~~~~g~Pes~D~~~L~~~L~~l  155 (308)
T d1sq5a_          79 IPYIISIAGSVAVGKSTTARVLQALLSRWPEHR-RVELITTDGFLHPNQVLKE--RGLMKKKGFPESYDMHRLVKFVSDL  155 (308)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHHHHTTSTTCC-CEEEEEGGGGBCCHHHHHH--HTCTTCTTSGGGBCHHHHHHHHHHH
T ss_pred             CCEEEEEeCCCCCCCcHHHHHHHHHHhhhcCCC-ceEEEeeeeeECCchHHHH--hcCCccCCchHhhhHHHHHHHHHHH
Confidence            456999999999999999999998872111122 2444444333322222221  1111111111344666777777776


Q ss_pred             hccCc
Q 048126          226 LSKKK  230 (863)
Q Consensus       226 l~~kr  230 (863)
                      ..+++
T Consensus       156 k~g~~  160 (308)
T d1sq5a_         156 KSGVP  160 (308)
T ss_dssp             TTTCS
T ss_pred             HcCCC
Confidence            66654

>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=94.16  E-value=0.013  Score=53.97  Aligned_cols=25  Identities=32%  Similarity=0.465  Sum_probs=21.5

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ++++| |+|++|+||||+|+.++...
T Consensus         3 ~~rii-l~G~pGSGKsT~a~~La~~~   27 (190)
T d1ak2a1           3 GVRAV-LLGPPGAGKGTQAPKLAKNF   27 (190)
T ss_dssp             CCEEE-EECCTTSSHHHHHHHHHHHH
T ss_pred             ccEEE-EECCCCCCHHHHHHHHHHHh
Confidence            44555 78999999999999999887

>d1lvga_ c.37.1.1 (A:) Guanylate kinase {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=94.09  E-value=0.011  Score=54.32  Aligned_cols=23  Identities=39%  Similarity=0.514  Sum_probs=21.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 048126          149 IIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      .|.|+|+.|+|||||++.+....
T Consensus         2 pIvl~GPsGsGK~tl~~~L~~~~   24 (190)
T d1lvga_           2 PVVLSGPSGAGKSTLLKKLFQEH   24 (190)
T ss_dssp             CEEEECCTTSSHHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHhC
Confidence            47799999999999999999887

>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=94.06  E-value=0.015  Score=53.45  Aligned_cols=26  Identities=23%  Similarity=0.408  Sum_probs=22.3

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      +.-.|.|.|++|+||||+|+.++...
T Consensus         5 r~mrIiliG~PGSGKtT~a~~La~~~   30 (189)
T d2ak3a1           5 RLLRAAIMGAPGSGKGTVSSRITKHF   30 (189)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHHB
T ss_pred             cceeEEEECCCCCCHHHHHHHHHHHH
Confidence            34456788999999999999999886

>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=93.97  E-value=0.013  Score=53.28  Aligned_cols=23  Identities=39%  Similarity=0.462  Sum_probs=21.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 048126          149 IIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      .|.|.|++|+||||+|+.+++..
T Consensus         2 ~I~i~G~pGsGKsT~a~~La~~~   24 (181)
T d2cdna1           2 RVLLLGPPGAGKGTQAVKLAEKL   24 (181)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            37789999999999999999887

>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=93.94  E-value=0.015  Score=53.01  Aligned_cols=23  Identities=39%  Similarity=0.482  Sum_probs=21.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 048126          149 IIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      .|.|.|++|+||||+|+.+++..
T Consensus         2 ~I~i~G~pGSGKsT~a~~La~~~   24 (182)
T d1s3ga1           2 NIVLMGLPGAGKGTQADRIVEKY   24 (182)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            47799999999999999999987

>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=93.88  E-value=0.035  Score=54.84  Aligned_cols=24  Identities=33%  Similarity=0.612  Sum_probs=21.2

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          148 GIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      .++.++|++|+|||.||+.++...
T Consensus       124 g~~l~~G~pG~GKT~la~ala~~~  147 (321)
T d1w44a_         124 GMVIVTGKGNSGKTPLVHALGEAL  147 (321)
T ss_dssp             EEEEEECSSSSCHHHHHHHHHHHH
T ss_pred             ceEEEECCCCccHHHHHHHHHHHh
Confidence            456668999999999999999986

>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=93.87  E-value=0.03  Score=55.86  Aligned_cols=46  Identities=22%  Similarity=0.347  Sum_probs=37.3

Q ss_pred             CCccchhHHHHHHHHHhc-------C-C-CccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          126 EPTVGLESMFDKVWRCLG-------E-E-QVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~-------~-~-~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ..++|-+..++.|...+.       + + ...++.++|+.|+|||.||+.++.-.
T Consensus        22 ~~viGQ~~a~~~v~~~v~~~~~~l~~~~~p~~~~lf~Gp~GvGKT~lak~la~~l   76 (315)
T d1r6bx3          22 MLVFGQDKAIEALTEAIKMARAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKAL   76 (315)
T ss_dssp             TTSCSCHHHHHHHHHHHHHHHTTCSCTTSCSEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CeecChHHHHHHHHHHHHHHHccCCCCCCCceEEEEECCCcchhHHHHHHHHhhc
Confidence            357899999998887763       1 2 24478899999999999999999876

>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=93.86  E-value=0.016  Score=52.88  Aligned_cols=24  Identities=25%  Similarity=0.506  Sum_probs=22.1

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          148 GIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ++|.|+|+.|+|||||++.+..+.
T Consensus         3 ~iivl~GpsG~GK~tl~~~L~~~~   26 (182)
T d1znwa1           3 RVVVLSGPSAVGKSTVVRCLRERI   26 (182)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHhhC
Confidence            578999999999999999998876

>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=93.73  E-value=0.028  Score=56.11  Aligned_cols=62  Identities=21%  Similarity=0.152  Sum_probs=33.0

Q ss_pred             HHHHHHhc--CCCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHH
Q 048126          136 DKVWRCLG--EEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEK  198 (863)
Q Consensus       136 ~~l~~~L~--~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~  198 (863)
                      .++++.+.  .++..+|+|+|++|+|||||...+..... ...+=-.++-++-+.+++-..++.+
T Consensus        41 ~~ll~~~~~~~~~~~~IgitG~pGaGKSTLi~~l~~~~~-~~g~~vavlavDpss~~~ggailgd  104 (327)
T d2p67a1          41 TQLLDAIMPYCGNTLRLGVTGTPGAGKSTFLEAFGMLLI-REGLKVAVIAVDPSSPVTGGSILGD  104 (327)
T ss_dssp             HHHHHHHGGGCSCSEEEEEEECTTSCHHHHHHHHHHHHH-HTTCCEEEEEECCC-----------
T ss_pred             HHHHHHhhhccCCceEEEeeCCCCCCHHHHHHHHHHHHH-hcCCceeeecCCCceeeeccccccc
Confidence            34444443  24688999999999999999999987762 1121113344444444444444443

>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=93.68  E-value=0.018  Score=52.21  Aligned_cols=24  Identities=25%  Similarity=0.393  Sum_probs=22.0

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          148 GIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      +.|.|+|+.|+|||||++++..+.
T Consensus         4 k~ivl~Gpsg~GK~tl~~~L~~~~   27 (178)
T d1kgda_           4 KTLVLLGAHGVGRRHIKNTLITKH   27 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHC
T ss_pred             CcEEEECCCCCCHHHHHHHHHHhC
Confidence            578999999999999999999876

>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=93.68  E-value=0.036  Score=55.19  Aligned_cols=54  Identities=20%  Similarity=0.252  Sum_probs=35.9

Q ss_pred             HHHHHHHhc--CCCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCC-EEEEEEeCCcc
Q 048126          135 FDKVWRCLG--EEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFD-VVIWVVVSKDL  190 (863)
Q Consensus       135 ~~~l~~~L~--~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~-~~~wv~~s~~~  190 (863)
                      ..++++.+.  ..+..+|+|.|++|+|||||.-++....+  ...+. .++-++.+.++
T Consensus        37 ~~~~~~~~~~~~~~~~~igitG~pGaGKSTli~~l~~~~~--~~g~~vaViavDpss~~   93 (323)
T d2qm8a1          37 VRDLIDAVLPQTGRAIRVGITGVPGVGKSTTIDALGSLLT--AAGHKVAVLAVDPSSTR   93 (323)
T ss_dssp             HHHHHHHHGGGCCCSEEEEEECCTTSCHHHHHHHHHHHHH--HTTCCEEEEEECGGGGS
T ss_pred             HHHHHHHhhhccCCceEEeeeCCCCCCHHHHHHHHHHHHh--hcCCceeeeecccccHH
Confidence            344555443  24678999999999999999999988762  22333 44445444444

>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=93.53  E-value=0.018  Score=52.35  Aligned_cols=22  Identities=27%  Similarity=0.459  Sum_probs=20.0

Q ss_pred             EEEEcCCCCcHHHHHHHHHhhh
Q 048126          150 IGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       150 i~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      |.|.|++|+||||+|+.+++..
T Consensus         5 Ivl~G~pGSGKtT~a~~La~~~   26 (180)
T d1akya1           5 MVLIGPPGAGKGTQAPNLQERF   26 (180)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            4577999999999999999987

>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=93.45  E-value=0.031  Score=55.23  Aligned_cols=46  Identities=22%  Similarity=0.249  Sum_probs=32.7

Q ss_pred             CCCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCH
Q 048126          144 EEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQL  192 (863)
Q Consensus       144 ~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~  192 (863)
                      +...++|.+.|-||+||||+|..++....+  ... .+..|++....++
T Consensus         5 ~~~p~~i~~sGKGGVGKTTvaa~lA~~lA~--~G~-rVLlvD~Dp~~~l   50 (296)
T d1ihua1           5 QNIPPYLFFTGKGGVGKTSISCATAIRLAE--QGK-RVLLVSTDPASNV   50 (296)
T ss_dssp             SSCCSEEEEECSTTSSHHHHHHHHHHHHHH--TTC-CEEEEECCTTCCH
T ss_pred             CCCCeEEEEECCCcChHHHHHHHHHHHHHH--CCC-CEEEEeCCCCCCH
Confidence            345789999999999999999998888732  122 3666665544333

>d1g8pa_ c.37.1.20 (A:) ATPase subunit of magnesium chelatase, BchI {Rhodobacter capsulatus [TaxId: 1061]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ATPase subunit of magnesium chelatase, BchI
species: Rhodobacter capsulatus [TaxId: 1061]

Probab=93.37  E-value=0.015  Score=58.81  Aligned_cols=44  Identities=23%  Similarity=0.305  Sum_probs=33.1

Q ss_pred             CCccchhHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHh
Q 048126          126 EPTVGLESMFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINN  169 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~  169 (863)
                      +.++|.+..+..+.-.....+.+-|.+.|.+|+||||+|+.+..
T Consensus         7 ~~I~Gq~~~kral~laa~~~~~h~vLl~G~pG~GKT~lar~~~~   50 (333)
T d1g8pa_           7 SAIVGQEDMKLALLLTAVDPGIGGVLVFGDRGTGKSTAVRALAA   50 (333)
T ss_dssp             GGSCSCHHHHHHHHHHHHCGGGCCEEEECCGGGCTTHHHHHHHH
T ss_pred             hhccCcHHHHHHHHHHHhccCCCeEEEECCCCccHHHHHHHHHH
Confidence            56799998777655444333334577999999999999999875

>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=93.37  E-value=0.081  Score=50.92  Aligned_cols=90  Identities=12%  Similarity=0.149  Sum_probs=52.5

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccC-HHHHHHHHHHHhCCCC-----ccccCC-----Chh
Q 048126          148 GIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQ-LEKIQEKIGRRIGFLD-----ESWKNG-----SLE  216 (863)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~-~~~~~~~i~~~l~~~~-----~~~~~~-----~~~  216 (863)
                      ..++|+|..|+|||+|+.......   ..+-+.++++-+..... ..++.+.+.+.-....     ...+..     ...
T Consensus        68 Qr~~Ifg~~g~GKt~l~~~~~~~~---~~~~~v~V~~~iGer~~Ev~e~~~~~~~~~~~~~tvvv~~tsd~p~~~r~~a~  144 (276)
T d1fx0a3          68 QRELIIGDRQTGKTAVATDTILNQ---QGQNVICVYVAIGQKASSVAQVVTNFQERGAMEYTIVVAETADSPATLQYLAP  144 (276)
T ss_dssp             CBCBEEESSSSSHHHHHHHHHHTC---CTTTCEEEEEEESCCHHHHHHHHHHTGGGTGGGSEEEEEECTTSCGGGTTHHH
T ss_pred             ceEeeccCCCCChHHHHHHHHhhh---cccCceeeeeeecchhHHHHHHHHhhccCCcceeeeecccccCccHHHHHHHH
Confidence            357899999999999999866554   34556778888877643 3344444433211100     000111     111


Q ss_pred             HHHHHHHHHh--ccCcEEEEEeccCC
Q 048126          217 DKASDILRIL--SKKKFLLLLDDIWE  240 (863)
Q Consensus       217 ~~~~~l~~~l--~~kr~LlVlDdv~~  240 (863)
                      ..+-.+.+++  +++++|+++||+..
T Consensus       145 ~~a~tiAEyfrd~G~~Vlll~Dsltr  170 (276)
T d1fx0a3         145 YTGAALAEYFMYRERHTLIIYDDLSK  170 (276)
T ss_dssp             HHHHHHHHHHHHTTCEEEEEEECHHH
T ss_pred             HHHHHHHHHHHHcCCceeEEeeccHH
Confidence            2333344444  36899999999854

>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=93.35  E-value=0.02  Score=51.93  Aligned_cols=23  Identities=35%  Similarity=0.193  Sum_probs=20.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 048126          149 IIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      .|.|.|++|+||||+|+.+++..
T Consensus         2 ~I~i~G~pGSGKsT~~~~La~~~   24 (179)
T d1e4va1           2 RIILLGAPVAGKGTQAQFIMEKY   24 (179)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            36789999999999999999887

>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=93.05  E-value=0.024  Score=52.01  Aligned_cols=22  Identities=36%  Similarity=0.466  Sum_probs=19.6

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHH
Q 048126          147 VGIIGLYGMGGVGKTTLLTKIN  168 (863)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~  168 (863)
                      +-+|||+|+.|+||||+|..+-
T Consensus         3 p~IIgitG~~gSGKstva~~l~   24 (191)
T d1uf9a_           3 PIIIGITGNIGSGKSTVAALLR   24 (191)
T ss_dssp             CEEEEEEECTTSCHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHH
Confidence            4589999999999999999874

>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=92.92  E-value=0.064  Score=51.79  Aligned_cols=35  Identities=20%  Similarity=0.120  Sum_probs=28.6

Q ss_pred             HHHHHhcC-CCccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          137 KVWRCLGE-EQVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       137 ~l~~~L~~-~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ++++.+.. .+-..++|.|..|+|||+|+.++.+..
T Consensus        32 r~ID~l~PigrGQr~~I~g~~g~GKT~l~~~i~~~~   67 (289)
T d1xpua3          32 RVLDLASPIGRGQRGLIVAPPKAGKTMLLQNIAQSI   67 (289)
T ss_dssp             HHHHHHSCCBTTCEEEEEECSSSSHHHHHHHHHHHH
T ss_pred             eeeeecccccCCCeeeEeCCCCCCHHHHHHHHHHHH
Confidence            56777754 445688999999999999999998865

>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=92.76  E-value=0.054  Score=50.34  Aligned_cols=24  Identities=33%  Similarity=0.430  Sum_probs=22.3

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          148 GIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ..|+|-|+.|+||||+|+.+++..
T Consensus         4 ~lI~ieG~dGsGKsT~~~~L~~~L   27 (209)
T d1nn5a_           4 ALIVLEGVDRAGKSTQSRKLVEAL   27 (209)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHH
Confidence            578999999999999999999987

>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=92.55  E-value=0.023  Score=52.44  Aligned_cols=26  Identities=31%  Similarity=0.230  Sum_probs=22.9

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      +.-+|+|-|..|+||||+|+.+.+..
T Consensus         8 kp~~I~ieG~~GsGKTTl~~~L~~~l   33 (197)
T d2vp4a1           8 QPFTVLIEGNIGSGKTTYLNHFEKYK   33 (197)
T ss_dssp             CCEEEEEECSTTSCHHHHHHTTGGGT
T ss_pred             CceEEEEECCCCCCHHHHHHHHHHHh
Confidence            45589999999999999999988765

>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=92.51  E-value=0.029  Score=55.31  Aligned_cols=39  Identities=26%  Similarity=0.355  Sum_probs=29.0

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCC
Q 048126          147 VGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSK  188 (863)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~  188 (863)
                      .+.|+|.|-||+||||+|..++....  +..+ .++-|.+..
T Consensus         2 Mr~IaisgKGGVGKTT~a~NLA~~LA--~~G~-rVLlID~Dp   40 (289)
T d2afhe1           2 MRQCAIYGKGGIGKSTTTQNLVAALA--EMGK-KVMIVGCDP   40 (289)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHHHH--HTTC-CEEEEEECS
T ss_pred             ccEEEEECCCCCCHHHHHHHHHHHHH--HCCC-CEEEEecCC
Confidence            46788999999999999999887763  2233 366677653

>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=92.11  E-value=0.21  Score=47.45  Aligned_cols=50  Identities=24%  Similarity=0.325  Sum_probs=36.2

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhhcCC---CCCCCEEEEEEeCCccCHHHH
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGA---PNDFDVVIWVVVSKDLQLEKI  195 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~---~~~F~~~~wv~~s~~~~~~~~  195 (863)
                      .-+++.|+|.+|+||||+|.+++......   ......++|+......+...+
T Consensus        35 ~G~~~li~G~pGsGKT~~~lq~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   87 (254)
T d1pzna2          35 TQAITEVFGEFGSGKTQLAHTLAVMVQLPPEEGGLNGSVIWIDTENTFRPERI   87 (254)
T ss_dssp             SSEEEEEEESTTSSHHHHHHHHHHHTTSCGGGTSCSCEEEEEESSSCCCHHHH
T ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHhhchHHhcCCCceEEEEeccchhHHHHH
Confidence            45799999999999999999998775211   122457788887776665444

>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=92.10  E-value=0.042  Score=52.00  Aligned_cols=39  Identities=31%  Similarity=0.282  Sum_probs=29.8

Q ss_pred             ccEEEEE-cCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCC
Q 048126          147 VGIIGLY-GMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSK  188 (863)
Q Consensus       147 ~~vi~I~-G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~  188 (863)
                      .++|+|+ |-||+||||+|..++....   ..-..+++|.+..
T Consensus         1 ~kvIav~s~KGGvGKTtia~nlA~~la---~~g~~VlliD~D~   40 (232)
T d1hyqa_           1 VRTITVASGKGGTGKTTITANLGVALA---QLGHDVTIVDADI   40 (232)
T ss_dssp             CEEEEEEESSSCSCHHHHHHHHHHHHH---HTTCCEEEEECCC
T ss_pred             CEEEEEECCCCCChHHHHHHHHHHHHH---hCCCCEEEEeCCC
Confidence            3789998 7899999999999988873   2223577887653

>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=92.09  E-value=0.095  Score=49.95  Aligned_cols=45  Identities=16%  Similarity=0.099  Sum_probs=35.2

Q ss_pred             CccchhHHHHHHHHHhcC--CCccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          127 PTVGLESMFDKVWRCLGE--EQVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       127 ~~vGr~~~~~~l~~~L~~--~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      +|||....++++.+.+..  ..-.-|.|.|..|+|||++|+.+....
T Consensus         1 ~~v~~S~~~~~~~~~~~~~a~~~~pvlI~Ge~GtGK~~~A~~ih~~s   47 (247)
T d1ny5a2           1 EYVFESPKMKEILEKIKKISCAECPVLITGESGVGKEVVARLIHKLS   47 (247)
T ss_dssp             CCCCCSHHHHHHHHHHHHHTTCCSCEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CeEecCHHHHHHHHHHHHHhCCCCCEEEECCCCcCHHHHHHHHHHhc
Confidence            378888888888887753  223346799999999999999998764

>d1szpa2 c.37.1.11 (A:145-395) DNA repair protein Rad51, catalytic domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=92.08  E-value=0.12  Score=49.11  Aligned_cols=48  Identities=13%  Similarity=0.091  Sum_probs=34.1

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhhcCC---CCCCCEEEEEEeCCccCHH
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGA---PNDFDVVIWVVVSKDLQLE  193 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~---~~~F~~~~wv~~s~~~~~~  193 (863)
                      .-+++-|+|.+|+||||+|.+++......   ...-..++|++....++..
T Consensus        33 ~G~~~li~G~pGsGKT~l~lq~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~   83 (251)
T d1szpa2          33 TGSITELFGEFRTGKSQLCHTLAVTCQIPLDIGGGEGKCLYIDTEGTFRPV   83 (251)
T ss_dssp             SSSEEEEEESTTSSHHHHHHHHTTTTTSCTTTTCCSCEEEEEESSSCCCGG
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHhhhhhhhccCCceEEEEeecchHHHH
Confidence            45799999999999999999987664110   1122467888877665533

>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=92.07  E-value=0.092  Score=50.82  Aligned_cols=57  Identities=18%  Similarity=0.105  Sum_probs=34.1

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCC-CEEEEEEeCCccCHHHHHHHHHHHh
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDF-DVVIWVVVSKDLQLEKIQEKIGRRI  203 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F-~~~~wv~~s~~~~~~~~~~~i~~~l  203 (863)
                      .+-+|||.|..|+||||||..+.....+ +..+ ..++.++...-+-...-...+.+..
T Consensus        26 ~P~iIGi~G~qGSGKSTl~~~l~~~L~~-~~~~~~~v~~iS~DdfY~t~~~r~~L~~~~   83 (286)
T d1odfa_          26 CPLFIFFSGPQGSGKSFTSIQIYNHLME-KYGGEKSIGYASIDDFYLTHEDQLKLNEQF   83 (286)
T ss_dssp             SCEEEEEECCTTSSHHHHHHHHHHHHHH-HHGGGSCEEEEEGGGGBCCHHHHHHHHHHT
T ss_pred             CCEEEEeECCCCCCHHHHHHHHHHHHHH-HhCCCcceEeeccCCCCCCHHHHHHHhhhc
Confidence            3458999999999999999988766511 1111 2355555444333333344455443

>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=92.05  E-value=0.041  Score=52.50  Aligned_cols=26  Identities=19%  Similarity=0.267  Sum_probs=23.8

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      +++.|+|-|+-|+||||+++.+.+..
T Consensus         1 ~pk~IviEG~~GsGKST~~~~L~~~l   26 (241)
T d2ocpa1           1 GPRRLSIEGNIAVGKSTFVKLLTKTY   26 (241)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHHHC
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHH
Confidence            46789999999999999999999876

>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=92.00  E-value=0.059  Score=51.28  Aligned_cols=23  Identities=39%  Similarity=0.551  Sum_probs=21.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 048126          149 IIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ||+|.|+.|+|||||...+.+..
T Consensus         2 vi~v~G~~GsGKTTLl~~ll~~~   24 (244)
T d1yrba1           2 IVVFVGTAGSGKTTLTGEFGRYL   24 (244)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEEcCCCCcHHHHHHHHHHHH
Confidence            78999999999999999998765

>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=91.99  E-value=0.11  Score=50.09  Aligned_cols=103  Identities=11%  Similarity=0.056  Sum_probs=54.8

Q ss_pred             HHHHhcC-CCccEEEEEcCCCCcHHHHHHHHHhhhcC----CCCC-CCEEEEEEeCCccC-HHHHHHHHHHHhCCCCcc-
Q 048126          138 VWRCLGE-EQVGIIGLYGMGGVGKTTLLTKINNKLLG----APND-FDVVIWVVVSKDLQ-LEKIQEKIGRRIGFLDES-  209 (863)
Q Consensus       138 l~~~L~~-~~~~vi~I~G~gGiGKTtLa~~v~~~~~~----~~~~-F~~~~wv~~s~~~~-~~~~~~~i~~~l~~~~~~-  209 (863)
                      +++.+.. .+-..++|.|..|+|||+|+..+.....+    .... =..++++-+.+... ..++.+.+...-.....- 
T Consensus        58 aID~l~pig~GQr~~If~~~g~GKt~ll~~~~~~~~~~~~~~~~~~~~~~v~~~IGer~~E~~e~~~~~~~~~~~~~tvv  137 (285)
T d2jdia3          58 AVDSLVPIGRGQRELIIGDRQTGKTSIAIDTIINQKRFNDGTDEKKKLYCIYVAIGQKRSTVAQLVKRLTDADAMKYTIV  137 (285)
T ss_dssp             HHHHHSCCBTTCBCEEEESTTSSHHHHHHHHHHHTHHHHTSSCTTTCCEEEEEEESCCHHHHHHHHHHHHHTTCGGGEEE
T ss_pred             EEecccCccCCCEEEeecCCCCChHHHHHHHHHhHHhhccccccccceEEEEeeeCccHHHHHHHHHHhcccccccceEE
Confidence            4555543 34457889999999999999877654311    1111 12456777776653 345555554432111000 


Q ss_pred             ---ccCCChhH------HHHHHHHHh--ccCcEEEEEeccCC
Q 048126          210 ---WKNGSLED------KASDILRIL--SKKKFLLLLDDIWE  240 (863)
Q Consensus       210 ---~~~~~~~~------~~~~l~~~l--~~kr~LlVlDdv~~  240 (863)
                         ....+...      .+-.+.+++  ++|.+|+++||+..
T Consensus       138 v~~ts~~~~~~r~~~~~~a~tiAEyfrd~G~~VLll~Dsltr  179 (285)
T d2jdia3         138 VSATASDAAPLQYLAPYSGCSMGEYFRDNGKHALIIYDDLSK  179 (285)
T ss_dssp             EEECTTSCHHHHHHHHHHHHHHHHHHHHTTCEEEEEEETHHH
T ss_pred             EEECCCCCHHHHHHHHHHHHHHHHHHHHcCCcEEEEEcChHH
Confidence               00111111      111233333  57999999999854

>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=91.94  E-value=0.063  Score=48.15  Aligned_cols=35  Identities=26%  Similarity=0.622  Sum_probs=26.9

Q ss_pred             HHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHhh
Q 048126          135 FDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNK  170 (863)
Q Consensus       135 ~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~  170 (863)
                      ..++..++.....+ |.|+|.+|+|||||...+...
T Consensus         4 ~~~~~~~~~~k~~k-I~vvG~~~~GKSsLi~rl~~~   38 (177)
T d1zj6a1           4 FTRIWRLFNHQEHK-VIIVGLDNAGKTTILYQFSMN   38 (177)
T ss_dssp             HHHHHHHHTTSCEE-EEEEESTTSSHHHHHHHHHTT
T ss_pred             HHHHHHHhCCCeEE-EEEECCCCCCHHHHHHHHhcC
Confidence            34567666655554 669999999999999998765

>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=91.92  E-value=0.053  Score=50.24  Aligned_cols=23  Identities=35%  Similarity=0.712  Sum_probs=21.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 048126          149 IIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      .|+|-|+.|+||||+++.+.+..
T Consensus         2 lI~ieG~dGsGKST~~~~L~~~l   24 (208)
T d1gsia_           2 LIAIEGVDGAGKRTLVEKLSGAF   24 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            58999999999999999999877

>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=91.77  E-value=0.046  Score=50.56  Aligned_cols=24  Identities=17%  Similarity=0.278  Sum_probs=22.1

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          148 GIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      .+|.|+|+.|+|||||.+.+..+.
T Consensus         3 ~livi~GPSG~GK~tl~~~L~~~~   26 (205)
T d1s96a_           3 TLYIVSAPSGAGKSSLIQALLKTQ   26 (205)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHhhC
Confidence            578899999999999999999876

>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=91.72  E-value=0.044  Score=51.68  Aligned_cols=26  Identities=35%  Similarity=0.336  Sum_probs=22.5

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      .-.+++|+|+.|+|||||++.++.-.
T Consensus        28 ~Ge~~~liG~sGaGKSTll~~i~gl~   53 (240)
T d1g2912          28 DGEFMILLGPSGCGKTTTLRMIAGLE   53 (240)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHHTSS
T ss_pred             CCCEEEEECCCCChHHHHHHHHhcCC
Confidence            34699999999999999999998654

>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=91.53  E-value=0.034  Score=51.25  Aligned_cols=26  Identities=38%  Similarity=0.636  Sum_probs=22.9

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      .-.+++|+|+.|+|||||.+.++.-.
T Consensus        26 ~Gei~~l~G~NGsGKSTLl~~i~gl~   51 (200)
T d1sgwa_          26 KGNVVNFHGPNGIGKTTLLKTISTYL   51 (200)
T ss_dssp             TTCCEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCChHHHHHHHHhccc
Confidence            34689999999999999999998765

>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=91.48  E-value=0.46  Score=45.68  Aligned_cols=24  Identities=25%  Similarity=0.451  Sum_probs=21.1

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          148 GIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      .+..|+|.+|+||||||.+++-..
T Consensus        30 ~~~~i~G~~G~GKS~l~l~la~~i   53 (274)
T d1nlfa_          30 TVGALVSPGGAGKSMLALQLAAQI   53 (274)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             cEEEEEeCCCCCHHHHHHHHHHHH
Confidence            578899999999999999987765

>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=91.48  E-value=0.083  Score=53.49  Aligned_cols=46  Identities=24%  Similarity=0.195  Sum_probs=34.6

Q ss_pred             CCccchhHHHHHHHHHhc------------------------------CCCccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          126 EPTVGLESMFDKVWRCLG------------------------------EEQVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~------------------------------~~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ..+||-++.++.+..++.                              ......+-.+|+.|||||.||+.++.-.
T Consensus        17 ~~ViGQd~Akkava~Avrn~~rR~~~~~~~r~~~~~~~~~~~~~~~~~~~p~~niLfiGPTGvGKTElAk~LA~~~   92 (364)
T d1um8a_          17 NYVIGQEQAKKVFSVAVYNHYKRLSFKEKLKKQDNQDSNVELEHLEEVELSKSNILLIGPTGSGKTLMAQTLAKHL   92 (364)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHHHHHHHHHHHHCSHHHHHHHHHHHHTTCCCCCEEEECCTTSSHHHHHHHHHHHT
T ss_pred             CeecChHHHHHHHHHHHHHHHHHHHHHHHhhccccccccccccccccccCCCcceeeeCCCCccHHHHHHHHHhhc
Confidence            356898888877765541                              1134568889999999999999998765

>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=91.41  E-value=0.049  Score=51.01  Aligned_cols=26  Identities=31%  Similarity=0.385  Sum_probs=22.6

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      .-.+++|+|+.|+|||||.+.++.-.
T Consensus        25 ~Gei~~liGpsGsGKSTLl~~i~Gl~   50 (232)
T d2awna2          25 EGEFVVFVGPSGCGKSTLLRMIAGLE   50 (232)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             CCCEEEEECCCCChHHHHHHHHhcCC
Confidence            44699999999999999999997654

>d1r8sa_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARF1 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARF1 [TaxId: 9606]

Probab=91.40  E-value=0.05  Score=47.76  Aligned_cols=22  Identities=36%  Similarity=0.471  Sum_probs=19.5

Q ss_pred             EEEEcCCCCcHHHHHHHHHhhh
Q 048126          150 IGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       150 i~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      |.|+|.+|+|||||...+..+.
T Consensus         3 ivlvG~~~vGKSsLi~~l~~~~   24 (160)
T d1r8sa_           3 ILMVGLDAAGKTTILYKLKLGE   24 (160)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHhcCC
Confidence            6699999999999999987664

>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=91.35  E-value=0.03  Score=53.39  Aligned_cols=25  Identities=20%  Similarity=0.290  Sum_probs=22.8

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          147 VGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      .+.|+|-|+.|+||||+|+.+.+..
T Consensus         2 ~k~I~ieG~dGsGKST~~~~L~~~l   26 (241)
T d1p5zb_           2 IKKISIEGNIAAGKSTFVNILKQLC   26 (241)
T ss_dssp             CEEEEEECSTTSSHHHHHTTTGGGC
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHH
Confidence            4789999999999999999998876

>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=91.30  E-value=0.044  Score=51.35  Aligned_cols=26  Identities=27%  Similarity=0.391  Sum_probs=22.1

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      .-.+++|+|+.|+|||||.+.++.-.
T Consensus        30 ~Ge~~~iiG~sGsGKSTLl~~i~gl~   55 (230)
T d1l2ta_          30 EGEFVSIMGPSGSGKSTMLNIIGCLD   55 (230)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCcchhhHhccCCC
Confidence            44699999999999999999887643

>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=91.23  E-value=0.12  Score=47.92  Aligned_cols=35  Identities=23%  Similarity=0.293  Sum_probs=26.7

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEE
Q 048126          148 GIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWV  184 (863)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv  184 (863)
                      +.|+|-|+.|+||||+++.+.+...  ...+..+++.
T Consensus         3 kfIviEG~dGsGKsT~~~~L~~~L~--~~g~~~~~~~   37 (210)
T d4tmka_           3 KYIVIEGLEGAGKTTARNVVVETLE--QLGIRDMVFT   37 (210)
T ss_dssp             CEEEEEECTTSCHHHHHHHHHHHHH--HTTCCCEEEE
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHH--hCCCCeEEEe
Confidence            5789999999999999999998772  2344444444

>d1upta_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARL1 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL1 [TaxId: 9606]

Probab=91.19  E-value=0.051  Score=48.13  Aligned_cols=23  Identities=35%  Similarity=0.522  Sum_probs=20.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 048126          149 IIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      -|+|+|.+|+|||||.+.+.++.
T Consensus         7 kI~ivG~~~vGKSSLi~~~~~~~   29 (169)
T d1upta_           7 RILILGLDGAGKTTILYRLQVGE   29 (169)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            37799999999999999998764

>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=91.13  E-value=0.055  Score=50.91  Aligned_cols=26  Identities=35%  Similarity=0.355  Sum_probs=22.6

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      .-.+++|+|+.|+|||||.+.+..-.
T Consensus        31 ~Ge~~~liGpsGaGKSTLl~~i~Gl~   56 (239)
T d1v43a3          31 DGEFLVLLGPSGCGKTTTLRMIAGLE   56 (239)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             CCCEEEEECCCCChHHHHHHHHHcCC
Confidence            44689999999999999999988654

>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=90.97  E-value=0.049  Score=51.35  Aligned_cols=26  Identities=35%  Similarity=0.464  Sum_probs=22.7

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      .-.+++|+|+.|+|||||++.++.-.
T Consensus        30 ~Ge~~~iiG~sGsGKSTLl~~i~Gl~   55 (240)
T d3dhwc1          30 AGQIYGVIGASGAGKSTLIRCVNLLE   55 (240)
T ss_dssp             SSCEEEEEESTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHcCCc
Confidence            44699999999999999999997654

>d1svia_ c.37.1.8 (A:) Probable GTPase EngB {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngB
species: Bacillus subtilis [TaxId: 1423]

Probab=90.95  E-value=0.064  Score=49.10  Aligned_cols=26  Identities=27%  Similarity=0.460  Sum_probs=22.7

Q ss_pred             CCccEEEEEcCCCCcHHHHHHHHHhh
Q 048126          145 EQVGIIGLYGMGGVGKTTLLTKINNK  170 (863)
Q Consensus       145 ~~~~vi~I~G~gGiGKTtLa~~v~~~  170 (863)
                      ++++.|+|+|.+|+|||||...+.+.
T Consensus        21 ~~~~~I~lvG~~n~GKSTLin~L~g~   46 (195)
T d1svia_          21 GGLPEIALAGRSNVGKSSFINSLINR   46 (195)
T ss_dssp             SCCCEEEEEEBTTSSHHHHHHHHHTC
T ss_pred             CCCCEEEEECCCCCCHHHHHHHhcCC
Confidence            35668999999999999999999864

>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=90.94  E-value=0.089  Score=53.17  Aligned_cols=27  Identities=22%  Similarity=0.064  Sum_probs=24.7

Q ss_pred             CCccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          145 EQVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       145 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      +..+.+.++|++|+|||++|+.+++..
T Consensus       152 ~~~~~~~~~g~~~~gk~~~~~~~~~~~  178 (362)
T d1svma_         152 PKKRYWLFKGPIDSGKTTLAAALLELC  178 (362)
T ss_dssp             TTCCEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCcCeEEEECCCCCCHHHHHHHHHHHc
Confidence            456789999999999999999999988

>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=90.84  E-value=0.033  Score=53.98  Aligned_cols=26  Identities=23%  Similarity=0.418  Sum_probs=20.2

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      +..+|+|.|..|+||||+|+.+.+.+
T Consensus         3 k~pIIgIaG~SGSGKTTva~~l~~i~   28 (288)
T d1a7ja_           3 KHPIISVTGSSGAGTSTVKHTFDQIF   28 (288)
T ss_dssp             TSCEEEEESCC---CCTHHHHHHHHH
T ss_pred             CCCEEEEECCCCCcHHHHHHHHHHHH
Confidence            45699999999999999999988776

>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=90.83  E-value=0.061  Score=50.53  Aligned_cols=24  Identities=29%  Similarity=0.386  Sum_probs=21.7

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          148 GIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      .+++|+|+.|+|||||++.++.-.
T Consensus        25 e~~~liGpnGaGKSTll~~i~Gl~   48 (240)
T d2onka1          25 DYCVLLGPTGAGKSVFLELIAGIV   48 (240)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEEECCCCChHHHHHHHHHcCC
Confidence            488999999999999999998765

>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=90.72  E-value=0.059  Score=50.98  Aligned_cols=26  Identities=38%  Similarity=0.528  Sum_probs=22.6

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      .-..++|+|..|.|||||++.+..-.
T Consensus        28 ~Ge~vaIvG~sGsGKSTLl~ll~gl~   53 (241)
T d2pmka1          28 QGEVIGIVGRSGSGKSTLTKLIQRFY   53 (241)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhcC
Confidence            34689999999999999999997654

>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=90.65  E-value=0.053  Score=51.90  Aligned_cols=26  Identities=35%  Similarity=0.437  Sum_probs=22.4

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      .-.+++|+|+.|+|||||++.+..-.
T Consensus        27 ~GEi~~iiG~sGsGKSTLl~~i~Gl~   52 (258)
T d1b0ua_          27 AGDVISIIGSSGSGKSTFLRCINFLE   52 (258)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHHcCc
Confidence            44699999999999999999997543

>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=90.58  E-value=0.053  Score=50.62  Aligned_cols=26  Identities=27%  Similarity=0.250  Sum_probs=22.9

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      .-.+++|+|+.|+|||||.+.++.-.
T Consensus        25 ~Ge~~~liGpsGaGKSTll~~l~Gl~   50 (229)
T d3d31a2          25 SGEYFVILGPTGAGKTLFLELIAGFH   50 (229)
T ss_dssp             TTCEEEEECCCTHHHHHHHHHHHTSS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhcCc
Confidence            44699999999999999999998764

>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=90.57  E-value=0.061  Score=51.39  Aligned_cols=26  Identities=27%  Similarity=0.367  Sum_probs=22.4

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      .-.+++|+|+.|+|||||++.+..-.
T Consensus        40 ~Ge~iaivG~sGsGKSTLl~ll~gl~   65 (253)
T d3b60a1          40 AGKTVALVGRSGSGKSTIASLITRFY   65 (253)
T ss_dssp             TTCEEEEEECTTSSHHHHHHHHTTTT
T ss_pred             CCCEEEEECCCCChHHHHHHHHhccc
Confidence            44689999999999999999997554

>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=90.55  E-value=0.062  Score=49.86  Aligned_cols=20  Identities=35%  Similarity=0.486  Sum_probs=18.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHH
Q 048126          149 IIGLYGMGGVGKTTLLTKIN  168 (863)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~  168 (863)
                      +|+|+|+.|+||||+|+.+.
T Consensus         5 iIgitG~igSGKStv~~~l~   24 (208)
T d1vhta_           5 IVALTGGIGSGKSTVANAFA   24 (208)
T ss_dssp             EEEEECCTTSCHHHHHHHHH
T ss_pred             EEEEECCCcCCHHHHHHHHH
Confidence            89999999999999998663

>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=90.53  E-value=0.18  Score=46.69  Aligned_cols=25  Identities=32%  Similarity=0.349  Sum_probs=23.2

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          147 VGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      -+.|+|-|+-|+||||+++.+++..
T Consensus         3 Gk~I~iEG~DGsGKST~~~~L~~~L   27 (214)
T d1tmka_           3 GKLILIEGLDRTGKTTQCNILYKKL   27 (214)
T ss_dssp             CCEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             eEEEEEECCCCCcHHHHHHHHHHHH
Confidence            4689999999999999999999887

>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=90.52  E-value=0.065  Score=47.50  Aligned_cols=22  Identities=32%  Similarity=0.295  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhh
Q 048126          149 IIGLYGMGGVGKTTLLTKINNK  170 (863)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~  170 (863)
                      -|.++|.+|+|||||+..+.+.
T Consensus         4 Kv~liG~~~vGKTsLl~~~~~~   25 (165)
T d1z06a1           4 KIIVIGDSNVGKTCLTYRFCAG   25 (165)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3779999999999999999875

>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=90.43  E-value=0.066  Score=52.01  Aligned_cols=26  Identities=35%  Similarity=0.507  Sum_probs=23.1

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      .-.+++|+|+.|+|||||++.++.-.
T Consensus        61 ~Ge~vaivG~nGsGKSTLl~~i~Gl~   86 (281)
T d1r0wa_          61 KGEMLAITGSTGSGKTSLLMLILGEL   86 (281)
T ss_dssp             TTCEEEEEESTTSSHHHHHHHHHTSS
T ss_pred             CCCEEEEECCCCChHHHHHHHHhCCC
Confidence            44689999999999999999998765

>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=90.41  E-value=0.1  Score=49.34  Aligned_cols=37  Identities=32%  Similarity=0.362  Sum_probs=28.4

Q ss_pred             cEEEEE-cCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeC
Q 048126          148 GIIGLY-GMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVS  187 (863)
Q Consensus       148 ~vi~I~-G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s  187 (863)
                      ++|+|+ +-||+||||+|..++....  .... .++.|...
T Consensus         3 ~vIav~~~kGGvGKTtia~nLA~~la--~~g~-~VlliD~D   40 (237)
T d1g3qa_           3 RIISIVSGKGGTGKTTVTANLSVALG--DRGR-KVLAVDGD   40 (237)
T ss_dssp             EEEEEECSSTTSSHHHHHHHHHHHHH--HTTC-CEEEEECC
T ss_pred             eEEEEECCCCCCcHHHHHHHHHHHHH--hCCC-CEEEEeCC
Confidence            689999 5799999999999998873  2223 47777754

>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=90.38  E-value=0.43  Score=45.14  Aligned_cols=48  Identities=15%  Similarity=0.132  Sum_probs=35.7

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhhcC---CCCCCCEEEEEEeCCccCHH
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKLLG---APNDFDVVIWVVVSKDLQLE  193 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~---~~~~F~~~~wv~~s~~~~~~  193 (863)
                      .-+++.|+|.+|+|||++|.+++.....   ....+..+.|+.....+...
T Consensus        36 ~G~~~~i~G~~GsGKT~lalq~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   86 (258)
T d1v5wa_          36 SMAITEAFGEFRTGKTQLSHTLCVTAQLPGAGGYPGGKIIFIDTENTFRPD   86 (258)
T ss_dssp             SSEEEEEECCTTCTHHHHHHHHHHHTTSCBTTTBCCCEEEEEESSSCCCHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHHHhhhhcccccceEEEechHHHHHHH
Confidence            4569999999999999999999875421   12345678888877666543

>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=90.36  E-value=0.068  Score=47.86  Aligned_cols=23  Identities=35%  Similarity=0.450  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 048126          149 IIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      -|.|+|.+|+|||||+..+.++.
T Consensus         5 KivvvG~~~vGKTsli~r~~~~~   27 (173)
T d2a5ja1           5 KYIIIGDTGVGKSCLLLQFTDKR   27 (173)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHhcCC
Confidence            36799999999999999987653

>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=90.31  E-value=0.07  Score=47.38  Aligned_cols=22  Identities=36%  Similarity=0.463  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhh
Q 048126          149 IIGLYGMGGVGKTTLLTKINNK  170 (863)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~  170 (863)
                      -|.|+|.+|+|||+|+..+.++
T Consensus         6 KivlvG~~~vGKTsli~~~~~~   27 (166)
T d1z0fa1           6 KYIIIGDMGVGKSCLLHQFTEK   27 (166)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3779999999999999998765

>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=90.27  E-value=0.068  Score=50.98  Aligned_cols=26  Identities=27%  Similarity=0.385  Sum_probs=22.7

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      .-.+++|+|+.|+|||||++.+..-.
T Consensus        39 ~Ge~vaivG~sGsGKSTLl~li~gl~   64 (251)
T d1jj7a_          39 PGEVTALVGPNGSGKSTVAALLQNLY   64 (251)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhccc
Confidence            44699999999999999999987654

>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=90.16  E-value=0.07  Score=50.56  Aligned_cols=26  Identities=27%  Similarity=0.423  Sum_probs=22.3

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      .-..++|+|+.|+|||||++.+..-.
T Consensus        27 ~Ge~vaivG~sGsGKSTLl~ll~gl~   52 (242)
T d1mv5a_          27 PNSIIAFAGPSGGGKSTIFSLLERFY   52 (242)
T ss_dssp             TTEEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHhh
Confidence            44699999999999999999986543

>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=90.07  E-value=0.074  Score=47.07  Aligned_cols=21  Identities=24%  Similarity=0.526  Sum_probs=18.7

Q ss_pred             EEEEcCCCCcHHHHHHHHHhh
Q 048126          150 IGLYGMGGVGKTTLLTKINNK  170 (863)
Q Consensus       150 i~I~G~gGiGKTtLa~~v~~~  170 (863)
                      |.++|.+|+|||||+..+.+.
T Consensus         5 v~liG~~~vGKSsLi~rl~~~   25 (164)
T d1z2aa1           5 MVVVGNGAVGKSSMIQRYCKG   25 (164)
T ss_dssp             EEEECSTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            679999999999999988764

>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=89.82  E-value=0.08  Score=46.81  Aligned_cols=22  Identities=32%  Similarity=0.463  Sum_probs=19.4

Q ss_pred             EEEEcCCCCcHHHHHHHHHhhh
Q 048126          150 IGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       150 i~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      |.|+|.+|+|||+|++.+.+..
T Consensus         3 v~vvG~~~vGKTsLi~r~~~~~   24 (164)
T d1yzqa1           3 LVFLGEQSVGKTSLITRFMYDS   24 (164)
T ss_dssp             EEEEESTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            6799999999999999987653

>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=89.78  E-value=0.079  Score=48.96  Aligned_cols=21  Identities=43%  Similarity=0.513  Sum_probs=18.6

Q ss_pred             cEEEEEcCCCCcHHHHHHHHH
Q 048126          148 GIIGLYGMGGVGKTTLLTKIN  168 (863)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~  168 (863)
                      -+|||+|..|+||||+|+.+-
T Consensus         3 ~iIgITG~igSGKStv~~~l~   23 (205)
T d1jjva_           3 YIVGLTGGIGSGKTTIANLFT   23 (205)
T ss_dssp             EEEEEECSTTSCHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHH
Confidence            479999999999999998763

>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=89.63  E-value=0.085  Score=46.96  Aligned_cols=22  Identities=32%  Similarity=0.459  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhh
Q 048126          149 IIGLYGMGGVGKTTLLTKINNK  170 (863)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~  170 (863)
                      -|.++|.+|+|||||...+.+.
T Consensus         7 Ki~vvG~~~vGKTsLi~~l~~~   28 (169)
T d3raba_           7 KILIIGNSSVGKTSFLFRYADD   28 (169)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHcC
Confidence            3789999999999999988765

>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=89.62  E-value=0.079  Score=47.24  Aligned_cols=21  Identities=33%  Similarity=0.817  Sum_probs=18.8

Q ss_pred             EEEEcCCCCcHHHHHHHHHhh
Q 048126          150 IGLYGMGGVGKTTLLTKINNK  170 (863)
Q Consensus       150 i~I~G~gGiGKTtLa~~v~~~  170 (863)
                      |.++|.+|+|||||...+.++
T Consensus         5 i~viG~~~vGKTsLi~r~~~~   25 (171)
T d2erxa1           5 VAVFGAGGVGKSSLVLRFVKG   25 (171)
T ss_dssp             EEEECCTTSSHHHHHHHHHTC
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            679999999999999998765

>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=89.61  E-value=0.085  Score=46.83  Aligned_cols=22  Identities=27%  Similarity=0.505  Sum_probs=19.5

Q ss_pred             EEEEcCCCCcHHHHHHHHHhhh
Q 048126          150 IGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       150 i~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      |.|+|.+|+|||||.+.+.++.
T Consensus         7 i~lvG~~~vGKTsli~rl~~~~   28 (167)
T d1z0ja1           7 VCLLGDTGVGKSSIMWRFVEDS   28 (167)
T ss_dssp             EEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            6799999999999999988754

>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=89.61  E-value=0.084  Score=47.06  Aligned_cols=22  Identities=41%  Similarity=0.576  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhh
Q 048126          149 IIGLYGMGGVGKTTLLTKINNK  170 (863)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~  170 (863)
                      -|.|+|.+|+|||||.+.+.+.
T Consensus         7 Ki~lvG~~~vGKTsLi~~l~~~   28 (171)
T d2ew1a1           7 KIVLIGNAGVGKTCLVRRFTQG   28 (171)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4779999999999999998875

>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=89.48  E-value=0.087  Score=46.75  Aligned_cols=22  Identities=36%  Similarity=0.524  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhh
Q 048126          149 IIGLYGMGGVGKTTLLTKINNK  170 (863)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~  170 (863)
                      -|.|+|.+|+|||+|+..+.+.
T Consensus         5 KivlvG~~~vGKTsLi~r~~~~   26 (167)
T d1z08a1           5 KVVLLGEGCVGKTSLVLRYCEN   26 (167)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHC
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3679999999999999998764

>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=89.44  E-value=0.089  Score=46.68  Aligned_cols=23  Identities=30%  Similarity=0.498  Sum_probs=20.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 048126          149 IIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      -|.++|-+|+|||||+..+.++.
T Consensus         5 Ki~lvG~~~vGKTsLi~r~~~~~   27 (167)
T d1kaoa_           5 KVVVLGSGGVGKSALTVQFVTGT   27 (167)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            47799999999999999998753

>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=89.36  E-value=0.072  Score=47.15  Aligned_cols=22  Identities=36%  Similarity=0.608  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhh
Q 048126          149 IIGLYGMGGVGKTTLLTKINNK  170 (863)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~  170 (863)
                      -|.|+|.+|+|||||...+.+.
T Consensus         4 ki~ivG~~~~GKTsLi~~l~~~   25 (165)
T d1ksha_           4 RLLMLGLDNAGKTTILKKFNGE   25 (165)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTC
T ss_pred             EEEEECCCCCCHHHHHHHHcCC
Confidence            3679999999999999998654

>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=89.32  E-value=0.09  Score=46.84  Aligned_cols=22  Identities=36%  Similarity=0.531  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhh
Q 048126          149 IIGLYGMGGVGKTTLLTKINNK  170 (863)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~  170 (863)
                      .|+|+|..|+|||||.+.+...
T Consensus         2 ~V~liG~~n~GKSsLi~~L~~~   23 (171)
T d1mkya1           2 TVLIVGRPNVGKSTLFNKLVKK   23 (171)
T ss_dssp             EEEEECCTTSSHHHHHHHHHC-
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            6899999999999999998754

>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=89.26  E-value=0.065  Score=50.41  Aligned_cols=26  Identities=31%  Similarity=0.401  Sum_probs=22.6

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      .-.+++|+|+.|+|||||++.+..-.
T Consensus        30 ~Ge~~~iiG~sGsGKSTll~~i~gl~   55 (242)
T d1oxxk2          30 NGERFGILGPSGAGKTTFMRIIAGLD   55 (242)
T ss_dssp             TTCEEEEECSCHHHHHHHHHHHHTSS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHHcCc
Confidence            34699999999999999999998754

>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=89.23  E-value=0.095  Score=46.66  Aligned_cols=23  Identities=26%  Similarity=0.395  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 048126          149 IIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      -|.|+|.+|+|||||+..+.+..
T Consensus         8 Ki~vvG~~~vGKTsLi~~l~~~~   30 (170)
T d1r2qa_           8 KLVLLGESAVGKSSLVLRFVKGQ   30 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            46899999999999999988653

>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=89.22  E-value=0.093  Score=46.90  Aligned_cols=22  Identities=32%  Similarity=0.446  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhh
Q 048126          149 IIGLYGMGGVGKTTLLTKINNK  170 (863)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~  170 (863)
                      -|.++|.+|+|||||+..+...
T Consensus         7 KI~lvG~~~vGKTsll~~~~~~   28 (174)
T d2bmea1           7 KFLVIGNAGTGKSCLLHQFIEK   28 (174)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3789999999999999998754

>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=89.22  E-value=0.093  Score=46.47  Aligned_cols=23  Identities=39%  Similarity=0.499  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 048126          149 IIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      -|.++|.+|+|||||+..+.+..
T Consensus         4 Ki~vvG~~~vGKTSli~~l~~~~   26 (166)
T d1g16a_           4 KILLIGDSGVGKSCLLVRFVEDK   26 (166)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHCC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            36799999999999999987653

>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=89.20  E-value=0.1  Score=49.54  Aligned_cols=24  Identities=29%  Similarity=0.248  Sum_probs=22.0

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          148 GIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      .+|+|.|..|+||||+|+.+.+.+
T Consensus         2 ~iIgiTG~igSGKsTva~~l~e~~   25 (241)
T d1deka_           2 KLIFLSGVKRSGKDTTADFIMSNY   25 (241)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHHhC
Confidence            689999999999999999998765

>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=89.15  E-value=0.09  Score=46.73  Aligned_cols=23  Identities=30%  Similarity=0.358  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 048126          149 IIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      -|.++|.+|+|||+|++.+.+..
T Consensus         3 Ki~lvG~~~vGKTsLi~~~~~~~   25 (168)
T d2gjsa1           3 KVLLLGAPGVGKSALARIFGGVE   25 (168)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTC-
T ss_pred             EEEEECCCCcCHHHHHHHHhCCc
Confidence            37799999999999999987653

>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=89.12  E-value=0.085  Score=49.88  Aligned_cols=26  Identities=38%  Similarity=0.538  Sum_probs=22.9

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      .-.+++|+|+.|+|||||.+.+..-.
T Consensus        31 ~Gei~~liGpnGaGKSTl~~~i~Gl~   56 (240)
T d1ji0a_          31 RGQIVTLIGANGAGKTTTLSAIAGLV   56 (240)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhCCC
Confidence            34699999999999999999998765

>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=89.12  E-value=0.096  Score=46.83  Aligned_cols=22  Identities=36%  Similarity=0.572  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhh
Q 048126          149 IIGLYGMGGVGKTTLLTKINNK  170 (863)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~  170 (863)
                      -|+|+|.+|+|||||...+.++
T Consensus         4 Ki~~vG~~~vGKSsLi~~~~~~   25 (175)
T d1ky3a_           4 KVIILGDSGVGKTSLMHRYVND   25 (175)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHcC
Confidence            3789999999999999998764

>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=89.09  E-value=0.098  Score=46.48  Aligned_cols=22  Identities=32%  Similarity=0.705  Sum_probs=19.5

Q ss_pred             EEEEcCCCCcHHHHHHHHHhhh
Q 048126          150 IGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       150 i~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      |.++|.+|+|||+|.+.+.++.
T Consensus         5 i~lvG~~~vGKTsli~r~~~~~   26 (168)
T d2atva1           5 LAIFGRAGVGKSALVVRFLTKR   26 (168)
T ss_dssp             EEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCCCHHHHHHHHHhCC
Confidence            5799999999999999998764

>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=89.07  E-value=0.32  Score=42.09  Aligned_cols=26  Identities=31%  Similarity=0.326  Sum_probs=23.3

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      .-.+|.+.|.=|+||||+++.+++..
T Consensus        32 ~g~ii~L~G~LGaGKTtfvr~~~~~l   57 (158)
T d1htwa_          32 KAIMVYLNGDLGAGKTTLTRGMLQGI   57 (158)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             CCeEEEEecCCCccHHHHHHHHHhhc
Confidence            34589999999999999999999887

>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=89.01  E-value=0.098  Score=46.73  Aligned_cols=22  Identities=32%  Similarity=0.490  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhh
Q 048126          149 IIGLYGMGGVGKTTLLTKINNK  170 (863)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~  170 (863)
                      -|.|+|.+|+|||+|+..+.+.
T Consensus         8 Kv~lvG~~~vGKTsLi~r~~~~   29 (173)
T d2fn4a1           8 KLVVVGGGGVGKSALTIQFIQS   29 (173)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4779999999999999998765

>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=88.95  E-value=0.088  Score=49.66  Aligned_cols=26  Identities=42%  Similarity=0.579  Sum_probs=22.8

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      .-.+++|+|+.|+|||||.+.+..-.
T Consensus        27 ~Gei~glvG~nGaGKSTLl~~l~G~~   52 (238)
T d1vpla_          27 EGEIFGLIGPNGAGKTTTLRIISTLI   52 (238)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            34699999999999999999997765

>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=88.93  E-value=0.1  Score=46.78  Aligned_cols=25  Identities=32%  Similarity=0.518  Sum_probs=22.0

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          147 VGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ...|+|+|..|+|||||...+....
T Consensus         5 ~~~I~lvG~~~~GKSSLin~l~~~~   29 (178)
T d1wf3a1           5 SGFVAIVGKPNVGKSTLLNNLLGVK   29 (178)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHTSC
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCCC
Confidence            4579999999999999999998753

>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=88.88  E-value=0.09  Score=47.61  Aligned_cols=22  Identities=36%  Similarity=0.508  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhh
Q 048126          149 IIGLYGMGGVGKTTLLTKINNK  170 (863)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~  170 (863)
                      -|.|+|.+|+|||||+..+.+.
T Consensus         7 Ki~ivG~~~vGKTsLi~~l~~~   28 (186)
T d2f7sa1           7 KLLALGDSGVGKTTFLYRYTDN   28 (186)
T ss_dssp             EEEEESCTTSSHHHHHHHHHCS
T ss_pred             EEEEECCCCcCHHHHHHHHhcC
Confidence            3679999999999999998764

>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=88.83  E-value=0.1  Score=46.45  Aligned_cols=22  Identities=32%  Similarity=0.486  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhh
Q 048126          149 IIGLYGMGGVGKTTLLTKINNK  170 (863)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~  170 (863)
                      -|.|+|.+|+|||+|...+.++
T Consensus         7 Ki~lvG~~~vGKTsLi~r~~~~   28 (171)
T d2erya1           7 RLVVVGGGGVGKSALTIQFIQS   28 (171)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            4779999999999999998765

>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=88.82  E-value=0.1  Score=46.76  Aligned_cols=24  Identities=42%  Similarity=0.668  Sum_probs=21.6

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHhh
Q 048126          147 VGIIGLYGMGGVGKTTLLTKINNK  170 (863)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~  170 (863)
                      +..|+|+|.+|+|||||...+.+.
T Consensus         5 ~~~I~iiG~~nvGKSSLin~L~~~   28 (179)
T d1egaa1           5 CGFIAIVGRPNVGKSTLLNKLLGQ   28 (179)
T ss_dssp             EEEEEEECSSSSSHHHHHHHHHTC
T ss_pred             ccEEEEECCCCCCHHHHHHHHhCC
Confidence            467999999999999999999864

>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=88.76  E-value=0.11  Score=46.59  Aligned_cols=22  Identities=36%  Similarity=0.631  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhh
Q 048126          149 IIGLYGMGGVGKTTLLTKINNK  170 (863)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~  170 (863)
                      -|.|+|..|+|||||+..+.+.
T Consensus         6 Ki~vvG~~~vGKTsLi~~~~~~   27 (175)
T d2f9la1           6 KVVLIGDSGVGKSNLLSRFTRN   27 (175)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4789999999999999998765

>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=88.73  E-value=0.18  Score=46.75  Aligned_cols=47  Identities=11%  Similarity=0.096  Sum_probs=31.0

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhhcCC---CCCCCEEEEEEeCCccCH
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGA---PNDFDVVIWVVVSKDLQL  192 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~---~~~F~~~~wv~~s~~~~~  192 (863)
                      .-.++.|.|.+|+|||++|.+++......   ...+....++........
T Consensus        22 ~G~v~~i~G~~GsGKT~l~l~la~~~~~~~~~~~~~~~~~~~~~~~~~~~   71 (242)
T d1n0wa_          22 TGSITEMFGEFRTGKTQICHTLAVTCQLPIDRGGGEGKAMYIDTEGTFRP   71 (242)
T ss_dssp             TTSEEEEECCTTSSHHHHHHHHHHHTTSCGGGTCCSSEEEEEESSSCCCH
T ss_pred             CCEEEEEEeCCCCCHHHHHHHHHHHHHHhhccccccceehhhhhhhhhHH
Confidence            34699999999999999999998765211   112234455555444443

>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=88.71  E-value=0.11  Score=46.10  Aligned_cols=23  Identities=26%  Similarity=0.413  Sum_probs=20.0

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHhh
Q 048126          148 GIIGLYGMGGVGKTTLLTKINNK  170 (863)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~  170 (863)
                      .-|.|+|..|+|||||...+.+.
T Consensus         5 ~Kv~liG~~~vGKTsLl~~~~~~   27 (167)
T d1xtqa1           5 RKIAILGYRSVGKSSLTIQFVEG   27 (167)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCcCHHHHHHHHHhC
Confidence            45789999999999999998764

>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=88.66  E-value=0.11  Score=47.78  Aligned_cols=24  Identities=33%  Similarity=0.331  Sum_probs=21.3

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          148 GIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      +.|+|+|.+|+|||||...+.+..
T Consensus         4 p~V~lvG~~n~GKTSLln~l~~~~   27 (209)
T d1nrjb_           4 PSIIIAGPQNSGKTSLLTLLTTDS   27 (209)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHSS
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCC
Confidence            478999999999999999998763

>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=88.66  E-value=0.094  Score=50.08  Aligned_cols=26  Identities=31%  Similarity=0.433  Sum_probs=22.8

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      .-.+++|+|+.|+|||||++.++.-.
T Consensus        29 ~Gei~~liG~nGaGKSTLl~~i~Gl~   54 (254)
T d1g6ha_          29 KGDVTLIIGPNGSGKSTLINVITGFL   54 (254)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHHCCC
Confidence            34589999999999999999998765

>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=88.64  E-value=0.11  Score=46.07  Aligned_cols=23  Identities=30%  Similarity=0.556  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 048126          149 IIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      -|.++|.+|+|||+|+..+....
T Consensus         5 KivvvG~~~vGKTsli~r~~~~~   27 (167)
T d1c1ya_           5 KLVVLGSGGVGKSALTVQFVQGI   27 (167)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHCC
T ss_pred             EEEEECCCCCCHHHHHHHHHcCC
Confidence            36799999999999999987653

>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=88.64  E-value=0.15  Score=47.48  Aligned_cols=30  Identities=17%  Similarity=0.102  Sum_probs=24.2

Q ss_pred             cEEEEEcCC-CCcHHHHHHHHHhhhcCCCCCCC
Q 048126          148 GIIGLYGMG-GVGKTTLLTKINNKLLGAPNDFD  179 (863)
Q Consensus       148 ~vi~I~G~g-GiGKTtLa~~v~~~~~~~~~~F~  179 (863)
                      +.+.|.|.| ||||||++..++.-..  +..+.
T Consensus         2 ~~~~i~gt~~GVGKTtvs~~La~aLa--~~G~r   32 (224)
T d1byia_           2 KRYFVTGTDTEVGKTVASCALLQAAK--AAGYR   32 (224)
T ss_dssp             EEEEEEESSTTSCHHHHHHHHHHHHH--HTTCC
T ss_pred             ceEEEEECCCCccHHHHHHHHHHHHH--HCCCe
Confidence            468899998 9999999999988873  33444

>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=88.50  E-value=0.15  Score=45.72  Aligned_cols=25  Identities=32%  Similarity=0.599  Sum_probs=20.5

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhh
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNK  170 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~  170 (863)
                      +...|.++|.+|+|||||...+...
T Consensus        12 k~~kI~lvG~~~vGKTsLl~~l~~~   36 (186)
T d1f6ba_          12 KTGKLVFLGLDNAGKTTLLHMLKDD   36 (186)
T ss_dssp             CCEEEEEEEETTSSHHHHHHHHSCC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            4456789999999999999887544

>d2qtvb1 c.37.1.8 (B:24-189) SAR1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: SAR1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=88.45  E-value=0.13  Score=45.09  Aligned_cols=23  Identities=35%  Similarity=0.509  Sum_probs=20.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 048126          149 IIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      -|+++|.+|+|||||+..+.+..
T Consensus         2 KI~liG~~nvGKSSLln~l~~~~   24 (166)
T d2qtvb1           2 KLLFLGLDNAGKTTLLHMLKNDR   24 (166)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            47899999999999999987753

>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=88.39  E-value=0.12  Score=47.60  Aligned_cols=24  Identities=21%  Similarity=0.302  Sum_probs=21.1

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          148 GIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      +-|+|+|.+|+|||||...+....
T Consensus         1 k~V~ivG~~~~GKTsLl~~l~~~~   24 (207)
T d2fh5b1           1 RAVLFVGLCDSGKTLLFVRLLTGQ   24 (207)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             CEEEEECCCCCCHHHHHHHHHcCC
Confidence            468999999999999999998754

>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=88.36  E-value=0.12  Score=45.83  Aligned_cols=22  Identities=32%  Similarity=0.570  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhh
Q 048126          149 IIGLYGMGGVGKTTLLTKINNK  170 (863)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~  170 (863)
                      -|.++|.+|+|||||+..+.++
T Consensus         5 Ki~viG~~~vGKTsli~~l~~~   26 (166)
T d1ctqa_           5 KLVVVGAGGVGKSALTIQLIQN   26 (166)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            3789999999999999998875

>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=88.15  E-value=0.12  Score=46.26  Aligned_cols=23  Identities=30%  Similarity=0.365  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 048126          149 IIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      -|.|+|.+|+|||+|+..+.+..
T Consensus         4 KivvvG~~~vGKTsLi~~~~~~~   26 (177)
T d1kmqa_           4 KLVIVGDGACGKTCLLIVNSKDQ   26 (177)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            46789999999999999987653

>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=88.08  E-value=0.13  Score=45.78  Aligned_cols=22  Identities=23%  Similarity=0.451  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhh
Q 048126          149 IIGLYGMGGVGKTTLLTKINNK  170 (863)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~  170 (863)
                      -|.|+|..|+|||+|...+.+.
T Consensus         5 Ki~vvG~~~vGKTsLi~~~~~~   26 (170)
T d1ek0a_           5 KLVLLGEAAVGKSSIVLRFVSN   26 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3678999999999999998765

>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=88.04  E-value=0.13  Score=46.48  Aligned_cols=22  Identities=36%  Similarity=0.436  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhh
Q 048126          149 IIGLYGMGGVGKTTLLTKINNK  170 (863)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~  170 (863)
                      -|.|+|.+|+|||+|...+.++
T Consensus         7 KivviG~~~vGKTsli~~~~~~   28 (183)
T d1mh1a_           7 KCVVVGDGAVGKTCLLISYTTN   28 (183)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            4789999999999999998765

>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=88.01  E-value=0.12  Score=47.09  Aligned_cols=23  Identities=35%  Similarity=0.550  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 048126          149 IIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      -|.|+|.+|+|||||+..+....
T Consensus         8 KivvvG~~~vGKTsli~~l~~~~   30 (194)
T d2bcgy1           8 KLLLIGNSGVGKSCLLLRFSDDT   30 (194)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHCC
T ss_pred             EEEEECCCCcCHHHHHHHHhhCC
Confidence            47899999999999999988653

>d1nija1 c.37.1.10 (A:2-223) Hypothetical protein YjiA, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Hypothetical protein YjiA, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=88.00  E-value=0.11  Score=48.54  Aligned_cols=26  Identities=42%  Similarity=0.535  Sum_probs=22.9

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      .++|..|.|+-|+|||||.+.+....
T Consensus         2 ~iPv~iitGFLGaGKTTll~~lL~~~   27 (222)
T d1nija1           2 PIAVTLLTGFLGAGKTTLLRHILNEQ   27 (222)
T ss_dssp             CEEEEEEEESSSSSCHHHHHHHHHSC
T ss_pred             CCCEEEEeeCCCCCHHHHHHHHHhcC
Confidence            46789999999999999999998753

>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=87.97  E-value=0.21  Score=46.14  Aligned_cols=34  Identities=35%  Similarity=0.553  Sum_probs=27.3

Q ss_pred             HHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          135 FDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       135 ~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      +++|.++|..   +..+++|..|||||||...+..+.
T Consensus        86 ~~~L~~~l~~---kt~~~~G~SGVGKSTLiN~L~~~~  119 (225)
T d1u0la2          86 IEELKEYLKG---KISTMAGLSGVGKSSLLNAINPGL  119 (225)
T ss_dssp             HHHHHHHHSS---SEEEEECSTTSSHHHHHHHHSTTC
T ss_pred             HhhHHHHhcC---CeEEEECCCCCCHHHHHHhhcchh
Confidence            5667777743   577899999999999999987654

>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=87.93  E-value=0.12  Score=46.21  Aligned_cols=23  Identities=39%  Similarity=0.535  Sum_probs=19.5

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHhh
Q 048126          148 GIIGLYGMGGVGKTTLLTKINNK  170 (863)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~  170 (863)
                      --|.++|.+|+|||||...+...
T Consensus        17 ~kI~vvG~~~vGKSsLi~~l~~~   39 (176)
T d1fzqa_          17 VRILLLGLDNAGKTTLLKQLASE   39 (176)
T ss_dssp             EEEEEEESTTSSHHHHHHHHCCS
T ss_pred             EEEEEECCCCCCHHHHHHHHhcC
Confidence            35779999999999999988554

>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=87.75  E-value=0.14  Score=45.57  Aligned_cols=22  Identities=41%  Similarity=0.603  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhh
Q 048126          149 IIGLYGMGGVGKTTLLTKINNK  170 (863)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~  170 (863)
                      -|.|+|.+|+|||+|+..+.+.
T Consensus         8 Ki~vvG~~~vGKTsli~~~~~~   29 (170)
T d2g6ba1           8 KVMLVGDSGVGKTCLLVRFKDG   29 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4789999999999999988765

>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=87.71  E-value=0.14  Score=46.46  Aligned_cols=23  Identities=26%  Similarity=0.400  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 048126          149 IIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      -|.++|-+|+|||+|.+.+..+.
T Consensus         4 KivllG~~~vGKTsl~~r~~~~~   26 (195)
T d1svsa1           4 KLLLLGAGESGKSTIVKQMKIIH   26 (195)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhhCC
Confidence            36799999999999999987664

>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=87.69  E-value=0.13  Score=46.41  Aligned_cols=23  Identities=39%  Similarity=0.432  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 048126          149 IIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      -|.|+|.+|+|||+|...+.++.
T Consensus        11 Ki~lvG~~~vGKTsLi~r~~~~~   33 (185)
T d2atxa1          11 KCVVVGDGAVGKTCLLMSYANDA   33 (185)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCCCHHHHHHHHhhCC
Confidence            37899999999999999987653

>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=87.60  E-value=0.14  Score=45.13  Aligned_cols=23  Identities=30%  Similarity=0.358  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 048126          149 IIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      -|.++|.+|+|||||...+....
T Consensus         4 ki~i~G~~~~GKTsLl~~l~~~~   26 (164)
T d1zd9a1           4 ELTLVGLQYSGKTTFVNVIASGQ   26 (164)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHHcCC
Confidence            36689999999999999887654

>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=87.55  E-value=0.1  Score=49.03  Aligned_cols=24  Identities=38%  Similarity=0.598  Sum_probs=21.4

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHh
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINN  169 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~  169 (863)
                      .-.+++|+|+.|+|||||.+.+..
T Consensus        24 ~Gei~~iiG~nGaGKSTLl~~l~G   47 (231)
T d1l7vc_          24 AGEILHLVGPNGAGKSTLLARMAG   47 (231)
T ss_dssp             TTCEEECBCCTTSSHHHHHHHHHT
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhC
Confidence            346999999999999999999886

>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=87.44  E-value=0.11  Score=46.84  Aligned_cols=21  Identities=33%  Similarity=0.664  Sum_probs=19.0

Q ss_pred             EEEEcCCCCcHHHHHHHHHhh
Q 048126          150 IGLYGMGGVGKTTLLTKINNK  170 (863)
Q Consensus       150 i~I~G~gGiGKTtLa~~v~~~  170 (863)
                      |+|+|.+|+|||||...+.+.
T Consensus         4 VaivG~~nvGKSTLin~L~~~   24 (180)
T d1udxa2           4 VGLVGYPNAGKSSLLAAMTRA   24 (180)
T ss_dssp             EEEECCGGGCHHHHHHHHCSS
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            899999999999999998654

>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=87.33  E-value=0.13  Score=45.74  Aligned_cols=25  Identities=32%  Similarity=0.513  Sum_probs=20.3

Q ss_pred             CCccEEEEEcCCCCcHHHHHHHHHhh
Q 048126          145 EQVGIIGLYGMGGVGKTTLLTKINNK  170 (863)
Q Consensus       145 ~~~~vi~I~G~gGiGKTtLa~~v~~~  170 (863)
                      ..++ |.++|.+|+|||||.+.+.+.
T Consensus        11 k~~k-IvlvG~~~vGKTSli~rl~~~   35 (173)
T d1e0sa_          11 KEMR-ILMLGLDAAGKTTILYKLKLG   35 (173)
T ss_dssp             CCEE-EEEEEETTSSHHHHHHHTTCC
T ss_pred             CeEE-EEEECCCCCCHHHHHHHHhcC
Confidence            3455 669999999999999998654

>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=87.30  E-value=0.15  Score=45.67  Aligned_cols=22  Identities=36%  Similarity=0.634  Sum_probs=19.4

Q ss_pred             EEEEcCCCCcHHHHHHHHHhhh
Q 048126          150 IGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       150 i~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      |.++|.+|+|||||...+.+..
T Consensus        10 i~vvG~~~vGKTsli~~l~~~~   31 (177)
T d1x3sa1          10 ILIIGESGVGKSSLLLRFTDDT   31 (177)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            7799999999999999987643

>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=87.28  E-value=0.13  Score=46.36  Aligned_cols=23  Identities=35%  Similarity=0.494  Sum_probs=20.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 048126          149 IIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      -|+|+|.+|+|||||...+.+..
T Consensus         2 ~I~lvG~~nvGKSsLin~l~~~~   24 (184)
T d2cxxa1           2 TIIFAGRSNVGKSTLIYRLTGKK   24 (184)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHSCC
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            48999999999999999998653

>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=87.11  E-value=0.16  Score=45.07  Aligned_cols=23  Identities=30%  Similarity=0.455  Sum_probs=19.9

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHhh
Q 048126          148 GIIGLYGMGGVGKTTLLTKINNK  170 (863)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~  170 (863)
                      .-|.|+|.+|+|||||+..+.++
T Consensus         5 ~KivlvG~~~vGKTsli~~~~~~   27 (168)
T d1u8za_           5 HKVIMVGSGGVGKSALTLQFMYD   27 (168)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCcCHHHHHHHHHhC
Confidence            35789999999999999998754

>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=86.99  E-value=0.16  Score=45.84  Aligned_cols=21  Identities=43%  Similarity=0.668  Sum_probs=19.0

Q ss_pred             EEEEcCCCCcHHHHHHHHHhh
Q 048126          150 IGLYGMGGVGKTTLLTKINNK  170 (863)
Q Consensus       150 i~I~G~gGiGKTtLa~~v~~~  170 (863)
                      |.++|.+|+|||||+..+.+.
T Consensus         5 v~vvG~~~vGKSSLi~~l~~~   25 (184)
T d1vg8a_           5 VIILGDSGVGKTSLMNQYVNK   25 (184)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            679999999999999998764

>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=86.80  E-value=0.16  Score=45.20  Aligned_cols=22  Identities=36%  Similarity=0.635  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhh
Q 048126          149 IIGLYGMGGVGKTTLLTKINNK  170 (863)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~  170 (863)
                      -|.|+|.+|+|||||+..+.+.
T Consensus         8 KI~vvG~~~vGKSSli~~~~~~   29 (174)
T d1wmsa_           8 KVILLGDGGVGKSSLMNRYVTN   29 (174)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            3789999999999999888764

>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=86.79  E-value=0.098  Score=49.83  Aligned_cols=26  Identities=31%  Similarity=0.450  Sum_probs=22.0

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      .-..++|+|..|+|||||++.+..-.
T Consensus        43 ~Ge~vaivG~sGsGKSTLl~ll~gl~   68 (255)
T d2hyda1          43 KGETVAFVGMSGGGKSTLINLIPRFY   68 (255)
T ss_dssp             TTCEEEEECSTTSSHHHHHTTTTTSS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHHhcC
Confidence            44689999999999999999886543

>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=86.76  E-value=0.17  Score=44.94  Aligned_cols=22  Identities=36%  Similarity=0.614  Sum_probs=19.3

Q ss_pred             EEEEcCCCCcHHHHHHHHHhhh
Q 048126          150 IGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       150 i~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      |.++|..|+|||||+..+.++.
T Consensus         7 i~lvG~~~vGKTsll~~~~~~~   28 (169)
T d1x1ra1           7 LVVVGDGGVGKSALTIQFFQKI   28 (169)
T ss_dssp             EEEECCTTSSHHHHHHHHHHSS
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            5689999999999999988753

>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=86.57  E-value=0.26  Score=49.53  Aligned_cols=65  Identities=18%  Similarity=0.135  Sum_probs=37.8

Q ss_pred             hHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHH
Q 048126          132 ESMFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKI  199 (863)
Q Consensus       132 ~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i  199 (863)
                      +..+..+...+.   -++..|.|++|.||||++..+.....+....-...+.+......-...+.+.+
T Consensus       151 ~~Q~~A~~~al~---~~~~vI~G~pGTGKTt~i~~~l~~l~~~~~~~~~~I~l~ApTgkAA~~L~e~~  215 (359)
T d1w36d1         151 NWQKVAAAVALT---RRISVISGGPGTGKTTTVAKLLAALIQMADGERCRIRLAAPTGKAAARLTESL  215 (359)
T ss_dssp             CHHHHHHHHHHT---BSEEEEECCTTSTHHHHHHHHHHHHHHTCSSCCCCEEEEBSSHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHc---CCeEEEEcCCCCCceehHHHHHHHHHHHHhccCCeEEEecCcHHHHHHHHHHH
Confidence            344555555553   36899999999999999876544331111222335666665544444444443

>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=86.49  E-value=0.17  Score=45.33  Aligned_cols=23  Identities=30%  Similarity=0.316  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 048126          149 IIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      -|.++|..|+|||+|++.+.+..
T Consensus         4 KivliG~~~vGKTsli~r~~~~~   26 (179)
T d1m7ba_           4 KIVVVGDSQCGKTALLHVFAKDC   26 (179)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            36799999999999999887753

>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=86.48  E-value=0.17  Score=45.00  Aligned_cols=22  Identities=36%  Similarity=0.436  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhh
Q 048126          149 IIGLYGMGGVGKTTLLTKINNK  170 (863)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~  170 (863)
                      -|.++|.+|+|||+|+..+...
T Consensus         5 Kv~lvG~~~vGKTsLi~~~~~~   26 (172)
T d2g3ya1           5 RVVLIGEQGVGKSTLANIFAGV   26 (172)
T ss_dssp             EEEEECCTTSSHHHHHHHHHCC
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4779999999999999988754

>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=86.45  E-value=0.18  Score=45.94  Aligned_cols=23  Identities=26%  Similarity=0.397  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 048126          149 IIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      -|.++|.+|+|||+|...+....
T Consensus         4 Kiv~lG~~~vGKTsll~r~~~~~   26 (200)
T d2bcjq2           4 KLLLLGTGESGKSTFIKQMRIIH   26 (200)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            36799999999999999986654

>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=86.35  E-value=0.16  Score=46.30  Aligned_cols=19  Identities=42%  Similarity=0.634  Sum_probs=17.4

Q ss_pred             EEEEEcCCCCcHHHHHHHH
Q 048126          149 IIGLYGMGGVGKTTLLTKI  167 (863)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v  167 (863)
                      -|.++|.+|+|||||+..+
T Consensus         4 KivllG~~~vGKTsll~r~   22 (200)
T d1zcba2           4 KILLLGAGESGKSTFLKQM   22 (200)
T ss_dssp             EEEEECSTTSSHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            4679999999999999998

>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=86.34  E-value=0.18  Score=45.04  Aligned_cols=23  Identities=22%  Similarity=0.410  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 048126          149 IIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      -|.++|.+|+|||||...+.+..
T Consensus         7 ki~vlG~~~vGKTsLi~~~~~~~   29 (175)
T d2bmja1           7 RLGVLGDARSGKSSLIHRFLTGS   29 (175)
T ss_dssp             EEEEECCTTTTHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHHhCC
Confidence            46799999999999999887754

>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=86.29  E-value=0.3  Score=46.10  Aligned_cols=26  Identities=23%  Similarity=0.351  Sum_probs=23.1

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      .-.++.|.|.+|+|||++|.+++...
T Consensus        33 ~G~l~~i~G~~G~GKT~~~l~~a~~~   58 (258)
T d2i1qa2          33 SQSVTEFAGVFGSGKTQIMHQSCVNL   58 (258)
T ss_dssp             TTEEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             CCeEEEEEeCCCCCHHHHHHHHHHHH
Confidence            34699999999999999999998765

>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=86.29  E-value=0.17  Score=44.23  Aligned_cols=23  Identities=22%  Similarity=0.375  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 048126          149 IIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      -|+++|.+|+|||||..++....
T Consensus         3 kI~lvG~~nvGKSsLin~l~~~~   25 (161)
T d2gj8a1           3 KVVIAGRPNAGKSSLLNALAGRE   25 (161)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTSC
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            36799999999999999997553

>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=86.27  E-value=0.13  Score=46.34  Aligned_cols=22  Identities=41%  Similarity=0.687  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhh
Q 048126          149 IIGLYGMGGVGKTTLLTKINNK  170 (863)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~  170 (863)
                      -|+|+|.+|+|||||...+.+.
T Consensus         3 ~VaiiG~~nvGKSSLin~L~~~   24 (185)
T d1lnza2           3 DVGLVGFPSVGKSTLLSVVSSA   24 (185)
T ss_dssp             CEEEESSTTSSHHHHHHHSEEE
T ss_pred             eEEEECCCCCCHHHHHHHHhCC
Confidence            4899999999999999998653

>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=86.23  E-value=0.18  Score=45.75  Aligned_cols=22  Identities=36%  Similarity=0.436  Sum_probs=19.0

Q ss_pred             EEEEcCCCCcHHHHHHHHHhhh
Q 048126          150 IGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       150 i~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      |.++|.+|+|||+|+..+.+..
T Consensus         6 vvllG~~~vGKTSli~r~~~~~   27 (191)
T d2ngra_           6 CVVVGDGAVGKTCLLISYTTNK   27 (191)
T ss_dssp             EEEEESTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            6799999999999998887653

>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=85.93  E-value=0.1  Score=46.41  Aligned_cols=22  Identities=36%  Similarity=0.496  Sum_probs=17.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhh
Q 048126          149 IIGLYGMGGVGKTTLLTKINNK  170 (863)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~  170 (863)
                      -|.++|.+|+|||+|...+.+.
T Consensus         5 Ki~vvG~~~vGKTsli~~~~~~   26 (170)
T d1i2ma_           5 KLVLVGDGGTGKTTFVKRHLTG   26 (170)
T ss_dssp             EEEEEECTTSSHHHHHHTTC--
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3778999999999999876554

>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=85.68  E-value=0.19  Score=45.24  Aligned_cols=22  Identities=41%  Similarity=0.579  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhh
Q 048126          149 IIGLYGMGGVGKTTLLTKINNK  170 (863)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~  170 (863)
                      -|+|+|..|+|||||...+.+.
T Consensus        10 kV~iiG~~~~GKSTLin~l~~~   31 (186)
T d1mkya2          10 KVAIVGRPNVGKSTLFNAILNK   31 (186)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCCCHHHHHHHHHCC
Confidence            4789999999999999998865

>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=84.77  E-value=0.13  Score=46.40  Aligned_cols=25  Identities=20%  Similarity=0.331  Sum_probs=21.2

Q ss_pred             CCccEEEEEcCCCCcHHHHHHHHHh
Q 048126          145 EQVGIIGLYGMGGVGKTTLLTKINN  169 (863)
Q Consensus       145 ~~~~vi~I~G~gGiGKTtLa~~v~~  169 (863)
                      ++...|+|+|.+++|||||.+.+..
T Consensus        14 ~~~~~I~lvG~~NvGKSSL~n~L~~   38 (188)
T d1puia_          14 DTGIEVAFAGRSNAGKSSALNTLTN   38 (188)
T ss_dssp             SCSEEEEEEECTTSSHHHHHTTTCC
T ss_pred             ccCCEEEEECCCCCCHHHHHHHHhC
Confidence            4556799999999999999988754

>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=84.68  E-value=0.16  Score=45.57  Aligned_cols=23  Identities=35%  Similarity=0.491  Sum_probs=18.8

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHhh
Q 048126          148 GIIGLYGMGGVGKTTLLTKINNK  170 (863)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~  170 (863)
                      --|.++|.+|+|||||...+...
T Consensus        18 ~KI~lvG~~~vGKTsLi~~l~~~   40 (182)
T d1moza_          18 LRILILGLDGAGKTTILYRLQIG   40 (182)
T ss_dssp             EEEEEEEETTSSHHHHHHHTCCS
T ss_pred             EEEEEECCCCCCHHHHHHHHhcC
Confidence            35669999999999999987443

>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=84.21  E-value=0.31  Score=43.10  Aligned_cols=24  Identities=21%  Similarity=0.181  Sum_probs=20.6

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          148 GIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      +-|.|.|.+|+||||+|..+..+-
T Consensus        15 ~gvl~~G~sG~GKStlal~l~~~g   38 (176)
T d1kkma_          15 LGVLITGDSGVGKSETALELVQRG   38 (176)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHTT
T ss_pred             EEEEEEeCCCCCHHHHHHHHHHcC
Confidence            467899999999999999987653

>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=84.12  E-value=0.15  Score=45.34  Aligned_cols=22  Identities=36%  Similarity=0.531  Sum_probs=8.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhh
Q 048126          149 IIGLYGMGGVGKTTLLTKINNK  170 (863)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~  170 (863)
                      -|.|+|.+|+|||||+..+..+
T Consensus         8 Ki~vvG~~~vGKTsLi~~l~~~   29 (173)
T d2fu5c1           8 KLLLIGDSGVGKTCVLFRFSED   29 (173)
T ss_dssp             EEEEECCCCC------------
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3779999999999999877653

>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=84.00  E-value=0.4  Score=47.39  Aligned_cols=25  Identities=28%  Similarity=0.271  Sum_probs=22.5

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          147 VGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      +-.|+|=|.-|+||||+++.+.+..
T Consensus         6 ~~rI~iEG~iGsGKSTl~~~L~~~l   30 (333)
T d1p6xa_           6 IVRIYLDGVYGIGKSTTGRVMASAA   30 (333)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHSGG
T ss_pred             eEEEEEECCccCCHHHHHHHHHHHh
Confidence            3468899999999999999999987

>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=83.96  E-value=0.27  Score=45.72  Aligned_cols=24  Identities=25%  Similarity=0.353  Sum_probs=20.0

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          148 GIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      .-|.++|.+|+|||||++.+....
T Consensus         7 ~KilllG~~~vGKTsll~~~~~~~   30 (221)
T d1azta2           7 HRLLLLGAGESGKSTIVKQMRILH   30 (221)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCC
Confidence            357899999999999999986543

>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=83.02  E-value=0.32  Score=43.02  Aligned_cols=23  Identities=30%  Similarity=0.330  Sum_probs=19.9

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHhh
Q 048126          148 GIIGLYGMGGVGKTTLLTKINNK  170 (863)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~  170 (863)
                      .-|.|.|..|+||||+|..+..+
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
Confidence            45789999999999999998764

>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=82.60  E-value=0.36  Score=42.39  Aligned_cols=24  Identities=17%  Similarity=0.185  Sum_probs=20.5

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          148 GIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      .-|.|.|..|+||||+|..+..+-
T Consensus        16 ~gvli~G~sg~GKS~la~~l~~~g   39 (169)
T d1ko7a2          16 VGVLITGDSGIGKSETALELIKRG   39 (169)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHTT
T ss_pred             EEEEEEeCCCCCHHHHHHHHHHcC
Confidence            467899999999999998887653

>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=82.04  E-value=0.36  Score=45.16  Aligned_cols=41  Identities=15%  Similarity=0.051  Sum_probs=27.3

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCC
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSK  188 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~  188 (863)
                      .-.++.|+|.+|+|||++|.+++....  ...-..++|++...
T Consensus        25 ~G~~~~I~G~~G~GKT~la~~~~~~~~--~~~~~~~~~~s~e~   65 (242)
T d1tf7a1          25 IGRSTLVSGTSGTGKTLFSIQFLYNGI--IEFDEPGVFVTFEE   65 (242)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHHH--HHHCCCEEEEESSS
T ss_pred             CCeEEEEEeCCCCCHHHHHHHHHHHHH--HhcCCCcccccccC
Confidence            457999999999999999987654321  11222366665443

>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=81.97  E-value=0.45  Score=45.85  Aligned_cols=52  Identities=15%  Similarity=0.093  Sum_probs=34.8

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHhhhcCCCCCCCEEEEEEeCCccCHHHHHHHHHHHh
Q 048126          148 GIIGLYGMGGVGKTTLLTKINNKLLGAPNDFDVVIWVVVSKDLQLEKIQEKIGRRI  203 (863)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~s~~~~~~~~~~~i~~~l  203 (863)
                      .++.|.|.+|+||||+|.+++.+.. ....+ .++|++.-  .+..++...++...
T Consensus        36 ~l~vi~G~~G~GKT~~~~~la~~~a-~~~g~-~v~~~s~E--~~~~~~~~r~~~~~   87 (277)
T d1cr2a_          36 EVIMVTSGSGMGKSTFVRQQALQWG-TAMGK-KVGLAMLE--ESVEETAEDLIGLH   87 (277)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHHH-HTSCC-CEEEEESS--SCHHHHHHHHHHHH
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHhhh-hhccc-ceeEeeec--cchhhHHhHHHHHh
Confidence            5888999999999999999987641 12233 35555443  45666666665544

>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=81.90  E-value=0.35  Score=50.07  Aligned_cols=25  Identities=28%  Similarity=0.340  Sum_probs=22.1

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          147 VGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      .+-|-++|+.|+|||.||+.++...
T Consensus        49 ksNILliGPTGvGKTlLAr~LAk~l   73 (443)
T d1g41a_          49 PKNILMIGPTGVGKTEIARRLAKLA   73 (443)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHHHHT
T ss_pred             cccEEEECCCCCCHHHHHHHHHHHh
Confidence            3467899999999999999999876

>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=81.85  E-value=0.34  Score=46.44  Aligned_cols=26  Identities=27%  Similarity=0.215  Sum_probs=23.0

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ++|-|+|+|.+|.|||||+-++....
T Consensus         5 ~iRni~i~gh~~~GKTtL~e~ll~~~   30 (276)
T d2bv3a2           5 RLRNIGIAAHIDAGKTTTTERILYYT   30 (276)
T ss_dssp             GEEEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             hceEEEEEeCCCCCHHHHHHHHHHhc
Confidence            56789999999999999999987654

>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=81.37  E-value=0.14  Score=44.83  Aligned_cols=23  Identities=35%  Similarity=0.460  Sum_probs=20.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 048126          149 IIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      -|+++|.+|+|||||+..+....
T Consensus         2 kI~liG~~n~GKSSLin~l~g~~   24 (160)
T d1xzpa2           2 RMVIVGKPNVGKSTLLNRLLNED   24 (160)
T ss_dssp             EEEEECCHHHHTCHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            37899999999999999998654

>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=81.27  E-value=0.63  Score=41.72  Aligned_cols=37  Identities=11%  Similarity=0.103  Sum_probs=28.9

Q ss_pred             HHHHHHHhcC-CCccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          135 FDKVWRCLGE-EQVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       135 ~~~l~~~L~~-~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      +..+..+|.. ++...+.++|+++.|||++|..+.+-.
T Consensus        40 l~~l~~~l~~~PKkn~i~~~GP~~TGKS~f~~sl~~~l   77 (205)
T d1tuea_          40 LGALKSFLKGTPKKNCLVFCGPANTGKSYFGMSFIHFI   77 (205)
T ss_dssp             HHHHHHHHHTCTTCSEEEEESCGGGCHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCCCceEEEEECCCCccHHHHHHHHHHHh
Confidence            4455555543 466899999999999999999988765

>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=80.05  E-value=0.69  Score=43.93  Aligned_cols=39  Identities=26%  Similarity=0.326  Sum_probs=28.2

Q ss_pred             HHHHHHHHHhcCC--CccEEEEEcCCCCcHHHHHHHHHhhh
Q 048126          133 SMFDKVWRCLGEE--QVGIIGLYGMGGVGKTTLLTKINNKL  171 (863)
Q Consensus       133 ~~~~~l~~~L~~~--~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (863)
                      ..+.++...+.+.  ..-.|.++|..|+|||||...+..+.
T Consensus        16 ~~l~e~~~~l~~~~~~~l~I~LvG~tg~GKSSliN~ilg~~   56 (257)
T d1h65a_          16 TKLLELLGNLKQEDVNSLTILVMGKGGVGKSSTVNSIIGER   56 (257)
T ss_dssp             HHHHHHHHHHHHTTCCEEEEEEEESTTSSHHHHHHHHHTSC
T ss_pred             HHHHHHHHHHhhcCCCCcEEEEECCCCCcHHHHHHHHhCCC
Confidence            4455555555442  33467899999999999999998764