Citrus Sinensis ID: 038398

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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
Protein Sequence
HISQLEDNLTVLQAQLPKLIESKNDVMARVANAEQQQMRRLNTVQGWLSRVEAMETEVGELMKDGSQEVDKLCPGGCCSKNCRSSFEFGKRVAKTLQLVNNLMGEGAFDAVAEKVPRPAVDQRPCEPTVGLESTFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKIGRRIGFFDESWKNGSLEDKTSDILRILGKKKFLLLLDDIWERVDLTKVGIPFPDPENKSKIVFTTHFLEICGALKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGLPLALITIGRAMACKKTPQEWHYAIQVLRRSASEFPGMGKEVYPLLKFSYDSLPDDTIRSYLLYCGLFPEDYRIRKSELIDCWIGEGFLDQYDRSGAYNEGYYIIGILLHACLLEEEGGDIGEEESGEHVVKMHDVIRDMVLWIACKIEKEKENFLVHAGLGLTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSSTAITHLPIELQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKINVLFGGHQFLVEELMGMKHLMVLTITLKSWQALKELLISQELQRSTQSLFLRCFNDSKSLDIFCLAGLRNLNKLYVAGCKHLEDSQMT
Secondary Structure (PSIPRED)
ccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccccccHHHHHHHHHHHccccccEEEEEEcccccHHHHHHHHHcccccccccccEEEEEEEcccccHHHHHHHHHHHHcccccccccccHHHHHHHHHHHHcccEEEEEEcccccccccccccccccccccccEEEEEcccHHHHHHccccccEEcccccHHHHHHHHHHHHccccccccccHHHHHHHHHHHccccHHHHHHHHHHHcccccHHHHHHHHHHHHHcccccccccccccHHHHHcccccccccHHHHHHHHccccccccccHHHHHHHHHHcccccccccccHHHHHHHHHHHHHHcccccEEccccccccccccEEEEccHHHHHHHHHHHHHHHHccccEEEccccccccccccccccEEEEEEEcccccccccccccccEEEEEcccccccccHHHHHcccccccEEEcccccccccccHHHHcccccccccccccccccccHHHHccccccEEccccccccccccHHHHcccccccEEEEcccccccccccccccccccccccHHHccccccccEEEEEEccHHHHHHHHHcccccccEEEEEEEEEccccccccccccccccccEEEEEccccccccccc
Secondary Structure Prediction (SSPRO)
cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccHHHHHHHHHHHHHHHHHHHHcccccEEcccccccccccccccccccccHHHHHHHHHHHccccEEEEEEccccccHHHHHHHHHccccHccccccEEEEEEEcccccHHHHHHHHHHHHcccccccccccHHHHHHHHHHHHccccEEEEEEccccHHcHHHHcccccccccccEEEEEEccHHHHHHccccccEEcccccHHHHHHHHHHHHccccccccccHHHHHHHHHHHHcccHHHHHHHHHHHHccccHHHHHHHHHHHHHcHHHccccccccHHHHEEcHcccccHHHHHHEEEEEccccccEEcHHHHHHHHHHcccccccccccHHHHHHHHHHHHHHHHHHccccccccccccccEEEEEHHHHHHHHHHHHHHHcccccEEEEEcccccccccccccHHHHEEHEccccccHcccccccccccEEEEEcccccccccHHHHccccccEEEEEcccccHHHccccccccccccEEEcccccccccccHHcccccccEEEEcccccHccccccHccccHcccEEEEEcccccccccccHHcccHHHHHHHHHHcccccccEEEEEEcccccHHHccHHcccccccEEEEEccccccccccHHcccccccccEEEEcccccccccccc
Coil and Loop (DISEMBL)
HISQLEDNLTVLQAQLPKLIESKNDVMARVANAEQQQMRRLNTVQGWLSRVEAMETEVGELmkdgsqevdklcpggccskncrssfeFGKRVAKTLQLVNNLMgegafdavaekvprpavdqrpceptvglestFDKVWRCLGEEQVGIIGlygmggvgkTTLLTKINNkllgapnvfDVVIWVVVSKDLQLEKIQEKIGRRigffdeswkngsledkTSDILRILGKKKFLLLLDDIWERvdltkvgipfpdpenkskivFTTHFLEICGALKAHEflkveclgpeDAWRLFRENLRRdvldnhpdipeLARSVAQECAGLPLALITIGRamackktpQEWHYAIQVLRRsasefpgmgkevypllkfsydslpddtiRSYLLYCglfpedyrirKSELidcwigegfldqydrsgaynegYYIIGILLHACLleeeggdigeeesgehVVKMHDVIRDMVLWIACKIEKEKENFLVHaglglteapeiqnwRNVRRMSLMKNKienlsetptcphllslflsdnslkmstddffqsmpslrvfnmsnnhllwklpsgistlvslehldlsstaiTHLPIELQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFdcggskierLKINVLFGGHQFLVEELMGMKHLMVLTITLKSWQALKELLISQELQRSTQSLFLRcfndsksldIFCLAGLRNLNKLYVAGCKhledsqmt
Flexible Loop (DISEMBL)
HISQLEDNLTVLQAQLPKLIESKNDVMARVANAEQQQMRRLNTVQGWLSRVEAMETEVGELMKDGSQEVDKLCPGGCCSKNCRSSFEFGKRVAKTLQLVNNLMGEGAFDAVAEKVPRPAVDQRPCEPTVGLESTFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQekigrrigffdeswkngsledKTSDILRILGKKKFLLLLDDIWERVDLTkvgipfpdpenksKIVFTTHFLEICGALKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGLPLALITIGRAMACKKTPQEWHYAIQVLRRSASEFPGMGKEVYPLLKFSYDSLPDDTIRSYLLYCGLFPEDYRIRKSELIDCWIGEGFLDQYDRSGAYNEGYYIIGILLHACLLEEEGGDIGEEESGEHVVKMHDVIRDMVLWIACKIEKEKENFLVHAglglteapeiqnwrNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSSTAITHLPIELQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKINVLFGGHQFLVEELMGMKHLMVLTITLKSWQALKELLISQELQRSTQSLFLRCFNDSKSLDIFCLAGLRNLNKLYVAGCKHLEDSQMT
Low Complexity Region (SEG)
HISQLEDNLTVLQAQLPKLIESKNDVMARVANAEQQQMRRLNTVQGWLSRVEAMETEVGELMKDGSQEVDKLCPGGCCSKNCRSSFEFGKRVAKTLQLVNNLMGEGAFDAVAEKVPRPAVDQRPCEPTVGLESTFDKVWRCLGEEQvgiiglygmggvgkttlltkinnkllGAPNVFDVVIWVVVSKDLQLEKIQEKIGRRIGFFDESWKNGSLEDKTSDilrilgkkkfllllddiWERVDLTKVGIPFPDPENKSKIVFTTHFLEICGALKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGLPLALITIGRAMACKKTPQEWHYAIQVLRRSASEFPGMGKEVYPLLKFSYDSLPDDTIRSYLLYCGLFPEDYRIRKSELIDCWIGEGFLDQYDRSGAYNEGYYIIGILLHACLLeeeggdigeeesgeHVVKMHDVIRDMVLWIACKIEKEKENFLVHAGLGLTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSSTAITHLPIELQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKINVLFGGHQFLVEELMGMKHLMVLTITLKSWQALKELLISQELQRSTQSLFLRCFNDSKSLDIFCLAGLRNLNKLYVAGCKHLEDSQMT
Disordered region (IsUnstruct)
****************************************LNTVQGWLSRVEAM**************VDKLCPGGCCSKNCRSSFEFGKRVAKTLQLVNNLMGEGAFDAVAEKVPRPAVDQRPCEPTVGLESTFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKIGRRIGFFDESWKNGSLEDKTSDILRILGKKKFLLLLDDIWERVDLTKVGIPFPDPENKSKIVFTTHFLEICGALKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGLPLALITIGRAMACKKTPQEWHYAIQVLRRSASEFPGMGKEVYPLLKFSYDSLPDDTIRSYLLYCGLFPEDYRIRKSELIDCWIGEGFLDQYDRSGAYNEGYYIIGILLHACLLEEEGGDIG****GEHVVKMHDVIRDMVLWIACKIEKEKENFLVHAGLGLTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSSTAITHLPIELQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKINVLFGGHQFLVEELMGMKHLMVLTITLKSWQALKELLISQELQRSTQSLFLRCFNDSKSLDIFCLAGLRNLNKLYVAGCKH*******
Disordered Region (DISOPRED)
HISQLEDNLTVLQAQLPKLIESKNDVMARVANAEQQQMRRLNTVQGWLSRVEAMETEVGELMKDGSQEVDKLCPGGCCSKNCRSSFEFGKRVAKTLQLV*****************************VGLESTFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKIGRRIG******************LRILGKKKFLLLLDDIWERVDLTKVGIPFPDPENKSKIVFTTHFLEICGALKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGLPLALITIGRAMACKKTPQEWHYAIQVLRR******G**KEVYPLLKFSYDSLPDDTIRSYLLYCGLFPEDYRIRKSELIDCWIGEGFLDQYDRSGAYNEGYYIIGILLHACLLEEEGGDIGEEESGEHVVKMHDVIRDMVLWIACKIEKEKENFLVHAGLGLTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSSTAITHLPIELQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKINVL**G*QFLVEELMGMKHLMVLTITLKSWQALKELLISQELQRSTQSLFLRCFNDSKSLDIFCLAGLRNLNKLYVAGCKHLEDSQMT
Disordered Region (DISEMBL)
HISQLEDNLTVLQAQLPKLIESKNDVMARVANAEQQQMRRLNTVQGWLSRVEAMETEVGELMKDGSQEVDKLCPGGCCSKNCRSSFEFGKRVAKTLQLVNNLMGEGAFDAVAEKVPRPAVDQRPCEPTVGLESTFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKIGRRIGFFDESWKNGSLEDKTSDILRILGKKKFLLLLDDIWERVDLTKVGIPFPDPENKSKIVFTTHFLEICGALKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGLPLALITIGRAMACKKTPQEWHYAIQVLRRSASEFPGMGKEVYPLLKFSYDSLPDDTIRSYLLYCGLFPEDYRIRKSELIDCWIGEGFLDQYDRSGAYNEGYYIIGILLHACLLEEEGGDIGEEESGEHVVKMHDVIRDMVLWIACKIEKEKENFLVHAGLGLTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSSTAITHLPIELQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKINVLFGGHQFLVEELMGMKHLMVLTITLKSWQALKELLISQELQRSTQSLFLRCFNDSKSLDIFCLAGLRNLNKLYVAGCKHLEDSQMT
Disordered Region (DISPRO)
HISQLEDNLTVLQAQLPKLIESKNDVMARVANAEQQQMRRLNTVQGWLSRVEAMETEVGELMKDGSQEVDKLCPGGCCSKNCRSSFEFGKRVAKTLQLVNNLMGEGAFDAVAE*****AVDQRPCEPTVGLESTFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKIGRRIGFFDESWKNGSLEDKTSDILRILGKKKFLLLLDDIWERVDLTKVGIPFPDPENKSKIVFTTHFLEICGALKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGLPLALITIGRAMACKKTPQEWHYAIQVLRRSASEFPGMGKEVYPLLKFSYDSLPDDTIRSYLLYCGLFPEDYRIRKSELIDCWIGEGFLDQYDRSGAYNEGYYIIGILLHACLLEEEGGDIGEEESGEHVVKMHDVIRDMVLWIACKIEKEKENFLVHAGLGLTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSSTAITHLPIELQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKINVLFGGHQFLVEELMGMKHLMVLTITLKSWQALKELLISQELQRSTQSLFLRCFNDSKSLDIFCLAGLRNLNKLYVAGCKHLEDS***
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
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Transmembrane Helix (MEMSAT)
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TM Helix, Signal Peptide (MEMSAT_SVM)
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TM Helix, Signal Peptide (Phobius)
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Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
HxxxxxxxxxxxxxxxxxxxxxKNDVMARVANAEQQQMRRLNTVQGWLSRVEAMETEVGELMKDGSQEVDKLCPGGCCSKNCRSSFEFGKRVAKTLQLVNNLMGEGAFDAVAEKVPRPAVDQRPCEPTVGLESTFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKIGRRIGFFDESWKNGSLEDKTSDILRILGKKKFLLLLDDIWERVDLTKVGIPFPDPENKSKIVFTTHFLEICGALKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGLPLALITIGRAMACKKTPQEWHYAIQVLRRSASEFPGMGKEVYPLLKFSYDSLPDDTIRSYLLYCGLFPEDYRIRKSELIDCWIGEGFLDQYDRSGAYNEGYYIIGILLHACLLEEEGGDIGEEESGEHVVKMHDVIRDMVLWIACKIEKEKENFLVHAGLGLTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSSTAITHLPIELQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKINVLFGGHQFLVEELMGMKHLMVLTITLKSWQALKELLISQELQRSTQSLFLRCFNDSKSLDIFCLAGLRNLNKLYVAGCKHLEDSQMT
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	720	2.2.26 [Sep-21-2011]
Q8RXS5	888	Probable disease resistan	yes	no	0.95	0.770	0.435	1e-159
O82484	892	Putative disease resistan	no	no	0.920	0.743	0.445	1e-153
P60838	894	Probable disease resistan	no	no	0.959	0.772	0.441	1e-153
O64789	925	Probable disease resistan	no	no	0.952	0.741	0.436	1e-150
Q8L3R3	885	Disease resistance protei	no	no	0.848	0.690	0.452	1e-149
O64973	889	Disease resistance protei	no	no	0.956	0.775	0.417	1e-149
Q940K0	889	Probable disease resistan	no	no	0.819	0.663	0.461	1e-148
O22727	967	Probable disease resistan	no	no	0.823	0.613	0.461	1e-146
P60839	884	Probable disease resistan	no	no	0.959	0.781	0.425	1e-146
Q9FG91	848	Probable disease resistan	no	no	0.95	0.806	0.420	1e-144

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

 Score =  563 bits (1451), Expect = e-159,   Method: Compositional matrix adjust.
 Identities = 309/709 (43%), Positives = 444/709 (62%), Gaps = 25/709 (3%)

Query: 1   HISQLEDNLTVLQAQLPKLIESKNDVMARVANAEQQQMRRLNTVQGWLSRVEAMETEVGE 60
           +I  LE+NLT LQ  L ++ + + D++ ++ + E++ ++RL+ VQGW+S+VEA+   V E
Sbjct: 28  YIHGLEENLTALQRALEQIEQRREDLLRKILSEERRGLQRLSVVQGWVSKVEAIVPRVNE 87

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

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

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

Query: 241 RVDLTKVGIPFPDPENKSKIVFTTHFLEICGALKAHEFLKVECLGPEDAWRLFRENLRRD 300
           +VDLT+VG+PFP  EN  KIVFTT   EICG +     ++V CL P+DAW LF + +   
Sbjct: 268 KVDLTEVGVPFPSRENGCKIVFTTRLKEICGRMGVDSDMEVRCLAPDDAWDLFTKKVGEI 327

Query: 301 VLDNHPDIPELARSVAQECAGLPLALITIGRAMACKKTPQEWHYAIQVLRRSASEFPGMG 360
            L +HP+IP +AR+VA++C GLPLAL  IG  MA K+T QEW  AI VL  SA+EF GM 
Sbjct: 328 TLGSHPEIPTVARTVAKKCRGLPLALNVIGETMAYKRTVQEWRSAIDVLTSSAAEFSGME 387

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

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

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

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

Query: 601 NQFPRLVISAFSKLQVLRMFDCGGSKIERLKINVLFGGHQFLVEELMGMKHLMVLTITLK 660
                  IS  + L+VLR+F  G            F     ++ EL  +++L  LTITL 
Sbjct: 618 ESI--CGISGLTSLKVLRLFVSG------------FPEDPCVLNELQLLENLQTLTITLG 663

Query: 661 SWQALKELLISQELQRSTQSLFLRCFNDSKSLDIFCLAGLRNLNKLYVA 709
               L++ L +Q L   T++L +   N   S+  F +A + +L +L+ A
Sbjct: 664 LASILEQFLSNQRLASCTRALRIENLNPQSSVISF-VATMDSLQELHFA 711

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 =  544 bits (1401), Expect = e-153,   Method: Compositional matrix adjust.
 Identities = 307/689 (44%), Positives = 421/689 (61%), Gaps = 26/689 (3%)

Query: 1   HISQLEDNLTVLQAQLPKLIESKNDVMARVANAEQQQMRRLNTVQGWLSRVEAMETEVGE 60
           +I +L+DN+  L+  +  L  +++DV+ RV   E + + RL  VQ WL RVE +  +  +
Sbjct: 28  YIHKLKDNIVALEKAIEDLTATRDDVLRRVQMEEGKGLERLQQVQVWLKRVEIIRNQFYD 87

Query: 61  LMKDGSQEVDKLCPGGCCSKNCRSSFEFGKRVAKTLQLVNNLMGEGAFDAVAEKVPRPAV 120
           L+   + E+ +LC    CS N  SS+ +G+RV   ++ V NL   G F+ VA   P P +
Sbjct: 88  LLSARNIEIQRLCFYSNCSTNLSSSYTYGQRVFLMIKEVENLNSNGFFEIVA--APAPKL 145

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

Query: 180 VVIWVVVSKDLQLEKIQEKIGRRIGFFDESWKNGSLEDKTSDILRILGKKKFLLLLDDIW 239
           +VIWVVVS DLQ+ KIQE IG ++GF  + W       K  DIL  L KK+F+LLLDDIW
Sbjct: 206 IVIWVVVSSDLQIHKIQEDIGEKLGFIGKEWNKKQESQKAVDILNCLSKKRFVLLLDDIW 265

Query: 240 ERVDLTKVGIPFPDPENKSKIVFTTHFLEICGALKAHEFLKVECLGPEDAWRLFRENLRR 299
           ++VDLTK+GIP    ENK K+VFTT  L++C  +  H+ ++V+CL   DAW LF+E + +
Sbjct: 266 KKVDLTKIGIPSQTRENKCKVVFTTRSLDVCARMGVHDPMEVQCLSTNDAWELFQEKVGQ 325

Query: 300 DVLDNHPDIPELARSVAQECAGLPLALITIGRAMACKKTPQEWHYAIQVLRRSASEFPGM 359
             L +HPDI ELA+ VA +C GLPLAL  IG  MA K+  QEWH+A+ VL   A+EF GM
Sbjct: 326 ISLGSHPDILELAKKVAGKCRGLPLALNVIGETMAGKRAVQEWHHAVDVLTSYAAEFSGM 385

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

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

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

Query: 538 SMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSSTAITHLPIELQKLVNLKCLNLEYM 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 NNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKINVLFGGHQFLVEELMGMKHLMVLTI 657
             L       I+  SKL  LR      S I    ++V+       V+EL  ++HL +LTI
Sbjct: 619 RRLGS-----IAGISKLSSLRTLGLRNSNI---MLDVMS------VKELHLLEHLEILTI 664

Query: 658 TLKSWQALKELLISQELQRSTQSLFLRCF 686
            + S   L++++ +  L    Q + +RC 
Sbjct: 665 DIVSTMVLEQMIDAGTLMNCMQEVSIRCL 693

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 =  543 bits (1400), Expect = e-153,   Method: Compositional matrix adjust.
 Identities = 318/720 (44%), Positives = 449/720 (62%), Gaps = 29/720 (4%)

Query: 1   HISQLEDNLTVLQAQLPKLIESKNDVMARVANAEQQQMR-RLNTVQGWLSRVEAMETEVG 59
           +I +L  N+  ++  +  L + ++DV  RV   E  + R RL+ VQGWL+ V  +E +  
Sbjct: 28  YICELSKNVVAMKKDMEVLKKKRDDVKRRVDIEEFTRRRERLSQVQGWLTNVSTVENKFN 87

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

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

Query: 179 DVVIWVVVSKDLQLEKIQEKIGRRIGFFDESWKNGSLEDKTSDILRILGKKKFLLLLDDI 238
            VVIWVVVSK   + +IQ  IG+R+    E W N +   +  DI  +LGK+KF+LLLDDI
Sbjct: 208 GVVIWVVVSKSPDIHRIQGDIGKRLDLGGEEWDNVNENQRALDIYNVLGKQKFVLLLDDI 267

Query: 239 WERVDLTKVGIPFPDPENKSKIVFTTHFLEICGALKAHEFLKVECLGPEDAWRLFRENLR 298
           WE+V+L  +G+P+P  +N  K+VFTT   ++CG ++  + ++V CL P +AW LF+  + 
Sbjct: 268 WEKVNLEVLGVPYPSRQNGCKVVFTTRSRDVCGRMRVDDPMEVSCLEPNEAWELFQMKVG 327

Query: 299 RDVLDNHPDIPELARSVAQECAGLPLALITIGRAMACKKTPQEWHYAIQVLRRSASEFPG 358
            + L  HPDIPELAR VA +C GLPLAL  IG  MACK+  QEW  AI VL   A+EFPG
Sbjct: 328 ENTLKGHPDIPELARKVAGKCCGLPLALNVIGETMACKRMVQEWRNAIDVLSSYAAEFPG 387

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

Query: 418 AYNEGYYIIGILLHACLLEEEGGDIGEEESGEHVVKMHDVIRDMVLWIACKIEKEKENFL 477
           A ++GY IIGIL+ ACLL EE   I +E+     VKMHDV+R+M LWIA  + + KE  +
Sbjct: 447 ALSQGYEIIGILVRACLLLEEA--INKEQ-----VKMHDVVREMALWIASDLGEHKERCI 499

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

Query: 537 QSMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSSTAITHLPIELQKLVNLKCLNLEY 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 MNNLN-QFPRLVISAFSKLQVLRMFDCGGSKIERLKINVLFGGHQFLVEELMGMKHLMVL 655
           M  L        IS+  KLQ+L+          ++ +++       LVEEL  ++HL VL
Sbjct: 620 MKRLKSISGISNISSLRKLQLLQ---------SKMSLDM------SLVEELQLLEHLEVL 664

Query: 656 TITLKSWQALKELLISQELQRSTQSLFLRCFNDSKSLDIFCLAGLRNLNKLYVAGCKHLE 715
            I++KS   +++LL +  L +  Q L LR   +  S  +  L  + NLNK+ +  C   E
Sbjct: 665 NISIKSSLVVEKLLNAPRLVKCLQILVLRGVQEESS-GVLTLPDMDNLNKVIIRKCGMCE 723

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

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

 Score =  532 bits (1371), Expect = e-150,   Method: Compositional matrix adjust.
 Identities = 312/714 (43%), Positives = 433/714 (60%), Gaps = 28/714 (3%)

Query: 1   HISQLEDNLTVLQAQLPKLIESKNDVMARVANAEQQQMRRLNTVQGWLSRVEAMETEVGE 60
           +I  LE NL  LQ ++  L  ++++V  +VA  E +  +RL  VQ WL RV +++ E  +
Sbjct: 28  YIRTLEKNLRALQREMEDLRATQHEVQNKVAREESRHQQRLEAVQVWLDRVNSIDIECKD 87

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

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

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

Query: 241 RVDLTKVGIPFPDPENKSKIVFTTHFLEICGALKAHEFLKVECLGPEDAWRLFRENLRRD 300
           +VDL  +GIP+P   NK K+ FTT   E+CG +  H+ ++V CL PEDAW LF+  +  +
Sbjct: 268 KVDLEAIGIPYPSEVNKCKVAFTTRSREVCGEMGDHKPMQVNCLEPEDAWELFKNKVGDN 327

Query: 301 VLDNHPDIPELARSVAQECAGLPLALITIGRAMACKKTPQEWHYAIQVLRRSASEFPGMG 360
            L + P I  LAR VAQ+C GLPLAL  IG  MA K   QEW YAI VL RSA+EF GM 
Sbjct: 328 TLSSDPVIVGLAREVAQKCRGLPLALNVIGETMASKTMVQEWEYAIDVLTRSAAEFSGME 387

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

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

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

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

Query: 596 YMNNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKINVLFGGHQFLVEELMGMKHLMVL 655
           Y   L       IS  S+L  LR+    GSK+          G   +++EL  +++L  L
Sbjct: 626 YTARLCS-----ISGISRLLSLRVLSLLGSKVH---------GDASVLKELQQLENLQDL 671

Query: 656 TITLKSWQALKELL-ISQELQRSTQSLFLRCFNDSKSLDIFCLAGLRNLNKLYV 708
            ITL +     EL+ + Q L +    L +  F   K  D+  LA + NL+ L+V
Sbjct: 672 AITLSA-----ELISLDQRLAKVISILGIEGFL-QKPFDLSFLASMENLSSLWV 719

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

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

 Score =  529 bits (1362), Expect = e-149,   Method: Compositional matrix adjust.
 Identities = 283/625 (45%), Positives = 392/625 (62%), Gaps = 14/625 (2%)

Query: 1   HISQLEDNLTVLQAQLPKLIESKNDVMARVANAE-QQQMRRLNTVQGWLSRVEAMETEVG 59
           +I  L +NL  LQ  +  L   ++DV  R+   E     RRL  VQ WL+R++ +E +  
Sbjct: 28  YIQNLSENLASLQKAMGVLNAKRDDVQGRINREEFTGHRRRLAQVQVWLTRIQTIENQFN 87

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

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

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

Query: 239 WERVDLTKVGIPFPDPENKSKIVFTTHFLEICGALKAHEFLKVECLGPEDAWRLFRENLR 298
           WE+V+L  +G+P+P  EN  K+ FTTH  E+CG +     +++ CL   +AW L ++ + 
Sbjct: 268 WEKVELKVIGVPYPSGENGCKVAFTTHSKEVCGRMGVDNPMEISCLDTGNAWDLLKKKVG 327

Query: 299 RDVLDNHPDIPELARSVAQECAGLPLALITIGRAMACKKTPQEWHYAIQVLRRSASEFPG 358
            + L +HPDIP+LAR V+++C GLPLAL  IG  M+ K+T QEW +A +VL  SA++F G
Sbjct: 328 ENTLGSHPDIPQLARKVSEKCCGLPLALNVIGETMSFKRTIQEWRHATEVL-TSATDFSG 386

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

Query: 418 AYNEGYYIIGILLHACLLEEEGGDIGEEESGEHVVKMHDVIRDMVLWIACKIEKEKENFL 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-SLKMSTDDFF 536
           V AG+GL E PE++NWR V+RMSLM N  E +  +P C  L++LFL +N  L   + +FF
Sbjct: 500 VQAGIGLDELPEVENWRAVKRMSLMNNNFEKILGSPECVELITLFLQNNYKLVDISMEFF 559

Query: 537 QSMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSSTAITHLPIELQKLVNLKCLNLEY 596
           + MPSL V ++S NH L +LP  IS LVSL++LDLS T I  LP  L +L  L  L LE 
Sbjct: 560 RCMPSLAVLDLSENHSLSELPEEISELVSLQYLDLSGTYIERLPHGLHELRKLVHLKLER 619

Query: 597 MNNLNQFPRLVISAFSKLQVLRMFD 621
              L       IS  S L+ LR+ D
Sbjct: 620 TRRLESISG--ISYLSSLRTLRLRD 642

Disease resistance (R) protein.

Arabidopsis thaliana (taxid: 3702)

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

 Score =  528 bits (1359), Expect = e-149,   Method: Compositional matrix adjust.
 Identities = 298/714 (41%), Positives = 429/714 (60%), Gaps = 25/714 (3%)

Query: 1   HISQLEDNLTVLQAQLPKLIESKNDVMARVANAE-QQQMRRLNTVQGWLSRVEAMETEVG 59
           +I  L  NL  LQ  +  L   + DV+ R+   E   + +RL+ VQ WL+ V  ++ +  
Sbjct: 28  YIHNLSKNLASLQKAMRMLKARQYDVIRRLETEEFTGRQQRLSQVQVWLTSVLIIQNQFN 87

Query: 60  ELMKDGSQEVDKLCPGGCCSKNCRSSFEFGKRVAKTLQLVNNLMGEGAFDAVAEKVPRPA 119
           +L++    E+ +LC  G CSK+ + S+ +GKRV   L+ V +L  +G FD V+E  P   
Sbjct: 88  DLLRSNEVELQRLCLCGFCSKDLKLSYRYGKRVIMMLKEVESLSSQGFFDVVSEATPFAD 147

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

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

Query: 239 WERVDLTKVGIPFPDPENKSKIVFTTHFLEICGALKAHEFLKVECLGPEDAWRLFRENLR 298
           WE+V+L  VG+P+P  +N  K+ FTT   ++CG +   + ++V CL PE++W LF+  + 
Sbjct: 268 WEKVNLKAVGVPYPSKDNGCKVAFTTRSRDVCGRMGVDDPMEVSCLQPEESWDLFQMKVG 327

Query: 299 RDVLDNHPDIPELARSVAQECAGLPLALITIGRAMACKKTPQEWHYAIQVLRRSASEFPG 358
           ++ L +HPDIP LAR VA++C GLPLAL  IG AMACK+T  EW +AI VL  SA +F G
Sbjct: 328 KNTLGSHPDIPGLARKVARKCRGLPLALNVIGEAMACKRTVHEWCHAIDVLTSSAIDFSG 387

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

Query: 418 AYNEGYYIIGILLHACLLEEEGGDIGEEESGEHVVKMHDVIRDMVLWIACKIEKEKENFL 477
             N+GY IIG L+ ACLL        EEE  +  VKMHDV+R+M LWI+  + K+KE  +
Sbjct: 448 NINQGYEIIGTLVRACLLL-------EEERNKSNVKMHDVVREMALWISSDLGKQKEKCI 500

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

Query: 538 SMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSSTAITHLPIELQKLVNLKCLNLEYM 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 NNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKINVLFGGHQFLVEELMGMKHLMVLTI 657
           ++L     L IS    L+ L + D       RL +++       LV+EL  ++HL V+T+
Sbjct: 621 SSLGSI--LGISNLWNLRTLGLRD------SRLLLDM------SLVKELQLLEHLEVITL 666

Query: 658 TLKSWQALKELLISQELQRSTQSLFLRCFNDSKSLDIFCLAGLRNLNKLYVAGC 711
            + S    + LL SQ L    + +  +   + +S+ +  L  + NL KL +  C
Sbjct: 667 DISSSLVAEPLLCSQRLVECIKEVDFKYLKE-ESVRVLTLPTMGNLRKLGIKRC 719

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

 Score =  527 bits (1357), Expect = e-148,   Method: Compositional matrix adjust.
 Identities = 278/602 (46%), Positives = 377/602 (62%), Gaps = 12/602 (1%)

Query: 1   HISQLEDNLTVLQAQLPKLIESKNDVMARVANAEQQQMRRLNTVQGWLSRVEAMETEVGE 60
           +I  LE NL  LQ ++  L   +++V  +VA  E +  RRL  VQ WL RV +++ E  +
Sbjct: 26  YIRTLEKNLRALQREMEDLRAIQHEVQNKVARDEARHQRRLEAVQVWLDRVNSVDIECKD 85

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

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

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

Query: 241 RVDLTKVGIPFPDPENKSKIVFTTHFLEICGALKAHEFLKVECLGPEDAWRLFRENLRRD 300
           +VDL  +GIP+P   NK K+ FTT   E+CG +  H+ ++V CL PEDAW LF+  +  +
Sbjct: 266 KVDLEAIGIPYPSEVNKCKVAFTTRSREVCGEMGDHKPMQVNCLEPEDAWELFKNKVGDN 325

Query: 301 VLDNHPDIPELARSVAQECAGLPLALITIGRAMACKKTPQEWHYAIQVLRRSASEFPGMG 360
            L + P I ELAR VAQ+C GLPLAL  IG  M+ K   QEW +AI V   SA+EF  M 
Sbjct: 326 TLSSDPVIVELAREVAQKCRGLPLALNVIGETMSSKTMVQEWEHAIHVFNTSAAEFSDMQ 385

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

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

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

Query: 539 MPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSSTAITHLPIELQKLVNLKCLNLEYMN 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 NL 600
            L
Sbjct: 616 RL 617

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 =  521 bits (1341), Expect = e-146,   Method: Compositional matrix adjust.
 Identities = 278/602 (46%), Positives = 383/602 (63%), Gaps = 9/602 (1%)

Query: 1   HISQLEDNLTVLQAQLPKLIESKNDVMARVANAEQQQMRRLNTVQGWLSRVEAMETEVGE 60
           +I  LE NL  LQ ++  L  ++++V  +VA  E +  +RL  VQ WL RV +++ E  +
Sbjct: 27  YIRNLEKNLRALQREMEDLRATQHEVQNKVAREESRHQQRLEAVQVWLDRVNSIDIECKD 86

Query: 61  LMKDGSQEVDKLCPGGCCSKNCRSSFEFGKRVAKTLQLVNNLMGEGAFDAVAEKVPRPAV 120
           L+     E+ KLC  G CSK   SS+++GKRV   L+ V  L  EG FD V++  PR  V
Sbjct: 87  LLSVSPVELQKLCLCGLCSKYVCSSYKYGKRVFLLLEEVTKLKSEGNFDEVSQPPPRSEV 146

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

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

Query: 241 RVDLTKVGIPFPDPENKSKIVFTTHFLEICGALKAHEFLKVECLGPEDAWRLFRENLRRD 300
           +VDL  +GIP+P   NK K+ FTT   ++CG +  H+ ++V+CL PEDAW LF+  +  +
Sbjct: 267 KVDLEAIGIPYPSEVNKCKVAFTTRDQKVCGQMGDHKPMQVKCLEPEDAWELFKNKVGDN 326

Query: 301 VLDNHPDIPELARSVAQECAGLPLALITIGRAMACKKTPQEWHYAIQVLRRSASEFPGMG 360
            L + P I  LAR VAQ+C GLPLAL  IG  MA K   QEW +AI VL RSA+EF  M 
Sbjct: 327 TLRSDPVIVGLAREVAQKCRGLPLALSCIGETMASKTMVQEWEHAIDVLTRSAAEFSDMQ 386

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

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

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

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

Query: 599 NL 600
            L
Sbjct: 620 RL 621

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 =  520 bits (1340), Expect = e-146,   Method: Compositional matrix adjust.
 Identities = 304/714 (42%), Positives = 445/714 (62%), Gaps = 23/714 (3%)

Query: 1   HISQLEDNLTVLQAQLPKLIESKNDVMARVANAEQQQMRRLNTVQGWLSRVEAMETEVGE 60
           +I  +++NLT L+  +  L   ++D++ +V  AE+  ++RL+ ++ WL RV+ +E++  +
Sbjct: 28  YIQNIKENLTSLEEAMEDLKALRDDLLRKVQTAEEGGLQRLHQIKVWLKRVKTIESQFND 87

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

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

Query: 180 VVIWVVVSKDLQLEKIQEKIGRRIGFFDESWKNGSLEDKTSDILRILGKKKFLLLLDDIW 239
           +VIWVVVS DLQ+ KIQ++IG +IGF    W   S   K  DIL  L KK+F+LLLDDIW
Sbjct: 208 IVIWVVVSGDLQIHKIQKEIGEKIGFIGVEWNQKSENQKAVDILNFLSKKRFVLLLDDIW 267

Query: 240 ERVDLTKVGIPFPDPENKSKIVFTTHFLEICGALKAHEFLKVECLGPEDAWRLFRENLRR 299
           +RV+LT++GIP P  EN  KI FTT    +C ++  H+ ++V CLG +DAW LF++ +  
Sbjct: 268 KRVELTEIGIPNPTSENGCKIAFTTRCQSVCASMGVHDPMEVRCLGADDAWDLFKKKVGD 327

Query: 300 DVLDNHPDIPELARSVAQECAGLPLALITIGRAMACKKTPQEWHYAIQVLRRSASEFPGM 359
             L +HPDIPE+AR VAQ C GLPLAL  IG  MACKKT QEW  A+ V    A+ F  +
Sbjct: 328 ITLSSHPDIPEIARKVAQACCGLPLALNVIGETMACKKTTQEWDRAVDVSTTYAANFGAV 387

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

Query: 419 YNEGYYIIGILLHACLLEEEGGDIGEEESGEHVVKMHDVIRDMVLWIACKIEKEKENFLV 478
             EGY I+G L+ A LL E     G + + +  VKMHDV+R+M LWIA  + K K+N +V
Sbjct: 448 VGEGYEILGTLVCASLLVE-----GGKFNNKSYVKMHDVVREMALWIASDLRKHKDNCIV 502

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

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

Query: 598 NNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKINVLFGGHQFLVEELMGMKHLMVLTI 657
             L       I   S L+ +R+ +       R+ + +       L+EEL  +++L VLTI
Sbjct: 623 LCLESVSG--IDHLSNLKTVRLLNL------RMWLTI------SLLEELERLENLEVLTI 668

Query: 658 TLKSWQALKELLISQELQRSTQSLFLRCFNDSKSLDIFCLAGLRNLNKLYVAGC 711
            + S  AL++LL S  L R  Q + ++ + D +S+ I  L  + +L ++++ GC
Sbjct: 669 EIISSSALEQLLCSHRLVRCLQKVSVK-YLDEESVRILTLPSIGDLREVFIGGC 721

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 =  512 bits (1319), Expect = e-144,   Method: Compositional matrix adjust.
 Identities = 300/714 (42%), Positives = 427/714 (59%), Gaps = 30/714 (4%)

Query: 1   HISQLEDNLTVLQAQLPKLIESKNDVMARVANAEQQQMRRLNTVQGWLSRVEAMETEVGE 60
           +I  +E NL  LQ  + +L   ++D++ARV+  E + ++RL  V GWLSRV+ +E+E  +
Sbjct: 27  YIHLMESNLDALQKTMEELKNGRDDLLARVSIEEDKGLQRLALVNGWLSRVQIVESEFKD 86

Query: 61  LMKDGSQEVDKLCPGGCCSKNCRSSFEFGKRVAKTLQLVNNLMGEGAFDAVAEKVPRPAV 120
           L++  S E  +LC  G CS++C SS+ +G +V K L+ V  L+ +  F+ VA+K+  P  
Sbjct: 87  LLEAMSIETGRLCLFGYCSEDCISSYNYGGKVMKNLEEVKELLSKKNFEVVAQKII-PKA 145

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

Query: 181 VIWVVVSKDLQLEKIQEKIGRRIGFFDESWKNGSLEDKTSDILRILGKKKFLLLLDDIWE 240
           VIWVVVSKD QLE IQ++I  R+   D+ W+  +   K S I   L +KKF+LLLDD+W 
Sbjct: 206 VIWVVVSKDFQLEGIQDQILGRLRP-DKEWERETESKKASLINNNLKRKKFVLLLDDLWS 264

Query: 241 RVDLTKVGIPFPDPENKSKIVFTTHFLEICGALKAHEFLKVECLGPEDAWRLFRENLRRD 300
            VDL K+G+P P  EN SKIVFTT   E+C  +KA + +KV+CL P++AW LFR  +   
Sbjct: 265 EVDLIKIGVPPPSRENGSKIVFTTRSKEVCKHMKADKQIKVDCLSPDEAWELFRLTVGDI 324

Query: 301 VLDNHPDIPELARSVAQECAGLPLALITIGRAMACKKTPQEWHYAIQVLRRSASEFPGMG 360
           +L +H DIP LAR VA +C GLPLAL  IG+AM CK+T QEW +AI VL     +FPGM 
Sbjct: 325 ILRSHQDIPALARIVAAKCHGLPLALNVIGKAMVCKETVQEWRHAINVLNSPGHKFPGME 384

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

Query: 419 YNEGYYIIGILLHACLLEE-EGGDIGEEESGEHVVKMHDVIRDMVLWIACKIEKEKENFL 477
            N+GY IIG+L+ A LL E E  D          VKMHDVIR+M LWI      ++E   
Sbjct: 444 TNQGYDIIGLLVRAHLLIECELTD---------KVKMHDVIREMALWINSDFGNQQETIC 494

Query: 478 VHAGLGLTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQ 537
           V +G  +   P   +W  VR+MSL+  ++E ++ +P CP+L +L L  N L   +  FF 
Sbjct: 495 VKSGAHVRLIPNDISWEIVRQMSLISTQVEKIACSPNCPNLSTLLLPYNKLVDISVGFFL 554

Query: 538 SMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSSTAITHLPIELQKLVNLKCLNLEYM 597
            MP L V ++S N  L +LP  IS L SL++L+LS T I  LP+ L+KL  L  LNLE+ 
Sbjct: 555 FMPKLVVLDLSTNWSLIELPEEISNLGSLQYLNLSLTGIKSLPVGLKKLRKLIYLNLEFT 614

Query: 598 NNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKINVLFGGHQFLVEELMGMKHLMVLTI 657
           N L     +  +    LQVL++F              LF     ++EEL  +KHL +LT 
Sbjct: 615 NVLESLVGIA-TTLPNLQVLKLFYS------------LFCVDDIIMEELQRLKHLKILTA 661

Query: 658 TLKSWQALKELLISQELQRSTQSLFLRCFNDSKSLDIFCLAGLRNLNKLYVAGC 711
           T++    L+ +     L  S + L LR  N S    I     L  L +L +  C
Sbjct: 662 TIEDAMILERVQGVDRLASSIRGLCLR--NMSAPRVILNSVALGGLQQLGIVSC 713

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	720
24461866	890	NBS-LRR type disease resistance protein	0.983	0.795	0.599	0.0
24461861	890	NBS-LRR type disease resistance protein	0.973	0.787	0.585	0.0
24461865	892	NBS-LRR type disease resistance protein	0.984	0.794	0.593	0.0
24461864	899	NBS-LRR type disease resistance protein	0.986	0.789	0.551	0.0
225443158	903	PREDICTED: probable disease resistance p	0.977	0.779	0.532	0.0
24461863	889	NBS-LRR type disease resistance protein	0.968	0.784	0.540	0.0
224055915	880	cc-nbs-lrr resistance protein [Populus t	0.981	0.803	0.520	0.0
359482672	905	PREDICTED: probable disease resistance p	0.979	0.779	0.523	0.0
408683737	580	NBS-LRR disease resistance protein NBS39	0.723	0.898	0.625	0.0
359482674	991	PREDICTED: probable disease resistance p	0.963	0.700	0.511	0.0

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

 Score =  870 bits (2249), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 433/722 (59%), Positives = 553/722 (76%), Gaps = 14/722 (1%)

Query: 1   HISQLEDNLTVLQAQLPKLIESKNDVMARVANAEQQQMRRLNTVQGWLSRVEAMETEVGE 60
           +ISQLEDNL  LQ +L +LIE+K+DVM RV  AE+QQM RLN VQGW+SRVEA++ E  +
Sbjct: 28  YISQLEDNLDDLQTKLEQLIEAKDDVMNRVEIAERQQMSRLNQVQGWVSRVEAVKAEADQ 87

Query: 61  LMKDGSQEVDKLCPGGCCSKNCRSSFEFGKRVAKTLQLVNNLMGEGAFDAVAEKVPRPAV 120
           L++ GSQE+++LC  G CSKNC+SS++FGK+V K LQLV  LMGEG F+ VAEKVP  A 
Sbjct: 88  LIRVGSQEIERLCLWGYCSKNCKSSYDFGKKVTKKLQLVETLMGEGIFEVVAEKVPGAAA 147

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

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

Query: 240 ERVDLTKVGIPFPDPENK-SKIVFTTHFLEICGALKAHEFLKVECLGPEDAWRLFRENLR 298
           +RVDL +VG+P P P++  SK+VFT+   E+CG ++AH+  KV CL   DAW LF++ + 
Sbjct: 268 QRVDLVEVGVPLPGPQSSTSKVVFTSRSEEVCGLMEAHKKFKVACLSDIDAWELFQQKVG 327

Query: 299 RDVLDNHPDIPELARSVAQECAGLPLALITIGRAMACKKTPQEWHYAIQVLRRSASEFPG 358
            + L + PDI +LA++ A+EC GLPLALITIGRAMACKKTP+EW YAI+VLR S+S+FPG
Sbjct: 328 EETLKS-PDIRQLAQTAAKECGGLPLALITIGRAMACKKTPEEWTYAIEVLRTSSSQFPG 386

Query: 359 MGKEVYPLLKFSYDSLPDDTIRSYLLYCGLFPEDYRIRKSELIDCWIGEGFLDQYDRSGA 418
           +G EVYPLLKFSYDSLP DTIRS LLYC L+PEDY I K  LIDCWIGEGFL + DR G 
Sbjct: 387 LGNEVYPLLKFSYDSLPSDTIRSCLLYCCLYPEDYCISKEILIDCWIGEGFLTERDRFGE 446

Query: 419 YNEGYYIIGILLHACLLEEEGGDIGEEESGEHVVKMHDVIRDMVLWIACKIEKEKENFLV 478
            N+GY+I+GILLHACLL EEGGD GE       VKMHDV+RDM LWIAC IEKEK+NFLV
Sbjct: 447 QNQGYHILGILLHACLL-EEGGD-GE-------VKMHDVVRDMALWIACAIEKEKDNFLV 497

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

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

Query: 599 NLNQFPRLVISAFSKLQVLRMFDCGGSKIERL-KINVLFGGHQFLVEELMGMKHLMVLTI 657
           +L   PR +IS  S+L VLRMF    S  +R  + ++LFGG + +VEEL+G+K+L V++ 
Sbjct: 617 SLTTIPRQLISNLSRLHVLRMFAASHSAFDRASEDSILFGGGELIVEELLGLKYLEVISF 676

Query: 658 TLKSWQALKELLISQELQRSTQSLFLRCFNDSKSLDIFCLAGLRNLNKLYVAGCKHLEDS 717
           TL+S   L+  L S +L+  T++L L+CFNDS SL++  LA L+ LN+L++  CK LE+ 
Sbjct: 677 TLRSSHGLQSFLSSHKLRSCTRALLLQCFNDSTSLEVSALADLKQLNRLWITECKKLEEL 736

Query: 718 QM 719
           +M
Sbjct: 737 KM 738

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 =  809 bits (2089), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 423/722 (58%), Positives = 538/722 (74%), Gaps = 21/722 (2%)

Query: 1   HISQLEDNLTVLQAQLPKLIESKNDVMARVANAEQQQMRRLNTVQGWLSRVEAMETEVGE 60
           +IS L+DNL  L  +L KLI +KND+M RV +AE+QQMRRL+ VQ W+SRVE +ETE   
Sbjct: 29  YISNLQDNLVALDTELRKLIAAKNDLMRRVNDAERQQMRRLDQVQVWVSRVETVETEADA 88

Query: 61  LMKDGSQEVDKLCPGGCCSKNCRSSFEFGKRVAKTLQLVNNLMGEGAFDAVAEKVPRPAV 120
            + DG+QE++KLC GG CSKNC+SS++FGK+VA+ L+ +  LMGEG F+ VA+KVP PAV
Sbjct: 89  FIGDGTQEIEKLCLGGYCSKNCKSSYKFGKQVARKLRDIKTLMGEGVFEVVADKVPEPAV 148

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

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

Query: 240 ERVDLTKVGIPFPDPE-NKSKIVFTTHFLEICGALKAHEFLKVECLGPEDAWRLFRENLR 298
           +RVDL KVGIP P+ + + SK+VFTT   E+CG ++AH+  KVECL   DAW LFR+ + 
Sbjct: 269 QRVDLAKVGIPLPNSQTSASKVVFTTRSEEVCGLMEAHKKFKVECLSGNDAWELFRQKVG 328

Query: 299 RDVLDNHPDIPELARSVAQECAGLPLALITIGRAMACKKTPQEWHYAIQVLRRSASEFPG 358
            + L+ H DI ELA++V +EC GLPLALITIGRAMACKKTP+EW YAIQVLR S+S+FPG
Sbjct: 329 EETLNCHHDILELAQTVTKECGGLPLALITIGRAMACKKTPEEWSYAIQVLRTSSSQFPG 388

Query: 359 MGKEVYPLLKFSYDSLPDDTIRSYLLYCGLFPEDYRIRKSELIDCWIGEGFLDQYDRSGA 418
           +G EVYPLLKFSYD+LP+DTIRS LLYC L+PED  I K  L+DCWIGEG L+     G+
Sbjct: 389 LGNEVYPLLKFSYDNLPNDTIRSCLLYCCLYPEDCCISKENLVDCWIGEGLLNGSVTLGS 448

Query: 419 YNEGYYIIGILLHACLLEEEGGDIGEEESGEHVVKMHDVIRDMVLWIACKIEKEKENFLV 478
           + +GY+++GIL+H+CLLEE    + E+E     VKMHDVIRDM LW+AC  EKEKEN+LV
Sbjct: 449 HEQGYHVVGILVHSCLLEE----VDEDE-----VKMHDVIRDMALWLACDAEKEKENYLV 499

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

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

Query: 598 NNLNQFPRLVISAFSKLQVLRM-----FDCGGSKIERLKINVLFGGHQFLVEELMGMKHL 652
             L + P  +IS FS+L VLRM     F  G   IE    +VLFGG + LVEEL+G+KHL
Sbjct: 620 GRLLKIPLQLISNFSRLHVLRMFGNAYFSYGNYPIE----SVLFGGGELLVEELLGLKHL 675

Query: 653 MVLTITLKSWQALKELLISQELQRSTQSLFLRCFNDSKSLDIFCLAGLRNLNKLYVAGCK 712
            VL++TL S +AL+  L S  L+  T+++ L+ F  S S+D+  LA L+ L +L ++ C 
Sbjct: 676 EVLSLTLGSSRALQSFLTSHMLRSCTRAMLLQDFQGSTSVDVSGLADLKRLKRLRISDCY 735

Query: 713 HL 714
            L
Sbjct: 736 EL 737

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 =  790 bits (2039), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 429/723 (59%), Positives = 541/723 (74%), Gaps = 14/723 (1%)

Query: 1   HISQLEDNLTVLQAQLPKLIESKNDVMARVANAEQQ-QMRRLNTVQGWLSRVEAMETEVG 59
           +I  L+ NL  L+ +L KLI++K DVM RV  AE+   M+RLN VQGWLSRVEA +++  
Sbjct: 27  YIKNLKQNLADLETELGKLIDAKEDVMRRVNTAERHPMMKRLNKVQGWLSRVEAAKSDGD 86

Query: 60  ELMKDGSQEVDKLCPGGCCSKNCRSSFEFGKRVAKTLQLVNNLMGEGAFDAVAEKVPRPA 119
           +L+  GSQE+ KLC GG CSKNC+SS+EFGK+VA+ L  V  LM E AF+AVAE+VP+PA
Sbjct: 87  KLITCGSQEIKKLCLGGYCSKNCKSSYEFGKQVARKLGDVKTLMAEEAFEAVAEEVPQPA 146

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

Query: 179 DVVIWVVVSKDLQLEKIQEKIGRRIGFFDESWKNGSLEDKTSDILRILGKKKFLLLLDDI 238
           + VIWVV SKDL+LE IQE IG +IG  +++WKN  +E K  DI RIL +KKFLLLLDD+
Sbjct: 207 NYVIWVVASKDLRLENIQETIGEQIGLLNDTWKNKRIEQKAQDIFRILKQKKFLLLLDDL 266

Query: 239 WERVDLTKVGIPFPDPENK-SKIVFTTHFLEICGALKAHEFLKVECLGPEDAWRLFRENL 297
           W+RVDLTKVG+P P P+N  SK+VFTT   E+CG + AH   KV CL   DAW LFR+N+
Sbjct: 267 WQRVDLTKVGVPLPGPQNNASKVVFTTRSEEVCGLMGAHTRFKVACLSNIDAWELFRQNV 326

Query: 298 RRDVLDNHPDIPELARSVAQECAGLPLALITIGRAMACKKTPQEWHYAIQVLRRSASEFP 357
             + +++HPDI +LA++ A+EC GLPLALITIGRAMACKKTP+EW YAI+VLR S+S+FP
Sbjct: 327 GEETMNSHPDILQLAQTAARECGGLPLALITIGRAMACKKTPEEWSYAIEVLRTSSSQFP 386

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

Query: 418 AYNEGYYIIGILLHACLLEEEGGDIGEEESGEHVVKMHDVIRDMVLWIACKIEKEKENFL 477
              EGY+I+GILLHACLL EEGGD GE       VKMHDVIRDM LWIAC IE+EKENF 
Sbjct: 447 EQKEGYHILGILLHACLL-EEGGD-GE-------VKMHDVIRDMALWIACDIEREKENFF 497

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

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

Query: 598 NNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKIN-VLFGGHQFLVEELMGMKHLMVLT 656
            NL   PR +IS  S+L+VLRMF    +  +    N +LFGG + +VEEL+G+KHL V+T
Sbjct: 617 RNLITIPRQLISNLSRLRVLRMFGASHNAFDEASENSILFGGGELIVEELLGLKHLEVIT 676

Query: 657 ITLKSWQALKELLISQELQRSTQSLFLRCFNDSKSLDIFCLAGLRNLNKLYVAGCKHLED 716
           +TL+S   L+  L S +L+  TQ+L L+ F DS SL++  LA L+ LN+L +A    LE+
Sbjct: 677 LTLRSSYGLQSFLNSHKLRSCTQALLLQHFKDSTSLEVSALADLKQLNRLQIANSVILEE 736

Query: 717 SQM 719
            +M
Sbjct: 737 LKM 739

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 =  774 bits (1999), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 404/732 (55%), Positives = 513/732 (70%), Gaps = 22/732 (3%)

Query: 1   HISQLEDNLTVLQAQLPKLIESKNDVMARVANAEQQQM-RRLNTVQGWLSRVEAMETEVG 59
           ++  L+ N+  L+ +LPKLI  K+DVMARV NAE+QQM  RLN VQ WLSRV+A+     
Sbjct: 29  YVRNLQKNVEALKNELPKLIAKKDDVMARVVNAERQQMMTRLNEVQLWLSRVDAVTAGAD 88

Query: 60  ELMKDGSQEVDKLCPGGCCSKNCRSSFEFGKRVAKTLQLVNNLMGEGAFDAVAEKVPRPA 119
           EL++ GSQE++KLC GG CSKNC+SS +FGK+V K L  V  L+ EG+F  VA++ P   
Sbjct: 89  ELIRIGSQEIEKLCLGGYCSKNCKSSKKFGKQVDKKLSDVKILLAEGSFAVVAQRAPESV 148

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

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

Query: 239 WERVDLTKVGIPFPDPENKS--KIVFTTHFLEICGALKAHEFLKVECLGPEDAWRLFREN 296
           W+RVD   VG+P P P +KS  K+VFTT   E+CG + AH+ ++VECL   DAW LFR+N
Sbjct: 269 WQRVDFATVGVPIP-PRDKSASKVVFTTRSTEVCGRMGAHKKIEVECLSANDAWELFRQN 327

Query: 297 LRRDVLDNHPDIPELARSVAQECAGLPLALITIGRAMACKKTPQEWHYAIQVLRRSASEF 356
           +  + L+  P I ELA  VA+EC  LPLALI  GRAMACKKTP EW  AI+VL+ SASEF
Sbjct: 328 VGEETLNGQPKILELAERVAKECGCLPLALIVTGRAMACKKTPAEWRDAIKVLQTSASEF 387

Query: 357 PGMGKEVYPLLKFSYDSLPDDTIRSYLLYCGLFPEDYRIRKSELIDCWIGEGFLDQYDRS 416
           PG+   V  +LKFSYDSLPDDT RS LLYC LFPEDYRI K  LIDCWIGEGFL    + 
Sbjct: 388 PGLENNVLRVLKFSYDSLPDDTTRSCLLYCCLFPEDYRIYKENLIDCWIGEGFLKVTGKY 447

Query: 417 GAYNEGYYIIGILLHACLLEEEGGDIGEEESGEHVVKMHDVIRDMVLWIAC------KIE 470
              + G+ I+G ++HACLLEEEG D         VVKMHDVIRDM LWIAC        E
Sbjct: 448 ELQDRGHTILGNIVHACLLEEEGDD---------VVKMHDVIRDMTLWIACDTEKTEDTE 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 MSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSSTAITHLPIELQKLVNL 589
           M T DFF+SMP L+V N+S    +   P G+S LVSL+HLDLS TAI  LP EL  L NL
Sbjct: 559 MITGDFFKSMPCLKVLNLSGARRMSSFPLGVSVLVSLQHLDLSGTAIQELPKELNALENL 618

Query: 590 KCLNLEYMNNLNQFPRLVISAFSKLQVLRMFDCGG-SKIERLKINVLFGGHQFLVEELMG 648
           K LNL+  + L   PR +IS FS L VLRMF  G  S   +   + LF G   LVE L G
Sbjct: 619 KSLNLDQTHYLITIPRQLISRFSCLVVLRMFGVGDWSPNGKRNDSDLFSGGDLLVEALRG 678

Query: 649 MKHLMVLTITLKSWQALKELLISQELQRSTQSLFLRCFNDSKSLDIFCLAGLRNLNKLYV 708
           +KHL VL++TL + Q L+ +L S++L+  TQ+L+L  F  S+ LD+  LAGL +LN+L++
Sbjct: 679 LKHLEVLSLTLNNSQDLQCVLNSEKLRSCTQALYLHSFKRSEPLDVSALAGLEHLNRLWI 738

Query: 709 AGCKHLEDSQMT 720
             C+ LE+ +M 
Sbjct: 739 HECEELEELKMA 750

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 =  741 bits (1912), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 382/717 (53%), Positives = 506/717 (70%), Gaps = 13/717 (1%)

Query: 1   HISQLEDNLTVLQAQLPKLIESKNDVMARVANAEQQQMRRLNTVQGWLSRVEAMETEVGE 60
           +I + E+N+  L+  L  L + +ND+  +V   E Q M +L+ VQ W SR EAME EV +
Sbjct: 28  YICEFEENIKALKEALEDLKDFRNDMKRKVEMGEGQPMEQLDQVQRWFSRAEAMELEVDQ 87

Query: 61  LMKDGSQEVDKLCPGGCCSKNCRSSFEFGKRVAKTLQLVNNLMGEGAFDAVAEKVPRPAV 120
           L++DG++E  K C GGCCSKNC SS++ G+++ K    V  L     FD +A+++P PAV
Sbjct: 88  LIRDGTRETQKFCLGGCCSKNCLSSYKLGRKLVKKADDVATLRSTRLFDGLADRLPPPAV 147

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

Query: 181 VIWVVVSKDLQLEKIQEKIGRRIGFFDESWKNGSLEDKTSDILRILGKKKFLLLLDDIWE 240
           VIWVVVS+D   EK+Q++I +++GF D+ WK+ S ++K   I RILGKKKF+L LDD+WE
Sbjct: 208 VIWVVVSRDPNPEKVQDEIWKKVGFCDDKWKSKSQDEKAISIFRILGKKKFVLFLDDVWE 267

Query: 241 RVDLTKVGIPFPDPENKSKIVFTTHFLEICGALKAHEFLKVECLGPEDAWRLFRENLRRD 300
           R DL KVGIP P+ +N SK+VFTT   E+CG + AH  +KVECL  + AW LF+  +  D
Sbjct: 268 RFDLLKVGIPLPNQQNNSKLVFTTRSEEVCGRMGAHRRIKVECLAWKQAWDLFQNMVGED 327

Query: 301 VLDNHPDIPELARSVAQECAGLPLALITIGRAMACKKTPQEWHYAIQVLRRSASEFPGMG 360
            L++HP+IP+LA ++ +EC GLPLAL+T GR MACKK PQEW +AI++L+ S+S FPGM 
Sbjct: 328 TLNSHPEIPQLAETIVKECLGLPLALVTTGRTMACKKAPQEWKFAIKMLQSSSSSFPGMR 387

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

Query: 420 NEGYYIIGILLHACLLEEEGGDIGEEESGEHVVKMHDVIRDMVLWIACKIEKEKENFLVH 479
           N+G+ IIG L+ ACLL         EES E+ VKMHDVIRDM LWIAC+  + K+ FLV 
Sbjct: 448 NQGFDIIGSLIRACLL---------EESREYFVKMHDVIRDMALWIACECGRVKDKFLVQ 498

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

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

Query: 600 LNQFPRLVISAFSKLQVLRMFDCGGSKIERLKINVLFGGHQFLVEELMGMKHLMVLTITL 659
           L   PR V+S+ S+LQVL+MF CG   +   + NVL  G++ LV EL  + +L  L IT+
Sbjct: 618 LGIIPRHVVSSMSRLQVLKMFHCGFYGVG--EDNVLSDGNEALVNELECLNNLCDLNITI 675

Query: 660 KSWQALKELLISQELQRSTQSLFLRCFNDSKSLDIFCLAGLRNLNKLYVAGCKHLED 716
           +S  AL+  L S++++  TQ LFL+ FN   SLDI  L  ++ L+ L+++ C  L D
Sbjct: 676 RSASALQRCLCSEKIEGCTQDLFLQFFNGLNSLDISFLENMKRLDTLHISDCATLAD 732

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 =  729 bits (1882), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 391/724 (54%), Positives = 507/724 (70%), Gaps = 27/724 (3%)

Query: 1   HISQLEDNLTVLQAQLPKLIESKNDVMARVANAEQQ-QMRRLNTVQGWLSRVEAMETEVG 59
           +I  L++N+  L+ +L KLIE+KNDVMARV N E+Q  M RLN VQGWLS V+A++ E  
Sbjct: 27  YIRNLQENVVALETELGKLIEAKNDVMARVVNTERQPMMTRLNKVQGWLSGVDAVKAEAD 86

Query: 60  ELMKDGSQEVDKLCPGGCCSKNCRSSFEFGKRVAKTLQLVNNLMGEGAFDAVAEKVPRPA 119
           EL++ GSQE++KLC GG CSKN +SS++FGK+VAK L+    LM EG F+ VAE+ P  A
Sbjct: 87  ELIRHGSQEIEKLCLGGYCSKNWKSSYKFGKQVAKKLRDAGTLMAEGVFEVVAERAPESA 146

Query: 120 VDQRPCEPTVGLESTFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNV-F 178
                    VG++S  + VWRCL EE VGI+GLYGMGGVGKTTLLT +NNK LG  +  F
Sbjct: 147 --------AVGMQSRLEPVWRCLVEEPVGIVGLYGMGGVGKTTLLTHLNNKFLGQRDFHF 198

Query: 179 DVVIWVVVSKDLQLEKIQEKIGRRIGFFDESWKNGSLEDKTSDILRILGKKKFLLLLDDI 238
           D +IWVVVSKDLQ+EKIQE IG+++GFF++SW   +L ++  DI  +L +KKF+LLLDD+
Sbjct: 199 DFLIWVVVSKDLQIEKIQEIIGKKVGFFNDSWMKKNLAERAVDIYNVLKEKKFVLLLDDV 258

Query: 239 WERVDLTKVGIPFPDPENKS--KIVFTTHFLEICGALKAHEFLKVECLGPEDAWRLFREN 296
           W+RVD   VG+P P P +KS  K+VFTT   E+C  + AH+   V CL   DAW LFR+N
Sbjct: 259 WQRVDFATVGVPIP-PRDKSASKVVFTTRSAEVCVWMGAHKKFGVGCLSANDAWELFRQN 317

Query: 297 LRRDVLDNHPDIPELARSVAQECAGLPLALITIGRAMACKKTPQEWHYAIQVLRRSASEF 356
           +  + L +  DI ELA+ VA+EC GLPLALITIG+AMA KKT +EW +AI+VLRRSASEF
Sbjct: 318 VGEETLTSDHDIAELAQIVAEECGGLPLALITIGQAMAYKKTVEEWRHAIEVLRRSASEF 377

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

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

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

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

Query: 594 LEYMNNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKINVLFGGHQFLVEELMGMKHLM 653
           L +   L++ PR +IS  S+L VLRMF  G S  E  + +VLFGG + L++EL+G+K+L 
Sbjct: 608 LRWATWLSKIPRQLISNSSRLHVLRMFATGCSHSEASEDSVLFGGGEVLIQELLGLKYLE 667

Query: 654 VLTITLKSWQALKELLISQELQRSTQSLFLRCFNDSKS-LDIFCLAGLRNLNKLYVAGCK 712
           VL +TL+S  AL+    S +L+   +SL L     +KS +D    A L +LN+L +    
Sbjct: 668 VLELTLRSSHALQLFFSSNKLKSCIRSLLLDEVRGTKSIIDATAFADLNHLNELRIDSVA 727

Query: 713 HLED 716
            +E+
Sbjct: 728 EVEE 731

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 =  723 bits (1867), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 375/721 (52%), Positives = 499/721 (69%), Gaps = 14/721 (1%)

Query: 1   HISQLEDNLTVLQAQLPKLIESKNDVMARVANAEQQQMRRLNTVQGWLSRVEAMETEVGE 60
           +IS+L++N+  L+  + +L +  NDV  RV   E+QQ+++L+ VQ W+SR +A   +  E
Sbjct: 28  YISKLKENVDGLKIAVEELTDLHNDVTRRVKVDEEQQLKQLDQVQRWISRAKAAIDKANE 87

Query: 61  LMKDGSQEVDKLCPGGCCSKNCRSSFEFGKRVAKTLQLVNNLMGEGAFDAVAEKVPRPAV 120
           L+++ SQE+++LC  G CSKN +SS+ F K V K L+ V +L   G F  VAEKVP  + 
Sbjct: 88  LLREDSQEIERLCLRGYCSKNYKSSYRFAKEVDKRLRDVADLKANGDFKVVAEKVPAASG 147

Query: 121 DQRPCEPTVGLESTFDKVWRCLGEE-QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFD 179
             RP EPTVGLESTF++VW CL EE QVGI+GLYGMGGVGKTTLLT+INN+ L  P+ FD
Sbjct: 148 VPRPSEPTVGLESTFNQVWTCLREEKQVGIVGLYGMGGVGKTTLLTQINNESLKTPDDFD 207

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

Query: 240 ERVDLTKVGIPFPDPENKSKIVFTTHFLEICGALKAHEFLKVECLGPEDAWRLFRENLRR 299
           ERVDL K+G+P PD  N SK+VFTT   EICG + AH+ +KV+CL  +DAW LF++ +  
Sbjct: 268 ERVDLKKLGVPLPDMNNGSKVVFTTRSEEICGLMDAHKTMKVDCLAWDDAWDLFQKKVGD 327

Query: 300 DVLDNHPDIPELARSVAQECAGLPLALITIGRAMACKKTPQEWHYAIQVLRRSASEFPGM 359
             L  H DIP+LAR+VA+EC GLPLALITIGRAMACKKTPQEW +AI+VLR+SASEF GM
Sbjct: 328 QTLCVHTDIPKLARNVAKECGGLPLALITIGRAMACKKTPQEWRHAIEVLRKSASEFSGM 387

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

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

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

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

Query: 599 NLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKINVLFGGHQFLVEELMGMKHLMVLTIT 658
           +L   P  VIS F  +++LRMF CG S  E+   + +    + LVEEL  ++ L +LT+T
Sbjct: 618 SLYLLPHGVISGFPMMRILRMFRCGSS--EQAAEDCILSRDESLVEELQCLEELNMLTVT 675

Query: 659 LKSWQALKELLISQELQRSTQSLFLRCFNDSKSLDIFCLAGLRNLNKLYVAGCKHLEDSQ 718
           ++S  AL+ L   Q +Q ST+ L+L  F+DSK ++   LA ++NL+ L++  C  LE+ Q
Sbjct: 676 IRSAAALERLSSFQGMQSSTRVLYLELFHDSKLVNFSSLANMKNLDTLHICHCGSLEELQ 735

Query: 719 M 719
           +
Sbjct: 736 I 736

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  697 bits (1798), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 375/717 (52%), Positives = 505/717 (70%), Gaps = 12/717 (1%)

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

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

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

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

Query: 241 RVDLTKVGIPFPDPENKSKIVFTTHFLEICGALKAHEFLKVECLGPEDAWRLFRENLRRD 300
           R+DL+ VG+PF + +N  KIVFTT   E+C  ++A + +KVECL   ++W LFR  L  D
Sbjct: 268 RLDLSDVGVPFQNKKN--KIVFTTRSEEVCAQMEADKKIKVECLTWTESWELFRMKLGED 325

Query: 301 VLDNHPDIPELARSVAQECAGLPLALITIGRAMACKKTPQEWHYAIQVLRRSASEFPGMG 360
            LD HP+IPELA++VAQEC GLPL L T+GRAMACKKTP+EW YAI+VLR SAS+FPGMG
Sbjct: 326 TLDFHPEIPELAQAVAQECCGLPLVLTTMGRAMACKKTPEEWKYAIKVLRSSASKFPGMG 385

Query: 361 KEVYPLLKFSYDSLPDDTIRSYLLYCGLFPEDYRIRKSELIDCWIGEGFLDQY-DRSGAY 419
             V+PLLK+SYD LP +  RS  LYC L+PEDY++ K  LI+ WI EGFLD++ D  GA 
Sbjct: 386 DRVFPLLKYSYDCLPTEVSRSCFLYCSLYPEDYQMPKLSLINRWICEGFLDEFDDMEGAK 445

Query: 420 NEGYYIIGILLHACLLEEEGGDIGEEESGEHVVKMHDVIRDMVLWIACKIEKEKENFLVH 479
           N+GY IIG L+HACLLEE  GD+      ++ VK+HDVIRDM LWI C+  KE++ FLV 
Sbjct: 446 NQGYNIIGTLIHACLLEE--GDV------DYKVKLHDVIRDMALWIGCETGKEQDKFLVK 497

Query: 480 AGLGLTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSM 539
           AG  LTEAPE+  W   +R+SLM N+IE L+ +P CP+L +LFL+DNSLKM +D FFQ M
Sbjct: 498 AGSTLTEAPEVAEWMGPKRISLMDNQIEELTGSPKCPNLSTLFLADNSLKMISDTFFQFM 557

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

Query: 600 LNQFPRLVISAFSKLQVLRMFDCGGSKIERLKINVLFGGHQFLVEELMGMKHLMVLTITL 659
           L+  P  +IS+ S LQV+ MF+ G S+   LK  +L   ++ LV+EL  +K+L  L +++
Sbjct: 617 LSSIPEQLISSLSMLQVIDMFNSGISERTVLKDGILSDDNEALVQELESLKYLHGLGVSV 676

Query: 660 KSWQALKELLISQELQRSTQSLFLRCFNDSKSLDIFCLAGLRNLNKLYVAGCKHLED 716
           KS  A K LL S +L+     L L+ FN S SL++  L+  + L+ LY++ C  LED
Sbjct: 677 KSASAFKRLLSSYKLRICISGLCLKNFNGSSSLNLTSLSNAKCLSSLYISKCGSLED 733

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|408683737|gb|AFM77964.2| NBS-LRR disease resistance protein NBS39 [Dimocarpus longan]

 Score =  690 bits (1780), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 345/552 (62%), Positives = 415/552 (75%), Gaps = 31/552 (5%)

Query: 38  MRRLNTVQGWLSRVEAMETEVGELMKDGSQEVDKLCPGGCCSKNCRSSFEFGKRVAKTLQ 97
           M+RL+ VQGWLSRVEA ETEV +L+KD +QE++KLC GG CS N +SS+++GK++A+ LQ
Sbjct: 1   MKRLHQVQGWLSRVEAEETEVDKLIKDSAQEIEKLCLGGYCSWNIKSSYKYGKKIAQKLQ 60

Query: 98  LVNNLMGEGAFDAVAEK----------------VPRPAVDQRPCEPTVGLESTFDKVWRC 141
           +V+ L  EG F  VAE                 +P+  VD+RPCEPTVGLE+TFD VWR 
Sbjct: 61  VVSKLKEEGCFPTVAEIWSREDPMDEPITGERILPQIVVDERPCEPTVGLETTFDAVWRY 120

Query: 142 LGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKIGR 201
           LGE+QVG+IGLYGMGGVGKTTLLT+INNK +   N FD+V+WVVVSKDLQLEKIQE IGR
Sbjct: 121 LGEKQVGVIGLYGMGGVGKTTLLTQINNKFVDVSNDFDIVMWVVVSKDLQLEKIQENIGR 180

Query: 202 RIGFFDESWKNGSLEDKTSDILRILGKKKFLLLLDDIWERVDLTKVGIPFPDPEN----- 256
           +IG  DESW++ SLE+K  DI +IL +K+F+LLLDDIWERVDL KVG+P           
Sbjct: 181 KIGLSDESWRSKSLEEKAMDIFKILRRKRFVLLLDDIWERVDLVKVGVPPLSSPPLSSSF 240

Query: 257 KSKIVFTTHFLEICGALKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVA 316
            SK+VFTT F+E+CG ++AH  LKVECL  E+AW+LFR  +  D LDNHP+IPELA++ A
Sbjct: 241 TSKVVFTTRFVEVCGHMEAHRKLKVECLADEEAWKLFRSKVGGDALDNHPEIPELAQTAA 300

Query: 317 QECAGLPLALITIGRAMACKKTPQEWHYAIQVLRRSASEFPGMGKEVYPLLKFSYDSLPD 376
           +EC GLPLALITIGRAMACKKTP EW YAI+VLRRSA EFPG+GKEVYPLLKFSYDSLP 
Sbjct: 301 KECGGLPLALITIGRAMACKKTPAEWRYAIEVLRRSAHEFPGLGKEVYPLLKFSYDSLPS 360

Query: 377 DTIRSYLLYCGLFPEDYRIRKSELIDCWIGEGFLDQYDRSGAYNEGYYIIGILLHACLLE 436
            T+R+ LLYC LFPEDY I K  LIDCWIGEGFL   D  G   +G + +G+LLHACLLE
Sbjct: 361 CTLRACLLYCSLFPEDYNIPKKHLIDCWIGEGFLGDDDVGGTQYQGQHHVGVLLHACLLE 420

Query: 437 EEGGDIGEEESGEHVVKMHDVIRDMVLWIACKIEKEKENFLVHAGLGLTEAPEIQNWRNV 496
           EE  D          VKMHDVIRDM LW+AC+ +KEKENFLV AG G+TE P +  W  V
Sbjct: 421 EEDDDF---------VKMHDVIRDMTLWLACEFDKEKENFLVRAGTGMTE-PGVGRWEGV 470

Query: 497 RRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKL 556
           RR+SLM+N+I +LS +PTCPHLL+LFL+ N L   TD FF  M SLRV N+SNN  L +L
Sbjct: 471 RRISLMENQINSLSGSPTCPHLLTLFLNRNDLSSITDGFFAYMSSLRVLNLSNNDSLREL 530

Query: 557 PSGISTLVSLEH 568
           P+ IS LVSL  
Sbjct: 531 PAEISKLVSLHQ 542

Source: Dimocarpus longan

Species: Dimocarpus longan

Genus: Dimocarpus

Family: Sapindaceae

Order: Sapindales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  687 bits (1772), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 367/717 (51%), Positives = 497/717 (69%), Gaps = 23/717 (3%)

Query: 1   HISQLEDNLTVLQAQLPKLIESKNDVMARVANAEQQQMRRLNTVQGWLSRVEAMETEVGE 60
           ++ +L +NL  L     +L E +NDVM RV  AE++QM+RL+ VQGWLSRVE +ET+V  
Sbjct: 28  YLCKLPENLVALGTACKRLGEFRNDVMRRVDIAEREQMQRLDQVQGWLSRVENLETQVSR 87

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

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

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

Query: 241 RVDLTKVGIPFPDPENKSKIVFTTHFLEICGALKAHEFLKVECLGPEDAWRLFRENLRRD 300
           R+ L  VG+P  + +N  KIVFTT   E+C  ++A + +KV+CL   ++W LFR+NL  D
Sbjct: 268 RLTLLDVGVPLQNKKN--KIVFTTRSEEVCAQMEADKRIKVDCLTRTESWDLFRKNLGED 325

Query: 301 VLDNHPDIPELARSVAQECAGLPLALITIGRAMACKKTPQEWHYAIQVLRRSASEFPGMG 360
            L  HP+IP+LA+ VAQEC GLPL L T+G+AMACKKTPQEW +AI+V + SAS+ PG+G
Sbjct: 326 ALKFHPEIPKLAQVVAQECCGLPLVLTTMGKAMACKKTPQEWKHAIRVFQSSASKLPGIG 385

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

Query: 420 NEGYYIIGILLHACLLEEEGGDIGEEESGEHVVKMHDVIRDMVLWIACKIEKEKENFLVH 479
           N+GY IIG L+HACLLEE  GD+      ++ VK+HDVIRDM LWIA +  KE++ FLV 
Sbjct: 446 NQGYNIIGTLIHACLLEE--GDV------DYQVKLHDVIRDMALWIARETGKEQDKFLVK 497

Query: 480 AGLGLTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSM 539
           AG  LTEAPE+  W   +R+SLM N+IE L+ +P CP+L +LFL +NSLKM TD FFQ M
Sbjct: 498 AGSTLTEAPEVAEWMGPKRISLMNNQIEKLTGSPICPNLSTLFLRENSLKMITDSFFQFM 557

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

Query: 600 LNQFPRLVISAFSKLQVLRMFDCGGSKIERLKINVLFGGHQFLVEELMGMKHLMVLTITL 659
           L+  P  +IS+   LQV+ M +CG           +  G + LVEEL  +K+L  L +T+
Sbjct: 617 LSSIPEQLISSLLMLQVIDMSNCG-----------ICDGDEALVEELESLKYLHDLGVTI 665

Query: 660 KSWQALKELLISQELQRSTQSLFLRCFNDSKSLDIFCLAGLRNLNKLYVAGCKHLED 716
            S  A K LL S +L+    S+ LR FN S SL++  L  ++NL +L ++ C  LE+
Sbjct: 666 TSTSAFKRLLSSDKLRSCISSVCLRNFNGSSSLNLTSLCNVKNLCELSISNCGSLEN 722

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	720
TAIR|locus:2201986	885	RFL1 "AT1G12210" [Arabidopsis	0.848	0.690	0.398	7.3e-125
TAIR|locus:2166320	888	AT5G63020 [Arabidopsis thalian	0.848	0.688	0.412	6.3e-124
TAIR|locus:2034770	894	SUMM2 "AT1G12280" [Arabidopsis	0.866	0.697	0.404	1.3e-121
TAIR|locus:2036214	851	AT1G15890 [Arabidopsis thalian	0.861	0.728	0.407	4.7e-119
TAIR|locus:2132741	892	AT4G10780 [Arabidopsis thalian	0.893	0.720	0.395	9.8e-119
TAIR|locus:2008440	899	AT1G61180 [Arabidopsis thalian	0.941	0.754	0.387	2.6e-118
TAIR|locus:2008510	967	AT1G61190 "AT1G61190" [Arabido	0.854	0.635	0.405	9.7e-118
TAIR|locus:2034765	884	AT1G12290 [Arabidopsis thalian	0.852	0.694	0.392	7.1e-116
TAIR|locus:2201996	889	RPS5 "AT1G12220" [Arabidopsis	0.85	0.688	0.384	1.1e-112
TAIR|locus:2170892	848	AT5G43730 [Arabidopsis thalian	0.934	0.793	0.374	9.7e-112

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

 Score = 1160 (413.4 bits), Expect = 7.3e-125, Sum P(3) = 7.3e-125
 Identities = 249/625 (39%), Positives = 352/625 (56%)

Query:     1 HISQLEDNLTVLQAQLPKLIESKNDVMARVANAE-QQQMRRLNTVQGWLSRVEAMETEVG 59
             +I  L +NL  LQ  +  L   ++DV  R+   E     RRL  VQ WL+R++ +E +  
Sbjct:    28 YIQNLSENLASLQKAMGVLNAKRDDVQGRINREEFTGHRRRLAQVQVWLTRIQTIENQFN 87

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

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

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

Query:   239 WERVDLTKVGIPFPDPENKSKIVFTTHFLEICGALKAHEFLKVECLGPEDAWRLFRENLR 298
             WE+V+L  +G+P+P  EN  K+ FTTH  E+CG +     +++ CL   +AW L ++ + 
Sbjct:   268 WEKVELKVIGVPYPSGENGCKVAFTTHSKEVCGRMGVDNPMEISCLDTGNAWDLLKKKVG 327

Query:   299 RDVLDNHPDIPELARSVAQECAGLPLALITIGRAMACKKTPQEWHYAIQVLRRSASEFPG 358
              + L +HPDIP+LAR V+++C GLPLAL  IG  M+ K+T QEW +A +VL  SA++F G
Sbjct:   328 ENTLGSHPDIPQLARKVSEKCCGLPLALNVIGETMSFKRTIQEWRHATEVLT-SATDFSG 386

Query:   359 MGKEVYPLLKFSYDSLPDDTIRSYLLYCGLFPEDYRIRKSELIDCWIGEGFL-DQYDRSG 417
             M  E+ P+LK+SYDSL  +  +S  LYC 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-SLKMSTDDFF 536
             V AG+GL E PE++NWR V+RMSLM N  E +  +P C  L++LFL +N  L   + +FF
Sbjct:   500 VQAGIGLDELPEVENWRAVKRMSLMNNNFEKILGSPECVELITLFLQNNYKLVDISMEFF 559

Query:   537 QSMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSSTAITHLPIELQKLVNLKCLNLEY 596
             + MPSL V ++S NH L +LP  IS LVSL++LDLS T I  LP  L +L  L  L LE 
Sbjct:   560 RCMPSLAVLDLSENHSLSELPEEISELVSLQYLDLSGTYIERLPHGLHELRKLVHLKLER 619

Query:   597 MNNLNQFPRLVISAFSKLQVLRMFD 621
                L       IS  S L+ LR+ D
Sbjct:   620 TRRLESISG--ISYLSSLRTLRLRD 642

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 = 1218 (433.8 bits), Expect = 6.3e-124, P = 6.3e-124
 Identities = 257/623 (41%), Positives = 366/623 (58%)

Query:     1 HISQLEDNLTVLQAQLPKLIESKNDVMARVANAEQQQMRRLNTVQGWLSRVEAMETEVGE 60
             +I  LE+NLT LQ  L ++ + + D++ ++ + E++ ++RL+ VQGW+S+VEA+   V E
Sbjct:    28 YIHGLEENLTALQRALEQIEQRREDLLRKILSEERRGLQRLSVVQGWVSKVEAIVPRVNE 87

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

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

Query:   181 VIWVVVSKDLQLEKIQEKIGRRIGFFDESWKNGSLEDKTSDXXXXXXXXXXXXXXXXXWE 240
             VIW+VVSK+LQ+++IQ++I  ++   +E WK  + + K S+                 W 
Sbjct:   208 VIWIVVSKELQIQRIQDEIWEKLRSDNEKWKQKTEDIKASNIYNVLKHKRFVLLLDDIWS 267

Query:   241 RVDLTKVGIPFPDPENKSKIVFTTHFLEICGALKAHEFLKVECLGPEDAWRLFRENLRRD 300
             +VDLT+VG+PFP  EN  KIVFTT   EICG +     ++V CL P+DAW LF + +   
Sbjct:   268 KVDLTEVGVPFPSRENGCKIVFTTRLKEICGRMGVDSDMEVRCLAPDDAWDLFTKKVGEI 327

Query:   301 VLDNHPDIPELARSVAQECAGLPLALITIGRAMACKKTPQEWHYAIQVLRRSASEFPGMG 360
              L +HP+IP +AR+VA++C GLPLAL  IG  MA K+T QEW  AI VL  SA+EF GM 
Sbjct:   328 TLGSHPEIPTVARTVAKKCRGLPLALNVIGETMAYKRTVQEWRSAIDVLTSSAAEFSGME 387

Query:   361 KEVYPLLKFSYDSLPDDTIRSYLLYCGLFPEDYRIRKSELIDCWIGEGFLDQYDRSGAYN 420
              E+ P+LK+SYD+L  + ++    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 GLGLTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMP 540
             GL     PEI+ W+  RR+SLM N IE++ + P  P L++L L  N L   +  FF+ MP
Sbjct:   498 GLQSRNIPEIEKWKVARRVSLMFNNIESIRDAPESPQLITLLLRKNFLGHISSSFFRLMP 557

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

Query:   601 NQFPRLVISAFSKLQVLRMFDCG 623
                    IS  + L+VLR+F  G
Sbjct:   618 ESI--CGISGLTSLKVLRLFVSG 638

GO:0005634 "nucleus" evidence=ISM

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

GO:0043531 "ADP binding" evidence=IEA

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

 Score = 1196 (426.1 bits), Expect = 1.3e-121, P = 1.3e-121
 Identities = 258/638 (40%), Positives = 367/638 (57%)

Query:     1 HISQLEDNLTVLQAQLPKLIESKNDVMARVANAEQQQMR-RLNTVQGWLSRVEAMETEVG 59
             +I +L  N+  ++  +  L + ++DV  RV   E  + R RL+ VQGWL+ V  +E +  
Sbjct:    28 YICELSKNVVAMKKDMEVLKKKRDDVKRRVDIEEFTRRRERLSQVQGWLTNVSTVENKFN 87

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

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

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

Query:   239 WERVDLTKVGIPFPDPENKSKIVFTTHFLEICGALKAHEFLKVECLGPEDAWRLFRENLR 298
             WE+V+L  +G+P+P  +N  K+VFTT   ++CG ++  + ++V CL P +AW LF+  + 
Sbjct:   268 WEKVNLEVLGVPYPSRQNGCKVVFTTRSRDVCGRMRVDDPMEVSCLEPNEAWELFQMKVG 327

Query:   299 RDVLDNHPDIPELARSVAQECAGLPLALITIGRAMACKKTPQEWHYAIQVLRRSASEFPG 358
              + L  HPDIPELAR VA +C GLPLAL  IG  MACK+  QEW  AI VL   A+EFPG
Sbjct:   328 ENTLKGHPDIPELARKVAGKCCGLPLALNVIGETMACKRMVQEWRNAIDVLSSYAAEFPG 387

Query:   359 MGKEVYPLLKFSYDSLPDDTIRSYLLYCGLFPEDYRIRKSELIDCWIGEGFLDQYD-RSG 417
             M +++ P+LK+SYD+L  + ++   LYC 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-SLKMSTDDFF 536
             V  G+GL E P+++NW +VRRMSLM+N+IE LS +P C  L +LFL  N SL   +D+FF
Sbjct:   500 VQVGVGLREVPKVKNWSSVRRMSLMENEIEILSGSPECLELTTLFLQKNDSLLHISDEFF 559

Query:   537 QSMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSSTAITHLPIELQKLVNLKCLNLEY 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 MNNLNQFPRLV-ISAFSKLQVLRM-FDCGGSKIERLKI 632
             M  L     +  IS+  KLQ+L+       S +E L++
Sbjct:   620 MKRLKSISGISNISSLRKLQLLQSKMSLDMSLVEELQL 657

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

GO:0043531 "ADP binding" evidence=IEA

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

 Score = 1172 (417.6 bits), Expect = 4.7e-119, P = 4.7e-119
 Identities = 259/635 (40%), Positives = 368/635 (57%)

Query:     1 HISQLEDNLTVLQAQLPKLIESKNDVMARVANAEQQQMRRLNTVQGWLSRVEAMETEVGE 60
             +I ++E NL  LQ  + +L E ++D++ RV   E + ++RL  VQGWLSRV+ + ++V +
Sbjct:    28 YILKMEANLEALQNTMQELEERRDDLLRRVVIEEDKGLQRLAQVQGWLSRVKDVCSQVND 87

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

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

Query:   181 VIWVVVSKDLQLEKIQEKIGRRIGFFDESWKNGSLEDKTSDXXXXXXXXXXXXXXXXXWE 240
             VIWVVVSKDLQ E IQE+I  R+G     WK  + ++K S                  W 
Sbjct:   208 VIWVVVSKDLQNEGIQEQILGRLGLH-RGWKQVTEKEKASYICNILNVKKFVLLLDDLWS 266

Query:   241 RVDLTKVGIPFPDPENKSKIVFTTHFLEICGALKAHEFLKVECLGPEDAWRLFRENLRRD 300
              VDL K+G+P    EN SKIVFTT   ++C  ++    +KV+CL P++AW LF++ +   
Sbjct:   267 EVDLEKIGVPPLTRENGSKIVFTTRSKDVCRDMEVDGEMKVDCLPPDEAWELFQKKVGPI 326

Query:   301 VLDNHPDIPELARSVAQECAGLPLALITIGRAMACKKTPQEWHYAIQVLRRSASEFPGMG 360
              L +H DIP LAR VA++C GLPLAL  IG+AMA ++T QEW + I VL  S+ EFP M 
Sbjct:   327 PLQSHEDIPTLARKVAEKCCGLPLALSVIGKAMASRETVQEWQHVIHVLNSSSHEFPSME 386

Query:   361 KEVYPLLKFSYDSLPDDTIRSYLLYCGLFPEDYRIRKSELIDCWIGEGFLD-QYDRSGAY 419
             +++ P+LKFSYD L D+ ++   LYC 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 AGLGLTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSM 539
              G+ L   P+  NW ++RRMSLM N+I N+S +   P+L +L L +N L   + DFF+ M
Sbjct:   499 PGVQLCHIPKDINWESLRRMSLMCNQIANISSSSNSPNLSTLLLQNNKLVHISCDFFRFM 558

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

Query:   600 LNQFPRLVISAFSKLQVLRMFD---C-GGSKIERL 630
             L     +  S    LQVL++F    C  GS +E L
Sbjct:   619 LESIVGIATS-LPNLQVLKLFSSRVCIDGSLMEEL 652

GO:0005634 "nucleus" evidence=ISM

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

GO:0043531 "ADP binding" evidence=IEA

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

 Score = 1169 (416.6 bits), Expect = 9.8e-119, P = 9.8e-119
 Identities = 262/663 (39%), Positives = 365/663 (55%)

Query:     1 HISQLEDNLTVLQAQLPKLIESKNDVMARVANAEQQQMRRLNTVQGWLSRVEAMETEVGE 60
             +I +L+DN+  L+  +  L  +++DV+ RV   E + + RL  VQ WL RVE +  +  +
Sbjct:    28 YIHKLKDNIVALEKAIEDLTATRDDVLRRVQMEEGKGLERLQQVQVWLKRVEIIRNQFYD 87

Query:    61 LMKDGSQEVDKLCPGGCCSKNCRSSFEFGKRVAKTLQLVNNLMGEGAFDAVAEKVPRPAV 120
             L+   + E+ +LC    CS N  SS+ +G+RV   ++ V NL   G F+ VA   P P +
Sbjct:    88 LLSARNIEIQRLCFYSNCSTNLSSSYTYGQRVFLMIKEVENLNSNGFFEIVA--APAPKL 145

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

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

Query:   240 ERVDLTKVGIPFPDPENKSKIVFTTHFLEICGALKAHEFLKVECLGPEDAWRLFRENLRR 299
             ++VDLTK+GIP    ENK K+VFTT  L++C  +  H+ ++V+CL   DAW LF+E + +
Sbjct:   266 KKVDLTKIGIPSQTRENKCKVVFTTRSLDVCARMGVHDPMEVQCLSTNDAWELFQEKVGQ 325

Query:   300 DVLDNHPDIPELARSVAQECAGLPLALITIGRAMACKKTPQEWHYAIQVLRRSASEFPGM 359
               L +HPDI ELA+ VA +C GLPLAL  IG  MA K+  QEWH+A+ VL   A+EF GM
Sbjct:   326 ISLGSHPDILELAKKVAGKCRGLPLALNVIGETMAGKRAVQEWHHAVDVLTSYAAEFSGM 385

Query:   360 GKEVYPLLKFSYDSLPDDTIRSYLLYCGLFPEDYRIRKSELIDCWIGEGFLD-QYDRSGA 418
                +  +LK+SYD+L D  +RS   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-SLKMSTDDFFQ 537
              AG GL + P++++W  VRR+SLM N IE +S +P CP L +LFL +N SL   + +FF+
Sbjct:   499 QAGSGLRKVPKVEDWGAVRRLSLMNNGIEEISGSPECPELTTLFLQENKSLVHISGEFFR 558

Query:   538 SMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSSTAITHLPIELQKLVNLKCLNLEYM 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 NNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKINVLFGGHQFLVEELMGMKHLMVLTI 657
               L       I+  SKL  LR     G +   + ++V+      L+E L  +   +V T+
Sbjct:   619 RRLGS-----IAGISKLSSLRTL---GLRNSNIMLDVMSVKELHLLEHLEILTIDIVSTM 670

Query:   658 TLK 660
              L+
Sbjct:   671 VLE 673

GO:0000166 "nucleotide binding" evidence=IEA

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

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

GO:0043531 "ADP binding" evidence=IEA

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

 Score = 1165 (415.2 bits), Expect = 2.6e-118, P = 2.6e-118
 Identities = 270/697 (38%), Positives = 377/697 (54%)

Query:     1 HISQLEDNLTVLQAQLPKLIESKNDVMARVANAEQQQMRRLNTVQGWLSRVEAMETEVGE 60
             +I  LE NL  LQ ++  L   +++V  +VA  E +  RRL  VQ WL RV +++ E  +
Sbjct:    26 YIRTLEKNLRALQREMEDLRAIQHEVQNKVARDEARHQRRLEAVQVWLDRVNSVDIECKD 85

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

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

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

Query:   241 RVDLTKVGIPFPDPENKSKIVFTTHFLEICGALKAHEFLKVECLGPEDAWRLFRENLRRD 300
             +VDL  +GIP+P   NK K+ FTT   E+CG +  H+ ++V CL PEDAW LF+  +  +
Sbjct:   266 KVDLEAIGIPYPSEVNKCKVAFTTRSREVCGEMGDHKPMQVNCLEPEDAWELFKNKVGDN 325

Query:   301 VLDNHPDIPELARSVAQECAGLPLALITIGRAMACKKTPQEWHYAIQVLRRSASEFPGMG 360
              L + P I ELAR VAQ+C GLPLAL  IG  M+ K   QEW +AI V   SA+EF  M 
Sbjct:   326 TLSSDPVIVELAREVAQKCRGLPLALNVIGETMSSKTMVQEWEHAIHVFNTSAAEFSDMQ 385

Query:   361 KEVYPLLKFSYDSLPDDTIRSYLLYCGLFPEDYRIRKSELIDCWIGEGFL--DQYDRSGA 418
              ++ P+LK+SYDSL D+ I+S  LYC 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 HAGLGLTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQS 538
              AG+GL E P++++W  VR+MSLM N IE ++    C  L +LFL  N LK     F + 
Sbjct:   496 QAGVGLHEIPKVKDWGAVRKMSLMDNDIEEITCESKCSELTTLFLQSNKLKNLPGAFIRY 555

Query:   539 MPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSSTAITHLPIELQKLVNLKCLNLEYMN 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 NLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKINVLFGGHQFL-VEELMGMKHLMVLTI 657
              L       IS  S+L  LR+    GSK+     +VL    Q   ++EL       ++++
Sbjct:   616 RLCS-----ISGISRLLSLRLLRLLGSKVHG-DASVLKELQQLQNLQELAITVSAELISL 669

Query:   658 TLKSWQALKELLISQELQRSTQSLFLRCFNDSKSLDI 694
               +  + +  L I   LQ+     FL    +  SL +
Sbjct:   670 DQRLAKLISNLCIEGFLQKPFDLSFLASMENLSSLRV 706

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

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

GO:0043531 "ADP binding" evidence=IEA

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

 Score = 1140 (406.4 bits), Expect = 9.7e-118, Sum P(2) = 9.7e-118
 Identities = 255/629 (40%), Positives = 353/629 (56%)

Query:     1 HISQLEDNLTVLQAQLPKLIESKNDVMARVANAEQQQMRRLNTVQGWLSRVEAMETEVGE 60
             +I  LE NL  LQ ++  L  ++++V  +VA  E +  +RL  VQ WL RV +++ E  +
Sbjct:    27 YIRNLEKNLRALQREMEDLRATQHEVQNKVAREESRHQQRLEAVQVWLDRVNSIDIECKD 86

Query:    61 LMKDGSQEVDKLCPGGCCSKNCRSSFEFGKRVAKTLQLVNNLMGEGAFDAVAEKVPRPAV 120
             L+     E+ KLC  G CSK   SS+++GKRV   L+ V  L  EG FD V++  PR  V
Sbjct:    87 LLSVSPVELQKLCLCGLCSKYVCSSYKYGKRVFLLLEEVTKLKSEGNFDEVSQPPPRSEV 146

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

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

Query:   241 RVDLTKVGIPFPDPENKSKIVFTTHFLEICGALKAHEFLKVECLGPEDAWRLFRENLRRD 300
             +VDL  +GIP+P   NK K+ FTT   ++CG +  H+ ++V+CL PEDAW LF+  +  +
Sbjct:   267 KVDLEAIGIPYPSEVNKCKVAFTTRDQKVCGQMGDHKPMQVKCLEPEDAWELFKNKVGDN 326

Query:   301 VLDNHPDIPELARSVAQECAGLPLALITIGRAMACKKTPQEWHYAIQVLRRSASEFPGMG 360
              L + P I  LAR VAQ+C GLPLAL  IG  MA K   QEW +AI VL RSA+EF  M 
Sbjct:   327 TLRSDPVIVGLAREVAQKCRGLPLALSCIGETMASKTMVQEWEHAIDVLTRSAAEFSDMQ 386

Query:   361 KEVYPLLKFSYDSLPDDTIRSYLLYCGLFPEDYRIRKSELIDCWIGEGFL--DQYDRSGA 418
              ++ P+LK+SYDSL D+ I+S  LYC 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 HAGLGLTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQS 538
              A +GL E P++++W  VRRMSLM N+IE ++    C  L +LFL  N LK  + +F + 
Sbjct:   500 RARVGLHEIPKVKDWGAVRRMSLMMNEIEEITCESKCSELTTLFLQSNQLKNLSGEFIRY 559

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

Query:   599 NLNQFPRLVISAFSKLQVLRMFDCGGSKI 627
              L       IS  S+L  LR      S +
Sbjct:   620 RLCS-----ISGISRLLSLRWLSLRESNV 643

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 = 1142 (407.1 bits), Expect = 7.1e-116, P = 7.1e-116
 Identities = 245/624 (39%), Positives = 356/624 (57%)

Query:     1 HISQLEDNLTVLQAQLPKLIESKNDVMARVANAEQQQMRRLNTVQGWLSRVEAMETEVGE 60
             +I  +++NLT L+  +  L   ++D++ +V  AE+  ++RL+ ++ WL RV+ +E++  +
Sbjct:    28 YIQNIKENLTSLEEAMEDLKALRDDLLRKVQTAEEGGLQRLHQIKVWLKRVKTIESQFND 87

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

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

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

Query:   240 ERVDLTKVGIPFPDPENKSKIVFTTHFLEICGALKAHEFLKVECLGPEDAWRLFRENLRR 299
             +RV+LT++GIP P  EN  KI FTT    +C ++  H+ ++V CLG +DAW LF++ +  
Sbjct:   268 KRVELTEIGIPNPTSENGCKIAFTTRCQSVCASMGVHDPMEVRCLGADDAWDLFKKKVGD 327

Query:   300 DVLDNHPDIPELARSVAQECAGLPLALITIGRAMACKKTPQEWHYAIQVLRRSASEFPGM 359
               L +HPDIPE+AR VAQ C GLPLAL  IG  MACKKT QEW  A+ V    A+ F  +
Sbjct:   328 ITLSSHPDIPEIARKVAQACCGLPLALNVIGETMACKKTTQEWDRAVDVSTTYAANFGAV 387

Query:   360 GKEVYPLLKFSYDSLPDDTIRSYLLYCGLFPEDYRIRKSELIDCWIGEGFLD-QYDRSGA 418
              + + P+LK+SYD+L  +++++  LYC 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-LKMSTDDFFQ 537
              AG  L E P++++W+ V RMSL+ N+I+ +  +P CP L +LFL DN  L   + +FF+
Sbjct:   503 RAGFRLNEIPKVKDWKVVSRMSLVNNRIKEIHGSPECPKLTTLFLQDNRHLVNISGEFFR 562

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

Query:   598 NNLNQFPRLVISAFSKLQVLRMFD 621
               L       I   S L+ +R+ +
Sbjct:   623 LCLESVSG--IDHLSNLKTVRLLN 644

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

 Score = 1095 (390.5 bits), Expect = 1.1e-112, Sum P(2) = 1.1e-112
 Identities = 240/624 (38%), Positives = 346/624 (55%)

Query:     1 HISQLEDNLTVLQAQLPKLIESKNDVMARVANAE-QQQMRRLNTVQGWLSRVEAMETEVG 59
             +I  L  NL  LQ  +  L   + DV+ R+   E   + +RL+ VQ WL+ V  ++ +  
Sbjct:    28 YIHNLSKNLASLQKAMRMLKARQYDVIRRLETEEFTGRQQRLSQVQVWLTSVLIIQNQFN 87

Query:    60 ELMKDGSQEVDKLCPGGCCSKNCRSSFEFGKRVAKTLQLVNNLMGEGAFDAVAEKVPRPA 119
             +L++    E+ +LC  G CSK+ + S+ +GKRV   L+ V +L  +G FD V+E  P   
Sbjct:    88 DLLRSNEVELQRLCLCGFCSKDLKLSYRYGKRVIMMLKEVESLSSQGFFDVVSEATPFAD 147

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

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

Query:   239 WERVDLTKVGIPFPDPENKSKIVFTTHFLEICGALKAHEFLKVECLGPEDAWRLFRENLR 298
             WE+V+L  VG+P+P  +N  K+ FTT   ++CG +   + ++V CL PE++W LF+  + 
Sbjct:   268 WEKVNLKAVGVPYPSKDNGCKVAFTTRSRDVCGRMGVDDPMEVSCLQPEESWDLFQMKVG 327

Query:   299 RDVLDNHPDIPELARSVAQECAGLPLALITIGRAMACKKTPQEWHYAIQVLRRSASEFPG 358
             ++ L +HPDIP LAR VA++C GLPLAL  IG AMACK+T  EW +AI VL  SA +F G
Sbjct:   328 KNTLGSHPDIPGLARKVARKCRGLPLALNVIGEAMACKRTVHEWCHAIDVLTSSAIDFSG 387

Query:   359 MGKEVYPLLKFSYDSLPDDTIRSYLLYCGLFPEDYRIRKSELIDCWIGEGFLDQYD-RSG 417
             M  E+  +LK+SYD+L  + ++S  LYC 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 VHAGLGLTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQ 537
             V AG+GL E P++++W  VR++SLM N+IE + ++  C  L +LFL  N +   + +FF+
Sbjct:   501 VRAGVGLREVPKVKDWNTVRKISLMNNEIEEIFDSHECAALTTLFLQKNDVVKISAEFFR 560

Query:   538 SMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSSTAITHLPIELQKLVNLKCLNLEYM 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 NNLNQFPRLVISAFSKLQVLRMFD 621
             ++L     L IS    L+ L + D
Sbjct:   621 SSLGSI--LGISNLWNLRTLGLRD 642

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

 Score = 1103 (393.3 bits), Expect = 9.7e-112, P = 9.7e-112
 Identities = 262/699 (37%), Positives = 387/699 (55%)

Query:     1 HISQLEDNLTVLQAQLPKLIESKNDVMARVANAEQQQMRRLNTVQGWLSRVEAMETEVGE 60
             +I  +E NL  LQ  + +L   ++D++ARV+  E + ++RL  V GWLSRV+ +E+E  +
Sbjct:    27 YIHLMESNLDALQKTMEELKNGRDDLLARVSIEEDKGLQRLALVNGWLSRVQIVESEFKD 86

Query:    61 LMKDGSQEVDKLCPGGCCSKNCRSSFEFGKRVAKTLQLVNNLMGEGAFDAVAEKVPRPAV 120
             L++  S E  +LC  G CS++C SS+ +G +V K L+ V  L+ +  F+ VA+K+  P  
Sbjct:    87 LLEAMSIETGRLCLFGYCSEDCISSYNYGGKVMKNLEEVKELLSKKNFEVVAQKII-PKA 145

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

Query:   181 VIWVVVSKDLQLEKIQEKIGRRIGFFDESWKNGSLEDKTSDXXXXXXXXXXXXXXXXXWE 240
             VIWVVVSKD QLE IQ++I  R+   D+ W+  +   K S                  W 
Sbjct:   206 VIWVVVSKDFQLEGIQDQILGRLRP-DKEWERETESKKASLINNNLKRKKFVLLLDDLWS 264

Query:   241 RVDLTKVGIPFPDPENKSKIVFTTHFLEICGALKAHEFLKVECLGPEDAWRLFRENLRRD 300
              VDL K+G+P P  EN SKIVFTT   E+C  +KA + +KV+CL P++AW LFR  +   
Sbjct:   265 EVDLIKIGVPPPSRENGSKIVFTTRSKEVCKHMKADKQIKVDCLSPDEAWELFRLTVGDI 324

Query:   301 VLDNHPDIPELARSVAQECAGLPLALITIGRAMACKKTPQEWHYAIQVLRRSASEFPGMG 360
             +L +H DIP LAR VA +C GLPLAL  IG+AM CK+T QEW +AI VL     +FPGM 
Sbjct:   325 ILRSHQDIPALARIVAAKCHGLPLALNVIGKAMVCKETVQEWRHAINVLNSPGHKFPGME 384

Query:   361 KEVYPLLKFSYDSLPDDTIRSYLLYCGLFPEDYRIRKSELIDCWIGEGFLD--QYDRSGA 418
             + + P+LKFSYDSL +  I+   LYC 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 HAGLGLTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQS 538
              +G  +   P   +W  VR+MSL+  ++E ++ +P CP+L +L L  N L   +  FF  
Sbjct:   496 KSGAHVRLIPNDISWEIVRQMSLISTQVEKIACSPNCPNLSTLLLPYNKLVDISVGFFLF 555

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

Query:   599 NLNQFPRLVISAFSKLQVLRMF-------DCGGSKIERLK-INVLFGGHQ--FLVEELMG 648
              L     +  +    LQVL++F       D    +++RLK + +L    +   ++E + G
Sbjct:   616 VLESLVGIA-TTLPNLQVLKLFYSLFCVDDIIMEELQRLKHLKILTATIEDAMILERVQG 674

Query:   649 MKHLM--VLTITLKSWQALKELLISQELQRSTQSLFLRC 685
             +  L   +  + L++  A + +L S  L    Q   + C
Sbjct:   675 VDRLASSIRGLCLRNMSAPRVILNSVALGGLQQLGIVSC 713

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

GO:0043531 "ADP binding" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	720
pfam00931	285	pfam00931, NB-ARC, NB-ARC domain	1e-86
pfam13855	60	pfam13855, LRR_8, Leucine rich repeat	1e-06
pfam13855	60	pfam13855, LRR_8, Leucine rich repeat	7e-06
pfam13855	60	pfam13855, LRR_8, Leucine rich repeat	4e-05
PLN00113	968	PLN00113, PLN00113, leucine-rich repeat receptor-l	4e-05
PLN00113	968	PLN00113, PLN00113, leucine-rich repeat receptor-l	4e-05
pfam13855	60	pfam13855, LRR_8, Leucine rich repeat	2e-04
PLN00113	968	PLN00113, PLN00113, leucine-rich repeat receptor-l	2e-04
PLN03210	1153	PLN03210, PLN03210, Resistant to P	6e-04
PLN00113	968	PLN00113, PLN00113, leucine-rich repeat receptor-l	0.001
PLN00113	968	PLN00113, PLN00113, leucine-rich repeat receptor-l	0.002
PLN00113	968	PLN00113, PLN00113, leucine-rich repeat receptor-l	0.002
pfam12799	43	pfam12799, LRR_4, Leucine Rich repeats (2 copies)	0.002
pfam13191	154	pfam13191, AAA_16, AAA ATPase domain	0.003
COG4886	394	COG4886, COG4886, Leucine-rich repeat (LRR) protei	0.004

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

 Score =  273 bits (701), Expect = 1e-86
 Identities = 108/282 (38%), Positives = 161/282 (57%), Gaps = 6/282 (2%)

Query: 132 ESTFDKVWRCL--GEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKD 189
           E   + +   L    + +G++G+ GMGGVGKTTL  +I N      + FD V WVVVSK 
Sbjct: 2   EDMIEALIEKLLEMSDNLGVVGIVGMGGVGKTTLAKQIYNDDSVGGH-FDSVAWVVVSKT 60

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

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

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

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

Length = 285

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

 Score = 46.0 bits (110), Expect = 1e-06
 Identities = 24/60 (40%), Positives = 35/60 (58%)

Query: 517 HLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSSTAI 576
           +L SL LS+N L +  D  F+ +P+L+V ++S N+L    P   S L SL  LDLS   +
Sbjct: 1   NLKSLDLSNNRLTVIPDGAFKGLPNLKVLDLSGNNLTSISPEAFSGLPSLRSLDLSGNNL 60

Length = 60

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

 Score = 43.7 bits (104), Expect = 7e-06
 Identities = 18/60 (30%), Positives = 33/60 (55%), Gaps = 2/60 (3%)

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

Length = 60

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

 Score = 41.4 bits (98), Expect = 4e-05
 Identities = 20/61 (32%), Positives = 31/61 (50%), Gaps = 2/61 (3%)

Query: 541 SLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSSTAITHLPIE-LQKLVNLKCLNLEYMNN 599
           +L+  ++SNN L          L +L+ LDLS   +T +  E    L +L+ L+L   NN
Sbjct: 1   NLKSLDLSNNRLTVIPDGAFKGLPNLKVLDLSGNNLTSISPEAFSGLPSLRSLDLSG-NN 59

Query: 600 L 600
           L
Sbjct: 60  L 60

Length = 60

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

 Score = 46.8 bits (111), Expect = 4e-05
 Identities = 28/81 (34%), Positives = 48/81 (59%), Gaps = 4/81 (4%)

Query: 516 PHLLSLFLSDNSLKMST-DDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSST 574
           P++ ++ LS+N L     DD F +  SLR  N+SNN+    +P G  ++ +LE LDLS+ 
Sbjct: 93  PYIQTINLSNNQLSGPIPDDIFTTSSSLRYLNLSNNNFTGSIPRG--SIPNLETLDLSNN 150

Query: 575 AIT-HLPIELQKLVNLKCLNL 594
            ++  +P ++    +LK L+L
Sbjct: 151 MLSGEIPNDIGSFSSLKVLDL 171

Length = 968

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

 Score = 46.8 bits (111), Expect = 4e-05
 Identities = 32/87 (36%), Positives = 52/87 (59%), Gaps = 2/87 (2%)

Query: 516 PHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSSTA 575
           P+L +L LS+N L     +   S  SL+V ++  N L+ K+P+ ++ L SLE L L+S  
Sbjct: 140 PNLETLDLSNNMLSGEIPNDIGSFSSLKVLDLGGNVLVGKIPNSLTNLTSLEFLTLASNQ 199

Query: 576 IT-HLPIELQKLVNLKCLNLEYMNNLN 601
           +   +P EL ++ +LK + L Y NNL+
Sbjct: 200 LVGQIPRELGQMKSLKWIYLGY-NNLS 225

Length = 968

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

 Score = 39.4 bits (93), Expect = 2e-04
 Identities = 24/64 (37%), Positives = 33/64 (51%), Gaps = 5/64 (7%)

Query: 565 SLEHLDLSSTAITHLPIE-LQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFDCG 623
           +L+ LDLS+  +T +P    + L NLK L+L   NNL         AFS L  LR  D  
Sbjct: 1   NLKSLDLSNNRLTVIPDGAFKGLPNLKVLDLSG-NNLTSISP---EAFSGLPSLRSLDLS 56

Query: 624 GSKI 627
           G+ +
Sbjct: 57  GNNL 60

Length = 60

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

 Score = 44.8 bits (106), Expect = 2e-04
 Identities = 38/131 (29%), Positives = 63/131 (48%), Gaps = 12/131 (9%)

Query: 477 LVHAGLGLTEAPEIQNWRNVRRMSLMKNKIENLSETPTCP------HLLSLFLSDNSLKM 530
           LV+  L       + N +N++ + L +NK+      P  P       L+SL LSDNSL  
Sbjct: 243 LVYNNLTGPIPSSLGNLKNLQYLFLYQNKLSG----PIPPSIFSLQKLISLDLSDNSLSG 298

Query: 531 STDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSSTAIT-HLPIELQKLVNL 589
              +    + +L + ++ +N+   K+P  +++L  L+ L L S   +  +P  L K  NL
Sbjct: 299 EIPELVIQLQNLEILHLFSNNFTGKIPVALTSLPRLQVLQLWSNKFSGEIPKNLGKHNNL 358

Query: 590 KCLNLEYMNNL 600
             L+L   NNL
Sbjct: 359 TVLDLS-TNNL 368

Length = 968

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

 Score = 42.9 bits (101), Expect = 6e-04
 Identities = 41/129 (31%), Positives = 54/129 (41%), Gaps = 23/129 (17%)

Query: 516 PHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSS-- 573
           P L  LFLSD    +      Q++  L    + N   L  LP+GI+ L SLE LDLS   
Sbjct: 778 PSLTRLFLSDIPSLVELPSSIQNLHKLEHLEIENCINLETLPTGIN-LESLESLDLSGCS 836

Query: 574 -------------------TAITHLPIELQKLVNLKCLNLEYMNNLNQFPRLVISAFSKL 614
                              T I  +P  ++K  NL  L++   NNL Q   L IS    L
Sbjct: 837 RLRTFPDISTNISDLNLSRTGIEEVPWWIEKFSNLSFLDMNGCNNL-QRVSLNISKLKHL 895

Query: 615 QVLRMFDCG 623
           + +   DCG
Sbjct: 896 ETVDFSDCG 904

syringae 6; Provisional. Length = 1153

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

 Score = 42.1 bits (99), Expect = 0.001
 Identities = 30/93 (32%), Positives = 46/93 (49%), Gaps = 3/93 (3%)

Query: 514 TCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSS 573
           T   L  L LS+N+   S      S+P+L   ++SNN L  ++P+ I +  SL+ LDL  
Sbjct: 116 TSSSLRYLNLSNNNFTGSIPR--GSIPNLETLDLSNNMLSGEIPNDIGSFSSLKVLDLGG 173

Query: 574 TAIT-HLPIELQKLVNLKCLNLEYMNNLNQFPR 605
             +   +P  L  L +L+ L L     + Q PR
Sbjct: 174 NVLVGKIPNSLTNLTSLEFLTLASNQLVGQIPR 206

Length = 968

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

 Score = 41.8 bits (98), Expect = 0.002
 Identities = 39/124 (31%), Positives = 59/124 (47%), Gaps = 18/124 (14%)

Query: 517 HLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLV-SLEHLDLSSTA 575
            ++S+ LS  ++          +P ++  N+SNN L   +P  I T   SL +L+LS+  
Sbjct: 70  RVVSIDLSGKNISGKISSAIFRLPYIQTINLSNNQLSGPIPDDIFTTSSSLRYLNLSNNN 129

Query: 576 ITHLPIELQKLVNLKCLNLEYMNNL--NQFPRLVISAFSKLQVLRMFDCGGSKIERLKIN 633
            T   I    + NL+ L+L   NN+   + P   I +FS L+VL   D GG        N
Sbjct: 130 FTG-SIPRGSIPNLETLDLS--NNMLSGEIP-NDIGSFSSLKVL---DLGG--------N 174

Query: 634 VLFG 637
           VL G
Sbjct: 175 VLVG 178

Length = 968

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

 Score = 41.0 bits (96), Expect = 0.002
 Identities = 24/76 (31%), Positives = 38/76 (50%), Gaps = 2/76 (2%)

Query: 499 MSLMKNKI--ENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKL 556
           + L +NK+  E   E  +C  L+SL LS N L       F  MP L   ++S N L  ++
Sbjct: 504 LKLSENKLSGEIPDELSSCKKLVSLDLSHNQLSGQIPASFSEMPVLSQLDLSQNQLSGEI 563

Query: 557 PSGISTLVSLEHLDLS 572
           P  +  + SL  +++S
Sbjct: 564 PKNLGNVESLVQVNIS 579

Length = 968

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

 Score = 36.3 bits (85), Expect = 0.002
 Identities = 18/42 (42%), Positives = 23/42 (54%), Gaps = 2/42 (4%)

Query: 565 SLEHLDLSSTAITHLPIELQKLVNLKCLNLEYMNNLNQFPRL 606
           +LE LDLS+  IT LP  L  L NL+ L+L   N +     L
Sbjct: 2   NLETLDLSNNQITDLP-PLSNLPNLETLDLSG-NKITDLSPL 41

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

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

 Score = 38.7 bits (90), Expect = 0.003
 Identities = 24/126 (19%), Positives = 48/126 (38%), Gaps = 16/126 (12%)

Query: 129 VGLESTFDKVWRCLGEEQVG---IIGLYGMGGVGKTTLLTKINNKLLGAPNVFD-VVIWV 184
           VG E   +++   L   + G    + L G  G GKT+LL ++   LL A    D      
Sbjct: 3   VGREEELERLLDALRRARSGGPPSVLLTGPSGTGKTSLLRELLEGLLVAAGKCDQAERNP 62

Query: 185 VVSKDLQLEKIQEKIGRRIGFFDESWKNGSLEDKTSDIL------------RILGKKKFL 232
             +    L ++  ++ R +       +   L    ++++             +   +  +
Sbjct: 63  PYAFSQALRELLRQLLRELAAELLLLREALLAALGAELIEGLQDLVELLERLLARARPLV 122

Query: 233 LLLDDI 238
           L+LDD+
Sbjct: 123 LVLDDL 128

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

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

 Score = 40.0 bits (93), Expect = 0.004
 Identities = 49/233 (21%), Positives = 81/233 (34%), Gaps = 39/233 (16%)

Query: 489 EIQNWRNVRRMSLMKNKIENLS--ETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFN 546
           E+    N+  + L  N I ++         +L  L LSDN ++                 
Sbjct: 111 ELLELTNLTSLDLDNNNITDIPPLIGLLKSNLKELDLSDNKIE----------------- 153

Query: 547 MSNNHLLWKLPSGISTLVSLEHLDLSSTAITHLPIELQKLVNLKCLNLEYMNNLNQFPRL 606
                    LPS +  L +L++LDLS   ++ LP  L  L NL  L+L   N ++  P  
Sbjct: 154 --------SLPSPLRNLPNLKNLDLSFNDLSDLPKLLSNLSNLNNLDLSG-NKISDLPPE 204

Query: 607 VISAFSKLQVLRMFDCGGSKIERLKINVLFGGHQFLVEELMGMKHLMVLTITLKSWQALK 666
           +      L  L   D   + I  L ++ L         EL   K   +   ++ +   L+
Sbjct: 205 I----ELLSALEELDLSNNSIIEL-LSSLSNLKNLSGLELSNNKLEDLPE-SIGNLSNLE 258

Query: 667 ELLISQELQRSTQSLFLRCFNDSKSLDIFCLAGLRNLNKLYVAGCKHLEDSQM 719
            L +S     S     +       +L    L+G    N L +     L    +
Sbjct: 259 TLDLSNNQISS-----ISSLGSLTNLRELDLSGNSLSNALPLIALLLLLLELL 306

Length = 394

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	720
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;	99.61
KOG0472	565	consensus Leucine-rich repeat protein [Function un	99.59
PLN00113	968	leucine-rich repeat receptor-like protein kinase;	99.58
KOG4194	873	consensus Membrane glycoprotein LIG-1 [Signal tran	99.58
KOG0444	1255	consensus Cytoskeletal regulator Flightless-I (con	99.56
KOG0444	1255	consensus Cytoskeletal regulator Flightless-I (con	99.54
KOG4194	873	consensus Membrane glycoprotein LIG-1 [Signal tran	99.54
PLN03210	1153	Resistant to P. syringae 6; Provisional	99.52
KOG0617	264	consensus Ras suppressor protein (contains leucine	99.51
PRK04841	903	transcriptional regulator MalT; Provisional	99.46
KOG0617	264	consensus Ras suppressor protein (contains leucine	99.42
PRK00411	394	cdc6 cell division control protein 6; Reviewed	99.42
PRK15387	788	E3 ubiquitin-protein ligase SspH2; Provisional	99.38
TIGR02928	365	orc1/cdc6 family replication initiation protein. M	99.32
KOG0472	565	consensus Leucine-rich repeat protein [Function un	99.32
PF01637	234	Arch_ATPase: Archaeal ATPase; InterPro: IPR011579	99.3
PRK15370	754	E3 ubiquitin-protein ligase SlrP; Provisional	99.29
TIGR03015	269	pepcterm_ATPase putative secretion ATPase, PEP-CTE	99.28
KOG0618	1081	consensus Serine/threonine phosphatase 2C containi	99.19
PRK00080	328	ruvB Holliday junction DNA helicase RuvB; Reviewed	99.17
COG2909	894	MalT ATP-dependent transcriptional regulator [Tran	99.17
KOG0618	1081	consensus Serine/threonine phosphatase 2C containi	99.14
TIGR00635	305	ruvB Holliday junction DNA helicase, RuvB subunit.	99.12
KOG4237	498	consensus Extracellular matrix protein slit, conta	99.12
PRK15370	754	E3 ubiquitin-protein ligase SlrP; Provisional	99.12
COG3899	849	Predicted ATPase [General function prediction only	99.11
cd00116	319	LRR_RI Leucine-rich repeats (LRRs), ribonuclease i	99.06
PF05729	166	NACHT: NACHT domain	99.05
PF14580	175	LRR_9: Leucine-rich repeat; PDB: 2JE1_D 2JE0_A 2JQ	99.01
KOG4658	889	consensus Apoptotic ATPase [Signal transduction me	99.01
COG2256	436	MGS1 ATPase related to the helicase subunit of the	98.98
PRK15387	788	E3 ubiquitin-protein ligase SspH2; Provisional	98.98
KOG4237	498	consensus Extracellular matrix protein slit, conta	98.97
PF14580	175	LRR_9: Leucine-rich repeat; PDB: 2JE1_D 2JE0_A 2JQ	98.96
PRK06893	229	DNA replication initiation factor; Validated	98.94
KOG0532	722	consensus Leucine-rich repeat (LRR) protein, conta	98.93
cd00116	319	LRR_RI Leucine-rich repeats (LRRs), ribonuclease i	98.91
PRK13342	413	recombination factor protein RarA; Reviewed	98.89
PTZ00112	1164	origin recognition complex 1 protein; Provisional	98.87
PRK04195	482	replication factor C large subunit; Provisional	98.82
TIGR03420	226	DnaA_homol_Hda DnaA regulatory inactivator Hda. Me	98.8
KOG2028	554	consensus ATPase related to the helicase subunit o	98.76
PRK07003	830	DNA polymerase III subunits gamma and tau; Validat	98.75
PRK12323	700	DNA polymerase III subunits gamma and tau; Provisi	98.69
PRK14960	702	DNA polymerase III subunits gamma and tau; Provisi	98.66
COG4886	394	Leucine-rich repeat (LRR) protein [Function unknow	98.65
KOG3207	505	consensus Beta-tubulin folding cofactor E [Posttra	98.65
PRK12402	337	replication factor C small subunit 2; Reviewed	98.65
KOG1259	490	consensus Nischarin, modulator of integrin alpha5	98.64
PF05496	233	RuvB_N: Holliday junction DNA helicase ruvB N-term	98.64
PRK14949	944	DNA polymerase III subunits gamma and tau; Provisi	98.64
COG1474	366	CDC6 Cdc6-related protein, AAA superfamily ATPase	98.63
KOG0532	722	consensus Leucine-rich repeat (LRR) protein, conta	98.63
cd00009	151	AAA The AAA+ (ATPases Associated with a wide varie	98.62
PLN03025	319	replication factor C subunit; Provisional	98.61
PRK00440	319	rfc replication factor C small subunit; Reviewed	98.61
PF13173	128	AAA_14: AAA domain	98.6
PF13855	61	LRR_8: Leucine rich repeat; PDB: 2O6S_A 3A79_B 3RF	98.6
PRK05564	313	DNA polymerase III subunit delta'; Validated	98.6
PRK14962	472	DNA polymerase III subunits gamma and tau; Provisi	98.6
KOG1259	490	consensus Nischarin, modulator of integrin alpha5	98.58
TIGR02903	615	spore_lon_C ATP-dependent protease, Lon family. Me	98.58
PRK14961	363	DNA polymerase III subunits gamma and tau; Provisi	98.57
PRK08727	233	hypothetical protein; Validated	98.57
PRK14963	504	DNA polymerase III subunits gamma and tau; Provisi	98.56
PRK14957	546	DNA polymerase III subunits gamma and tau; Provisi	98.53
PRK14956	484	DNA polymerase III subunits gamma and tau; Provisi	98.52
PF13401	131	AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S	98.52
PRK08084	235	DNA replication initiation factor; Provisional	98.5
PRK14958	509	DNA polymerase III subunits gamma and tau; Provisi	98.49
cd01128	249	rho_factor Transcription termination factor rho is	98.49
PF13191	185	AAA_16: AAA ATPase domain; PDB: 2V1U_A.	98.48
PRK06645	507	DNA polymerase III subunits gamma and tau; Validat	98.48
PLN03150	623	hypothetical protein; Provisional	98.48
COG4886	394	Leucine-rich repeat (LRR) protein [Function unknow	98.47
PRK13341	725	recombination factor protein RarA/unknown domain f	98.47
PRK07471	365	DNA polymerase III subunit delta'; Validated	98.45
PRK14964	491	DNA polymerase III subunits gamma and tau; Provisi	98.44
TIGR02397	355	dnaX_nterm DNA polymerase III, subunit gamma and t	98.43
PTZ00202	550	tuzin; Provisional	98.43
PLN03150	623	hypothetical protein; Provisional	98.42
PRK09087	226	hypothetical protein; Validated	98.41
PRK14959	624	DNA polymerase III subunits gamma and tau; Provisi	98.4
PRK07994	647	DNA polymerase III subunits gamma and tau; Validat	98.39
PRK08903	227	DnaA regulatory inactivator Hda; Validated	98.39
PRK08691	709	DNA polymerase III subunits gamma and tau; Validat	98.39
PRK05896	605	DNA polymerase III subunits gamma and tau; Validat	98.38
PRK09112	351	DNA polymerase III subunit delta'; Validated	98.38
COG2255	332	RuvB Holliday junction resolvasome, helicase subun	98.38
PRK14951	618	DNA polymerase III subunits gamma and tau; Provisi	98.37
PRK14955	397	DNA polymerase III subunits gamma and tau; Provisi	98.36
TIGR01242	364	26Sp45 26S proteasome subunit P45 family. Many pro	98.36
KOG1859	1096	consensus Leucine-rich repeat proteins [General fu	98.36
PRK07940	394	DNA polymerase III subunit delta'; Validated	98.34
PF13855	61	LRR_8: Leucine rich repeat; PDB: 2O6S_A 3A79_B 3RF	98.34
PRK09376	416	rho transcription termination factor Rho; Provisio	98.33
PRK14970	367	DNA polymerase III subunits gamma and tau; Provisi	98.32
PRK05642	234	DNA replication initiation factor; Validated	98.3
TIGR00678	188	holB DNA polymerase III, delta' subunit. At positi	98.29
PRK14952	584	DNA polymerase III subunits gamma and tau; Provisi	98.28
PRK14969	527	DNA polymerase III subunits gamma and tau; Provisi	98.27
KOG2120	419	consensus SCF ubiquitin ligase, Skp2 component [Po	98.26
PRK09111	598	DNA polymerase III subunits gamma and tau; Validat	98.25
PRK07764	824	DNA polymerase III subunits gamma and tau; Validat	98.24
PRK14954	620	DNA polymerase III subunits gamma and tau; Provisi	98.21
KOG0989	346	consensus Replication factor C, subunit RFC4 [Repl	98.21
KOG3207	505	consensus Beta-tubulin folding cofactor E [Posttra	98.21
KOG0531	414	consensus Protein phosphatase 1, regulatory subuni	98.21
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	98.18
PHA02544	316	44 clamp loader, small subunit; Provisional	98.17
TIGR02881	261	spore_V_K stage V sporulation protein K. Members o	98.17
PRK14971	614	DNA polymerase III subunits gamma and tau; Provisi	98.16
PRK08451	535	DNA polymerase III subunits gamma and tau; Validat	98.15
TIGR00767	415	rho transcription termination factor Rho. Members	98.15
TIGR02880	284	cbbX_cfxQ probable Rubsico expression protein CbbX	98.14
PRK06305	451	DNA polymerase III subunits gamma and tau; Validat	98.14
PRK14950	585	DNA polymerase III subunits gamma and tau; Provisi	98.13
PF05621	302	TniB: Bacterial TniB protein; InterPro: IPR008868	98.13
PF00308	219	Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013	98.12
PRK11331	459	5-methylcytosine-specific restriction enzyme subun	98.11
COG3903	414	Predicted ATPase [General function prediction only	98.11
PRK07133	725	DNA polymerase III subunits gamma and tau; Validat	98.1
PRK03992	389	proteasome-activating nucleotidase; Provisional	98.09
CHL00181	287	cbbX CbbX; Provisional	98.08
PRK14953	486	DNA polymerase III subunits gamma and tau; Provisi	98.08
KOG2227	529	consensus Pre-initiation complex, subunit CDC6, AA	98.08
PF14516	331	AAA_35: AAA-like domain	98.08
PRK06647	563	DNA polymerase III subunits gamma and tau; Validat	98.07
KOG0531	414	consensus Protein phosphatase 1, regulatory subuni	98.05
KOG2543	438	consensus Origin recognition complex, subunit 5 [R	98.04
PRK14087	450	dnaA chromosomal replication initiation protein; P	98.04
PRK14965	576	DNA polymerase III subunits gamma and tau; Provisi	98.03
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	98.03
PRK14948	620	DNA polymerase III subunits gamma and tau; Provisi	98.02
COG1222	406	RPT1 ATP-dependent 26S proteasome regulatory subun	97.99
PTZ00361	438	26 proteosome regulatory subunit 4-like protein; P	97.99
PRK05563	559	DNA polymerase III subunits gamma and tau; Validat	97.98
PTZ00454	398	26S protease regulatory subunit 6B-like protein; P	97.98
KOG4579	177	consensus Leucine-rich repeat (LRR) protein associ	97.96
PRK06620	214	hypothetical protein; Validated	97.95
TIGR03689	512	pup_AAA proteasome ATPase. In the Actinobacteria,	97.93
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	97.93
KOG2982	418	consensus Uncharacterized conserved protein [Funct	97.93
PF12799	44	LRR_4: Leucine Rich repeats (2 copies); PDB: 2OMT_	97.92
PRK15386	426	type III secretion protein GogB; Provisional	97.9
KOG2120	419	consensus SCF ubiquitin ligase, Skp2 component [Po	97.9
PRK10865	857	protein disaggregation chaperone; Provisional	97.88
KOG1909	382	consensus Ran GTPase-activating protein [RNA proce	97.86
TIGR00362	405	DnaA chromosomal replication initiator protein Dna	97.86
CHL00095	821	clpC Clp protease ATP binding subunit	97.85
PRK14088	440	dnaA chromosomal replication initiation protein; P	97.85
PF12799	44	LRR_4: Leucine Rich repeats (2 copies); PDB: 2OMT_	97.84
PRK15386	426	type III secretion protein GogB; Provisional	97.84
PRK00149	450	dnaA chromosomal replication initiation protein; R	97.82
COG3267	269	ExeA Type II secretory pathway, component ExeA (pr	97.82
COG0466	782	Lon ATP-dependent Lon protease, bacterial type [Po	97.81
KOG1859	1096	consensus Leucine-rich repeat proteins [General fu	97.79
PRK07399	314	DNA polymerase III subunit delta'; Validated	97.77
PF05673	249	DUF815: Protein of unknown function (DUF815); Inte	97.76
TIGR01241	495	FtsH_fam ATP-dependent metalloprotease FtsH. HflB(	97.75
COG1373	398	Predicted ATPase (AAA+ superfamily) [General funct	97.74
PRK12422	445	chromosomal replication initiation protein; Provis	97.74
KOG1909	382	consensus Ran GTPase-activating protein [RNA proce	97.71
smart00382	148	AAA ATPases associated with a variety of cellular	97.71
PRK05707	328	DNA polymerase III subunit delta'; Validated	97.7
TIGR00602	637	rad24 checkpoint protein rad24. This family is bas	97.69
PRK14086	617	dnaA chromosomal replication initiation protein; P	97.68
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	97.67
CHL00176	638	ftsH cell division protein; Validated	97.66
KOG0733	802	consensus Nuclear AAA ATPase (VCP subfamily) [Post	97.66
KOG1644	233	consensus U2-associated snRNP A' protein [RNA proc	97.64
TIGR00763	775	lon ATP-dependent protease La. This protein is ind	97.64
KOG4579	177	consensus Leucine-rich repeat (LRR) protein associ	97.58
KOG4341	483	consensus F-box protein containing LRR [General fu	97.56
PRK08118	167	topology modulation protein; Reviewed	97.56
PRK08116	268	hypothetical protein; Validated	97.55
PRK10536	262	hypothetical protein; Provisional	97.54
PRK08058	329	DNA polymerase III subunit delta'; Validated	97.52
KOG0730	693	consensus AAA+-type ATPase [Posttranslational modi	97.49
COG1223	368	Predicted ATPase (AAA+ superfamily) [General funct	97.48
PF00004	132	AAA: ATPase family associated with various cellula	97.46
PF04665	241	Pox_A32: Poxvirus A32 protein; InterPro: IPR006758	97.43
PF10443	431	RNA12: RNA12 protein; InterPro: IPR018850 Mitochon	97.42
KOG3665	699	consensus ZYG-1-like serine/threonine protein kina	97.41
PRK10787	784	DNA-binding ATP-dependent protease La; Provisional	97.36
KOG3665	699	consensus ZYG-1-like serine/threonine protein kina	97.36
KOG2982	418	consensus Uncharacterized conserved protein [Funct	97.36
COG0593	408	DnaA ATPase involved in DNA replication initiation	97.35
KOG0991	333	consensus Replication factor C, subunit RFC2 [Repl	97.34
PF13177	162	DNA_pol3_delta2: DNA polymerase III, delta subunit	97.34
PRK08769	319	DNA polymerase III subunit delta'; Validated	97.31
PRK07261	171	topology modulation protein; Provisional	97.31
PRK12608	380	transcription termination factor Rho; Provisional	97.29
CHL00195	489	ycf46 Ycf46; Provisional	97.29
KOG0733	802	consensus Nuclear AAA ATPase (VCP subfamily) [Post	97.27
PRK06871	325	DNA polymerase III subunit delta'; Validated	97.24
KOG1644	233	consensus U2-associated snRNP A' protein [RNA proc	97.21
PRK06835	329	DNA replication protein DnaC; Validated	97.21
COG2812	515	DnaX DNA polymerase III, gamma/tau subunits [DNA r	97.2
KOG2739	260	consensus Leucine-rich acidic nuclear protein [Cel	97.2
KOG2004	906	consensus Mitochondrial ATP-dependent protease PIM	97.19
KOG0741	744	consensus AAA+-type ATPase [Posttranslational modi	97.18
PF07693	325	KAP_NTPase: KAP family P-loop domain; InterPro: IP	97.18
PRK08181	269	transposase; Validated	97.18
KOG4341	483	consensus F-box protein containing LRR [General fu	97.16
TIGR02640	262	gas_vesic_GvpN gas vesicle protein GvpN. Members o	97.15
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	97.14
PRK06090	319	DNA polymerase III subunit delta'; Validated	97.13
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	97.13
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	97.11
KOG1514	767	consensus Origin recognition complex, subunit 1, a	97.1
KOG2228	408	consensus Origin recognition complex, subunit 4 [R	97.1
PRK10865	857	protein disaggregation chaperone; Provisional	97.09
PF00448	196	SRP54: SRP54-type protein, GTPase domain; InterPro	97.07
smart00763	361	AAA_PrkA PrkA AAA domain. This is a family of PrkA	97.07
KOG2739	260	consensus Leucine-rich acidic nuclear protein [Cel	97.07
PRK06526	254	transposase; Provisional	97.07
PRK12377	248	putative replication protein; Provisional	97.05
PF13207	121	AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6	97.05
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	97.02
KOG0734	752	consensus AAA+-type ATPase containing the peptidas	97.02
PRK09361	225	radB DNA repair and recombination protein RadB; Pr	96.99
PRK04296	190	thymidine kinase; Provisional	96.97
PRK06921	266	hypothetical protein; Provisional	96.97
PRK07993	334	DNA polymerase III subunit delta'; Validated	96.95
KOG0731	774	consensus AAA+-type ATPase containing the peptidas	96.95
PRK06964	342	DNA polymerase III subunit delta'; Validated	96.94
PRK09183	259	transposase/IS protein; Provisional	96.92
PLN00020	413	ribulose bisphosphate carboxylase/oxygenase activa	96.89
TIGR02237	209	recomb_radB DNA repair and recombination protein R	96.88
KOG0652	424	consensus 26S proteasome regulatory complex, ATPas	96.87
PF07728	139	AAA_5: AAA domain (dynein-related subfamily); Inte	96.87
PRK12727	559	flagellar biosynthesis regulator FlhF; Provisional	96.85
PRK04132	846	replication factor C small subunit; Provisional	96.85
COG5238	388	RNA1 Ran GTPase-activating protein (RanGAP) involv	96.85
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	96.84
KOG0736	953	consensus Peroxisome assembly factor 2 containing	96.83
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	96.83
cd01393	226	recA_like RecA is a bacterial enzyme which has rol	96.82
KOG0739	439	consensus AAA+-type ATPase [Posttranslational modi	96.79
PRK06696	223	uridine kinase; Validated	96.78
PRK07952	244	DNA replication protein DnaC; Validated	96.76
KOG0728	404	consensus 26S proteasome regulatory complex, ATPas	96.74
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	96.74
cd01131	198	PilT Pilus retraction ATPase PilT. PilT is a nucle	96.71
cd00983	325	recA RecA is a bacterial enzyme which has roles in	96.71
cd01123	235	Rad51_DMC1_radA Rad51_DMC1_radA,B. This group of r	96.71
TIGR02012	321	tigrfam_recA protein RecA. This model describes or	96.71
COG0470	325	HolB ATPase involved in DNA replication [DNA repli	96.7
cd01133	274	F1-ATPase_beta F1 ATP synthase beta subunit, nucle	96.69
KOG2035	351	consensus Replication factor C, subunit RFC3 [Cell	96.69
COG1484	254	DnaC DNA replication protein [DNA replication, rec	96.67
PRK15455	644	PrkA family serine protein kinase; Provisional	96.67
COG2607	287	Predicted ATPase (AAA+ superfamily) [General funct	96.64
cd01394	218	radB RadB. The archaeal protein radB shares simila	96.63
KOG2123	388	consensus Uncharacterized conserved protein [Funct	96.62
PRK09354	349	recA recombinase A; Provisional	96.61
CHL00095	821	clpC Clp protease ATP binding subunit	96.6
KOG0727	408	consensus 26S proteasome regulatory complex, ATPas	96.6
PRK05541	176	adenylylsulfate kinase; Provisional	96.57
COG0464	494	SpoVK ATPases of the AAA+ class [Posttranslational	96.56
PRK08699	325	DNA polymerase III subunit delta'; Validated	96.56
cd01120	165	RecA-like_NTPases RecA-like NTPases. This family i	96.55
PRK08939	306	primosomal protein DnaI; Reviewed	96.54
KOG0743	457	consensus AAA+-type ATPase [Posttranslational modi	96.53
KOG0735	952	consensus AAA+-type ATPase [Posttranslational modi	96.53
cd00561	159	CobA_CobO_BtuR ATP:corrinoid adenosyltransferase B	96.53
PRK06547	172	hypothetical protein; Provisional	96.51
PRK10733	644	hflB ATP-dependent metalloprotease; Reviewed	96.51
cd03238	176	ABC_UvrA The excision repair protein UvrA; Nucleot	96.5
PF08423	256	Rad51: Rad51; InterPro: IPR013632 This domain is f	96.49
KOG1969	877	consensus DNA replication checkpoint protein CHL12	96.48
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	96.47
COG2884	223	FtsE Predicted ATPase involved in cell division [C	96.46
COG0572	218	Udk Uridine kinase [Nucleotide transport and metab	96.44
KOG0744	423	consensus AAA+-type ATPase [Posttranslational modi	96.4
cd03247	178	ABCC_cytochrome_bd The CYD subfamily implicated in	96.39
KOG0737	386	consensus AAA+-type ATPase [Posttranslational modi	96.39
KOG0738	491	consensus AAA+-type ATPase [Posttranslational modi	96.39
TIGR02238	313	recomb_DMC1 meiotic recombinase Dmc1. This model d	96.36
PRK13531	498	regulatory ATPase RavA; Provisional	96.36
PHA00729	226	NTP-binding motif containing protein	96.35
PF14532	138	Sigma54_activ_2: Sigma-54 interaction domain; PDB:	96.34
PF01695	178	IstB_IS21: IstB-like ATP binding protein; InterPro	96.34
COG1618	179	Predicted nucleotide kinase [Nucleotide transport	96.29
cd01121	372	Sms Sms (bacterial radA) DNA repair protein. This	96.28
PRK14722	374	flhF flagellar biosynthesis regulator FlhF; Provis	96.28
PRK00771	437	signal recognition particle protein Srp54; Provisi	96.28
COG4608	268	AppF ABC-type oligopeptide transport system, ATPas	96.27
cd03115	173	SRP The signal recognition particle (SRP) mediates	96.26
TIGR03877	237	thermo_KaiC_1 KaiC domain protein, Ph0284 family.	96.25
PRK10463	290	hydrogenase nickel incorporation protein HypB; Pro	96.23
PF00485	194	PRK: Phosphoribulokinase / Uridine kinase family;	96.2
PF13238	129	AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB	96.2
COG1875	436	NYN ribonuclease and ATPase of PhoH family domains	96.16
KOG1947	482	consensus Leucine rich repeat proteins, some prote	96.16
PF13306	129	LRR_5: Leucine rich repeats (6 copies); PDB: 3ZYJ_	96.15
PRK06067	234	flagellar accessory protein FlaH; Validated	96.14
cd02019	69	NK Nucleoside/nucleotide kinase (NK) is a protein	96.14
COG0465	596	HflB ATP-dependent Zn proteases [Posttranslational	96.13
cd03214	180	ABC_Iron-Siderophores_B12_Hemin ABC transporters,	96.13
COG0194	191	Gmk Guanylate kinase [Nucleotide transport and met	96.11
TIGR03499	282	FlhF flagellar biosynthetic protein FlhF.	96.11
TIGR02239	316	recomb_RAD51 DNA repair protein RAD51. This eukary	96.1
cd03223	166	ABCD_peroxisomal_ALDP Peroxisomal ATP-binding cass	96.1
PRK14723	767	flhF flagellar biosynthesis regulator FlhF; Provis	96.09
cd03221	144	ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is	96.08
PLN03187	344	meiotic recombination protein DMC1 homolog; Provis	96.06
PRK07667	193	uridine kinase; Provisional	96.06
PRK08233	182	hypothetical protein; Provisional	96.06
KOG2123	388	consensus Uncharacterized conserved protein [Funct	96.05
TIGR01425	429	SRP54_euk signal recognition particle protein SRP5	96.02
PRK09270	229	nucleoside triphosphate hydrolase domain-containin	96.02
PTZ00301	210	uridine kinase; Provisional	96.0
PRK05480	209	uridine/cytidine kinase; Provisional	96.0
PF00560	22	LRR_1: Leucine Rich Repeat; InterPro: IPR001611 Le	95.98
TIGR02858	270	spore_III_AA stage III sporulation protein AA. Mem	95.98
PRK04301	317	radA DNA repair and recombination protein RadA; Va	95.97
cd03228	171	ABCC_MRP_Like The MRP (Mutidrug Resistance Protein	95.97
PF13671	143	AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1	95.95
KOG1947	482	consensus Leucine rich repeat proteins, some prote	95.93
TIGR00554	290	panK_bact pantothenate kinase, bacterial type. Sho	95.92
COG1066	456	Sms Predicted ATP-dependent serine protease [Postt	95.91
cd03216	163	ABC_Carb_Monos_I This family represents the domain	95.91
PF00154	322	RecA: recA bacterial DNA recombination protein; In	95.91
PRK13765	637	ATP-dependent protease Lon; Provisional	95.9
PRK10867	433	signal recognition particle protein; Provisional	95.9
COG1136	226	SalX ABC-type antimicrobial peptide transport syst	95.9
cd03246	173	ABCC_Protease_Secretion This family represents the	95.87
PRK11889	436	flhF flagellar biosynthesis regulator FlhF; Provis	95.87
TIGR00390	441	hslU ATP-dependent protease HslVU, ATPase subunit.	95.85
PF07726	131	AAA_3: ATPase family associated with various cellu	95.84
PRK06762	166	hypothetical protein; Provisional	95.83
TIGR00959	428	ffh signal recognition particle protein. This mode	95.82
TIGR02030	337	BchI-ChlI magnesium chelatase ATPase subunit I. Th	95.82
TIGR00708	173	cobA cob(I)alamin adenosyltransferase. Alternate n	95.82
KOG0729	435	consensus 26S proteasome regulatory complex, ATPas	95.81
cd03222	177	ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibi	95.8
COG1121	254	ZnuC ABC-type Mn/Zn transport systems, ATPase comp	95.8
PF10236	309	DAP3: Mitochondrial ribosomal death-associated pro	95.79
PF13481	193	AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C.	95.78
COG1102	179	Cmk Cytidylate kinase [Nucleotide transport and me	95.78
PRK03839	180	putative kinase; Provisional	95.78
cd02025	220	PanK Pantothenate kinase (PanK) catalyzes the phos	95.77
TIGR01360	188	aden_kin_iso1 adenylate kinase, isozyme 1 subfamil	95.75
KOG0735	952	consensus AAA+-type ATPase [Posttranslational modi	95.74
TIGR00235	207	udk uridine kinase. Model contains a number of lon	95.74
PRK14527	191	adenylate kinase; Provisional	95.73
TIGR00064	272	ftsY signal recognition particle-docking protein F	95.71
COG0468	279	RecA RecA/RadA recombinase [DNA replication, recom	95.71
TIGR00150	133	HI0065_YjeE ATPase, YjeE family. Members of this f	95.71
PRK14974	336	cell division protein FtsY; Provisional	95.7
PRK04328	249	hypothetical protein; Provisional	95.69
PRK13407	334	bchI magnesium chelatase subunit I; Provisional	95.68
COG0396	251	sufC Cysteine desulfurase activator ATPase [Posttr	95.66
CHL00081	350	chlI Mg-protoporyphyrin IX chelatase	95.66
PF00910	107	RNA_helicase: RNA helicase; InterPro: IPR000605 He	95.65
KOG0651	388	consensus 26S proteasome regulatory complex, ATPas	95.64
TIGR03881	229	KaiC_arch_4 KaiC domain protein, PAE1156 family. M	95.64
cd01129	264	PulE-GspE PulE/GspE The type II secretory pathway	95.63
PLN03186	342	DNA repair protein RAD51 homolog; Provisional	95.63
PRK08972	444	fliI flagellum-specific ATP synthase; Validated	95.63
PF00006	215	ATP-synt_ab: ATP synthase alpha/beta family, nucle	95.63
PF01583	156	APS_kinase: Adenylylsulphate kinase; InterPro: IPR	95.62
KOG3347	176	consensus Predicted nucleotide kinase/nuclear prot	95.61
PRK05342	412	clpX ATP-dependent protease ATP-binding subunit Cl	95.6
PTZ00088	229	adenylate kinase 1; Provisional	95.6
KOG0726	440	consensus 26S proteasome regulatory complex, ATPas	95.56
COG1428	216	Deoxynucleoside kinases [Nucleotide transport and	95.56
PRK04040	188	adenylate kinase; Provisional	95.56
PRK11823	446	DNA repair protein RadA; Provisional	95.55
PRK05201	443	hslU ATP-dependent protease ATP-binding subunit Hs	95.54
TIGR02236	310	recomb_radA DNA repair and recombination protein R	95.53
PRK07132	299	DNA polymerase III subunit delta'; Validated	95.51
PRK06002	450	fliI flagellum-specific ATP synthase; Validated	95.51
PRK00625	173	shikimate kinase; Provisional	95.48
PTZ00035	337	Rad51 protein; Provisional	95.48
cd02027	149	APSK Adenosine 5'-phosphosulfate kinase (APSK) cat	95.48
PRK12726	407	flagellar biosynthesis regulator FlhF; Provisional	95.46
cd03230	173	ABC_DR_subfamily_A This family of ATP-binding prot	95.46
TIGR00764	608	lon_rel lon-related putative ATP-dependent proteas	95.43
KOG2170	344	consensus ATPase of the AAA+ superfamily [General	95.42
COG1419	407	FlhF Flagellar GTP-binding protein [Cell motility	95.42
TIGR01359	183	UMP_CMP_kin_fam UMP-CMP kinase family. This subfam	95.41
PRK08533	230	flagellar accessory protein FlaH; Reviewed	95.41
cd00267	157	ABC_ATPase ABC (ATP-binding cassette) transporter	95.41
PRK12597	461	F0F1 ATP synthase subunit beta; Provisional	95.4
PRK12678	672	transcription termination factor Rho; Provisional	95.39
PRK06217	183	hypothetical protein; Validated	95.39
cd02023	198	UMPK Uridine monophosphate kinase (UMPK, EC 2.7.1.	95.36
PRK05986	191	cob(I)alamin adenolsyltransferase/cobinamide ATP-d	95.35
COG0541	451	Ffh Signal recognition particle GTPase [Intracellu	95.35
cd02024	187	NRK1 Nicotinamide riboside kinase (NRK) is an enzy	95.35
TIGR03878	259	thermo_KaiC_2 KaiC domain protein, AF_0795 family.	95.34
PRK12723	388	flagellar biosynthesis regulator FlhF; Provisional	95.33
TIGR03498	418	FliI_clade3 flagellar protein export ATPase FliI.	95.31
PRK00131	175	aroK shikimate kinase; Reviewed	95.31
TIGR02902	531	spore_lonB ATP-dependent protease LonB. Members of	95.3
PRK12724	432	flagellar biosynthesis regulator FlhF; Provisional	95.29
PRK08149	428	ATP synthase SpaL; Validated	95.26
) 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	95.25
TIGR00416	454	sms DNA repair protein RadA. The gene protuct code	95.24
TIGR02322	179	phosphon_PhnN phosphonate metabolism protein/1,5-b	95.21
PF06745	226	KaiC: KaiC; InterPro: IPR014774 This entry represe	95.2
PF00625	183	Guanylate_kin: Guanylate kinase; InterPro: IPR0081	95.19
PRK09519	790	recA DNA recombination protein RecA; Reviewed	95.19
TIGR00382	413	clpX endopeptidase Clp ATP-binding regulatory subu	95.18
cd01135	276	V_A-ATPase_B V/A-type ATP synthase (non-catalytic)	95.18
PRK05439	311	pantothenate kinase; Provisional	95.17
PF03205	140	MobB: Molybdopterin guanine dinucleotide synthesis	95.17
TIGR01420	343	pilT_fam pilus retraction protein PilT. This model	95.15
TIGR03575	340	selen_PSTK_euk L-seryl-tRNA(Sec) kinase, eukaryoti	95.13
cd02028	179	UMPK_like Uridine monophosphate kinase_like (UMPK_	95.12
COG1124	252	DppF ABC-type dipeptide/oligopeptide/nickel transp	95.12
PRK10751	173	molybdopterin-guanine dinucleotide biosynthesis pr	95.11
PRK05922	434	type III secretion system ATPase; Validated	95.11
COG0563	178	Adk Adenylate kinase and related kinases [Nucleoti	95.11
cd03217	200	ABC_FeS_Assembly ABC-type transport system involve	95.11
PRK14721	420	flhF flagellar biosynthesis regulator FlhF; Provis	95.1
PRK05973	237	replicative DNA helicase; Provisional	95.09
cd00544	169	CobU Adenosylcobinamide kinase / adenosylcobinamid	95.09
COG1703	323	ArgK Putative periplasmic protein kinase ArgK and	95.08
PF08298	358	AAA_PrkA: PrkA AAA domain; InterPro: IPR013153 Thi	95.07
KOG1532	366	consensus GTPase XAB1, interacts with DNA repair p	95.07
PF12775	272	AAA_7: P-loop containing dynein motor region D3; P	95.06
cd03369	207	ABCC_NFT1 Domain 2 of NFT1 (New full-length MRP-ty	95.05
PRK00279	215	adk adenylate kinase; Reviewed	95.04
cd00227	175	CPT Chloramphenicol (Cm) phosphotransferase (CPT).	95.02
cd02020	147	CMPK Cytidine monophosphate kinase (CMPK) catalyze	95.02
PF03308	266	ArgK: ArgK protein; InterPro: IPR005129 Bacterial	95.02
PRK05800	170	cobU adenosylcobinamide kinase/adenosylcobinamide-	95.02
cd00071	137	GMPK Guanosine monophosphate kinase (GMPK, EC 2.7.	95.02
cd01125	239	repA Hexameric Replicative Helicase RepA. RepA is	95.01
PF13086	236	AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV	95.01
PRK15453	290	phosphoribulokinase; Provisional	95.01
PRK14530	215	adenylate kinase; Provisional	95.01
PF01078	206	Mg_chelatase: Magnesium chelatase, subunit ChlI; I	94.99
PRK13949	169	shikimate kinase; Provisional	94.99
cd02021	150	GntK Gluconate kinase (GntK) catalyzes the phospho	94.98
PRK05703	424	flhF flagellar biosynthesis regulator FlhF; Valida	94.97
PRK13947	171	shikimate kinase; Provisional	94.95
COG0003	322	ArsA Predicted ATPase involved in chromosome parti	94.95
COG1936	180	Predicted nucleotide kinase (related to CMP and AM	94.93
PRK15429	686	formate hydrogenlyase transcriptional activator Fh	94.93
PRK09280	463	F0F1 ATP synthase subunit beta; Validated	94.93
PF00158	168	Sigma54_activat: Sigma-54 interaction domain; Inte	94.93
TIGR01351	210	adk adenylate kinases. Adenylate kinase (EC 2.7.4.	94.89
TIGR03263	180	guanyl_kin guanylate kinase. Members of this famil	94.86
PF13245	76	AAA_19: Part of AAA domain	94.84
PF02562	205	PhoH: PhoH-like protein; InterPro: IPR003714 PhoH	94.83
PRK00889	175	adenylylsulfate kinase; Provisional	94.81
PF08477	119	Miro: Miro-like protein; InterPro: IPR013684 Mitoc	94.81
PF03215	519	Rad17: Rad17 cell cycle checkpoint protein	94.81
PRK06995	484	flhF flagellar biosynthesis regulator FlhF; Valida	94.81
PRK08927	442	fliI flagellum-specific ATP synthase; Validated	94.78
PRK10416	318	signal recognition particle-docking protein FtsY;	94.77
PF03266	168	NTPase_1: NTPase; InterPro: IPR004948 This entry r	94.76
TIGR00073	207	hypB hydrogenase accessory protein HypB. HypB is i	94.76
PF08433	270	KTI12: Chromatin associated protein KTI12 ; InterP	94.76
COG0714	329	MoxR-like ATPases [General function prediction onl	94.75
cd00820	107	PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPC	94.7
TIGR01039	461	atpD ATP synthase, F1 beta subunit. The sequences	94.7
PF03029	238	ATP_bind_1: Conserved hypothetical ATP binding pro	94.69
COG0467	260	RAD55 RecA-superfamily ATPases implicated in signa	94.68
cd00464	154	SK Shikimate kinase (SK) is the fifth enzyme in th	94.67
CHL00206	2281	ycf2 Ycf2; Provisional	94.65
PRK06936	439	type III secretion system ATPase; Provisional	94.63
PRK00300	205	gmk guanylate kinase; Provisional	94.63
PRK12339	197	2-phosphoglycerate kinase; Provisional	94.63
cd02029	277	PRK_like Phosphoribulokinase-like (PRK-like) is a	94.62
COG3640	255	CooC CO dehydrogenase maturation factor [Cell divi	94.61
TIGR01313	163	therm_gnt_kin carbohydrate kinase, thermoresistant	94.57
TIGR01040	466	V-ATPase_V1_B V-type (H+)-ATPase V1, B subunit. Th	94.57
PRK10078	186	ribose 1,5-bisphosphokinase; Provisional	94.55
PRK05057	172	aroK shikimate kinase I; Reviewed	94.54
PTZ00185	574	ATPase alpha subunit; Provisional	94.54
PRK14529	223	adenylate kinase; Provisional	94.51
PF03193	161	DUF258: Protein of unknown function, DUF258; Inter	94.51
COG0488	530	Uup ATPase components of ABC transporters with dup	94.5
KOG1051	898	consensus Chaperone HSP104 and related ATP-depende	94.5
TIGR03305	449	alt_F1F0_F1_bet alternate F1F0 ATPase, F1 subunit	94.48
PRK13948	182	shikimate kinase; Provisional	94.47
TIGR01069	771	mutS2 MutS2 family protein. Function of MutS2 is u	94.47
PRK14737	186	gmk guanylate kinase; Provisional	94.46
cd03281	213	ABC_MSH5_euk MutS5 homolog in eukaryotes. The MutS	94.45
PF05970	364	PIF1: PIF1-like helicase; InterPro: IPR010285 This	94.45
PLN02200	234	adenylate kinase family protein	94.43
cd01122	271	GP4d_helicase GP4d_helicase is a homohexameric 5'-	94.41
PF02374	305	ArsA_ATPase: Anion-transporting ATPase; PDB: 2WOO_	94.38
cd01132	274	F1_ATPase_alpha F1 ATP synthase alpha, central dom	94.29
PRK13975	196	thymidylate kinase; Provisional	94.28
COG1126	240	GlnQ ABC-type polar amino acid transport system, A	94.25
PF13504	17	LRR_7: Leucine rich repeat; PDB: 3OJA_B 3G06_A 1OO	94.25
COG1116	248	TauB ABC-type nitrate/sulfonate/bicarbonate transp	94.25
PRK03846	198	adenylylsulfate kinase; Provisional	94.25
PRK13946	184	shikimate kinase; Provisional	94.24
cd01124	187	KaiC KaiC is a circadian clock protein primarily f	94.23

>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]

Probab=100.00  E-value=2e-91  Score=790.68  Aligned_cols=684  Identities=43%  Similarity=0.729  Sum_probs=580.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHHHHHHHHhccccccc----------------ccc
Q 038398           10 TVLQAQLPKLIESKNDVMARVANAEQQQMRRLNTVQGWLSRVEAMETEVGELMKDGSQEVD----------------KLC   73 (720)
Q Consensus        10 ~~l~~~l~~l~~~l~~i~~~v~~ae~~~~~~~~~~~~wl~~~~~~~~~~~d~ld~~~~~~~----------------~~~   73 (720)
                      ...+..+.+|+..+..++..+++|+.++.. ...+..|.+.+++++|+++|+++.+..+..                +.|
T Consensus        24 ~~~~~~i~~Lk~~L~~l~~~l~d~~a~~~~-~~~~~~~~e~~~~~~~~~e~~~~~~~v~~~~~~~~~~l~~~~~~~~~~c  102 (889)
T KOG4658|consen   24 DGKDNYILELKENLKALQSALEDLDAKRDD-LERRVNWEEDVGDLVYLAEDIIWLFLVEEIERKANDLLSTRSVERQRLC  102 (889)
T ss_pred             hchHHHHHHHHHHHHHHHHHHHHHHhhcch-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHhhhhHHHHHHHh
Confidence            333445555555555566666667666543 256789999999999999999988765431                224


Q ss_pred             CCCCCCCCccccchhHHHHHHHHHHHHHHhhcCCcccccc-cCCCccccCCCCCCC--cCchHHHHHHHHHhcCCCceEE
Q 038398           74 PGGCCSKNCRSSFEFGKRVAKTLQLVNNLMGEGAFDAVAE-KVPRPAVDQRPCEPT--VGLESTFDKVWRCLGEEQVGII  150 (720)
Q Consensus        74 ~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~--vGr~~~~~~l~~~L~~~~~~vi  150 (720)
                      ..+.|++.....+.+++++.+.++.++.+..++.|..+.. ..+...+..+|....  ||.+..++++++.|.+++..++
T Consensus       103 ~~~~~~~~~~~~~~~~~rv~~~l~~ve~l~~~~~~~~~~~~~~~~~~~e~~~~~~~~~VG~e~~~~kl~~~L~~d~~~iv  182 (889)
T KOG4658|consen  103 LCGFCSKNVSDSYKYGKRVSKVLREVESLGSKGVFEVVGESLDPREKVETRPIQSESDVGLETMLEKLWNRLMEDDVGIV  182 (889)
T ss_pred             hhhhHhHhhhhhHhHHHHHHHHHHHHHHhccccceecccccccchhhcccCCCCccccccHHHHHHHHHHHhccCCCCEE
Confidence            4466666777778899999999999999988877766654 222223333333333  9999999999999999888999


Q ss_pred             EEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHHHHHhCCCCCccCCCChhHHHHHHHHHhccCc
Q 038398          151 GLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKIGRRIGFFDESWKNGSLEDKTSDILRILGKKK  230 (720)
Q Consensus       151 ~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~  230 (720)
                      +|+||||+||||||+.++|+...++++|+.++||.||+.++...++++|+..++.....+.....++.+..|.+.|+++|
T Consensus       183 ~i~GMGGvGKTTL~~qi~N~~~~v~~~Fd~~iWV~VSk~f~~~~iq~~Il~~l~~~~~~~~~~~~~~~~~~i~~~L~~kr  262 (889)
T KOG4658|consen  183 GIYGMGGVGKTTLARQIFNKFDEVGNHFDGVIWVVVSKEFTTRKIQQTILERLGLLDEEWEDKEEDELASKLLNLLEGKR  262 (889)
T ss_pred             EEECCCcccHHHHHHHHhcccchhcccCceEEEEEEcccccHHhHHHHHHHHhccCCcccchhhHHHHHHHHHHHhccCc
Confidence            99999999999999999999944899999999999999999999999999999987665566566889999999999999


Q ss_pred             EEEEEeccccccccccccccCCCCCCCcEEEEEcCChhHhhh-hccCceeeccCCChhhHHHHHHHHhccCccCCCCChH
Q 038398          231 FLLLLDDIWERVDLTKVGIPFPDPENKSKIVFTTHFLEICGA-LKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIP  309 (720)
Q Consensus       231 ~LlVlDdv~~~~~~~~l~~~~~~~~~gs~iiiTtR~~~v~~~-~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~  309 (720)
                      |+|||||||+..+|+.++.++|...+||||++|||+..||.. |++...++++.|+++|||+||++.++......++.++
T Consensus       263 fllvLDDIW~~~dw~~I~~~~p~~~~g~KvvlTTRs~~V~~~~m~~~~~~~v~~L~~~eaW~LF~~~v~~~~~~~~~~i~  342 (889)
T KOG4658|consen  263 FLLVLDDIWEEVDWDKIGVPFPSRENGSKVVLTTRSEEVCGRAMGVDYPIEVECLTPEEAWDLFQKKVGPNTLGSHPDIE  342 (889)
T ss_pred             eEEEEecccccccHHhcCCCCCCccCCeEEEEEeccHhhhhccccCCccccccccCccccHHHHHHhhccccccccccHH
Confidence            999999999999999999999999899999999999999998 8888999999999999999999999988656667799


Q ss_pred             HHHHHHHHHhCCcchHHHHHHHHHhcCCChhHHHHHHHHHhcc-cCCCCCCCccchhhHHhhcCCCCCcchhHHHHhhcC
Q 038398          310 ELARSVAQECAGLPLALITIGRAMACKKTPQEWHYAIQVLRRS-ASEFPGMGKEVYPLLKFSYDSLPDDTIRSYLLYCGL  388 (720)
Q Consensus       310 ~~~~~i~~~c~GlPLai~~~~~~l~~~~~~~~w~~~l~~l~~~-~~~~~~~~~~~~~~l~~sy~~L~~~~~k~~fl~~~~  388 (720)
                      ++|++++++|+|+|||++++|+.|+.+.+.++|+++.+.+.+. ..+.+++.+.++.+|++||+.||. ++|.||+|||+
T Consensus       343 ~lak~v~~kC~GLPLAl~viG~~ma~K~t~~eW~~~~~~l~s~~~~~~~~~~~~i~~iLklSyd~L~~-~lK~CFLycal  421 (889)
T KOG4658|consen  343 ELAKEVAEKCGGLPLALNVLGGLLACKKTVQEWRRALNVLKSSLAADFSGMEESILPILKLSYDNLPE-ELKSCFLYCAL  421 (889)
T ss_pred             HHHHHHHHHhCChHHHHHHHHHHhcCCCcHHHHHHHHccccccccCCCCchhhhhHHhhhccHhhhhH-HHHHHHHhhcc
Confidence            9999999999999999999999999999999999999999887 666677778999999999999996 99999999999


Q ss_pred             CCCCcccChHHHHHHHHhhCCCCccc-chhhHHhHHHHHHHHHHhccccccCCCCCcccCCceEEEehHHHHHHHHHHHh
Q 038398          389 FPEDYRIRKSELIDCWIGEGFLDQYD-RSGAYNEGYYIIGILLHACLLEEEGGDIGEEESGEHVVKMHDVIRDMVLWIAC  467 (720)
Q Consensus       389 fp~~~~i~~~~li~~Wiaeg~~~~~~-~~~~~~~~~~~~~~L~~~sll~~~~~~~~~~~~~~~~~~mHdlv~~~a~~~~~  467 (720)
                      ||+|++|+++.|+.+||||||+.+.+ ...++++|+.|+.+|++++|++....     .++..+|+|||+|||+|.++|+
T Consensus       422 FPED~~I~~e~Li~yWiaEGfi~~~~~~~~~~d~G~~~i~~LV~~~Ll~~~~~-----~~~~~~~kmHDvvRe~al~ias  496 (889)
T KOG4658|consen  422 FPEDYEIKKEKLIEYWIAEGFIDPLDGGETAEDVGYDYIEELVRASLLIEERD-----EGRKETVKMHDVVREMALWIAS  496 (889)
T ss_pred             CCcccccchHHHHHHHHhccCcCccccccchhcchHHHHHHHHHHHHHhhccc-----ccceeEEEeeHHHHHHHHHHhc
Confidence            99999999999999999999999955 77889999999999999999998752     1457899999999999999999


Q ss_pred             hhccccccEEEEcCCCCccCcccccccceeEEEecccccccCCCCCCCCcccEEEccCCC--CcCcchHHhccCCcccEE
Q 038398          468 KIEKEKENFLVHAGLGLTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNS--LKMSTDDFFQSMPSLRVF  545 (720)
Q Consensus       468 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~~--~~~~~~~~~~~l~~L~~L  545 (720)
                      +.+.+++++++..+.+..+.|...++..+|++++.+|.+..++....+++|++|.+.+|.  +..++..+|..|+.|++|
T Consensus       497 ~~~~~~e~~iv~~~~~~~~~~~~~~~~~~rr~s~~~~~~~~~~~~~~~~~L~tLll~~n~~~l~~is~~ff~~m~~LrVL  576 (889)
T KOG4658|consen  497 DFGKQEENQIVSDGVGLSEIPQVKSWNSVRRMSLMNNKIEHIAGSSENPKLRTLLLQRNSDWLLEISGEFFRSLPLLRVL  576 (889)
T ss_pred             cccccccceEEECCcCccccccccchhheeEEEEeccchhhccCCCCCCccceEEEeecchhhhhcCHHHHhhCcceEEE
Confidence            988888888888877777788899999999999999999998888899999999999995  788889999999999999


Q ss_pred             EccCCCCCccCCccccCCCCCCEEeccCCCCcccchhhhcCCCCCEEeccCCcCCCCCchhhhhccccCceeeccccCCC
Q 038398          546 NMSNNHLLWKLPSGISTLVSLEHLDLSSTAITHLPIELQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFDCGGS  625 (720)
Q Consensus       546 ~L~~~~~~~~lp~~i~~l~~L~~L~L~~~~i~~lp~~i~~l~~L~~L~l~~~~~l~~lp~~~~~~l~~L~~L~~~~~~~~  625 (720)
                      ||++|...+.+|..|+.|.+||||+++++.++++|.++.+|.+|.+||+..+..+..+|. +...|++|++|.+..-...
T Consensus       577 DLs~~~~l~~LP~~I~~Li~LryL~L~~t~I~~LP~~l~~Lk~L~~Lnl~~~~~l~~~~~-i~~~L~~Lr~L~l~~s~~~  655 (889)
T KOG4658|consen  577 DLSGNSSLSKLPSSIGELVHLRYLDLSDTGISHLPSGLGNLKKLIYLNLEVTGRLESIPG-ILLELQSLRVLRLPRSALS  655 (889)
T ss_pred             ECCCCCccCcCChHHhhhhhhhcccccCCCccccchHHHHHHhhheeccccccccccccc-hhhhcccccEEEeeccccc
Confidence            999998899999999999999999999999999999999999999999999877777755 4677999999999864411


Q ss_pred             cccchhcccccCCccccHHHhcCCCCCceeEEEecchhhHHHHhhhhhhhhhccccccccccCCCccccccccccCCcce
Q 038398          626 KIERLKINVLFGGHQFLVEELMGMKHLMVLTITLKSWQALKELLISQELQRSTQSLFLRCFNDSKSLDIFCLAGLRNLNK  705 (720)
Q Consensus       626 ~l~~l~~~~~~~~~~~~~~~l~~l~~L~~L~~~~~~~~~l~~l~~~~~~~~~L~~L~l~~~~~l~~l~~~~l~~l~~L~~  705 (720)
                                  .+.....++..+++|+.+........-+..+.......+..+.+.+.+|... +.. .++..+.+|+.
T Consensus       656 ------------~~~~~l~el~~Le~L~~ls~~~~s~~~~e~l~~~~~L~~~~~~l~~~~~~~~-~~~-~~~~~l~~L~~  721 (889)
T KOG4658|consen  656 ------------NDKLLLKELENLEHLENLSITISSVLLLEDLLGMTRLRSLLQSLSIEGCSKR-TLI-SSLGSLGNLEE  721 (889)
T ss_pred             ------------cchhhHHhhhcccchhhheeecchhHhHhhhhhhHHHHHHhHhhhhcccccc-eee-cccccccCcce
Confidence                        1455677788888899888876555333444444444455566665543332 332 47788999999


Q ss_pred             eeecCCCCCc
Q 038398          706 LYVAGCKHLE  715 (720)
Q Consensus       706 L~l~~c~~l~  715 (720)
                      |.+.+|...+
T Consensus       722 L~i~~~~~~e  731 (889)
T KOG4658|consen  722 LSILDCGISE  731 (889)
T ss_pred             EEEEcCCCch
Confidence            9999998764

>PLN03210 Resistant to P

Probab=100.00  E-value=3.8e-58  Score=549.37  Aligned_cols=543  Identities=22%  Similarity=0.269  Sum_probs=394.3

Q ss_pred             CCCcCchHHHHHHHHHhc--CCCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEe---cCc-----------
Q 038398          126 EPTVGLESTFDKVWRCLG--EEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVV---SKD-----------  189 (720)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~--~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v---~~~-----------  189 (720)
                      +++|||++.++++..+|.  .+++++|+||||||+||||||+++|++.   ...|+..+|+..   +..           
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            679999999999999884  3578999999999999999999999987   678998888742   111           


Q ss_pred             CC-HHHHHHHHHHHhCCCCCccCCCChhHHHHHHHHHhccCcEEEEEeccccccccccccccCCCCCCCcEEEEEcCChh
Q 038398          190 LQ-LEKIQEKIGRRIGFFDESWKNGSLEDKTSDILRILGKKKFLLLLDDIWERVDLTKVGIPFPDPENKSKIVFTTHFLE  268 (720)
Q Consensus       190 ~~-~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~~~~l~~~~~~~~~gs~iiiTtR~~~  268 (720)
                      .. ...++++++..+....+. ...    ....+++.+.++|+||||||||+..+|+.+.....+.+.||+||||||+..
T Consensus       261 ~~~~~~l~~~~l~~il~~~~~-~~~----~~~~~~~~L~~krvLLVLDdv~~~~~l~~L~~~~~~~~~GsrIIiTTrd~~  335 (1153)
T PLN03210        261 YNMKLHLQRAFLSEILDKKDI-KIY----HLGAMEERLKHRKVLIFIDDLDDQDVLDALAGQTQWFGSGSRIIVITKDKH  335 (1153)
T ss_pred             cchhHHHHHHHHHHHhCCCCc-ccC----CHHHHHHHHhCCeEEEEEeCCCCHHHHHHHHhhCccCCCCcEEEEEeCcHH
Confidence            01 123445555554322110 111    125677889999999999999999889888766666788999999999999


Q ss_pred             HhhhhccCceeeccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCcchHHHHHHHHHhcCCChhHHHHHHHH
Q 038398          269 ICGALKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGLPLALITIGRAMACKKTPQEWHYAIQV  348 (720)
Q Consensus       269 v~~~~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~GlPLai~~~~~~l~~~~~~~~w~~~l~~  348 (720)
                      ++..++..++|+++.|++++||+||+++||... .++.++.+++++|+++|+|+|||++++|+.|++ ++..+|+.++++
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            998877788999999999999999999999765 445568899999999999999999999999997 578999999999


Q ss_pred             HhcccCCCCCCCccchhhHHhhcCCCCCcchhHHHHhhcCCCCCcccChHHHHHHHHhhCCCCcccchhhHHhHHHHHHH
Q 038398          349 LRRSASEFPGMGKEVYPLLKFSYDSLPDDTIRSYLLYCGLFPEDYRIRKSELIDCWIGEGFLDQYDRSGAYNEGYYIIGI  428 (720)
Q Consensus       349 l~~~~~~~~~~~~~~~~~l~~sy~~L~~~~~k~~fl~~~~fp~~~~i~~~~li~~Wiaeg~~~~~~~~~~~~~~~~~~~~  428 (720)
                      ++....      ..+..+|++||+.|+++..|.||+++|+||.+..++   .+..|++.+....          ...++.
T Consensus       414 L~~~~~------~~I~~~L~~SYd~L~~~~~k~~Fl~ia~ff~~~~~~---~v~~~l~~~~~~~----------~~~l~~  474 (1153)
T PLN03210        414 LRNGLD------GKIEKTLRVSYDGLNNKKDKAIFRHIACLFNGEKVN---DIKLLLANSDLDV----------NIGLKN  474 (1153)
T ss_pred             HHhCcc------HHHHHHHHHhhhccCccchhhhhheehhhcCCCCHH---HHHHHHHhcCCCc----------hhChHH
Confidence            876432      489999999999998745899999999999887554   4777888765432          223888


Q ss_pred             HHHhccccccCCCCCcccCCceEEEehHHHHHHHHHHHhhhc--cccccEEEEcC---------CC-------------C
Q 038398          429 LLHACLLEEEGGDIGEEESGEHVVKMHDVIRDMVLWIACKIE--KEKENFLVHAG---------LG-------------L  484 (720)
Q Consensus       429 L~~~sll~~~~~~~~~~~~~~~~~~mHdlv~~~a~~~~~~~~--~~~~~~~~~~~---------~~-------------~  484 (720)
                      |+++||++..          ...+.|||++|+||+++++++.  ..+..|+....         .+             .
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            9999999765          3469999999999999997642  11222332110         00             0


Q ss_pred             c----cCccccccc-------------------------------ceeEEEecccccccCCCCCCCCcccEEEccCCCCc
Q 038398          485 T----EAPEIQNWR-------------------------------NVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLK  529 (720)
Q Consensus       485 ~----~~~~~~~~~-------------------------------~l~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~  529 (720)
                      .    ....+..++                               +||.|.+.++.+..+|....+.+|+.|++.+|.+.
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            0    000122233                               45666666666666666556778999999998888


Q ss_pred             CcchHHhccCCcccEEEccCCCCCccCCccccCCCCCCEEeccCC-CCcccchhhhcCCCCCEEeccCCcCCCCCchhhh
Q 038398          530 MSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSST-AITHLPIELQKLVNLKCLNLEYMNNLNQFPRLVI  608 (720)
Q Consensus       530 ~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~~-~i~~lp~~i~~l~~L~~L~l~~~~~l~~lp~~~~  608 (720)
                      .++.. +..+++|++|+|++|..+..+| .++.+++|++|+|++| .+..+|.+++++++|+.|++++|+.+..+|..  
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~~--  700 (1153)
T PLN03210        625 KLWDG-VHSLTGLRNIDLRGSKNLKEIP-DLSMATNLETLKLSDCSSLVELPSSIQYLNKLEDLDMSRCENLEILPTG--  700 (1153)
T ss_pred             ccccc-cccCCCCCEEECCCCCCcCcCC-ccccCCcccEEEecCCCCccccchhhhccCCCCEEeCCCCCCcCccCCc--
Confidence            77765 6789999999999987777888 4888999999999987 58899999999999999999999999999974  


Q ss_pred             hccccCceeeccccCCCc--------ccchhcccccCCccccHHH------------------------------hcCCC
Q 038398          609 SAFSKLQVLRMFDCGGSK--------IERLKINVLFGGHQFLVEE------------------------------LMGMK  650 (720)
Q Consensus       609 ~~l~~L~~L~~~~~~~~~--------l~~l~~~~~~~~~~~~~~~------------------------------l~~l~  650 (720)
                      ..+++|+.|.+.+|+...        +..+......  -...+..                              ....+
T Consensus       701 i~l~sL~~L~Lsgc~~L~~~p~~~~nL~~L~L~~n~--i~~lP~~~~l~~L~~L~l~~~~~~~l~~~~~~l~~~~~~~~~  778 (1153)
T PLN03210        701 INLKSLYRLNLSGCSRLKSFPDISTNISWLDLDETA--IEEFPSNLRLENLDELILCEMKSEKLWERVQPLTPLMTMLSP  778 (1153)
T ss_pred             CCCCCCCEEeCCCCCCccccccccCCcCeeecCCCc--cccccccccccccccccccccchhhccccccccchhhhhccc
Confidence            378899999998875421        1111000000  0000000                              00113


Q ss_pred             CCceeEEEecchhhHHHHhhhhhhhhhccccccccccCCCccccccccccCCcceeeecCCCCCccc
Q 038398          651 HLMVLTITLKSWQALKELLISQELQRSTQSLFLRCFNDSKSLDIFCLAGLRNLNKLYVAGCKHLEDS  717 (720)
Q Consensus       651 ~L~~L~~~~~~~~~l~~l~~~~~~~~~L~~L~l~~~~~l~~l~~~~l~~l~~L~~L~l~~c~~l~~i  717 (720)
                      +|+.|.++.+.  .+..++.+...+++|+.|++++|+++..+|..  .++++|+.|++++|..++.+
T Consensus       779 sL~~L~Ls~n~--~l~~lP~si~~L~~L~~L~Ls~C~~L~~LP~~--~~L~sL~~L~Ls~c~~L~~~  841 (1153)
T PLN03210        779 SLTRLFLSDIP--SLVELPSSIQNLHKLEHLEIENCINLETLPTG--INLESLESLDLSGCSRLRTF  841 (1153)
T ss_pred             cchheeCCCCC--CccccChhhhCCCCCCEEECCCCCCcCeeCCC--CCccccCEEECCCCCccccc
Confidence            44444444332  12233444455567777777777777776622  25677777777777766544

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=6e-46  Score=382.13  Aligned_cols=281  Identities=35%  Similarity=0.621  Sum_probs=233.1

Q ss_pred             chHHHHHHHHHhcC--CCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHHHHHhCCCCC
Q 038398          131 LESTFDKVWRCLGE--EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKIGRRIGFFDE  208 (720)
Q Consensus       131 r~~~~~~l~~~L~~--~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i~~~l~~~~~  208 (720)
                      ||+++++|.++|.+  ++.++|+|+||||+||||||+.++++. .++.+|+.++|+.++...+...+++.|+.+++....
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            78999999999987  689999999999999999999999995 358999999999999999999999999999988754


Q ss_pred             cc-CCCChhHHHHHHHHHhccCcEEEEEeccccccccccccccCCCCCCCcEEEEEcCChhHhhhhcc-CceeeccCCCh
Q 038398          209 SW-KNGSLEDKTSDILRILGKKKFLLLLDDIWERVDLTKVGIPFPDPENKSKIVFTTHFLEICGALKA-HEFLKVECLGP  286 (720)
Q Consensus       209 ~~-~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~~~~l~~~~~~~~~gs~iiiTtR~~~v~~~~~~-~~~~~l~~L~~  286 (720)
                      .. ...+.++....+.+.+.++++||||||||+...|+.+...++....|++||||||+..++..+.. ...+++++|++
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 45677889999999999999999999999999998888777777789999999999998877665 67899999999


Q ss_pred             hhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCcchHHHHHHHHHhcCCChhHHHHHHHHHhcccCCCCCCCccchhh
Q 038398          287 EDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGLPLALITIGRAMACKKTPQEWHYAIQVLRRSASEFPGMGKEVYPL  366 (720)
Q Consensus       287 ~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~GlPLai~~~~~~l~~~~~~~~w~~~l~~l~~~~~~~~~~~~~~~~~  366 (720)
                      +||++||++.++......++..++++++|+++|+|+||||+++|++|+.+.+..+|+.+++.+.....+..+....+..+
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            99999999998865423445667889999999999999999999999766678999999998888765544455689999


Q ss_pred             HHhhcCCCCCcchhHHHHhhcCCCCCcccChHHHHHHHHhhCCCCcc
Q 038398          367 LKFSYDSLPDDTIRSYLLYCGLFPEDYRIRKSELIDCWIGEGFLDQY  413 (720)
Q Consensus       367 l~~sy~~L~~~~~k~~fl~~~~fp~~~~i~~~~li~~Wiaeg~~~~~  413 (720)
                      +.+||+.||+ ++|.||+|||+||+++.|+++.++++|++|||+...
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 899999999999999999999999999999999764

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=99.61  E-value=2.1e-15  Score=181.69  Aligned_cols=221  Identities=23%  Similarity=0.266  Sum_probs=127.6

Q ss_pred             cccceeEEEecccccccCCCCCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCccCCccccCCCCCCEEec
Q 038398          492 NWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDL  571 (720)
Q Consensus       492 ~~~~l~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L  571 (720)
                      .+++|++|++++|.+........+++|++|++++|.+....+..++++++|++|+|++|.+.+.+|..++++++|++|++
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            55666666666666654333345666777777776665444444666777777777777666666666777777777777


Q ss_pred             cCCCCc-ccchhhhcCCCCCEEeccCCcCCCCCchhhhhccccCceeeccccCCCccc--------chhcccc--cCCcc
Q 038398          572 SSTAIT-HLPIELQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFDCGGSKIE--------RLKINVL--FGGHQ  640 (720)
Q Consensus       572 ~~~~i~-~lp~~i~~l~~L~~L~l~~~~~l~~lp~~~~~~l~~L~~L~~~~~~~~~l~--------~l~~~~~--~~~~~  640 (720)
                      ++|.+. .+|..++++++|++|++++|.....+|.. ++.+++|++|++.++......        .+..-..  .....
T Consensus       196 ~~n~l~~~~p~~l~~l~~L~~L~L~~n~l~~~~p~~-l~~l~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~L~~n~l~~  274 (968)
T PLN00113        196 ASNQLVGQIPRELGQMKSLKWIYLGYNNLSGEIPYE-IGGLTSLNHLDLVYNNLTGPIPSSLGNLKNLQYLFLYQNKLSG  274 (968)
T ss_pred             cCCCCcCcCChHHcCcCCccEEECcCCccCCcCChh-HhcCCCCCEEECcCceeccccChhHhCCCCCCEEECcCCeeec
Confidence            776654 45666677777777777665433345553 566666666666554321100        0000000  00011


Q ss_pred             ccHHHhcCCCCCceeEEEecchhhHHHHhhhhhhhhhccccccccccCCCccccccccccCCcceeeecCCCCCcc
Q 038398          641 FLVEELMGMKHLMVLTITLKSWQALKELLISQELQRSTQSLFLRCFNDSKSLDIFCLAGLRNLNKLYVAGCKHLED  716 (720)
Q Consensus       641 ~~~~~l~~l~~L~~L~~~~~~~~~l~~l~~~~~~~~~L~~L~l~~~~~l~~l~~~~l~~l~~L~~L~l~~c~~l~~  716 (720)
                      ..+..+..+++|+.|+++.|....  .++.....+++|+.|++++|.....++ ..+.++++|+.|++++|.....
T Consensus       275 ~~p~~l~~l~~L~~L~Ls~n~l~~--~~p~~~~~l~~L~~L~l~~n~~~~~~~-~~~~~l~~L~~L~L~~n~l~~~  347 (968)
T PLN00113        275 PIPPSIFSLQKLISLDLSDNSLSG--EIPELVIQLQNLEILHLFSNNFTGKIP-VALTSLPRLQVLQLWSNKFSGE  347 (968)
T ss_pred             cCchhHhhccCcCEEECcCCeecc--CCChhHcCCCCCcEEECCCCccCCcCC-hhHhcCCCCCEEECcCCCCcCc
Confidence            233455666777777776665432  122333345677788877754333443 5577788888888888765433

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

Probab=99.59  E-value=3.9e-16  Score=153.90  Aligned_cols=223  Identities=29%  Similarity=0.386  Sum_probs=162.7

Q ss_pred             cCcccccccceeEEEecccccccCCCCCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCccCCccccCCCC
Q 038398          486 EAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVS  565 (720)
Q Consensus       486 ~~~~~~~~~~l~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~  565 (720)
                      -+|.+..+.++..|++..|++..+|++++|..|..|.+..|.+..+|......+++|.+|||..| .+.+.|..++-|.+
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            35677888889999999999999999999999999999999999999888889999999999999 66799999999999


Q ss_pred             CCEEeccCCCCcccchhhhcCCCCCEEeccCCcCCCCCchhh--------------------------------------
Q 038398          566 LEHLDLSSTAITHLPIELQKLVNLKCLNLEYMNNLNQFPRLV--------------------------------------  607 (720)
Q Consensus       566 L~~L~L~~~~i~~lp~~i~~l~~L~~L~l~~~~~l~~lp~~~--------------------------------------  607 (720)
                      |.+||+++|.|+.+|.+++++ .|+.|-+.|| .+..+...+                                      
T Consensus       277 L~rLDlSNN~is~Lp~sLgnl-hL~~L~leGN-PlrTiRr~ii~~gT~~vLKyLrs~~~~dglS~se~~~e~~~t~~~~~  354 (565)
T KOG0472|consen  277 LERLDLSNNDISSLPYSLGNL-HLKFLALEGN-PLRTIRREIISKGTQEVLKYLRSKIKDDGLSQSEGGTETAMTLPSES  354 (565)
T ss_pred             hhhhcccCCccccCCcccccc-eeeehhhcCC-chHHHHHHHHcccHHHHHHHHHHhhccCCCCCCcccccccCCCCCCc
Confidence            999999999999999999999 8999988874 222211110                                      


Q ss_pred             ---hhccccCcee-----------------------eccccCCCcccchhccc---------------------------
Q 038398          608 ---ISAFSKLQVL-----------------------RMFDCGGSKIERLKINV---------------------------  634 (720)
Q Consensus       608 ---~~~l~~L~~L-----------------------~~~~~~~~~l~~l~~~~---------------------------  634 (720)
                         ...+.+.+.|                       ...+++.|++.++|-..                           
T Consensus       355 ~~~~~~~i~tkiL~~s~~qlt~VPdEVfea~~~~~Vt~VnfskNqL~elPk~L~~lkelvT~l~lsnn~isfv~~~l~~l  434 (565)
T KOG0472|consen  355 FPDIYAIITTKILDVSDKQLTLVPDEVFEAAKSEIVTSVNFSKNQLCELPKRLVELKELVTDLVLSNNKISFVPLELSQL  434 (565)
T ss_pred             ccchhhhhhhhhhcccccccccCCHHHHHHhhhcceEEEecccchHhhhhhhhHHHHHHHHHHHhhcCccccchHHHHhh
Confidence               1111122222                       22234455555544111                           


Q ss_pred             --------ccCCccccHHHhcCCCCCceeEEEecchhhHHHHhh--------------------h-hhhhhhcccccccc
Q 038398          635 --------LFGGHQFLVEELMGMKHLMVLTITLKSWQALKELLI--------------------S-QELQRSTQSLFLRC  685 (720)
Q Consensus       635 --------~~~~~~~~~~~l~~l~~L~~L~~~~~~~~~l~~l~~--------------------~-~~~~~~L~~L~l~~  685 (720)
                              .++.-...+.+++.+..|+.|++++|.+..++.+.-                    + ...+.+|..|++.+
T Consensus       435 ~kLt~L~L~NN~Ln~LP~e~~~lv~Lq~LnlS~NrFr~lP~~~y~lq~lEtllas~nqi~~vd~~~l~nm~nL~tLDL~n  514 (565)
T KOG0472|consen  435 QKLTFLDLSNNLLNDLPEEMGSLVRLQTLNLSFNRFRMLPECLYELQTLETLLASNNQIGSVDPSGLKNMRNLTTLDLQN  514 (565)
T ss_pred             hcceeeecccchhhhcchhhhhhhhhheecccccccccchHHHhhHHHHHHHHhccccccccChHHhhhhhhcceeccCC
Confidence                    001112346677777888999998887755544321                    1 23566888889887


Q ss_pred             ccCCCccccccccccCCcceeeecCCCC
Q 038398          686 FNDSKSLDIFCLAGLRNLNKLYVAGCKH  713 (720)
Q Consensus       686 ~~~l~~l~~~~l~~l~~L~~L~l~~c~~  713 (720)
                       |.+.++| ..+++|.+|++|+|.||+-
T Consensus       515 -Ndlq~IP-p~LgnmtnL~hLeL~gNpf  540 (565)
T KOG0472|consen  515 -NDLQQIP-PILGNMTNLRHLELDGNPF  540 (565)
T ss_pred             -CchhhCC-hhhccccceeEEEecCCcc
Confidence             6677887 6789999999999999884

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

Probab=99.58  E-value=8.2e-15  Score=176.54  Aligned_cols=220  Identities=19%  Similarity=0.217  Sum_probs=141.0

Q ss_pred             ccccceeEEEeccccccc-CCC-CCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCccCCccccCCCCCCE
Q 038398          491 QNWRNVRRMSLMKNKIEN-LSE-TPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVSLEH  568 (720)
Q Consensus       491 ~~~~~l~~L~l~~~~~~~-~~~-~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~  568 (720)
                      ..+++|++|++++|.+.. +|. +..+++|++|++++|.+....+..+.++++|++|+|++|.+.+.+|..++++.+|++
T Consensus       137 ~~l~~L~~L~Ls~n~~~~~~p~~~~~l~~L~~L~L~~n~l~~~~p~~~~~l~~L~~L~L~~n~l~~~~p~~l~~l~~L~~  216 (968)
T PLN00113        137 GSIPNLETLDLSNNMLSGEIPNDIGSFSSLKVLDLGGNVLVGKIPNSLTNLTSLEFLTLASNQLVGQIPRELGQMKSLKW  216 (968)
T ss_pred             cccCCCCEEECcCCcccccCChHHhcCCCCCEEECccCcccccCChhhhhCcCCCeeeccCCCCcCcCChHHcCcCCccE
Confidence            345667777777776643 232 356677777777777665554455677777777777777666667777777777777


Q ss_pred             EeccCCCCc-ccchhhhcCCCCCEEeccCCcCCCCCchhhhhccccCceeeccccCCCccc--------chhcccc--cC
Q 038398          569 LDLSSTAIT-HLPIELQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFDCGGSKIE--------RLKINVL--FG  637 (720)
Q Consensus       569 L~L~~~~i~-~lp~~i~~l~~L~~L~l~~~~~l~~lp~~~~~~l~~L~~L~~~~~~~~~l~--------~l~~~~~--~~  637 (720)
                      |+|++|.+. .+|..++++++|++|++++|.....+|.. ++.+++|+.|.+.++......        .+..-..  ..
T Consensus       217 L~L~~n~l~~~~p~~l~~l~~L~~L~L~~n~l~~~~p~~-l~~l~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~n~  295 (968)
T PLN00113        217 IYLGYNNLSGEIPYEIGGLTSLNHLDLVYNNLTGPIPSS-LGNLKNLQYLFLYQNKLSGPIPPSIFSLQKLISLDLSDNS  295 (968)
T ss_pred             EECcCCccCCcCChhHhcCCCCCEEECcCceeccccChh-HhCCCCCCEEECcCCeeeccCchhHhhccCcCEEECcCCe
Confidence            777777665 56666777777777777765433345543 666666766666554321100        0000000  01


Q ss_pred             CccccHHHhcCCCCCceeEEEecchhhHHHHhhhhhhhhhccccccccccCCCccccccccccCCcceeeecCCCCC
Q 038398          638 GHQFLVEELMGMKHLMVLTITLKSWQALKELLISQELQRSTQSLFLRCFNDSKSLDIFCLAGLRNLNKLYVAGCKHL  714 (720)
Q Consensus       638 ~~~~~~~~l~~l~~L~~L~~~~~~~~~l~~l~~~~~~~~~L~~L~l~~~~~l~~l~~~~l~~l~~L~~L~l~~c~~l  714 (720)
                      .....+..+..+++|+.|.+..|.+...  ++.....+++|+.|++++|+....+| ..++.+++|+.|++++|..-
T Consensus       296 l~~~~p~~~~~l~~L~~L~l~~n~~~~~--~~~~~~~l~~L~~L~L~~n~l~~~~p-~~l~~~~~L~~L~Ls~n~l~  369 (968)
T PLN00113        296 LSGEIPELVIQLQNLEILHLFSNNFTGK--IPVALTSLPRLQVLQLWSNKFSGEIP-KNLGKHNNLTVLDLSTNNLT  369 (968)
T ss_pred             eccCCChhHcCCCCCcEEECCCCccCCc--CChhHhcCCCCCEEECcCCCCcCcCC-hHHhCCCCCcEEECCCCeeE
Confidence            1223455678899999999998876532  23334456799999999866544555 67889999999999998643

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

Probab=99.58  E-value=8.8e-16  Score=158.12  Aligned_cols=221  Identities=23%  Similarity=0.262  Sum_probs=145.9

Q ss_pred             cccccccceeEEEecccccccCC--CCCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCccCCccccCCCC
Q 038398          488 PEIQNWRNVRRMSLMKNKIENLS--ETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVS  565 (720)
Q Consensus       488 ~~~~~~~~l~~L~l~~~~~~~~~--~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~  565 (720)
                      +++..-.++.+|+|.+|.|..+.  .+.++.+|.+|.|+.|.++.+|...|+++++|+.|+|..|++...-...|.+|++
T Consensus       167 ~sfp~~~ni~~L~La~N~It~l~~~~F~~lnsL~tlkLsrNrittLp~r~Fk~L~~L~~LdLnrN~irive~ltFqgL~S  246 (873)
T KOG4194|consen  167 PSFPAKVNIKKLNLASNRITTLETGHFDSLNSLLTLKLSRNRITTLPQRSFKRLPKLESLDLNRNRIRIVEGLTFQGLPS  246 (873)
T ss_pred             CCCCCCCCceEEeeccccccccccccccccchheeeecccCcccccCHHHhhhcchhhhhhccccceeeehhhhhcCchh
Confidence            34555568899999999988764  3467778999999999999999988999999999999999554332556778888


Q ss_pred             CCEEeccCCCCcccchh-hhcCCCCCEEeccCCcCCCCCchhhhhccccCceeeccccCCCcccchhccc----------
Q 038398          566 LEHLDLSSTAITHLPIE-LQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKINV----------  634 (720)
Q Consensus       566 L~~L~L~~~~i~~lp~~-i~~l~~L~~L~l~~~~~l~~lp~~~~~~l~~L~~L~~~~~~~~~l~~l~~~~----------  634 (720)
                      |+.|.|..|.|..+..+ |..|.++++|+|.. |++..+..+.+-+|++|+.|+++   +|.|.+++...          
T Consensus       247 l~nlklqrN~I~kL~DG~Fy~l~kme~l~L~~-N~l~~vn~g~lfgLt~L~~L~lS---~NaI~rih~d~WsftqkL~~L  322 (873)
T KOG4194|consen  247 LQNLKLQRNDISKLDDGAFYGLEKMEHLNLET-NRLQAVNEGWLFGLTSLEQLDLS---YNAIQRIHIDSWSFTQKLKEL  322 (873)
T ss_pred             hhhhhhhhcCcccccCcceeeecccceeeccc-chhhhhhcccccccchhhhhccc---hhhhheeecchhhhcccceeE
Confidence            88888888888777554 66777778888777 45566655444445555444443   34444443211          


Q ss_pred             ---ccCCccccHHHhcCCCCCceeEEEecchhhHHH-------------------------Hhhhhhhhhhccccccccc
Q 038398          635 ---LFGGHQFLVEELMGMKHLMVLTITLKSWQALKE-------------------------LLISQELQRSTQSLFLRCF  686 (720)
Q Consensus       635 ---~~~~~~~~~~~l~~l~~L~~L~~~~~~~~~l~~-------------------------l~~~~~~~~~L~~L~l~~~  686 (720)
                         ++..+......+..+.+|+.|.++.|.+..+.+                         -...++.+++|+.|.+.+ 
T Consensus       323 dLs~N~i~~l~~~sf~~L~~Le~LnLs~Nsi~~l~e~af~~lssL~~LdLr~N~ls~~IEDaa~~f~gl~~LrkL~l~g-  401 (873)
T KOG4194|consen  323 DLSSNRITRLDEGSFRVLSQLEELNLSHNSIDHLAEGAFVGLSSLHKLDLRSNELSWCIEDAAVAFNGLPSLRKLRLTG-  401 (873)
T ss_pred             eccccccccCChhHHHHHHHhhhhcccccchHHHHhhHHHHhhhhhhhcCcCCeEEEEEecchhhhccchhhhheeecC-
Confidence               111122223333444444555555444433321                         112234566777787777 


Q ss_pred             cCCCccccccccccCCcceeeecCCCC
Q 038398          687 NDSKSLDIFCLAGLRNLNKLYVAGCKH  713 (720)
Q Consensus       687 ~~l~~l~~~~l~~l~~L~~L~l~~c~~  713 (720)
                      |+++.++...|.++++|+.|+|.+|..
T Consensus       402 Nqlk~I~krAfsgl~~LE~LdL~~Nai  428 (873)
T KOG4194|consen  402 NQLKSIPKRAFSGLEALEHLDLGDNAI  428 (873)
T ss_pred             ceeeecchhhhccCcccceecCCCCcc
Confidence            778888888888899999999988873

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

Probab=99.56  E-value=3.3e-16  Score=162.05  Aligned_cols=218  Identities=25%  Similarity=0.368  Sum_probs=158.1

Q ss_pred             ccEEEEcCCCCccCc-ccccccceeEEEecccccccCC-CCCCCCcccEEEccCCCC--cCcchHHhccCCcccEEEccC
Q 038398          474 ENFLVHAGLGLTEAP-EIQNWRNVRRMSLMKNKIENLS-ETPTCPHLLSLFLSDNSL--KMSTDDFFQSMPSLRVFNMSN  549 (720)
Q Consensus       474 ~~~~~~~~~~~~~~~-~~~~~~~l~~L~l~~~~~~~~~-~~~~~~~L~~L~l~~~~~--~~~~~~~~~~l~~L~~L~L~~  549 (720)
                      -.|+......+..+| .+..+.+|.+|++..|.+..+. .++.++.||++.+..|++  .++|++ +-.|.-|.+||||+
T Consensus        34 ~~WLkLnrt~L~~vPeEL~~lqkLEHLs~~HN~L~~vhGELs~Lp~LRsv~~R~N~LKnsGiP~d-iF~l~dLt~lDLSh  112 (1255)
T KOG0444|consen   34 MTWLKLNRTKLEQVPEELSRLQKLEHLSMAHNQLISVHGELSDLPRLRSVIVRDNNLKNSGIPTD-IFRLKDLTILDLSH  112 (1255)
T ss_pred             eeEEEechhhhhhChHHHHHHhhhhhhhhhhhhhHhhhhhhccchhhHHHhhhccccccCCCCch-hcccccceeeecch
Confidence            367777776666665 5678889999999999886653 458889999999998855  467777 45689999999999


Q ss_pred             CCCCccCCccccCCCCCCEEeccCCCCcccchh-hhcCCCCCEEeccCCcCCCCCchhhhhccccCceeeccccCCCccc
Q 038398          550 NHLLWKLPSGISTLVSLEHLDLSSTAITHLPIE-LQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFDCGGSKIE  628 (720)
Q Consensus       550 ~~~~~~lp~~i~~l~~L~~L~L~~~~i~~lp~~-i~~l~~L~~L~l~~~~~l~~lp~~~~~~l~~L~~L~~~~~~~~~l~  628 (720)
                      | .+.+.|..+..-.++-.|+||+|+|..+|.. +.+|+.|-+|||++ |.+..+|+. +..|..|++|.+++..-+.  
T Consensus       113 N-qL~EvP~~LE~AKn~iVLNLS~N~IetIPn~lfinLtDLLfLDLS~-NrLe~LPPQ-~RRL~~LqtL~Ls~NPL~h--  187 (1255)
T KOG0444|consen  113 N-QLREVPTNLEYAKNSIVLNLSYNNIETIPNSLFINLTDLLFLDLSN-NRLEMLPPQ-IRRLSMLQTLKLSNNPLNH--  187 (1255)
T ss_pred             h-hhhhcchhhhhhcCcEEEEcccCccccCCchHHHhhHhHhhhcccc-chhhhcCHH-HHHHhhhhhhhcCCChhhH--
Confidence            9 5568999999999999999999999999976 77899999999998 788889885 7888888888777533222  


Q ss_pred             chhcccccCCccccHHHhcCCCCCceeEEEecchhhHHHHhhhhhhhhhccccccccccCCCccccccccccCCcceeee
Q 038398          629 RLKINVLFGGHQFLVEELMGMKHLMVLTITLKSWQALKELLISQELQRSTQSLFLRCFNDSKSLDIFCLAGLRNLNKLYV  708 (720)
Q Consensus       629 ~l~~~~~~~~~~~~~~~l~~l~~L~~L~~~~~~~~~l~~l~~~~~~~~~L~~L~l~~~~~l~~l~~~~l~~l~~L~~L~l  708 (720)
                                  ..+..+.++++|++|.+++..- .+..++.+...+.+|..++++. |++..+| .++-++++|+.|+|
T Consensus       188 ------------fQLrQLPsmtsL~vLhms~TqR-Tl~N~Ptsld~l~NL~dvDlS~-N~Lp~vP-ecly~l~~LrrLNL  252 (1255)
T KOG0444|consen  188 ------------FQLRQLPSMTSLSVLHMSNTQR-TLDNIPTSLDDLHNLRDVDLSE-NNLPIVP-ECLYKLRNLRRLNL  252 (1255)
T ss_pred             ------------HHHhcCccchhhhhhhcccccc-hhhcCCCchhhhhhhhhccccc-cCCCcch-HHHhhhhhhheecc
Confidence                        1233444555555555553322 2344455555556667777663 5566665 55666667777777


Q ss_pred             cCCC
Q 038398          709 AGCK  712 (720)
Q Consensus       709 ~~c~  712 (720)
                      ++|.
T Consensus       253 S~N~  256 (1255)
T KOG0444|consen  253 SGNK  256 (1255)
T ss_pred             CcCc
Confidence            6665

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

Probab=99.54  E-value=1.1e-15  Score=158.38  Aligned_cols=217  Identities=24%  Similarity=0.214  Sum_probs=136.0

Q ss_pred             cccceeEEEecccccccCCCC-CCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCC-CccCCccccCCCCCCEE
Q 038398          492 NWRNVRRMSLMKNKIENLSET-PTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHL-LWKLPSGISTLVSLEHL  569 (720)
Q Consensus       492 ~~~~l~~L~l~~~~~~~~~~~-~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~-~~~lp~~i~~l~~L~~L  569 (720)
                      ++..|-.|+|++|.+..+|+. ..+.+|++|.+++|.+....-.-+..|++|.+|.+++++- ...+|.++..|.+|+.+
T Consensus       148 nLtDLLfLDLS~NrLe~LPPQ~RRL~~LqtL~Ls~NPL~hfQLrQLPsmtsL~vLhms~TqRTl~N~Ptsld~l~NL~dv  227 (1255)
T KOG0444|consen  148 NLTDLLFLDLSNNRLEMLPPQIRRLSMLQTLKLSNNPLNHFQLRQLPSMTSLSVLHMSNTQRTLDNIPTSLDDLHNLRDV  227 (1255)
T ss_pred             hhHhHhhhccccchhhhcCHHHHHHhhhhhhhcCCChhhHHHHhcCccchhhhhhhcccccchhhcCCCchhhhhhhhhc
Confidence            334444455555555444432 3444555555555544333222233445555555555432 23467777777788888


Q ss_pred             eccCCCCcccchhhhcCCCCCEEeccCCcCCCCCchhhhhccccCceeeccccCCCcccchhccccc-------------
Q 038398          570 DLSSTAITHLPIELQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKINVLF-------------  636 (720)
Q Consensus       570 ~L~~~~i~~lp~~i~~l~~L~~L~l~~~~~l~~lp~~~~~~l~~L~~L~~~~~~~~~l~~l~~~~~~-------------  636 (720)
                      ++|.|.+..+|+.+-++++|+.|+|++ |.++.+... .+.+.+|++|+++   .|+++.+|...+.             
T Consensus       228 DlS~N~Lp~vPecly~l~~LrrLNLS~-N~iteL~~~-~~~W~~lEtLNlS---rNQLt~LP~avcKL~kL~kLy~n~Nk  302 (1255)
T KOG0444|consen  228 DLSENNLPIVPECLYKLRNLRRLNLSG-NKITELNMT-EGEWENLETLNLS---RNQLTVLPDAVCKLTKLTKLYANNNK  302 (1255)
T ss_pred             cccccCCCcchHHHhhhhhhheeccCc-Cceeeeecc-HHHHhhhhhhccc---cchhccchHHHhhhHHHHHHHhccCc
Confidence            888887777887777788888888877 556666554 5556666655544   4555555532110             


Q ss_pred             CCccccHHHhcCCCCCceeEEEecchhhHHHHhhhhhhhhhccccccccccCCCccccccccccCCcceeeecCCCCCcc
Q 038398          637 GGHQFLVEELMGMKHLMVLTITLKSWQALKELLISQELQRSTQSLFLRCFNDSKSLDIFCLAGLRNLNKLYVAGCKHLED  716 (720)
Q Consensus       637 ~~~~~~~~~l~~l~~L~~L~~~~~~~~~l~~l~~~~~~~~~L~~L~l~~~~~l~~l~~~~l~~l~~L~~L~l~~c~~l~~  716 (720)
                      -....++.+++.+.+|+.+....|.+.-.   +.....+..|+.|.|+. |.+.++| ..+.-++.|+.|++.+|++|--
T Consensus       303 L~FeGiPSGIGKL~~Levf~aanN~LElV---PEglcRC~kL~kL~L~~-NrLiTLP-eaIHlL~~l~vLDlreNpnLVM  377 (1255)
T KOG0444|consen  303 LTFEGIPSGIGKLIQLEVFHAANNKLELV---PEGLCRCVKLQKLKLDH-NRLITLP-EAIHLLPDLKVLDLRENPNLVM  377 (1255)
T ss_pred             ccccCCccchhhhhhhHHHHhhccccccC---chhhhhhHHHHHhcccc-cceeech-hhhhhcCCcceeeccCCcCccC
Confidence            01233566777778887777776665433   44555667899999984 8888888 7888899999999999999875


Q ss_pred             cc
Q 038398          717 SQ  718 (720)
Q Consensus       717 i~  718 (720)
                      .|
T Consensus       378 PP  379 (1255)
T KOG0444|consen  378 PP  379 (1255)
T ss_pred             CC
Confidence            54

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

Probab=99.54  E-value=1.2e-15  Score=157.11  Aligned_cols=101  Identities=27%  Similarity=0.360  Sum_probs=43.6

Q ss_pred             eeEEEecccccccCCC--CCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCccCCccccCCCCCCEEeccC
Q 038398          496 VRRMSLMKNKIENLSE--TPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSS  573 (720)
Q Consensus       496 l~~L~l~~~~~~~~~~--~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~  573 (720)
                      +..|+|..|.|..+.+  +..++.|++|+|+.|.+..++...|..=.++++|+|++|++...--..|.+|.+|-+|.|+.
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            4444444444443322  13344444444444444444433333334444444444433332233344444444444444


Q ss_pred             CCCcccchh-hhcCCCCCEEeccC
Q 038398          574 TAITHLPIE-LQKLVNLKCLNLEY  596 (720)
Q Consensus       574 ~~i~~lp~~-i~~l~~L~~L~l~~  596 (720)
                      |+|+.+|.- |.+|++|+.|+|..
T Consensus       207 NrittLp~r~Fk~L~~L~~LdLnr  230 (873)
T KOG4194|consen  207 NRITTLPQRSFKRLPKLESLDLNR  230 (873)
T ss_pred             CcccccCHHHhhhcchhhhhhccc
Confidence            444444432 33344444444444

>PLN03210 Resistant to P

Probab=99.52  E-value=8e-14  Score=168.31  Aligned_cols=125  Identities=28%  Similarity=0.351  Sum_probs=86.6

Q ss_pred             EEEcCCCCccCcccccccceeEEEecccccccCCC-CCCCCcccEEEccCCC-CcCcchHHhccCCcccEEEccCCCCCc
Q 038398          477 LVHAGLGLTEAPEIQNWRNVRRMSLMKNKIENLSE-TPTCPHLLSLFLSDNS-LKMSTDDFFQSMPSLRVFNMSNNHLLW  554 (720)
Q Consensus       477 ~~~~~~~~~~~~~~~~~~~l~~L~l~~~~~~~~~~-~~~~~~L~~L~l~~~~-~~~~~~~~~~~l~~L~~L~L~~~~~~~  554 (720)
                      +.+.+......|....+.+|+.|++.+|.+..++. ...+++|+.|++++|. +..+|.  +..+++|+.|+|++|....
T Consensus       594 L~~~~~~l~~lP~~f~~~~L~~L~L~~s~l~~L~~~~~~l~~Lk~L~Ls~~~~l~~ip~--ls~l~~Le~L~L~~c~~L~  671 (1153)
T PLN03210        594 LRWDKYPLRCMPSNFRPENLVKLQMQGSKLEKLWDGVHSLTGLRNIDLRGSKNLKEIPD--LSMATNLETLKLSDCSSLV  671 (1153)
T ss_pred             EEecCCCCCCCCCcCCccCCcEEECcCccccccccccccCCCCCEEECCCCCCcCcCCc--cccCCcccEEEecCCCCcc
Confidence            33444444555555566788888888888776654 3567788888887763 444443  6677888888888877777


Q ss_pred             cCCccccCCCCCCEEeccCC-CCcccchhhhcCCCCCEEeccCCcCCCCCc
Q 038398          555 KLPSGISTLVSLEHLDLSST-AITHLPIELQKLVNLKCLNLEYMNNLNQFP  604 (720)
Q Consensus       555 ~lp~~i~~l~~L~~L~L~~~-~i~~lp~~i~~l~~L~~L~l~~~~~l~~lp  604 (720)
                      .+|..++++++|++|++++| .++.+|..+ ++++|+.|++++|..+..+|
T Consensus       672 ~lp~si~~L~~L~~L~L~~c~~L~~Lp~~i-~l~sL~~L~Lsgc~~L~~~p  721 (1153)
T PLN03210        672 ELPSSIQYLNKLEDLDMSRCENLEILPTGI-NLKSLYRLNLSGCSRLKSFP  721 (1153)
T ss_pred             ccchhhhccCCCCEEeCCCCCCcCccCCcC-CCCCCCEEeCCCCCCccccc
Confidence            77888888888888888776 577777655 67777777777775554444

syringae 6; Provisional

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

Probab=99.51  E-value=6e-16  Score=135.13  Aligned_cols=163  Identities=25%  Similarity=0.337  Sum_probs=101.1

Q ss_pred             CCCCCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCccCCccccCCCCCCEEeccCCCCcccchhhhcCCC
Q 038398          509 LSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSSTAITHLPIELQKLVN  588 (720)
Q Consensus       509 ~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~~~i~~lp~~i~~l~~  588 (720)
                      ++.+.++.+...|.+++|.++.+||. +..+.+|++|++++| .+.++|.+++.++.|+.|++..|++..+|.+|+.++.
T Consensus        26 ~~gLf~~s~ITrLtLSHNKl~~vppn-ia~l~nlevln~~nn-qie~lp~~issl~klr~lnvgmnrl~~lprgfgs~p~  103 (264)
T KOG0617|consen   26 LPGLFNMSNITRLTLSHNKLTVVPPN-IAELKNLEVLNLSNN-QIEELPTSISSLPKLRILNVGMNRLNILPRGFGSFPA  103 (264)
T ss_pred             cccccchhhhhhhhcccCceeecCCc-HHHhhhhhhhhcccc-hhhhcChhhhhchhhhheecchhhhhcCccccCCCch
Confidence            44445556666677777777777666 667777777777777 4457777777777777777777777777777777777


Q ss_pred             CCEEeccCCcCC-CCCchhhhhccccCceeeccccCCCcccchhcccccCCccccHHHhcCCCCCceeEEEecchhhHHH
Q 038398          589 LKCLNLEYMNNL-NQFPRLVISAFSKLQVLRMFDCGGSKIERLKINVLFGGHQFLVEELMGMKHLMVLTITLKSWQALKE  667 (720)
Q Consensus       589 L~~L~l~~~~~l-~~lp~~~~~~l~~L~~L~~~~~~~~~l~~l~~~~~~~~~~~~~~~l~~l~~L~~L~~~~~~~~~l~~  667 (720)
                      |+.||+.+++.- +.+|+    ++-.+++|....++.|.++            ..+.+++.+++|+.|.+..|+.-++  
T Consensus       104 levldltynnl~e~~lpg----nff~m~tlralyl~dndfe------------~lp~dvg~lt~lqil~lrdndll~l--  165 (264)
T KOG0617|consen  104 LEVLDLTYNNLNENSLPG----NFFYMTTLRALYLGDNDFE------------ILPPDVGKLTNLQILSLRDNDLLSL--  165 (264)
T ss_pred             hhhhhccccccccccCCc----chhHHHHHHHHHhcCCCcc------------cCChhhhhhcceeEEeeccCchhhC--
Confidence            777777774321 22443    2323333444444445422            3445567777777777766665433  


Q ss_pred             HhhhhhhhhhccccccccccCCCccc
Q 038398          668 LLISQELQRSTQSLFLRCFNDSKSLD  693 (720)
Q Consensus       668 l~~~~~~~~~L~~L~l~~~~~l~~l~  693 (720)
                       +...+.++.|+.|++.+ +.++.+|
T Consensus       166 -pkeig~lt~lrelhiqg-nrl~vlp  189 (264)
T KOG0617|consen  166 -PKEIGDLTRLRELHIQG-NRLTVLP  189 (264)
T ss_pred             -cHHHHHHHHHHHHhccc-ceeeecC
Confidence             34445556777777776 5566665

>PRK04841 transcriptional regulator MalT; Provisional

Probab=99.46  E-value=5.7e-12  Score=151.13  Aligned_cols=298  Identities=16%  Similarity=0.201  Sum_probs=183.0

Q ss_pred             cCCCCCCCcCchHHHHHHHHHhcCCCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecC-cCCHHHHHHHH
Q 038398          121 DQRPCEPTVGLESTFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSK-DLQLEKIQEKI  199 (720)
Q Consensus       121 ~~~~~~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~-~~~~~~~~~~i  199 (720)
                      +|+....+|-|..-.+.+-..   ...+++.|.|++|.||||++..+.+..    .   .++|+++.. +.+...+...+
T Consensus         9 ~p~~~~~~~~R~rl~~~l~~~---~~~~~~~v~apaG~GKTtl~~~~~~~~----~---~~~w~~l~~~d~~~~~f~~~l   78 (903)
T PRK04841          9 RPVRLHNTVVRERLLAKLSGA---NNYRLVLVTSPAGYGKTTLISQWAAGK----N---NLGWYSLDESDNQPERFASYL   78 (903)
T ss_pred             CCCCccccCcchHHHHHHhcc---cCCCeEEEECCCCCCHHHHHHHHHHhC----C---CeEEEecCcccCCHHHHHHHH
Confidence            344446778888766666432   356899999999999999999988643    1   589999964 45666677777


Q ss_pred             HHHhCCCCCc-----------cCCCChhHHHHHHHHHhc--cCcEEEEEecccccc--ccc-cccccCCCCCCCcEEEEE
Q 038398          200 GRRIGFFDES-----------WKNGSLEDKTSDILRILG--KKKFLLLLDDIWERV--DLT-KVGIPFPDPENKSKIVFT  263 (720)
Q Consensus       200 ~~~l~~~~~~-----------~~~~~~~~~~~~l~~~l~--~k~~LlVlDdv~~~~--~~~-~l~~~~~~~~~gs~iiiT  263 (720)
                      +..+......           ....+.......+...+.  +.+++|||||+....  ... .+...+.....+.++|||
T Consensus        79 ~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~lvlDD~h~~~~~~~~~~l~~l~~~~~~~~~lv~~  158 (903)
T PRK04841         79 IAALQQATNGHCSKSEALAQKRQYASLSSLFAQLFIELADWHQPLYLVIDDYHLITNPEIHEAMRFFLRHQPENLTLVVL  158 (903)
T ss_pred             HHHHHHhcCcccchhhhhhccCCcCCHHHHHHHHHHHHhcCCCCEEEEEeCcCcCCChHHHHHHHHHHHhCCCCeEEEEE
Confidence            7777421111           001122233333444333  579999999996532  111 222122233456788899


Q ss_pred             cCChhHhh--hh-ccCceeecc----CCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCcchHHHHHHHHHhcC
Q 038398          264 THFLEICG--AL-KAHEFLKVE----CLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGLPLALITIGRAMACK  336 (720)
Q Consensus       264 tR~~~v~~--~~-~~~~~~~l~----~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~GlPLai~~~~~~l~~~  336 (720)
                      ||...-..  .. ......++.    +|+.+|+.+||....+..      --.+...+|.+.|+|.|+++..++..+...
T Consensus       159 sR~~~~~~~~~l~~~~~~~~l~~~~l~f~~~e~~~ll~~~~~~~------~~~~~~~~l~~~t~Gwp~~l~l~~~~~~~~  232 (903)
T PRK04841        159 SRNLPPLGIANLRVRDQLLEIGSQQLAFDHQEAQQFFDQRLSSP------IEAAESSRLCDDVEGWATALQLIALSARQN  232 (903)
T ss_pred             eCCCCCCchHhHHhcCcceecCHHhCCCCHHHHHHHHHhccCCC------CCHHHHHHHHHHhCChHHHHHHHHHHHhhC
Confidence            99743211  11 112244555    999999999998765432      124567899999999999999988777543


Q ss_pred             CChhHHHHHHHHHhcccCCCCCC-CccchhhHHh-hcCCCCCcchhHHHHhhcCCCCCcccChHHHHHHHHhhCCCCccc
Q 038398          337 KTPQEWHYAIQVLRRSASEFPGM-GKEVYPLLKF-SYDSLPDDTIRSYLLYCGLFPEDYRIRKSELIDCWIGEGFLDQYD  414 (720)
Q Consensus       337 ~~~~~w~~~l~~l~~~~~~~~~~-~~~~~~~l~~-sy~~L~~~~~k~~fl~~~~fp~~~~i~~~~li~~Wiaeg~~~~~~  414 (720)
                      .....  .....+       .+. ...+...+.- .++.||+ ..+.++...|+++   .++.. +..     .+..   
T Consensus       233 ~~~~~--~~~~~~-------~~~~~~~~~~~l~~~v~~~l~~-~~~~~l~~~a~~~---~~~~~-l~~-----~l~~---  290 (903)
T PRK04841        233 NSSLH--DSARRL-------AGINASHLSDYLVEEVLDNVDL-ETRHFLLRCSVLR---SMNDA-LIV-----RVTG---  290 (903)
T ss_pred             CCchh--hhhHhh-------cCCCchhHHHHHHHHHHhcCCH-HHHHHHHHhcccc---cCCHH-HHH-----HHcC---
Confidence            21100  111111       110 1234444433 4789999 8999999999996   33332 221     1111   


Q ss_pred             chhhHHhHHHHHHHHHHhccccccCCCCCcccCCceEEEehHHHHHHHHHHH
Q 038398          415 RSGAYNEGYYIIGILLHACLLEEEGGDIGEEESGEHVVKMHDVIRDMVLWIA  466 (720)
Q Consensus       415 ~~~~~~~~~~~~~~L~~~sll~~~~~~~~~~~~~~~~~~mHdlv~~~a~~~~  466 (720)
                          .+.+...+++|...+++....      ++....|+.|++++++.+...
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                123467799999999865321      111346888999999988765

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

Probab=99.42  E-value=4.2e-15  Score=129.86  Aligned_cols=163  Identities=28%  Similarity=0.418  Sum_probs=117.8

Q ss_pred             CccCcccccccceeEEEecccccccCCC-CCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCccCCccccC
Q 038398          484 LTEAPEIQNWRNVRRMSLMKNKIENLSE-TPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGIST  562 (720)
Q Consensus       484 ~~~~~~~~~~~~l~~L~l~~~~~~~~~~-~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~  562 (720)
                      +.+++.+.++.++.+|.++.|++..+|. +..+.+|++|++++|.+..+|.. ++.+++|+.|+++.|+ ...+|..|+.
T Consensus        23 f~~~~gLf~~s~ITrLtLSHNKl~~vppnia~l~nlevln~~nnqie~lp~~-issl~klr~lnvgmnr-l~~lprgfgs  100 (264)
T KOG0617|consen   23 FEELPGLFNMSNITRLTLSHNKLTVVPPNIAELKNLEVLNLSNNQIEELPTS-ISSLPKLRILNVGMNR-LNILPRGFGS  100 (264)
T ss_pred             HhhcccccchhhhhhhhcccCceeecCCcHHHhhhhhhhhcccchhhhcChh-hhhchhhhheecchhh-hhcCccccCC
Confidence            3455666677778888888888876654 47778888888888888888776 7788888888888774 4477888888


Q ss_pred             CCCCCEEeccCCCCc--ccchhhhcCCCCCEEeccCCcCCCCCchhhhhccccCceeeccccCCCcccchhcccccCCcc
Q 038398          563 LVSLEHLDLSSTAIT--HLPIELQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKINVLFGGHQ  640 (720)
Q Consensus       563 l~~L~~L~L~~~~i~--~lp~~i~~l~~L~~L~l~~~~~l~~lp~~~~~~l~~L~~L~~~~~~~~~l~~l~~~~~~~~~~  640 (720)
                      ++.|+.|+|.+|.+.  .+|..|-.++.|+.|++++ +.++-+|+. ++++++|+.|.+.+   |.+.            
T Consensus       101 ~p~levldltynnl~e~~lpgnff~m~tlralyl~d-ndfe~lp~d-vg~lt~lqil~lrd---ndll------------  163 (264)
T KOG0617|consen  101 FPALEVLDLTYNNLNENSLPGNFFYMTTLRALYLGD-NDFEILPPD-VGKLTNLQILSLRD---NDLL------------  163 (264)
T ss_pred             CchhhhhhccccccccccCCcchhHHHHHHHHHhcC-CCcccCChh-hhhhcceeEEeecc---Cchh------------
Confidence            888888888888765  5777777778888888877 556777775 77777777776554   3332            


Q ss_pred             ccHHHhcCCCCCceeEEEecchhhH
Q 038398          641 FLVEELMGMKHLMVLTITLKSWQAL  665 (720)
Q Consensus       641 ~~~~~l~~l~~L~~L~~~~~~~~~l  665 (720)
                      ..+.+++.+++|+.|.+.+|..+.+
T Consensus       164 ~lpkeig~lt~lrelhiqgnrl~vl  188 (264)
T KOG0617|consen  164 SLPKEIGDLTRLRELHIQGNRLTVL  188 (264)
T ss_pred             hCcHHHHHHHHHHHHhcccceeeec
Confidence            2345667777777777777665443

>PRK00411 cdc6 cell division control protein 6; Reviewed

Probab=99.42  E-value=4.4e-11  Score=128.75  Aligned_cols=294  Identities=16%  Similarity=0.086  Sum_probs=173.4

Q ss_pred             CCCcCchHHHHHHHHHhcC----CCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHHHH
Q 038398          126 EPTVGLESTFDKVWRCLGE----EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKIGR  201 (720)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~----~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i~~  201 (720)
                      +.++||++++++|...+.+    .....+.|+|++|+|||++++.+++... .....-.++|+++....+...++..++.
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            6789999999999888733    3456788999999999999999999872 2222235677777777778889999999


Q ss_pred             HhCCCCCccCCCChhHHHHHHHHHhc--cCcEEEEEecccccc------ccccccccCCCCCCCcE--EEEEcCChhHhh
Q 038398          202 RIGFFDESWKNGSLEDKTSDILRILG--KKKFLLLLDDIWERV------DLTKVGIPFPDPENKSK--IVFTTHFLEICG  271 (720)
Q Consensus       202 ~l~~~~~~~~~~~~~~~~~~l~~~l~--~k~~LlVlDdv~~~~------~~~~l~~~~~~~~~gs~--iiiTtR~~~v~~  271 (720)
                      ++..........+.++....+.+.+.  +++.+||||+++...      .+..+...+. ...+++  +|.++....+..
T Consensus       109 ~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~viviDE~d~l~~~~~~~~l~~l~~~~~-~~~~~~v~vI~i~~~~~~~~  187 (394)
T PRK00411        109 QLFGHPPPSSGLSFDELFDKIAEYLDERDRVLIVALDDINYLFEKEGNDVLYSLLRAHE-EYPGARIGVIGISSDLTFLY  187 (394)
T ss_pred             HhcCCCCCCCCCCHHHHHHHHHHHHHhcCCEEEEEECCHhHhhccCCchHHHHHHHhhh-ccCCCeEEEEEEECCcchhh
Confidence            98652211123345667777777775  356899999997632      1222211111 112333  555655443322


Q ss_pred             hh-------ccCceeeccCCChhhHHHHHHHHhccCc---cCCCCChHHHHHHHHHHhCCcchHHHHHHHHH--h--cC-
Q 038398          272 AL-------KAHEFLKVECLGPEDAWRLFRENLRRDV---LDNHPDIPELARSVAQECAGLPLALITIGRAM--A--CK-  336 (720)
Q Consensus       272 ~~-------~~~~~~~l~~L~~~e~~~Lf~~~~~~~~---~~~~~~~~~~~~~i~~~c~GlPLai~~~~~~l--~--~~-  336 (720)
                      ..       .....+.+++++.++..+++..++....   .-.+..++.+++......|..+.|+.++-.+.  +  .+ 
T Consensus       188 ~l~~~~~s~~~~~~i~f~py~~~e~~~il~~r~~~~~~~~~~~~~~l~~i~~~~~~~~Gd~r~a~~ll~~a~~~a~~~~~  267 (394)
T PRK00411        188 ILDPRVKSVFRPEEIYFPPYTADEIFDILKDRVEEGFYPGVVDDEVLDLIADLTAREHGDARVAIDLLRRAGLIAEREGS  267 (394)
T ss_pred             hcCHHHHhcCCcceeecCCCCHHHHHHHHHHHHHhhcccCCCCHhHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHHcCC
Confidence            11       1134678999999999999998874321   11111222333333333455778887765432  1  11 


Q ss_pred             --CChhHHHHHHHHHhcccCCCCCCCccchhhHHhhcCCCCCcchhHHHHhhcCCCC--CcccChHHHHHH--HHhhCCC
Q 038398          337 --KTPQEWHYAIQVLRRSASEFPGMGKEVYPLLKFSYDSLPDDTIRSYLLYCGLFPE--DYRIRKSELIDC--WIGEGFL  410 (720)
Q Consensus       337 --~~~~~w~~~l~~l~~~~~~~~~~~~~~~~~l~~sy~~L~~~~~k~~fl~~~~fp~--~~~i~~~~li~~--Wiaeg~~  410 (720)
                        -+.+....+.+.+..             ....-.+..||. +.|..+..++..-+  ...+....+...  .+++.+-
T Consensus       268 ~~I~~~~v~~a~~~~~~-------------~~~~~~~~~L~~-~~k~~L~ai~~~~~~~~~~~~~~~i~~~y~~l~~~~~  333 (394)
T PRK00411        268 RKVTEEDVRKAYEKSEI-------------VHLSEVLRTLPL-HEKLLLRAIVRLLKKGGDEVTTGEVYEEYKELCEELG  333 (394)
T ss_pred             CCcCHHHHHHHHHHHHH-------------HHHHHHHhcCCH-HHHHHHHHHHHHHhcCCCcccHHHHHHHHHHHHHHcC
Confidence              244455555544311             223446778988 56655554443211  134555555532  2332221


Q ss_pred             CcccchhhHHhHHHHHHHHHHhcccccc
Q 038398          411 DQYDRSGAYNEGYYIIGILLHACLLEEE  438 (720)
Q Consensus       411 ~~~~~~~~~~~~~~~~~~L~~~sll~~~  438 (720)
                      .   ..........++++|...+++...
T Consensus       334 ~---~~~~~~~~~~~l~~L~~~glI~~~  358 (394)
T PRK00411        334 Y---EPRTHTRFYEYINKLDMLGIINTR  358 (394)
T ss_pred             C---CcCcHHHHHHHHHHHHhcCCeEEE
Confidence            1   011234567789999999999865

>PRK15387 E3 ubiquitin-protein ligase SspH2; Provisional

Probab=99.38  E-value=2.5e-12  Score=144.34  Aligned_cols=55  Identities=20%  Similarity=0.125  Sum_probs=38.6

Q ss_pred             CCceeEEEecchhhHHHHhhhhhhhhhccccccccccCCCccccccccccCCcceeeecCCCC
Q 038398          651 HLMVLTITLKSWQALKELLISQELQRSTQSLFLRCFNDSKSLDIFCLAGLRNLNKLYVAGCKH  713 (720)
Q Consensus       651 ~L~~L~~~~~~~~~l~~l~~~~~~~~~L~~L~l~~~~~l~~l~~~~l~~l~~L~~L~l~~c~~  713 (720)
                      +|+.|++++|.+..++.      .+.+|+.|++++ |.++.+| ..+.++++|+.|+|++|+-
T Consensus       403 ~L~~LdLS~N~LssIP~------l~~~L~~L~Ls~-NqLt~LP-~sl~~L~~L~~LdLs~N~L  457 (788)
T PRK15387        403 ELKELMVSGNRLTSLPM------LPSGLLSLSVYR-NQLTRLP-ESLIHLSSETTVNLEGNPL  457 (788)
T ss_pred             CCCEEEccCCcCCCCCc------chhhhhhhhhcc-CcccccC-hHHhhccCCCeEECCCCCC
Confidence            45556666655544332      234677888887 6677887 5688899999999999974

>TIGR02928 orc1/cdc6 family replication initiation protein

Probab=99.32  E-value=5.5e-10  Score=118.99  Aligned_cols=296  Identities=15%  Similarity=0.102  Sum_probs=171.5

Q ss_pred             CCCcCchHHHHHHHHHhcC----CCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCc---CEEEEEEecCcCCHHHHHHH
Q 038398          126 EPTVGLESTFDKVWRCLGE----EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVF---DVVIWVVVSKDLQLEKIQEK  198 (720)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~----~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f---~~~~wv~v~~~~~~~~~~~~  198 (720)
                      +.++||++++++|..++.+    .....+.|+|++|+|||++++.+++...+.....   -..+|+++....+...++..
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            5789999999999998853    3456799999999999999999998762111111   24677887777777889999


Q ss_pred             HHHHhC---CCCCccCCCChhHHHHHHHHHhc--cCcEEEEEecccccc-c----cccccccC-CCCC--CCcEEEEEcC
Q 038398          199 IGRRIG---FFDESWKNGSLEDKTSDILRILG--KKKFLLLLDDIWERV-D----LTKVGIPF-PDPE--NKSKIVFTTH  265 (720)
Q Consensus       199 i~~~l~---~~~~~~~~~~~~~~~~~l~~~l~--~k~~LlVlDdv~~~~-~----~~~l~~~~-~~~~--~gs~iiiTtR  265 (720)
                      ++.++.   ...+. ...+..+....+.+.+.  +++++||||+++... .    +..+.... ....  ....+|.+|+
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   22111 22234555566666663  467899999997641 1    11221110 1111  2234455554


Q ss_pred             ChhHhhhh-------ccCceeeccCCChhhHHHHHHHHhccC--ccCCCCChHHHHHHHHHHhCCcch-HHHHHHHHH--
Q 038398          266 FLEICGAL-------KAHEFLKVECLGPEDAWRLFRENLRRD--VLDNHPDIPELARSVAQECAGLPL-ALITIGRAM--  333 (720)
Q Consensus       266 ~~~v~~~~-------~~~~~~~l~~L~~~e~~~Lf~~~~~~~--~~~~~~~~~~~~~~i~~~c~GlPL-ai~~~~~~l--  333 (720)
                      .......+       .....+.+++++.++..+++..++...  ....+++..+....++..+.|.|- |+.++-.+.  
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            33321111       112468899999999999999887421  111222333445556777778774 444432221  


Q ss_pred             --hcC---CChhHHHHHHHHHhcccCCCCCCCccchhhHHhhcCCCCCcchhHHHHhhcCC--CCCcccChHHHHHHH--
Q 038398          334 --ACK---KTPQEWHYAIQVLRRSASEFPGMGKEVYPLLKFSYDSLPDDTIRSYLLYCGLF--PEDYRIRKSELIDCW--  404 (720)
Q Consensus       334 --~~~---~~~~~w~~~l~~l~~~~~~~~~~~~~~~~~l~~sy~~L~~~~~k~~fl~~~~f--p~~~~i~~~~li~~W--  404 (720)
                        ..+   -+.+..+.+.+.+.             .....-++..||. +.+..+..++..  .++..+...++...+  
T Consensus       254 a~~~~~~~it~~~v~~a~~~~~-------------~~~~~~~i~~l~~-~~~~~l~ai~~~~~~~~~~~~~~~~~~~y~~  319 (365)
T TIGR02928       254 AEREGAERVTEDHVEKAQEKIE-------------KDRLLELIRGLPT-HSKLVLLAIANLAANDEDPFRTGEVYEVYKE  319 (365)
T ss_pred             HHHcCCCCCCHHHHHHHHHHHH-------------HHHHHHHHHcCCH-HHHHHHHHHHHHHhcCCCCccHHHHHHHHHH
Confidence              111   23333444333321             1223345667887 666555444321  134456666666633  


Q ss_pred             HhhCCCCcccchhhHHhHHHHHHHHHHhccccccC
Q 038398          405 IGEGFLDQYDRSGAYNEGYYIIGILLHACLLEEEG  439 (720)
Q Consensus       405 iaeg~~~~~~~~~~~~~~~~~~~~L~~~sll~~~~  439 (720)
                      +++.+ ..  ....+.....++..|...|++....
T Consensus       320 ~~~~~-~~--~~~~~~~~~~~l~~l~~~gli~~~~  351 (365)
T TIGR02928       320 VCEDI-GV--DPLTQRRISDLLNELDMLGLVEAEE  351 (365)
T ss_pred             HHHhc-CC--CCCcHHHHHHHHHHHHhcCCeEEEE
Confidence            22211 10  1233467788899999999998764

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.

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

Probab=99.32  E-value=3.4e-14  Score=140.38  Aligned_cols=213  Identities=25%  Similarity=0.300  Sum_probs=160.4

Q ss_pred             CcccccccceeEEEecccccccCCCC-CCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCccCCccccCCCC
Q 038398          487 APEIQNWRNVRRMSLMKNKIENLSET-PTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVS  565 (720)
Q Consensus       487 ~~~~~~~~~l~~L~l~~~~~~~~~~~-~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~  565 (720)
                      ++.+..+.++.+++++.|++..+|.. ..+..|+.|+++.|.+..++++ ++.+-.|..|+..+| .+..+|..++++..
T Consensus        84 p~aig~l~~l~~l~vs~n~ls~lp~~i~s~~~l~~l~~s~n~~~el~~~-i~~~~~l~dl~~~~N-~i~slp~~~~~~~~  161 (565)
T KOG0472|consen   84 PAAIGELEALKSLNVSHNKLSELPEQIGSLISLVKLDCSSNELKELPDS-IGRLLDLEDLDATNN-QISSLPEDMVNLSK  161 (565)
T ss_pred             CHHHHHHHHHHHhhcccchHhhccHHHhhhhhhhhhhccccceeecCch-HHHHhhhhhhhcccc-ccccCchHHHHHHH
Confidence            45667777788888888888877654 6778888899999988888877 667778888888888 45588888888888


Q ss_pred             CCEEeccCCCCcccchhhhcCCCCCEEeccCCcCCCCCchhhhhccccCceeeccccCCCcccchhccc-c---------
Q 038398          566 LEHLDLSSTAITHLPIELQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKINV-L---------  635 (720)
Q Consensus       566 L~~L~L~~~~i~~lp~~i~~l~~L~~L~l~~~~~l~~lp~~~~~~l~~L~~L~~~~~~~~~l~~l~~~~-~---------  635 (720)
                      |..|++.+|+++.+|+..-+++.|++||... +.++.+|+. ++.+.+   |...++..|++..+|.-. +         
T Consensus       162 l~~l~~~~n~l~~l~~~~i~m~~L~~ld~~~-N~L~tlP~~-lg~l~~---L~~LyL~~Nki~~lPef~gcs~L~Elh~g  236 (565)
T KOG0472|consen  162 LSKLDLEGNKLKALPENHIAMKRLKHLDCNS-NLLETLPPE-LGGLES---LELLYLRRNKIRFLPEFPGCSLLKELHVG  236 (565)
T ss_pred             HHHhhccccchhhCCHHHHHHHHHHhcccch-hhhhcCChh-hcchhh---hHHHHhhhcccccCCCCCccHHHHHHHhc
Confidence            8889999999998888877788999999877 577888875 555554   555555567766655210 0         


Q ss_pred             cCCccccHH-HhcCCCCCceeEEEecchhhHHHHhhhhhhhhhccccccccccCCCccccccccccCCcceeeecCCC
Q 038398          636 FGGHQFLVE-ELMGMKHLMVLTITLKSWQALKELLISQELQRSTQSLFLRCFNDSKSLDIFCLAGLRNLNKLYVAGCK  712 (720)
Q Consensus       636 ~~~~~~~~~-~l~~l~~L~~L~~~~~~~~~l~~l~~~~~~~~~L~~L~l~~~~~l~~l~~~~l~~l~~L~~L~l~~c~  712 (720)
                      .+.-...+. .+.++++|-+|++..|.+...   +.....+++|..|++++ |.++.+| .+++++ +|+.|-+.|||
T Consensus       237 ~N~i~~lpae~~~~L~~l~vLDLRdNklke~---Pde~clLrsL~rLDlSN-N~is~Lp-~sLgnl-hL~~L~leGNP  308 (565)
T KOG0472|consen  237 ENQIEMLPAEHLKHLNSLLVLDLRDNKLKEV---PDEICLLRSLERLDLSN-NDISSLP-YSLGNL-HLKFLALEGNP  308 (565)
T ss_pred             ccHHHhhHHHHhcccccceeeeccccccccC---chHHHHhhhhhhhcccC-CccccCC-cccccc-eeeehhhcCCc
Confidence            000112233 344788899999988876544   45566777999999998 7788998 788999 99999999998

>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=99.30  E-value=1.1e-11  Score=123.25  Aligned_cols=196  Identities=19%  Similarity=0.211  Sum_probs=104.5

Q ss_pred             CcCchHHHHHHHHHhcCCCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHH---------
Q 038398          128 TVGLESTFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEK---------  198 (720)
Q Consensus       128 ~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~---------  198 (720)
                      |+||++++++|.+++..+..+.+.|+|+.|+|||+|++.+.+.. . ...+ .++|+..........+...         
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            68999999999999987667899999999999999999999986 1 1222 3445544443322211111         


Q ss_pred             ----HHHHhCCCCC-c---cCCCChhHHHHHHHHHhcc--CcEEEEEecccccc-ccc-------cccccCCC--CCCCc
Q 038398          199 ----IGRRIGFFDE-S---WKNGSLEDKTSDILRILGK--KKFLLLLDDIWERV-DLT-------KVGIPFPD--PENKS  258 (720)
Q Consensus       199 ----i~~~l~~~~~-~---~~~~~~~~~~~~l~~~l~~--k~~LlVlDdv~~~~-~~~-------~l~~~~~~--~~~gs  258 (720)
                          +...+..... .   ............+.+.+..  ++++||+||+.... ...       .+...+..  .....
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                1111111000 0   0111223334444444433  46999999997654 111       11111111  22334


Q ss_pred             EEEEEcCChhHhhh--------hccCceeeccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCcchHHHH
Q 038398          259 KIVFTTHFLEICGA--------LKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGLPLALIT  328 (720)
Q Consensus       259 ~iiiTtR~~~v~~~--------~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~GlPLai~~  328 (720)
                      .+|+++....+...        .+....+.+++|+.+++++++...+... ... +.-.+..++|+..+||+|..|..
T Consensus       158 ~~v~~~S~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~e~~~~~~~~~~~~-~~~-~~~~~~~~~i~~~~gG~P~~l~~  233 (234)
T PF01637_consen  158 SIVITGSSDSLMEEFLDDKSPLFGRFSHIELKPLSKEEAREFLKELFKEL-IKL-PFSDEDIEEIYSLTGGNPRYLQE  233 (234)
T ss_dssp             EEEEEESSHHHHHHTT-TTSTTTT---EEEE----HHHHHHHHHHHHHCC--------HHHHHHHHHHHTT-HHHHHH
T ss_pred             eEEEECCchHHHHHhhcccCccccccceEEEeeCCHHHHHHHHHHHHHHh-hcc-cCCHHHHHHHHHHhCCCHHHHhc
Confidence            45555554544332        1223458999999999999999876543 122 22356679999999999998864

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

>PRK15370 E3 ubiquitin-protein ligase SlrP; Provisional

Probab=99.29  E-value=1.7e-11  Score=138.55  Aligned_cols=137  Identities=23%  Similarity=0.322  Sum_probs=95.5

Q ss_pred             EEEcCCCCccCcccccccceeEEEecccccccCCCCCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCccC
Q 038398          477 LVHAGLGLTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKL  556 (720)
Q Consensus       477 ~~~~~~~~~~~~~~~~~~~l~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~l  556 (720)
                      +...+.+...+|.. -.++++.|++++|.+..+|... +++|++|++++|.++.+|....   ++|+.|+|++|.+ ..+
T Consensus       183 L~L~~~~LtsLP~~-Ip~~L~~L~Ls~N~LtsLP~~l-~~nL~~L~Ls~N~LtsLP~~l~---~~L~~L~Ls~N~L-~~L  256 (754)
T PRK15370        183 LRLKILGLTTIPAC-IPEQITTLILDNNELKSLPENL-QGNIKTLYANSNQLTSIPATLP---DTIQEMELSINRI-TEL  256 (754)
T ss_pred             EEeCCCCcCcCCcc-cccCCcEEEecCCCCCcCChhh-ccCCCEEECCCCccccCChhhh---ccccEEECcCCcc-CcC
Confidence            34444455555542 1357899999999998877542 3689999999999888876532   4789999999954 477


Q ss_pred             CccccCCCCCCEEeccCCCCcccchhhhcCCCCCEEeccCCcCCCCCchhhhhccccCceeeccccCCCcccch
Q 038398          557 PSGISTLVSLEHLDLSSTAITHLPIELQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFDCGGSKIERL  630 (720)
Q Consensus       557 p~~i~~l~~L~~L~L~~~~i~~lp~~i~~l~~L~~L~l~~~~~l~~lp~~~~~~l~~L~~L~~~~~~~~~l~~l  630 (720)
                      |..+.  .+|++|++++|+++.+|..+.  .+|++|++++| .+..+|....   ++|+.|++.   .|.+..+
T Consensus       257 P~~l~--s~L~~L~Ls~N~L~~LP~~l~--~sL~~L~Ls~N-~Lt~LP~~lp---~sL~~L~Ls---~N~Lt~L  319 (754)
T PRK15370        257 PERLP--SALQSLDLFHNKISCLPENLP--EELRYLSVYDN-SIRTLPAHLP---SGITHLNVQ---SNSLTAL  319 (754)
T ss_pred             ChhHh--CCCCEEECcCCccCccccccC--CCCcEEECCCC-ccccCcccch---hhHHHHHhc---CCccccC
Confidence            87664  579999999999998887654  58999999884 6777775322   244555444   3444433

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

Probab=99.28  E-value=7.6e-10  Score=112.52  Aligned_cols=181  Identities=17%  Similarity=0.182  Sum_probs=114.7

Q ss_pred             CCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHHHHHhCCCCCccCCCChhHHHHHHHH
Q 038398          145 EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKIGRRIGFFDESWKNGSLEDKTSDILR  224 (720)
Q Consensus       145 ~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~  224 (720)
                      .+.+++.|+|++|+||||+++.+++.. .. ... .++|+ +....+..+++..++..++.+..   ..+.......+.+
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            345689999999999999999999886 21 211 22333 23345677889999998876532   2222333334433


Q ss_pred             Hh-----ccCcEEEEEecccccc--ccccccccC--C-CCCCCcEEEEEcCChhHhhhhc----------cCceeeccCC
Q 038398          225 IL-----GKKKFLLLLDDIWERV--DLTKVGIPF--P-DPENKSKIVFTTHFLEICGALK----------AHEFLKVECL  284 (720)
Q Consensus       225 ~l-----~~k~~LlVlDdv~~~~--~~~~l~~~~--~-~~~~gs~iiiTtR~~~v~~~~~----------~~~~~~l~~L  284 (720)
                      .+     .+++.++|+||++...  .++.+....  . .......|++|.... ....+.          ....++++++
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            32     5688999999998642  333332111  1 112233455555432 211111          1345789999


Q ss_pred             ChhhHHHHHHHHhccCccC-CCCChHHHHHHHHHHhCCcchHHHHHHHHH
Q 038398          285 GPEDAWRLFRENLRRDVLD-NHPDIPELARSVAQECAGLPLALITIGRAM  333 (720)
Q Consensus       285 ~~~e~~~Lf~~~~~~~~~~-~~~~~~~~~~~i~~~c~GlPLai~~~~~~l  333 (720)
                      +.+|..+++...+...... ...-..+..+.|++.++|.|..|+.++..+
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            9999999998877543211 112346789999999999999999998765

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.

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

Probab=99.19  E-value=4.3e-12  Score=138.33  Aligned_cols=43  Identities=23%  Similarity=0.244  Sum_probs=30.6

Q ss_pred             cccceeEEEecccccccCCCC-CCCCcccEEEccCCCCcCcchH
Q 038398          492 NWRNVRRMSLMKNKIENLSET-PTCPHLLSLFLSDNSLKMSTDD  534 (720)
Q Consensus       492 ~~~~l~~L~l~~~~~~~~~~~-~~~~~L~~L~l~~~~~~~~~~~  534 (720)
                      ...++.+++++.|.+..+|+. ..|.+|..|...+|.+..++..
T Consensus       239 ~p~nl~~~dis~n~l~~lp~wi~~~~nle~l~~n~N~l~~lp~r  282 (1081)
T KOG0618|consen  239 VPLNLQYLDISHNNLSNLPEWIGACANLEALNANHNRLVALPLR  282 (1081)
T ss_pred             ccccceeeecchhhhhcchHHHHhcccceEecccchhHHhhHHH
Confidence            345788888888888877754 6677788877777766555543

>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed

Probab=99.17  E-value=3.5e-10  Score=117.89  Aligned_cols=274  Identities=15%  Similarity=0.093  Sum_probs=146.8

Q ss_pred             CCCcCchHHHHHHHHHhc-----CCCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHHH
Q 038398          126 EPTVGLESTFDKVWRCLG-----EEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKIG  200 (720)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~-----~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i~  200 (720)
                      .+|+|+++.++.+..++.     ......+.|+|++|+||||||+.+++.. .  ..+   .++..+. ......+..++
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            678999999999877774     2345678899999999999999999987 2  221   1222111 11111222333


Q ss_pred             HHhCCCC----CccCCCChhHHHHHHHHHhccCcEEEEEeccccccccccccccCCCCCCCcEEEEEcCChhHhhhh--c
Q 038398          201 RRIGFFD----ESWKNGSLEDKTSDILRILGKKKFLLLLDDIWERVDLTKVGIPFPDPENKSKIVFTTHFLEICGAL--K  274 (720)
Q Consensus       201 ~~l~~~~----~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~~~~l~~~~~~~~~gs~iiiTtR~~~v~~~~--~  274 (720)
                      ..+....    ++.... .....+.+...+.+.+..+|+|+..+...+..   .++   ..+-|..|++...+....  .
T Consensus        98 ~~l~~~~vl~IDEi~~l-~~~~~e~l~~~~e~~~~~~~l~~~~~~~~~~~---~l~---~~~li~at~~~~~l~~~L~sR  170 (328)
T PRK00080         98 TNLEEGDVLFIDEIHRL-SPVVEEILYPAMEDFRLDIMIGKGPAARSIRL---DLP---PFTLIGATTRAGLLTSPLRDR  170 (328)
T ss_pred             HhcccCCEEEEecHhhc-chHHHHHHHHHHHhcceeeeeccCccccceee---cCC---CceEEeecCCcccCCHHHHHh
Confidence            3332110    000000 01122234444555555566665443322211   111   234455666654432221  1


Q ss_pred             cCceeeccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCcchHHHHHHHHHhcCCChhHHHHHHHHHhcccC
Q 038398          275 AHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGLPLALITIGRAMACKKTPQEWHYAIQVLRRSAS  354 (720)
Q Consensus       275 ~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~GlPLai~~~~~~l~~~~~~~~w~~~l~~l~~~~~  354 (720)
                      ....++++++++++..+++.+.+......   --.+.+..|++.|+|.|-.+..+...+.      .|....   .....
T Consensus       171 f~~~~~l~~~~~~e~~~il~~~~~~~~~~---~~~~~~~~ia~~~~G~pR~a~~~l~~~~------~~a~~~---~~~~I  238 (328)
T PRK00080        171 FGIVQRLEFYTVEELEKIVKRSARILGVE---IDEEGALEIARRSRGTPRIANRLLRRVR------DFAQVK---GDGVI  238 (328)
T ss_pred             cCeeeecCCCCHHHHHHHHHHHHHHcCCC---cCHHHHHHHHHHcCCCchHHHHHHHHHH------HHHHHc---CCCCC
Confidence            13468999999999999999887754322   2356789999999999965555443321      111100   00000


Q ss_pred             CCCCCCccchhhHHhhcCCCCCcchhHHHH-hhcCCCCCcccChHHHHHHHHhhCCCCcccchhhHHhHHHHHH-HHHHh
Q 038398          355 EFPGMGKEVYPLLKFSYDSLPDDTIRSYLL-YCGLFPEDYRIRKSELIDCWIGEGFLDQYDRSGAYNEGYYIIG-ILLHA  432 (720)
Q Consensus       355 ~~~~~~~~~~~~l~~sy~~L~~~~~k~~fl-~~~~fp~~~~i~~~~li~~Wiaeg~~~~~~~~~~~~~~~~~~~-~L~~~  432 (720)
                      .. ..-......+...+..|++ ..+..+. ....|+.+ .+..+.+....           ....+.++..++ .|++.
T Consensus       239 ~~-~~v~~~l~~~~~~~~~l~~-~~~~~l~~~~~~~~~~-~~~~~~~a~~l-----------g~~~~~~~~~~e~~Li~~  304 (328)
T PRK00080        239 TK-EIADKALDMLGVDELGLDE-MDRKYLRTIIEKFGGG-PVGLDTLAAAL-----------GEERDTIEDVYEPYLIQQ  304 (328)
T ss_pred             CH-HHHHHHHHHhCCCcCCCCH-HHHHHHHHHHHHcCCC-ceeHHHHHHHH-----------CCCcchHHHHhhHHHHHc
Confidence            00 0001233344556677777 4556654 56666654 45554443322           112234555566 89999


Q ss_pred             ccccccC
Q 038398          433 CLLEEEG  439 (720)
Q Consensus       433 sll~~~~  439 (720)
                      +|++...
T Consensus       305 ~li~~~~  311 (328)
T PRK00080        305 GFIQRTP  311 (328)
T ss_pred             CCcccCC
Confidence            9997654

>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]

Probab=99.17  E-value=1.7e-09  Score=118.19  Aligned_cols=306  Identities=18%  Similarity=0.194  Sum_probs=193.4

Q ss_pred             CCccccCCCCCCCcCchHHHHHHHHHhcCCCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecC-cCCHHH
Q 038398          116 PRPAVDQRPCEPTVGLESTFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSK-DLQLEK  194 (720)
Q Consensus       116 ~~~~~~~~~~~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~-~~~~~~  194 (720)
                      ++..+.|.++.+.|-|..-.+.+.+.   .+.+.+.|..|+|.|||||+..+....    ..-..+.|.++.. +.++..
T Consensus         9 ~sk~~~P~~~~~~v~R~rL~~~L~~~---~~~RL~li~APAGfGKttl~aq~~~~~----~~~~~v~Wlslde~dndp~r   81 (894)
T COG2909           9 PSKLVRPVRPDNYVVRPRLLDRLRRA---NDYRLILISAPAGFGKTTLLAQWRELA----ADGAAVAWLSLDESDNDPAR   81 (894)
T ss_pred             ccccCCCCCcccccccHHHHHHHhcC---CCceEEEEeCCCCCcHHHHHHHHHHhc----CcccceeEeecCCccCCHHH
Confidence            34445555566778887666665442   367999999999999999999998733    2334789999876 457888


Q ss_pred             HHHHHHHHhCCCCCcc-----------CCCChhHHHHHHHHHhcc--CcEEEEEeccccc--cccc-cccccCCCCCCCc
Q 038398          195 IQEKIGRRIGFFDESW-----------KNGSLEDKTSDILRILGK--KKFLLLLDDIWER--VDLT-KVGIPFPDPENKS  258 (720)
Q Consensus       195 ~~~~i~~~l~~~~~~~-----------~~~~~~~~~~~l~~~l~~--k~~LlVlDdv~~~--~~~~-~l~~~~~~~~~gs  258 (720)
                      +...++..++...+..           ...+.......+..-+..  ++..+||||..-.  ..+. .+.-.+.....+-
T Consensus        82 F~~yLi~al~~~~p~~~~~a~~l~q~~~~~~l~~l~~~L~~Ela~~~~pl~LVlDDyHli~~~~l~~~l~fLl~~~P~~l  161 (894)
T COG2909          82 FLSYLIAALQQATPTLGDEAQTLLQKHQYVSLESLLSSLLNELASYEGPLYLVLDDYHLISDPALHEALRFLLKHAPENL  161 (894)
T ss_pred             HHHHHHHHHHHhCccccHHHHHHHHhcccccHHHHHHHHHHHHHhhcCceEEEeccccccCcccHHHHHHHHHHhCCCCe
Confidence            8888888887433211           122333344444444433  6899999997532  1121 1211122334578


Q ss_pred             EEEEEcCChhHhhh--h-ccCceeec----cCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCcchHHHHHHH
Q 038398          259 KIVFTTHFLEICGA--L-KAHEFLKV----ECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGLPLALITIGR  331 (720)
Q Consensus       259 ~iiiTtR~~~v~~~--~-~~~~~~~l----~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~GlPLai~~~~~  331 (720)
                      .+|+|||+..-+..  + -.....++    -.++.+|+.++|....+.+-      -+.-.+.+....+|-+-|+..++=
T Consensus       162 ~lvv~SR~rP~l~la~lRlr~~llEi~~~~Lrf~~eE~~~fl~~~~~l~L------d~~~~~~L~~~teGW~~al~L~aL  235 (894)
T COG2909         162 TLVVTSRSRPQLGLARLRLRDELLEIGSEELRFDTEEAAAFLNDRGSLPL------DAADLKALYDRTEGWAAALQLIAL  235 (894)
T ss_pred             EEEEEeccCCCCcccceeehhhHHhcChHhhcCChHHHHHHHHHcCCCCC------ChHHHHHHHhhcccHHHHHHHHHH
Confidence            89999998643221  1 11122333    36899999999988754322      245588899999999999999887


Q ss_pred             HHhcCCChhHHHHHHHHHhcccCCCCCCCccch-hhHHhhcCCCCCcchhHHHHhhcCCCCCcccChHHHHHHHHhhCCC
Q 038398          332 AMACKKTPQEWHYAIQVLRRSASEFPGMGKEVY-PLLKFSYDSLPDDTIRSYLLYCGLFPEDYRIRKSELIDCWIGEGFL  410 (720)
Q Consensus       332 ~l~~~~~~~~w~~~l~~l~~~~~~~~~~~~~~~-~~l~~sy~~L~~~~~k~~fl~~~~fp~~~~i~~~~li~~Wiaeg~~  410 (720)
                      .++.+.+.+.--..+          .+..+-+. ....--++.||+ +++.+++-||+++.=    -..|+..       
T Consensus       236 a~~~~~~~~q~~~~L----------sG~~~~l~dYL~eeVld~Lp~-~l~~FLl~~svl~~f----~~eL~~~-------  293 (894)
T COG2909         236 ALRNNTSAEQSLRGL----------SGAASHLSDYLVEEVLDRLPP-ELRDFLLQTSVLSRF----NDELCNA-------  293 (894)
T ss_pred             HccCCCcHHHHhhhc----------cchHHHHHHHHHHHHHhcCCH-HHHHHHHHHHhHHHh----hHHHHHH-------
Confidence            777433332221111          11111222 222345789999 899999999998531    1223332       


Q ss_pred             CcccchhhHHhHHHHHHHHHHhccccccCCCCCcccCCceEEEehHHHHHHHHHHHh
Q 038398          411 DQYDRSGAYNEGYYIIGILLHACLLEEEGGDIGEEESGEHVVKMHDVIRDMVLWIAC  467 (720)
Q Consensus       411 ~~~~~~~~~~~~~~~~~~L~~~sll~~~~~~~~~~~~~~~~~~mHdlv~~~a~~~~~  467 (720)
                           -+.++.|...+++|.+++|+-..-      +....-|+.|.++.||-+.-..
T Consensus       294 -----Ltg~~ng~amLe~L~~~gLFl~~L------dd~~~WfryH~LFaeFL~~r~~  339 (894)
T COG2909         294 -----LTGEENGQAMLEELERRGLFLQRL------DDEGQWFRYHHLFAEFLRQRLQ  339 (894)
T ss_pred             -----HhcCCcHHHHHHHHHhCCCceeee------cCCCceeehhHHHHHHHHhhhc
Confidence                 223456778899999999865321      1226678999999999776543

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

Probab=99.14  E-value=4.5e-12  Score=138.22  Aligned_cols=198  Identities=23%  Similarity=0.295  Sum_probs=128.0

Q ss_pred             cccceeEEEecccccccCCCCC-CCCcccEEEccCCCCcCcchHHhc-------------------------cCCcccEE
Q 038398          492 NWRNVRRMSLMKNKIENLSETP-TCPHLLSLFLSDNSLKMSTDDFFQ-------------------------SMPSLRVF  545 (720)
Q Consensus       492 ~~~~l~~L~l~~~~~~~~~~~~-~~~~L~~L~l~~~~~~~~~~~~~~-------------------------~l~~L~~L  545 (720)
                      ...+|+.|++..|.++.+|... ..+.|++|++..|.+..+|+.+|.                         .++.|+.|
T Consensus       285 ~~~~L~~l~~~~nel~yip~~le~~~sL~tLdL~~N~L~~lp~~~l~v~~~~l~~ln~s~n~l~~lp~~~e~~~~~Lq~L  364 (1081)
T KOG0618|consen  285 RITSLVSLSAAYNELEYIPPFLEGLKSLRTLDLQSNNLPSLPDNFLAVLNASLNTLNVSSNKLSTLPSYEENNHAALQEL  364 (1081)
T ss_pred             hhhhHHHHHhhhhhhhhCCCcccccceeeeeeehhccccccchHHHhhhhHHHHHHhhhhccccccccccchhhHHHHHH
Confidence            3344555555555555555442 355566666666555555544332                         34456677


Q ss_pred             EccCCCCCccCCccccCCCCCCEEeccCCCCcccchh-hhcCCCCCEEeccCCcCCCCCchhhhhccccCceeeccccCC
Q 038398          546 NMSNNHLLWKLPSGISTLVSLEHLDLSSTAITHLPIE-LQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFDCGG  624 (720)
Q Consensus       546 ~L~~~~~~~~lp~~i~~l~~L~~L~L~~~~i~~lp~~-i~~l~~L~~L~l~~~~~l~~lp~~~~~~l~~L~~L~~~~~~~  624 (720)
                      .+.+|.+.......+-+..+|+.|+|++|.+..+|.+ +.++..|++|+|+| |.++.+|.. +..+..|++|...   .
T Consensus       365 ylanN~Ltd~c~p~l~~~~hLKVLhLsyNrL~~fpas~~~kle~LeeL~LSG-NkL~~Lp~t-va~~~~L~tL~ah---s  439 (1081)
T KOG0618|consen  365 YLANNHLTDSCFPVLVNFKHLKVLHLSYNRLNSFPASKLRKLEELEELNLSG-NKLTTLPDT-VANLGRLHTLRAH---S  439 (1081)
T ss_pred             HHhcCcccccchhhhccccceeeeeecccccccCCHHHHhchHHhHHHhccc-chhhhhhHH-HHhhhhhHHHhhc---C
Confidence            7777766665555677888888888888888888866 77888888888888 677888864 6677766666543   4


Q ss_pred             CcccchhcccccCCccccHHHhcCCCCCceeEEEecchhhHHHHhhhhhhh-hhccccccccccCCCccccccccccCCc
Q 038398          625 SKIERLKINVLFGGHQFLVEELMGMKHLMVLTITLKSWQALKELLISQELQ-RSTQSLFLRCFNDSKSLDIFCLAGLRNL  703 (720)
Q Consensus       625 ~~l~~l~~~~~~~~~~~~~~~l~~l~~L~~L~~~~~~~~~l~~l~~~~~~~-~~L~~L~l~~~~~l~~l~~~~l~~l~~L  703 (720)
                      |.+..             +.++..+++|+.++++.|++....   .....+ ++|+.|+++++.. ..++...|..++++
T Consensus       440 N~l~~-------------fPe~~~l~qL~~lDlS~N~L~~~~---l~~~~p~p~LkyLdlSGN~~-l~~d~~~l~~l~~l  502 (1081)
T KOG0618|consen  440 NQLLS-------------FPELAQLPQLKVLDLSCNNLSEVT---LPEALPSPNLKYLDLSGNTR-LVFDHKTLKVLKSL  502 (1081)
T ss_pred             Cceee-------------chhhhhcCcceEEecccchhhhhh---hhhhCCCcccceeeccCCcc-cccchhhhHHhhhh
Confidence            55432             236778889999999888776543   222223 6899999987443 45555566666666


Q ss_pred             ceeeecCC
Q 038398          704 NKLYVAGC  711 (720)
Q Consensus       704 ~~L~l~~c  711 (720)
                      ...++.=+
T Consensus       503 ~~~~i~~~  510 (1081)
T KOG0618|consen  503 SQMDITLN  510 (1081)
T ss_pred             hheecccC
Confidence            66655433

>TIGR00635 ruvB Holliday junction DNA helicase, RuvB subunit

Probab=99.12  E-value=3.2e-09  Score=109.93  Aligned_cols=266  Identities=15%  Similarity=0.085  Sum_probs=149.0

Q ss_pred             CCCcCchHHHHHHHHHhc-----CCCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHHH
Q 038398          126 EPTVGLESTFDKVWRCLG-----EEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKIG  200 (720)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~-----~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i~  200 (720)
                      .+|||+++.++++..++.     ......+.++|++|+|||+||+.+++..   ...+   ..+..+.......+ ...+
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            568999999999988885     2345678899999999999999999887   2222   12221111111222 2222


Q ss_pred             HHhCCCC----CccCCCChhHHHHHHHHHhccCcEEEEEeccccccccccccccCCCCCCCcEEEEEcCChhHhhhh--c
Q 038398          201 RRIGFFD----ESWKNGSLEDKTSDILRILGKKKFLLLLDDIWERVDLTKVGIPFPDPENKSKIVFTTHFLEICGAL--K  274 (720)
Q Consensus       201 ~~l~~~~----~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~~~~l~~~~~~~~~gs~iiiTtR~~~v~~~~--~  274 (720)
                      ..++...    ++.... .....+.+...+.+.+..+|+|+..+...+..   .++   +.+-|..||+...+....  .
T Consensus        77 ~~~~~~~vl~iDEi~~l-~~~~~e~l~~~~~~~~~~~v~~~~~~~~~~~~---~~~---~~~li~~t~~~~~l~~~l~sR  149 (305)
T TIGR00635        77 TNLEEGDVLFIDEIHRL-SPAVEELLYPAMEDFRLDIVIGKGPSARSVRL---DLP---PFTLVGATTRAGMLTSPLRDR  149 (305)
T ss_pred             HhcccCCEEEEehHhhh-CHHHHHHhhHHHhhhheeeeeccCccccceee---cCC---CeEEEEecCCccccCHHHHhh
Confidence            2222111    000000 11223445556666666677776555443321   111   244555666754432221  1


Q ss_pred             cCceeeccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCcchHHHHHHHHHhc------C--CChhHHHHHH
Q 038398          275 AHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGLPLALITIGRAMAC------K--KTPQEWHYAI  346 (720)
Q Consensus       275 ~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~GlPLai~~~~~~l~~------~--~~~~~w~~~l  346 (720)
                      ....+++++++.++..+++.+.+.....   .--.+....|++.|+|.|-.+..++..+..      .  -+.+..+   
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            1346789999999999999988764331   223567789999999999766555543210      0  0111111   


Q ss_pred             HHHhcccCCCCCCCccchhhHHhhcCCCCCcchhHHHH-hhcCCCCCcccChHHHHHHHHhhCCCCcccchhhHHhHHHH
Q 038398          347 QVLRRSASEFPGMGKEVYPLLKFSYDSLPDDTIRSYLL-YCGLFPEDYRIRKSELIDCWIGEGFLDQYDRSGAYNEGYYI  425 (720)
Q Consensus       347 ~~l~~~~~~~~~~~~~~~~~l~~sy~~L~~~~~k~~fl-~~~~fp~~~~i~~~~li~~Wiaeg~~~~~~~~~~~~~~~~~  425 (720)
                                     .....+...|..++. +.+..+. ..+.++.+ .+....+....   |        .....+...
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                           122224556777877 5565555 44666433 44444333321   1        122355666


Q ss_pred             HH-HHHHhccccccC
Q 038398          426 IG-ILLHACLLEEEG  439 (720)
Q Consensus       426 ~~-~L~~~sll~~~~  439 (720)
                      ++ .|++++|++...
T Consensus       276 ~e~~Li~~~li~~~~  290 (305)
T TIGR00635       276 YEPYLLQIGFLQRTP  290 (305)
T ss_pred             hhHHHHHcCCcccCC
Confidence            77 699999997553

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.

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

Probab=99.12  E-value=1.4e-11  Score=121.96  Aligned_cols=233  Identities=21%  Similarity=0.223  Sum_probs=155.2

Q ss_pred             cEEEEcCCCCccCcccccccceeEEEecccccccCCC--CCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCC
Q 038398          475 NFLVHAGLGLTEAPEIQNWRNVRRMSLMKNKIENLSE--TPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHL  552 (720)
Q Consensus       475 ~~~~~~~~~~~~~~~~~~~~~l~~L~l~~~~~~~~~~--~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~  552 (720)
                      ..+...+.++.++|.-- ......+.|..|.|+.+|+  +..+++||.|+|++|.+..+.+..|.+++.|..|-+.+|+.
T Consensus        49 ~~VdCr~~GL~eVP~~L-P~~tveirLdqN~I~~iP~~aF~~l~~LRrLdLS~N~Is~I~p~AF~GL~~l~~Lvlyg~Nk  127 (498)
T KOG4237|consen   49 GIVDCRGKGLTEVPANL-PPETVEIRLDQNQISSIPPGAFKTLHRLRRLDLSKNNISFIAPDAFKGLASLLSLVLYGNNK  127 (498)
T ss_pred             ceEEccCCCcccCcccC-CCcceEEEeccCCcccCChhhccchhhhceecccccchhhcChHhhhhhHhhhHHHhhcCCc
Confidence            44555566666666422 2356678888899988876  47788999999999999888888899998888887777556


Q ss_pred             CccCCc-cccCCCCCCEEeccCCCCcccch-hhhcCCCCCEEeccCCcCCCCCchhhhhccccCceeeccccC------C
Q 038398          553 LWKLPS-GISTLVSLEHLDLSSTAITHLPI-ELQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFDCG------G  624 (720)
Q Consensus       553 ~~~lp~-~i~~l~~L~~L~L~~~~i~~lp~-~i~~l~~L~~L~l~~~~~l~~lp~~~~~~l~~L~~L~~~~~~------~  624 (720)
                      +..+|. .|++|..|+-|.+.-|++.-++. .+..|++|..|.+.. +.++.++.+.+..+.+++++.+-...      -
T Consensus       128 I~~l~k~~F~gL~slqrLllNan~i~Cir~~al~dL~~l~lLslyD-n~~q~i~~~tf~~l~~i~tlhlA~np~icdCnL  206 (498)
T KOG4237|consen  128 ITDLPKGAFGGLSSLQRLLLNANHINCIRQDALRDLPSLSLLSLYD-NKIQSICKGTFQGLAAIKTLHLAQNPFICDCNL  206 (498)
T ss_pred             hhhhhhhHhhhHHHHHHHhcChhhhcchhHHHHHHhhhcchhcccc-hhhhhhccccccchhccchHhhhcCcccccccc
Confidence            667764 57788888888888888876654 478888888888877 56677776556666666666543211      1


Q ss_pred             Cc---------------------------ccchhccc---------------ccCCccccHHHhcCCCCCceeEEEecch
Q 038398          625 SK---------------------------IERLKINV---------------LFGGHQFLVEELMGMKHLMVLTITLKSW  662 (720)
Q Consensus       625 ~~---------------------------l~~l~~~~---------------~~~~~~~~~~~l~~l~~L~~L~~~~~~~  662 (720)
                      -+                           +..++...               ..........-+..+++|+.|.++.|.+
T Consensus       207 ~wla~~~a~~~ietsgarc~~p~rl~~~Ri~q~~a~kf~c~~esl~s~~~~~d~~d~~cP~~cf~~L~~L~~lnlsnN~i  286 (498)
T KOG4237|consen  207 PWLADDLAMNPIETSGARCVSPYRLYYKRINQEDARKFLCSLESLPSRLSSEDFPDSICPAKCFKKLPNLRKLNLSNNKI  286 (498)
T ss_pred             chhhhHHhhchhhcccceecchHHHHHHHhcccchhhhhhhHHhHHHhhccccCcCCcChHHHHhhcccceEeccCCCcc
Confidence            00                           00000000               0001122344577899999999999988


Q ss_pred             hhHHHHhhhhhhhhhccccccccccCCCccccccccccCCcceeeecCCC
Q 038398          663 QALKELLISQELQRSTQSLFLRCFNDSKSLDIFCLAGLRNLNKLYVAGCK  712 (720)
Q Consensus       663 ~~l~~l~~~~~~~~~L~~L~l~~~~~l~~l~~~~l~~l~~L~~L~l~~c~  712 (720)
                      +.+..  .++.....++.|+|.. |.+..+.-..|.++..|+.|+|.+|+
T Consensus       287 ~~i~~--~aFe~~a~l~eL~L~~-N~l~~v~~~~f~~ls~L~tL~L~~N~  333 (498)
T KOG4237|consen  287 TRIED--GAFEGAAELQELYLTR-NKLEFVSSGMFQGLSGLKTLSLYDNQ  333 (498)
T ss_pred             chhhh--hhhcchhhhhhhhcCc-chHHHHHHHhhhccccceeeeecCCe
Confidence            76653  3444445677777766 55666654556667777777777665

>PRK15370 E3 ubiquitin-protein ligase SlrP; Provisional

Probab=99.12  E-value=1.4e-10  Score=131.31  Aligned_cols=212  Identities=18%  Similarity=0.194  Sum_probs=132.3

Q ss_pred             EEEcCCCCccCcccccccceeEEEecccccccCCCCCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCccC
Q 038398          477 LVHAGLGLTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKL  556 (720)
Q Consensus       477 ~~~~~~~~~~~~~~~~~~~l~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~l  556 (720)
                      +...+.....+|.. .+.+|+.|++++|.+..+|.. -.++|+.|++++|.+..+|....   .+|++|++++|++ ..+
T Consensus       204 L~Ls~N~LtsLP~~-l~~nL~~L~Ls~N~LtsLP~~-l~~~L~~L~Ls~N~L~~LP~~l~---s~L~~L~Ls~N~L-~~L  277 (754)
T PRK15370        204 LILDNNELKSLPEN-LQGNIKTLYANSNQLTSIPAT-LPDTIQEMELSINRITELPERLP---SALQSLDLFHNKI-SCL  277 (754)
T ss_pred             EEecCCCCCcCChh-hccCCCEEECCCCccccCChh-hhccccEEECcCCccCcCChhHh---CCCCEEECcCCcc-Ccc
Confidence            33444455555532 235899999999998887653 23578999999998888876532   4789999998854 467


Q ss_pred             CccccCCCCCCEEeccCCCCcccchhhhcCCCCCEEeccCCcCCCCCchhhhhccccCceeeccccCCCcccchhccccc
Q 038398          557 PSGISTLVSLEHLDLSSTAITHLPIELQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKINVLF  636 (720)
Q Consensus       557 p~~i~~l~~L~~L~L~~~~i~~lp~~i~~l~~L~~L~l~~~~~l~~lp~~~~~~l~~L~~L~~~~~~~~~l~~l~~~~~~  636 (720)
                      |..+.  .+|++|++++|+++.+|..+.  ++|+.|++++ +.+..+|...   .++|+.|.+.+|   .+..++.....
T Consensus       278 P~~l~--~sL~~L~Ls~N~Lt~LP~~lp--~sL~~L~Ls~-N~Lt~LP~~l---~~sL~~L~Ls~N---~Lt~LP~~l~~  346 (754)
T PRK15370        278 PENLP--EELRYLSVYDNSIRTLPAHLP--SGITHLNVQS-NSLTALPETL---PPGLKTLEAGEN---ALTSLPASLPP  346 (754)
T ss_pred             ccccC--CCCcEEECCCCccccCcccch--hhHHHHHhcC-CccccCCccc---cccceeccccCC---ccccCChhhcC
Confidence            87664  589999999999888886543  4677777776 4556666432   245555554443   23322211100


Q ss_pred             CC---------ccccHHHhcCCCCCceeEEEecchhhHHHHhhhhhhhhhccccccccccCCCccccc---cccccCCcc
Q 038398          637 GG---------HQFLVEELMGMKHLMVLTITLKSWQALKELLISQELQRSTQSLFLRCFNDSKSLDIF---CLAGLRNLN  704 (720)
Q Consensus       637 ~~---------~~~~~~~l~~l~~L~~L~~~~~~~~~l~~l~~~~~~~~~L~~L~l~~~~~l~~l~~~---~l~~l~~L~  704 (720)
                      .+         -..++..+  .+.|+.|+++.|.+..++.     ..+.+|+.|++++ +++..+|..   .+..++++.
T Consensus       347 sL~~L~Ls~N~L~~LP~~l--p~~L~~LdLs~N~Lt~LP~-----~l~~sL~~LdLs~-N~L~~LP~sl~~~~~~~~~l~  418 (754)
T PRK15370        347 ELQVLDVSKNQITVLPETL--PPTITTLDVSRNALTNLPE-----NLPAALQIMQASR-NNLVRLPESLPHFRGEGPQPT  418 (754)
T ss_pred             cccEEECCCCCCCcCChhh--cCCcCEEECCCCcCCCCCH-----hHHHHHHHHhhcc-CCcccCchhHHHHhhcCCCcc
Confidence            00         00111122  2467788888777665432     1234788888887 556666622   234457888


Q ss_pred             eeeecCCCC
Q 038398          705 KLYVAGCKH  713 (720)
Q Consensus       705 ~L~l~~c~~  713 (720)
                      .|+|.+|+-
T Consensus       419 ~L~L~~Npl  427 (754)
T PRK15370        419 RIIVEYNPF  427 (754)
T ss_pred             EEEeeCCCc
Confidence            999998874

>COG3899 Predicted ATPase [General function prediction only]

Probab=99.11  E-value=1.4e-09  Score=125.63  Aligned_cols=316  Identities=14%  Similarity=0.157  Sum_probs=178.7

Q ss_pred             CCcCchHHHHHHHHHhcC---CCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHH---HHHHHHH
Q 038398          127 PTVGLESTFDKVWRCLGE---EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLE---KIQEKIG  200 (720)
Q Consensus       127 ~~vGr~~~~~~l~~~L~~---~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~---~~~~~i~  200 (720)
                      +++||+.+++.|...+.+   +...++.|.|..|||||+|++.|.....+.++.|-...+-....+....   +..+++.
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            368999999999998854   4567999999999999999999999874332333222222233333322   2333333


Q ss_pred             HHh-------------------CCCCCc--------------------cCCCChhHH-----HHHHHHHh-ccCcEEEEE
Q 038398          201 RRI-------------------GFFDES--------------------WKNGSLEDK-----TSDILRIL-GKKKFLLLL  235 (720)
Q Consensus       201 ~~l-------------------~~~~~~--------------------~~~~~~~~~-----~~~l~~~l-~~k~~LlVl  235 (720)
                      .++                   +.....                    ......+..     ...+..+. +.++.++|+
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            333                   111000                    000011111     11222222 346999999


Q ss_pred             ecc-ccccc-c---ccccccCCC-CCCCcEEEE--EcCCh--hHhhhhccCceeeccCCChhhHHHHHHHHhccCccCCC
Q 038398          236 DDI-WERVD-L---TKVGIPFPD-PENKSKIVF--TTHFL--EICGALKAHEFLKVECLGPEDAWRLFRENLRRDVLDNH  305 (720)
Q Consensus       236 Ddv-~~~~~-~---~~l~~~~~~-~~~gs~iii--TtR~~--~v~~~~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~  305 (720)
                      ||+ |-+.. +   ..+.....- .-....|..  |.+..  .+.........+.+.||+..+...+.........    
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            999 54322 1   111111110 000112222  22222  1122223446799999999999999999886532    


Q ss_pred             CChHHHHHHHHHHhCCcchHHHHHHHHHhcC------CChhHHHHHHHHHhcccCCCCCCCccchhhHHhhcCCCCCcch
Q 038398          306 PDIPELARSVAQECAGLPLALITIGRAMACK------KTPQEWHYAIQVLRRSASEFPGMGKEVYPLLKFSYDSLPDDTI  379 (720)
Q Consensus       306 ~~~~~~~~~i~~~c~GlPLai~~~~~~l~~~------~~~~~w~~~l~~l~~~~~~~~~~~~~~~~~l~~sy~~L~~~~~  379 (720)
                      ....+....|+++..|+|+.+..+-..+...      .+...|+.-...+..     ++..+.+...+..-.+.||. ..
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            3346779999999999999999998888763      344455543322221     11122455668888999999 89


Q ss_pred             hHHHHhhcCCCCCcccChHHHHHHHHhhCCCCcccchhhHHhHHHHHHHHHHhccccccCCCCCcccCCce---EEEehH
Q 038398          380 RSYLLYCGLFPEDYRIRKSELIDCWIGEGFLDQYDRSGAYNEGYYIIGILLHACLLEEEGGDIGEEESGEH---VVKMHD  456 (720)
Q Consensus       380 k~~fl~~~~fp~~~~i~~~~li~~Wiaeg~~~~~~~~~~~~~~~~~~~~L~~~sll~~~~~~~~~~~~~~~---~~~mHd  456 (720)
                      +..+...|++...  ++.+.|...|-          ......+....+.|....++-..+.  ........   +-..||
T Consensus       311 ~~Vl~~AA~iG~~--F~l~~La~l~~----------~~~~~~a~~l~~al~e~lI~~~~~~--yr~~~~~~~~~Y~F~H~  376 (849)
T COG3899         311 REVLKAAACIGNR--FDLDTLAALAE----------DSPALEAAALLDALQEGLILPLSET--YRFGSNVDIATYKFLHD  376 (849)
T ss_pred             HHHHHHHHHhCcc--CCHHHHHHHHh----------hchHHHHHHHHHHhHhhceeccccc--cccccccchhhHHhhHH
Confidence            9999999999654  44555554441          1233455555565555544432210  00111111   225688


Q ss_pred             HHHHHHHHHH
Q 038398          457 VIRDMVLWIA  466 (720)
Q Consensus       457 lv~~~a~~~~  466 (720)
                      .+++.|-..-
T Consensus       377 ~vqqaaY~~i  386 (849)
T COG3899         377 RVQQAAYNLI  386 (849)
T ss_pred             HHHHHHhccC
Confidence            8887765443

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

Probab=99.06  E-value=2.9e-10  Score=118.95  Aligned_cols=57  Identities=26%  Similarity=0.364  Sum_probs=24.1

Q ss_pred             CcccEEEccCCCCCc----cCCccccCCCCCCEEeccCCCCc-----ccchhhhcCCCCCEEeccC
Q 038398          540 PSLRVFNMSNNHLLW----KLPSGISTLVSLEHLDLSSTAIT-----HLPIELQKLVNLKCLNLEY  596 (720)
Q Consensus       540 ~~L~~L~L~~~~~~~----~lp~~i~~l~~L~~L~L~~~~i~-----~lp~~i~~l~~L~~L~l~~  596 (720)
                      ++|+.|++++|.+.+    .++..+..+.+|++|++++|.++     .++..+..+++|++|++++
T Consensus       137 ~~L~~L~L~~n~l~~~~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~l~~~l~~~~~L~~L~L~~  202 (319)
T cd00116         137 PALEKLVLGRNRLEGASCEALAKALRANRDLKELNLANNGIGDAGIRALAEGLKANCNLEVLDLNN  202 (319)
T ss_pred             CCceEEEcCCCcCCchHHHHHHHHHHhCCCcCEEECcCCCCchHHHHHHHHHHHhCCCCCEEeccC
Confidence            444555555543331    12223334444555555544443     1222333334455555544

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).

>PF05729 NACHT: NACHT domain

Probab=99.05  E-value=1.1e-09  Score=102.39  Aligned_cols=142  Identities=20%  Similarity=0.257  Sum_probs=89.5

Q ss_pred             eEEEEEcCCCChHHHHHHHHHhhhcCCCCC----cCEEEEEEecCcCCHH---HHHHHHHHHhCCCCCccCCCChhHHHH
Q 038398          148 GIIGLYGMGGVGKTTLLTKINNKLLGAPNV----FDVVIWVVVSKDLQLE---KIQEKIGRRIGFFDESWKNGSLEDKTS  220 (720)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~----f~~~~wv~v~~~~~~~---~~~~~i~~~l~~~~~~~~~~~~~~~~~  220 (720)
                      +++.|.|.+|+||||+++.++.... ....    +..++|+.........   .+...+..+.....     .....   
T Consensus         1 r~l~I~G~~G~GKStll~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~-----~~~~~---   71 (166)
T PF05729_consen    1 RVLWISGEPGSGKSTLLRKLAQQLA-EEEPPPSKFPYPFFFSLRDISDSNNSRSLADLLFDQLPESI-----APIEE---   71 (166)
T ss_pred             CEEEEECCCCCChHHHHHHHHHHHH-hcCcccccceEEEEEeehhhhhccccchHHHHHHHhhccch-----hhhHH---
Confidence            5789999999999999999998873 2222    4567777766544332   34444444432211     11111   


Q ss_pred             HHHH-HhccCcEEEEEeccccccc---------ccccc-ccCCC-CCCCcEEEEEcCChhH---hhhhccCceeeccCCC
Q 038398          221 DILR-ILGKKKFLLLLDDIWERVD---------LTKVG-IPFPD-PENKSKIVFTTHFLEI---CGALKAHEFLKVECLG  285 (720)
Q Consensus       221 ~l~~-~l~~k~~LlVlDdv~~~~~---------~~~l~-~~~~~-~~~gs~iiiTtR~~~v---~~~~~~~~~~~l~~L~  285 (720)
                      .+.. .-..++++||||++++...         +..+. ..+.. ...+++++||+|....   .........+++.+|+
T Consensus        72 ~~~~~~~~~~~~llilDglDE~~~~~~~~~~~~~~~~l~~l~~~~~~~~~~liit~r~~~~~~~~~~~~~~~~~~l~~~~  151 (166)
T PF05729_consen   72 LLQELLEKNKRVLLILDGLDELEEQDQSQERQRLLDLLSQLLPQALPPGVKLIITSRPRAFPDLRRRLKQAQILELEPFS  151 (166)
T ss_pred             HHHHHHHcCCceEEEEechHhcccchhhhHHHHHHHHHHHHhhhccCCCCeEEEEEcCChHHHHHHhcCCCcEEEECCCC
Confidence            1222 2256899999999976432         11111 11221 2458999999998766   2333444679999999


Q ss_pred             hhhHHHHHHHHhc
Q 038398          286 PEDAWRLFRENLR  298 (720)
Q Consensus       286 ~~e~~~Lf~~~~~  298 (720)
                      +++..+++.+++.
T Consensus       152 ~~~~~~~~~~~f~  164 (166)
T PF05729_consen  152 EEDIKQYLRKYFS  164 (166)
T ss_pred             HHHHHHHHHHHhh
Confidence            9999999988753

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

Probab=99.01  E-value=2.7e-10  Score=104.96  Aligned_cols=133  Identities=27%  Similarity=0.359  Sum_probs=50.4

Q ss_pred             CcccccccceeEEEecccccccCCCCC-CCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCccCCccc-cCCC
Q 038398          487 APEIQNWRNVRRMSLMKNKIENLSETP-TCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGI-STLV  564 (720)
Q Consensus       487 ~~~~~~~~~l~~L~l~~~~~~~~~~~~-~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i-~~l~  564 (720)
                      ++.+.++.+++.|+|.+|.|..+.... .+.+|+.|++++|.++.+..  +..++.|++|++++|++. .++..+ ..++
T Consensus        12 ~~~~~n~~~~~~L~L~~n~I~~Ie~L~~~l~~L~~L~Ls~N~I~~l~~--l~~L~~L~~L~L~~N~I~-~i~~~l~~~lp   88 (175)
T PF14580_consen   12 IAQYNNPVKLRELNLRGNQISTIENLGATLDKLEVLDLSNNQITKLEG--LPGLPRLKTLDLSNNRIS-SISEGLDKNLP   88 (175)
T ss_dssp             ------------------------S--TT-TT--EEE-TTS--S--TT------TT--EEE--SS----S-CHHHHHH-T
T ss_pred             ccccccccccccccccccccccccchhhhhcCCCEEECCCCCCccccC--ccChhhhhhcccCCCCCC-ccccchHHhCC
Confidence            444555567888999999888877665 57888899999998887764  777888889999888544 554444 3578


Q ss_pred             CCCEEeccCCCCcccc--hhhhcCCCCCEEeccCCcCCCCCc---hhhhhccccCceeeccccC
Q 038398          565 SLEHLDLSSTAITHLP--IELQKLVNLKCLNLEYMNNLNQFP---RLVISAFSKLQVLRMFDCG  623 (720)
Q Consensus       565 ~L~~L~L~~~~i~~lp--~~i~~l~~L~~L~l~~~~~l~~lp---~~~~~~l~~L~~L~~~~~~  623 (720)
                      +|+.|++++|+|..+-  ..+..+++|+.|++.+| .+..-+   ..++..+++|+.|+-....
T Consensus        89 ~L~~L~L~~N~I~~l~~l~~L~~l~~L~~L~L~~N-Pv~~~~~YR~~vi~~lP~Lk~LD~~~V~  151 (175)
T PF14580_consen   89 NLQELYLSNNKISDLNELEPLSSLPKLRVLSLEGN-PVCEKKNYRLFVIYKLPSLKVLDGQDVT  151 (175)
T ss_dssp             T--EEE-TTS---SCCCCGGGGG-TT--EEE-TT--GGGGSTTHHHHHHHH-TT-SEETTEETT
T ss_pred             cCCEEECcCCcCCChHHhHHHHcCCCcceeeccCC-cccchhhHHHHHHHHcChhheeCCEEcc
Confidence            8888998888887553  33667888888888884 333333   2356778888888776554

>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]

Probab=99.01  E-value=5.5e-10  Score=128.48  Aligned_cols=235  Identities=21%  Similarity=0.208  Sum_probs=156.8

Q ss_pred             EEEcCCCCccCcccccccceeEEEecccc--cccCCC--CCCCCcccEEEccCC-CCcCcchHHhccCCcccEEEccCCC
Q 038398          477 LVHAGLGLTEAPEIQNWRNVRRMSLMKNK--IENLSE--TPTCPHLLSLFLSDN-SLKMSTDDFFQSMPSLRVFNMSNNH  551 (720)
Q Consensus       477 ~~~~~~~~~~~~~~~~~~~l~~L~l~~~~--~~~~~~--~~~~~~L~~L~l~~~-~~~~~~~~~~~~l~~L~~L~L~~~~  551 (720)
                      ++.........+.-..+++++.|-+..|.  +..++.  +..++.|++|++++| .+..+|.. +++|-+||||+|+++ 
T Consensus       528 ~s~~~~~~~~~~~~~~~~~L~tLll~~n~~~l~~is~~ff~~m~~LrVLDLs~~~~l~~LP~~-I~~Li~LryL~L~~t-  605 (889)
T KOG4658|consen  528 MSLMNNKIEHIAGSSENPKLRTLLLQRNSDWLLEISGEFFRSLPLLRVLDLSGNSSLSKLPSS-IGELVHLRYLDLSDT-  605 (889)
T ss_pred             EEEeccchhhccCCCCCCccceEEEeecchhhhhcCHHHHhhCcceEEEECCCCCccCcCChH-HhhhhhhhcccccCC-
Confidence            33333334444444555689999999886  666655  678999999999998 56667665 899999999999999 


Q ss_pred             CCccCCccccCCCCCCEEeccCCC-CcccchhhhcCCCCCEEeccCCcCCCCCchhhhhccccCceeeccccCCCcc---
Q 038398          552 LLWKLPSGISTLVSLEHLDLSSTA-ITHLPIELQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFDCGGSKI---  627 (720)
Q Consensus       552 ~~~~lp~~i~~l~~L~~L~L~~~~-i~~lp~~i~~l~~L~~L~l~~~~~l~~lp~~~~~~l~~L~~L~~~~~~~~~l---  627 (720)
                      .+..+|..+++|..|.+|++..+. +..+|..+..|++|++|.+....  ........+.+.+|++|..+.+.....   
T Consensus       606 ~I~~LP~~l~~Lk~L~~Lnl~~~~~l~~~~~i~~~L~~Lr~L~l~~s~--~~~~~~~l~el~~Le~L~~ls~~~~s~~~~  683 (889)
T KOG4658|consen  606 GISHLPSGLGNLKKLIYLNLEVTGRLESIPGILLELQSLRVLRLPRSA--LSNDKLLLKELENLEHLENLSITISSVLLL  683 (889)
T ss_pred             CccccchHHHHHHhhheeccccccccccccchhhhcccccEEEeeccc--cccchhhHHhhhcccchhhheeecchhHhH
Confidence            566999999999999999999984 55566666669999999998732  122222355556666665554433221   


Q ss_pred             cchh---------cccc--cCCccccHHHhcCCCCCceeEEEecchhhHHH-Hhhhh--h-hhhhccccccccccCCCcc
Q 038398          628 ERLK---------INVL--FGGHQFLVEELMGMKHLMVLTITLKSWQALKE-LLISQ--E-LQRSTQSLFLRCFNDSKSL  692 (720)
Q Consensus       628 ~~l~---------~~~~--~~~~~~~~~~l~~l~~L~~L~~~~~~~~~l~~-l~~~~--~-~~~~L~~L~l~~~~~l~~l  692 (720)
                      .++.         ...+  ..........+..+.+|+.|.+..+....... +..+.  . .++++..+.+.+|..+..+
T Consensus       684 e~l~~~~~L~~~~~~l~~~~~~~~~~~~~~~~l~~L~~L~i~~~~~~e~~~~~~~~~~~~~~f~~l~~~~~~~~~~~r~l  763 (889)
T KOG4658|consen  684 EDLLGMTRLRSLLQSLSIEGCSKRTLISSLGSLGNLEELSILDCGISEIVIEWEESLIVLLCFPNLSKVSILNCHMLRDL  763 (889)
T ss_pred             hhhhhhHHHHHHhHhhhhcccccceeecccccccCcceEEEEcCCCchhhcccccccchhhhHHHHHHHHhhcccccccc
Confidence            1110         0001  01122345566778889999998777643211 11111  1 1346777777777766666


Q ss_pred             ccccccccCCcceeeecCCCCCccc
Q 038398          693 DIFCLAGLRNLNKLYVAGCKHLEDS  717 (720)
Q Consensus       693 ~~~~l~~l~~L~~L~l~~c~~l~~i  717 (720)
                      .  +..-.|+|+.|++..|+.++++
T Consensus       764 ~--~~~f~~~L~~l~l~~~~~~e~~  786 (889)
T KOG4658|consen  764 T--WLLFAPHLTSLSLVSCRLLEDI  786 (889)
T ss_pred             c--hhhccCcccEEEEecccccccC
Confidence            5  4455689999999999988865

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

Probab=98.98  E-value=2e-08  Score=101.00  Aligned_cols=175  Identities=22%  Similarity=0.241  Sum_probs=108.2

Q ss_pred             CCCCcCchHHH---HHHHHHhcCCCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHHHH
Q 038398          125 CEPTVGLESTF---DKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKIGR  201 (720)
Q Consensus       125 ~~~~vGr~~~~---~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i~~  201 (720)
                      .+++||.+..+   .-|-+.+..+.+.-...|||+|+||||||+.+....   ...|     ..++...+-.+=      
T Consensus        23 lde~vGQ~HLlg~~~~lrr~v~~~~l~SmIl~GPPG~GKTTlA~liA~~~---~~~f-----~~~sAv~~gvkd------   88 (436)
T COG2256          23 LDEVVGQEHLLGEGKPLRRAVEAGHLHSMILWGPPGTGKTTLARLIAGTT---NAAF-----EALSAVTSGVKD------   88 (436)
T ss_pred             HHHhcChHhhhCCCchHHHHHhcCCCceeEEECCCCCCHHHHHHHHHHhh---CCce-----EEeccccccHHH------
Confidence            35667777655   235555666778888899999999999999999876   3343     333332221111      


Q ss_pred             HhCCCCCccCCCChhHHHHHH-HHHhccCcEEEEEecccc--ccccccccccCCCCCCCcEEEE--EcCChhH---hhhh
Q 038398          202 RIGFFDESWKNGSLEDKTSDI-LRILGKKKFLLLLDDIWE--RVDLTKVGIPFPDPENKSKIVF--TTHFLEI---CGAL  273 (720)
Q Consensus       202 ~l~~~~~~~~~~~~~~~~~~l-~~~l~~k~~LlVlDdv~~--~~~~~~l~~~~~~~~~gs~iii--TtR~~~v---~~~~  273 (720)
                                   ..+..+.- .....+++.+|++|+|..  ..+-+.+   +|.-..|.-|+|  ||.|+..   ....
T Consensus        89 -------------lr~i~e~a~~~~~~gr~tiLflDEIHRfnK~QQD~l---Lp~vE~G~iilIGATTENPsF~ln~ALl  152 (436)
T COG2256          89 -------------LREIIEEARKNRLLGRRTILFLDEIHRFNKAQQDAL---LPHVENGTIILIGATTENPSFELNPALL  152 (436)
T ss_pred             -------------HHHHHHHHHHHHhcCCceEEEEehhhhcChhhhhhh---hhhhcCCeEEEEeccCCCCCeeecHHHh
Confidence                         12222222 123347899999999974  4444444   344456777776  6666543   2223


Q ss_pred             ccCceeeccCCChhhHHHHHHHHhccCccC---CCCCh-HHHHHHHHHHhCCcc-hHHHHH
Q 038398          274 KAHEFLKVECLGPEDAWRLFRENLRRDVLD---NHPDI-PELARSVAQECAGLP-LALITI  329 (720)
Q Consensus       274 ~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~---~~~~~-~~~~~~i~~~c~GlP-Lai~~~  329 (720)
                      +-..++.+++|+.+|-.+++.+.+......   ....+ ++....++..++|-- .|++.+
T Consensus       153 SR~~vf~lk~L~~~di~~~l~ra~~~~~rgl~~~~~~i~~~a~~~l~~~s~GD~R~aLN~L  213 (436)
T COG2256         153 SRARVFELKPLSSEDIKKLLKRALLDEERGLGGQIIVLDEEALDYLVRLSNGDARRALNLL  213 (436)
T ss_pred             hhhheeeeecCCHHHHHHHHHHHHhhhhcCCCcccccCCHHHHHHHHHhcCchHHHHHHHH
Confidence            445789999999999999999854322211   11222 456777888888843 344433

>PRK15387 E3 ubiquitin-protein ligase SspH2; Provisional

Probab=98.98  E-value=2.1e-09  Score=121.04  Aligned_cols=132  Identities=23%  Similarity=0.239  Sum_probs=100.6

Q ss_pred             HHHHHHHHhhhccccccEEEEcCCCCccCcccccccceeEEEecccccccCCCCCCCCcccEEEccCCCCcCcchHHhcc
Q 038398          459 RDMVLWIACKIEKEKENFLVHAGLGLTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQS  538 (720)
Q Consensus       459 ~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~  538 (720)
                      |..|....+++.......+......+..+|..- ..+++.|++.+|.+..+|..  +++|++|++++|.++.+|..    
T Consensus       188 r~~a~~r~~~Cl~~~~~~LdLs~~~LtsLP~~l-~~~L~~L~L~~N~Lt~LP~l--p~~Lk~LdLs~N~LtsLP~l----  260 (788)
T PRK15387        188 RAAVVQKMRACLNNGNAVLNVGESGLTTLPDCL-PAHITTLVIPDNNLTSLPAL--PPELRTLEVSGNQLTSLPVL----  260 (788)
T ss_pred             HHHHHHHHHHHhcCCCcEEEcCCCCCCcCCcch-hcCCCEEEccCCcCCCCCCC--CCCCcEEEecCCccCcccCc----
Confidence            345555555555555667777777777766522 35899999999999988764  58999999999999988742    


Q ss_pred             CCcccEEEccCCCCCccCCccccCCCCCCEEeccCCCCcccchhhhcCCCCCEEeccCCcCCCCCch
Q 038398          539 MPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSSTAITHLPIELQKLVNLKCLNLEYMNNLNQFPR  605 (720)
Q Consensus       539 l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~~~i~~lp~~i~~l~~L~~L~l~~~~~l~~lp~  605 (720)
                      .++|+.|++++|. +..+|..   +..|+.|++++|+++.+|..   +++|+.|++++ |.+..+|.
T Consensus       261 p~sL~~L~Ls~N~-L~~Lp~l---p~~L~~L~Ls~N~Lt~LP~~---p~~L~~LdLS~-N~L~~Lp~  319 (788)
T PRK15387        261 PPGLLELSIFSNP-LTHLPAL---PSGLCKLWIFGNQLTSLPVL---PPGLQELSVSD-NQLASLPA  319 (788)
T ss_pred             ccccceeeccCCc-hhhhhhc---hhhcCEEECcCCcccccccc---ccccceeECCC-CccccCCC
Confidence            4689999999995 4567753   35788999999999999863   57899999998 46777765

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

Probab=98.97  E-value=5.5e-11  Score=117.92  Aligned_cols=208  Identities=21%  Similarity=0.221  Sum_probs=150.8

Q ss_pred             cccccccceeEEEecccccccCCC--CCCCCcccEEEccC-CCCcCcchHHhccCCcccEEEccCCCCCccCCccccCCC
Q 038398          488 PEIQNWRNVRRMSLMKNKIENLSE--TPTCPHLLSLFLSD-NSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLV  564 (720)
Q Consensus       488 ~~~~~~~~l~~L~l~~~~~~~~~~--~~~~~~L~~L~l~~-~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~  564 (720)
                      ..|..+++||+|+|+.|.|+.+.+  +.+++.|.+|.+.+ |+++.++...|.+|..|+-|.+.-|+..-.....+..|+
T Consensus        85 ~aF~~l~~LRrLdLS~N~Is~I~p~AF~GL~~l~~Lvlyg~NkI~~l~k~~F~gL~slqrLllNan~i~Cir~~al~dL~  164 (498)
T KOG4237|consen   85 GAFKTLHRLRRLDLSKNNISFIAPDAFKGLASLLSLVLYGNNKITDLPKGAFGGLSSLQRLLLNANHINCIRQDALRDLP  164 (498)
T ss_pred             hhccchhhhceecccccchhhcChHhhhhhHhhhHHHhhcCCchhhhhhhHhhhHHHHHHHhcChhhhcchhHHHHHHhh
Confidence            468899999999999999987754  46777777776666 899999999999999999999888866555567788888


Q ss_pred             CCCEEeccCCCCcccch-hhhcCCCCCEEeccCCc---------------------------------------------
Q 038398          565 SLEHLDLSSTAITHLPI-ELQKLVNLKCLNLEYMN---------------------------------------------  598 (720)
Q Consensus       565 ~L~~L~L~~~~i~~lp~-~i~~l~~L~~L~l~~~~---------------------------------------------  598 (720)
                      +|..|.+..|.+..++. ++..+..++++.+..+.                                             
T Consensus       165 ~l~lLslyDn~~q~i~~~tf~~l~~i~tlhlA~np~icdCnL~wla~~~a~~~ietsgarc~~p~rl~~~Ri~q~~a~kf  244 (498)
T KOG4237|consen  165 SLSLLSLYDNKIQSICKGTFQGLAAIKTLHLAQNPFICDCNLPWLADDLAMNPIETSGARCVSPYRLYYKRINQEDARKF  244 (498)
T ss_pred             hcchhcccchhhhhhccccccchhccchHhhhcCccccccccchhhhHHhhchhhcccceecchHHHHHHHhcccchhhh
Confidence            88888888888888876 57777777777654321                                             


Q ss_pred             ----------------CCCCCchhhhhccccCceeeccccCCCcccchhcccccCCccccHHHhcCCCCCceeEEEecch
Q 038398          599 ----------------NLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKINVLFGGHQFLVEELMGMKHLMVLTITLKSW  662 (720)
Q Consensus       599 ----------------~l~~lp~~~~~~l~~L~~L~~~~~~~~~l~~l~~~~~~~~~~~~~~~l~~l~~L~~L~~~~~~~  662 (720)
                                      .....|...+.+|++   |...++++|++..+....           +.....++.|.+..|.+
T Consensus       245 ~c~~esl~s~~~~~d~~d~~cP~~cf~~L~~---L~~lnlsnN~i~~i~~~a-----------Fe~~a~l~eL~L~~N~l  310 (498)
T KOG4237|consen  245 LCSLESLPSRLSSEDFPDSICPAKCFKKLPN---LRKLNLSNNKITRIEDGA-----------FEGAAELQELYLTRNKL  310 (498)
T ss_pred             hhhHHhHHHhhccccCcCCcChHHHHhhccc---ceEeccCCCccchhhhhh-----------hcchhhhhhhhcCcchH
Confidence                            011112222344444   444455668877666544           44556677788877777


Q ss_pred             hhHHHHhhhhhhhhhccccccccccCCCccccccccccCCcceeeecCCC
Q 038398          663 QALKELLISQELQRSTQSLFLRCFNDSKSLDIFCLAGLRNLNKLYVAGCK  712 (720)
Q Consensus       663 ~~l~~l~~~~~~~~~L~~L~l~~~~~l~~l~~~~l~~l~~L~~L~l~~c~  712 (720)
                      ..+..  ..+..+..|+.|+|.+ |.++.+....|..+.+|..|+|-.||
T Consensus       311 ~~v~~--~~f~~ls~L~tL~L~~-N~it~~~~~aF~~~~~l~~l~l~~Np  357 (498)
T KOG4237|consen  311 EFVSS--GMFQGLSGLKTLSLYD-NQITTVAPGAFQTLFSLSTLNLLSNP  357 (498)
T ss_pred             HHHHH--HhhhccccceeeeecC-CeeEEEecccccccceeeeeehccCc
Confidence            65543  2344556889999998 66777776788888999999987766

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

Probab=98.96  E-value=1.2e-09  Score=100.75  Aligned_cols=120  Identities=23%  Similarity=0.295  Sum_probs=58.0

Q ss_pred             EEEcCCCCccCcccc-cccceeEEEecccccccCCCCCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCcc
Q 038398          477 LVHAGLGLTEAPEIQ-NWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWK  555 (720)
Q Consensus       477 ~~~~~~~~~~~~~~~-~~~~l~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~  555 (720)
                      +...+.....+..+. .+.+++.|++++|.+..++.+..+++|++|++++|.++.+.+.....+++|+.|+|++|++...
T Consensus        24 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~~N~I~~l  103 (175)
T PF14580_consen   24 LNLRGNQISTIENLGATLDKLEVLDLSNNQITKLEGLPGLPRLKTLDLSNNRISSISEGLDKNLPNLQELYLSNNKISDL  103 (175)
T ss_dssp             ------------S--TT-TT--EEE-TTS--S--TT----TT--EEE--SS---S-CHHHHHH-TT--EEE-TTS---SC
T ss_pred             ccccccccccccchhhhhcCCCEEECCCCCCccccCccChhhhhhcccCCCCCCccccchHHhCCcCCEEECcCCcCCCh
Confidence            444555555555555 4678999999999999999999999999999999999998765446799999999999965321


Q ss_pred             -CCccccCCCCCCEEeccCCCCcccchh----hhcCCCCCEEeccC
Q 038398          556 -LPSGISTLVSLEHLDLSSTAITHLPIE----LQKLVNLKCLNLEY  596 (720)
Q Consensus       556 -lp~~i~~l~~L~~L~L~~~~i~~lp~~----i~~l~~L~~L~l~~  596 (720)
                       --..+..+++|++|+|.+|.++..+.-    +..+++|+.||-..
T Consensus       104 ~~l~~L~~l~~L~~L~L~~NPv~~~~~YR~~vi~~lP~Lk~LD~~~  149 (175)
T PF14580_consen  104 NELEPLSSLPKLRVLSLEGNPVCEKKNYRLFVIYKLPSLKVLDGQD  149 (175)
T ss_dssp             CCCGGGGG-TT--EEE-TT-GGGGSTTHHHHHHHH-TT-SEETTEE
T ss_pred             HHhHHHHcCCCcceeeccCCcccchhhHHHHHHHHcChhheeCCEE
Confidence             124567899999999999999876543    78899999999754

>PRK06893 DNA replication initiation factor; Validated

Probab=98.94  E-value=9.9e-09  Score=100.81  Aligned_cols=170  Identities=16%  Similarity=0.172  Sum_probs=99.0

Q ss_pred             CCCCcCchHHH--HHHHHHhcCCCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHHHHH
Q 038398          125 CEPTVGLESTF--DKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKIGRR  202 (720)
Q Consensus       125 ~~~~vGr~~~~--~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i~~~  202 (720)
                      .++|+|-+...  ..+.+.......+.+.++|++|+|||+|++++++...   .....+.|+.+....   ....     
T Consensus        15 fd~f~~~~~~~~~~~~~~~~~~~~~~~l~l~G~~G~GKThL~~ai~~~~~---~~~~~~~y~~~~~~~---~~~~-----   83 (229)
T PRK06893         15 LDNFYADNNLLLLDSLRKNFIDLQQPFFYIWGGKSSGKSHLLKAVSNHYL---LNQRTAIYIPLSKSQ---YFSP-----   83 (229)
T ss_pred             ccccccCChHHHHHHHHHHhhccCCCeEEEECCCCCCHHHHHHHHHHHHH---HcCCCeEEeeHHHhh---hhhH-----
Confidence            36677544321  1122222223346789999999999999999999862   223355677653210   0000     


Q ss_pred             hCCCCCccCCCChhHHHHHHHHHhccCcEEEEEeccccc---ccccc-ccccCCC-CCCCcEEE-EEcCC---------h
Q 038398          203 IGFFDESWKNGSLEDKTSDILRILGKKKFLLLLDDIWER---VDLTK-VGIPFPD-PENKSKIV-FTTHF---------L  267 (720)
Q Consensus       203 l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~---~~~~~-l~~~~~~-~~~gs~ii-iTtR~---------~  267 (720)
                                        .+.+.+. +.-+|||||+|..   ..|+. +...+.. ...|..+| +|++.         +
T Consensus        84 ------------------~~~~~~~-~~dlLilDDi~~~~~~~~~~~~l~~l~n~~~~~~~~illits~~~p~~l~~~~~  144 (229)
T PRK06893         84 ------------------AVLENLE-QQDLVCLDDLQAVIGNEEWELAIFDLFNRIKEQGKTLLLISADCSPHALSIKLP  144 (229)
T ss_pred             ------------------HHHhhcc-cCCEEEEeChhhhcCChHHHHHHHHHHHHHHHcCCcEEEEeCCCChHHccccch
Confidence                              1111122 2348999999863   33432 2111211 12355554 45543         3


Q ss_pred             hHhhhhccCceeeccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCcchHHH
Q 038398          268 EICGALKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGLPLALI  327 (720)
Q Consensus       268 ~v~~~~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~GlPLai~  327 (720)
                      .+...+.....+++++++.++.++++.+.+.......   -++...-|++.+.|-.-.+.
T Consensus       145 ~L~sRl~~g~~~~l~~pd~e~~~~iL~~~a~~~~l~l---~~~v~~~L~~~~~~d~r~l~  201 (229)
T PRK06893        145 DLASRLTWGEIYQLNDLTDEQKIIVLQRNAYQRGIEL---SDEVANFLLKRLDRDMHTLF  201 (229)
T ss_pred             hHHHHHhcCCeeeCCCCCHHHHHHHHHHHHHHcCCCC---CHHHHHHHHHhccCCHHHHH
Confidence            4455555567899999999999999999887543222   26778888888887554443

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

Probab=98.93  E-value=5.3e-11  Score=123.29  Aligned_cols=193  Identities=24%  Similarity=0.325  Sum_probs=126.7

Q ss_pred             cceeEEEecccccccCCCC-CCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCccCCccccCCCCCCEEecc
Q 038398          494 RNVRRMSLMKNKIENLSET-PTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLS  572 (720)
Q Consensus       494 ~~l~~L~l~~~~~~~~~~~-~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~  572 (720)
                      ......+++.|.+..+|.- ..|-.|..|.+..|.+..++.. +.++..|.+|||+.| -+..+|..++.|+ |+.|.++
T Consensus        75 tdt~~aDlsrNR~~elp~~~~~f~~Le~liLy~n~~r~ip~~-i~~L~~lt~l~ls~N-qlS~lp~~lC~lp-Lkvli~s  151 (722)
T KOG0532|consen   75 TDTVFADLSRNRFSELPEEACAFVSLESLILYHNCIRTIPEA-ICNLEALTFLDLSSN-QLSHLPDGLCDLP-LKVLIVS  151 (722)
T ss_pred             cchhhhhccccccccCchHHHHHHHHHHHHHHhccceecchh-hhhhhHHHHhhhccc-hhhcCChhhhcCc-ceeEEEe
Confidence            3344567777777776653 4456677788888877777665 778888888888888 4457787777664 7888888


Q ss_pred             CCCCcccchhhhcCCCCCEEeccCCcCCCCCchhhhhccccCceeeccccCCCcccchhcccccCCccccHHHhcCCCCC
Q 038398          573 STAITHLPIELQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKINVLFGGHQFLVEELMGMKHL  652 (720)
Q Consensus       573 ~~~i~~lp~~i~~l~~L~~L~l~~~~~l~~lp~~~~~~l~~L~~L~~~~~~~~~l~~l~~~~~~~~~~~~~~~l~~l~~L  652 (720)
                      +|+++.+|+.++.+..|.+||.+. +.+..+|.. ++.+.+|+.|.+.   .|++..+            +.++..|+ |
T Consensus       152 NNkl~~lp~~ig~~~tl~~ld~s~-nei~slpsq-l~~l~slr~l~vr---Rn~l~~l------------p~El~~Lp-L  213 (722)
T KOG0532|consen  152 NNKLTSLPEEIGLLPTLAHLDVSK-NEIQSLPSQ-LGYLTSLRDLNVR---RNHLEDL------------PEELCSLP-L  213 (722)
T ss_pred             cCccccCCcccccchhHHHhhhhh-hhhhhchHH-hhhHHHHHHHHHh---hhhhhhC------------CHHHhCCc-e
Confidence            888888888888888888888887 455667764 5666666655544   4554333            33454433 6


Q ss_pred             ceeEEEecchhhHHHHhhhhhhhhhccccccccccCCCccccccc--cccCCcceeeecCC
Q 038398          653 MVLTITLKSWQALKELLISQELQRSTQSLFLRCFNDSKSLDIFCL--AGLRNLNKLYVAGC  711 (720)
Q Consensus       653 ~~L~~~~~~~~~l~~l~~~~~~~~~L~~L~l~~~~~l~~l~~~~l--~~l~~L~~L~l~~c  711 (720)
                      ..|+++.|++..+   +..+..++.|+.|-|.+ |-+.+-|..-.  +..--.++|++.-|
T Consensus       214 i~lDfScNkis~i---Pv~fr~m~~Lq~l~Len-NPLqSPPAqIC~kGkVHIFKyL~~qA~  270 (722)
T KOG0532|consen  214 IRLDFSCNKISYL---PVDFRKMRHLQVLQLEN-NPLQSPPAQICEKGKVHIFKYLSTQAC  270 (722)
T ss_pred             eeeecccCceeec---chhhhhhhhheeeeecc-CCCCCChHHHHhccceeeeeeecchhc
Confidence            6777776666544   45566667777777776 43555553321  12223456666655

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

Probab=98.91  E-value=7.1e-10  Score=115.99  Aligned_cols=211  Identities=24%  Similarity=0.235  Sum_probs=141.1

Q ss_pred             cccccceeEEEecccccccCC--------CCCCCCcccEEEccCCCCcCcchHHhccCCc---ccEEEccCCCCCc----
Q 038398          490 IQNWRNVRRMSLMKNKIENLS--------ETPTCPHLLSLFLSDNSLKMSTDDFFQSMPS---LRVFNMSNNHLLW----  554 (720)
Q Consensus       490 ~~~~~~l~~L~l~~~~~~~~~--------~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~---L~~L~L~~~~~~~----  554 (720)
                      +...++++++++.++.+...+        .+..+++|+.|++++|.+....+..+..+..   |++|++++|+...    
T Consensus        47 l~~~~~l~~l~l~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~l~~~~~L~~L~ls~~~~~~~~~~  126 (319)
T cd00116          47 LRPQPSLKELCLSLNETGRIPRGLQSLLQGLTKGCGLQELDLSDNALGPDGCGVLESLLRSSSLQELKLNNNGLGDRGLR  126 (319)
T ss_pred             HhhCCCceEEeccccccCCcchHHHHHHHHHHhcCceeEEEccCCCCChhHHHHHHHHhccCcccEEEeeCCccchHHHH
Confidence            445567899999888765311        1255789999999999887555555555555   9999999996652    


Q ss_pred             cCCccccCC-CCCCEEeccCCCCc-----ccchhhhcCCCCCEEeccCCcCCCC-----CchhhhhccccCceeeccccC
Q 038398          555 KLPSGISTL-VSLEHLDLSSTAIT-----HLPIELQKLVNLKCLNLEYMNNLNQ-----FPRLVISAFSKLQVLRMFDCG  623 (720)
Q Consensus       555 ~lp~~i~~l-~~L~~L~L~~~~i~-----~lp~~i~~l~~L~~L~l~~~~~l~~-----lp~~~~~~l~~L~~L~~~~~~  623 (720)
                      .++..+..+ ++|+.|++++|.++     .++..+..+++|++|++++|. +..     ++.. +..+++|++|++.+|.
T Consensus       127 ~l~~~l~~~~~~L~~L~L~~n~l~~~~~~~~~~~~~~~~~L~~L~l~~n~-l~~~~~~~l~~~-l~~~~~L~~L~L~~n~  204 (319)
T cd00116         127 LLAKGLKDLPPALEKLVLGRNRLEGASCEALAKALRANRDLKELNLANNG-IGDAGIRALAEG-LKANCNLEVLDLNNNG  204 (319)
T ss_pred             HHHHHHHhCCCCceEEEcCCCcCCchHHHHHHHHHHhCCCcCEEECcCCC-CchHHHHHHHHH-HHhCCCCCEEeccCCc
Confidence            234456677 89999999999887     445567788899999999863 331     1211 3444578888887654


Q ss_pred             CCcccchhcccccCCccccHHHhcCCCCCceeEEEecchhhHHHHhhhhh---hhhhccccccccccCCCcccc----cc
Q 038398          624 GSKIERLKINVLFGGHQFLVEELMGMKHLMVLTITLKSWQALKELLISQE---LQRSTQSLFLRCFNDSKSLDI----FC  696 (720)
Q Consensus       624 ~~~l~~l~~~~~~~~~~~~~~~l~~l~~L~~L~~~~~~~~~l~~l~~~~~---~~~~L~~L~l~~~~~l~~l~~----~~  696 (720)
                      ...   ..       .......+..+++|+.|+++++.+...........   ..+.|++|++++|. ++....    ..
T Consensus       205 i~~---~~-------~~~l~~~~~~~~~L~~L~ls~n~l~~~~~~~l~~~~~~~~~~L~~L~l~~n~-i~~~~~~~l~~~  273 (319)
T cd00116         205 LTD---EG-------ASALAETLASLKSLEVLNLGDNNLTDAGAAALASALLSPNISLLTLSLSCND-ITDDGAKDLAEV  273 (319)
T ss_pred             cCh---HH-------HHHHHHHhcccCCCCEEecCCCcCchHHHHHHHHHHhccCCCceEEEccCCC-CCcHHHHHHHHH
Confidence            332   11       11234456778999999999987764322221111   13689999999864 331111    24


Q ss_pred             ccccCCcceeeecCCCC
Q 038398          697 LAGLRNLNKLYVAGCKH  713 (720)
Q Consensus       697 l~~l~~L~~L~l~~c~~  713 (720)
                      +..+++|+.|++++|.-
T Consensus       274 ~~~~~~L~~l~l~~N~l  290 (319)
T cd00116         274 LAEKESLLELDLRGNKF  290 (319)
T ss_pred             HhcCCCccEEECCCCCC
Confidence            56678999999999874

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).

>PRK13342 recombination factor protein RarA; Reviewed

Probab=98.89  E-value=2.5e-08  Score=107.14  Aligned_cols=177  Identities=17%  Similarity=0.144  Sum_probs=106.8

Q ss_pred             CCCCCcCchHHHHH---HHHHhcCCCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHHH
Q 038398          124 PCEPTVGLESTFDK---VWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKIG  200 (720)
Q Consensus       124 ~~~~~vGr~~~~~~---l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i~  200 (720)
                      ..+++||++..+..   +..++..+....+.++|++|+||||+|+.+++..   ...|     +.++....-..-.+.+.
T Consensus        10 ~l~d~vGq~~~v~~~~~L~~~i~~~~~~~ilL~GppGtGKTtLA~~ia~~~---~~~~-----~~l~a~~~~~~~ir~ii   81 (413)
T PRK13342         10 TLDEVVGQEHLLGPGKPLRRMIEAGRLSSMILWGPPGTGKTTLARIIAGAT---DAPF-----EALSAVTSGVKDLREVI   81 (413)
T ss_pred             CHHHhcCcHHHhCcchHHHHHHHcCCCceEEEECCCCCCHHHHHHHHHHHh---CCCE-----EEEecccccHHHHHHHH
Confidence            34678999988766   8888877777788899999999999999999876   2232     22222111111111121


Q ss_pred             HHhCCCCCccCCCChhHHHHHHHH-HhccCcEEEEEeccccc--cccccccccCCCCCCCcEEEE--EcCChhH---hhh
Q 038398          201 RRIGFFDESWKNGSLEDKTSDILR-ILGKKKFLLLLDDIWER--VDLTKVGIPFPDPENKSKIVF--TTHFLEI---CGA  272 (720)
Q Consensus       201 ~~l~~~~~~~~~~~~~~~~~~l~~-~l~~k~~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~iii--TtR~~~v---~~~  272 (720)
                      .                   .... ...+++.+|++|+++..  ...+.+...+.   .|..++|  ||.+...   ...
T Consensus        82 ~-------------------~~~~~~~~g~~~vL~IDEi~~l~~~~q~~LL~~le---~~~iilI~att~n~~~~l~~aL  139 (413)
T PRK13342         82 E-------------------EARQRRSAGRRTILFIDEIHRFNKAQQDALLPHVE---DGTITLIGATTENPSFEVNPAL  139 (413)
T ss_pred             H-------------------HHHHhhhcCCceEEEEechhhhCHHHHHHHHHHhh---cCcEEEEEeCCCChhhhccHHH
Confidence            1                   1111 11457889999999853  23333332222   2444444  3444321   111


Q ss_pred             hccCceeeccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCcchHHHHHH
Q 038398          273 LKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGLPLALITIG  330 (720)
Q Consensus       273 ~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~GlPLai~~~~  330 (720)
                      ......+.+.+++.++.+.++.+.+.........-..+....|++.|+|.|..+..+.
T Consensus       140 ~SR~~~~~~~~ls~e~i~~lL~~~l~~~~~~~i~i~~~al~~l~~~s~Gd~R~aln~L  197 (413)
T PRK13342        140 LSRAQVFELKPLSEEDIEQLLKRALEDKERGLVELDDEALDALARLANGDARRALNLL  197 (413)
T ss_pred             hccceeeEeCCCCHHHHHHHHHHHHHHhhcCCCCCCHHHHHHHHHhCCCCHHHHHHHH
Confidence            2223678999999999999999876432101012235677889999999887654443

>PTZ00112 origin recognition complex 1 protein; Provisional

Probab=98.87  E-value=2.7e-07  Score=102.10  Aligned_cols=207  Identities=16%  Similarity=0.099  Sum_probs=121.3

Q ss_pred             CCCcCchHHHHHHHHHhcC----C-CceEEEEEcCCCChHHHHHHHHHhhhcCC--CCCcC--EEEEEEecCcCCHHHHH
Q 038398          126 EPTVGLESTFDKVWRCLGE----E-QVGIIGLYGMGGVGKTTLLTKINNKLLGA--PNVFD--VVIWVVVSKDLQLEKIQ  196 (720)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~----~-~~~vi~I~G~gGiGKTtLa~~v~~~~~~~--~~~f~--~~~wv~v~~~~~~~~~~  196 (720)
                      +.+.|||+++++|...|..    . ...++.|+|++|+|||++++.|.+...+.  .....  .+++|++..-.+...+.
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            4568999999999888743    2 23577899999999999999998776211  11112  46778877777888888


Q ss_pred             HHHHHHhCCCCCccCCCChhHHHHHHHHHhcc---CcEEEEEecccccc--ccccccccCC-CCCCCcEEEE--EcCChh
Q 038398          197 EKIGRRIGFFDESWKNGSLEDKTSDILRILGK---KKFLLLLDDIWERV--DLTKVGIPFP-DPENKSKIVF--TTHFLE  268 (720)
Q Consensus       197 ~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~---k~~LlVlDdv~~~~--~~~~l~~~~~-~~~~gs~iii--TtR~~~  268 (720)
                      ..|..++....+. ......+....+...+..   ...+||||+++...  .-+.+...+. ....+++|++  +|....
T Consensus       835 qvI~qqL~g~~P~-~GlsS~evLerLF~~L~k~~r~v~IIILDEID~L~kK~QDVLYnLFR~~~~s~SKLiLIGISNdlD  913 (1164)
T PTZ00112        835 QVLYKQLFNKKPP-NALNSFKILDRLFNQNKKDNRNVSILIIDEIDYLITKTQKVLFTLFDWPTKINSKLVLIAISNTMD  913 (1164)
T ss_pred             HHHHHHHcCCCCC-ccccHHHHHHHHHhhhhcccccceEEEeehHhhhCccHHHHHHHHHHHhhccCCeEEEEEecCchh
Confidence            9999888433221 222333445555554422   24599999997432  1111111111 1123455444  333211


Q ss_pred             H--------hhhhccCceeeccCCChhhHHHHHHHHhccCccCCC-CChHHHHHHHHHHhCCcchHHHHHHHHHh
Q 038398          269 I--------CGALKAHEFLKVECLGPEDAWRLFRENLRRDVLDNH-PDIPELARSVAQECAGLPLALITIGRAMA  334 (720)
Q Consensus       269 v--------~~~~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~-~~~~~~~~~i~~~c~GlPLai~~~~~~l~  334 (720)
                      .        ...+ ....+..+|++.++-.+++..++.......+ ..++-+|+.+++..|-.-.||.++-.+..
T Consensus       914 LperLdPRLRSRL-g~eeIvF~PYTaEQL~dILk~RAe~A~gVLdDdAIELIArkVAq~SGDARKALDILRrAgE  987 (1164)
T PTZ00112        914 LPERLIPRCRSRL-AFGRLVFSPYKGDEIEKIIKERLENCKEIIDHTAIQLCARKVANVSGDIRKALQICRKAFE  987 (1164)
T ss_pred             cchhhhhhhhhcc-ccccccCCCCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHhhhhcCCHHHHHHHHHHHHHh
Confidence            1        1111 1234677999999999999998864321112 22333344444444446777777655543

>PRK04195 replication factor C large subunit; Provisional

Probab=98.82  E-value=1.7e-07  Score=102.83  Aligned_cols=245  Identities=18%  Similarity=0.220  Sum_probs=135.0

Q ss_pred             CCCcCchHHHHHHHHHhcC----CCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHHHH
Q 038398          126 EPTVGLESTFDKVWRCLGE----EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKIGR  201 (720)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~----~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i~~  201 (720)
                      ++++|.++.++++..|+..    ...+.+.|+|++|+||||+|+.+++.. .    |+ ++-++.+...+...+ ..++.
T Consensus        14 ~dlvg~~~~~~~l~~~l~~~~~g~~~~~lLL~GppG~GKTtla~ala~el-~----~~-~ielnasd~r~~~~i-~~~i~   86 (482)
T PRK04195         14 SDVVGNEKAKEQLREWIESWLKGKPKKALLLYGPPGVGKTSLAHALANDY-G----WE-VIELNASDQRTADVI-ERVAG   86 (482)
T ss_pred             HHhcCCHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHc-C----CC-EEEEcccccccHHHH-HHHHH
Confidence            5689999999999998853    226789999999999999999999987 1    22 333444443333322 22222


Q ss_pred             HhCCCCCccCCCChhHHHHHHHHHhccCcEEEEEeccccccc------cccccccCCCCCCCcEEEEEcCChh-Hh--hh
Q 038398          202 RIGFFDESWKNGSLEDKTSDILRILGKKKFLLLLDDIWERVD------LTKVGIPFPDPENKSKIVFTTHFLE-IC--GA  272 (720)
Q Consensus       202 ~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~------~~~l~~~~~~~~~gs~iiiTtR~~~-v~--~~  272 (720)
                      ......                .....++-+||||+++....      +..+...+.  ..+..||+|+.+.. ..  ..
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                01113677999999976321      222322222  22345666664322 11  11


Q ss_pred             hccCceeeccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCcch-HHHHHHHHHhcCCChhHHHHHHHHHhc
Q 038398          273 LKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGLPL-ALITIGRAMACKKTPQEWHYAIQVLRR  351 (720)
Q Consensus       273 ~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~GlPL-ai~~~~~~l~~~~~~~~w~~~l~~l~~  351 (720)
                      ......+++.+++.++....+...+.......   -.+....|++.++|-.- |+..+-. +..+...-.-.. .+.+..
T Consensus       149 rsr~~~I~f~~~~~~~i~~~L~~i~~~egi~i---~~eaL~~Ia~~s~GDlR~ain~Lq~-~a~~~~~it~~~-v~~~~~  223 (482)
T PRK04195        149 RNACLMIEFKRLSTRSIVPVLKRICRKEGIEC---DDEALKEIAERSGGDLRSAINDLQA-IAEGYGKLTLED-VKTLGR  223 (482)
T ss_pred             hccceEEEecCCCHHHHHHHHHHHHHHcCCCC---CHHHHHHHHHHcCCCHHHHHHHHHH-HhcCCCCCcHHH-HHHhhc
Confidence            12345789999999999999888775443222   25678899999998654 4444444 333211111111 111111


Q ss_pred             ccCCCCCCCccchhhHHhhcCCCCCcchhHHHHhhcCCCCCcccChHHHHHHHHhhCCCCcc
Q 038398          352 SASEFPGMGKEVYPLLKFSYDSLPDDTIRSYLLYCGLFPEDYRIRKSELIDCWIGEGFLDQY  413 (720)
Q Consensus       352 ~~~~~~~~~~~~~~~l~~sy~~L~~~~~k~~fl~~~~fp~~~~i~~~~li~~Wiaeg~~~~~  413 (720)
                           .+....++.++..-+..=..+.+...+..+       .++. ..+-.|+.|.++...
T Consensus       224 -----~d~~~~if~~l~~i~~~k~~~~a~~~~~~~-------~~~~-~~i~~~l~en~~~~~  272 (482)
T PRK04195        224 -----RDREESIFDALDAVFKARNADQALEASYDV-------DEDP-DDLIEWIDENIPKEY  272 (482)
T ss_pred             -----CCCCCCHHHHHHHHHCCCCHHHHHHHHHcc-------cCCH-HHHHHHHHhcccccc
Confidence                 112236666666555421111233222221       1222 357789999998764

>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda

Probab=98.80  E-value=6.2e-08  Score=95.67  Aligned_cols=173  Identities=14%  Similarity=0.094  Sum_probs=105.0

Q ss_pred             CCCc--CchHHHHHHHHHhcCCCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHHHHHh
Q 038398          126 EPTV--GLESTFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKIGRRI  203 (720)
Q Consensus       126 ~~~v--Gr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i~~~l  203 (720)
                      ++|+  +.+..++.+.+++.......|.|+|++|+|||+||+.+++...   ......+|++++.-.+      ..    
T Consensus        15 ~~~~~~~~~~~~~~l~~~~~~~~~~~lll~G~~G~GKT~la~~~~~~~~---~~~~~~~~i~~~~~~~------~~----   81 (226)
T TIGR03420        15 DNFYAGGNAELLAALRQLAAGKGDRFLYLWGESGSGKSHLLQAACAAAE---ERGKSAIYLPLAELAQ------AD----   81 (226)
T ss_pred             cCcCcCCcHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHHH---hcCCcEEEEeHHHHHH------hH----
Confidence            4555  2445777787776555667899999999999999999998862   2233456665533211      00    


Q ss_pred             CCCCCccCCCChhHHHHHHHHHhccCcEEEEEecccccc---cc-ccccccCCC-CCCCcEEEEEcCChh---------H
Q 038398          204 GFFDESWKNGSLEDKTSDILRILGKKKFLLLLDDIWERV---DL-TKVGIPFPD-PENKSKIVFTTHFLE---------I  269 (720)
Q Consensus       204 ~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~---~~-~~l~~~~~~-~~~gs~iiiTtR~~~---------v  269 (720)
                                      ..+.+.+.+ .-+|||||++...   .| ..+...+.. ...+..+|+||+...         +
T Consensus        82 ----------------~~~~~~~~~-~~lLvIDdi~~l~~~~~~~~~L~~~l~~~~~~~~~iIits~~~~~~~~~~~~~L  144 (226)
T TIGR03420        82 ----------------PEVLEGLEQ-ADLVCLDDVEAIAGQPEWQEALFHLYNRVREAGGRLLIAGRAAPAQLPLRLPDL  144 (226)
T ss_pred             ----------------HHHHhhccc-CCEEEEeChhhhcCChHHHHHHHHHHHHHHHcCCeEEEECCCChHHCCcccHHH
Confidence                            011111222 2389999997532   22 222222211 123457888887532         1


Q ss_pred             hhhhccCceeeccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCcchHHHHHHH
Q 038398          270 CGALKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGLPLALITIGR  331 (720)
Q Consensus       270 ~~~~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~GlPLai~~~~~  331 (720)
                      ...+.....+++++++.++...++...+....   -+--.+..+.+++.++|.|..+..+..
T Consensus       145 ~~r~~~~~~i~l~~l~~~e~~~~l~~~~~~~~---~~~~~~~l~~L~~~~~gn~r~L~~~l~  203 (226)
T TIGR03420       145 RTRLAWGLVFQLPPLSDEEKIAALQSRAARRG---LQLPDEVADYLLRHGSRDMGSLMALLD  203 (226)
T ss_pred             HHHHhcCeeEecCCCCHHHHHHHHHHHHHHcC---CCCCHHHHHHHHHhccCCHHHHHHHHH
Confidence            22222245789999999999999887654322   112256678888889998887766543

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.

>KOG2028 consensus ATPase related to the helicase subunit of the Holliday junction resolvase [Replication, recombination and repair]

Probab=98.76  E-value=8.1e-08  Score=94.69  Aligned_cols=173  Identities=17%  Similarity=0.156  Sum_probs=108.6

Q ss_pred             CCCcCchHHHH---HHHHHhcCCCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHHHHH
Q 038398          126 EPTVGLESTFD---KVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKIGRR  202 (720)
Q Consensus       126 ~~~vGr~~~~~---~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i~~~  202 (720)
                      .+.||.+..+-   -|.+++.++.+..+.+||++|+||||||+.+....   +.+-  ..||..|....-..=.++|.++
T Consensus       138 ~dyvGQ~hlv~q~gllrs~ieq~~ipSmIlWGppG~GKTtlArlia~ts---k~~S--yrfvelSAt~a~t~dvR~ife~  212 (554)
T KOG2028|consen  138 DDYVGQSHLVGQDGLLRSLIEQNRIPSMILWGPPGTGKTTLARLIASTS---KKHS--YRFVELSATNAKTNDVRDIFEQ  212 (554)
T ss_pred             HHhcchhhhcCcchHHHHHHHcCCCCceEEecCCCCchHHHHHHHHhhc---CCCc--eEEEEEeccccchHHHHHHHHH
Confidence            44577666543   24455566788889999999999999999999876   2221  5677777654333333333333


Q ss_pred             hCCCCCccCCCChhHHHHHHHHHhccCcEEEEEecccc--ccccccccccCCCCCCCcEEEE--EcCChhH---hhhhcc
Q 038398          203 IGFFDESWKNGSLEDKTSDILRILGKKKFLLLLDDIWE--RVDLTKVGIPFPDPENKSKIVF--TTHFLEI---CGALKA  275 (720)
Q Consensus       203 l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~--~~~~~~l~~~~~~~~~gs~iii--TtR~~~v---~~~~~~  275 (720)
                      -..                 ...+.++|.+|.+|+|..  ..+-+.+   +|.-.+|.-++|  ||.++..   ......
T Consensus       213 aq~-----------------~~~l~krkTilFiDEiHRFNksQQD~f---LP~VE~G~I~lIGATTENPSFqln~aLlSR  272 (554)
T KOG2028|consen  213 AQN-----------------EKSLTKRKTILFIDEIHRFNKSQQDTF---LPHVENGDITLIGATTENPSFQLNAALLSR  272 (554)
T ss_pred             HHH-----------------HHhhhcceeEEEeHHhhhhhhhhhhcc---cceeccCceEEEecccCCCccchhHHHHhc
Confidence            211                 113567899999999963  4444444   455567776666  6776654   233344


Q ss_pred             CceeeccCCChhhHHHHHHHHhc---cCcc---C-CCC---ChHHHHHHHHHHhCCcc
Q 038398          276 HEFLKVECLGPEDAWRLFRENLR---RDVL---D-NHP---DIPELARSVAQECAGLP  323 (720)
Q Consensus       276 ~~~~~l~~L~~~e~~~Lf~~~~~---~~~~---~-~~~---~~~~~~~~i~~~c~GlP  323 (720)
                      -.++.|+.|+.++...++.+...   +...   . +++   ....+.+-++..|.|-.
T Consensus       273 C~VfvLekL~~n~v~~iL~raia~l~dser~~~~l~n~s~~ve~siidyla~lsdGDa  330 (554)
T KOG2028|consen  273 CRVFVLEKLPVNAVVTILMRAIASLGDSERPTDPLPNSSMFVEDSIIDYLAYLSDGDA  330 (554)
T ss_pred             cceeEeccCCHHHHHHHHHHHHHhhccccccCCCCCCcchhhhHHHHHHHHHhcCchH
Confidence            57899999999999999887432   2111   1 111   12446667777888754

>PRK07003 DNA polymerase III subunits gamma and tau; Validated

Probab=98.75  E-value=2.7e-07  Score=101.64  Aligned_cols=197  Identities=16%  Similarity=0.135  Sum_probs=111.5

Q ss_pred             CCCcCchHHHHHHHHHhcCCCc-eEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHHHHHhC
Q 038398          126 EPTVGLESTFDKVWRCLGEEQV-GIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKIGRRIG  204 (720)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i~~~l~  204 (720)
                      +++||.+..++.|.+++..+++ ..+.++|+.|+||||+|+.+.+.... ...++       +..+..-...+.|...-.
T Consensus        16 dEVIGQe~Vv~~L~~aL~~gRL~HAyLFtGPpGvGKTTlAriLAKaLnC-e~~~~-------~~PCG~C~sCr~I~~G~h   87 (830)
T PRK07003         16 ASLVGQEHVVRALTHALDGGRLHHAYLFTGTRGVGKTTLSRIFAKALNC-ETGVT-------SQPCGVCRACREIDEGRF   87 (830)
T ss_pred             HHHcCcHHHHHHHHHHHhcCCCCeEEEEECCCCCCHHHHHHHHHHHhcC-ccCCC-------CCCCcccHHHHHHhcCCC
Confidence            5689999999999999987654 46679999999999999998887621 11110       001111111111111000


Q ss_pred             CC---CCccCCCChhHHHHHHHHH----hccCcEEEEEecccccc--ccccccccCCCCCCCcEEEEEcCChh-Hh-hhh
Q 038398          205 FF---DESWKNGSLEDKTSDILRI----LGKKKFLLLLDDIWERV--DLTKVGIPFPDPENKSKIVFTTHFLE-IC-GAL  273 (720)
Q Consensus       205 ~~---~~~~~~~~~~~~~~~l~~~----l~~k~~LlVlDdv~~~~--~~~~l~~~~~~~~~gs~iiiTtR~~~-v~-~~~  273 (720)
                      ..   .+.......++..+.+...    ..++.-++|||+++...  .+..+...+.......++|++|++.. +. ...
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            00   0000011111111111111    12355589999998643  34444333333344677777776543 32 112


Q ss_pred             ccCceeeccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCc-chHHHHHHHHH
Q 038398          274 KAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGL-PLALITIGRAM  333 (720)
Q Consensus       274 ~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~Gl-PLai~~~~~~l  333 (720)
                      +-...+++++++.++..+.+.+.+......   --.+..+.|++.++|. .-|+..+-..+
T Consensus       168 SRCq~f~Fk~Ls~eeIv~~L~~Il~~EgI~---id~eAL~lIA~~A~GsmRdALsLLdQAi  225 (830)
T PRK07003        168 SRCLQFNLKQMPAGHIVSHLERILGEERIA---FEPQALRLLARAAQGSMRDALSLTDQAI  225 (830)
T ss_pred             hheEEEecCCcCHHHHHHHHHHHHHHcCCC---CCHHHHHHHHHHcCCCHHHHHHHHHHHH
Confidence            223678999999999999998887643311   2356778899999885 45666654433

>PRK12323 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.69  E-value=1.1e-06  Score=95.81  Aligned_cols=201  Identities=15%  Similarity=0.115  Sum_probs=109.6

Q ss_pred             CCCcCchHHHHHHHHHhcCCCc-eEEEEEcCCCChHHHHHHHHHhhhcCCCCC-cCEEEEEEecCcCCHHHHHHHHHHHh
Q 038398          126 EPTVGLESTFDKVWRCLGEEQV-GIIGLYGMGGVGKTTLLTKINNKLLGAPNV-FDVVIWVVVSKDLQLEKIQEKIGRRI  203 (720)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~-f~~~~wv~v~~~~~~~~~~~~i~~~l  203 (720)
                      +++||.+..++.|.+++..++. ..+.++|+.|+||||+|+.+.+........ -....    +..+......+.|...-
T Consensus        16 ddVIGQe~vv~~L~~al~~gRLpHA~LFtGP~GvGKTTLAriLAkaLnC~~p~~~~g~~----~~PCG~C~sC~~I~aG~   91 (700)
T PRK12323         16 TTLVGQEHVVRALTHALEQQRLHHAYLFTGTRGVGKTTLSRILAKSLNCTGADGEGGIT----AQPCGQCRACTEIDAGR   91 (700)
T ss_pred             HHHcCcHHHHHHHHHHHHhCCCceEEEEECCCCCCHHHHHHHHHHHhcCCCccccccCC----CCCCcccHHHHHHHcCC
Confidence            5689999999999999987765 456899999999999999998876210000 00000    00011011111111000


Q ss_pred             CCCC---CccCCCChhHHHHHHHHH----hccCcEEEEEeccccc--cccccccccCCCCCCCcEEEE-EcCChhHhhh-
Q 038398          204 GFFD---ESWKNGSLEDKTSDILRI----LGKKKFLLLLDDIWER--VDLTKVGIPFPDPENKSKIVF-TTHFLEICGA-  272 (720)
Q Consensus       204 ~~~~---~~~~~~~~~~~~~~l~~~----l~~k~~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~iii-TtR~~~v~~~-  272 (720)
                      ....   +.......++..+.+...    ..++.-++|||+++..  .....+...+.....++++|+ ||....+..- 
T Consensus        92 hpDviEIdAas~~gVDdIReLie~~~~~P~~gr~KViIIDEah~Ls~~AaNALLKTLEEPP~~v~FILaTtep~kLlpTI  171 (700)
T PRK12323         92 FVDYIEMDAASNRGVDEMAQLLDKAVYAPTAGRFKVYMIDEVHMLTNHAFNAMLKTLEEPPEHVKFILATTDPQKIPVTV  171 (700)
T ss_pred             CCcceEecccccCCHHHHHHHHHHHHhchhcCCceEEEEEChHhcCHHHHHHHHHhhccCCCCceEEEEeCChHhhhhHH
Confidence            0000   000011122222211111    1345669999999754  334444444433334555555 4444444321 


Q ss_pred             hccCceeeccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCcch-HHHHHHHHH
Q 038398          273 LKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGLPL-ALITIGRAM  333 (720)
Q Consensus       273 ~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~GlPL-ai~~~~~~l  333 (720)
                      .+-...+.++.++.++..+.+.+.+......   .-.+..+.|++.++|.|. |+..+-..+
T Consensus       172 rSRCq~f~f~~ls~eei~~~L~~Il~~Egi~---~d~eAL~~IA~~A~Gs~RdALsLLdQai  230 (700)
T PRK12323        172 LSRCLQFNLKQMPPGHIVSHLDAILGEEGIA---HEVNALRLLAQAAQGSMRDALSLTDQAI  230 (700)
T ss_pred             HHHHHhcccCCCChHHHHHHHHHHHHHcCCC---CCHHHHHHHHHHcCCCHHHHHHHHHHHH
Confidence            2223678999999999999998877543211   124556889999999886 444444333

>PRK14960 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.66  E-value=8.3e-07  Score=96.85  Aligned_cols=196  Identities=14%  Similarity=0.125  Sum_probs=110.1

Q ss_pred             CCCcCchHHHHHHHHHhcCCC-ceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHHHHHhC
Q 038398          126 EPTVGLESTFDKVWRCLGEEQ-VGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKIGRRIG  204 (720)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~-~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i~~~l~  204 (720)
                      +++||.+..++.|.+++..++ ...+.++|+.|+||||+|+.+++.... ....+       ...++.....+.+...-.
T Consensus        15 ddVIGQe~vv~~L~~aI~~grl~HAyLF~GPpGvGKTTlAriLAK~LnC-~~~~~-------~~pCg~C~sC~~I~~g~h   86 (702)
T PRK14960         15 NELVGQNHVSRALSSALERGRLHHAYLFTGTRGVGKTTIARILAKCLNC-ETGVT-------STPCEVCATCKAVNEGRF   86 (702)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhCC-CcCCC-------CCCCccCHHHHHHhcCCC
Confidence            568999999999999998765 457789999999999999999887621 00000       000111111111111000


Q ss_pred             CCC---CccCCCChhHHHHHHHHH-----hccCcEEEEEeccccc--cccccccccCCCCCCCcEEEEEcCCh-hHh-hh
Q 038398          205 FFD---ESWKNGSLEDKTSDILRI-----LGKKKFLLLLDDIWER--VDLTKVGIPFPDPENKSKIVFTTHFL-EIC-GA  272 (720)
Q Consensus       205 ~~~---~~~~~~~~~~~~~~l~~~-----l~~k~~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~iiiTtR~~-~v~-~~  272 (720)
                      ...   +.......++.. .+...     ..++.-++|+|+++..  .....+...+.....+.++|++|.+. .+. ..
T Consensus        87 pDviEIDAAs~~~VddIR-eli~~~~y~P~~gk~KV~IIDEVh~LS~~A~NALLKtLEEPP~~v~FILaTtd~~kIp~TI  165 (702)
T PRK14960         87 IDLIEIDAASRTKVEDTR-ELLDNVPYAPTQGRFKVYLIDEVHMLSTHSFNALLKTLEEPPEHVKFLFATTDPQKLPITV  165 (702)
T ss_pred             CceEEecccccCCHHHHH-HHHHHHhhhhhcCCcEEEEEechHhcCHHHHHHHHHHHhcCCCCcEEEEEECChHhhhHHH
Confidence            000   000011111111 11111     1356668999999753  23333433333333456677766543 222 11


Q ss_pred             hccCceeeccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCcch-HHHHHHHHH
Q 038398          273 LKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGLPL-ALITIGRAM  333 (720)
Q Consensus       273 ~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~GlPL-ai~~~~~~l  333 (720)
                      ......+++.+++.++....+.+.+.....   .--.+....|++.++|.+- |+..+-.++
T Consensus       166 lSRCq~feFkpLs~eEI~k~L~~Il~kEgI---~id~eAL~~IA~~S~GdLRdALnLLDQaI  224 (702)
T PRK14960        166 ISRCLQFTLRPLAVDEITKHLGAILEKEQI---AADQDAIWQIAESAQGSLRDALSLTDQAI  224 (702)
T ss_pred             HHhhheeeccCCCHHHHHHHHHHHHHHcCC---CCCHHHHHHHHHHcCCCHHHHHHHHHHHH
Confidence            233468899999999999999888765431   1225567889999999664 444443433

>COG4886 Leucine-rich repeat (LRR) protein [Function unknown]

Probab=98.65  E-value=2e-08  Score=108.21  Aligned_cols=87  Identities=31%  Similarity=0.444  Sum_probs=41.2

Q ss_pred             CcccEEEccCCCCcCcchHHhccCC-cccEEEccCCCCCccCCccccCCCCCCEEeccCCCCcccchhhhcCCCCCEEec
Q 038398          516 PHLLSLFLSDNSLKMSTDDFFQSMP-SLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSSTAITHLPIELQKLVNLKCLNL  594 (720)
Q Consensus       516 ~~L~~L~l~~~~~~~~~~~~~~~l~-~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~~~i~~lp~~i~~l~~L~~L~l  594 (720)
                      +.+..|.+.+|.++.+++. ...+. +|+.|++++| .+..+|..++.+++|+.|++++|++..+|...+.+++|+.|++
T Consensus       116 ~~l~~L~l~~n~i~~i~~~-~~~~~~nL~~L~l~~N-~i~~l~~~~~~l~~L~~L~l~~N~l~~l~~~~~~~~~L~~L~l  193 (394)
T COG4886         116 TNLTSLDLDNNNITDIPPL-IGLLKSNLKELDLSDN-KIESLPSPLRNLPNLKNLDLSFNDLSDLPKLLSNLSNLNNLDL  193 (394)
T ss_pred             cceeEEecCCcccccCccc-cccchhhccccccccc-chhhhhhhhhccccccccccCCchhhhhhhhhhhhhhhhheec
Confidence            4445555555544444443 22232 4555555555 2334444445555555555555555555544444555555555


Q ss_pred             cCCcCCCCCch
Q 038398          595 EYMNNLNQFPR  605 (720)
Q Consensus       595 ~~~~~l~~lp~  605 (720)
                      ++ +.+..+|.
T Consensus       194 s~-N~i~~l~~  203 (394)
T COG4886         194 SG-NKISDLPP  203 (394)
T ss_pred             cC-CccccCch
Confidence            54 34444444

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

Probab=98.65  E-value=4e-09  Score=106.43  Aligned_cols=57  Identities=26%  Similarity=0.369  Sum_probs=23.7

Q ss_pred             cceeEEEecccccccCC---CCCCCCcccEEEccCCCCcCc--chHHhccCCcccEEEccCC
Q 038398          494 RNVRRMSLMKNKIENLS---ETPTCPHLLSLFLSDNSLKMS--TDDFFQSMPSLRVFNMSNN  550 (720)
Q Consensus       494 ~~l~~L~l~~~~~~~~~---~~~~~~~L~~L~l~~~~~~~~--~~~~~~~l~~L~~L~L~~~  550 (720)
                      ++|+.++|.++.+...+   ....|++++.|+++.|-+...  ...+...||+|+.|+|+.|
T Consensus       121 kkL~~IsLdn~~V~~~~~~~~~k~~~~v~~LdLS~NL~~nw~~v~~i~eqLp~Le~LNls~N  182 (505)
T KOG3207|consen  121 KKLREISLDNYRVEDAGIEEYSKILPNVRDLDLSRNLFHNWFPVLKIAEQLPSLENLNLSSN  182 (505)
T ss_pred             HhhhheeecCccccccchhhhhhhCCcceeecchhhhHHhHHHHHHHHHhcccchhcccccc
Confidence            34444444444443332   123445555555554422211  1122344455555555544

>PRK12402 replication factor C small subunit 2; Reviewed

Probab=98.65  E-value=3.9e-07  Score=96.04  Aligned_cols=194  Identities=12%  Similarity=0.089  Sum_probs=107.9

Q ss_pred             CCCcCchHHHHHHHHHhcCCCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcC-EEEEEEecCcCCH--HHHHH--HHH
Q 038398          126 EPTVGLESTFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFD-VVIWVVVSKDLQL--EKIQE--KIG  200 (720)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~-~~~wv~v~~~~~~--~~~~~--~i~  200 (720)
                      ++++|++..++.+..++..+..+.+.++|++|+||||+|+.+.+...  ...+. ..++++++...+.  ..+..  ...
T Consensus        15 ~~~~g~~~~~~~L~~~~~~~~~~~lll~Gp~GtGKT~la~~~~~~l~--~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~   92 (337)
T PRK12402         15 EDILGQDEVVERLSRAVDSPNLPHLLVQGPPGSGKTAAVRALARELY--GDPWENNFTEFNVADFFDQGKKYLVEDPRFA   92 (337)
T ss_pred             HHhcCCHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHHHHHHHHhc--CcccccceEEechhhhhhcchhhhhcCcchh
Confidence            67899999999999999877666788999999999999999998762  22222 3345554331100  00000  000


Q ss_pred             HHhCCCCCccCCCChhHHHHHHH-HHh-----ccCcEEEEEecccccc--ccccccccCCCCCCCcEEEEEcCChh-Hhh
Q 038398          201 RRIGFFDESWKNGSLEDKTSDIL-RIL-----GKKKFLLLLDDIWERV--DLTKVGIPFPDPENKSKIVFTTHFLE-ICG  271 (720)
Q Consensus       201 ~~l~~~~~~~~~~~~~~~~~~l~-~~l-----~~k~~LlVlDdv~~~~--~~~~l~~~~~~~~~gs~iiiTtR~~~-v~~  271 (720)
                      ..++.. .. ...........+. ...     .+.+-+||+||++...  ....+...+......+++|+||.+.. +..
T Consensus        93 ~~~~~~-~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~vlilDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~~~~~~~~  170 (337)
T PRK12402         93 HFLGTD-KR-IRSSKIDNFKHVLKEYASYRPLSADYKTILLDNAEALREDAQQALRRIMEQYSRTCRFIIATRQPSKLIP  170 (337)
T ss_pred             hhhhhh-hh-hccchHHHHHHHHHHHHhcCCCCCCCcEEEEeCcccCCHHHHHHHHHHHHhccCCCeEEEEeCChhhCch
Confidence            000000 00 0001111222221 111     1334589999996532  12222222222234567777775432 221


Q ss_pred             hh-ccCceeeccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCcchHH
Q 038398          272 AL-KAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGLPLAL  326 (720)
Q Consensus       272 ~~-~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~GlPLai  326 (720)
                      .. .....+.+.+++.++...++...+......   --.+....+++.++|.+-.+
T Consensus       171 ~L~sr~~~v~~~~~~~~~~~~~l~~~~~~~~~~---~~~~al~~l~~~~~gdlr~l  223 (337)
T PRK12402        171 PIRSRCLPLFFRAPTDDELVDVLESIAEAEGVD---YDDDGLELIAYYAGGDLRKA  223 (337)
T ss_pred             hhcCCceEEEecCCCHHHHHHHHHHHHHHcCCC---CCHHHHHHHHHHcCCCHHHH
Confidence            11 223568889999999999998876543312   22567888899998865443

>KOG1259 consensus Nischarin, modulator of integrin alpha5 subunit action [Signal transduction mechanisms; Cytoskeleton]

Probab=98.64  E-value=4.7e-09  Score=100.53  Aligned_cols=134  Identities=25%  Similarity=0.425  Sum_probs=101.8

Q ss_pred             ccccccceeEEEecccccccCCCC-CCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCccCCccccCCCCCC
Q 038398          489 EIQNWRNVRRMSLMKNKIENLSET-PTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVSLE  567 (720)
Q Consensus       489 ~~~~~~~l~~L~l~~~~~~~~~~~-~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~  567 (720)
                      .+..|+.|..+++++|.|+.+... .-.|.++.|++++|.+..+..  +..+++|+.||||+| ...++-..=..|.|.+
T Consensus       279 ~~dTWq~LtelDLS~N~I~~iDESvKL~Pkir~L~lS~N~i~~v~n--La~L~~L~~LDLS~N-~Ls~~~Gwh~KLGNIK  355 (490)
T KOG1259|consen  279 SADTWQELTELDLSGNLITQIDESVKLAPKLRRLILSQNRIRTVQN--LAELPQLQLLDLSGN-LLAECVGWHLKLGNIK  355 (490)
T ss_pred             ecchHhhhhhccccccchhhhhhhhhhccceeEEeccccceeeehh--hhhcccceEeecccc-hhHhhhhhHhhhcCEe
Confidence            345677899999999999888765 345899999999998877765  788999999999999 4445544445788899


Q ss_pred             EEeccCCCCcccchhhhcCCCCCEEeccCCcCCCCCch-hhhhccccCceeeccccCCCcccch
Q 038398          568 HLDLSSTAITHLPIELQKLVNLKCLNLEYMNNLNQFPR-LVISAFSKLQVLRMFDCGGSKIERL  630 (720)
Q Consensus       568 ~L~L~~~~i~~lp~~i~~l~~L~~L~l~~~~~l~~lp~-~~~~~l~~L~~L~~~~~~~~~l~~l  630 (720)
                      +|+|++|.|..+ +++.+|.+|..||+++ |+++.+.. ..|++++.|++|.+.   +|++..+
T Consensus       356 tL~La~N~iE~L-SGL~KLYSLvnLDl~~-N~Ie~ldeV~~IG~LPCLE~l~L~---~NPl~~~  414 (490)
T KOG1259|consen  356 TLKLAQNKIETL-SGLRKLYSLVNLDLSS-NQIEELDEVNHIGNLPCLETLRLT---GNPLAGS  414 (490)
T ss_pred             eeehhhhhHhhh-hhhHhhhhheeccccc-cchhhHHHhcccccccHHHHHhhc---CCCcccc
Confidence            999999999988 4689999999999999 56666543 125666666666555   4554433

>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=98.64  E-value=3.5e-07  Score=86.16  Aligned_cols=178  Identities=20%  Similarity=0.194  Sum_probs=92.5

Q ss_pred             CCCCCCCcCchHHHHHHHHHhc-----CCCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHH
Q 038398          122 QRPCEPTVGLESTFDKVWRCLG-----EEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQ  196 (720)
Q Consensus       122 ~~~~~~~vGr~~~~~~l~~~L~-----~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~  196 (720)
                      |...++|||.++.++.+.-++.     .+....+.+|||+|+||||||..+++..   ...|.   +.+  .. .+.   
T Consensus        20 P~~L~efiGQ~~l~~~l~i~i~aa~~r~~~l~h~lf~GPPG~GKTTLA~IIA~e~---~~~~~---~~s--g~-~i~---   87 (233)
T PF05496_consen   20 PKSLDEFIGQEHLKGNLKILIRAAKKRGEALDHMLFYGPPGLGKTTLARIIANEL---GVNFK---ITS--GP-AIE---   87 (233)
T ss_dssp             -SSCCCS-S-HHHHHHHHHHHHHHHCTTS---EEEEESSTTSSHHHHHHHHHHHC---T--EE---EEE--CC-C-----
T ss_pred             CCCHHHccCcHHHHhhhHHHHHHHHhcCCCcceEEEECCCccchhHHHHHHHhcc---CCCeE---ecc--ch-hhh---
Confidence            3445789999998888654442     2456789999999999999999999998   33442   221  11 000   


Q ss_pred             HHHHHHhCCCCCccCCCChhHHHHHHHHHhccCcEEEEEeccccc--cc-------ccccccc-CCCCCC----------
Q 038398          197 EKIGRRIGFFDESWKNGSLEDKTSDILRILGKKKFLLLLDDIWER--VD-------LTKVGIP-FPDPEN----------  256 (720)
Q Consensus       197 ~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~--~~-------~~~l~~~-~~~~~~----------  256 (720)
                                       ...++...+. .++ ++-+|.+|++...  .+       .+..... +...+.          
T Consensus        88 -----------------k~~dl~~il~-~l~-~~~ILFIDEIHRlnk~~qe~LlpamEd~~idiiiG~g~~ar~~~~~l~  148 (233)
T PF05496_consen   88 -----------------KAGDLAAILT-NLK-EGDILFIDEIHRLNKAQQEILLPAMEDGKIDIIIGKGPNARSIRINLP  148 (233)
T ss_dssp             -----------------SCHHHHHHHH-T---TT-EEEECTCCC--HHHHHHHHHHHHCSEEEEEBSSSSS-BEEEEE--
T ss_pred             -----------------hHHHHHHHHH-hcC-CCcEEEEechhhccHHHHHHHHHHhccCeEEEEeccccccceeeccCC
Confidence                             0111111111 122 3446777887642  11       1111000 001111          


Q ss_pred             -CcEEEEEcCChhHhhhhcc--CceeeccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCcchHHHHHHHHH
Q 038398          257 -KSKIVFTTHFLEICGALKA--HEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGLPLALITIGRAM  333 (720)
Q Consensus       257 -gs~iiiTtR~~~v~~~~~~--~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~GlPLai~~~~~~l  333 (720)
                       -+-|=.|||...+......  .-..+++..+.+|-.++..+.+..-..   +--++.+.+|++.|.|-|--..-+-+-+
T Consensus       149 ~FTligATTr~g~ls~pLrdRFgi~~~l~~Y~~~el~~Iv~r~a~~l~i---~i~~~~~~~Ia~rsrGtPRiAnrll~rv  225 (233)
T PF05496_consen  149 PFTLIGATTRAGLLSSPLRDRFGIVLRLEFYSEEELAKIVKRSARILNI---EIDEDAAEEIARRSRGTPRIANRLLRRV  225 (233)
T ss_dssp             --EEEEEESSGCCTSHCCCTTSSEEEE----THHHHHHHHHHCCHCTT----EE-HHHHHHHHHCTTTSHHHHHHHHHHH
T ss_pred             CceEeeeeccccccchhHHhhcceecchhcCCHHHHHHHHHHHHHHhCC---CcCHHHHHHHHHhcCCChHHHHHHHHHH
Confidence             1234467886555333322  134589999999999999887754331   1236789999999999997655544433

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.

>PRK14949 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.64  E-value=4.8e-07  Score=101.69  Aligned_cols=181  Identities=16%  Similarity=0.151  Sum_probs=109.1

Q ss_pred             CCCCcCchHHHHHHHHHhcCCCceE-EEEEcCCCChHHHHHHHHHhhhcCCCCC-------------------cCEEEEE
Q 038398          125 CEPTVGLESTFDKVWRCLGEEQVGI-IGLYGMGGVGKTTLLTKINNKLLGAPNV-------------------FDVVIWV  184 (720)
Q Consensus       125 ~~~~vGr~~~~~~l~~~L~~~~~~v-i~I~G~gGiGKTtLa~~v~~~~~~~~~~-------------------f~~~~wv  184 (720)
                      ..++||.+..++.|.+++..+++.- +.++|+.|+||||+|+.+++..... ..                   |.-++++
T Consensus        15 FddIIGQe~Iv~~LknaI~~~rl~HAyLFtGPpGtGKTTLARiLAk~Lnce-~~~~~~pCg~C~sC~~i~~g~~~DviEi   93 (944)
T PRK14949         15 FEQMVGQSHVLHALTNALTQQRLHHAYLFTGTRGVGKTSLARLFAKGLNCE-QGVTATPCGVCSSCVEIAQGRFVDLIEV   93 (944)
T ss_pred             HHHhcCcHHHHHHHHHHHHhCCCCeEEEEECCCCCCHHHHHHHHHHhccCc-cCCCCCCCCCchHHHHHhcCCCceEEEe
Confidence            3578999999999999998776654 5899999999999999999886211 11                   1111111


Q ss_pred             EecCcCCHHHHHHHHHHHhCCCCCccCCCChhHHHHHHHH-HhccCcEEEEEeccccc--cccccccccCCCCCCCcEEE
Q 038398          185 VVSKDLQLEKIQEKIGRRIGFFDESWKNGSLEDKTSDILR-ILGKKKFLLLLDDIWER--VDLTKVGIPFPDPENKSKIV  261 (720)
Q Consensus       185 ~v~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~-~l~~k~~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~ii  261 (720)
                      .-.....+..+ +.+..                   .+.. -..+++-++|||+++..  .....+...+.......++|
T Consensus        94 dAas~~kVDdI-ReLie-------------------~v~~~P~~gk~KViIIDEAh~LT~eAqNALLKtLEEPP~~vrFI  153 (944)
T PRK14949         94 DAASRTKVDDT-RELLD-------------------NVQYRPSRGRFKVYLIDEVHMLSRSSFNALLKTLEEPPEHVKFL  153 (944)
T ss_pred             ccccccCHHHH-HHHHH-------------------HHHhhhhcCCcEEEEEechHhcCHHHHHHHHHHHhccCCCeEEE
Confidence            11100111111 11111                   1111 12356779999999753  33444433343333455666


Q ss_pred             EEcCC-hhHhhh-hccCceeeccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCcch-HHHHH
Q 038398          262 FTTHF-LEICGA-LKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGLPL-ALITI  329 (720)
Q Consensus       262 iTtR~-~~v~~~-~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~GlPL-ai~~~  329 (720)
                      ++|.+ ..+... ......|++.+|+.++..+++.+.+....   ...-.+....|++.++|.|- |+..+
T Consensus       154 LaTTe~~kLl~TIlSRCq~f~fkpLs~eEI~~~L~~il~~Eg---I~~edeAL~lIA~~S~Gd~R~ALnLL  221 (944)
T PRK14949        154 LATTDPQKLPVTVLSRCLQFNLKSLTQDEIGTQLNHILTQEQ---LPFEAEALTLLAKAANGSMRDALSLT  221 (944)
T ss_pred             EECCCchhchHHHHHhheEEeCCCCCHHHHHHHHHHHHHHcC---CCCCHHHHHHHHHHcCCCHHHHHHHH
Confidence            55544 334311 22236799999999999999988765432   12235677889999999775 44444

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

Probab=98.63  E-value=2e-06  Score=89.71  Aligned_cols=202  Identities=18%  Similarity=0.183  Sum_probs=130.1

Q ss_pred             CCCcCchHHHHHHHHHhcC----CCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHHHH
Q 038398          126 EPTVGLESTFDKVWRCLGE----EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKIGR  201 (720)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~----~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i~~  201 (720)
                      +.+.+||.+++++...|..    ..+.-+.|+|.+|+|||+.++.+++.........+ +++|++-...+..+++..|+.
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            4588999999999888743    34445999999999999999999998832222222 899999999999999999999


Q ss_pred             HhCCCCCccCCCChhHHHHHHHHHhcc--CcEEEEEecccccccc--ccccccCCCCC-CCcEEE--EEcCChhHhhhhc
Q 038398          202 RIGFFDESWKNGSLEDKTSDILRILGK--KKFLLLLDDIWERVDL--TKVGIPFPDPE-NKSKIV--FTTHFLEICGALK  274 (720)
Q Consensus       202 ~l~~~~~~~~~~~~~~~~~~l~~~l~~--k~~LlVlDdv~~~~~~--~~l~~~~~~~~-~gs~ii--iTtR~~~v~~~~~  274 (720)
                      +++....  ......+....+.+.+..  +.+++|||+++....-  +-+...+.... ..++|+  ..+.+......+.
T Consensus        96 ~~~~~p~--~g~~~~~~~~~l~~~~~~~~~~~IvvLDEid~L~~~~~~~LY~L~r~~~~~~~~v~vi~i~n~~~~~~~ld  173 (366)
T COG1474          96 KLGKVPL--TGDSSLEILKRLYDNLSKKGKTVIVILDEVDALVDKDGEVLYSLLRAPGENKVKVSIIAVSNDDKFLDYLD  173 (366)
T ss_pred             HcCCCCC--CCCchHHHHHHHHHHHHhcCCeEEEEEcchhhhccccchHHHHHHhhccccceeEEEEEEeccHHHHHHhh
Confidence            9963221  334556667777777654  7899999999754222  11111111111 134433  3344333322221


Q ss_pred             -------cCceeeccCCChhhHHHHHHHHhccCc--cCCCCChHHHHHHHHHHhCC-cchHHHHHH
Q 038398          275 -------AHEFLKVECLGPEDAWRLFRENLRRDV--LDNHPDIPELARSVAQECAG-LPLALITIG  330 (720)
Q Consensus       275 -------~~~~~~l~~L~~~e~~~Lf~~~~~~~~--~~~~~~~~~~~~~i~~~c~G-lPLai~~~~  330 (720)
                             ....+..+|-+.+|-.+.+..++....  ...+...-+++..++..-+| --.||..+-
T Consensus       174 ~rv~s~l~~~~I~F~pY~a~el~~Il~~R~~~~~~~~~~~~~vl~lia~~~a~~~GDAR~aidilr  239 (366)
T COG1474         174 PRVKSSLGPSEIVFPPYTAEELYDILRERVEEGFSAGVIDDDVLKLIAALVAAESGDARKAIDILR  239 (366)
T ss_pred             hhhhhccCcceeeeCCCCHHHHHHHHHHHHHhhccCCCcCccHHHHHHHHHHHcCccHHHHHHHHH
Confidence                   123477899999999999998875321  13334445555555555554 455665553

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

Probab=98.63  E-value=2.6e-09  Score=111.03  Aligned_cols=176  Identities=28%  Similarity=0.373  Sum_probs=121.9

Q ss_pred             cccccceeEEEecccccccCCCC-CCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCccCCccccCCCCCCE
Q 038398          490 IQNWRNVRRMSLMKNKIENLSET-PTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVSLEH  568 (720)
Q Consensus       490 ~~~~~~l~~L~l~~~~~~~~~~~-~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~  568 (720)
                      +..|..|..+.+..|.+..+|.. .++..|.+|+++.|.+..+|.. +..|+ |++|-+++| .++.+|..++.+++|..
T Consensus        94 ~~~f~~Le~liLy~n~~r~ip~~i~~L~~lt~l~ls~NqlS~lp~~-lC~lp-Lkvli~sNN-kl~~lp~~ig~~~tl~~  170 (722)
T KOG0532|consen   94 ACAFVSLESLILYHNCIRTIPEAICNLEALTFLDLSSNQLSHLPDG-LCDLP-LKVLIVSNN-KLTSLPEEIGLLPTLAH  170 (722)
T ss_pred             HHHHHHHHHHHHHhccceecchhhhhhhHHHHhhhccchhhcCChh-hhcCc-ceeEEEecC-ccccCCcccccchhHHH
Confidence            34445566667777777666543 6777888888888888777776 55555 888888888 55688888888888888


Q ss_pred             EeccCCCCcccchhhhcCCCCCEEeccCCcCCCCCchhhhhccccCceeeccccCCCcccchhcccccCCccccHHHhcC
Q 038398          569 LDLSSTAITHLPIELQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKINVLFGGHQFLVEELMG  648 (720)
Q Consensus       569 L~L~~~~i~~lp~~i~~l~~L~~L~l~~~~~l~~lp~~~~~~l~~L~~L~~~~~~~~~l~~l~~~~~~~~~~~~~~~l~~  648 (720)
                      |+.+.|.+..+|+.++.+.+|+.|+++. +.+..+|.+ ...|+    |.-++++.|++..+|.            .+.+
T Consensus       171 ld~s~nei~slpsql~~l~slr~l~vrR-n~l~~lp~E-l~~Lp----Li~lDfScNkis~iPv------------~fr~  232 (722)
T KOG0532|consen  171 LDVSKNEIQSLPSQLGYLTSLRDLNVRR-NHLEDLPEE-LCSLP----LIRLDFSCNKISYLPV------------DFRK  232 (722)
T ss_pred             hhhhhhhhhhchHHhhhHHHHHHHHHhh-hhhhhCCHH-HhCCc----eeeeecccCceeecch------------hhhh
Confidence            8888888888888888888888888888 566778875 34443    3444556677665543            5677


Q ss_pred             CCCCceeEEEecchhhHHHHhhhhhhhhhccccccccc
Q 038398          649 MKHLMVLTITLKSWQALKELLISQELQRSTQSLFLRCF  686 (720)
Q Consensus       649 l~~L~~L~~~~~~~~~l~~l~~~~~~~~~L~~L~l~~~  686 (720)
                      ++.|++|.+..|.+.+-+.-.-..+...-.+.|+...|
T Consensus       233 m~~Lq~l~LenNPLqSPPAqIC~kGkVHIFKyL~~qA~  270 (722)
T KOG0532|consen  233 MRHLQVLQLENNPLQSPPAQICEKGKVHIFKYLSTQAC  270 (722)
T ss_pred             hhhheeeeeccCCCCCChHHHHhccceeeeeeecchhc
Confidence            88888888888877553321111122223455666665

>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=98.62  E-value=2.5e-07  Score=84.38  Aligned_cols=123  Identities=23%  Similarity=0.168  Sum_probs=73.8

Q ss_pred             cCchHHHHHHHHHhcCCCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHHHHHhCCCCC
Q 038398          129 VGLESTFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKIGRRIGFFDE  208 (720)
Q Consensus       129 vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i~~~l~~~~~  208 (720)
                      +|++..++.+...+.....+.+.|+|++|+||||+++.+++...   ..-..++++..............+...      
T Consensus         1 ~~~~~~~~~i~~~~~~~~~~~v~i~G~~G~GKT~l~~~i~~~~~---~~~~~v~~~~~~~~~~~~~~~~~~~~~------   71 (151)
T cd00009           1 VGQEEAIEALREALELPPPKNLLLYGPPGTGKTTLARAIANELF---RPGAPFLYLNASDLLEGLVVAELFGHF------   71 (151)
T ss_pred             CchHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHhh---cCCCCeEEEehhhhhhhhHHHHHhhhh------
Confidence            47889999999998776667899999999999999999999872   222356676655433322211111000      


Q ss_pred             ccCCCChhHHHHHHHHHhccCcEEEEEeccccc-----cccccccccCCC---CCCCcEEEEEcCChh
Q 038398          209 SWKNGSLEDKTSDILRILGKKKFLLLLDDIWER-----VDLTKVGIPFPD---PENKSKIVFTTHFLE  268 (720)
Q Consensus       209 ~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~-----~~~~~l~~~~~~---~~~gs~iiiTtR~~~  268 (720)
                              ............++.++|+||++..     ..+......+..   ...+..+|+||....
T Consensus        72 --------~~~~~~~~~~~~~~~~lilDe~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~ii~~~~~~~  131 (151)
T cd00009          72 --------LVRLLFELAEKAKPGVLFIDEIDSLSRGAQNALLRVLETLNDLRIDRENVRVIGATNRPL  131 (151)
T ss_pred             --------hHhHHHHhhccCCCeEEEEeChhhhhHHHHHHHHHHHHhcCceeccCCCeEEEEecCccc
Confidence                    0011111223456789999999853     112222112211   135778888887543

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.

>PLN03025 replication factor C subunit; Provisional

Probab=98.61  E-value=3.8e-07  Score=94.66  Aligned_cols=183  Identities=14%  Similarity=0.150  Sum_probs=107.3

Q ss_pred             CCCcCchHHHHHHHHHhcCCCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcC-EEEEEEecCcCCHHHHHHHHHHHhC
Q 038398          126 EPTVGLESTFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFD-VVIWVVVSKDLQLEKIQEKIGRRIG  204 (720)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~-~~~wv~v~~~~~~~~~~~~i~~~l~  204 (720)
                      ++++|.++.++.+..++..+..+.+.++|++|+||||+|+.+++...  ...|. .++-++.+...+...+ +.+...+.
T Consensus        13 ~~~~g~~~~~~~L~~~~~~~~~~~lll~Gp~G~GKTtla~~la~~l~--~~~~~~~~~eln~sd~~~~~~v-r~~i~~~~   89 (319)
T PLN03025         13 DDIVGNEDAVSRLQVIARDGNMPNLILSGPPGTGKTTSILALAHELL--GPNYKEAVLELNASDDRGIDVV-RNKIKMFA   89 (319)
T ss_pred             HHhcCcHHHHHHHHHHHhcCCCceEEEECCCCCCHHHHHHHHHHHHh--cccCccceeeecccccccHHHH-HHHHHHHH
Confidence            56799999999998888777667788999999999999999998862  22232 2222233332222222 22221111


Q ss_pred             CCCCccCCCChhHHHHHHHHHhccCcEEEEEecccccc--ccccccccCCCCCCCcEEEEEcCCh-hHhh-hhccCceee
Q 038398          205 FFDESWKNGSLEDKTSDILRILGKKKFLLLLDDIWERV--DLTKVGIPFPDPENKSKIVFTTHFL-EICG-ALKAHEFLK  280 (720)
Q Consensus       205 ~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~--~~~~l~~~~~~~~~gs~iiiTtR~~-~v~~-~~~~~~~~~  280 (720)
                      ....  .             .-.++.-++|||+++...  ....+...+......+++++++... .+.. .......++
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             001346699999997532  2222222222223456777766432 2211 111235789


Q ss_pred             ccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCcc-hHHHHH
Q 038398          281 VECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGLP-LALITI  329 (720)
Q Consensus       281 l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~GlP-Lai~~~  329 (720)
                      ++++++++....+...+.......   -.+....|++.++|-. -++..+
T Consensus       155 f~~l~~~~l~~~L~~i~~~egi~i---~~~~l~~i~~~~~gDlR~aln~L  201 (319)
T PLN03025        155 FSRLSDQEILGRLMKVVEAEKVPY---VPEGLEAIIFTADGDMRQALNNL  201 (319)
T ss_pred             CCCCCHHHHHHHHHHHHHHcCCCC---CHHHHHHHHHHcCCCHHHHHHHH
Confidence            999999999999988876543222   2566788899998854 444444

>PRK00440 rfc replication factor C small subunit; Reviewed

Probab=98.61  E-value=1.1e-06  Score=91.92  Aligned_cols=183  Identities=13%  Similarity=0.140  Sum_probs=106.8

Q ss_pred             CCCCcCchHHHHHHHHHhcCCCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcC-EEEEEEecCcCCHHHHHHHHHHHh
Q 038398          125 CEPTVGLESTFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFD-VVIWVVVSKDLQLEKIQEKIGRRI  203 (720)
Q Consensus       125 ~~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~-~~~wv~v~~~~~~~~~~~~i~~~l  203 (720)
                      ..+++|++..++.+..++.....+.+.++|++|+||||+|+.+++...  ...+. ..+-+..+.......+...+. .+
T Consensus        16 ~~~~~g~~~~~~~l~~~i~~~~~~~~ll~G~~G~GKt~~~~~l~~~l~--~~~~~~~~i~~~~~~~~~~~~~~~~i~-~~   92 (319)
T PRK00440         16 LDEIVGQEEIVERLKSYVKEKNMPHLLFAGPPGTGKTTAALALARELY--GEDWRENFLELNASDERGIDVIRNKIK-EF   92 (319)
T ss_pred             HHHhcCcHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHHc--CCccccceEEeccccccchHHHHHHHH-HH
Confidence            356899999999999999776666789999999999999999998862  12222 112222222222221111111 11


Q ss_pred             CCCCCccCCCChhHHHHHHHHHhccCcEEEEEecccccc--ccccccccCCCCCCCcEEEEEcCCh-hHhh-hhccCcee
Q 038398          204 GFFDESWKNGSLEDKTSDILRILGKKKFLLLLDDIWERV--DLTKVGIPFPDPENKSKIVFTTHFL-EICG-ALKAHEFL  279 (720)
Q Consensus       204 ~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~--~~~~l~~~~~~~~~gs~iiiTtR~~-~v~~-~~~~~~~~  279 (720)
                      ....+                .....+-++++|+++...  ....+...+......+++|+++... .+.. .......+
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                001235689999986432  2223322232233456777766432 2211 11223468


Q ss_pred             eccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCcchH-HHHH
Q 038398          280 KVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGLPLA-LITI  329 (720)
Q Consensus       280 ~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~GlPLa-i~~~  329 (720)
                      ++.++++++....+...+......   --.+....+++.++|.+-- +..+
T Consensus       157 ~~~~l~~~ei~~~l~~~~~~~~~~---i~~~al~~l~~~~~gd~r~~~~~l  204 (319)
T PRK00440        157 RFSPLKKEAVAERLRYIAENEGIE---ITDDALEAIYYVSEGDMRKAINAL  204 (319)
T ss_pred             eeCCCCHHHHHHHHHHHHHHcCCC---CCHHHHHHHHHHcCCCHHHHHHHH
Confidence            999999999999998887644311   2256788899999997654 3444

>PF13173 AAA_14: AAA domain

Probab=98.60  E-value=8.4e-08  Score=85.04  Aligned_cols=120  Identities=19%  Similarity=0.144  Sum_probs=79.8

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHHHHHhCCCCCccCCCChhHHHHHHHHHh
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKIGRRIGFFDESWKNGSLEDKTSDILRIL  226 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l  226 (720)
                      -+++.|.|+.|+||||++++++++.   . ....++|++..+.......                  ..+ ..+.+.+..
T Consensus         2 ~~~~~l~G~R~vGKTtll~~~~~~~---~-~~~~~~yi~~~~~~~~~~~------------------~~~-~~~~~~~~~   58 (128)
T PF13173_consen    2 RKIIILTGPRGVGKTTLLKQLAKDL---L-PPENILYINFDDPRDRRLA------------------DPD-LLEYFLELI   58 (128)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHh---c-ccccceeeccCCHHHHHHh------------------hhh-hHHHHHHhh
Confidence            3689999999999999999999887   1 3446677766543221100                  000 223333333


Q ss_pred             ccCcEEEEEeccccccccccccccCCCCCCCcEEEEEcCChhHhhhh------ccCceeeccCCChhhH
Q 038398          227 GKKKFLLLLDDIWERVDLTKVGIPFPDPENKSKIVFTTHFLEICGAL------KAHEFLKVECLGPEDA  289 (720)
Q Consensus       227 ~~k~~LlVlDdv~~~~~~~~l~~~~~~~~~gs~iiiTtR~~~v~~~~------~~~~~~~l~~L~~~e~  289 (720)
                      ..++.+++||++....+|......+.+.....+|++|+.+......-      +....+++.||+..|-
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            34778999999988878777655555555678999999877665321      1224678999998763

>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=98.60  E-value=3.3e-08  Score=74.73  Aligned_cols=60  Identities=40%  Similarity=0.534  Sum_probs=35.3

Q ss_pred             CcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCccCCccccCCCCCCEEeccCCC
Q 038398          516 PHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSSTA  575 (720)
Q Consensus       516 ~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~~~  575 (720)
                      |+|++|++++|.++.+++..|.++++|++|++++|.+...-|..|.++++|++|++++|+
T Consensus         1 p~L~~L~l~~n~l~~i~~~~f~~l~~L~~L~l~~N~l~~i~~~~f~~l~~L~~L~l~~N~   60 (61)
T PF13855_consen    1 PNLESLDLSNNKLTEIPPDSFSNLPNLETLDLSNNNLTSIPPDAFSNLPNLRYLDLSNNN   60 (61)
T ss_dssp             TTESEEEETSSTESEECTTTTTTGTTESEEEETSSSESEEETTTTTTSTTESEEEETSSS
T ss_pred             CcCcEEECCCCCCCccCHHHHcCCCCCCEeEccCCccCccCHHHHcCCCCCCEEeCcCCc
Confidence            345666666666666665556666666666666664443344555666666666666654

...

>PRK05564 DNA polymerase III subunit delta'; Validated

Probab=98.60  E-value=1.1e-06  Score=90.90  Aligned_cols=177  Identities=15%  Similarity=0.172  Sum_probs=113.3

Q ss_pred             CCCcCchHHHHHHHHHhcCCCc-eEEEEEcCCCChHHHHHHHHHhhhc---CCCCCcCEEEEEEe-cCcCCHHHHHHHHH
Q 038398          126 EPTVGLESTFDKVWRCLGEEQV-GIIGLYGMGGVGKTTLLTKINNKLL---GAPNVFDVVIWVVV-SKDLQLEKIQEKIG  200 (720)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~~---~~~~~f~~~~wv~v-~~~~~~~~~~~~i~  200 (720)
                      .+++|.+..++.+..++..+.. ..+.++|+.|+||||+|+.++....   ....++|...|... +....+.++ +++.
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            5679999999999999977654 5678999999999999999988642   12346666555442 223333332 2233


Q ss_pred             HHhCCCCCccCCCChhHHHHHHHHHhccCcEEEEEeccc--cccccccccccCCCCCCCcEEEEEcCChhHh-h-hhccC
Q 038398          201 RRIGFFDESWKNGSLEDKTSDILRILGKKKFLLLLDDIW--ERVDLTKVGIPFPDPENKSKIVFTTHFLEIC-G-ALKAH  276 (720)
Q Consensus       201 ~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~--~~~~~~~l~~~~~~~~~gs~iiiTtR~~~v~-~-~~~~~  276 (720)
                      ..+...                  -..+++-++|+|+++  +...+..+...+.....++.+|++|.+.+.. . ..+..
T Consensus        83 ~~~~~~------------------p~~~~~kv~iI~~ad~m~~~a~naLLK~LEepp~~t~~il~~~~~~~ll~TI~SRc  144 (313)
T PRK05564         83 EEVNKK------------------PYEGDKKVIIIYNSEKMTEQAQNAFLKTIEEPPKGVFIILLCENLEQILDTIKSRC  144 (313)
T ss_pred             HHHhcC------------------cccCCceEEEEechhhcCHHHHHHHHHHhcCCCCCeEEEEEeCChHhCcHHHHhhc
Confidence            332211                  012345566777764  3445666655565556688888888655432 1 12234


Q ss_pred             ceeeccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCcchHHHH
Q 038398          277 EFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGLPLALIT  328 (720)
Q Consensus       277 ~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~GlPLai~~  328 (720)
                      ..+++.++++++....+...+...       -.+.+..++..++|.|.-+..
T Consensus       145 ~~~~~~~~~~~~~~~~l~~~~~~~-------~~~~~~~l~~~~~g~~~~a~~  189 (313)
T PRK05564        145 QIYKLNRLSKEEIEKFISYKYNDI-------KEEEKKSAIAFSDGIPGKVEK  189 (313)
T ss_pred             eeeeCCCcCHHHHHHHHHHHhcCC-------CHHHHHHHHHHcCCCHHHHHH
Confidence            688999999999988887654211       134467889999998875543

>PRK14962 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.60  E-value=1.1e-06  Score=95.03  Aligned_cols=187  Identities=17%  Similarity=0.199  Sum_probs=108.3

Q ss_pred             CCCCcCchHHHHHHHHHhcCCCc-eEEEEEcCCCChHHHHHHHHHhhhcCCCCC------------------cCEEEEEE
Q 038398          125 CEPTVGLESTFDKVWRCLGEEQV-GIIGLYGMGGVGKTTLLTKINNKLLGAPNV------------------FDVVIWVV  185 (720)
Q Consensus       125 ~~~~vGr~~~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~------------------f~~~~wv~  185 (720)
                      .+++||.+..++.+...+..+.. +.+.++|++|+||||+|+.+++........                  +..++.+.
T Consensus        13 ~~divGq~~i~~~L~~~i~~~~l~~~~Lf~GPpGtGKTTlA~~lA~~l~~~~~~~~~pc~~c~~c~~i~~g~~~dv~el~   92 (472)
T PRK14962         13 FSEVVGQDHVKKLIINALKKNSISHAYIFAGPRGTGKTTVARILAKSLNCENRKGVEPCNECRACRSIDEGTFMDVIELD   92 (472)
T ss_pred             HHHccCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhccccCCCCCCCcccHHHHHHhcCCCCccEEEe
Confidence            36789999998888888877665 467899999999999999998876211000                  00112222


Q ss_pred             ecCcCCHHHHHHHHHHHhCCCCCccCCCChhHHHHHHHHHhccCcEEEEEeccccc--cccccccccCCCCCCCcEEEEE
Q 038398          186 VSKDLQLEKIQEKIGRRIGFFDESWKNGSLEDKTSDILRILGKKKFLLLLDDIWER--VDLTKVGIPFPDPENKSKIVFT  263 (720)
Q Consensus       186 v~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~iiiT  263 (720)
                      .+...+...+ +.+......                  .-..+++-++|+|+++..  .....+...+........+|++
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            2111111111 111111110                  012245669999999743  2333343333332233444444


Q ss_pred             cCC-hhHhhh-hccCceeeccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCC-cchHHHHHHHHH
Q 038398          264 THF-LEICGA-LKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAG-LPLALITIGRAM  333 (720)
Q Consensus       264 tR~-~~v~~~-~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~G-lPLai~~~~~~l  333 (720)
                      |.+ ..+... ......+++.+++.++....+.+.+.....   .--.+....|++.++| ++.++..+..+.
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 333222 223467899999999999998887754321   1225667788887865 677888776644

>KOG1259 consensus Nischarin, modulator of integrin alpha5 subunit action [Signal transduction mechanisms; Cytoskeleton]

Probab=98.58  E-value=2.2e-08  Score=96.01  Aligned_cols=36  Identities=17%  Similarity=0.361  Sum_probs=19.6

Q ss_pred             ccccceeEEEecccccccCCCC-CCCCcccEEEccCC
Q 038398          491 QNWRNVRRMSLMKNKIENLSET-PTCPHLLSLFLSDN  526 (720)
Q Consensus       491 ~~~~~l~~L~l~~~~~~~~~~~-~~~~~L~~L~l~~~  526 (720)
                      .-+++|..+.++.+.-+++..+ ..-|.|.++.+...
T Consensus       211 ~~f~~l~~~~~s~~~~~~i~~~~~~kptl~t~~v~~s  247 (490)
T KOG1259|consen  211 NAFRNLKTLKFSALSTENIVDIELLKPTLQTICVHNT  247 (490)
T ss_pred             HHhhhhheeeeeccchhheeceeecCchhheeeeecc
Confidence            3445666666666655554433 22355666666554

>TIGR02903 spore_lon_C ATP-dependent protease, Lon family

Probab=98.58  E-value=6.7e-06  Score=92.32  Aligned_cols=203  Identities=16%  Similarity=0.060  Sum_probs=117.8

Q ss_pred             CCCCcCchHHHHHHHHHhcCCCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCc---CEEEEEEecCc---CCHHHHHHH
Q 038398          125 CEPTVGLESTFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVF---DVVIWVVVSKD---LQLEKIQEK  198 (720)
Q Consensus       125 ~~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f---~~~~wv~v~~~---~~~~~~~~~  198 (720)
                      .+.++|++..+..+.+.+.......+.|+|++|+||||+|+.+++.. .....+   ...-|+.+...   .+...+...
T Consensus       153 ~~~iiGqs~~~~~l~~~ia~~~~~~vlL~Gp~GtGKTTLAr~i~~~~-~~~~~~~~~~~~~fv~i~~~~l~~d~~~i~~~  231 (615)
T TIGR02903       153 FSEIVGQERAIKALLAKVASPFPQHIILYGPPGVGKTTAARLALEEA-KKLKHTPFAEDAPFVEVDGTTLRWDPREVTNP  231 (615)
T ss_pred             HHhceeCcHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHhh-hhccCCcccCCCCeEEEechhccCCHHHHhHH
Confidence            35789999999999888866666789999999999999999998765 222222   12334444321   122222111


Q ss_pred             H---------------HHHhCCCC----------------CccCCCChhHHHHHHHHHhccCcEEEEEeccccc--cccc
Q 038398          199 I---------------GRRIGFFD----------------ESWKNGSLEDKTSDILRILGKKKFLLLLDDIWER--VDLT  245 (720)
Q Consensus       199 i---------------~~~l~~~~----------------~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~--~~~~  245 (720)
                      +               +...+...                +. ...-....+..+...+.++++.++-|+.|..  ..|.
T Consensus       232 llg~~~~~~~~~a~~~l~~~gl~~~~~g~v~~asgGvL~LDE-i~~Ld~~~Q~~Ll~~Le~~~v~~~~~~~~~~~~~~~~  310 (615)
T TIGR02903       232 LLGSVHDPIYQGARRDLAETGVPEPKTGLVTDAHGGVLFIDE-IGELDPLLQNKLLKVLEDKRVEFSSSYYDPDDPNVPK  310 (615)
T ss_pred             hcCCccHHHHHHHHHHHHHcCCCchhcCchhhcCCCeEEEec-cccCCHHHHHHHHHHHhhCeEEeecceeccCCcccch
Confidence            1               11111110                00 0111223567778888888888887766543  3455


Q ss_pred             cccccCCCCCCCcEEEE--EcCChhH-hhhh-ccCceeeccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCC
Q 038398          246 KVGIPFPDPENKSKIVF--TTHFLEI-CGAL-KAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAG  321 (720)
Q Consensus       246 ~l~~~~~~~~~gs~iii--TtR~~~v-~~~~-~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~G  321 (720)
                      .+...+....+...+++  ||++... .... .....+.+.+++.+|.+.++.+.+......   --.+....|.+.+..
T Consensus       311 ~ik~~~~~~~~~~~VLI~aTt~~~~~l~~aLrSR~~~i~~~pls~edi~~Il~~~a~~~~v~---ls~eal~~L~~ys~~  387 (615)
T TIGR02903       311 YIKKLFEEGAPADFVLIGATTRDPEEINPALRSRCAEVFFEPLTPEDIALIVLNAAEKINVH---LAAGVEELIARYTIE  387 (615)
T ss_pred             hhhhhcccCccceEEEEEeccccccccCHHHHhceeEEEeCCCCHHHHHHHHHHHHHHcCCC---CCHHHHHHHHHCCCc
Confidence            55544444444444554  5554332 1111 122467889999999999999887543211   124555666666655


Q ss_pred             cchHHHHHHHH
Q 038398          322 LPLALITIGRA  332 (720)
Q Consensus       322 lPLai~~~~~~  332 (720)
                      -+-|+..++.+
T Consensus       388 gRraln~L~~~  398 (615)
T TIGR02903       388 GRKAVNILADV  398 (615)
T ss_pred             HHHHHHHHHHH
Confidence            56677666544

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.

>PRK14961 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.57  E-value=2.2e-06  Score=90.47  Aligned_cols=193  Identities=17%  Similarity=0.171  Sum_probs=108.0

Q ss_pred             CCCCcCchHHHHHHHHHhcCCCc-eEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHHHHHh
Q 038398          125 CEPTVGLESTFDKVWRCLGEEQV-GIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKIGRRI  203 (720)
Q Consensus       125 ~~~~vGr~~~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i~~~l  203 (720)
                      .++++|.+..++.+.+.+..++. ..+.++|+.|+||||+|+.+++.... .....       ...+........+....
T Consensus        15 ~~~iiGq~~~~~~l~~~~~~~~~~h~~L~~Gp~G~GKTtla~~la~~l~c-~~~~~-------~~pc~~c~~c~~~~~~~   86 (363)
T PRK14961         15 FRDIIGQKHIVTAISNGLSLGRIHHAWLLSGTRGVGKTTIARLLAKSLNC-QNGIT-------SNPCRKCIICKEIEKGL   86 (363)
T ss_pred             hhhccChHHHHHHHHHHHHcCCCCeEEEEecCCCCCHHHHHHHHHHHhcC-CCCCC-------CCCCCCCHHHHHHhcCC
Confidence            36789999999999999877654 56789999999999999999887621 00000       00000000111111110


Q ss_pred             CCCCC---ccCCCChhHHHHHHHHHh-----ccCcEEEEEecccccc--ccccccccCCCCCCCcEEEEEcCCh-hHhhh
Q 038398          204 GFFDE---SWKNGSLEDKTSDILRIL-----GKKKFLLLLDDIWERV--DLTKVGIPFPDPENKSKIVFTTHFL-EICGA  272 (720)
Q Consensus       204 ~~~~~---~~~~~~~~~~~~~l~~~l-----~~k~~LlVlDdv~~~~--~~~~l~~~~~~~~~gs~iiiTtR~~-~v~~~  272 (720)
                      .....   .......++ ...+.+.+     .+++-++|+|+++...  .+..+...+.......++|++|.+. .+...
T Consensus        87 ~~d~~~~~~~~~~~v~~-ir~i~~~~~~~p~~~~~kviIIDEa~~l~~~a~naLLk~lEe~~~~~~fIl~t~~~~~l~~t  165 (363)
T PRK14961         87 CLDLIEIDAASRTKVEE-MREILDNIYYSPSKSRFKVYLIDEVHMLSRHSFNALLKTLEEPPQHIKFILATTDVEKIPKT  165 (363)
T ss_pred             CCceEEecccccCCHHH-HHHHHHHHhcCcccCCceEEEEEChhhcCHHHHHHHHHHHhcCCCCeEEEEEcCChHhhhHH
Confidence            00000   000011111 22222222     2345699999997543  3444433333334456677666543 33222


Q ss_pred             -hccCceeeccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCcch-HHHHH
Q 038398          273 -LKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGLPL-ALITI  329 (720)
Q Consensus       273 -~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~GlPL-ai~~~  329 (720)
                       .+....+++.+++.++..+.+...+.....   .--++.+..|++.++|.|- |+..+
T Consensus       166 I~SRc~~~~~~~l~~~el~~~L~~~~~~~g~---~i~~~al~~ia~~s~G~~R~al~~l  221 (363)
T PRK14961        166 ILSRCLQFKLKIISEEKIFNFLKYILIKESI---DTDEYALKLIAYHAHGSMRDALNLL  221 (363)
T ss_pred             HHhhceEEeCCCCCHHHHHHHHHHHHHHcCC---CCCHHHHHHHHHHcCCCHHHHHHHH
Confidence             122367899999999999998887654321   1224567889999999775 44443

>PRK08727 hypothetical protein; Validated

Probab=98.57  E-value=1.4e-06  Score=85.84  Aligned_cols=167  Identities=12%  Similarity=0.061  Sum_probs=96.9

Q ss_pred             CCCCcCchH-HHHHHHHHhcCCCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHHHHHh
Q 038398          125 CEPTVGLES-TFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKIGRRI  203 (720)
Q Consensus       125 ~~~~vGr~~-~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i~~~l  203 (720)
                      .++||+... .+..+...........+.|+|++|+|||.|++++++...   .....+.|++..+      ....+.   
T Consensus        18 f~~f~~~~~n~~~~~~~~~~~~~~~~l~l~G~~G~GKThL~~a~~~~~~---~~~~~~~y~~~~~------~~~~~~---   85 (233)
T PRK08727         18 FDSYIAAPDGLLAQLQALAAGQSSDWLYLSGPAGTGKTHLALALCAAAE---QAGRSSAYLPLQA------AAGRLR---   85 (233)
T ss_pred             hhhccCCcHHHHHHHHHHHhccCCCeEEEECCCCCCHHHHHHHHHHHHH---HcCCcEEEEeHHH------hhhhHH---
Confidence            356665443 344443333333345799999999999999999988862   2223566765422      111111   


Q ss_pred             CCCCCccCCCChhHHHHHHHHHhccCcEEEEEecccccc---ccc-cccccCCC-CCCCcEEEEEcCChh---------H
Q 038398          204 GFFDESWKNGSLEDKTSDILRILGKKKFLLLLDDIWERV---DLT-KVGIPFPD-PENKSKIVFTTHFLE---------I  269 (720)
Q Consensus       204 ~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~---~~~-~l~~~~~~-~~~gs~iiiTtR~~~---------v  269 (720)
                                       ...+.+ .+.-+||+||+....   .+. .+...+.. ...|..||+|++...         +
T Consensus        86 -----------------~~~~~l-~~~dlLiIDDi~~l~~~~~~~~~lf~l~n~~~~~~~~vI~ts~~~p~~l~~~~~dL  147 (233)
T PRK08727         86 -----------------DALEAL-EGRSLVALDGLESIAGQREDEVALFDFHNRARAAGITLLYTARQMPDGLALVLPDL  147 (233)
T ss_pred             -----------------HHHHHH-hcCCEEEEeCcccccCChHHHHHHHHHHHHHHHcCCeEEEECCCChhhhhhhhHHH
Confidence                             011112 133489999996432   222 12111111 124567999997522         2


Q ss_pred             hhhhccCceeeccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCcch
Q 038398          270 CGALKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGLPL  324 (720)
Q Consensus       270 ~~~~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~GlPL  324 (720)
                      ...+.....+++++++.++-.+++.+++......   --++....|++.++|-.-
T Consensus       148 ~SRl~~~~~~~l~~~~~e~~~~iL~~~a~~~~l~---l~~e~~~~La~~~~rd~r  199 (233)
T PRK08727        148 RSRLAQCIRIGLPVLDDVARAAVLRERAQRRGLA---LDEAAIDWLLTHGERELA  199 (233)
T ss_pred             HHHHhcCceEEecCCCHHHHHHHHHHHHHHcCCC---CCHHHHHHHHHhCCCCHH
Confidence            2233334688999999999999999877543322   225677888888876443

>PRK14963 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.56  E-value=1.3e-06  Score=95.08  Aligned_cols=199  Identities=18%  Similarity=0.123  Sum_probs=112.6

Q ss_pred             CCCcCchHHHHHHHHHhcCCCc-eEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHHHHHhC
Q 038398          126 EPTVGLESTFDKVWRCLGEEQV-GIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKIGRRIG  204 (720)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i~~~l~  204 (720)
                      ++++|.+..++.|..++..+.. ..+.++|++|+||||+|+.+++... -.+.+...+|.|.+... +..-....+..+.
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 DEVVGQEHVKEVLLAALRQGRLGHAYLFSGPRGVGKTTTARLIAMAVN-CSGEDPKPCGECESCLA-VRRGAHPDVLEID   91 (504)
T ss_pred             HHhcChHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHHh-ccCCCCCCCCcChhhHH-HhcCCCCceEEec
Confidence            5679999999999999877665 4568999999999999999988772 11222223333221100 0000000000000


Q ss_pred             CCCCccCCCChhHHHHHHHHHh-----ccCcEEEEEeccccc--cccccccccCCCCCCCcEEEEEcC-ChhHhhhh-cc
Q 038398          205 FFDESWKNGSLEDKTSDILRIL-----GKKKFLLLLDDIWER--VDLTKVGIPFPDPENKSKIVFTTH-FLEICGAL-KA  275 (720)
Q Consensus       205 ~~~~~~~~~~~~~~~~~l~~~l-----~~k~~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~iiiTtR-~~~v~~~~-~~  275 (720)
                      ..    .....+. +..+.+.+     .+++-++|+|+++..  ..+..+...+........+|++|. ...+.... ..
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     245668999999753  234444433433334455555554 33332222 23


Q ss_pred             CceeeccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCcch-HHHHHHHHHh
Q 038398          276 HEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGLPL-ALITIGRAMA  334 (720)
Q Consensus       276 ~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~GlPL-ai~~~~~~l~  334 (720)
                      ...+++.+++.++..+.+.+.+......   --.+....|++.++|.+- ++..+-.++.
T Consensus       167 c~~~~f~~ls~~el~~~L~~i~~~egi~---i~~~Al~~ia~~s~GdlR~aln~Lekl~~  223 (504)
T PRK14963        167 TQHFRFRRLTEEEIAGKLRRLLEAEGRE---AEPEALQLVARLADGAMRDAESLLERLLA  223 (504)
T ss_pred             eEEEEecCCCHHHHHHHHHHHHHHcCCC---CCHHHHHHHHHHcCCCHHHHHHHHHHHHh
Confidence            4579999999999999999887654312   125678889999999774 5555544443

>PRK14957 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.53  E-value=2e-06  Score=93.81  Aligned_cols=185  Identities=18%  Similarity=0.185  Sum_probs=109.4

Q ss_pred             CCCcCchHHHHHHHHHhcCCCc-eEEEEEcCCCChHHHHHHHHHhhhcCCC------------------CCcCEEEEEEe
Q 038398          126 EPTVGLESTFDKVWRCLGEEQV-GIIGLYGMGGVGKTTLLTKINNKLLGAP------------------NVFDVVIWVVV  186 (720)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~~~~~------------------~~f~~~~wv~v  186 (720)
                      .++||.+..++.+..++..+.. ..+.++|+.|+||||+|+.+++......                  +.|..++++..
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            5689999999999999977654 4578999999999999999988652100                  01222222222


Q ss_pred             cCcCCHHHHHHHHHHHhCCCCCccCCCChhHHHHHHHH-HhccCcEEEEEeccccc--cccccccccCCCCCCCcEEEE-
Q 038398          187 SKDLQLEKIQEKIGRRIGFFDESWKNGSLEDKTSDILR-ILGKKKFLLLLDDIWER--VDLTKVGIPFPDPENKSKIVF-  262 (720)
Q Consensus       187 ~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~-~l~~k~~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~iii-  262 (720)
                      .....+.++                    .+..+.+.. -..+++-++|+|+++..  .....+...+......+.+|+ 
T Consensus        96 as~~gvd~i--------------------r~ii~~~~~~p~~g~~kViIIDEa~~ls~~a~naLLK~LEepp~~v~fIL~  155 (546)
T PRK14957         96 ASRTGVEET--------------------KEILDNIQYMPSQGRYKVYLIDEVHMLSKQSFNALLKTLEEPPEYVKFILA  155 (546)
T ss_pred             ccccCHHHH--------------------HHHHHHHHhhhhcCCcEEEEEechhhccHHHHHHHHHHHhcCCCCceEEEE
Confidence            111111111                    111111111 12356679999999753  234444433433334555554 


Q ss_pred             EcCChhHhhh-hccCceeeccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCcc-hHHHHHHHHH
Q 038398          263 TTHFLEICGA-LKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGLP-LALITIGRAM  333 (720)
Q Consensus       263 TtR~~~v~~~-~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~GlP-Lai~~~~~~l  333 (720)
                      ||....+... ......+++.+++.++....+.+.+.....   ..-++....|++.++|.+ .|+..+-.++
T Consensus       156 Ttd~~kil~tI~SRc~~~~f~~Ls~~eI~~~L~~il~~egi---~~e~~Al~~Ia~~s~GdlR~alnlLek~i  225 (546)
T PRK14957        156 TTDYHKIPVTILSRCIQLHLKHISQADIKDQLKIILAKENI---NSDEQSLEYIAYHAKGSLRDALSLLDQAI  225 (546)
T ss_pred             ECChhhhhhhHHHheeeEEeCCCCHHHHHHHHHHHHHHcCC---CCCHHHHHHHHHHcCCCHHHHHHHHHHHH
Confidence            5443334322 233468999999999998888876654321   122556678999999955 5666655444

>PRK14956 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.52  E-value=7.7e-07  Score=94.42  Aligned_cols=195  Identities=13%  Similarity=0.081  Sum_probs=110.3

Q ss_pred             CCCCcCchHHHHHHHHHhcCCCce-EEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHHHHHh
Q 038398          125 CEPTVGLESTFDKVWRCLGEEQVG-IIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKIGRRI  203 (720)
Q Consensus       125 ~~~~vGr~~~~~~l~~~L~~~~~~-vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i~~~l  203 (720)
                      .+++||.+..+..|..++..+... .+.++|+.|+||||+|+.+++...  ......  ...+.....    ...+....
T Consensus        17 f~dvVGQe~iv~~L~~~i~~~ri~ha~Lf~GP~GtGKTTlAriLAk~Ln--ce~~~~--~~pCg~C~s----C~~i~~g~   88 (484)
T PRK14956         17 FRDVIHQDLAIGALQNALKSGKIGHAYIFFGPRGVGKTTIARILAKRLN--CENPIG--NEPCNECTS----CLEITKGI   88 (484)
T ss_pred             HHHHhChHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhcC--cccccC--ccccCCCcH----HHHHHccC
Confidence            356899999999999999877654 588999999999999999988762  111100  000111111    11111111


Q ss_pred             CCCCCcc---CCCChhHHHHHHHHH-----hccCcEEEEEeccccc--cccccccccCCCCCCCcEEEEEc-CChhHhhh
Q 038398          204 GFFDESW---KNGSLEDKTSDILRI-----LGKKKFLLLLDDIWER--VDLTKVGIPFPDPENKSKIVFTT-HFLEICGA  272 (720)
Q Consensus       204 ~~~~~~~---~~~~~~~~~~~l~~~-----l~~k~~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~iiiTt-R~~~v~~~  272 (720)
                      ....-..   .....++ ...+.+.     ..++.-++|+|+++..  ..+..+...+........+|++| ....+...
T Consensus        89 ~~dviEIdaas~~gVd~-IReL~e~l~~~p~~g~~KV~IIDEah~Ls~~A~NALLKtLEEPp~~viFILaTte~~kI~~T  167 (484)
T PRK14956         89 SSDVLEIDAASNRGIEN-IRELRDNVKFAPMGGKYKVYIIDEVHMLTDQSFNALLKTLEEPPAHIVFILATTEFHKIPET  167 (484)
T ss_pred             CccceeechhhcccHHH-HHHHHHHHHhhhhcCCCEEEEEechhhcCHHHHHHHHHHhhcCCCceEEEeecCChhhccHH
Confidence            1100000   0011111 1222221     2356679999999753  34555543343333345555444 43444222


Q ss_pred             -hccCceeeccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCcch-HHHHHHH
Q 038398          273 -LKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGLPL-ALITIGR  331 (720)
Q Consensus       273 -~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~GlPL-ai~~~~~  331 (720)
                       ..-...|.+.+++.++..+.+.+.+.....   .--.+....|++.++|.+- |+..+-.
T Consensus       168 I~SRCq~~~f~~ls~~~i~~~L~~i~~~Egi---~~e~eAL~~Ia~~S~Gd~RdAL~lLeq  225 (484)
T PRK14956        168 ILSRCQDFIFKKVPLSVLQDYSEKLCKIENV---QYDQEGLFWIAKKGDGSVRDMLSFMEQ  225 (484)
T ss_pred             HHhhhheeeecCCCHHHHHHHHHHHHHHcCC---CCCHHHHHHHHHHcCChHHHHHHHHHH
Confidence             222357999999999999998887654331   1225677889999999774 5555433

>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B

Probab=98.52  E-value=2.3e-07  Score=82.87  Aligned_cols=116  Identities=21%  Similarity=0.245  Sum_probs=79.1

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhhcCC--CCCcCEEEEEEecCcCCHHHHHHHHHHHhCCCCCccCCCChhHHHHHHHH
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKLLGA--PNVFDVVIWVVVSKDLQLEKIQEKIGRRIGFFDESWKNGSLEDKTSDILR  224 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~--~~~f~~~~wv~v~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~  224 (720)
                      .+.+.|+|++|+|||++++.+.+.....  ...-..++|+.+....+...+...++.+++.....  ..+..+..+.+.+
T Consensus         4 ~~~~~i~G~~G~GKT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~~--~~~~~~l~~~~~~   81 (131)
T PF13401_consen    4 QRILVISGPPGSGKTTLIKRLARQLNAEAEIKNHPDVIYVNCPSSRTPRDFAQEILEALGLPLKS--RQTSDELRSLLID   81 (131)
T ss_dssp             ---EEEEE-TTSSHHHHHHHHHHHHHHHHHHCCCEEEEEEEHHHHSSHHHHHHHHHHHHT-SSSS--TS-HHHHHHHHHH
T ss_pred             CcccEEEcCCCCCHHHHHHHHHHHhHHhhhccCCCcEEEEEeCCCCCHHHHHHHHHHHhCccccc--cCCHHHHHHHHHH
Confidence            4689999999999999999999876200  00034677999988889999999999999876532  3466777788888


Q ss_pred             HhccCcE-EEEEeccccc-c--ccccccccCCCCCCCcEEEEEcCC
Q 038398          225 ILGKKKF-LLLLDDIWER-V--DLTKVGIPFPDPENKSKIVFTTHF  266 (720)
Q Consensus       225 ~l~~k~~-LlVlDdv~~~-~--~~~~l~~~~~~~~~gs~iiiTtR~  266 (720)
                      .+...+. +||+|+++.. .  .++.+....  ...+.++|+..+.
T Consensus        82 ~l~~~~~~~lviDe~~~l~~~~~l~~l~~l~--~~~~~~vvl~G~~  125 (131)
T PF13401_consen   82 ALDRRRVVLLVIDEADHLFSDEFLEFLRSLL--NESNIKVVLVGTP  125 (131)
T ss_dssp             HHHHCTEEEEEEETTHHHHTHHHHHHHHHHT--CSCBEEEEEEESS
T ss_pred             HHHhcCCeEEEEeChHhcCCHHHHHHHHHHH--hCCCCeEEEEECh
Confidence            8877655 9999999764 2  222232221  2556777777654

>PRK08084 DNA replication initiation factor; Provisional

Probab=98.50  E-value=2.1e-06  Score=84.65  Aligned_cols=168  Identities=16%  Similarity=0.142  Sum_probs=98.3

Q ss_pred             CCCc-CchH-HHHHHHHHhcCCCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHHHHHh
Q 038398          126 EPTV-GLES-TFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKIGRRI  203 (720)
Q Consensus       126 ~~~v-Gr~~-~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i~~~l  203 (720)
                      ++|+ |-.. .+..+.++......+.+.|+|++|+|||+|++.+++...   ..-..+.|+.+......           
T Consensus        22 d~f~~~~n~~a~~~l~~~~~~~~~~~l~l~Gp~G~GKThLl~a~~~~~~---~~~~~v~y~~~~~~~~~-----------   87 (235)
T PRK08084         22 ASFYPGDNDSLLAALQNALRQEHSGYIYLWSREGAGRSHLLHAACAELS---QRGRAVGYVPLDKRAWF-----------   87 (235)
T ss_pred             cccccCccHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHHH---hCCCeEEEEEHHHHhhh-----------
Confidence            4554 6322 344444444344556899999999999999999998762   22235667765431100           


Q ss_pred             CCCCCccCCCChhHHHHHHHHHhccCcEEEEEeccccc---ccccc-ccccCCC-CCCC-cEEEEEcCChh---------
Q 038398          204 GFFDESWKNGSLEDKTSDILRILGKKKFLLLLDDIWER---VDLTK-VGIPFPD-PENK-SKIVFTTHFLE---------  268 (720)
Q Consensus       204 ~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~---~~~~~-l~~~~~~-~~~g-s~iiiTtR~~~---------  268 (720)
                                 ..    .+.+.+.+ .-++++||+...   ..|+. +...+.. ...| .++|+||+...         
T Consensus        88 -----------~~----~~~~~~~~-~dlliiDdi~~~~~~~~~~~~lf~l~n~~~e~g~~~li~ts~~~p~~l~~~~~~  151 (235)
T PRK08084         88 -----------VP----EVLEGMEQ-LSLVCIDNIECIAGDELWEMAIFDLYNRILESGRTRLLITGDRPPRQLNLGLPD  151 (235)
T ss_pred             -----------hH----HHHHHhhh-CCEEEEeChhhhcCCHHHHHHHHHHHHHHHHcCCCeEEEeCCCChHHcCcccHH
Confidence                       00    11111211 237899999642   22322 1111111 1123 47899987542         


Q ss_pred             HhhhhccCceeeccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCcchHH
Q 038398          269 ICGALKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGLPLAL  326 (720)
Q Consensus       269 v~~~~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~GlPLai  326 (720)
                      +...+.....++++++++++-.+++.+++.....   .--+++..-|++.+.|..-++
T Consensus       152 L~SRl~~g~~~~l~~~~~~~~~~~l~~~a~~~~~---~l~~~v~~~L~~~~~~d~r~l  206 (235)
T PRK08084        152 LASRLDWGQIYKLQPLSDEEKLQALQLRARLRGF---ELPEDVGRFLLKRLDREMRTL  206 (235)
T ss_pred             HHHHHhCCceeeecCCCHHHHHHHHHHHHHHcCC---CCCHHHHHHHHHhhcCCHHHH
Confidence            2344455578999999999999999886654321   223677888888888754433

>PRK14958 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.49  E-value=4.5e-06  Score=91.22  Aligned_cols=187  Identities=14%  Similarity=0.142  Sum_probs=108.7

Q ss_pred             CCCCcCchHHHHHHHHHhcCCCce-EEEEEcCCCChHHHHHHHHHhhhcCCC------------------CCcCEEEEEE
Q 038398          125 CEPTVGLESTFDKVWRCLGEEQVG-IIGLYGMGGVGKTTLLTKINNKLLGAP------------------NVFDVVIWVV  185 (720)
Q Consensus       125 ~~~~vGr~~~~~~l~~~L~~~~~~-vi~I~G~gGiGKTtLa~~v~~~~~~~~------------------~~f~~~~wv~  185 (720)
                      .+++||.+..++.+.+++..+... .+.++|+.|+||||+|+.+.+......                  +.|.-++.+.
T Consensus        15 f~divGq~~v~~~L~~~~~~~~l~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~~~pCg~C~~C~~i~~g~~~d~~eid   94 (509)
T PRK14958         15 FQEVIGQAPVVRALSNALDQQYLHHAYLFTGTRGVGKTTISRILAKCLNCEKGVSANPCNDCENCREIDEGRFPDLFEVD   94 (509)
T ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCeeEEEECCCCCCHHHHHHHHHHHhcCCCCCCcccCCCCHHHHHHhcCCCceEEEEc
Confidence            356899999999999999876654 578999999999999999988762110                  1111233332


Q ss_pred             ecCcCCHHHHHHHHHHHhCCCCCccCCCChhHHHHHHHHHhccCcEEEEEeccccc--cccccccccCCCCCCCcEEEEE
Q 038398          186 VSKDLQLEKIQEKIGRRIGFFDESWKNGSLEDKTSDILRILGKKKFLLLLDDIWER--VDLTKVGIPFPDPENKSKIVFT  263 (720)
Q Consensus       186 v~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~iiiT  263 (720)
                      .+....+.++ ++++..+...                  -..++.-++|+|+++..  .....+...+......+++|++
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 1222221110                  01245668999999753  2333333333333345666655


Q ss_pred             cCC-hhHhhh-hccCceeeccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCcch-HHHHHHHHH
Q 038398          264 THF-LEICGA-LKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGLPL-ALITIGRAM  333 (720)
Q Consensus       264 tR~-~~v~~~-~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~GlPL-ai~~~~~~l  333 (720)
                      |.+ ..+... .+....+++++++.++....+...+......   --.+....|++.++|.+- |+..+-.++
T Consensus       156 ttd~~kl~~tI~SRc~~~~f~~l~~~~i~~~l~~il~~egi~---~~~~al~~ia~~s~GslR~al~lLdq~i  225 (509)
T PRK14958        156 TTDHHKLPVTVLSRCLQFHLAQLPPLQIAAHCQHLLKEENVE---FENAALDLLARAANGSVRDALSLLDQSI  225 (509)
T ss_pred             ECChHhchHHHHHHhhhhhcCCCCHHHHHHHHHHHHHHcCCC---CCHHHHHHHHHHcCCcHHHHHHHHHHHH
Confidence            543 333211 2223568899999999888877776543311   124556788899998764 444443433

>cd01128 rho_factor Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase

Probab=98.49  E-value=2e-07  Score=91.69  Aligned_cols=91  Identities=20%  Similarity=0.144  Sum_probs=62.5

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCc--CCHHHHHHHHHHHhCCCCCccCCCChh------H
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKD--LQLEKIQEKIGRRIGFFDESWKNGSLE------D  217 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~--~~~~~~~~~i~~~l~~~~~~~~~~~~~------~  217 (720)
                      .-..++|+|++|+|||||++.+++.. . ..+|+.++|+.+.+.  .++.++++.+...+-...-  ......      .
T Consensus        15 ~Gqr~~I~G~~G~GKTTLlr~I~n~l-~-~~~fdv~~~v~vI~er~~ev~el~~~I~~~~v~~~~--~~~~~~~~~~~~~   90 (249)
T cd01128          15 KGQRGLIVAPPKAGKTTLLQSIANAI-T-KNHPEVYLIVLLIDERPEEVTDMQRSVKGEVIASTF--DEPPERHVQVAEM   90 (249)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhcc-c-cccCCeEEEEEEccCCCccHHHHHHHhccEEEEecC--CCCHHHHHHHHHH
Confidence            44789999999999999999999987 3 348999999998777  7899999998333221110  111111      1


Q ss_pred             HHHHHHHH-hccCcEEEEEecccc
Q 038398          218 KTSDILRI-LGKKKFLLLLDDIWE  240 (720)
Q Consensus       218 ~~~~l~~~-l~~k~~LlVlDdv~~  240 (720)
                      ..+....+ -.++++++++|++..
T Consensus        91 ~~~~a~~~~~~G~~vll~iDei~r  114 (249)
T cd01128          91 VLEKAKRLVEHGKDVVILLDSITR  114 (249)
T ss_pred             HHHHHHHHHHCCCCEEEEEECHHH
Confidence            11222222 247899999999864

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.

>PF13191 AAA_16: AAA ATPase domain; PDB: 2V1U_A

Probab=98.48  E-value=3.8e-07  Score=86.94  Aligned_cols=45  Identities=29%  Similarity=0.394  Sum_probs=32.5

Q ss_pred             CCcCchHHHHHHHHHhc---CCCceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          127 PTVGLESTFDKVWRCLG---EEQVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       127 ~~vGr~~~~~~l~~~L~---~~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      .||||+++++++...+.   ....+.+.|+|++|+|||+|++.++...
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            37999999999999992   2456899999999999999999999887

>PRK06645 DNA polymerase III subunits gamma and tau; Validated

Probab=98.48  E-value=4.4e-06  Score=90.59  Aligned_cols=199  Identities=16%  Similarity=0.127  Sum_probs=110.0

Q ss_pred             CCCCcCchHHHHHHHHHhcCCCc-eEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCE-EEEEEecCcCCHHHHHHHHHHH
Q 038398          125 CEPTVGLESTFDKVWRCLGEEQV-GIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDV-VIWVVVSKDLQLEKIQEKIGRR  202 (720)
Q Consensus       125 ~~~~vGr~~~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~-~~wv~v~~~~~~~~~~~~i~~~  202 (720)
                      ..++||.+..+..+...+..+.. ..+.++|+.|+||||+|+.+++.... ...... --+..+.    .......+...
T Consensus        20 f~dliGq~~vv~~L~~ai~~~ri~~a~Lf~Gp~G~GKTT~ArilAk~Lnc-~~~~~~~~~~~~C~----~C~~C~~i~~~   94 (507)
T PRK06645         20 FAELQGQEVLVKVLSYTILNDRLAGGYLLTGIRGVGKTTSARIIAKAVNC-SALITENTTIKTCE----QCTNCISFNNH   94 (507)
T ss_pred             HHHhcCcHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHHhcC-ccccccCcCcCCCC----CChHHHHHhcC
Confidence            35679999999999888876653 57889999999999999999887621 111000 0000000    00001111110


Q ss_pred             hCCCC---CccCCCChhHHHHHHHH----HhccCcEEEEEeccccc--cccccccccCCCCCCCcEEEE-EcCChhHhhh
Q 038398          203 IGFFD---ESWKNGSLEDKTSDILR----ILGKKKFLLLLDDIWER--VDLTKVGIPFPDPENKSKIVF-TTHFLEICGA  272 (720)
Q Consensus       203 l~~~~---~~~~~~~~~~~~~~l~~----~l~~k~~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~iii-TtR~~~v~~~  272 (720)
                      .....   +.......++....+..    -+.+++-++|+|+++..  ..+..+...+......+.+|+ ||+...+...
T Consensus        95 ~h~Dv~eidaas~~~vd~Ir~iie~a~~~P~~~~~KVvIIDEa~~Ls~~a~naLLk~LEepp~~~vfI~aTte~~kI~~t  174 (507)
T PRK06645         95 NHPDIIEIDAASKTSVDDIRRIIESAEYKPLQGKHKIFIIDEVHMLSKGAFNALLKTLEEPPPHIIFIFATTEVQKIPAT  174 (507)
T ss_pred             CCCcEEEeeccCCCCHHHHHHHHHHHHhccccCCcEEEEEEChhhcCHHHHHHHHHHHhhcCCCEEEEEEeCChHHhhHH
Confidence            00000   00011112222211111    12356778999999863  335555444433344556554 4454444332


Q ss_pred             h-ccCceeeccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCcch-HHHHHHH
Q 038398          273 L-KAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGLPL-ALITIGR  331 (720)
Q Consensus       273 ~-~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~GlPL-ai~~~~~  331 (720)
                      . .....+++.+++.++....+...+......   --.+....|++.++|.+- |+..+-.
T Consensus       175 I~SRc~~~ef~~ls~~el~~~L~~i~~~egi~---ie~eAL~~Ia~~s~GslR~al~~Ldk  232 (507)
T PRK06645        175 IISRCQRYDLRRLSFEEIFKLLEYITKQENLK---TDIEALRIIAYKSEGSARDAVSILDQ  232 (507)
T ss_pred             HHhcceEEEccCCCHHHHHHHHHHHHHHcCCC---CCHHHHHHHHHHcCCCHHHHHHHHHH
Confidence            2 233578999999999999999888654311   124567789999998664 4444433

>PLN03150 hypothetical protein; Provisional

Probab=98.48  E-value=4.2e-07  Score=102.80  Aligned_cols=103  Identities=22%  Similarity=0.322  Sum_probs=80.2

Q ss_pred             cccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCccCCccccCCCCCCEEeccCCCCc-ccchhhhcCCCCCEEecc
Q 038398          517 HLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSSTAIT-HLPIELQKLVNLKCLNLE  595 (720)
Q Consensus       517 ~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~~~i~-~lp~~i~~l~~L~~L~l~  595 (720)
                      .+..|+|++|.+.+..+..+.++++|+.|+|++|.+.+.+|..++.+++|++|+|++|.++ .+|..++++++|++|+|+
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            4778888888887766666888999999999999888888888999999999999999887 678889999999999998


Q ss_pred             CCcCCCCCchhhhhc-cccCceeecc
Q 038398          596 YMNNLNQFPRLVISA-FSKLQVLRMF  620 (720)
Q Consensus       596 ~~~~l~~lp~~~~~~-l~~L~~L~~~  620 (720)
                      +|.....+|.. ++. +.++..+.+.
T Consensus       499 ~N~l~g~iP~~-l~~~~~~~~~l~~~  523 (623)
T PLN03150        499 GNSLSGRVPAA-LGGRLLHRASFNFT  523 (623)
T ss_pred             CCcccccCChH-HhhccccCceEEec
Confidence            86554567765 333 2344444443

>COG4886 Leucine-rich repeat (LRR) protein [Function unknown]

Probab=98.47  E-value=1.2e-07  Score=102.10  Aligned_cols=176  Identities=25%  Similarity=0.322  Sum_probs=117.7

Q ss_pred             CcccccccceeEEEecccccccCCCCCCCC--cccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCccCCccccCCC
Q 038398          487 APEIQNWRNVRRMSLMKNKIENLSETPTCP--HLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLV  564 (720)
Q Consensus       487 ~~~~~~~~~l~~L~l~~~~~~~~~~~~~~~--~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~  564 (720)
                      ...+...+.+..|++.+|.+..++......  +|+.|++++|.+..++.. +..++.|+.|++++| .+..+|...+.++
T Consensus       109 ~~~~~~~~~l~~L~l~~n~i~~i~~~~~~~~~nL~~L~l~~N~i~~l~~~-~~~l~~L~~L~l~~N-~l~~l~~~~~~~~  186 (394)
T COG4886         109 ISELLELTNLTSLDLDNNNITDIPPLIGLLKSNLKELDLSDNKIESLPSP-LRNLPNLKNLDLSFN-DLSDLPKLLSNLS  186 (394)
T ss_pred             chhhhcccceeEEecCCcccccCccccccchhhcccccccccchhhhhhh-hhccccccccccCCc-hhhhhhhhhhhhh
Confidence            334455567888999999988887765543  899999999988887533 788899999999999 4557777776888


Q ss_pred             CCCEEeccCCCCcccchhhhcCCCCCEEeccCCcCCCCCchhhhhccccCceeeccccCCCcccchhcccccCCccccHH
Q 038398          565 SLEHLDLSSTAITHLPIELQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKINVLFGGHQFLVE  644 (720)
Q Consensus       565 ~L~~L~L~~~~i~~lp~~i~~l~~L~~L~l~~~~~l~~lp~~~~~~l~~L~~L~~~~~~~~~l~~l~~~~~~~~~~~~~~  644 (720)
                      .|+.|++++|+++.+|..+..+..|+.|.++++.. ..++.. +..+.++..|.   +..|++..+            +.
T Consensus       187 ~L~~L~ls~N~i~~l~~~~~~~~~L~~l~~~~N~~-~~~~~~-~~~~~~l~~l~---l~~n~~~~~------------~~  249 (394)
T COG4886         187 NLNNLDLSGNKISDLPPEIELLSALEELDLSNNSI-IELLSS-LSNLKNLSGLE---LSNNKLEDL------------PE  249 (394)
T ss_pred             hhhheeccCCccccCchhhhhhhhhhhhhhcCCcc-eecchh-hhhcccccccc---cCCceeeec------------cc
Confidence            99999999999999998777777899999988433 333332 55555555554   555554321            22


Q ss_pred             HhcCCCCCceeEEEecchhhHHHHhhhhhhhhhcccccccc
Q 038398          645 ELMGMKHLMVLTITLKSWQALKELLISQELQRSTQSLFLRC  685 (720)
Q Consensus       645 ~l~~l~~L~~L~~~~~~~~~l~~l~~~~~~~~~L~~L~l~~  685 (720)
                      .++.++.++.|+++.+.+..+..    .....+++.|++++
T Consensus       250 ~~~~l~~l~~L~~s~n~i~~i~~----~~~~~~l~~L~~s~  286 (394)
T COG4886         250 SIGNLSNLETLDLSNNQISSISS----LGSLTNLRELDLSG  286 (394)
T ss_pred             hhccccccceecccccccccccc----ccccCccCEEeccC
Confidence            34444555555555555544433    22223555555554

>PRK13341 recombination factor protein RarA/unknown domain fusion protein; Reviewed

Probab=98.47  E-value=1.4e-06  Score=98.63  Aligned_cols=177  Identities=20%  Similarity=0.235  Sum_probs=101.9

Q ss_pred             CCCCcCchHHHH---HHHHHhcCCCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHHHH
Q 038398          125 CEPTVGLESTFD---KVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKIGR  201 (720)
Q Consensus       125 ~~~~vGr~~~~~---~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i~~  201 (720)
                      .+++||++..+.   .+.+.+..+....+.++|++|+||||||+.+++..   ...|.   .++.+. ....+       
T Consensus        27 ldd~vGQe~ii~~~~~L~~~i~~~~~~slLL~GPpGtGKTTLA~aIA~~~---~~~f~---~lna~~-~~i~d-------   92 (725)
T PRK13341         27 LEEFVGQDHILGEGRLLRRAIKADRVGSLILYGPPGVGKTTLARIIANHT---RAHFS---SLNAVL-AGVKD-------   92 (725)
T ss_pred             HHHhcCcHHHhhhhHHHHHHHhcCCCceEEEECCCCCCHHHHHHHHHHHh---cCcce---eehhhh-hhhHH-------
Confidence            356899998874   46666766777788999999999999999999876   33431   111110 00111       


Q ss_pred             HhCCCCCccCCCChhHHHHHHHHHh--ccCcEEEEEeccccc--cccccccccCCCCCCCcEEEEE--cCChh--Hhh-h
Q 038398          202 RIGFFDESWKNGSLEDKTSDILRIL--GKKKFLLLLDDIWER--VDLTKVGIPFPDPENKSKIVFT--THFLE--ICG-A  272 (720)
Q Consensus       202 ~l~~~~~~~~~~~~~~~~~~l~~~l--~~k~~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~iiiT--tR~~~--v~~-~  272 (720)
                                   ..+......+.+  .+++.+|||||++..  ...+.+...+   ..|+.++|+  |.+..  +.. .
T Consensus        93 -------------ir~~i~~a~~~l~~~~~~~IL~IDEIh~Ln~~qQdaLL~~l---E~g~IiLI~aTTenp~~~l~~aL  156 (725)
T PRK13341         93 -------------LRAEVDRAKERLERHGKRTILFIDEVHRFNKAQQDALLPWV---ENGTITLIGATTENPYFEVNKAL  156 (725)
T ss_pred             -------------HHHHHHHHHHHhhhcCCceEEEEeChhhCCHHHHHHHHHHh---cCceEEEEEecCCChHhhhhhHh
Confidence                         111111221212  246779999999743  3333333222   235555553  44432  111 1


Q ss_pred             hccCceeeccCCChhhHHHHHHHHhccCc----cCCCCChHHHHHHHHHHhCCcc-hHHHHHHH
Q 038398          273 LKAHEFLKVECLGPEDAWRLFRENLRRDV----LDNHPDIPELARSVAQECAGLP-LALITIGR  331 (720)
Q Consensus       273 ~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~----~~~~~~~~~~~~~i~~~c~GlP-Lai~~~~~  331 (720)
                      ......+.+++|+.++...++.+.+....    .....--++....|++.+.|.. -++.++-.
T Consensus       157 ~SR~~v~~l~pLs~edi~~IL~~~l~~~~~~~g~~~v~I~deaL~~La~~s~GD~R~lln~Le~  220 (725)
T PRK13341        157 VSRSRLFRLKSLSDEDLHQLLKRALQDKERGYGDRKVDLEPEAEKHLVDVANGDARSLLNALEL  220 (725)
T ss_pred             hccccceecCCCCHHHHHHHHHHHHHHHHhhcCCcccCCCHHHHHHHHHhCCCCHHHHHHHHHH
Confidence            12235789999999999999988764210    0111223566788888888853 34444433

>PRK07471 DNA polymerase III subunit delta'; Validated

Probab=98.45  E-value=6.3e-06  Score=86.19  Aligned_cols=199  Identities=14%  Similarity=0.076  Sum_probs=109.5

Q ss_pred             CCCCCcCchHHHHHHHHHhcCCCce-EEEEEcCCCChHHHHHHHHHhhhcCCCC-CcCE-EEEEEecCcCCHHHHHHHHH
Q 038398          124 PCEPTVGLESTFDKVWRCLGEEQVG-IIGLYGMGGVGKTTLLTKINNKLLGAPN-VFDV-VIWVVVSKDLQLEKIQEKIG  200 (720)
Q Consensus       124 ~~~~~vGr~~~~~~l~~~L~~~~~~-vi~I~G~gGiGKTtLa~~v~~~~~~~~~-~f~~-~~wv~v~~~~~~~~~~~~i~  200 (720)
                      ....+||.+..++.+.+.+..+... .+.++|+.|+||+|+|..+......... .... ..-......+......+.+.
T Consensus        17 ~~~~iiGq~~~~~~L~~~~~~~rl~HA~Lf~Gp~G~GK~~lA~~~A~~Llc~~~~~~~~~~~~~~~l~~~~~c~~c~~i~   96 (365)
T PRK07471         17 ETTALFGHAAAEAALLDAYRSGRLHHAWLIGGPQGIGKATLAYRMARFLLATPPPGGDGAVPPPTSLAIDPDHPVARRIA   96 (365)
T ss_pred             chhhccChHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHHHhCCCCCCCCccccccccccCCCCChHHHHHH
Confidence            3457899999999999999877654 6889999999999999998877621110 0000 00000000000001111121


Q ss_pred             HHhCCCC--------Cc----cCCCChhHHHHHHHHHhc-----cCcEEEEEeccccc--cccccccccCCCCCCCcEEE
Q 038398          201 RRIGFFD--------ES----WKNGSLEDKTSDILRILG-----KKKFLLLLDDIWER--VDLTKVGIPFPDPENKSKIV  261 (720)
Q Consensus       201 ~~l~~~~--------~~----~~~~~~~~~~~~l~~~l~-----~k~~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~ii  261 (720)
                      ..-....        +.    ......++ ++.+.+.+.     +.+.++|+|+++..  .....+...+.....++.+|
T Consensus        97 ~~~HPDl~~i~~~~~~~~~~~~~~I~Vdq-iR~l~~~~~~~~~~~~~kVviIDead~m~~~aanaLLK~LEepp~~~~~I  175 (365)
T PRK07471         97 AGAHGGLLTLERSWNEKGKRLRTVITVDE-VRELISFFGLTAAEGGWRVVIVDTADEMNANAANALLKVLEEPPARSLFL  175 (365)
T ss_pred             ccCCCCeEEEecccccccccccccccHHH-HHHHHHHhCcCcccCCCEEEEEechHhcCHHHHHHHHHHHhcCCCCeEEE
Confidence            1110000        00    00111222 333444443     45679999999753  22333333333333456666


Q ss_pred             EEcCChh-Hhhh-hccCceeeccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCcchHHHHHH
Q 038398          262 FTTHFLE-ICGA-LKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGLPLALITIG  330 (720)
Q Consensus       262 iTtR~~~-v~~~-~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~GlPLai~~~~  330 (720)
                      ++|.+.. +... .+....+.+.+++.++..+++........       .+....+++.++|.|.....+.
T Consensus       176 L~t~~~~~llpti~SRc~~i~l~~l~~~~i~~~L~~~~~~~~-------~~~~~~l~~~s~Gsp~~Al~ll  239 (365)
T PRK07471        176 LVSHAPARLLPTIRSRCRKLRLRPLAPEDVIDALAAAGPDLP-------DDPRAALAALAEGSVGRALRLA  239 (365)
T ss_pred             EEECCchhchHHhhccceEEECCCCCHHHHHHHHHHhcccCC-------HHHHHHHHHHcCCCHHHHHHHh
Confidence            6666543 3221 22346789999999999999987642211       2223678999999998665443

>PRK14964 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.44  E-value=5.7e-06  Score=89.01  Aligned_cols=183  Identities=15%  Similarity=0.176  Sum_probs=108.9

Q ss_pred             CCCCcCchHHHHHHHHHhcCCCce-EEEEEcCCCChHHHHHHHHHhhhcCCC------------------CCcCEEEEEE
Q 038398          125 CEPTVGLESTFDKVWRCLGEEQVG-IIGLYGMGGVGKTTLLTKINNKLLGAP------------------NVFDVVIWVV  185 (720)
Q Consensus       125 ~~~~vGr~~~~~~l~~~L~~~~~~-vi~I~G~gGiGKTtLa~~v~~~~~~~~------------------~~f~~~~wv~  185 (720)
                      .+++||.+..++.+.+++..+... .+.++|+.|+||||+|+.++.......                  +.+.-++.++
T Consensus        12 f~dliGQe~vv~~L~~a~~~~ri~ha~Lf~Gp~G~GKTT~ArilAk~LnC~~~~~~~pCg~C~~C~~i~~~~~~Dv~eid   91 (491)
T PRK14964         12 FKDLVGQDVLVRILRNAFTLNKIPQSILLVGASGVGKTTCARIISLCLNCSNGPTSDPCGTCHNCISIKNSNHPDVIEID   91 (491)
T ss_pred             HHHhcCcHHHHHHHHHHHHcCCCCceEEEECCCCccHHHHHHHHHHHHcCcCCCCCCCccccHHHHHHhccCCCCEEEEe
Confidence            367899999999999988777654 788999999999999999987531000                  0111223333


Q ss_pred             ecCcCCHHHHHHHHHHHhCCCCCccCCCChhHHHHHHHHHhccCcEEEEEeccccc--cccccccccCCCCCCCcEEEEE
Q 038398          186 VSKDLQLEKIQEKIGRRIGFFDESWKNGSLEDKTSDILRILGKKKFLLLLDDIWER--VDLTKVGIPFPDPENKSKIVFT  263 (720)
Q Consensus       186 v~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~iiiT  263 (720)
                      .+...++.++. .+.......                  -+.+++-++|+|+++..  .....+...+......+++|++
T Consensus        92 aas~~~vddIR-~Iie~~~~~------------------P~~~~~KVvIIDEah~Ls~~A~NaLLK~LEePp~~v~fIla  152 (491)
T PRK14964         92 AASNTSVDDIK-VILENSCYL------------------PISSKFKVYIIDEVHMLSNSAFNALLKTLEEPAPHVKFILA  152 (491)
T ss_pred             cccCCCHHHHH-HHHHHHHhc------------------cccCCceEEEEeChHhCCHHHHHHHHHHHhCCCCCeEEEEE
Confidence            32222222211 111111100                  01245668999999753  2344443333333345666655


Q ss_pred             c-CChhHhh-hhccCceeeccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCcch-HHHHH
Q 038398          264 T-HFLEICG-ALKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGLPL-ALITI  329 (720)
Q Consensus       264 t-R~~~v~~-~~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~GlPL-ai~~~  329 (720)
                      | ....+.. .......+++.+++.++....+.+.+.....   .--++....|++.++|.+- ++..+
T Consensus       153 tte~~Kl~~tI~SRc~~~~f~~l~~~el~~~L~~ia~~Egi---~i~~eAL~lIa~~s~GslR~alslL  218 (491)
T PRK14964        153 TTEVKKIPVTIISRCQRFDLQKIPTDKLVEHLVDIAKKENI---EHDEESLKLIAENSSGSMRNALFLL  218 (491)
T ss_pred             eCChHHHHHHHHHhheeeecccccHHHHHHHHHHHHHHcCC---CCCHHHHHHHHHHcCCCHHHHHHHH
Confidence            5 3344432 2233467899999999999999988765431   1225567789999988764 33433

>TIGR02397 dnaX_nterm DNA polymerase III, subunit gamma and tau

Probab=98.43  E-value=8.9e-06  Score=86.35  Aligned_cols=182  Identities=14%  Similarity=0.169  Sum_probs=107.5

Q ss_pred             CCCCcCchHHHHHHHHHhcCCCc-eEEEEEcCCCChHHHHHHHHHhhhcCCC-------------------CCcCEEEEE
Q 038398          125 CEPTVGLESTFDKVWRCLGEEQV-GIIGLYGMGGVGKTTLLTKINNKLLGAP-------------------NVFDVVIWV  184 (720)
Q Consensus       125 ~~~~vGr~~~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~~~~~-------------------~~f~~~~wv  184 (720)
                      ..+++|.+..++.+..++..+.. ..+.++|++|+||||+|+.+........                   .+++. +++
T Consensus        13 ~~~iig~~~~~~~l~~~~~~~~~~~~~Ll~G~~G~GKt~~a~~la~~l~~~~~~~~~~c~~c~~c~~~~~~~~~~~-~~~   91 (355)
T TIGR02397        13 FEDVIGQEHIVQTLKNAIKNGRIAHAYLFSGPRGTGKTSIARIFAKALNCQNGPDGEPCNECESCKEINSGSSLDV-IEI   91 (355)
T ss_pred             HhhccCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCCHHHHHHhcCCCCCE-EEe
Confidence            35679999999999999977654 4678999999999999999987752110                   12222 222


Q ss_pred             EecCcCCHHHHHHHHHHHhCCCCCccCCCChhHHHHHHHHHhccCcEEEEEeccccc--cccccccccCCCCCCCcEEEE
Q 038398          185 VVSKDLQLEKIQEKIGRRIGFFDESWKNGSLEDKTSDILRILGKKKFLLLLDDIWER--VDLTKVGIPFPDPENKSKIVF  262 (720)
Q Consensus       185 ~v~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~iii  262 (720)
                      .-+....... .+.+...+...                  -..+++-++|+|+++..  .....+...+......+.+|+
T Consensus        92 ~~~~~~~~~~-~~~l~~~~~~~------------------p~~~~~~vviidea~~l~~~~~~~Ll~~le~~~~~~~lIl  152 (355)
T TIGR02397        92 DAASNNGVDD-IREILDNVKYA------------------PSSGKYKVYIIDEVHMLSKSAFNALLKTLEEPPEHVVFIL  152 (355)
T ss_pred             eccccCCHHH-HHHHHHHHhcC------------------cccCCceEEEEeChhhcCHHHHHHHHHHHhCCccceeEEE
Confidence            2211111111 11222221100                  01234558899998643  223334333333334566666


Q ss_pred             EcCChh-Hhhh-hccCceeeccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCcchHHHHH
Q 038398          263 TTHFLE-ICGA-LKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGLPLALITI  329 (720)
Q Consensus       263 TtR~~~-v~~~-~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~GlPLai~~~  329 (720)
                      +|.+.. +... ......+++.++++++..+++...+......   --.+.+..+++.++|.|..+...
T Consensus       153 ~~~~~~~l~~~l~sr~~~~~~~~~~~~~l~~~l~~~~~~~g~~---i~~~a~~~l~~~~~g~~~~a~~~  218 (355)
T TIGR02397       153 ATTEPHKIPATILSRCQRFDFKRIPLEDIVERLKKILDKEGIK---IEDEALELIARAADGSLRDALSL  218 (355)
T ss_pred             EeCCHHHHHHHHHhheeEEEcCCCCHHHHHHHHHHHHHHcCCC---CCHHHHHHHHHHcCCChHHHHHH
Confidence            665443 2221 2223578889999999999998877543311   12567888999999988655443

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.

>PTZ00202 tuzin; Provisional

Probab=98.43  E-value=3.6e-06  Score=86.68  Aligned_cols=162  Identities=18%  Similarity=0.161  Sum_probs=101.4

Q ss_pred             CCCCCCCcCchHHHHHHHHHhcC---CCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHH
Q 038398          122 QRPCEPTVGLESTFDKVWRCLGE---EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEK  198 (720)
Q Consensus       122 ~~~~~~~vGr~~~~~~l~~~L~~---~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~  198 (720)
                      |.....|+||+.++.++...|.+   +..+++.|.|++|+|||||++.+....   .  + ..++++..   +..+++..
T Consensus       258 Pa~~~~FVGReaEla~Lr~VL~~~d~~~privvLtG~~G~GKTTLlR~~~~~l---~--~-~qL~vNpr---g~eElLr~  328 (550)
T PTZ00202        258 PAVIRQFVSREAEESWVRQVLRRLDTAHPRIVVFTGFRGCGKSSLCRSAVRKE---G--M-PAVFVDVR---GTEDTLRS  328 (550)
T ss_pred             CCCccCCCCcHHHHHHHHHHHhccCCCCceEEEEECCCCCCHHHHHHHHHhcC---C--c-eEEEECCC---CHHHHHHH
Confidence            33447899999999999998854   235689999999999999999999765   1  1 13333332   67999999


Q ss_pred             HHHHhCCCCCccCCCChhHHHHHHHHHh-----c-cCcEEEEEeccccccccccc---cccCCCCCCCcEEEEEcCChhH
Q 038398          199 IGRRIGFFDESWKNGSLEDKTSDILRIL-----G-KKKFLLLLDDIWERVDLTKV---GIPFPDPENKSKIVFTTHFLEI  269 (720)
Q Consensus       199 i~~~l~~~~~~~~~~~~~~~~~~l~~~l-----~-~k~~LlVlDdv~~~~~~~~l---~~~~~~~~~gs~iiiTtR~~~v  269 (720)
                      ++.+|+.+.    .....++...|.+.+     . +++.+||+-== +...+..+   ...+.....-|.|++----+.+
T Consensus       329 LL~ALGV~p----~~~k~dLLrqIqeaLl~~~~e~GrtPVLII~lr-eg~~l~rvyne~v~la~drr~ch~v~evplesl  403 (550)
T PTZ00202        329 VVKALGVPN----VEACGDLLDFISEACRRAKKMNGETPLLVLKLR-EGSSLQRVYNEVVALACDRRLCHVVIEVPLESL  403 (550)
T ss_pred             HHHHcCCCC----cccHHHHHHHHHHHHHHHHHhCCCCEEEEEEec-CCCcHHHHHHHHHHHHccchhheeeeeehHhhc
Confidence            999999742    222234444444433     2 56666666421 11111111   1112233445777765443333


Q ss_pred             hhh---hccCceeeccCCChhhHHHHHHHHh
Q 038398          270 CGA---LKAHEFLKVECLGPEDAWRLFRENL  297 (720)
Q Consensus       270 ~~~---~~~~~~~~l~~L~~~e~~~Lf~~~~  297 (720)
                      ...   ..--..|.++.++.++|..+-.+..
T Consensus       404 t~~~~~lprldf~~vp~fsr~qaf~y~~h~~  434 (550)
T PTZ00202        404 TIANTLLPRLDFYLVPNFSRSQAFAYTQHAI  434 (550)
T ss_pred             chhcccCccceeEecCCCCHHHHHHHHhhcc
Confidence            111   1223568899999999998877654

>PLN03150 hypothetical protein; Provisional

Probab=98.42  E-value=7.2e-07  Score=100.87  Aligned_cols=110  Identities=23%  Similarity=0.351  Sum_probs=92.3

Q ss_pred             ceeEEEeccccccc-CC-CCCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCccCCccccCCCCCCEEecc
Q 038398          495 NVRRMSLMKNKIEN-LS-ETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLS  572 (720)
Q Consensus       495 ~l~~L~l~~~~~~~-~~-~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~  572 (720)
                      .++.|+|++|.+.. +| .+..+++|+.|++++|.+.+..+..+..+++|++|+|++|++.+.+|..+++|++|++|+|+
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            47889999998864 33 24788999999999999987666669999999999999999999999999999999999999


Q ss_pred             CCCCc-ccchhhhcC-CCCCEEeccCCcCCCCCc
Q 038398          573 STAIT-HLPIELQKL-VNLKCLNLEYMNNLNQFP  604 (720)
Q Consensus       573 ~~~i~-~lp~~i~~l-~~L~~L~l~~~~~l~~lp  604 (720)
                      +|.++ .+|..+..+ .++..+++.+|..+...|
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 577889998865444443

>PRK09087 hypothetical protein; Validated

Probab=98.41  E-value=4.1e-06  Score=81.75  Aligned_cols=141  Identities=16%  Similarity=0.095  Sum_probs=86.8

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHHHHHhCCCCCccCCCChhHHHHHHHHH
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKIGRRIGFFDESWKNGSLEDKTSDILRI  225 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~  225 (720)
                      ..+.+.|+|++|+|||+|++.+++.. .       ..|++..      .+...+...+                      
T Consensus        43 ~~~~l~l~G~~GsGKThLl~~~~~~~-~-------~~~i~~~------~~~~~~~~~~----------------------   86 (226)
T PRK09087         43 PSPVVVLAGPVGSGKTHLASIWREKS-D-------ALLIHPN------EIGSDAANAA----------------------   86 (226)
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHhc-C-------CEEecHH------HcchHHHHhh----------------------
Confidence            34679999999999999999988765 1       1243321      1111111111                      


Q ss_pred             hccCcEEEEEecccccc-ccccccccCC-CCCCCcEEEEEcCC---------hhHhhhhccCceeeccCCChhhHHHHHH
Q 038398          226 LGKKKFLLLLDDIWERV-DLTKVGIPFP-DPENKSKIVFTTHF---------LEICGALKAHEFLKVECLGPEDAWRLFR  294 (720)
Q Consensus       226 l~~k~~LlVlDdv~~~~-~~~~l~~~~~-~~~~gs~iiiTtR~---------~~v~~~~~~~~~~~l~~L~~~e~~~Lf~  294 (720)
                       .+  -+|++||+.... +-+.+...+. ....|..+|+|++.         +.....+.....+++++++.++-.+++.
T Consensus        87 -~~--~~l~iDDi~~~~~~~~~lf~l~n~~~~~g~~ilits~~~p~~~~~~~~dL~SRl~~gl~~~l~~pd~e~~~~iL~  163 (226)
T PRK09087         87 -AE--GPVLIEDIDAGGFDETGLFHLINSVRQAGTSLLMTSRLWPSSWNVKLPDLKSRLKAATVVEIGEPDDALLSQVIF  163 (226)
T ss_pred             -hc--CeEEEECCCCCCCCHHHHHHHHHHHHhCCCeEEEECCCChHHhccccccHHHHHhCCceeecCCCCHHHHHHHHH
Confidence             11  278889996421 1111211111 12346779998873         2233444556789999999999999999


Q ss_pred             HHhccCccCCCCChHHHHHHHHHHhCCcchHHHH
Q 038398          295 ENLRRDVLDNHPDIPELARSVAQECAGLPLALIT  328 (720)
Q Consensus       295 ~~~~~~~~~~~~~~~~~~~~i~~~c~GlPLai~~  328 (720)
                      +++......   --+++..-|++.+.|..-++..
T Consensus       164 ~~~~~~~~~---l~~ev~~~La~~~~r~~~~l~~  194 (226)
T PRK09087        164 KLFADRQLY---VDPHVVYYLVSRMERSLFAAQT  194 (226)
T ss_pred             HHHHHcCCC---CCHHHHHHHHHHhhhhHHHHHH
Confidence            988654322   2267788888888886665543

>PRK14959 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.40  E-value=1.1e-05  Score=88.68  Aligned_cols=197  Identities=15%  Similarity=0.150  Sum_probs=111.4

Q ss_pred             CCCcCchHHHHHHHHHhcCCC-ceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHHHHHhC
Q 038398          126 EPTVGLESTFDKVWRCLGEEQ-VGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKIGRRIG  204 (720)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~-~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i~~~l~  204 (720)
                      +++||.+..++.|.+++..+. ...+.++|+.|+||||+|+.+.+.... ....+.       ..++.-...+.+.....
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 AEVAGQETVKAILSRAAQENRVAPAYLFSGTRGVGKTTIARIFAKALNC-ETAPTG-------EPCNTCEQCRKVTQGMH   87 (624)
T ss_pred             HHhcCCHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHhccc-cCCCCC-------CCCcccHHHHHHhcCCC
Confidence            567999999999999887765 467888999999999999999887621 110000       01111111111111100


Q ss_pred             CCCCcc---CCCChhHHHHHHHHH-----hccCcEEEEEeccccc--cccccccccCCCCCCCcEEEEEcCC-hhHhhh-
Q 038398          205 FFDESW---KNGSLEDKTSDILRI-----LGKKKFLLLLDDIWER--VDLTKVGIPFPDPENKSKIVFTTHF-LEICGA-  272 (720)
Q Consensus       205 ~~~~~~---~~~~~~~~~~~l~~~-----l~~k~~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~iiiTtR~-~~v~~~-  272 (720)
                      ...-..   .....++ ++.+.+.     ..+++-++|+|+++..  .....+...+........+|++|.+ ..+... 
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   0011111 1122222     2345679999999753  3334443333322234555555544 333322 


Q ss_pred             hccCceeeccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCc-chHHHHHHHHHh
Q 038398          273 LKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGL-PLALITIGRAMA  334 (720)
Q Consensus       273 ~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~Gl-PLai~~~~~~l~  334 (720)
                      ......+++++++.++....+...+......   --.+.+..|++.++|. -.|+..+..++.
T Consensus       167 ~SRcq~i~F~pLs~~eL~~~L~~il~~egi~---id~eal~lIA~~s~GdlR~Al~lLeqll~  226 (624)
T PRK14959        167 VSRCQHFTFTRLSEAGLEAHLTKVLGREGVD---YDPAAVRLIARRAAGSVRDSMSLLGQVLA  226 (624)
T ss_pred             HhhhhccccCCCCHHHHHHHHHHHHHHcCCC---CCHHHHHHHHHHcCCCHHHHHHHHHHHHH
Confidence            2223578999999999999998876543311   2256788899999995 578888776553

>PRK07994 DNA polymerase III subunits gamma and tau; Validated

Probab=98.39  E-value=3.9e-06  Score=93.00  Aligned_cols=193  Identities=16%  Similarity=0.134  Sum_probs=108.7

Q ss_pred             CCCCcCchHHHHHHHHHhcCCCce-EEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHHHHHh
Q 038398          125 CEPTVGLESTFDKVWRCLGEEQVG-IIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKIGRRI  203 (720)
Q Consensus       125 ~~~~vGr~~~~~~l~~~L~~~~~~-vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i~~~l  203 (720)
                      ..++||.+..++.|...+..+... .+.++|+.|+||||+|+.+++..... ..+.       ...+......+.|...-
T Consensus        15 f~divGQe~vv~~L~~~l~~~rl~hAyLf~Gp~GvGKTTlAr~lAk~L~c~-~~~~-------~~pCg~C~~C~~i~~g~   86 (647)
T PRK07994         15 FAEVVGQEHVLTALANALDLGRLHHAYLFSGTRGVGKTTIARLLAKGLNCE-TGIT-------ATPCGECDNCREIEQGR   86 (647)
T ss_pred             HHHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhhhhc-cCCC-------CCCCCCCHHHHHHHcCC
Confidence            367899999999999999876654 46899999999999999998876211 0000       01111112222222110


Q ss_pred             CCCC---CccCCCChhHHHHHHHHH-----hccCcEEEEEeccccc--cccccccccCCCCCCCcEEEEEc-CChhHhh-
Q 038398          204 GFFD---ESWKNGSLEDKTSDILRI-----LGKKKFLLLLDDIWER--VDLTKVGIPFPDPENKSKIVFTT-HFLEICG-  271 (720)
Q Consensus       204 ~~~~---~~~~~~~~~~~~~~l~~~-----l~~k~~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~iiiTt-R~~~v~~-  271 (720)
                      ....   +.......++. +.+.+.     ..+++-++|+|+++..  .....+...+.......++|++| ....+.. 
T Consensus        87 ~~D~ieidaas~~~Vddi-R~li~~~~~~p~~g~~KV~IIDEah~Ls~~a~NALLKtLEEPp~~v~FIL~Tt~~~kLl~T  165 (647)
T PRK07994         87 FVDLIEIDAASRTKVEDT-RELLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLPVT  165 (647)
T ss_pred             CCCceeecccccCCHHHH-HHHHHHHHhhhhcCCCEEEEEechHhCCHHHHHHHHHHHHcCCCCeEEEEecCCccccchH
Confidence            0000   00000111221 122222     2356679999999753  33444433333333445555544 4444432 


Q ss_pred             hhccCceeeccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCcch-HHHHH
Q 038398          272 ALKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGLPL-ALITI  329 (720)
Q Consensus       272 ~~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~GlPL-ai~~~  329 (720)
                      ..+-...|++.+++.++....+.+.+.....   ..-.+....|++.++|.+- |+..+
T Consensus       166 I~SRC~~~~f~~Ls~~ei~~~L~~il~~e~i---~~e~~aL~~Ia~~s~Gs~R~Al~ll  221 (647)
T PRK07994        166 ILSRCLQFHLKALDVEQIRQQLEHILQAEQI---PFEPRALQLLARAADGSMRDALSLT  221 (647)
T ss_pred             HHhhheEeeCCCCCHHHHHHHHHHHHHHcCC---CCCHHHHHHHHHHcCCCHHHHHHHH
Confidence            2222468999999999999999887643221   1224567789999999765 44444

>PRK08903 DnaA regulatory inactivator Hda; Validated

Probab=98.39  E-value=4e-06  Score=82.66  Aligned_cols=171  Identities=12%  Similarity=0.053  Sum_probs=96.6

Q ss_pred             CCCc-CchHHH-HHHHHHhcC-CCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHHHHH
Q 038398          126 EPTV-GLESTF-DKVWRCLGE-EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKIGRR  202 (720)
Q Consensus       126 ~~~v-Gr~~~~-~~l~~~L~~-~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i~~~  202 (720)
                      ++|+ |..... ..+..+... .....+.|+|++|+|||+||+.+++...  ... ..+.+++.....      ..    
T Consensus        18 d~f~~~~~~~~~~~l~~~~~~~~~~~~~~l~G~~G~GKT~La~ai~~~~~--~~~-~~~~~i~~~~~~------~~----   84 (227)
T PRK08903         18 DNFVAGENAELVARLRELAAGPVADRFFYLWGEAGSGRSHLLQALVADAS--YGG-RNARYLDAASPL------LA----   84 (227)
T ss_pred             cccccCCcHHHHHHHHHHHhccCCCCeEEEECCCCCCHHHHHHHHHHHHH--hCC-CcEEEEehHHhH------HH----
Confidence            5565 554433 444444332 3446789999999999999999998752  111 234455433211      00    


Q ss_pred             hCCCCCccCCCChhHHHHHHHHHhccCcEEEEEeccccccc--cccccccCCC-CCCCc-EEEEEcCChhHhh-------
Q 038398          203 IGFFDESWKNGSLEDKTSDILRILGKKKFLLLLDDIWERVD--LTKVGIPFPD-PENKS-KIVFTTHFLEICG-------  271 (720)
Q Consensus       203 l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~--~~~l~~~~~~-~~~gs-~iiiTtR~~~v~~-------  271 (720)
                      +                    ... ...-++|+||++....  ...+...+.. ...+. .+|+|++......       
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 2234788999964322  1122222211 12233 4666666433211       


Q ss_pred             -hhccCceeeccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCcchHHHHHHHHH
Q 038398          272 -ALKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGLPLALITIGRAM  333 (720)
Q Consensus       272 -~~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~GlPLai~~~~~~l  333 (720)
                       .+.....++++++++++-..++.+.+....   ..--++....+++.+.|.+..+..+...+
T Consensus       144 sr~~~~~~i~l~pl~~~~~~~~l~~~~~~~~---v~l~~~al~~L~~~~~gn~~~l~~~l~~l  203 (227)
T PRK08903        144 TRLGWGLVYELKPLSDADKIAALKAAAAERG---LQLADEVPDYLLTHFRRDMPSLMALLDAL  203 (227)
T ss_pred             HHHhcCeEEEecCCCHHHHHHHHHHHHHHcC---CCCCHHHHHHHHHhccCCHHHHHHHHHHH
Confidence             222246789999999887777776543322   12235678888889999998877666544

>PRK08691 DNA polymerase III subunits gamma and tau; Validated

Probab=98.39  E-value=3.6e-06  Score=92.88  Aligned_cols=197  Identities=15%  Similarity=0.119  Sum_probs=106.6

Q ss_pred             CCCcCchHHHHHHHHHhcCCCc-eEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHHHHHhC
Q 038398          126 EPTVGLESTFDKVWRCLGEEQV-GIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKIGRRIG  204 (720)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i~~~l~  204 (720)
                      .++||.+..++.|..++..++. ..+.++|+.|+||||+|+.+.+.... .....   +.    .+......+.+...-.
T Consensus        16 ddIIGQe~vv~~L~~ai~~~rl~Ha~Lf~GP~GvGKTTlAriLAk~LnC-~~~~~---~~----pCg~C~sCr~i~~g~~   87 (709)
T PRK08691         16 ADLVGQEHVVKALQNALDEGRLHHAYLLTGTRGVGKTTIARILAKSLNC-ENAQH---GE----PCGVCQSCTQIDAGRY   87 (709)
T ss_pred             HHHcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCcHHHHHHHHHHHhcc-cCCCC---CC----CCcccHHHHHHhccCc
Confidence            5679999999999999987664 46899999999999999999886511 10000   00    0000000000000000


Q ss_pred             CC---CCccCCCChhHHHHHHHH----HhccCcEEEEEecccccc--ccccccccCCCCCCCcEEEEEcCCh-hHhhh-h
Q 038398          205 FF---DESWKNGSLEDKTSDILR----ILGKKKFLLLLDDIWERV--DLTKVGIPFPDPENKSKIVFTTHFL-EICGA-L  273 (720)
Q Consensus       205 ~~---~~~~~~~~~~~~~~~l~~----~l~~k~~LlVlDdv~~~~--~~~~l~~~~~~~~~gs~iiiTtR~~-~v~~~-~  273 (720)
                      ..   .+.......+...+.+..    -..+++-++|+|+++...  ....+...+......+++|++|.+. .+... .
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   000001111111111110    012456789999997532  2223322232223455666666433 22211 1


Q ss_pred             ccCceeeccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCcch-HHHHHHHHH
Q 038398          274 KAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGLPL-ALITIGRAM  333 (720)
Q Consensus       274 ~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~GlPL-ai~~~~~~l  333 (720)
                      +....+.+.+++.++....+.+.+......   --.+....|++.++|.+. ++..+-.++
T Consensus       168 SRC~~f~f~~Ls~eeI~~~L~~Il~kEgi~---id~eAL~~Ia~~A~GslRdAlnLLDqai  225 (709)
T PRK08691        168 SRCLQFVLRNMTAQQVADHLAHVLDSEKIA---YEPPALQLLGRAAAGSMRDALSLLDQAI  225 (709)
T ss_pred             HHHhhhhcCCCCHHHHHHHHHHHHHHcCCC---cCHHHHHHHHHHhCCCHHHHHHHHHHHH
Confidence            222467889999999999998887654311   225667889999999774 445444443

>PRK05896 DNA polymerase III subunits gamma and tau; Validated

Probab=98.38  E-value=6.4e-06  Score=89.98  Aligned_cols=196  Identities=12%  Similarity=0.094  Sum_probs=108.3

Q ss_pred             CCCCcCchHHHHHHHHHhcCCCc-eEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHHHHHh
Q 038398          125 CEPTVGLESTFDKVWRCLGEEQV-GIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKIGRRI  203 (720)
Q Consensus       125 ~~~~vGr~~~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i~~~l  203 (720)
                      ..+++|++..++.+.+++..+.. +.+.++|+.|+||||+|+.+++.... ..      |... ..++.....+.+....
T Consensus        15 F~dIIGQe~iv~~L~~aI~~~rl~hA~Lf~GP~GvGKTTlA~~lAk~L~C-~~------~~~~-~~Cg~C~sCr~i~~~~   86 (605)
T PRK05896         15 FKQIIGQELIKKILVNAILNNKLTHAYIFSGPRGIGKTSIAKIFAKAINC-LN------PKDG-DCCNSCSVCESINTNQ   86 (605)
T ss_pred             HHHhcCcHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHHhcC-CC------CCCC-CCCcccHHHHHHHcCC
Confidence            35789999999999999976554 56889999999999999999887621 11      1100 0111111112221111


Q ss_pred             CCCCCcc---CCCChhHHHHHHHHH-----hccCcEEEEEeccccc--cccccccccCCCCCCCcEEEEEc-CChhHhh-
Q 038398          204 GFFDESW---KNGSLEDKTSDILRI-----LGKKKFLLLLDDIWER--VDLTKVGIPFPDPENKSKIVFTT-HFLEICG-  271 (720)
Q Consensus       204 ~~~~~~~---~~~~~~~~~~~l~~~-----l~~k~~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~iiiTt-R~~~v~~-  271 (720)
                      ....-..   .....++. +.+.+.     ..+++-++|+|+++..  ..+..+...+......+.+|++| ....+.. 
T Consensus        87 h~DiieIdaas~igVd~I-ReIi~~~~~~P~~~~~KVIIIDEad~Lt~~A~NaLLKtLEEPp~~tvfIL~Tt~~~KLl~T  165 (605)
T PRK05896         87 SVDIVELDAASNNGVDEI-RNIIDNINYLPTTFKYKVYIIDEAHMLSTSAWNALLKTLEEPPKHVVFIFATTEFQKIPLT  165 (605)
T ss_pred             CCceEEeccccccCHHHH-HHHHHHHHhchhhCCcEEEEEechHhCCHHHHHHHHHHHHhCCCcEEEEEECCChHhhhHH
Confidence            1000000   00111111 111111     1123447999998753  33344433333233345555555 4333322 


Q ss_pred             hhccCceeeccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCcc-hHHHHHHHH
Q 038398          272 ALKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGLP-LALITIGRA  332 (720)
Q Consensus       272 ~~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~GlP-Lai~~~~~~  332 (720)
                      .......+++.++++++....+...+......   --.+.+..+++.++|.+ .|+..+-.+
T Consensus       166 I~SRcq~ieF~~Ls~~eL~~~L~~il~kegi~---Is~eal~~La~lS~GdlR~AlnlLekL  224 (605)
T PRK05896        166 IISRCQRYNFKKLNNSELQELLKSIAKKEKIK---IEDNAIDKIADLADGSLRDGLSILDQL  224 (605)
T ss_pred             HHhhhhhcccCCCCHHHHHHHHHHHHHHcCCC---CCHHHHHHHHHHcCCcHHHHHHHHHHH
Confidence            22234578999999999999998877543211   12456788999999955 566665554

>PRK09112 DNA polymerase III subunit delta'; Validated

Probab=98.38  E-value=4.9e-06  Score=86.53  Aligned_cols=200  Identities=11%  Similarity=0.077  Sum_probs=112.1

Q ss_pred             CCCCCCCcCchHHHHHHHHHhcCCCc-eEEEEEcCCCChHHHHHHHHHhhhcCCC-CCcCEEEEEEecCcCCHHHHHHHH
Q 038398          122 QRPCEPTVGLESTFDKVWRCLGEEQV-GIIGLYGMGGVGKTTLLTKINNKLLGAP-NVFDVVIWVVVSKDLQLEKIQEKI  199 (720)
Q Consensus       122 ~~~~~~~vGr~~~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~~~~~-~~f~~~~wv~v~~~~~~~~~~~~i  199 (720)
                      |+....++|.++..+.+...+..+.. ..+.|+|+.|+||||+|+.+........ ..+....   ....+......+.+
T Consensus        19 P~~~~~l~Gh~~a~~~L~~a~~~grl~ha~L~~G~~G~GKttlA~~lA~~Llc~~~~~~~~~~---~~~~~~~c~~c~~i   95 (351)
T PRK09112         19 PSENTRLFGHEEAEAFLAQAYREGKLHHALLFEGPEGIGKATLAFHLANHILSHPDPAEAPET---LADPDPASPVWRQI   95 (351)
T ss_pred             CCchhhccCcHHHHHHHHHHHHcCCCCeeEeeECCCCCCHHHHHHHHHHHHcCCCccccCccc---cCCCCCCCHHHHHH
Confidence            33446789999999999999987654 4688999999999999999988873210 0011110   01111111223333


Q ss_pred             HHHhC-------CCCCc-----cCCCChhHHHHHHHHHhc-----cCcEEEEEeccccc--cccccccccCCCCCCCcE-
Q 038398          200 GRRIG-------FFDES-----WKNGSLEDKTSDILRILG-----KKKFLLLLDDIWER--VDLTKVGIPFPDPENKSK-  259 (720)
Q Consensus       200 ~~~l~-------~~~~~-----~~~~~~~~~~~~l~~~l~-----~k~~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~-  259 (720)
                      ...-.       .+.+.     ......++ +..+.+++.     +++-++|+|+++..  .....+...+.....+.. 
T Consensus        96 ~~~~hPdl~~l~~~~~~~~~~~~~~I~vd~-iR~l~~~l~~~~~~g~~rVviIDeAd~l~~~aanaLLk~LEEpp~~~~f  174 (351)
T PRK09112         96 AQGAHPNLLHITRPFDEKTGKFKTAITVDE-IRRVGHFLSQTSGDGNWRIVIIDPADDMNRNAANAILKTLEEPPARALF  174 (351)
T ss_pred             HcCCCCCEEEeecccccccccccccCCHHH-HHHHHHHhhhccccCCceEEEEEchhhcCHHHHHHHHHHHhcCCCCceE
Confidence            22211       00000     01112233 334444443     46679999999753  222333222222223444 


Q ss_pred             EEEEcCChhHhhh-hccCceeeccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCcchHHHHHH
Q 038398          260 IVFTTHFLEICGA-LKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGLPLALITIG  330 (720)
Q Consensus       260 iiiTtR~~~v~~~-~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~GlPLai~~~~  330 (720)
                      |++|++...+... .+....+++.+++.++..+++......    .. .-.+....+++.++|.|.....+.
T Consensus       175 iLit~~~~~llptIrSRc~~i~l~pl~~~~~~~~L~~~~~~----~~-~~~~~~~~i~~~s~G~pr~Al~ll  241 (351)
T PRK09112        175 ILISHSSGRLLPTIRSRCQPISLKPLDDDELKKALSHLGSS----QG-SDGEITEALLQRSKGSVRKALLLL  241 (351)
T ss_pred             EEEECChhhccHHHHhhccEEEecCCCHHHHHHHHHHhhcc----cC-CCHHHHHHHHHHcCCCHHHHHHHH
Confidence            4455444333211 122358999999999999999874321    11 224557889999999998665443

>COG2255 RuvB Holliday junction resolvasome, helicase subunit [DNA replication, recombination, and repair]

Probab=98.38  E-value=2.2e-05  Score=75.73  Aligned_cols=174  Identities=21%  Similarity=0.243  Sum_probs=99.9

Q ss_pred             CCCCCcCchHHHHHHHHHhc-----CCCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHH
Q 038398          124 PCEPTVGLESTFDKVWRCLG-----EEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEK  198 (720)
Q Consensus       124 ~~~~~vGr~~~~~~l~~~L~-----~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~  198 (720)
                      ...+|||.++.++++.=++.     ++..-.|.++|++|.||||||..+++.. .+  .+.    +  .+.+-+.     
T Consensus        24 ~l~efiGQ~~vk~~L~ifI~AAk~r~e~lDHvLl~GPPGlGKTTLA~IIA~Em-gv--n~k----~--tsGp~le-----   89 (332)
T COG2255          24 TLDEFIGQEKVKEQLQIFIKAAKKRGEALDHVLLFGPPGLGKTTLAHIIANEL-GV--NLK----I--TSGPALE-----   89 (332)
T ss_pred             cHHHhcChHHHHHHHHHHHHHHHhcCCCcCeEEeeCCCCCcHHHHHHHHHHHh-cC--CeE----e--ccccccc-----
Confidence            34678999999988866653     2457789999999999999999999988 22  111    1  1111000     


Q ss_pred             HHHHhCCCCCccCCCChhHHHHHHHHHhccCcEEEEEecccccc---------cccccccc-CCCCCCCcE---------
Q 038398          199 IGRRIGFFDESWKNGSLEDKTSDILRILGKKKFLLLLDDIWERV---------DLTKVGIP-FPDPENKSK---------  259 (720)
Q Consensus       199 i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~---------~~~~l~~~-~~~~~~gs~---------  259 (720)
                                     ...+++. +...|+... ++.+|++....         ..+.+... .-..++++|         
T Consensus        90 ---------------K~gDlaa-iLt~Le~~D-VLFIDEIHrl~~~vEE~LYpaMEDf~lDI~IG~gp~Arsv~ldLppF  152 (332)
T COG2255          90 ---------------KPGDLAA-ILTNLEEGD-VLFIDEIHRLSPAVEEVLYPAMEDFRLDIIIGKGPAARSIRLDLPPF  152 (332)
T ss_pred             ---------------ChhhHHH-HHhcCCcCC-eEEEehhhhcChhHHHHhhhhhhheeEEEEEccCCccceEeccCCCe
Confidence                           0111111 111122222 45557765321         01111000 011223333         


Q ss_pred             --EEEEcCChhHhhhhc--cCceeeccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCcchHHHHHHH
Q 038398          260 --IVFTTHFLEICGALK--AHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGLPLALITIGR  331 (720)
Q Consensus       260 --iiiTtR~~~v~~~~~--~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~GlPLai~~~~~  331 (720)
                        |=.|||.-.+.....  -.-+.+++..+.+|-.+...+.+..-....   -++-+.+|+++..|-|--..-+-+
T Consensus       153 TLIGATTr~G~lt~PLrdRFGi~~rlefY~~~eL~~Iv~r~a~~l~i~i---~~~~a~eIA~rSRGTPRIAnRLLr  225 (332)
T COG2255         153 TLIGATTRAGMLTNPLRDRFGIIQRLEFYTVEELEEIVKRSAKILGIEI---DEEAALEIARRSRGTPRIANRLLR  225 (332)
T ss_pred             eEeeeccccccccchhHHhcCCeeeeecCCHHHHHHHHHHHHHHhCCCC---ChHHHHHHHHhccCCcHHHHHHHH
Confidence              335888654433221  224678999999999999998875433222   256789999999999975554443

>PRK14951 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.37  E-value=7.2e-06  Score=90.77  Aligned_cols=197  Identities=15%  Similarity=0.140  Sum_probs=107.7

Q ss_pred             CCCCcCchHHHHHHHHHhcCCCc-eEEEEEcCCCChHHHHHHHHHhhhcCCC-CCcCEEEEEEecCcCCHHHHHHHHHHH
Q 038398          125 CEPTVGLESTFDKVWRCLGEEQV-GIIGLYGMGGVGKTTLLTKINNKLLGAP-NVFDVVIWVVVSKDLQLEKIQEKIGRR  202 (720)
Q Consensus       125 ~~~~vGr~~~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~~~~~-~~f~~~~wv~v~~~~~~~~~~~~i~~~  202 (720)
                      .+++||.+..++.|.+++..+.. ..+.++|+.|+||||+|+.+.+...... ........    ..++.....+.|...
T Consensus        15 f~dviGQe~vv~~L~~~l~~~rl~ha~Lf~Gp~GvGKTtlAr~lAk~LnC~~~~~~~~~~~----~pCg~C~~C~~i~~g   90 (618)
T PRK14951         15 FSEMVGQEHVVQALTNALTQQRLHHAYLFTGTRGVGKTTVSRILAKSLNCQGPDGQGGITA----TPCGVCQACRDIDSG   90 (618)
T ss_pred             HHHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcCCCcccccCCCC----CCCCccHHHHHHHcC
Confidence            36789999999999999987665 5678999999999999999977652100 00000000    011111112222110


Q ss_pred             hCCCCCcc---CCCChhHHHHHHHHHh-----ccCcEEEEEeccccc--cccccccccCCCCCCCcEEEEEc-CChhHh-
Q 038398          203 IGFFDESW---KNGSLEDKTSDILRIL-----GKKKFLLLLDDIWER--VDLTKVGIPFPDPENKSKIVFTT-HFLEIC-  270 (720)
Q Consensus       203 l~~~~~~~---~~~~~~~~~~~l~~~l-----~~k~~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~iiiTt-R~~~v~-  270 (720)
                      -....-..   .....++.. .+.+..     .++.-++|||+++..  ..+..+...+.......++|++| ....+. 
T Consensus        91 ~h~D~~eldaas~~~Vd~iR-eli~~~~~~p~~g~~KV~IIDEvh~Ls~~a~NaLLKtLEEPP~~~~fIL~Ttd~~kil~  169 (618)
T PRK14951         91 RFVDYTELDAASNRGVDEVQ-QLLEQAVYKPVQGRFKVFMIDEVHMLTNTAFNAMLKTLEEPPEYLKFVLATTDPQKVPV  169 (618)
T ss_pred             CCCceeecCcccccCHHHHH-HHHHHHHhCcccCCceEEEEEChhhCCHHHHHHHHHhcccCCCCeEEEEEECCchhhhH
Confidence            00000000   011111211 111211     234558999999853  33444433333333455565554 433332 


Q ss_pred             hhhccCceeeccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCcch-HHHHH
Q 038398          271 GALKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGLPL-ALITI  329 (720)
Q Consensus       271 ~~~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~GlPL-ai~~~  329 (720)
                      ........+++++++.++..+.+.+.+......   .-.+....|++.++|.+- ++..+
T Consensus       170 TIlSRc~~~~f~~Ls~eei~~~L~~i~~~egi~---ie~~AL~~La~~s~GslR~al~lL  226 (618)
T PRK14951        170 TVLSRCLQFNLRPMAPETVLEHLTQVLAAENVP---AEPQALRLLARAARGSMRDALSLT  226 (618)
T ss_pred             HHHHhceeeecCCCCHHHHHHHHHHHHHHcCCC---CCHHHHHHHHHHcCCCHHHHHHHH
Confidence            222334689999999999999998877544311   124567888999998664 44433

>PRK14955 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.36  E-value=5.6e-06  Score=88.47  Aligned_cols=202  Identities=12%  Similarity=0.108  Sum_probs=110.7

Q ss_pred             CCCCcCchHHHHHHHHHhcCCCce-EEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEE-ecCcCCHHHHHHHHHHH
Q 038398          125 CEPTVGLESTFDKVWRCLGEEQVG-IIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVV-VSKDLQLEKIQEKIGRR  202 (720)
Q Consensus       125 ~~~~vGr~~~~~~l~~~L~~~~~~-vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~-v~~~~~~~~~~~~i~~~  202 (720)
                      .++++|.+..++.+.+++..+.++ .+.++|+.|+||||+|+.+++.... ....+...|.. +...++.-...+.+...
T Consensus        15 ~~eiiGq~~~~~~L~~~~~~~~~~ha~lf~Gp~G~GKtt~A~~~a~~l~c-~~~~~~~~~~~~~~~~c~~c~~c~~~~~~   93 (397)
T PRK14955         15 FADITAQEHITRTIQNSLRMGRVGHGYIFSGLRGVGKTTAARVFAKAVNC-QRMIDDADYLQEVTEPCGECESCRDFDAG   93 (397)
T ss_pred             HhhccChHHHHHHHHHHHHhCCcceeEEEECCCCCCHHHHHHHHHHHhcC-CCCcCcccccccCCCCCCCCHHHHHHhcC
Confidence            367899999999999999876654 5889999999999999999887621 11111111110 00111111111111111


Q ss_pred             hCCCCCcc---CCCChhHHHHHHHHHh-----ccCcEEEEEeccccc--cccccccccCCCCCCCcEEEEEc-CChhHhh
Q 038398          203 IGFFDESW---KNGSLEDKTSDILRIL-----GKKKFLLLLDDIWER--VDLTKVGIPFPDPENKSKIVFTT-HFLEICG  271 (720)
Q Consensus       203 l~~~~~~~---~~~~~~~~~~~l~~~l-----~~k~~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~iiiTt-R~~~v~~  271 (720)
                      .......+   .....++.. .+.+.+     .+.+-++|+|+++..  ..+..+...+......+.+|++| +...+..
T Consensus        94 ~~~n~~~~~~~~~~~id~Ir-~l~~~~~~~p~~~~~kvvIIdea~~l~~~~~~~LLk~LEep~~~t~~Il~t~~~~kl~~  172 (397)
T PRK14955         94 TSLNISEFDAASNNSVDDIR-LLRENVRYGPQKGRYRVYIIDEVHMLSIAAFNAFLKTLEEPPPHAIFIFATTELHKIPA  172 (397)
T ss_pred             CCCCeEeecccccCCHHHHH-HHHHHHhhchhcCCeEEEEEeChhhCCHHHHHHHHHHHhcCCCCeEEEEEeCChHHhHH
Confidence            10000000   001112222 222333     245568899998753  34444444443334456665555 4333432


Q ss_pred             h-hccCceeeccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCcch-HHHHHHH
Q 038398          272 A-LKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGLPL-ALITIGR  331 (720)
Q Consensus       272 ~-~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~GlPL-ai~~~~~  331 (720)
                      . ......+++.++++++....+...+....   ..--.+.+..|++.++|.+- ++..+-.
T Consensus       173 tl~sR~~~v~f~~l~~~ei~~~l~~~~~~~g---~~i~~~al~~l~~~s~g~lr~a~~~L~k  231 (397)
T PRK14955        173 TIASRCQRFNFKRIPLEEIQQQLQGICEAEG---ISVDADALQLIGRKAQGSMRDAQSILDQ  231 (397)
T ss_pred             HHHHHHHHhhcCCCCHHHHHHHHHHHHHHcC---CCCCHHHHHHHHHHcCCCHHHHHHHHHH
Confidence            2 12235788999999999988888764322   11225678899999999764 4444443

>TIGR01242 26Sp45 26S proteasome subunit P45 family

Probab=98.36  E-value=2.2e-06  Score=90.81  Aligned_cols=170  Identities=21%  Similarity=0.279  Sum_probs=98.4

Q ss_pred             CCCcCchHHHHHHHHHhcC-------------CCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCH
Q 038398          126 EPTVGLESTFDKVWRCLGE-------------EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQL  192 (720)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~-------------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~  192 (720)
                      +++.|+++.+++|.+.+..             ...+.|.++|++|+|||++|+++++..   ...|     +.+..    
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            4568999999999887631             124568999999999999999999987   3333     22211    


Q ss_pred             HHHHHHHHHHhCCCCCccCCCChhHHHHHHHHHh-ccCcEEEEEecccccc----------------ccccccccCC--C
Q 038398          193 EKIQEKIGRRIGFFDESWKNGSLEDKTSDILRIL-GKKKFLLLLDDIWERV----------------DLTKVGIPFP--D  253 (720)
Q Consensus       193 ~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l-~~k~~LlVlDdv~~~~----------------~~~~l~~~~~--~  253 (720)
                      ..+....   .+         ........+.+.. ...+.+|+|||++...                .+..+...+.  .
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            1111110   00         1111222222222 2467899999987531                0111111111  1


Q ss_pred             CCCCcEEEEEcCChhHh-----hhhccCceeeccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCcc
Q 038398          254 PENKSKIVFTTHFLEIC-----GALKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGLP  323 (720)
Q Consensus       254 ~~~gs~iiiTtR~~~v~-----~~~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~GlP  323 (720)
                      ...+.+||.||......     ........+.++..+.++..++|..++..........    ...+++.+.|..
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            12456788888754321     1112245789999999999999998875543222222    456777787754

Many proteins may score above the trusted cutoff because an internal

>KOG1859 consensus Leucine-rich repeat proteins [General function prediction only]

Probab=98.36  E-value=3e-08  Score=105.95  Aligned_cols=186  Identities=23%  Similarity=0.274  Sum_probs=112.2

Q ss_pred             cCCCCccCcccccccceeEEEecccccccCCCCCCC-CcccEEEccCCCCcCcchH---H---hc---cCCcccEEEccC
Q 038398          480 AGLGLTEAPEIQNWRNVRRMSLMKNKIENLSETPTC-PHLLSLFLSDNSLKMSTDD---F---FQ---SMPSLRVFNMSN  549 (720)
Q Consensus       480 ~~~~~~~~~~~~~~~~l~~L~l~~~~~~~~~~~~~~-~~L~~L~l~~~~~~~~~~~---~---~~---~l~~L~~L~L~~  549 (720)
                      ++.+..++-++..++.||+|.+.++.+.....+..+ ..|+.|...+. ++.+..-   -   +.   ....|.+.+.++
T Consensus        95 pa~~pt~pi~ifpF~sLr~LElrg~~L~~~~GL~~lr~qLe~LIC~~S-l~Al~~v~ascggd~~ns~~Wn~L~~a~fsy  173 (1096)
T KOG1859|consen   95 PARDPTEPISIFPFRSLRVLELRGCDLSTAKGLQELRHQLEKLICHNS-LDALRHVFASCGGDISNSPVWNKLATASFSY  173 (1096)
T ss_pred             CCCCCCCCceeccccceeeEEecCcchhhhhhhHHHHHhhhhhhhhcc-HHHHHHHHHHhccccccchhhhhHhhhhcch
Confidence            333444455778889999999999988654333222 13444433321 1111000   0   00   123567777777


Q ss_pred             CCCCccCCccccCCCCCCEEeccCCCCcccchhhhcCCCCCEEeccCCcCCCCCchhhhhccccCceeeccccCCCcccc
Q 038398          550 NHLLWKLPSGISTLVSLEHLDLSSTAITHLPIELQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFDCGGSKIER  629 (720)
Q Consensus       550 ~~~~~~lp~~i~~l~~L~~L~L~~~~i~~lp~~i~~l~~L~~L~l~~~~~l~~lp~~~~~~l~~L~~L~~~~~~~~~l~~  629 (720)
                      |.+ ..+-.++.-+++|+.|||++|+++... .+..|++|+||||++ |.+..+|.-....+. |+.|.+.   +|.++ 
T Consensus       174 N~L-~~mD~SLqll~ale~LnLshNk~~~v~-~Lr~l~~LkhLDlsy-N~L~~vp~l~~~gc~-L~~L~lr---nN~l~-  245 (1096)
T KOG1859|consen  174 NRL-VLMDESLQLLPALESLNLSHNKFTKVD-NLRRLPKLKHLDLSY-NCLRHVPQLSMVGCK-LQLLNLR---NNALT-  245 (1096)
T ss_pred             hhH-HhHHHHHHHHHHhhhhccchhhhhhhH-HHHhccccccccccc-chhccccccchhhhh-heeeeec---ccHHH-
Confidence            743 355566777788888888888887775 577788888888887 567777763333333 4444443   34332 


Q ss_pred             hhcccccCCccccHHHhcCCCCCceeEEEecchhhHHHHhhhhhhhhhcccccccccc
Q 038398          630 LKINVLFGGHQFLVEELMGMKHLMVLTITLKSWQALKELLISQELQRSTQSLFLRCFN  687 (720)
Q Consensus       630 l~~~~~~~~~~~~~~~l~~l~~L~~L~~~~~~~~~l~~l~~~~~~~~~L~~L~l~~~~  687 (720)
                                  .+.++.++.+|+.|+++.|-+....++...... ..|+.|+|.+++
T Consensus       246 ------------tL~gie~LksL~~LDlsyNll~~hseL~pLwsL-s~L~~L~LeGNP  290 (1096)
T KOG1859|consen  246 ------------TLRGIENLKSLYGLDLSYNLLSEHSELEPLWSL-SSLIVLWLEGNP  290 (1096)
T ss_pred             ------------hhhhHHhhhhhhccchhHhhhhcchhhhHHHHH-HHHHHHhhcCCc
Confidence                        244567777788888887777666665544433 377778887754

>PRK07940 DNA polymerase III subunit delta'; Validated

Probab=98.34  E-value=1.4e-05  Score=84.30  Aligned_cols=186  Identities=9%  Similarity=0.017  Sum_probs=102.0

Q ss_pred             CCCcCchHHHHHHHHHhcCCC----------ceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHH
Q 038398          126 EPTVGLESTFDKVWRCLGEEQ----------VGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKI  195 (720)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~----------~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~  195 (720)
                      ++++|.+..++.+.+++..+.          ...+.++|++|+||||+|+.+..........     +    ..++.-..
T Consensus         5 ~~IiGq~~~~~~L~~~i~~~~~~~~~~~~~l~ha~Lf~Gp~G~GKt~lA~~lA~~l~c~~~~-----~----~~Cg~C~~   75 (394)
T PRK07940          5 DDLVGQEAVVAELRAAARAARADVAAAGSGMTHAWLFTGPPGSGRSVAARAFAAALQCTDPD-----E----PGCGECRA   75 (394)
T ss_pred             hhccChHHHHHHHHHHHHhccccccccCCCCCeEEEEECCCCCcHHHHHHHHHHHhCCCCCC-----C----CCCCCCHH
Confidence            567999999999999997643          4568899999999999999998765110000     0    00000011


Q ss_pred             HHHHHHHhCCC----CCccCCCChhHHHHHHHHHh-----ccCcEEEEEeccccc--cccccccccCCCCCCCcEEEEEc
Q 038398          196 QEKIGRRIGFF----DESWKNGSLEDKTSDILRIL-----GKKKFLLLLDDIWER--VDLTKVGIPFPDPENKSKIVFTT  264 (720)
Q Consensus       196 ~~~i~~~l~~~----~~~~~~~~~~~~~~~l~~~l-----~~k~~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~iiiTt  264 (720)
                      -+.+...-...    .+.......++ ++.+.+.+     .+++-++|+|+++..  .....+...+.....+..+|++|
T Consensus        76 C~~~~~~~hpD~~~i~~~~~~i~i~~-iR~l~~~~~~~p~~~~~kViiIDead~m~~~aanaLLk~LEep~~~~~fIL~a  154 (394)
T PRK07940         76 CRTVLAGTHPDVRVVAPEGLSIGVDE-VRELVTIAARRPSTGRWRIVVIEDADRLTERAANALLKAVEEPPPRTVWLLCA  154 (394)
T ss_pred             HHHHhcCCCCCEEEeccccccCCHHH-HHHHHHHHHhCcccCCcEEEEEechhhcCHHHHHHHHHHhhcCCCCCeEEEEE
Confidence            11111000000    00000111111 11222222     234558888999753  22233333333333456666666


Q ss_pred             CCh-hHhhh-hccCceeeccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCcchHHHHH
Q 038398          265 HFL-EICGA-LKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGLPLALITI  329 (720)
Q Consensus       265 R~~-~v~~~-~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~GlPLai~~~  329 (720)
                      .+. .+... .+-...+.+.+++.++..+.+....+     .   ..+.+..+++.++|.|.....+
T Consensus       155 ~~~~~llpTIrSRc~~i~f~~~~~~~i~~~L~~~~~-----~---~~~~a~~la~~s~G~~~~A~~l  213 (394)
T PRK07940        155 PSPEDVLPTIRSRCRHVALRTPSVEAVAEVLVRRDG-----V---DPETARRAARASQGHIGRARRL  213 (394)
T ss_pred             CChHHChHHHHhhCeEEECCCCCHHHHHHHHHHhcC-----C---CHHHHHHHHHHcCCCHHHHHHH
Confidence            553 33322 22336889999999999988875421     1   1455788999999998755433

>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=98.34  E-value=4.7e-07  Score=68.40  Aligned_cols=58  Identities=38%  Similarity=0.557  Sum_probs=47.5

Q ss_pred             CcccEEEccCCCCCccCCccccCCCCCCEEeccCCCCcccch-hhhcCCCCCEEeccCC
Q 038398          540 PSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSSTAITHLPI-ELQKLVNLKCLNLEYM  597 (720)
Q Consensus       540 ~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~~~i~~lp~-~i~~l~~L~~L~l~~~  597 (720)
                      ++|++|++++|++...-+..|.++++|++|++++|.++.+|+ .|.++++|++|++++|
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 PNLESLDLSNNKLTEIPPDSFSNLPNLETLDLSNNNLTSIPPDAFSNLPNLRYLDLSNN   59 (61)
T ss_dssp             TTESEEEETSSTESEECTTTTTTGTTESEEEETSSSESEEETTTTTTSTTESEEEETSS
T ss_pred             CcCcEEECCCCCCCccCHHHHcCCCCCCEeEccCCccCccCHHHHcCCCCCCEEeCcCC
Confidence            578899999995554444678889999999999999998865 5889999999999885

...

>PRK09376 rho transcription termination factor Rho; Provisional

Probab=98.33  E-value=1.5e-06  Score=89.03  Aligned_cols=100  Identities=17%  Similarity=0.187  Sum_probs=65.9

Q ss_pred             HHHHHhcC-CCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcC--CHHHHHHHHHHHhCCCCCccCCC
Q 038398          137 KVWRCLGE-EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDL--QLEKIQEKIGRRIGFFDESWKNG  213 (720)
Q Consensus       137 ~l~~~L~~-~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~--~~~~~~~~i~~~l~~~~~~~~~~  213 (720)
                      ++++++.. +.-...+|+|++|+||||||+.+++.. . ..+|+.++||.+.+..  ++.++++.+...+-...  +...
T Consensus       158 rvID~l~PIGkGQR~lIvgppGvGKTTLaK~Ian~I-~-~nhFDv~~~VvLIgER~~EVtdiqrsIlg~vv~st--~d~~  233 (416)
T PRK09376        158 RIIDLIAPIGKGQRGLIVAPPKAGKTVLLQNIANSI-T-TNHPEVHLIVLLIDERPEEVTDMQRSVKGEVVAST--FDEP  233 (416)
T ss_pred             eeeeeecccccCceEEEeCCCCCChhHHHHHHHHHH-H-hhcCCeEEEEEEeCCchhHHHHHHHHhcCcEEEEC--CCCC
Confidence            34454433 334678999999999999999999998 3 3489999999999887  77888888863221111  1111


Q ss_pred             ChhH------HHHHHHHH-hccCcEEEEEecccc
Q 038398          214 SLED------KTSDILRI-LGKKKFLLLLDDIWE  240 (720)
Q Consensus       214 ~~~~------~~~~l~~~-l~~k~~LlVlDdv~~  240 (720)
                      ....      ..+....+ -.+++++|++|++..
T Consensus       234 ~~~~~~~a~~~ie~Ae~~~e~G~dVlL~iDsItR  267 (416)
T PRK09376        234 AERHVQVAEMVIEKAKRLVEHGKDVVILLDSITR  267 (416)
T ss_pred             HHHHHHHHHHHHHHHHHHHHcCCCEEEEEEChHH
Confidence            1111      11111111 257999999999854

>PRK14970 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.32  E-value=1.5e-05  Score=84.74  Aligned_cols=185  Identities=14%  Similarity=0.158  Sum_probs=105.7

Q ss_pred             CCCcCchHHHHHHHHHhcCCCc-eEEEEEcCCCChHHHHHHHHHhhhcCC-----CCCcCEE-EEEEecCcCCHHHHHHH
Q 038398          126 EPTVGLESTFDKVWRCLGEEQV-GIIGLYGMGGVGKTTLLTKINNKLLGA-----PNVFDVV-IWVVVSKDLQLEKIQEK  198 (720)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~~~~-----~~~f~~~-~wv~v~~~~~~~~~~~~  198 (720)
                      .+++|.+..++.+..++..+.. +.+.++|++|+||||+|+.+.+.....     ...|... +-+......+...+ +.
T Consensus        17 ~~iig~~~~~~~l~~~i~~~~~~~~~L~~G~~G~GKt~~a~~la~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~i-~~   95 (367)
T PRK14970         17 DDVVGQSHITNTLLNAIENNHLAQALLFCGPRGVGKTTCARILARKINQPGYDDPNEDFSFNIFELDAASNNSVDDI-RN   95 (367)
T ss_pred             HhcCCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCcceEEeccccCCCHHHH-HH
Confidence            5689999999999999977654 578899999999999999998775210     1112211 11111111111111 11


Q ss_pred             HHHHhCCCCCccCCCChhHHHHHHHHHhccCcEEEEEecccccc--ccccccccCCCCCCCcEEEEEc-CChhHhh-hhc
Q 038398          199 IGRRIGFFDESWKNGSLEDKTSDILRILGKKKFLLLLDDIWERV--DLTKVGIPFPDPENKSKIVFTT-HFLEICG-ALK  274 (720)
Q Consensus       199 i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~--~~~~l~~~~~~~~~gs~iiiTt-R~~~v~~-~~~  274 (720)
                      +...+...                  -..+++-++++|+++...  .+..+...+......+.+|++| ....+.. ...
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            12211100                  012345589999986432  2333322232223345555555 3333321 122


Q ss_pred             cCceeeccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCcch-HHHHHHHH
Q 038398          275 AHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGLPL-ALITIGRA  332 (720)
Q Consensus       275 ~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~GlPL-ai~~~~~~  332 (720)
                      ....++++++++++....+...+......   --.+.+..+++.++|.+- ++..+-.+
T Consensus       158 r~~~v~~~~~~~~~l~~~l~~~~~~~g~~---i~~~al~~l~~~~~gdlr~~~~~lekl  213 (367)
T PRK14970        158 RCQIFDFKRITIKDIKEHLAGIAVKEGIK---FEDDALHIIAQKADGALRDALSIFDRV  213 (367)
T ss_pred             cceeEecCCccHHHHHHHHHHHHHHcCCC---CCHHHHHHHHHhCCCCHHHHHHHHHHH
Confidence            33578999999999999998877543311   125678888889998554 44444443

>PRK05642 DNA replication initiation factor; Validated

Probab=98.30  E-value=1.2e-05  Score=79.33  Aligned_cols=147  Identities=18%  Similarity=0.220  Sum_probs=87.9

Q ss_pred             eEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHHHHHhCCCCCccCCCChhHHHHHHHHHhc
Q 038398          148 GIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKIGRRIGFFDESWKNGSLEDKTSDILRILG  227 (720)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~  227 (720)
                      ..+.|+|+.|+|||.|++.+++...   ..-..++|++...      +...                    ...+.+.+.
T Consensus        46 ~~l~l~G~~G~GKTHLl~a~~~~~~---~~~~~v~y~~~~~------~~~~--------------------~~~~~~~~~   96 (234)
T PRK05642         46 SLIYLWGKDGVGRSHLLQAACLRFE---QRGEPAVYLPLAE------LLDR--------------------GPELLDNLE   96 (234)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHHH---hCCCcEEEeeHHH------HHhh--------------------hHHHHHhhh
Confidence            6789999999999999999998762   1223567776432      1110                    012223333


Q ss_pred             cCcEEEEEeccccc---ccccc-ccccCC-CCCCCcEEEEEcCChhH---------hhhhccCceeeccCCChhhHHHHH
Q 038398          228 KKKFLLLLDDIWER---VDLTK-VGIPFP-DPENKSKIVFTTHFLEI---------CGALKAHEFLKVECLGPEDAWRLF  293 (720)
Q Consensus       228 ~k~~LlVlDdv~~~---~~~~~-l~~~~~-~~~~gs~iiiTtR~~~v---------~~~~~~~~~~~l~~L~~~e~~~Lf  293 (720)
                      +-. +||+||+...   ..|.. +...+. ....|..+|+|++...-         ...+.....+++++++.++-.+++
T Consensus        97 ~~d-~LiiDDi~~~~~~~~~~~~Lf~l~n~~~~~g~~ilits~~~p~~l~~~~~~L~SRl~~gl~~~l~~~~~e~~~~il  175 (234)
T PRK05642         97 QYE-LVCLDDLDVIAGKADWEEALFHLFNRLRDSGRRLLLAASKSPRELPIKLPDLKSRLTLALVFQMRGLSDEDKLRAL  175 (234)
T ss_pred             hCC-EEEEechhhhcCChHHHHHHHHHHHHHHhcCCEEEEeCCCCHHHcCccCccHHHHHhcCeeeecCCCCHHHHHHHH
Confidence            222 6888999632   23322 222221 12346788888874322         222233467899999999999999


Q ss_pred             HHHhccCccCCCCChHHHHHHHHHHhCCcchHHH
Q 038398          294 RENLRRDVLDNHPDIPELARSVAQECAGLPLALI  327 (720)
Q Consensus       294 ~~~~~~~~~~~~~~~~~~~~~i~~~c~GlPLai~  327 (720)
                      ..++.......   -+++..-|++.+.|-.-.+.
T Consensus       176 ~~ka~~~~~~l---~~ev~~~L~~~~~~d~r~l~  206 (234)
T PRK05642        176 QLRASRRGLHL---TDEVGHFILTRGTRSMSALF  206 (234)
T ss_pred             HHHHHHcCCCC---CHHHHHHHHHhcCCCHHHHH
Confidence            86664432111   25777888888877644443

>TIGR00678 holB DNA polymerase III, delta' subunit

Probab=98.29  E-value=2.3e-05  Score=74.65  Aligned_cols=159  Identities=14%  Similarity=0.153  Sum_probs=90.2

Q ss_pred             HHHHHhcCCCc-eEEEEEcCCCChHHHHHHHHHhhhcCCC-------------------CCcCEEEEEEec-CcCCHHHH
Q 038398          137 KVWRCLGEEQV-GIIGLYGMGGVGKTTLLTKINNKLLGAP-------------------NVFDVVIWVVVS-KDLQLEKI  195 (720)
Q Consensus       137 ~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~~~~~-------------------~~f~~~~wv~v~-~~~~~~~~  195 (720)
                      .+.+.+..+.. ..+.++|+.|+||||+|+.+........                   .+.|. .++... .......+
T Consensus         3 ~l~~~i~~~~~~~~~L~~G~~G~gkt~~a~~~~~~l~~~~~~~~~~c~~~~~c~~~~~~~~~d~-~~~~~~~~~~~~~~i   81 (188)
T TIGR00678         3 QLKRALEKGRLAHAYLFAGPEGVGKELLALALAKALLCEQPGGGEPCGECPSCRLIEAGNHPDL-HRLEPEGQSIKVDQV   81 (188)
T ss_pred             HHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHHcCCCCcE-EEeccccCcCCHHHH
Confidence            45555655555 6788999999999999999988762110                   11121 122111 11111111


Q ss_pred             HHHHHHHhCCCCCccCCCChhHHHHHHHHHhccCcEEEEEeccccc--cccccccccCCCCCCCcEEEEEcCCh-hHhhh
Q 038398          196 QEKIGRRIGFFDESWKNGSLEDKTSDILRILGKKKFLLLLDDIWER--VDLTKVGIPFPDPENKSKIVFTTHFL-EICGA  272 (720)
Q Consensus       196 ~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~iiiTtR~~-~v~~~  272 (720)
                       +++...+...                  -..+.+-++|+||++..  .....+...+......+.+|++|++. .+...
T Consensus        82 -~~i~~~~~~~------------------~~~~~~kviiide~~~l~~~~~~~Ll~~le~~~~~~~~il~~~~~~~l~~~  142 (188)
T TIGR00678        82 -RELVEFLSRT------------------PQESGRRVVIIEDAERMNEAAANALLKTLEEPPPNTLFILITPSPEKLLPT  142 (188)
T ss_pred             -HHHHHHHccC------------------cccCCeEEEEEechhhhCHHHHHHHHHHhcCCCCCeEEEEEECChHhChHH
Confidence             1122221110                  01245668999998753  22334433333333456666666543 22221


Q ss_pred             -hccCceeeccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCcch
Q 038398          273 -LKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGLPL  324 (720)
Q Consensus       273 -~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~GlPL  324 (720)
                       ......+++.+++.++..+.+.+. +  .      -++.+..|++.++|.|.
T Consensus       143 i~sr~~~~~~~~~~~~~~~~~l~~~-g--i------~~~~~~~i~~~~~g~~r  186 (188)
T TIGR00678       143 IRSRCQVLPFPPLSEEALLQWLIRQ-G--I------SEEAAELLLALAGGSPG  186 (188)
T ss_pred             HHhhcEEeeCCCCCHHHHHHHHHHc-C--C------CHHHHHHHHHHcCCCcc
Confidence             122358999999999999888776 1  1      14668899999999885

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.

>PRK14952 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.28  E-value=2.5e-05  Score=86.23  Aligned_cols=198  Identities=13%  Similarity=0.090  Sum_probs=110.0

Q ss_pred             CCCCcCchHHHHHHHHHhcCCCce-EEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHHHHHh
Q 038398          125 CEPTVGLESTFDKVWRCLGEEQVG-IIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKIGRRI  203 (720)
Q Consensus       125 ~~~~vGr~~~~~~l~~~L~~~~~~-vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i~~~l  203 (720)
                      .+++||.+..++.|..++..+.+. .+.++|+.|+||||+|+.++...... ...+   +    ..++.-...+.+...-
T Consensus        12 f~eivGq~~i~~~L~~~i~~~r~~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~-~~~~---~----~pCg~C~~C~~i~~~~   83 (584)
T PRK14952         12 FAEVVGQEHVTEPLSSALDAGRINHAYLFSGPRGCGKTSSARILARSLNCA-QGPT---A----TPCGVCESCVALAPNG   83 (584)
T ss_pred             HHHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhccc-cCCC---C----CcccccHHHHHhhccc
Confidence            367899999999999999877655 46899999999999999998876211 0000   0    0001001111111000


Q ss_pred             CCCC-----CccCCCChhHHHHHHHHH-----hccCcEEEEEeccccc--cccccccccCCCCCCCcEEEE-EcCChhHh
Q 038398          204 GFFD-----ESWKNGSLEDKTSDILRI-----LGKKKFLLLLDDIWER--VDLTKVGIPFPDPENKSKIVF-TTHFLEIC  270 (720)
Q Consensus       204 ~~~~-----~~~~~~~~~~~~~~l~~~-----l~~k~~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~iii-TtR~~~v~  270 (720)
                      +...     +.......++. +.+.+.     ..+++-++|+|+++..  .....+...+........+|+ ||....+.
T Consensus        84 ~~~~dvieidaas~~gvd~i-Rel~~~~~~~P~~~~~KVvIIDEah~Lt~~A~NALLK~LEEpp~~~~fIL~tte~~kll  162 (584)
T PRK14952         84 PGSIDVVELDAASHGGVDDT-RELRDRAFYAPAQSRYRIFIVDEAHMVTTAGFNALLKIVEEPPEHLIFIFATTEPEKVL  162 (584)
T ss_pred             CCCceEEEeccccccCHHHH-HHHHHHHHhhhhcCCceEEEEECCCcCCHHHHHHHHHHHhcCCCCeEEEEEeCChHhhH
Confidence            0000     00000111111 112211     1245568899998743  334444333333334555554 54444443


Q ss_pred             hh-hccCceeeccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCcc-hHHHHHHHHHh
Q 038398          271 GA-LKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGLP-LALITIGRAMA  334 (720)
Q Consensus       271 ~~-~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~GlP-Lai~~~~~~l~  334 (720)
                      .. .+....+++.+++.++..+.+...+......   --.+....|++.++|.+ .++..+-.++.
T Consensus       163 ~TI~SRc~~~~F~~l~~~~i~~~L~~i~~~egi~---i~~~al~~Ia~~s~GdlR~aln~Ldql~~  225 (584)
T PRK14952        163 PTIRSRTHHYPFRLLPPRTMRALIARICEQEGVV---VDDAVYPLVIRAGGGSPRDTLSVLDQLLA  225 (584)
T ss_pred             HHHHHhceEEEeeCCCHHHHHHHHHHHHHHcCCC---CCHHHHHHHHHHcCCCHHHHHHHHHHHHh
Confidence            22 2334689999999999998888876543311   12456778899999966 46666655544

>PRK14969 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.27  E-value=1.6e-05  Score=87.68  Aligned_cols=186  Identities=17%  Similarity=0.184  Sum_probs=106.8

Q ss_pred             CCCcCchHHHHHHHHHhcCCCce-EEEEEcCCCChHHHHHHHHHhhhcCCC------------------CCcCEEEEEEe
Q 038398          126 EPTVGLESTFDKVWRCLGEEQVG-IIGLYGMGGVGKTTLLTKINNKLLGAP------------------NVFDVVIWVVV  186 (720)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~~~-vi~I~G~gGiGKTtLa~~v~~~~~~~~------------------~~f~~~~wv~v  186 (720)
                      .++||.+..++.+..++..+... .+.++|+.|+||||+|+.+.+......                  +.|..++++..
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            56899999999999999876654 568999999999999999987762100                  01111222221


Q ss_pred             cCcCCHHHHHHHHHHHhCCCCCccCCCChhHHHHHHHHHhccCcEEEEEecccccc--ccccccccCCCCCCCcEEEEEc
Q 038398          187 SKDLQLEKIQEKIGRRIGFFDESWKNGSLEDKTSDILRILGKKKFLLLLDDIWERV--DLTKVGIPFPDPENKSKIVFTT  264 (720)
Q Consensus       187 ~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~--~~~~l~~~~~~~~~gs~iiiTt  264 (720)
                      +....+..+ ++++......                  -..+++-++|+|+++...  ....+...+......+.+|++|
T Consensus        96 ~~~~~vd~i-r~l~~~~~~~------------------p~~~~~kVvIIDEad~ls~~a~naLLK~LEepp~~~~fIL~t  156 (527)
T PRK14969         96 ASNTQVDAM-RELLDNAQYA------------------PTRGRFKVYIIDEVHMLSKSAFNAMLKTLEEPPEHVKFILAT  156 (527)
T ss_pred             cccCCHHHH-HHHHHHHhhC------------------cccCCceEEEEcCcccCCHHHHHHHHHHHhCCCCCEEEEEEe
Confidence            111111111 1111111000                  012456699999997542  2333333333333455555555


Q ss_pred             CC-hhHhhh-hccCceeeccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCcch-HHHHHHHHH
Q 038398          265 HF-LEICGA-LKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGLPL-ALITIGRAM  333 (720)
Q Consensus       265 R~-~~v~~~-~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~GlPL-ai~~~~~~l  333 (720)
                      .+ ..+... ......+++++++.++..+.+.+.+.....   ..-.+....|++.++|.+- |+..+-.++
T Consensus       157 ~d~~kil~tI~SRc~~~~f~~l~~~~i~~~L~~il~~egi---~~~~~al~~la~~s~Gslr~al~lldqai  225 (527)
T PRK14969        157 TDPQKIPVTVLSRCLQFNLKQMPPPLIVSHLQHILEQENI---PFDATALQLLARAAAGSMRDALSLLDQAI  225 (527)
T ss_pred             CChhhCchhHHHHHHHHhcCCCCHHHHHHHHHHHHHHcCC---CCCHHHHHHHHHHcCCCHHHHHHHHHHHH
Confidence            43 333211 122357899999999999888887654321   1224566889999999764 555554443

>KOG2120 consensus SCF ubiquitin ligase, Skp2 component [Posttranslational modification, protein turnover, chaperones]

Probab=98.26  E-value=1.3e-07  Score=90.97  Aligned_cols=80  Identities=19%  Similarity=0.149  Sum_probs=36.3

Q ss_pred             ceeEEEecccccccCC---CCCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCccC--CccccCCCCCCEE
Q 038398          495 NVRRMSLMKNKIENLS---ETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKL--PSGISTLVSLEHL  569 (720)
Q Consensus       495 ~l~~L~l~~~~~~~~~---~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~l--p~~i~~l~~L~~L  569 (720)
                      .+++|+|++..++.-.   -+..|.+|+.|.+.++.+..-....+.+-.+|+.|+|++|+.+.+.  .--+.++..|..|
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            4666666665553210   0134555555555555544433333444455555555555433221  1122344444444


Q ss_pred             eccCC
Q 038398          570 DLSST  574 (720)
Q Consensus       570 ~L~~~  574 (720)
                      +|+.|
T Consensus       266 NlsWc  270 (419)
T KOG2120|consen  266 NLSWC  270 (419)
T ss_pred             CchHh
Confidence            44444

>PRK09111 DNA polymerase III subunits gamma and tau; Validated

Probab=98.25  E-value=2e-05  Score=87.44  Aligned_cols=194  Identities=12%  Similarity=0.090  Sum_probs=108.3

Q ss_pred             CCCcCchHHHHHHHHHhcCCCc-eEEEEEcCCCChHHHHHHHHHhhhcCCCCCcC--EEEEEEecCcCCHHHHHHHHHHH
Q 038398          126 EPTVGLESTFDKVWRCLGEEQV-GIIGLYGMGGVGKTTLLTKINNKLLGAPNVFD--VVIWVVVSKDLQLEKIQEKIGRR  202 (720)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~--~~~wv~v~~~~~~~~~~~~i~~~  202 (720)
                      .++||.+..++.+.+++..++. ..+.++|+.|+||||+|+.+.+..... ....  ...+-    .++...-.+.|...
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 DDLIGQEAMVRTLTNAFETGRIAQAFMLTGVRGVGKTTTARILARALNYE-GPDGDGGPTID----LCGVGEHCQAIMEG   98 (598)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHhhCcC-CccccCCCccc----cCcccHHHHHHhcC
Confidence            5689999999999999987664 468899999999999999998876211 0000  00000    01111111222211


Q ss_pred             hCCCCCc---cCCCChhHHHHHHHHHh-----ccCcEEEEEecccccc--ccccccccCCCCCCCcEEEEEc-CChhHhh
Q 038398          203 IGFFDES---WKNGSLEDKTSDILRIL-----GKKKFLLLLDDIWERV--DLTKVGIPFPDPENKSKIVFTT-HFLEICG  271 (720)
Q Consensus       203 l~~~~~~---~~~~~~~~~~~~l~~~l-----~~k~~LlVlDdv~~~~--~~~~l~~~~~~~~~gs~iiiTt-R~~~v~~  271 (720)
                      .....-.   ......++. +.+.+.+     .+++-++|+|+++...  ....+...+......+++|++| ....+..
T Consensus        99 ~h~Dv~e~~a~s~~gvd~I-ReIie~~~~~P~~a~~KVvIIDEad~Ls~~a~naLLKtLEePp~~~~fIl~tte~~kll~  177 (598)
T PRK09111         99 RHVDVLEMDAASHTGVDDI-REIIESVRYRPVSARYKVYIIDEVHMLSTAAFNALLKTLEEPPPHVKFIFATTEIRKVPV  177 (598)
T ss_pred             CCCceEEecccccCCHHHH-HHHHHHHHhchhcCCcEEEEEEChHhCCHHHHHHHHHHHHhCCCCeEEEEEeCChhhhhH
Confidence            1110000   011112221 1222222     2345589999986542  2334433333333456666554 4333322


Q ss_pred             h-hccCceeeccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCcchHHHH
Q 038398          272 A-LKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGLPLALIT  328 (720)
Q Consensus       272 ~-~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~GlPLai~~  328 (720)
                      . ......+++.+++.++....+.+.+......   --.+....|++.++|.+.-+..
T Consensus       178 tI~SRcq~~~f~~l~~~el~~~L~~i~~kegi~---i~~eAl~lIa~~a~Gdlr~al~  232 (598)
T PRK09111        178 TVLSRCQRFDLRRIEADVLAAHLSRIAAKEGVE---VEDEALALIARAAEGSVRDGLS  232 (598)
T ss_pred             HHHhheeEEEecCCCHHHHHHHHHHHHHHcCCC---CCHHHHHHHHHHcCCCHHHHHH
Confidence            2 1233578999999999999998887543311   1246778899999998764433

>PRK07764 DNA polymerase III subunits gamma and tau; Validated

Probab=98.24  E-value=2e-05  Score=90.48  Aligned_cols=196  Identities=12%  Similarity=0.089  Sum_probs=108.2

Q ss_pred             CCCcCchHHHHHHHHHhcCCCce-EEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHHHHHhC
Q 038398          126 EPTVGLESTFDKVWRCLGEEQVG-IIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKIGRRIG  204 (720)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~~~-vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i~~~l~  204 (720)
                      .++||.+..++.|..++..+.+. .+.++|+.|+||||+|+.+.+...... ....       ..++.-...+.|...-.
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 AEVIGQEHVTEPLSTALDSGRINHAYLFSGPRGCGKTSSARILARSLNCVE-GPTS-------TPCGECDSCVALAPGGP   86 (824)
T ss_pred             HHhcCcHHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHHHHHHHHhCccc-CCCC-------CCCcccHHHHHHHcCCC
Confidence            56899999999999999876654 578999999999999999988772111 1000       00000000111110000


Q ss_pred             CC-----CCccCCCChhHHHHHHHHH-----hccCcEEEEEeccccc--cccccccccCCCCCCCcEEEEEc-CChhHhh
Q 038398          205 FF-----DESWKNGSLEDKTSDILRI-----LGKKKFLLLLDDIWER--VDLTKVGIPFPDPENKSKIVFTT-HFLEICG  271 (720)
Q Consensus       205 ~~-----~~~~~~~~~~~~~~~l~~~-----l~~k~~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~iiiTt-R~~~v~~  271 (720)
                      ..     .+.......++.. .+.+.     ..++.-++|||+++..  .....|...+......+.+|++| ....+..
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            00     0000001111111 12211     2345568899999753  33334433343333455555555 4444432


Q ss_pred             h-hccCceeeccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCcc-hHHHHHHHHH
Q 038398          272 A-LKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGLP-LALITIGRAM  333 (720)
Q Consensus       272 ~-~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~GlP-Lai~~~~~~l  333 (720)
                      . ......|++..++.++..+++.+.+......   .-.+....|++.++|.+ .++..+-.++
T Consensus       166 TIrSRc~~v~F~~l~~~~l~~~L~~il~~EGv~---id~eal~lLa~~sgGdlR~Al~eLEKLi  226 (824)
T PRK07764        166 TIRSRTHHYPFRLVPPEVMRGYLERICAQEGVP---VEPGVLPLVIRAGGGSVRDSLSVLDQLL  226 (824)
T ss_pred             HHHhheeEEEeeCCCHHHHHHHHHHHHHHcCCC---CCHHHHHHHHHHcCCCHHHHHHHHHHHH
Confidence            2 2334688999999999998888776443211   12455678999999977 3444444444

>PRK14954 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.21  E-value=3.4e-05  Score=85.81  Aligned_cols=201  Identities=12%  Similarity=0.123  Sum_probs=109.2

Q ss_pred             CCCcCchHHHHHHHHHhcCCCc-eEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEE-ecCcCCHHHHHHHHHHHh
Q 038398          126 EPTVGLESTFDKVWRCLGEEQV-GIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVV-VSKDLQLEKIQEKIGRRI  203 (720)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~-v~~~~~~~~~~~~i~~~l  203 (720)
                      .++||.+..++.+.+++..+.+ ..+.++|+.|+||||+|+.+.+.... ....+.-.|.. +...++.-...+.+...-
T Consensus        16 ~eivGQe~i~~~L~~~i~~~ri~ha~Lf~Gp~GvGKttlA~~lAk~L~c-~~~~~~~~~~~~~~~~Cg~C~sC~~~~~g~   94 (620)
T PRK14954         16 ADITAQEHITHTIQNSLRMDRVGHGYIFSGLRGVGKTTAARVFAKAVNC-QRMIDDPVYLQEVTEPCGECESCRDFDAGT   94 (620)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCCCeeEEEECCCCCCHHHHHHHHHHHhCC-CCcCCccccccccCCCCccCHHHHHHhccC
Confidence            5789999999999999977665 45889999999999999999887621 11111001110 001111111111111111


Q ss_pred             CCCCCcc---CCCChhHHHHHHHHHh-----ccCcEEEEEecccccc--ccccccccCCCCCCCcEEEEEc-CChhHhh-
Q 038398          204 GFFDESW---KNGSLEDKTSDILRIL-----GKKKFLLLLDDIWERV--DLTKVGIPFPDPENKSKIVFTT-HFLEICG-  271 (720)
Q Consensus       204 ~~~~~~~---~~~~~~~~~~~l~~~l-----~~k~~LlVlDdv~~~~--~~~~l~~~~~~~~~gs~iiiTt-R~~~v~~-  271 (720)
                      ......+   .....++... +.+.+     .+.+-++|+|+++...  ....+...+......+.+|++| +...+.. 
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            0000000   0111222222 22222     3445578999987542  2334433333333345555444 4344432 


Q ss_pred             hhccCceeeccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCcc-hHHHHHHH
Q 038398          272 ALKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGLP-LALITIGR  331 (720)
Q Consensus       272 ~~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~GlP-Lai~~~~~  331 (720)
                      .......+++.+++.++....+.+.+......   --.+.+..|++.++|.. .|+..+-.
T Consensus       174 I~SRc~~vef~~l~~~ei~~~L~~i~~~egi~---I~~eal~~La~~s~Gdlr~al~eLeK  231 (620)
T PRK14954        174 IASRCQRFNFKRIPLDEIQSQLQMICRAEGIQ---IDADALQLIARKAQGSMRDAQSILDQ  231 (620)
T ss_pred             HHhhceEEecCCCCHHHHHHHHHHHHHHcCCC---CCHHHHHHHHHHhCCCHHHHHHHHHH
Confidence            23345689999999999988888776533211   12567888999999944 45555443

>KOG0989 consensus Replication factor C, subunit RFC4 [Replication, recombination and repair]

Probab=98.21  E-value=1.2e-05  Score=78.40  Aligned_cols=191  Identities=17%  Similarity=0.167  Sum_probs=118.0

Q ss_pred             CCCcCchHHHHHHHHHhcCCCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcC-EEEEEEecCcCCHHHHHHHHHHHhC
Q 038398          126 EPTVGLESTFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFD-VVIWVVVSKDLQLEKIQEKIGRRIG  204 (720)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~-~~~wv~v~~~~~~~~~~~~i~~~l~  204 (720)
                      .+++|.+..++-+.+.+.....+....+||+|.|||+-|..++..... .+.|. .++=.++|...++.-+-.++     
T Consensus        36 de~~gQe~vV~~L~~a~~~~~lp~~LFyGPpGTGKTStalafar~L~~-~~~~~~rvl~lnaSderGisvvr~Ki-----  109 (346)
T KOG0989|consen   36 DELAGQEHVVQVLKNALLRRILPHYLFYGPPGTGKTSTALAFARALNC-EQLFPCRVLELNASDERGISVVREKI-----  109 (346)
T ss_pred             HhhcchHHHHHHHHHHHhhcCCceEEeeCCCCCcHhHHHHHHHHHhcC-ccccccchhhhcccccccccchhhhh-----
Confidence            567999999999999998777889999999999999999999887622 34454 34444555443332111111     


Q ss_pred             CCCCccCCCChhHHHHHHHHHh--ccCc-EEEEEeccccc--cccccccccCCCCCCCcEEEEEcCChhH-hhhh-ccCc
Q 038398          205 FFDESWKNGSLEDKTSDILRIL--GKKK-FLLLLDDIWER--VDLTKVGIPFPDPENKSKIVFTTHFLEI-CGAL-KAHE  277 (720)
Q Consensus       205 ~~~~~~~~~~~~~~~~~l~~~l--~~k~-~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~iiiTtR~~~v-~~~~-~~~~  277 (720)
                              .+............  .-++ -++|||+++..  +.|..+...+......++.|+.+..-.. .... .--.
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                    00010000000000  0123 38899999864  5677776555555555665555543322 1111 1124


Q ss_pred             eeeccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCC-cchHHHHHHHHH
Q 038398          278 FLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAG-LPLALITIGRAM  333 (720)
Q Consensus       278 ~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~G-lPLai~~~~~~l  333 (720)
                      .|+.++|..++...-+...+.......   -.+..+.|++.++| +--|+.++-++-
T Consensus       182 KfrFk~L~d~~iv~rL~~Ia~~E~v~~---d~~al~~I~~~S~GdLR~Ait~Lqsls  235 (346)
T KOG0989|consen  182 KFRFKKLKDEDIVDRLEKIASKEGVDI---DDDALKLIAKISDGDLRRAITTLQSLS  235 (346)
T ss_pred             HhcCCCcchHHHHHHHHHHHHHhCCCC---CHHHHHHHHHHcCCcHHHHHHHHHHhh
Confidence            588999999999998888887654332   25678889999988 566666665543

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

Probab=98.21  E-value=2.1e-07  Score=94.27  Aligned_cols=185  Identities=21%  Similarity=0.208  Sum_probs=112.6

Q ss_pred             cccccceeEEEecccccccCCCC----CCCCcccEEEccCCCCcCcchH-HhccCCcccEEEccCCCCCcc-CCccccCC
Q 038398          490 IQNWRNVRRMSLMKNKIENLSET----PTCPHLLSLFLSDNSLKMSTDD-FFQSMPSLRVFNMSNNHLLWK-LPSGISTL  563 (720)
Q Consensus       490 ~~~~~~l~~L~l~~~~~~~~~~~----~~~~~L~~L~l~~~~~~~~~~~-~~~~l~~L~~L~L~~~~~~~~-lp~~i~~l  563 (720)
                      ...|++++.|+|+.|-+..+...    ..+|+|+.|+++.|.+...... .-..+++|+.|.|+.|.+.+. +-...-.+
T Consensus       142 ~k~~~~v~~LdLS~NL~~nw~~v~~i~eqLp~Le~LNls~Nrl~~~~~s~~~~~l~~lK~L~l~~CGls~k~V~~~~~~f  221 (505)
T KOG3207|consen  142 SKILPNVRDLDLSRNLFHNWFPVLKIAEQLPSLENLNLSSNRLSNFISSNTTLLLSHLKQLVLNSCGLSWKDVQWILLTF  221 (505)
T ss_pred             hhhCCcceeecchhhhHHhHHHHHHHHHhcccchhcccccccccCCccccchhhhhhhheEEeccCCCCHHHHHHHHHhC
Confidence            45677899999998877654332    6788999999999865433221 123567889999999866543 12223467


Q ss_pred             CCCCEEeccCCC-CcccchhhhcCCCCCEEeccCCcCCCCCch-hhhhccccCceeeccccCCCcccchhcccccCCccc
Q 038398          564 VSLEHLDLSSTA-ITHLPIELQKLVNLKCLNLEYMNNLNQFPR-LVISAFSKLQVLRMFDCGGSKIERLKINVLFGGHQF  641 (720)
Q Consensus       564 ~~L~~L~L~~~~-i~~lp~~i~~l~~L~~L~l~~~~~l~~lp~-~~~~~l~~L~~L~~~~~~~~~l~~l~~~~~~~~~~~  641 (720)
                      |+|+.|+|.+|. +..--.+...++.|+.|||++|+ +...+. ...+.++.|..|++..   +.+.++.....     .
T Consensus       222 Psl~~L~L~~N~~~~~~~~~~~i~~~L~~LdLs~N~-li~~~~~~~~~~l~~L~~Lnls~---tgi~si~~~d~-----~  292 (505)
T KOG3207|consen  222 PSLEVLYLEANEIILIKATSTKILQTLQELDLSNNN-LIDFDQGYKVGTLPGLNQLNLSS---TGIASIAEPDV-----E  292 (505)
T ss_pred             CcHHHhhhhcccccceecchhhhhhHHhhccccCCc-ccccccccccccccchhhhhccc---cCcchhcCCCc-----c
Confidence            888999998883 33222234557888999998854 444443 1245566655555554   44444433221     1


Q ss_pred             cHHHhcCCCCCceeEEEecchhhHHHHhhhhhhhhhccccccc
Q 038398          642 LVEELMGMKHLMVLTITLKSWQALKELLISQELQRSTQSLFLR  684 (720)
Q Consensus       642 ~~~~l~~l~~L~~L~~~~~~~~~l~~l~~~~~~~~~L~~L~l~  684 (720)
                      ........++|+.|.+..|.+..++.+.... ...+|+.|.+.
T Consensus       293 s~~kt~~f~kL~~L~i~~N~I~~w~sl~~l~-~l~nlk~l~~~  334 (505)
T KOG3207|consen  293 SLDKTHTFPKLEYLNISENNIRDWRSLNHLR-TLENLKHLRIT  334 (505)
T ss_pred             chhhhcccccceeeecccCccccccccchhh-ccchhhhhhcc
Confidence            2223445678888888887775555443322 23466666654

>KOG0531 consensus Protein phosphatase 1, regulatory subunit, and related proteins [Signal transduction mechanisms]

Probab=98.21  E-value=2.5e-07  Score=99.88  Aligned_cols=104  Identities=27%  Similarity=0.393  Sum_probs=86.3

Q ss_pred             cccccceeEEEecccccccCCC-CCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCccCCccccCCCCCCE
Q 038398          490 IQNWRNVRRMSLMKNKIENLSE-TPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVSLEH  568 (720)
Q Consensus       490 ~~~~~~l~~L~l~~~~~~~~~~-~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~  568 (720)
                      +..+.++..|++.+|.+..+.. ...+++|++|++++|.++.+.+  +..++.|+.|++++|.+ ..++ .+..++.|+.
T Consensus        91 l~~~~~l~~l~l~~n~i~~i~~~l~~~~~L~~L~ls~N~I~~i~~--l~~l~~L~~L~l~~N~i-~~~~-~~~~l~~L~~  166 (414)
T KOG0531|consen   91 LSKLKSLEALDLYDNKIEKIENLLSSLVNLQVLDLSFNKITKLEG--LSTLTLLKELNLSGNLI-SDIS-GLESLKSLKL  166 (414)
T ss_pred             cccccceeeeeccccchhhcccchhhhhcchheeccccccccccc--hhhccchhhheeccCcc-hhcc-CCccchhhhc
Confidence            5566789999999999998888 7889999999999998888876  67788899999999944 3443 5666899999


Q ss_pred             EeccCCCCcccchh-hhcCCCCCEEeccCC
Q 038398          569 LDLSSTAITHLPIE-LQKLVNLKCLNLEYM  597 (720)
Q Consensus       569 L~L~~~~i~~lp~~-i~~l~~L~~L~l~~~  597 (720)
                      +++++|.++.++.. ...+.+|+.+++.++
T Consensus       167 l~l~~n~i~~ie~~~~~~~~~l~~l~l~~n  196 (414)
T KOG0531|consen  167 LDLSYNRIVDIENDELSELISLEELDLGGN  196 (414)
T ss_pred             ccCCcchhhhhhhhhhhhccchHHHhccCC
Confidence            99999999988654 578899999999883

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=98.18  E-value=2.4e-05  Score=91.01  Aligned_cols=181  Identities=15%  Similarity=0.160  Sum_probs=100.7

Q ss_pred             CCCCcCchHHHHHHHHHhcCCCceEEEEEcCCCChHHHHHHHHHhhhcCC--CC-CcCEEE-EEEecCcCCHHHHHHHHH
Q 038398          125 CEPTVGLESTFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGA--PN-VFDVVI-WVVVSKDLQLEKIQEKIG  200 (720)
Q Consensus       125 ~~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~--~~-~f~~~~-wv~v~~~~~~~~~~~~i~  200 (720)
                      .+++|||++++.+++..|......-+.++|++|+||||+|+.++++....  .. -.+..+ .+.++.-           
T Consensus       186 ld~~iGr~~ei~~~i~~l~r~~~~n~lLvG~pGvGKTal~~~La~~i~~~~v~~~l~~~~i~~l~l~~l-----------  254 (852)
T TIGR03345       186 IDPVLGRDDEIRQMIDILLRRRQNNPILTGEAGVGKTAVVEGLALRIAAGDVPPALRNVRLLSLDLGLL-----------  254 (852)
T ss_pred             CCcccCCHHHHHHHHHHHhcCCcCceeEECCCCCCHHHHHHHHHHHHhhCCCCccccCCeEEEeehhhh-----------
Confidence            46789999999999999977666677799999999999999999886211  10 112222 2322210           


Q ss_pred             HHhCCCCCccCCCChhHHHHHHHHHhc--cCcEEEEEecccccc-------ccc--cccccCCCCCCC-cEEEEEcCChh
Q 038398          201 RRIGFFDESWKNGSLEDKTSDILRILG--KKKFLLLLDDIWERV-------DLT--KVGIPFPDPENK-SKIVFTTHFLE  268 (720)
Q Consensus       201 ~~l~~~~~~~~~~~~~~~~~~l~~~l~--~k~~LlVlDdv~~~~-------~~~--~l~~~~~~~~~g-s~iiiTtR~~~  268 (720)
                         .... . .....+.....+.+.+.  +++.+|++|++....       ..+  .+..+  .-..| -++|-||..++
T Consensus       255 ---~ag~-~-~~ge~e~~lk~ii~e~~~~~~~~ILfIDEih~l~~~g~~~~~~d~~n~Lkp--~l~~G~l~~IgaTT~~e  327 (852)
T TIGR03345       255 ---QAGA-S-VKGEFENRLKSVIDEVKASPQPIILFIDEAHTLIGAGGQAGQGDAANLLKP--ALARGELRTIAATTWAE  327 (852)
T ss_pred             ---hccc-c-cchHHHHHHHHHHHHHHhcCCCeEEEEeChHHhccCCCccccccHHHHhhH--HhhCCCeEEEEecCHHH
Confidence               0000 0 11122233333333232  468999999986531       111  12112  12233 45666665433


Q ss_pred             Hhh-------hhccCceeeccCCChhhHHHHHHHHhccCcc-CCCCChHHHHHHHHHHhCCcc
Q 038398          269 ICG-------ALKAHEFLKVECLGPEDAWRLFRENLRRDVL-DNHPDIPELARSVAQECAGLP  323 (720)
Q Consensus       269 v~~-------~~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~-~~~~~~~~~~~~i~~~c~GlP  323 (720)
                      ...       ...-...+.+++++.++..+++......... ..-.-..+....+++.+.++.
T Consensus       328 ~~~~~~~d~AL~rRf~~i~v~eps~~~~~~iL~~~~~~~e~~~~v~i~d~al~~~~~ls~ryi  390 (852)
T TIGR03345       328 YKKYFEKDPALTRRFQVVKVEEPDEETAIRMLRGLAPVLEKHHGVLILDEAVVAAVELSHRYI  390 (852)
T ss_pred             HhhhhhccHHHHHhCeEEEeCCCCHHHHHHHHHHHHHhhhhcCCCeeCHHHHHHHHHHccccc
Confidence            311       1122358999999999999997544322110 011122455666777776543

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.

>PHA02544 44 clamp loader, small subunit; Provisional

Probab=98.17  E-value=3.9e-05  Score=79.86  Aligned_cols=145  Identities=10%  Similarity=0.111  Sum_probs=83.4

Q ss_pred             CCCcCchHHHHHHHHHhcCCCc-eEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHHHHHhC
Q 038398          126 EPTVGLESTFDKVWRCLGEEQV-GIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKIGRRIG  204 (720)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i~~~l~  204 (720)
                      ++++|.+...+.+..++..+.. .++.++|++|+||||+|+.+++..   ...   +.+++.+. .....+...+.....
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            5679999999999999977654 567779999999999999998875   211   23444433 112111111111100


Q ss_pred             CCCCccCCCChhHHHHHHHHHhccCcEEEEEeccccc--c-ccccccccCCCCCCCcEEEEEcCChhH-hh-hhccCcee
Q 038398          205 FFDESWKNGSLEDKTSDILRILGKKKFLLLLDDIWER--V-DLTKVGIPFPDPENKSKIVFTTHFLEI-CG-ALKAHEFL  279 (720)
Q Consensus       205 ~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~--~-~~~~l~~~~~~~~~gs~iiiTtR~~~v-~~-~~~~~~~~  279 (720)
                       .                . .+.+.+-++|+||++..  . ....+...+.....++++|+||....- .. .......+
T Consensus        94 -~----------------~-~~~~~~~vliiDe~d~l~~~~~~~~L~~~le~~~~~~~~Ilt~n~~~~l~~~l~sR~~~i  155 (316)
T PHA02544         94 -T----------------V-SLTGGGKVIIIDEFDRLGLADAQRHLRSFMEAYSKNCSFIITANNKNGIIEPLRSRCRVI  155 (316)
T ss_pred             -h----------------h-cccCCCeEEEEECcccccCHHHHHHHHHHHHhcCCCceEEEEcCChhhchHHHHhhceEE
Confidence             0                0 01134558899999754  1 112222222233456788888865332 11 11122456


Q ss_pred             eccCCChhhHHHHHHH
Q 038398          280 KVECLGPEDAWRLFRE  295 (720)
Q Consensus       280 ~l~~L~~~e~~~Lf~~  295 (720)
                      .++..+.++..+++..
T Consensus       156 ~~~~p~~~~~~~il~~  171 (316)
T PHA02544        156 DFGVPTKEEQIEMMKQ  171 (316)
T ss_pred             EeCCCCHHHHHHHHHH
Confidence            7777778777766554

>TIGR02881 spore_V_K stage V sporulation protein K

Probab=98.17  E-value=1.5e-05  Score=80.18  Aligned_cols=155  Identities=14%  Similarity=0.139  Sum_probs=79.2

Q ss_pred             CCCcCchHHHHHHHH---Hhc------------CCCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcC
Q 038398          126 EPTVGLESTFDKVWR---CLG------------EEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDL  190 (720)
Q Consensus       126 ~~~vGr~~~~~~l~~---~L~------------~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~  190 (720)
                      ..++|.+..+++|.+   +..            ......+.++|++|+||||+|+.+++..... +.-....++.++.. 
T Consensus         6 ~~~~Gl~~vk~~i~~~~~~~~~~~~~~~~g~~~~~~~~~vll~GppGtGKTtlA~~ia~~l~~~-~~~~~~~~v~~~~~-   83 (261)
T TIGR02881         6 SRMVGLDEVKALIKEIYAWIQINEKRKEEGLKTSKQVLHMIFKGNPGTGKTTVARILGKLFKEM-NVLSKGHLIEVERA-   83 (261)
T ss_pred             HHhcChHHHHHHHHHHHHHHHHHHHHHHcCCCCCCCcceEEEEcCCCCCHHHHHHHHHHHHHhc-CcccCCceEEecHH-
Confidence            357898887766643   321            0234568899999999999999998765211 11111123333221 


Q ss_pred             CHHHHHHHHHHHhCCCCCccCCCChhHHHHHHHHHhccCcEEEEEecccccc----------ccccccccCCCCCCCcEE
Q 038398          191 QLEKIQEKIGRRIGFFDESWKNGSLEDKTSDILRILGKKKFLLLLDDIWERV----------DLTKVGIPFPDPENKSKI  260 (720)
Q Consensus       191 ~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~----------~~~~l~~~~~~~~~gs~i  260 (720)
                         ++.    ...       .... ......+.+..  ...+|++|+++...          ....+...+........+
T Consensus        84 ---~l~----~~~-------~g~~-~~~~~~~~~~a--~~~VL~IDE~~~L~~~~~~~~~~~~i~~Ll~~~e~~~~~~~v  146 (261)
T TIGR02881        84 ---DLV----GEY-------IGHT-AQKTREVIKKA--LGGVLFIDEAYSLARGGEKDFGKEAIDTLVKGMEDNRNEFVL  146 (261)
T ss_pred             ---Hhh----hhh-------ccch-HHHHHHHHHhc--cCCEEEEechhhhccCCccchHHHHHHHHHHHHhccCCCEEE
Confidence               111    110       0001 11111222211  23488999997521          222332223222233345


Q ss_pred             EEEcCChhHhh------h-h-ccCceeeccCCChhhHHHHHHHHhcc
Q 038398          261 VFTTHFLEICG------A-L-KAHEFLKVECLGPEDAWRLFRENLRR  299 (720)
Q Consensus       261 iiTtR~~~v~~------~-~-~~~~~~~l~~L~~~e~~~Lf~~~~~~  299 (720)
                      |+++.......      . . .....+++++++.++-.+++.+.+..
T Consensus       147 ila~~~~~~~~~~~~~p~L~sRf~~~i~f~~~~~~el~~Il~~~~~~  193 (261)
T TIGR02881       147 ILAGYSDEMDYFLSLNPGLRSRFPISIDFPDYTVEELMEIAERMVKE  193 (261)
T ss_pred             EecCCcchhHHHHhcChHHHhccceEEEECCCCHHHHHHHHHHHHHH
Confidence            55554322210      0 0 11245789999999999999887754

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.

>PRK14971 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.16  E-value=5e-05  Score=85.00  Aligned_cols=183  Identities=15%  Similarity=0.174  Sum_probs=108.4

Q ss_pred             CCCcCchHHHHHHHHHhcCCCce-EEEEEcCCCChHHHHHHHHHhhhcC--------------------CCCCcCEEEEE
Q 038398          126 EPTVGLESTFDKVWRCLGEEQVG-IIGLYGMGGVGKTTLLTKINNKLLG--------------------APNVFDVVIWV  184 (720)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~~~-vi~I~G~gGiGKTtLa~~v~~~~~~--------------------~~~~f~~~~wv  184 (720)
                      .++||.+..++.+..++..+... .+.++|+.|+||||+|+.+......                    ...+|+. ..+
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            56899999999999999876654 5789999999999999988876521                    0112332 122


Q ss_pred             EecCcCCHHHHHHHHHHHhCCCCCccCCCChhHHHHHHHHHhccCcEEEEEeccccc--cccccccccCCCCCCCcEEEE
Q 038398          185 VVSKDLQLEKIQEKIGRRIGFFDESWKNGSLEDKTSDILRILGKKKFLLLLDDIWER--VDLTKVGIPFPDPENKSKIVF  262 (720)
Q Consensus       185 ~v~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~iii  262 (720)
                      ..+.......+. .+..++...                  -..+++-++|+|+++..  .....+...+......+.+|+
T Consensus        96 d~~~~~~vd~Ir-~li~~~~~~------------------P~~~~~KVvIIdea~~Ls~~a~naLLK~LEepp~~tifIL  156 (614)
T PRK14971         96 DAASNNSVDDIR-NLIEQVRIP------------------PQIGKYKIYIIDEVHMLSQAAFNAFLKTLEEPPSYAIFIL  156 (614)
T ss_pred             cccccCCHHHHH-HHHHHHhhC------------------cccCCcEEEEEECcccCCHHHHHHHHHHHhCCCCCeEEEE
Confidence            222122222221 111111110                  01234558899998753  234444433433334556555


Q ss_pred             -EcCChhHhhh-hccCceeeccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCcch-HHHHHHH
Q 038398          263 -TTHFLEICGA-LKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGLPL-ALITIGR  331 (720)
Q Consensus       263 -TtR~~~v~~~-~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~GlPL-ai~~~~~  331 (720)
                       ||+...+... ......+++.+++.++....+...+......   .-.+.+..|++.++|-.- |+..+-.
T Consensus       157 ~tt~~~kIl~tI~SRc~iv~f~~ls~~ei~~~L~~ia~~egi~---i~~~al~~La~~s~gdlr~al~~Lek  225 (614)
T PRK14971        157 ATTEKHKILPTILSRCQIFDFNRIQVADIVNHLQYVASKEGIT---AEPEALNVIAQKADGGMRDALSIFDQ  225 (614)
T ss_pred             EeCCchhchHHHHhhhheeecCCCCHHHHHHHHHHHHHHcCCC---CCHHHHHHHHHHcCCCHHHHHHHHHH
Confidence             4444444322 2334679999999999999998877544311   124567889999998554 4444433

>PRK08451 DNA polymerase III subunits gamma and tau; Validated

Probab=98.15  E-value=6.9e-05  Score=81.55  Aligned_cols=180  Identities=13%  Similarity=0.164  Sum_probs=104.8

Q ss_pred             CCCcCchHHHHHHHHHhcCCCce-EEEEEcCCCChHHHHHHHHHhhhcCCCC-C----------------cC-EEEEEEe
Q 038398          126 EPTVGLESTFDKVWRCLGEEQVG-IIGLYGMGGVGKTTLLTKINNKLLGAPN-V----------------FD-VVIWVVV  186 (720)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~~~-vi~I~G~gGiGKTtLa~~v~~~~~~~~~-~----------------f~-~~~wv~v  186 (720)
                      +++||.+..++.+..++..+... ++.++|+.|+||||+|+.+.+....... .                +. .++.+..
T Consensus        14 deiiGqe~v~~~L~~~I~~grl~hayLf~Gp~G~GKTt~Ar~LAk~L~c~~~~~~~pC~~C~~C~~~~~~~h~dv~elda   93 (535)
T PRK08451         14 DELIGQESVSKTLSLALDNNRLAHAYLFSGLRGSGKTSSARIFARALVCEQGPSSTPCDTCIQCQSALENRHIDIIEMDA   93 (535)
T ss_pred             HHccCcHHHHHHHHHHHHcCCCCeeEEEECCCCCcHHHHHHHHHHHhcCCCCCCCCCCcccHHHHHHhhcCCCeEEEecc
Confidence            56899999999999999777655 5689999999999999998877521000 0                00 1122211


Q ss_pred             cCcCCHHHHHHHHHHHhCCCCCccCCCChhHHHHHHHHHhccCcEEEEEeccccc--cccccccccCCCCCCCcEEEEEc
Q 038398          187 SKDLQLEKIQEKIGRRIGFFDESWKNGSLEDKTSDILRILGKKKFLLLLDDIWER--VDLTKVGIPFPDPENKSKIVFTT  264 (720)
Q Consensus       187 ~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~iiiTt  264 (720)
                      +....+..+.. +.......                  -..+++-++|+|+++..  .....+...+......+++|++|
T Consensus        94 as~~gId~IRe-lie~~~~~------------------P~~~~~KVvIIDEad~Lt~~A~NALLK~LEEpp~~t~FIL~t  154 (535)
T PRK08451         94 ASNRGIDDIRE-LIEQTKYK------------------PSMARFKIFIIDEVHMLTKEAFNALLKTLEEPPSYVKFILAT  154 (535)
T ss_pred             ccccCHHHHHH-HHHHHhhC------------------cccCCeEEEEEECcccCCHHHHHHHHHHHhhcCCceEEEEEE
Confidence            11111111111 11111000                  01135568899999753  22333333333333456666666


Q ss_pred             CCh-hHhh-hhccCceeeccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCcchHHH
Q 038398          265 HFL-EICG-ALKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGLPLALI  327 (720)
Q Consensus       265 R~~-~v~~-~~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~GlPLai~  327 (720)
                      .+. .+.. .......+++.+++.++....+...+.....   .--.+.+..|++.++|.+--+.
T Consensus       155 td~~kL~~tI~SRc~~~~F~~Ls~~ei~~~L~~Il~~EGi---~i~~~Al~~Ia~~s~GdlR~al  216 (535)
T PRK08451        155 TDPLKLPATILSRTQHFRFKQIPQNSIISHLKTILEKEGV---SYEPEALEILARSGNGSLRDTL  216 (535)
T ss_pred             CChhhCchHHHhhceeEEcCCCCHHHHHHHHHHHHHHcCC---CCCHHHHHHHHHHcCCcHHHHH
Confidence            543 2211 1122367899999999999998877754331   1225678889999999875443

>TIGR00767 rho transcription termination factor Rho

Probab=98.15  E-value=8.2e-06  Score=84.23  Aligned_cols=93  Identities=19%  Similarity=0.147  Sum_probs=62.9

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCc--CCHHHHHHHHHHHhCCCCCccCCCChhHHHH---
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKD--LQLEKIQEKIGRRIGFFDESWKNGSLEDKTS---  220 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~--~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~---  220 (720)
                      .-..++|+|++|+|||||++.+++.. . .++|+..+||.+.+.  .++.++++.+...+-...-+...........   
T Consensus       167 ~Gq~~~IvG~~g~GKTtL~~~i~~~I-~-~nhfdv~v~VlLIgER~~EVtDLqrsIlg~Vvast~d~p~~~~~~va~~v~  244 (415)
T TIGR00767       167 KGQRGLIVAPPKAGKTVLLQKIAQAI-T-RNHPEVELIVLLIDERPEEVTDMQRSVKGEVVASTFDEPASRHVQVAEMVI  244 (415)
T ss_pred             CCCEEEEECCCCCChhHHHHHHHHhh-c-ccCCceEEEEEEcCCCCccHHHHHHHhhceEEEecCCCChHHHHHHHHHHH
Confidence            34689999999999999999999987 2 348999999999876  7889999998554322211001111111111   


Q ss_pred             -HHHHH-hccCcEEEEEecccc
Q 038398          221 -DILRI-LGKKKFLLLLDDIWE  240 (720)
Q Consensus       221 -~l~~~-l~~k~~LlVlDdv~~  240 (720)
                       ..... -.+++++|++|++..
T Consensus       245 e~Ae~~~~~GkdVVLlIDEitR  266 (415)
T TIGR00767       245 EKAKRLVEHKKDVVILLDSITR  266 (415)
T ss_pred             HHHHHHHHcCCCeEEEEEChhH
Confidence             11111 357999999999854

Members of this family differ in the specificity of RNA binding.

>TIGR02880 cbbX_cfxQ probable Rubsico expression protein CbbX

Probab=98.14  E-value=3.8e-05  Score=77.96  Aligned_cols=154  Identities=10%  Similarity=0.089  Sum_probs=80.7

Q ss_pred             CCcCchHHHHHHHHHhc---C------------CCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCC
Q 038398          127 PTVGLESTFDKVWRCLG---E------------EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQ  191 (720)
Q Consensus       127 ~~vGr~~~~~~l~~~L~---~------------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~  191 (720)
                      .++|.++.+++|.++..   -            ....-+.++|++|+||||+|+.++.... ..+.....-|+.++.   
T Consensus        23 ~l~Gl~~vk~~i~e~~~~~~~~~~r~~~g~~~~~~~~~vll~G~pGTGKT~lA~~ia~~l~-~~g~~~~~~~v~v~~---   98 (284)
T TIGR02880        23 ELIGLKPVKTRIREIAALLLVERLRQRLGLASAAPTLHMSFTGNPGTGKTTVALRMAQILH-RLGYVRKGHLVSVTR---   98 (284)
T ss_pred             hccCHHHHHHHHHHHHHHHHHHHHHHHhCCCcCCCCceEEEEcCCCCCHHHHHHHHHHHHH-HcCCcccceEEEecH---
Confidence            46787776666544321   0            0123588999999999999988876652 112221112444432   


Q ss_pred             HHHHHHHHHHHhCCCCCccCCCChhHHHHHHHHHhccCcEEEEEeccccc-----------cccccccccCCCCCCCcEE
Q 038398          192 LEKIQEKIGRRIGFFDESWKNGSLEDKTSDILRILGKKKFLLLLDDIWER-----------VDLTKVGIPFPDPENKSKI  260 (720)
Q Consensus       192 ~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~-----------~~~~~l~~~~~~~~~gs~i  260 (720)
                       .+    +...+...       ..... ..+.+..  ..-+|+||++...           ..+..+...+.....+.+|
T Consensus        99 -~~----l~~~~~g~-------~~~~~-~~~~~~a--~~gvL~iDEi~~L~~~~~~~~~~~~~~~~Ll~~le~~~~~~~v  163 (284)
T TIGR02880        99 -DD----LVGQYIGH-------TAPKT-KEILKRA--MGGVLFIDEAYYLYRPDNERDYGQEAIEILLQVMENQRDDLVV  163 (284)
T ss_pred             -HH----HhHhhccc-------chHHH-HHHHHHc--cCcEEEEechhhhccCCCccchHHHHHHHHHHHHhcCCCCEEE
Confidence             12    22222110       11111 1222222  3368999998632           1122222233333345566


Q ss_pred             EEEcCChhHhhhh--------ccCceeeccCCChhhHHHHHHHHhcc
Q 038398          261 VFTTHFLEICGAL--------KAHEFLKVECLGPEDAWRLFRENLRR  299 (720)
Q Consensus       261 iiTtR~~~v~~~~--------~~~~~~~l~~L~~~e~~~Lf~~~~~~  299 (720)
                      |+++.....-...        .....+++++++.+|-.+++...+..
T Consensus       164 I~a~~~~~~~~~~~~np~L~sR~~~~i~fp~l~~edl~~I~~~~l~~  210 (284)
T TIGR02880       164 ILAGYKDRMDSFFESNPGFSSRVAHHVDFPDYSEAELLVIAGLMLKE  210 (284)
T ss_pred             EEeCCcHHHHHHHhhCHHHHhhCCcEEEeCCcCHHHHHHHHHHHHHH
Confidence            6666543221111        11356899999999999999887654

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.

>PRK06305 DNA polymerase III subunits gamma and tau; Validated

Probab=98.14  E-value=7.9e-05  Score=80.57  Aligned_cols=184  Identities=15%  Similarity=0.160  Sum_probs=105.9

Q ss_pred             CCCCcCchHHHHHHHHHhcCCCc-eEEEEEcCCCChHHHHHHHHHhhhcCCC--------------------CCcCEEEE
Q 038398          125 CEPTVGLESTFDKVWRCLGEEQV-GIIGLYGMGGVGKTTLLTKINNKLLGAP--------------------NVFDVVIW  183 (720)
Q Consensus       125 ~~~~vGr~~~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~~~~~--------------------~~f~~~~w  183 (720)
                      ..+++|.+..++.+.+++..+.. ..+.++|+.|+||||+|+.+.+......                    .+++ .++
T Consensus        16 ~~diiGq~~~v~~L~~~i~~~~i~ha~Lf~Gp~G~GKtt~A~~lAk~l~c~~~~~~~~~c~~c~~C~~i~~~~~~d-~~~   94 (451)
T PRK06305         16 FSEILGQDAVVAVLKNALRFNRAAHAYLFSGIRGTGKTTLARIFAKALNCQNPTEDQEPCNQCASCKEISSGTSLD-VLE   94 (451)
T ss_pred             HHHhcCcHHHHHHHHHHHHcCCCceEEEEEcCCCCCHHHHHHHHHHHhcCCCcccCCCCCcccHHHHHHhcCCCCc-eEE
Confidence            36789999999999999977665 5678999999999999999988762110                    0111 111


Q ss_pred             EEecCcCCHHHHHHHHHHHhCCCCCccCCCChhHHHHHHHHHhccCcEEEEEeccccc--cccccccccCCCCCCCcEEE
Q 038398          184 VVVSKDLQLEKIQEKIGRRIGFFDESWKNGSLEDKTSDILRILGKKKFLLLLDDIWER--VDLTKVGIPFPDPENKSKIV  261 (720)
Q Consensus       184 v~v~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~ii  261 (720)
                      +.-.....+..+ +.+...+..                  .-..+++-++|+|+++..  .....+...+........+|
T Consensus        95 i~g~~~~gid~i-r~i~~~l~~------------------~~~~~~~kvvIIdead~lt~~~~n~LLk~lEep~~~~~~I  155 (451)
T PRK06305         95 IDGASHRGIEDI-RQINETVLF------------------TPSKSRYKIYIIDEVHMLTKEAFNSLLKTLEEPPQHVKFF  155 (451)
T ss_pred             eeccccCCHHHH-HHHHHHHHh------------------hhhcCCCEEEEEecHHhhCHHHHHHHHHHhhcCCCCceEE
Confidence            110011111111 111111100                  001246678999998643  22333333333333355666


Q ss_pred             EEcC-ChhHhhh-hccCceeeccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCcc-hHHHHHHH
Q 038398          262 FTTH-FLEICGA-LKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGLP-LALITIGR  331 (720)
Q Consensus       262 iTtR-~~~v~~~-~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~GlP-Lai~~~~~  331 (720)
                      ++|. ...+... ......+++.++++++....+...+.....   .--.+.+..|++.++|.+ .|+..+-.
T Consensus       156 l~t~~~~kl~~tI~sRc~~v~f~~l~~~el~~~L~~~~~~eg~---~i~~~al~~L~~~s~gdlr~a~~~Lek  225 (451)
T PRK06305        156 LATTEIHKIPGTILSRCQKMHLKRIPEETIIDKLALIAKQEGI---ETSREALLPIARAAQGSLRDAESLYDY  225 (451)
T ss_pred             EEeCChHhcchHHHHhceEEeCCCCCHHHHHHHHHHHHHHcCC---CCCHHHHHHHHHHcCCCHHHHHHHHHH
Confidence            6553 3333221 223457899999999999888877654321   122567888999999965 45555444

>PRK14950 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.13  E-value=6.2e-05  Score=84.48  Aligned_cols=191  Identities=13%  Similarity=0.111  Sum_probs=107.8

Q ss_pred             CCCcCchHHHHHHHHHhcCCCc-eEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHHHHHhC
Q 038398          126 EPTVGLESTFDKVWRCLGEEQV-GIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKIGRRIG  204 (720)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i~~~l~  204 (720)
                      .++||.+..++.|..++..+.. ..+.++|+.|+||||+|+.+++.... .....      ....++.....+.+.....
T Consensus        16 ~eiiGq~~~~~~L~~~i~~~~i~~a~Lf~Gp~G~GKTtlA~~lA~~l~c-~~~~~------~~~~c~~c~~c~~i~~~~~   88 (585)
T PRK14950         16 AELVGQEHVVQTLRNAIAEGRVAHAYLFTGPRGVGKTSTARILAKAVNC-TTNDP------KGRPCGTCEMCRAIAEGSA   88 (585)
T ss_pred             HHhcCCHHHHHHHHHHHHhCCCceEEEEECCCCCCHHHHHHHHHHHhcC-CCCCC------CCCCCccCHHHHHHhcCCC
Confidence            5789999999999999877654 45689999999999999999887621 00000      0011122222333332221


Q ss_pred             CCCCcc---CCCChhHHHHHHHHHh-----ccCcEEEEEeccccc--cccccccccCCCCCCCcEEEEEcCC-hhHhhh-
Q 038398          205 FFDESW---KNGSLEDKTSDILRIL-----GKKKFLLLLDDIWER--VDLTKVGIPFPDPENKSKIVFTTHF-LEICGA-  272 (720)
Q Consensus       205 ~~~~~~---~~~~~~~~~~~l~~~l-----~~k~~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~iiiTtR~-~~v~~~-  272 (720)
                      ...-..   .....++. ..+.+.+     .+++-++|+|+++..  .....+...+......+.+|++|.+ ..+... 
T Consensus        89 ~d~~~i~~~~~~~vd~i-r~ii~~~~~~p~~~~~kVvIIDEa~~L~~~a~naLLk~LEepp~~tv~Il~t~~~~kll~tI  167 (585)
T PRK14950         89 VDVIEMDAASHTSVDDA-REIIERVQFRPALARYKVYIIDEVHMLSTAAFNALLKTLEEPPPHAIFILATTEVHKVPATI  167 (585)
T ss_pred             CeEEEEeccccCCHHHH-HHHHHHHhhCcccCCeEEEEEeChHhCCHHHHHHHHHHHhcCCCCeEEEEEeCChhhhhHHH
Confidence            110000   01111221 2222222     235668999998643  3344443333333345566655543 333221 


Q ss_pred             hccCceeeccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCcchHHH
Q 038398          273 LKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGLPLALI  327 (720)
Q Consensus       273 ~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~GlPLai~  327 (720)
                      ......+.+.+++.++....+...+......   --.+.+..|++.++|.+..+.
T Consensus       168 ~SR~~~i~f~~l~~~el~~~L~~~a~~egl~---i~~eal~~La~~s~Gdlr~al  219 (585)
T PRK14950        168 LSRCQRFDFHRHSVADMAAHLRKIAAAEGIN---LEPGALEAIARAATGSMRDAE  219 (585)
T ss_pred             HhccceeeCCCCCHHHHHHHHHHHHHHcCCC---CCHHHHHHHHHHcCCCHHHHH
Confidence            1223568899999999998888877543311   125678899999999875443

>PF05621 TniB: Bacterial TniB protein; InterPro: IPR008868 This family consists of several bacterial TniB NTP-binding proteins

Probab=98.13  E-value=0.00011  Score=73.08  Aligned_cols=193  Identities=15%  Similarity=0.128  Sum_probs=113.7

Q ss_pred             HHHHHHHhcC---CCceEEEEEcCCCChHHHHHHHHHhhhcCCCC---CcCEEEEEEecCcCCHHHHHHHHHHHhCCCCC
Q 038398          135 FDKVWRCLGE---EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPN---VFDVVIWVVVSKDLQLEKIQEKIGRRIGFFDE  208 (720)
Q Consensus       135 ~~~l~~~L~~---~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~---~f~~~~wv~v~~~~~~~~~~~~i~~~l~~~~~  208 (720)
                      ++++.+++..   ...+-+.|+|.+|.|||++++++........+   .--.|+.|.....++...+...|+.+++.+..
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            4444554533   34577999999999999999999987632111   11158888888999999999999999998764


Q ss_pred             ccCCCChhHHHHHHHHHhcc-CcEEEEEeccccccc-----cccccc---cCCCCCCCcEEEEEcCChhHhhhh-----c
Q 038398          209 SWKNGSLEDKTSDILRILGK-KKFLLLLDDIWERVD-----LTKVGI---PFPDPENKSKIVFTTHFLEICGAL-----K  274 (720)
Q Consensus       209 ~~~~~~~~~~~~~l~~~l~~-k~~LlVlDdv~~~~~-----~~~l~~---~~~~~~~gs~iiiTtR~~~v~~~~-----~  274 (720)
                      .  ..............++. +--+||+|++.+.-.     -..+..   .+...-.=+-|.+-|+...-+-..     .
T Consensus       126 ~--~~~~~~~~~~~~~llr~~~vrmLIIDE~H~lLaGs~~~qr~~Ln~LK~L~NeL~ipiV~vGt~~A~~al~~D~QLa~  203 (302)
T PF05621_consen  126 P--RDRVAKLEQQVLRLLRRLGVRMLIIDEFHNLLAGSYRKQREFLNALKFLGNELQIPIVGVGTREAYRALRTDPQLAS  203 (302)
T ss_pred             C--CCCHHHHHHHHHHHHHHcCCcEEEeechHHHhcccHHHHHHHHHHHHHHhhccCCCeEEeccHHHHHHhccCHHHHh
Confidence            2  33444555555566655 445999999976311     111111   111111223455555432221111     1


Q ss_pred             cCceeeccCCChhh-HHHHHHHHhccCcc--CCCCChHHHHHHHHHHhCCcchHHHHH
Q 038398          275 AHEFLKVECLGPED-AWRLFRENLRRDVL--DNHPDIPELARSVAQECAGLPLALITI  329 (720)
Q Consensus       275 ~~~~~~l~~L~~~e-~~~Lf~~~~~~~~~--~~~~~~~~~~~~i~~~c~GlPLai~~~  329 (720)
                      -..++.++....++ ...|+......-..  ..+-...+++..|...++|+.=-+..+
T Consensus       204 RF~~~~Lp~W~~d~ef~~LL~s~e~~LPLr~~S~l~~~~la~~i~~~s~G~iG~l~~l  261 (302)
T PF05621_consen  204 RFEPFELPRWELDEEFRRLLASFERALPLRKPSNLASPELARRIHERSEGLIGELSRL  261 (302)
T ss_pred             ccCCccCCCCCCCcHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHcCCchHHHHHH
Confidence            12466777776544 44444333211111  222345789999999999987555443

TniB is a probable ATP-binding protein [] which is involved in Tn5053 mercury resistance transposition [].

>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=98.12  E-value=2.3e-05  Score=76.27  Aligned_cols=158  Identities=18%  Similarity=0.180  Sum_probs=91.1

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHHHHHhCCCCCccCCCChhHHHHHHHHHh
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKIGRRIGFFDESWKNGSLEDKTSDILRIL  226 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l  226 (720)
                      ...+.|+|+.|+|||.|.+++++...+ ...-..++|++      ..++...+...+..           .....+++.+
T Consensus        34 ~~~l~l~G~~G~GKTHLL~Ai~~~~~~-~~~~~~v~y~~------~~~f~~~~~~~~~~-----------~~~~~~~~~~   95 (219)
T PF00308_consen   34 YNPLFLYGPSGLGKTHLLQAIANEAQK-QHPGKRVVYLS------AEEFIREFADALRD-----------GEIEEFKDRL   95 (219)
T ss_dssp             SSEEEEEESTTSSHHHHHHHHHHHHHH-HCTTS-EEEEE------HHHHHHHHHHHHHT-----------TSHHHHHHHH
T ss_pred             CCceEEECCCCCCHHHHHHHHHHHHHh-ccccccceeec------HHHHHHHHHHHHHc-----------ccchhhhhhh
Confidence            456899999999999999999998721 11122566764      34555555555532           1123344445


Q ss_pred             ccCcEEEEEecccccc---cccc-ccccCC-CCCCCcEEEEEcCChh---------HhhhhccCceeeccCCChhhHHHH
Q 038398          227 GKKKFLLLLDDIWERV---DLTK-VGIPFP-DPENKSKIVFTTHFLE---------ICGALKAHEFLKVECLGPEDAWRL  292 (720)
Q Consensus       227 ~~k~~LlVlDdv~~~~---~~~~-l~~~~~-~~~~gs~iiiTtR~~~---------v~~~~~~~~~~~l~~L~~~e~~~L  292 (720)
                      .+ -=+|++||++...   .|.. +...+. ....|.+||+|++...         +...+...-.+++++++.++...+
T Consensus        96 ~~-~DlL~iDDi~~l~~~~~~q~~lf~l~n~~~~~~k~li~ts~~~P~~l~~~~~~L~SRl~~Gl~~~l~~pd~~~r~~i  174 (219)
T PF00308_consen   96 RS-ADLLIIDDIQFLAGKQRTQEELFHLFNRLIESGKQLILTSDRPPSELSGLLPDLRSRLSWGLVVELQPPDDEDRRRI  174 (219)
T ss_dssp             CT-SSEEEEETGGGGTTHHHHHHHHHHHHHHHHHTTSEEEEEESS-TTTTTTS-HHHHHHHHCSEEEEE----HHHHHHH
T ss_pred             hc-CCEEEEecchhhcCchHHHHHHHHHHHHHHhhCCeEEEEeCCCCccccccChhhhhhHhhcchhhcCCCCHHHHHHH
Confidence            43 3378899997532   1221 111111 1134678999996432         233344556899999999999999


Q ss_pred             HHHHhccCccCCCCChHHHHHHHHHHhCCcchHH
Q 038398          293 FRENLRRDVLDNHPDIPELARSVAQECAGLPLAL  326 (720)
Q Consensus       293 f~~~~~~~~~~~~~~~~~~~~~i~~~c~GlPLai  326 (720)
                      +.+.+......   --++++.-|++.+.+..-.+
T Consensus       175 l~~~a~~~~~~---l~~~v~~~l~~~~~~~~r~L  205 (219)
T PF00308_consen  175 LQKKAKERGIE---LPEEVIEYLARRFRRDVREL  205 (219)
T ss_dssp             HHHHHHHTT-----S-HHHHHHHHHHTTSSHHHH
T ss_pred             HHHHHHHhCCC---CcHHHHHHHHHhhcCCHHHH
Confidence            99988754422   22566777777766544433

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.

>PRK11331 5-methylcytosine-specific restriction enzyme subunit McrB; Provisional

Probab=98.11  E-value=2.5e-05  Score=82.11  Aligned_cols=107  Identities=18%  Similarity=0.135  Sum_probs=71.8

Q ss_pred             CCCcCchHHHHHHHHHhcCCCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHHHHHhCC
Q 038398          126 EPTVGLESTFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKIGRRIGF  205 (720)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i~~~l~~  205 (720)
                      .+.++.+..++.+...|...  +.|.++|++|+|||++|+.+++.. .....|+.+.||.+++..+..++...+.-    
T Consensus       175 ~d~~i~e~~le~l~~~L~~~--~~iil~GppGtGKT~lA~~la~~l-~~~~~~~~v~~VtFHpsySYeDFI~G~rP----  247 (459)
T PRK11331        175 NDLFIPETTIETILKRLTIK--KNIILQGPPGVGKTFVARRLAYLL-TGEKAPQRVNMVQFHQSYSYEDFIQGYRP----  247 (459)
T ss_pred             hcccCCHHHHHHHHHHHhcC--CCEEEECCCCCCHHHHHHHHHHHh-cCCcccceeeEEeecccccHHHHhcccCC----
Confidence            45788899999999998653  567789999999999999999987 44457888999999998887766542211    


Q ss_pred             CCCccCCCChhHHHHHHHHHh--ccCcEEEEEecccc
Q 038398          206 FDESWKNGSLEDKTSDILRIL--GKKKFLLLLDDIWE  240 (720)
Q Consensus       206 ~~~~~~~~~~~~~~~~l~~~l--~~k~~LlVlDdv~~  240 (720)
                      ........ ..-..+.+...-  .++++++|+|++..
T Consensus       248 ~~vgy~~~-~G~f~~~~~~A~~~p~~~~vliIDEINR  283 (459)
T PRK11331        248 NGVGFRRK-DGIFYNFCQQAKEQPEKKYVFIIDEINR  283 (459)
T ss_pred             CCCCeEec-CchHHHHHHHHHhcccCCcEEEEehhhc
Confidence            00000000 011112222222  24689999999864

>COG3903 Predicted ATPase [General function prediction only]

Probab=98.11  E-value=2.9e-06  Score=86.36  Aligned_cols=295  Identities=17%  Similarity=0.174  Sum_probs=184.7

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhhcCCCCCc-CEEEEEEecCcCCHHHHHHHHHHHhCCCCCccCCCChhHHHHHHHH
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVF-DVVIWVVVSKDLQLEKIQEKIGRRIGFFDESWKNGSLEDKTSDILR  224 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f-~~~~wv~v~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~  224 (720)
                      ..+.+.++|.|||||||++-.+.+ .   ..-| +.+.++....-.+...+.-.+...++...     .+-+.....+..
T Consensus        13 ~~RlvtL~g~ggvgkttl~~~~a~-~---~~~~~~~v~~vdl~pitD~~~v~~~~ag~~gl~~-----~~g~~~~~~~~~   83 (414)
T COG3903          13 ALRLVTLTGAGGVGKTTLALQAAH-A---ASEYADGVAFVDLAPITDPALVFPTLAGALGLHV-----QPGDSAVDTLVR   83 (414)
T ss_pred             hhheeeeeccCccceehhhhhhHh-H---hhhcccceeeeeccccCchhHhHHHHHhhccccc-----ccchHHHHHHHH
Confidence            457899999999999999999988 4   3344 57778888777777777777777777653     223445556777


Q ss_pred             HhccCcEEEEEeccccccc-cccccccCCCCCCCcEEEEEcCChhHhhhhccCceeeccCCChh-hHHHHHHHHhccCc-
Q 038398          225 ILGKKKFLLLLDDIWERVD-LTKVGIPFPDPENKSKIVFTTHFLEICGALKAHEFLKVECLGPE-DAWRLFRENLRRDV-  301 (720)
Q Consensus       225 ~l~~k~~LlVlDdv~~~~~-~~~l~~~~~~~~~gs~iiiTtR~~~v~~~~~~~~~~~l~~L~~~-e~~~Lf~~~~~~~~-  301 (720)
                      ...+++.++|+||.....+ -......+..+...-.|+.|+|....   ......+.+++|+.. ++.++|...+.... 
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 11111112223334567888885432   234456778888765 79999887764221 


Q ss_pred             -cCCCCChHHHHHHHHHHhCCcchHHHHHHHHHhcCCChhHHHHH----HHHHhcccCCCCCCCccchhhHHhhcCCCCC
Q 038398          302 -LDNHPDIPELARSVAQECAGLPLALITIGRAMACKKTPQEWHYA----IQVLRRSASEFPGMGKEVYPLLKFSYDSLPD  376 (720)
Q Consensus       302 -~~~~~~~~~~~~~i~~~c~GlPLai~~~~~~l~~~~~~~~w~~~----l~~l~~~~~~~~~~~~~~~~~l~~sy~~L~~  376 (720)
                       ......-.....+|.++..|.|++|...++..+. ....+-...    ...+........--+......+.+||.-|..
T Consensus       161 ~f~l~~~~~a~v~~icr~ldg~~laielaaarv~s-l~~~~i~~~L~drf~ll~~~~r~a~~~~qtl~asl~ws~~lLtg  239 (414)
T COG3903         161 SFWLTDDNAAAVAEICRRLDGIPLAIELAAARVRS-LSPDEIAAGLRDRFRLLTGGARLAVLRQQTLRASLDWSYALLTG  239 (414)
T ss_pred             ceeecCCchHHHHHHHHHhhcchHHHHHHHHHHHh-cCHHHHHHHHhhHHHHHhcccccchhHHHhccchhhhhhHhhhh
Confidence             1122233567889999999999999999988775 222222111    1112221111111123677889999999998


Q ss_pred             cchhHHHHhhcCCCCCcccChHHHHHHHHhhCCCCcccchhhHHhHHHHHHHHHHhccccccCCCCCcccCCceEEEehH
Q 038398          377 DTIRSYLLYCGLFPEDYRIRKSELIDCWIGEGFLDQYDRSGAYNEGYYIIGILLHACLLEEEGGDIGEEESGEHVVKMHD  456 (720)
Q Consensus       377 ~~~k~~fl~~~~fp~~~~i~~~~li~~Wiaeg~~~~~~~~~~~~~~~~~~~~L~~~sll~~~~~~~~~~~~~~~~~~mHd  456 (720)
                       ..+..|.-++.|...+...    ...|.+.|-...    .........+..+++.+++.-..      ......|+.-+
T Consensus       240 -we~~~~~rLa~~~g~f~~~----l~~~~a~g~~~~----~~~y~~~~a~~ll~~kslv~a~~------~~~~a~~Rl~e  304 (414)
T COG3903         240 -WERALFGRLAVFVGGFDLG----LALAVAAGADVD----VPRYLVLLALTLLVDKSLVVALD------LLGRARYRLLE  304 (414)
T ss_pred             -HHHHHhcchhhhhhhhccc----HHHHHhcCCccc----cchHHHHHHHHHHhhccchhhhh------hhhHHHHHHHH
Confidence             7888899999998776554    234545443221    12233444567788888765443      11234455556


Q ss_pred             HHHHHHHHHHhh
Q 038398          457 VIRDMVLWIACK  468 (720)
Q Consensus       457 lv~~~a~~~~~~  468 (720)
                      -.+.|+..+-.+
T Consensus       305 T~r~YalaeL~r  316 (414)
T COG3903         305 TGRRYALAELHR  316 (414)
T ss_pred             HHHHHHHHHHHh
Confidence            666676666544

>PRK07133 DNA polymerase III subunits gamma and tau; Validated

Probab=98.10  E-value=8.3e-05  Score=83.21  Aligned_cols=189  Identities=12%  Similarity=0.106  Sum_probs=105.4

Q ss_pred             CCCcCchHHHHHHHHHhcCCCc-eEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHHHHHhC
Q 038398          126 EPTVGLESTFDKVWRCLGEEQV-GIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKIGRRIG  204 (720)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i~~~l~  204 (720)
                      .+++|.+..++.+..++..+++ +.+.++|+.|+||||+|+.++...........   +-    .+.   -....   .+
T Consensus        18 ~dIiGQe~~v~~L~~aI~~~rl~HAYLF~GP~GtGKTt~AriLAk~LnC~~~~~~---~~----pC~---~C~~~---~~   84 (725)
T PRK07133         18 DDIVGQDHIVQTLKNIIKSNKISHAYLFSGPRGTGKTSVAKIFANALNCSHKTDL---LE----PCQ---ECIEN---VN   84 (725)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCcHHHHHHHHHHHhcccccCCC---CC----chh---HHHHh---hc
Confidence            5679999999999999987654 56689999999999999999877521100000   00    000   00000   00


Q ss_pred             CCCC-----ccCCCChhHHHHHHHHHh-----ccCcEEEEEeccccc--cccccccccCCCCCCCcEEE-EEcCChhHhh
Q 038398          205 FFDE-----SWKNGSLEDKTSDILRIL-----GKKKFLLLLDDIWER--VDLTKVGIPFPDPENKSKIV-FTTHFLEICG  271 (720)
Q Consensus       205 ~~~~-----~~~~~~~~~~~~~l~~~l-----~~k~~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~ii-iTtR~~~v~~  271 (720)
                      ...+     .......++ ++.+.+.+     .+++-++|+|+++..  ..+..+...+........+| +|++...+..
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     000011111 22222222     245668999998743  23444433333323344444 4544444432


Q ss_pred             -hhccCceeeccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCcc-hHHHHHHH
Q 038398          272 -ALKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGLP-LALITIGR  331 (720)
Q Consensus       272 -~~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~GlP-Lai~~~~~  331 (720)
                       .......+++.+++.++....+...+......   .-.+.+..|++.++|.+ .|+..+-.
T Consensus       164 TI~SRcq~ieF~~L~~eeI~~~L~~il~kegI~---id~eAl~~LA~lS~GslR~AlslLek  222 (725)
T PRK07133        164 TILSRVQRFNFRRISEDEIVSRLEFILEKENIS---YEKNALKLIAKLSSGSLRDALSIAEQ  222 (725)
T ss_pred             HHHhhceeEEccCCCHHHHHHHHHHHHHHcCCC---CCHHHHHHHHHHcCCCHHHHHHHHHH
Confidence             22334689999999999999888766543211   12456788999998865 45555544

>PRK03992 proteasome-activating nucleotidase; Provisional

Probab=98.09  E-value=3.1e-05  Score=82.45  Aligned_cols=169  Identities=20%  Similarity=0.295  Sum_probs=96.7

Q ss_pred             CCCcCchHHHHHHHHHhcC-------------CCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCH
Q 038398          126 EPTVGLESTFDKVWRCLGE-------------EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQL  192 (720)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~-------------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~  192 (720)
                      +++.|+++.++++.+.+..             ...+.|.++|++|+|||++|+++++..   ...     |+.++.    
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            4568999999998876521             235678999999999999999999886   222     232221    


Q ss_pred             HHHHHHHHHHhCCCCCccCCCChhHHHHHHHHHh-ccCcEEEEEecccccc------------c----cccccccCC--C
Q 038398          193 EKIQEKIGRRIGFFDESWKNGSLEDKTSDILRIL-GKKKFLLLLDDIWERV------------D----LTKVGIPFP--D  253 (720)
Q Consensus       193 ~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l-~~k~~LlVlDdv~~~~------------~----~~~l~~~~~--~  253 (720)
                      ..+    .....        .........+.+.. ...+.+|+|||++...            .    +..+...+.  .
T Consensus       199 ~~l----~~~~~--------g~~~~~i~~~f~~a~~~~p~IlfiDEiD~l~~~r~~~~~~~~~~~~~~l~~lL~~ld~~~  266 (389)
T PRK03992        199 SEL----VQKFI--------GEGARLVRELFELAREKAPSIIFIDEIDAIAAKRTDSGTSGDREVQRTLMQLLAEMDGFD  266 (389)
T ss_pred             HHH----hHhhc--------cchHHHHHHHHHHHHhcCCeEEEEechhhhhcccccCCCCccHHHHHHHHHHHHhccccC
Confidence            111    11110        01122222333322 3467899999997521            0    111111111  1


Q ss_pred             CCCCcEEEEEcCChhHhh-hh----ccCceeeccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCc
Q 038398          254 PENKSKIVFTTHFLEICG-AL----KAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGL  322 (720)
Q Consensus       254 ~~~gs~iiiTtR~~~v~~-~~----~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~Gl  322 (720)
                      ...+..||.||....... .+    .-...+.+++.+.++-.++|+.++..........    ...+++.+.|.
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            123556777776543321 11    1235789999999999999998876543222223    45566677664

>CHL00181 cbbX CbbX; Provisional

Probab=98.08  E-value=5.6e-05  Score=76.62  Aligned_cols=155  Identities=13%  Similarity=0.130  Sum_probs=81.2

Q ss_pred             CCcCchHHHHHHHHHh---c-----C-------CCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCC
Q 038398          127 PTVGLESTFDKVWRCL---G-----E-------EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQ  191 (720)
Q Consensus       127 ~~vGr~~~~~~l~~~L---~-----~-------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~  191 (720)
                      .++|.++.+++|.++.   .     .       .....+.++|++|+||||+|+.+++.... .+.-...-|+.++.   
T Consensus        24 ~l~Gl~~vK~~i~e~~~~~~~~~~~~~~g~~~~~~~~~ill~G~pGtGKT~lAr~la~~~~~-~g~~~~~~~~~v~~---   99 (287)
T CHL00181         24 ELVGLAPVKTRIREIAALLLIDRLRKNLGLTSSNPGLHMSFTGSPGTGKTTVALKMADILYK-LGYIKKGHLLTVTR---   99 (287)
T ss_pred             hcCCcHHHHHHHHHHHHHHHHHHHHHHcCCCCCCCCceEEEECCCCCCHHHHHHHHHHHHHH-cCCCCCCceEEecH---
Confidence            4678777666554332   1     0       12235788999999999999999876511 11111112444442   


Q ss_pred             HHHHHHHHHHHhCCCCCccCCCChhHHHHHHHHHhccCcEEEEEeccccc-----------cccccccccCCCCCCCcEE
Q 038398          192 LEKIQEKIGRRIGFFDESWKNGSLEDKTSDILRILGKKKFLLLLDDIWER-----------VDLTKVGIPFPDPENKSKI  260 (720)
Q Consensus       192 ~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~-----------~~~~~l~~~~~~~~~gs~i  260 (720)
                       ..+    ...+...       .... ...+.+..  ..-+|+||++...           +....+...+.....+.+|
T Consensus       100 -~~l----~~~~~g~-------~~~~-~~~~l~~a--~ggVLfIDE~~~l~~~~~~~~~~~e~~~~L~~~me~~~~~~~v  164 (287)
T CHL00181        100 -DDL----VGQYIGH-------TAPK-TKEVLKKA--MGGVLFIDEAYYLYKPDNERDYGSEAIEILLQVMENQRDDLVV  164 (287)
T ss_pred             -HHH----HHHHhcc-------chHH-HHHHHHHc--cCCEEEEEccchhccCCCccchHHHHHHHHHHHHhcCCCCEEE
Confidence             122    2222100       1111 11222212  2349999998642           1112222223333345667


Q ss_pred             EEEcCChhHhhhh--------ccCceeeccCCChhhHHHHHHHHhccC
Q 038398          261 VFTTHFLEICGAL--------KAHEFLKVECLGPEDAWRLFRENLRRD  300 (720)
Q Consensus       261 iiTtR~~~v~~~~--------~~~~~~~l~~L~~~e~~~Lf~~~~~~~  300 (720)
                      |+++....+....        .....+.+++++.+|..+++...+...
T Consensus       165 I~ag~~~~~~~~~~~np~L~sR~~~~i~F~~~t~~el~~I~~~~l~~~  212 (287)
T CHL00181        165 IFAGYKDRMDKFYESNPGLSSRIANHVDFPDYTPEELLQIAKIMLEEQ  212 (287)
T ss_pred             EEeCCcHHHHHHHhcCHHHHHhCCceEEcCCcCHHHHHHHHHHHHHHh
Confidence            7777543332111        123578999999999999988887543

>PRK14953 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.08  E-value=0.00013  Score=79.51  Aligned_cols=174  Identities=13%  Similarity=0.112  Sum_probs=101.7

Q ss_pred             CCCcCchHHHHHHHHHhcCCCce-EEEEEcCCCChHHHHHHHHHhhhcCCCC------------------CcCEEEEEEe
Q 038398          126 EPTVGLESTFDKVWRCLGEEQVG-IIGLYGMGGVGKTTLLTKINNKLLGAPN------------------VFDVVIWVVV  186 (720)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~~~-vi~I~G~gGiGKTtLa~~v~~~~~~~~~------------------~f~~~~wv~v  186 (720)
                      .+++|.+..++.+..++..+... .+.++|+.|+||||+|+.++........                  .|..++++..
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            56799999999999999876544 5678999999999999998876521000                  0111122211


Q ss_pred             cCcCCHHHHHHHHHHHhCCCCCccCCCChhHHHHHHHHHh-----ccCcEEEEEeccccc--cccccccccCCCCCCCcE
Q 038398          187 SKDLQLEKIQEKIGRRIGFFDESWKNGSLEDKTSDILRIL-----GKKKFLLLLDDIWER--VDLTKVGIPFPDPENKSK  259 (720)
Q Consensus       187 ~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l-----~~k~~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~  259 (720)
                      +....                       .+ ..+.+.+..     .+++-++|+|+++..  .....+...+........
T Consensus        96 as~~g-----------------------vd-~ir~I~~~~~~~P~~~~~KVvIIDEad~Lt~~a~naLLk~LEepp~~~v  151 (486)
T PRK14953         96 ASNRG-----------------------ID-DIRALRDAVSYTPIKGKYKVYIIDEAHMLTKEAFNALLKTLEEPPPRTI  151 (486)
T ss_pred             ccCCC-----------------------HH-HHHHHHHHHHhCcccCCeeEEEEEChhhcCHHHHHHHHHHHhcCCCCeE
Confidence            11111                       11 111222222     245669999998743  223333333333233445


Q ss_pred             EEEEc-CChhHhhh-hccCceeeccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCcchHH
Q 038398          260 IVFTT-HFLEICGA-LKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGLPLAL  326 (720)
Q Consensus       260 iiiTt-R~~~v~~~-~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~GlPLai  326 (720)
                      +|++| +...+... ......+.+.+++.++....+...+......   .-.+.+..|++.++|.+..+
T Consensus       152 ~Il~tt~~~kl~~tI~SRc~~i~f~~ls~~el~~~L~~i~k~egi~---id~~al~~La~~s~G~lr~a  217 (486)
T PRK14953        152 FILCTTEYDKIPPTILSRCQRFIFSKPTKEQIKEYLKRICNEEKIE---YEEKALDLLAQASEGGMRDA  217 (486)
T ss_pred             EEEEECCHHHHHHHHHHhceEEEcCCCCHHHHHHHHHHHHHHcCCC---CCHHHHHHHHHHcCCCHHHH
Confidence            55444 43333221 2233578899999999998888876543311   22456778888999866543

>KOG2227 consensus Pre-initiation complex, subunit CDC6, AAA+ superfamily ATPase [Replication, recombination and repair; Cell cycle control, cell division, chromosome partitioning]

Probab=98.08  E-value=0.00016  Score=74.76  Aligned_cols=206  Identities=19%  Similarity=0.161  Sum_probs=122.2

Q ss_pred             CCCCCcCchHHHHHHHHHhcC----CCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHH
Q 038398          124 PCEPTVGLESTFDKVWRCLGE----EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKI  199 (720)
Q Consensus       124 ~~~~~vGr~~~~~~l~~~L~~----~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i  199 (720)
                      ++...+|||.++..+..|+..    ...+-+.|.|-+|.|||.+...++.+... ...-..++++++..-.....++..|
T Consensus       148 ~p~~l~gRe~e~~~v~~F~~~hle~~t~gSlYVsG~PGtgkt~~l~rvl~~~~~-~~~~~~~v~inc~sl~~~~aiF~kI  226 (529)
T KOG2227|consen  148 PPGTLKGRELEMDIVREFFSLHLELNTSGSLYVSGQPGTGKTALLSRVLDSLSK-SSKSPVTVYINCTSLTEASAIFKKI  226 (529)
T ss_pred             CCCCccchHHHHHHHHHHHHhhhhcccCcceEeeCCCCcchHHHHHHHHHhhhh-hcccceeEEEeeccccchHHHHHHH
Confidence            346679999999999999854    45678999999999999999999998721 1111256788776656667777777


Q ss_pred             HHHhCCCCCccCCCChhHHHHHHHHHhccC--cEEEEEecccccc--ccccccccCC-CCCCCcEEEEEcCCh--h----
Q 038398          200 GRRIGFFDESWKNGSLEDKTSDILRILGKK--KFLLLLDDIWERV--DLTKVGIPFP-DPENKSKIVFTTHFL--E----  268 (720)
Q Consensus       200 ~~~l~~~~~~~~~~~~~~~~~~l~~~l~~k--~~LlVlDdv~~~~--~~~~l~~~~~-~~~~gs~iiiTtR~~--~----  268 (720)
                      ...+-....  ......+....+.....+.  .+|+|+|+.+...  .-..+...|. ..-.++++|+.---.  +    
T Consensus       227 ~~~~~q~~~--s~~~~~~~~~~~~~h~~q~k~~~llVlDEmD~L~tr~~~vLy~lFewp~lp~sr~iLiGiANslDlTdR  304 (529)
T KOG2227|consen  227 FSSLLQDLV--SPGTGMQHLEKFEKHTKQSKFMLLLVLDEMDHLITRSQTVLYTLFEWPKLPNSRIILIGIANSLDLTDR  304 (529)
T ss_pred             HHHHHHHhc--CCchhHHHHHHHHHHHhcccceEEEEechhhHHhhcccceeeeehhcccCCcceeeeeeehhhhhHHHH
Confidence            777621111  1222355666666666553  5899999986421  1111111121 122455655432111  1    


Q ss_pred             Hhhh-----hccCceeeccCCChhhHHHHHHHHhccCccC--CCCChHHHHHHHHHHhCCcchHHHHHHHH
Q 038398          269 ICGA-----LKAHEFLKVECLGPEDAWRLFRENLRRDVLD--NHPDIPELARSVAQECAGLPLALITIGRA  332 (720)
Q Consensus       269 v~~~-----~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~--~~~~~~~~~~~i~~~c~GlPLai~~~~~~  332 (720)
                      ....     ......+..+|.+.++-.+++..+.......  .+..++-.|++++...|-+-.|+.+.-++
T Consensus       305 ~LprL~~~~~~~P~~l~F~PYTk~qI~~Il~~rl~~~~t~~~~~~Aie~~ArKvaa~SGDlRkaLdv~R~a  375 (529)
T KOG2227|consen  305 FLPRLNLDLTIKPKLLVFPPYTKDQIVEILQQRLSEESTSIFLNAAIELCARKVAAPSGDLRKALDVCRRA  375 (529)
T ss_pred             HhhhhhhccCCCCceeeecCCCHHHHHHHHHHHHhcccccccchHHHHHHHHHhccCchhHHHHHHHHHHH
Confidence            1111     1223567889999999999999987643311  11123333444444444455555554433

>PF14516 AAA_35: AAA-like domain

Probab=98.08  E-value=0.00027  Score=73.55  Aligned_cols=200  Identities=15%  Similarity=0.128  Sum_probs=118.7

Q ss_pred             CCCcCchHHHHHHHHHhcCCCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCc-----CCHHHHH----
Q 038398          126 EPTVGLESTFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKD-----LQLEKIQ----  196 (720)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~-----~~~~~~~----  196 (720)
                      +-.|.|...-+++.+.+.+. -..+.|.|+-.+|||||..++.+...  +..+ .++++++...     .+....+    
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            34589997777888877653 36899999999999999999998872  2233 4567877652     2344444    


Q ss_pred             HHHHHHhCCCCCc---c--CCCChhHHHHHHHHHh---ccCcEEEEEecccccccc----ccccccCC----C-----CC
Q 038398          197 EKIGRRIGFFDES---W--KNGSLEDKTSDILRIL---GKKKFLLLLDDIWERVDL----TKVGIPFP----D-----PE  255 (720)
Q Consensus       197 ~~i~~~l~~~~~~---~--~~~~~~~~~~~l~~~l---~~k~~LlVlDdv~~~~~~----~~l~~~~~----~-----~~  255 (720)
                      ..+.++++....-   +  ...........+.+.+   .+++.+|+||+|+.....    ..+...+.    .     ..
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            4555555543210   0  0112223333344432   258999999999753221    11111000    0     00


Q ss_pred             CCcEEE-EEcCChhHhhh-----hccCceeeccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCcchHHHHH
Q 038398          256 NKSKIV-FTTHFLEICGA-----LKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGLPLALITI  329 (720)
Q Consensus       256 ~gs~ii-iTtR~~~v~~~-----~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~GlPLai~~~  329 (720)
                      ..-+++ +.+........     ......++|++++.+|..+|...+-..-       -.+..++|...+||+|.-+..+
T Consensus       167 ~~L~li~~~~t~~~~~~~~~~SPFNIg~~i~L~~Ft~~ev~~L~~~~~~~~-------~~~~~~~l~~~tgGhP~Lv~~~  239 (331)
T PF14516_consen  167 QKLRLILAGSTEDYIILDINQSPFNIGQPIELPDFTPEEVQELAQRYGLEF-------SQEQLEQLMDWTGGHPYLVQKA  239 (331)
T ss_pred             ceEEEEEecCcccccccCCCCCCcccccceeCCCCCHHHHHHHHHhhhccC-------CHHHHHHHHHHHCCCHHHHHHH
Confidence            111122 22211111111     1123568999999999999998763321       1233899999999999999999


Q ss_pred             HHHHhcC
Q 038398          330 GRAMACK  336 (720)
Q Consensus       330 ~~~l~~~  336 (720)
                      +..+...
T Consensus       240 ~~~l~~~  246 (331)
T PF14516_consen  240 CYLLVEE  246 (331)
T ss_pred             HHHHHHc
Confidence            9998763

>PRK06647 DNA polymerase III subunits gamma and tau; Validated

Probab=98.07  E-value=0.00011  Score=81.46  Aligned_cols=194  Identities=13%  Similarity=0.113  Sum_probs=107.6

Q ss_pred             CCCCcCchHHHHHHHHHhcCCCc-eEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHHHHHh
Q 038398          125 CEPTVGLESTFDKVWRCLGEEQV-GIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKIGRRI  203 (720)
Q Consensus       125 ~~~~vGr~~~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i~~~l  203 (720)
                      ..++||.+..++.+..++..+.. +.+.++|+.|+||||+|+.+++..... .....   ..+..    -...+.+...-
T Consensus        15 f~diiGqe~iv~~L~~~i~~~~i~hayLf~Gp~G~GKTt~Ar~lAk~L~c~-~~~~~---~pC~~----C~~C~~i~~~~   86 (563)
T PRK06647         15 FNSLEGQDFVVETLKHSIESNKIANAYIFSGPRGVGKTSSARAFARCLNCV-NGPTP---MPCGE----CSSCKSIDNDN   86 (563)
T ss_pred             HHHccCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhhccc-cCCCC---CCCcc----chHHHHHHcCC
Confidence            35789999999999999987654 468899999999999999998876211 11000   00000    00001111110


Q ss_pred             CCCC---CccCCCChhHHHHHHHH-----HhccCcEEEEEeccccc--cccccccccCCCCCCCcEEEEEcCC-hhHhhh
Q 038398          204 GFFD---ESWKNGSLEDKTSDILR-----ILGKKKFLLLLDDIWER--VDLTKVGIPFPDPENKSKIVFTTHF-LEICGA  272 (720)
Q Consensus       204 ~~~~---~~~~~~~~~~~~~~l~~-----~l~~k~~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~iiiTtR~-~~v~~~  272 (720)
                      ....   +.......++.. .+.+     -..+++-++|+|+++..  ..+..+...+......+.+|++|.. ..+...
T Consensus        87 ~~dv~~idgas~~~vddIr-~l~e~~~~~p~~~~~KVvIIDEa~~Ls~~a~naLLK~LEepp~~~vfI~~tte~~kL~~t  165 (563)
T PRK06647         87 SLDVIEIDGASNTSVQDVR-QIKEEIMFPPASSRYRVYIIDEVHMLSNSAFNALLKTIEEPPPYIVFIFATTEVHKLPAT  165 (563)
T ss_pred             CCCeEEecCcccCCHHHHH-HHHHHHHhchhcCCCEEEEEEChhhcCHHHHHHHHHhhccCCCCEEEEEecCChHHhHHH
Confidence            0000   000011122221 1211     12356668999998753  3344444344333345666655543 333221


Q ss_pred             -hccCceeeccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCcch-HHHHHH
Q 038398          273 -LKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGLPL-ALITIG  330 (720)
Q Consensus       273 -~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~GlPL-ai~~~~  330 (720)
                       ......+++.+++.++....+...+.....   +--.+.+..|++.++|.+- |+..+-
T Consensus       166 I~SRc~~~~f~~l~~~el~~~L~~i~~~egi---~id~eAl~lLa~~s~GdlR~alslLd  222 (563)
T PRK06647        166 IKSRCQHFNFRLLSLEKIYNMLKKVCLEDQI---KYEDEALKWIAYKSTGSVRDAYTLFD  222 (563)
T ss_pred             HHHhceEEEecCCCHHHHHHHHHHHHHHcCC---CCCHHHHHHHHHHcCCCHHHHHHHHH
Confidence             223356899999999998888887654331   1225667789999999774 444443

>KOG0531 consensus Protein phosphatase 1, regulatory subunit, and related proteins [Signal transduction mechanisms]

Probab=98.05  E-value=5.9e-07  Score=97.07  Aligned_cols=124  Identities=29%  Similarity=0.411  Sum_probs=92.0

Q ss_pred             ccceeEEEeccccccc-CCCCCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCccCCccccCCCCCCEEec
Q 038398          493 WRNVRRMSLMKNKIEN-LSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDL  571 (720)
Q Consensus       493 ~~~l~~L~l~~~~~~~-~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L  571 (720)
                      +..+..+++..|.+.. ......+.+|..|++.+|.+..+... +..+++|++|+|++|.+. .+. .+..++.|+.|++
T Consensus        71 l~~l~~l~l~~n~i~~~~~~l~~~~~l~~l~l~~n~i~~i~~~-l~~~~~L~~L~ls~N~I~-~i~-~l~~l~~L~~L~l  147 (414)
T KOG0531|consen   71 LTSLKELNLRQNLIAKILNHLSKLKSLEALDLYDNKIEKIENL-LSSLVNLQVLDLSFNKIT-KLE-GLSTLTLLKELNL  147 (414)
T ss_pred             hHhHHhhccchhhhhhhhcccccccceeeeeccccchhhcccc-hhhhhcchheeccccccc-ccc-chhhccchhhhee
Confidence            3455566677777776 33367889999999999998887653 678999999999999554 443 5778888999999


Q ss_pred             cCCCCcccchhhhcCCCCCEEeccCCcCCCCCchhhhhccccCceeeccc
Q 038398          572 SSTAITHLPIELQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFD  621 (720)
Q Consensus       572 ~~~~i~~lp~~i~~l~~L~~L~l~~~~~l~~lp~~~~~~l~~L~~L~~~~  621 (720)
                      ++|.|+.++ .+..+++|+.+++++ +.+..++......+.+++.+.+.+
T Consensus       148 ~~N~i~~~~-~~~~l~~L~~l~l~~-n~i~~ie~~~~~~~~~l~~l~l~~  195 (414)
T KOG0531|consen  148 SGNLISDIS-GLESLKSLKLLDLSY-NRIVDIENDELSELISLEELDLGG  195 (414)
T ss_pred             ccCcchhcc-CCccchhhhcccCCc-chhhhhhhhhhhhccchHHHhccC
Confidence            999999886 466799999999999 455555541025556655555554

>KOG2543 consensus Origin recognition complex, subunit 5 [Replication, recombination and repair]

Probab=98.04  E-value=6e-05  Score=75.75  Aligned_cols=164  Identities=18%  Similarity=0.212  Sum_probs=104.3

Q ss_pred             CCCcCchHHHHHHHHHhcCCC---ceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHHHHH
Q 038398          126 EPTVGLESTFDKVWRCLGEEQ---VGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKIGRR  202 (720)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~---~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i~~~  202 (720)
                      +.+.+||.++..+..++.+..   +.+|.|+|-.|.|||.+.+++++.. ..     ..+|+++-..++.+.++..|+.+
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            467899999999999997643   3566899999999999999999886 21     35899999999999999999999


Q ss_pred             hCCCC-Ccc-CCCChhH---HHHHHHH--Hhc--cCcEEEEEeccccccccccccc----cCC--CCCCCcEEEEEcCC-
Q 038398          203 IGFFD-ESW-KNGSLED---KTSDILR--ILG--KKKFLLLLDDIWERVDLTKVGI----PFP--DPENKSKIVFTTHF-  266 (720)
Q Consensus       203 l~~~~-~~~-~~~~~~~---~~~~l~~--~l~--~k~~LlVlDdv~~~~~~~~l~~----~~~--~~~~gs~iiiTtR~-  266 (720)
                      ....+ +.. ...+.+.   ....+.+  ...  ++.++||||+++...+.+...-    .+.  ...+.. +|+++-. 
T Consensus        80 ~~~~d~dg~~~~~~~en~~d~i~~l~q~~~~t~~d~~~~liLDnad~lrD~~a~ll~~l~~L~el~~~~~i-~iils~~~  158 (438)
T KOG2543|consen   80 SQLADKDGDKVEGDAENFSDFIYLLVQWPAATNRDQKVFLILDNADALRDMDAILLQCLFRLYELLNEPTI-VIILSAPS  158 (438)
T ss_pred             hccCCCchhhhhhHHHHHHHHHHHHHhhHHhhccCceEEEEEcCHHhhhccchHHHHHHHHHHHHhCCCce-EEEEeccc
Confidence            95222 111 1111111   2222222  112  3589999999987555443210    000  112233 3333322 


Q ss_pred             --hhHhhhhccC--ceeeccCCChhhHHHHHHHH
Q 038398          267 --LEICGALKAH--EFLKVECLGPEDAWRLFREN  296 (720)
Q Consensus       267 --~~v~~~~~~~--~~~~l~~L~~~e~~~Lf~~~  296 (720)
                        ......++..  -++..+..+.+|...++.+.
T Consensus       159 ~e~~y~~n~g~~~i~~l~fP~Ys~~e~~~Il~~~  192 (438)
T KOG2543|consen  159 CEKQYLINTGTLEIVVLHFPQYSVEETQVILSRD  192 (438)
T ss_pred             cHHHhhcccCCCCceEEecCCCCHHHHHHHHhcC
Confidence              1222223433  34677899999999998653

>PRK14087 dnaA chromosomal replication initiation protein; Provisional

Probab=98.04  E-value=4.2e-05  Score=82.69  Aligned_cols=165  Identities=13%  Similarity=0.106  Sum_probs=100.9

Q ss_pred             eEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHHHHHhCCCCCccCCCChhHHHHHHHHHhc
Q 038398          148 GIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKIGRRIGFFDESWKNGSLEDKTSDILRILG  227 (720)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~  227 (720)
                      ..+.|+|..|+|||+|++++++.... ...-..+++++.      .++...+...+...         ......+.+.++
T Consensus       142 npl~i~G~~G~GKTHLl~Ai~~~l~~-~~~~~~v~yv~~------~~f~~~~~~~l~~~---------~~~~~~~~~~~~  205 (450)
T PRK14087        142 NPLFIYGESGMGKTHLLKAAKNYIES-NFSDLKVSYMSG------DEFARKAVDILQKT---------HKEIEQFKNEIC  205 (450)
T ss_pred             CceEEECCCCCcHHHHHHHHHHHHHH-hCCCCeEEEEEH------HHHHHHHHHHHHHh---------hhHHHHHHHHhc
Confidence            56889999999999999999986521 112224556543      45666666665321         012233444444


Q ss_pred             cCcEEEEEecccccc---c-cccccccCCC-CCCCcEEEEEcCChh-H--------hhhhccCceeeccCCChhhHHHHH
Q 038398          228 KKKFLLLLDDIWERV---D-LTKVGIPFPD-PENKSKIVFTTHFLE-I--------CGALKAHEFLKVECLGPEDAWRLF  293 (720)
Q Consensus       228 ~k~~LlVlDdv~~~~---~-~~~l~~~~~~-~~~gs~iiiTtR~~~-v--------~~~~~~~~~~~l~~L~~~e~~~Lf  293 (720)
                       ..-+||+||+....   . .+.+...+.. ...|..||+|+.... .        ...+...-.+.+++++.++-.+++
T Consensus       206 -~~dvLiIDDiq~l~~k~~~~e~lf~l~N~~~~~~k~iIltsd~~P~~l~~l~~rL~SR~~~Gl~~~L~~pd~e~r~~iL  284 (450)
T PRK14087        206 -QNDVLIIDDVQFLSYKEKTNEIFFTIFNNFIENDKQLFFSSDKSPELLNGFDNRLITRFNMGLSIAIQKLDNKTATAII  284 (450)
T ss_pred             -cCCEEEEeccccccCCHHHHHHHHHHHHHHHHcCCcEEEECCCCHHHHhhccHHHHHHHhCCceeccCCcCHHHHHHHH
Confidence             34488899996432   1 1222222211 123557888875432 2        223334457789999999999999


Q ss_pred             HHHhccCccCCCCChHHHHHHHHHHhCCcchHHHHHH
Q 038398          294 RENLRRDVLDNHPDIPELARSVAQECAGLPLALITIG  330 (720)
Q Consensus       294 ~~~~~~~~~~~~~~~~~~~~~i~~~c~GlPLai~~~~  330 (720)
                      .+++...... ..--+++..-|++.++|.|-.+.-+.
T Consensus       285 ~~~~~~~gl~-~~l~~evl~~Ia~~~~gd~R~L~gaL  320 (450)
T PRK14087        285 KKEIKNQNIK-QEVTEEAINFISNYYSDDVRKIKGSV  320 (450)
T ss_pred             HHHHHhcCCC-CCCCHHHHHHHHHccCCCHHHHHHHH
Confidence            9988643211 12336788999999999887765554

>PRK14965 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.03  E-value=8.3e-05  Score=83.06  Aligned_cols=197  Identities=13%  Similarity=0.111  Sum_probs=106.7

Q ss_pred             CCCCcCchHHHHHHHHHhcCCCc-eEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHHHHHh
Q 038398          125 CEPTVGLESTFDKVWRCLGEEQV-GIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKIGRRI  203 (720)
Q Consensus       125 ~~~~vGr~~~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i~~~l  203 (720)
                      .+++||.+..++.+.+++..+.+ ..+.++|+.|+||||+|+.+.+..... ...+       ...++.......|...-
T Consensus        15 f~~iiGq~~v~~~L~~~i~~~~~~hayLf~Gp~G~GKtt~A~~lak~l~c~-~~~~-------~~~c~~c~~c~~i~~g~   86 (576)
T PRK14965         15 FSDLTGQEHVSRTLQNAIDTGRVAHAFLFTGARGVGKTSTARILAKALNCE-QGLT-------AEPCNVCPPCVEITEGR   86 (576)
T ss_pred             HHHccCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhhcCC-CCCC-------CCCCCccHHHHHHhcCC
Confidence            36789999999999999987665 456899999999999999998775211 1000       00001011111111000


Q ss_pred             CCCC---CccCCCChhHHHHHHHHHh-----ccCcEEEEEeccccc--cccccccccCCCCCCCcEEEE-EcCChhHhhh
Q 038398          204 GFFD---ESWKNGSLEDKTSDILRIL-----GKKKFLLLLDDIWER--VDLTKVGIPFPDPENKSKIVF-TTHFLEICGA  272 (720)
Q Consensus       204 ~~~~---~~~~~~~~~~~~~~l~~~l-----~~k~~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~iii-TtR~~~v~~~  272 (720)
                      ....   +.......++ ++.+.+.+     .+++-++|+|+++..  .....+...+......+.+|+ ||....+...
T Consensus        87 ~~d~~eid~~s~~~v~~-ir~l~~~~~~~p~~~~~KVvIIdev~~Lt~~a~naLLk~LEepp~~~~fIl~t~~~~kl~~t  165 (576)
T PRK14965         87 SVDVFEIDGASNTGVDD-IRELRENVKYLPSRSRYKIFIIDEVHMLSTNAFNALLKTLEEPPPHVKFIFATTEPHKVPIT  165 (576)
T ss_pred             CCCeeeeeccCccCHHH-HHHHHHHHHhccccCCceEEEEEChhhCCHHHHHHHHHHHHcCCCCeEEEEEeCChhhhhHH
Confidence            0000   0000011111 12222222     234558899999753  223333333323233455554 4444444322


Q ss_pred             -hccCceeeccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCcc-hHHHHHHHHH
Q 038398          273 -LKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGLP-LALITIGRAM  333 (720)
Q Consensus       273 -~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~GlP-Lai~~~~~~l  333 (720)
                       ......+++.+++.++....+...+......   --.+....|++.++|.. .|+..+-.++
T Consensus       166 I~SRc~~~~f~~l~~~~i~~~L~~i~~~egi~---i~~~al~~la~~a~G~lr~al~~Ldqli  225 (576)
T PRK14965        166 ILSRCQRFDFRRIPLQKIVDRLRYIADQEGIS---ISDAALALVARKGDGSMRDSLSTLDQVL  225 (576)
T ss_pred             HHHhhhhhhcCCCCHHHHHHHHHHHHHHhCCC---CCHHHHHHHHHHcCCCHHHHHHHHHHHH
Confidence             2233578899999999888887766543211   12556778899998854 5666654443

>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA

Probab=98.03  E-value=3.6e-05  Score=88.95  Aligned_cols=156  Identities=15%  Similarity=0.266  Sum_probs=90.7

Q ss_pred             CCCCcCchHHHHHHHHHhcCCCceEEEEEcCCCChHHHHHHHHHhhhcCC--CCCc-CEEEEEEecCcCCHHHHHHHHHH
Q 038398          125 CEPTVGLESTFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGA--PNVF-DVVIWVVVSKDLQLEKIQEKIGR  201 (720)
Q Consensus       125 ~~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~--~~~f-~~~~wv~v~~~~~~~~~~~~i~~  201 (720)
                      .++++||++++++++..|......-+.++|++|+|||++|+.+++.....  ...+ +..+|. +    +...+    ..
T Consensus       181 l~~~igr~~ei~~~~~~L~~~~~~n~lL~G~pG~GKT~l~~~la~~~~~~~~p~~l~~~~~~~-~----~~~~l----~a  251 (731)
T TIGR02639       181 IDPLIGREDELERTIQVLCRRKKNNPLLVGEPGVGKTAIAEGLALRIAEGKVPENLKNAKIYS-L----DMGSL----LA  251 (731)
T ss_pred             CCcccCcHHHHHHHHHHHhcCCCCceEEECCCCCCHHHHHHHHHHHHHhCCCchhhcCCeEEE-e----cHHHH----hh
Confidence            35789999999999999977666677899999999999999999886211  1111 233332 1    11111    11


Q ss_pred             HhCCCCCccCCCChhHHHHHHHHHhc-cCcEEEEEecccccc----------cccc-ccccCCCCCCC-cEEEEEcCChh
Q 038398          202 RIGFFDESWKNGSLEDKTSDILRILG-KKKFLLLLDDIWERV----------DLTK-VGIPFPDPENK-SKIVFTTHFLE  268 (720)
Q Consensus       202 ~l~~~~~~~~~~~~~~~~~~l~~~l~-~k~~LlVlDdv~~~~----------~~~~-l~~~~~~~~~g-s~iiiTtR~~~  268 (720)
                      ...      ...+.++....+.+.+. .++.+|++|+++...          +... +...+   ..| -++|-+|...+
T Consensus       252 ~~~------~~g~~e~~l~~i~~~~~~~~~~ILfiDEih~l~~~g~~~~~~~~~~~~L~~~l---~~g~i~~IgaTt~~e  322 (731)
T TIGR02639       252 GTK------YRGDFEERLKAVVSEIEKEPNAILFIDEIHTIVGAGATSGGSMDASNLLKPAL---SSGKLRCIGSTTYEE  322 (731)
T ss_pred             hcc------ccchHHHHHHHHHHHHhccCCeEEEEecHHHHhccCCCCCccHHHHHHHHHHH---hCCCeEEEEecCHHH
Confidence            000      11233344444444443 468899999987421          1111 22222   223 34555554322


Q ss_pred             Hhh-------hhccCceeeccCCChhhHHHHHHHHhc
Q 038398          269 ICG-------ALKAHEFLKVECLGPEDAWRLFRENLR  298 (720)
Q Consensus       269 v~~-------~~~~~~~~~l~~L~~~e~~~Lf~~~~~  298 (720)
                      ...       ...-...++++.++.++..+++.....
T Consensus       323 ~~~~~~~d~al~rRf~~i~v~~p~~~~~~~il~~~~~  359 (731)
T TIGR02639       323 YKNHFEKDRALSRRFQKIDVGEPSIEETVKILKGLKE  359 (731)
T ss_pred             HHHHhhhhHHHHHhCceEEeCCCCHHHHHHHHHHHHH
Confidence            211       111235789999999999999986643

>PRK14948 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.02  E-value=0.00019  Score=80.52  Aligned_cols=193  Identities=13%  Similarity=0.089  Sum_probs=106.5

Q ss_pred             CCCCcCchHHHHHHHHHhcCCCc-eEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHHHHHh
Q 038398          125 CEPTVGLESTFDKVWRCLGEEQV-GIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKIGRRI  203 (720)
Q Consensus       125 ~~~~vGr~~~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i~~~l  203 (720)
                      ...++|.+..++.|..++..+.. ..+.++|+.|+||||+|+.+++....  ...+...    ...++.....+.+....
T Consensus        15 f~~liGq~~i~~~L~~~l~~~rl~~a~Lf~Gp~G~GKttlA~~lAk~L~c--~~~~~~~----~~~Cg~C~~C~~i~~g~   88 (620)
T PRK14948         15 FDELVGQEAIATTLKNALISNRIAPAYLFTGPRGTGKTSSARILAKSLNC--LNSDKPT----PEPCGKCELCRAIAAGN   88 (620)
T ss_pred             HhhccChHHHHHHHHHHHHcCCCCceEEEECCCCCChHHHHHHHHHHhcC--CCcCCCC----CCCCcccHHHHHHhcCC
Confidence            35679999999999999977653 57889999999999999999988621  1111000    01122222223332222


Q ss_pred             CCCC---CccCCCChhHHHHHHHHHh-----ccCcEEEEEeccccc--cccccccccCCCCCCCcEEEEEcCC-hhHhhh
Q 038398          204 GFFD---ESWKNGSLEDKTSDILRIL-----GKKKFLLLLDDIWER--VDLTKVGIPFPDPENKSKIVFTTHF-LEICGA  272 (720)
Q Consensus       204 ~~~~---~~~~~~~~~~~~~~l~~~l-----~~k~~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~iiiTtR~-~~v~~~  272 (720)
                      ....   +.......++. +.+.+.+     .+++-++|+|+++..  .....+...+........+|++|.+ ..+...
T Consensus        89 h~D~~ei~~~~~~~vd~I-Reii~~a~~~p~~~~~KViIIDEad~Lt~~a~naLLK~LEePp~~tvfIL~t~~~~~llpT  167 (620)
T PRK14948         89 ALDVIEIDAASNTGVDNI-RELIERAQFAPVQARWKVYVIDECHMLSTAAFNALLKTLEEPPPRVVFVLATTDPQRVLPT  167 (620)
T ss_pred             CccEEEEeccccCCHHHH-HHHHHHHhhChhcCCceEEEEECccccCHHHHHHHHHHHhcCCcCeEEEEEeCChhhhhHH
Confidence            1110   00011111122 1222222     245568999999753  2344443333332334455544433 333221


Q ss_pred             -hccCceeeccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCcchHHH
Q 038398          273 -LKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGLPLALI  327 (720)
Q Consensus       273 -~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~GlPLai~  327 (720)
                       ......+++..++.++....+...+......   --.+.+..|++.++|.+..+.
T Consensus       168 IrSRc~~~~f~~l~~~ei~~~L~~ia~kegi~---is~~al~~La~~s~G~lr~A~  220 (620)
T PRK14948        168 IISRCQRFDFRRIPLEAMVQHLSEIAEKESIE---IEPEALTLVAQRSQGGLRDAE  220 (620)
T ss_pred             HHhheeEEEecCCCHHHHHHHHHHHHHHhCCC---CCHHHHHHHHHHcCCCHHHHH
Confidence             2233567888999999888887776543211   124568889999999775443

>COG1222 RPT1 ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein turnover, chaperones]

Probab=97.99  E-value=0.00019  Score=71.78  Aligned_cols=177  Identities=16%  Similarity=0.214  Sum_probs=107.3

Q ss_pred             cCchHHHHHHHHHhcC-------------CCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHH
Q 038398          129 VGLESTFDKVWRCLGE-------------EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKI  195 (720)
Q Consensus       129 vGr~~~~~~l~~~L~~-------------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~  195 (720)
                      =|-++.+++|.+.+.-             +.++-|.++|++|.|||-||++|+++.   ...     |+.|...      
T Consensus       154 GGL~~Qi~EirE~VELPL~~PElF~~~GI~PPKGVLLYGPPGTGKTLLAkAVA~~T---~At-----FIrvvgS------  219 (406)
T COG1222         154 GGLDEQIQEIREVVELPLKNPELFEELGIDPPKGVLLYGPPGTGKTLLAKAVANQT---DAT-----FIRVVGS------  219 (406)
T ss_pred             cCHHHHHHHHHHHhcccccCHHHHHHcCCCCCCceEeeCCCCCcHHHHHHHHHhcc---Cce-----EEEeccH------
Confidence            4889999988887632             356789999999999999999999987   333     3433322      


Q ss_pred             HHHHHHHhCCCCCccCCCChhHHHHHHHHHhcc-CcEEEEEecccccc----------c------cccccccCC--CCCC
Q 038398          196 QEKIGRRIGFFDESWKNGSLEDKTSDILRILGK-KKFLLLLDDIWERV----------D------LTKVGIPFP--DPEN  256 (720)
Q Consensus       196 ~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~-k~~LlVlDdv~~~~----------~------~~~l~~~~~--~~~~  256 (720)
                        ++.++.-.        +-..+...+.+.-+. .+.+|.+|.++...          +      ..++...+.  +...
T Consensus       220 --ElVqKYiG--------EGaRlVRelF~lArekaPsIIFiDEIDAIg~kR~d~~t~gDrEVQRTmleLL~qlDGFD~~~  289 (406)
T COG1222         220 --ELVQKYIG--------EGARLVRELFELAREKAPSIIFIDEIDAIGAKRFDSGTSGDREVQRTMLELLNQLDGFDPRG  289 (406)
T ss_pred             --HHHHHHhc--------cchHHHHHHHHHHhhcCCeEEEEechhhhhcccccCCCCchHHHHHHHHHHHHhccCCCCCC
Confidence              22222211        123455555555554 58999999986410          0      112222222  2234


Q ss_pred             CcEEEEEcCChhHhhh-----hccCceeeccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCcc----hHHH
Q 038398          257 KSKIVFTTHFLEICGA-----LKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGLP----LALI  327 (720)
Q Consensus       257 gs~iiiTtR~~~v~~~-----~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~GlP----Lai~  327 (720)
                      .-|||.+|...++...     -.-+..++++.-+.+.-.++|+-++.........+++    .+++.|.|.-    .|+-
T Consensus       290 nvKVI~ATNR~D~LDPALLRPGR~DRkIEfplPd~~gR~~Il~IHtrkM~l~~dvd~e----~la~~~~g~sGAdlkaic  365 (406)
T COG1222         290 NVKVIMATNRPDILDPALLRPGRFDRKIEFPLPDEEGRAEILKIHTRKMNLADDVDLE----LLARLTEGFSGADLKAIC  365 (406)
T ss_pred             CeEEEEecCCccccChhhcCCCcccceeecCCCCHHHHHHHHHHHhhhccCccCcCHH----HHHHhcCCCchHHHHHHH
Confidence            6789988865554322     1234678888667777778888887766544445544    4555666654    3444


Q ss_pred             HHHHHH
Q 038398          328 TIGRAM  333 (720)
Q Consensus       328 ~~~~~l  333 (720)
                      +=|+++
T Consensus       366 tEAGm~  371 (406)
T COG1222         366 TEAGMF  371 (406)
T ss_pred             HHHhHH
Confidence            445554

>PTZ00361 26 proteosome regulatory subunit 4-like protein; Provisional

Probab=97.99  E-value=4.7e-05  Score=81.14  Aligned_cols=169  Identities=15%  Similarity=0.194  Sum_probs=95.1

Q ss_pred             CCcCchHHHHHHHHHhcC-------------CCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHH
Q 038398          127 PTVGLESTFDKVWRCLGE-------------EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLE  193 (720)
Q Consensus       127 ~~vGr~~~~~~l~~~L~~-------------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~  193 (720)
                      ++.|.+..+++|.+.+.-             .....|.++|++|+|||++|+.+++..   ...|     +.+...    
T Consensus       184 DIgGl~~qi~~l~e~v~lpl~~p~~~~~~gi~~p~gVLL~GPPGTGKT~LAraIA~el---~~~f-----i~V~~s----  251 (438)
T PTZ00361        184 DIGGLEQQIQEIKEAVELPLTHPELYDDIGIKPPKGVILYGPPGTGKTLLAKAVANET---SATF-----LRVVGS----  251 (438)
T ss_pred             HhcCHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCcEEEEECCCCCCHHHHHHHHHHhh---CCCE-----EEEecc----
Confidence            457999999888776631             234578899999999999999999986   3333     222211    


Q ss_pred             HHHHHHHHHhCCCCCccCCCChhHHHHHHH-HHhccCcEEEEEeccccccc----------------cccccccCC--CC
Q 038398          194 KIQEKIGRRIGFFDESWKNGSLEDKTSDIL-RILGKKKFLLLLDDIWERVD----------------LTKVGIPFP--DP  254 (720)
Q Consensus       194 ~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~-~~l~~k~~LlVlDdv~~~~~----------------~~~l~~~~~--~~  254 (720)
                      .+.    ...       ... .......+. ....+.+.+|+||+++....                +..+...+.  ..
T Consensus       252 eL~----~k~-------~Ge-~~~~vr~lF~~A~~~~P~ILfIDEID~l~~kR~~~~sgg~~e~qr~ll~LL~~Ldg~~~  319 (438)
T PTZ00361        252 ELI----QKY-------LGD-GPKLVRELFRVAEENAPSIVFIDEIDAIGTKRYDATSGGEKEIQRTMLELLNQLDGFDS  319 (438)
T ss_pred             hhh----hhh-------cch-HHHHHHHHHHHHHhCCCcEEeHHHHHHHhccCCCCCCcccHHHHHHHHHHHHHHhhhcc
Confidence            111    111       000 111222222 22235688999999863210                001111111  11


Q ss_pred             CCCcEEEEEcCChhHhhh-h----ccCceeeccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCcc
Q 038398          255 ENKSKIVFTTHFLEICGA-L----KAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGLP  323 (720)
Q Consensus       255 ~~gs~iiiTtR~~~v~~~-~----~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~GlP  323 (720)
                      ..+.+||.||........ .    .....++++..+.++..++|..++..........    ...++..+.|+-
T Consensus       320 ~~~V~VI~ATNr~d~LDpaLlRpGRfd~~I~~~~Pd~~~R~~Il~~~~~k~~l~~dvd----l~~la~~t~g~s  389 (438)
T PTZ00361        320 RGDVKVIMATNRIESLDPALIRPGRIDRKIEFPNPDEKTKRRIFEIHTSKMTLAEDVD----LEEFIMAKDELS  389 (438)
T ss_pred             cCCeEEEEecCChHHhhHHhccCCeeEEEEEeCCCCHHHHHHHHHHHHhcCCCCcCcC----HHHHHHhcCCCC
Confidence            235678888875544322 1    2245789999999999999998875543222223    344555665543

>PRK05563 DNA polymerase III subunits gamma and tau; Validated

Probab=97.98  E-value=0.00022  Score=79.27  Aligned_cols=195  Identities=16%  Similarity=0.129  Sum_probs=105.4

Q ss_pred             CCCCcCchHHHHHHHHHhcCCCc-eEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHHHHHh
Q 038398          125 CEPTVGLESTFDKVWRCLGEEQV-GIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKIGRRI  203 (720)
Q Consensus       125 ~~~~vGr~~~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i~~~l  203 (720)
                      .++++|.+..++.+.+++..+.. +.+.++|+.|+||||+|+.+....... ..-+       ...++.....+.+....
T Consensus        15 f~~viGq~~v~~~L~~~i~~~~~~hayLf~Gp~GtGKTt~Ak~lAkal~c~-~~~~-------~~pC~~C~~C~~i~~g~   86 (559)
T PRK05563         15 FEDVVGQEHITKTLKNAIKQGKISHAYLFSGPRGTGKTSAAKIFAKAVNCL-NPPD-------GEPCNECEICKAITNGS   86 (559)
T ss_pred             HHhccCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcCC-CCCC-------CCCCCccHHHHHHhcCC
Confidence            36789999999999999977654 557789999999999999998765211 1000       00111111111111111


Q ss_pred             CCCCCcc---CCCChhHHHHHHHHH-----hccCcEEEEEeccccc--cccccccccCCCCCCCcEEEE-EcCChhHhhh
Q 038398          204 GFFDESW---KNGSLEDKTSDILRI-----LGKKKFLLLLDDIWER--VDLTKVGIPFPDPENKSKIVF-TTHFLEICGA  272 (720)
Q Consensus       204 ~~~~~~~---~~~~~~~~~~~l~~~-----l~~k~~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~iii-TtR~~~v~~~  272 (720)
                      ....-..   .....+ ....+.+.     ..+++-++|+|+++..  ..+..+...+........+|+ ||....+...
T Consensus        87 ~~dv~eidaas~~~vd-~ir~i~~~v~~~p~~~~~kViIIDE~~~Lt~~a~naLLKtLEepp~~~ifIlatt~~~ki~~t  165 (559)
T PRK05563         87 LMDVIEIDAASNNGVD-EIRDIRDKVKYAPSEAKYKVYIIDEVHMLSTGAFNALLKTLEEPPAHVIFILATTEPHKIPAT  165 (559)
T ss_pred             CCCeEEeeccccCCHH-HHHHHHHHHhhCcccCCeEEEEEECcccCCHHHHHHHHHHhcCCCCCeEEEEEeCChhhCcHH
Confidence            1000000   001111 11222222     1345668899999753  233344333322223444444 4444333221


Q ss_pred             -hccCceeeccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCcch-HHHHHHH
Q 038398          273 -LKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGLPL-ALITIGR  331 (720)
Q Consensus       273 -~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~GlPL-ai~~~~~  331 (720)
                       ......+++.+++.++....+...+......   --.+.+..|++.++|.+. |+..+-.
T Consensus       166 I~SRc~~~~f~~~~~~ei~~~L~~i~~~egi~---i~~~al~~ia~~s~G~~R~al~~Ldq  223 (559)
T PRK05563        166 ILSRCQRFDFKRISVEDIVERLKYILDKEGIE---YEDEALRLIARAAEGGMRDALSILDQ  223 (559)
T ss_pred             HHhHheEEecCCCCHHHHHHHHHHHHHHcCCC---CCHHHHHHHHHHcCCCHHHHHHHHHH
Confidence             2233568899999999998888877543311   124567788888888664 4444433

>PTZ00454 26S protease regulatory subunit 6B-like protein; Provisional

Probab=97.98  E-value=7.3e-05  Score=79.15  Aligned_cols=170  Identities=14%  Similarity=0.189  Sum_probs=95.8

Q ss_pred             CCCcCchHHHHHHHHHhc----C---------CCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCH
Q 038398          126 EPTVGLESTFDKVWRCLG----E---------EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQL  192 (720)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~----~---------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~  192 (720)
                      .++.|.+..+++|.+.+.    .         ...+-|.++|++|+|||++|+.+++..   ...|     +.+..    
T Consensus       145 ~digGl~~~k~~l~~~v~~pl~~~~~~~~~Gl~~pkgvLL~GppGTGKT~LAkalA~~l---~~~f-----i~i~~----  212 (398)
T PTZ00454        145 SDIGGLDIQKQEIREAVELPLTCPELYEQIGIDPPRGVLLYGPPGTGKTMLAKAVAHHT---TATF-----IRVVG----  212 (398)
T ss_pred             HHcCCHHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhc---CCCE-----EEEeh----
Confidence            456899988888877652    1         235779999999999999999999876   2333     22211    


Q ss_pred             HHHHHHHHHHhCCCCCccCCCChhHHHHHHHH-HhccCcEEEEEecccccc------------c----cccccccCC--C
Q 038398          193 EKIQEKIGRRIGFFDESWKNGSLEDKTSDILR-ILGKKKFLLLLDDIWERV------------D----LTKVGIPFP--D  253 (720)
Q Consensus       193 ~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~-~l~~k~~LlVlDdv~~~~------------~----~~~l~~~~~--~  253 (720)
                      ..+    .....       ... ......+.. .....+.+|+||+++...            .    +..+...+.  .
T Consensus       213 s~l----~~k~~-------ge~-~~~lr~lf~~A~~~~P~ILfIDEID~i~~~r~~~~~~~d~~~~r~l~~LL~~ld~~~  280 (398)
T PTZ00454        213 SEF----VQKYL-------GEG-PRMVRDVFRLARENAPSIIFIDEVDSIATKRFDAQTGADREVQRILLELLNQMDGFD  280 (398)
T ss_pred             HHH----HHHhc-------chh-HHHHHHHHHHHHhcCCeEEEEECHhhhccccccccCCccHHHHHHHHHHHHHhhccC
Confidence            111    11110       001 112222222 234578999999986421            0    111111111  1


Q ss_pred             CCCCcEEEEEcCChhHhhh--h---ccCceeeccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCcc
Q 038398          254 PENKSKIVFTTHFLEICGA--L---KAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGLP  323 (720)
Q Consensus       254 ~~~gs~iiiTtR~~~v~~~--~---~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~GlP  323 (720)
                      ...+..||+||........  .   .-...++++..+.++..++|..+..........+    ..++++.+.|+.
T Consensus       281 ~~~~v~VI~aTN~~d~LDpAllR~GRfd~~I~~~~P~~~~R~~Il~~~~~~~~l~~dvd----~~~la~~t~g~s  351 (398)
T PTZ00454        281 QTTNVKVIMATNRADTLDPALLRPGRLDRKIEFPLPDRRQKRLIFQTITSKMNLSEEVD----LEDFVSRPEKIS  351 (398)
T ss_pred             CCCCEEEEEecCCchhCCHHHcCCCcccEEEEeCCcCHHHHHHHHHHHHhcCCCCcccC----HHHHHHHcCCCC
Confidence            2235678888865443221  1   2245688999999998888887765433222223    345566676653

>KOG4579 consensus Leucine-rich repeat (LRR) protein associated with apoptosis in muscle tissue [General function prediction only]

Probab=97.96  E-value=9.1e-07  Score=75.40  Aligned_cols=108  Identities=19%  Similarity=0.305  Sum_probs=81.1

Q ss_pred             eeEEEecccccccCCC----CCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCccCCccccCCCCCCEEec
Q 038398          496 VRRMSLMKNKIENLSE----TPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDL  571 (720)
Q Consensus       496 l~~L~l~~~~~~~~~~----~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L  571 (720)
                      +..++|+.|.+-.++.    .....+|...++++|.+++.|+.+-.+++.++.|+|++| -+..+|..+..++.|+.|++
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            4446666665543322    245567788888888888888887777778888888888 45578888888888888888


Q ss_pred             cCCCCcccchhhhcCCCCCEEeccCCcCCCCCch
Q 038398          572 SSTAITHLPIELQKLVNLKCLNLEYMNNLNQFPR  605 (720)
Q Consensus       572 ~~~~i~~lp~~i~~l~~L~~L~l~~~~~l~~lp~  605 (720)
                      +.|.+...|.-|..|.+|-.|+..+ +.+..+|-
T Consensus       108 ~~N~l~~~p~vi~~L~~l~~Lds~~-na~~eid~  140 (177)
T KOG4579|consen  108 RFNPLNAEPRVIAPLIKLDMLDSPE-NARAEIDV  140 (177)
T ss_pred             ccCccccchHHHHHHHhHHHhcCCC-CccccCcH
Confidence            8888888888888888888888876 45555664

>PRK06620 hypothetical protein; Validated

Probab=97.95  E-value=4.8e-05  Score=73.58  Aligned_cols=130  Identities=15%  Similarity=0.034  Sum_probs=78.1

Q ss_pred             eEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHHHHHhCCCCCccCCCChhHHHHHHHHHhc
Q 038398          148 GIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKIGRRIGFFDESWKNGSLEDKTSDILRILG  227 (720)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~  227 (720)
                      +.+.|+|++|+|||+|++.+++..   ..     .++.  ...                    ..   +       +.++
T Consensus        45 ~~l~l~Gp~G~GKThLl~a~~~~~---~~-----~~~~--~~~--------------------~~---~-------~~~~   84 (214)
T PRK06620         45 FTLLIKGPSSSGKTYLTKIWQNLS---NA-----YIIK--DIF--------------------FN---E-------EILE   84 (214)
T ss_pred             ceEEEECCCCCCHHHHHHHHHhcc---CC-----EEcc--hhh--------------------hc---h-------hHHh
Confidence            568999999999999999988765   11     2221  000                    00   0       0111


Q ss_pred             cCcEEEEEeccccccc--cccccccCCCCCCCcEEEEEcCChhH-------hhhhccCceeeccCCChhhHHHHHHHHhc
Q 038398          228 KKKFLLLLDDIWERVD--LTKVGIPFPDPENKSKIVFTTHFLEI-------CGALKAHEFLKVECLGPEDAWRLFRENLR  298 (720)
Q Consensus       228 ~k~~LlVlDdv~~~~~--~~~l~~~~~~~~~gs~iiiTtR~~~v-------~~~~~~~~~~~l~~L~~~e~~~Lf~~~~~  298 (720)
                       ..-++++||++...+  +-.+...+  ...|..||+|++....       ...+...-.+++++++.++-..++.+.+.
T Consensus        85 -~~d~lliDdi~~~~~~~lf~l~N~~--~e~g~~ilits~~~p~~l~l~~L~SRl~~gl~~~l~~pd~~~~~~~l~k~~~  161 (214)
T PRK06620         85 -KYNAFIIEDIENWQEPALLHIFNII--NEKQKYLLLTSSDKSRNFTLPDLSSRIKSVLSILLNSPDDELIKILIFKHFS  161 (214)
T ss_pred             -cCCEEEEeccccchHHHHHHHHHHH--HhcCCEEEEEcCCCccccchHHHHHHHhCCceEeeCCCCHHHHHHHHHHHHH
Confidence             234788899974321  11111111  1346789998874322       23333445899999999998888888765


Q ss_pred             cCccCCCCChHHHHHHHHHHhCCcc
Q 038398          299 RDVLDNHPDIPELARSVAQECAGLP  323 (720)
Q Consensus       299 ~~~~~~~~~~~~~~~~i~~~c~GlP  323 (720)
                      .....   --+++..-|++.+.|--
T Consensus       162 ~~~l~---l~~ev~~~L~~~~~~d~  183 (214)
T PRK06620        162 ISSVT---ISRQIIDFLLVNLPREY  183 (214)
T ss_pred             HcCCC---CCHHHHHHHHHHccCCH
Confidence            43211   22667788888877643

>TIGR03689 pup_AAA proteasome ATPase

Probab=97.93  E-value=5.5e-05  Score=81.82  Aligned_cols=157  Identities=15%  Similarity=0.212  Sum_probs=88.5

Q ss_pred             CCCcCchHHHHHHHHHhcC-------------CCceEEEEEcCCCChHHHHHHHHHhhhcCCC---CCcCEEEEEEecCc
Q 038398          126 EPTVGLESTFDKVWRCLGE-------------EQVGIIGLYGMGGVGKTTLLTKINNKLLGAP---NVFDVVIWVVVSKD  189 (720)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~-------------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~---~~f~~~~wv~v~~~  189 (720)
                      .++.|.+..++++.+.+..             ...+-|.++|++|+|||++|+++++... ..   .......|+.+...
T Consensus       182 ~dIgGl~~~i~~i~~~v~lp~~~~~l~~~~gl~~p~GILLyGPPGTGKT~LAKAlA~eL~-~~i~~~~~~~~~fl~v~~~  260 (512)
T TIGR03689       182 ADIGGLDSQIEQIRDAVELPFLHPELYREYDLKPPKGVLLYGPPGCGKTLIAKAVANSLA-QRIGAETGDKSYFLNIKGP  260 (512)
T ss_pred             HHcCChHHHHHHHHHHHHHHhhCHHHHHhccCCCCcceEEECCCCCcHHHHHHHHHHhhc-cccccccCCceeEEeccch
Confidence            4457899999988776521             2346689999999999999999999872 11   01224455554432


Q ss_pred             CCHHHHHHHHHHHhCCCCCccCCCChhHHHHHHHHHh-----ccCcEEEEEecccccc---------cc-----cccccc
Q 038398          190 LQLEKIQEKIGRRIGFFDESWKNGSLEDKTSDILRIL-----GKKKFLLLLDDIWERV---------DL-----TKVGIP  250 (720)
Q Consensus       190 ~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l-----~~k~~LlVlDdv~~~~---------~~-----~~l~~~  250 (720)
                      .    +    +...       . ...+.....+.+..     .+++++|+||+++...         +.     ..+...
T Consensus       261 e----L----l~ky-------v-Gete~~ir~iF~~Ar~~a~~g~p~IIfIDEiD~L~~~R~~~~s~d~e~~il~~LL~~  324 (512)
T TIGR03689       261 E----L----LNKY-------V-GETERQIRLIFQRAREKASDGRPVIVFFDEMDSIFRTRGSGVSSDVETTVVPQLLSE  324 (512)
T ss_pred             h----h----cccc-------c-chHHHHHHHHHHHHHHHhhcCCCceEEEehhhhhhcccCCCccchHHHHHHHHHHHH
Confidence            1    1    1110       0 01111222222221     2478999999997421         11     112111


Q ss_pred             CCC--CCCCcEEEEEcCChhHhh-hh----ccCceeeccCCChhhHHHHHHHHhcc
Q 038398          251 FPD--PENKSKIVFTTHFLEICG-AL----KAHEFLKVECLGPEDAWRLFRENLRR  299 (720)
Q Consensus       251 ~~~--~~~gs~iiiTtR~~~v~~-~~----~~~~~~~l~~L~~~e~~~Lf~~~~~~  299 (720)
                      +..  ...+..||.||....... .+    .-...++++..+.++..++|..++..
T Consensus       325 LDgl~~~~~ViVI~ATN~~d~LDpALlRpGRfD~~I~~~~Pd~e~r~~Il~~~l~~  380 (512)
T TIGR03689       325 LDGVESLDNVIVIGASNREDMIDPAILRPGRLDVKIRIERPDAEAAADIFSKYLTD  380 (512)
T ss_pred             hcccccCCceEEEeccCChhhCCHhhcCccccceEEEeCCCCHHHHHHHHHHHhhc
Confidence            211  113444555664443321 11    22456899999999999999988753

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.

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=97.93  E-value=8.7e-05  Score=87.14  Aligned_cols=155  Identities=17%  Similarity=0.232  Sum_probs=88.9

Q ss_pred             CCCCcCchHHHHHHHHHhcCCCceEEEEEcCCCChHHHHHHHHHhhhcCCCCC----cCE-EEEEEecCcCCHHHHHHHH
Q 038398          125 CEPTVGLESTFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNV----FDV-VIWVVVSKDLQLEKIQEKI  199 (720)
Q Consensus       125 ~~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~----f~~-~~wv~v~~~~~~~~~~~~i  199 (720)
                      .+++|||++++++++..|.......+.++|++|+|||++|+.+..+... ...    ... ++++.+      ..+    
T Consensus       172 ~~~~igr~~ei~~~~~~l~r~~~~n~lL~G~pGvGKT~l~~~la~~i~~-~~~p~~l~~~~~~~l~~------~~l----  240 (852)
T TIGR03346       172 LDPVIGRDEEIRRTIQVLSRRTKNNPVLIGEPGVGKTAIVEGLAQRIVN-GDVPESLKNKRLLALDM------GAL----  240 (852)
T ss_pred             CCcCCCcHHHHHHHHHHHhcCCCCceEEEcCCCCCHHHHHHHHHHHHhc-cCCchhhcCCeEEEeeH------HHH----
Confidence            3568999999999999997766666778999999999999999887621 111    122 222221      111    


Q ss_pred             HHHhCCCCCccCCCChhHHHHHHHHHhc--cCcEEEEEecccccc---------ccccccccCCCCCCCcEEEEEcCChh
Q 038398          200 GRRIGFFDESWKNGSLEDKTSDILRILG--KKKFLLLLDDIWERV---------DLTKVGIPFPDPENKSKIVFTTHFLE  268 (720)
Q Consensus       200 ~~~l~~~~~~~~~~~~~~~~~~l~~~l~--~k~~LlVlDdv~~~~---------~~~~l~~~~~~~~~gs~iiiTtR~~~  268 (720)
                      ..  +..    ...+.+.....+...+.  +++.+|++|++....         +...+..+... ...-++|-+|..+.
T Consensus       241 ~a--~~~----~~g~~e~~l~~~l~~~~~~~~~~ILfIDEih~l~~~g~~~~~~d~~~~Lk~~l~-~g~i~~IgaTt~~e  313 (852)
T TIGR03346       241 IA--GAK----YRGEFEERLKAVLNEVTKSEGQIILFIDELHTLVGAGKAEGAMDAGNMLKPALA-RGELHCIGATTLDE  313 (852)
T ss_pred             hh--cch----hhhhHHHHHHHHHHHHHhcCCCeEEEeccHHHhhcCCCCcchhHHHHHhchhhh-cCceEEEEeCcHHH
Confidence            10  000    11123333333433332  368999999997432         11112112111 12245555555444


Q ss_pred             Hhh-------hhccCceeeccCCChhhHHHHHHHHh
Q 038398          269 ICG-------ALKAHEFLKVECLGPEDAWRLFRENL  297 (720)
Q Consensus       269 v~~-------~~~~~~~~~l~~L~~~e~~~Lf~~~~  297 (720)
                      .-.       ...-...+.++..+.++...++....
T Consensus       314 ~r~~~~~d~al~rRf~~i~v~~p~~~~~~~iL~~~~  349 (852)
T TIGR03346       314 YRKYIEKDAALERRFQPVFVDEPTVEDTISILRGLK  349 (852)
T ss_pred             HHHHhhcCHHHHhcCCEEEeCCCCHHHHHHHHHHHH
Confidence            311       11223567899999999999887654

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.

>KOG2982 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.93  E-value=6.1e-06  Score=79.65  Aligned_cols=99  Identities=22%  Similarity=0.289  Sum_probs=70.5

Q ss_pred             eeEEEecccccccCCCC----CCCCcccEEEccCCCCcCc--chHHhccCCcccEEEccCCCCC---ccCCccccCCCCC
Q 038398          496 VRRMSLMKNKIENLSET----PTCPHLLSLFLSDNSLKMS--TDDFFQSMPSLRVFNMSNNHLL---WKLPSGISTLVSL  566 (720)
Q Consensus       496 l~~L~l~~~~~~~~~~~----~~~~~L~~L~l~~~~~~~~--~~~~~~~l~~L~~L~L~~~~~~---~~lp~~i~~l~~L  566 (720)
                      +.-+.+.++.|......    ..+..++.|++.+|.+..-  ....+.+||.|++|+|++|+..   +.+|   -.+.+|
T Consensus        47 ~ellvln~~~id~~gd~~~~~~~~~~v~elDL~~N~iSdWseI~~ile~lP~l~~LNls~N~L~s~I~~lp---~p~~nl  123 (418)
T KOG2982|consen   47 LELLVLNGSIIDNEGDVMLFGSSVTDVKELDLTGNLISDWSEIGAILEQLPALTTLNLSCNSLSSDIKSLP---LPLKNL  123 (418)
T ss_pred             hhhheecCCCCCcchhHHHHHHHhhhhhhhhcccchhccHHHHHHHHhcCccceEeeccCCcCCCccccCc---ccccce
Confidence            33566666666554332    5678999999999976542  2345789999999999999653   2333   356799


Q ss_pred             CEEeccCCCCc--ccchhhhcCCCCCEEeccCC
Q 038398          567 EHLDLSSTAIT--HLPIELQKLVNLKCLNLEYM  597 (720)
Q Consensus       567 ~~L~L~~~~i~--~lp~~i~~l~~L~~L~l~~~  597 (720)
                      ++|.|.++.+.  .....+..++.++.|.++.|
T Consensus       124 ~~lVLNgT~L~w~~~~s~l~~lP~vtelHmS~N  156 (418)
T KOG2982|consen  124 RVLVLNGTGLSWTQSTSSLDDLPKVTELHMSDN  156 (418)
T ss_pred             EEEEEcCCCCChhhhhhhhhcchhhhhhhhccc
Confidence            99999998654  55556778888888888874

>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=97.92  E-value=1.5e-05  Score=55.10  Aligned_cols=39  Identities=46%  Similarity=0.630  Sum_probs=21.6

Q ss_pred             CCCEEeccCCCCcccchhhhcCCCCCEEeccCCcCCCCCc
Q 038398          565 SLEHLDLSSTAITHLPIELQKLVNLKCLNLEYMNNLNQFP  604 (720)
Q Consensus       565 ~L~~L~L~~~~i~~lp~~i~~l~~L~~L~l~~~~~l~~lp  604 (720)
                      +|++|++++|+|+.+|+.+++|++|+.|++++| .+.++|
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            456666666666666655666666666666663 344443

...

>PRK15386 type III secretion protein GogB; Provisional

Probab=97.90  E-value=2.6e-05  Score=81.08  Aligned_cols=82  Identities=21%  Similarity=0.321  Sum_probs=48.8

Q ss_pred             cccccceeEEEecccccccCCCCCCCCcccEEEccCC-CCcCcchHHhccCCcccEEEccCCCCCccCCccccCCCCCCE
Q 038398          490 IQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDN-SLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVSLEH  568 (720)
Q Consensus       490 ~~~~~~l~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~-~~~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~  568 (720)
                      +..+.++++|++++|.+..+|.++  ++|++|.+++| .++.+|.. +  .++|++|++++|..+..+|.      +|+.
T Consensus        48 ~~~~~~l~~L~Is~c~L~sLP~LP--~sLtsL~Lsnc~nLtsLP~~-L--P~nLe~L~Ls~Cs~L~sLP~------sLe~  116 (426)
T PRK15386         48 IEEARASGRLYIKDCDIESLPVLP--NELTEITIENCNNLTTLPGS-I--PEGLEKLTVCHCPEISGLPE------SVRS  116 (426)
T ss_pred             HHHhcCCCEEEeCCCCCcccCCCC--CCCcEEEccCCCCcccCCch-h--hhhhhheEccCccccccccc------ccce
Confidence            344567778888888777766322  35777877765 44444432 2  24677777777755555654      3555


Q ss_pred             EeccCCC---Ccccchh
Q 038398          569 LDLSSTA---ITHLPIE  582 (720)
Q Consensus       569 L~L~~~~---i~~lp~~  582 (720)
                      |+++++.   +..+|++
T Consensus       117 L~L~~n~~~~L~~LPss  133 (426)
T PRK15386        117 LEIKGSATDSIKNVPNG  133 (426)
T ss_pred             EEeCCCCCcccccCcch
Confidence            5565543   4455543

>KOG2120 consensus SCF ubiquitin ligase, Skp2 component [Posttranslational modification, protein turnover, chaperones]

Probab=97.90  E-value=1e-06  Score=84.86  Aligned_cols=185  Identities=18%  Similarity=0.132  Sum_probs=131.6

Q ss_pred             CcccEEEccCCCCcCcc-hHHhccCCcccEEEccCCCCCccCCccccCCCCCCEEeccCC-CCcccc--hhhhcCCCCCE
Q 038398          516 PHLLSLFLSDNSLKMST-DDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSST-AITHLP--IELQKLVNLKC  591 (720)
Q Consensus       516 ~~L~~L~l~~~~~~~~~-~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~~-~i~~lp--~~i~~l~~L~~  591 (720)
                      ..|+.|+++...++.-. ...+..+.+|+-|.|.|++....+...|..=.+|+.|+|++| .+++.-  --+.+++.|+.
T Consensus       185 sRlq~lDLS~s~it~stl~~iLs~C~kLk~lSlEg~~LdD~I~~~iAkN~~L~~lnlsm~sG~t~n~~~ll~~scs~L~~  264 (419)
T KOG2120|consen  185 SRLQHLDLSNSVITVSTLHGILSQCSKLKNLSLEGLRLDDPIVNTIAKNSNLVRLNLSMCSGFTENALQLLLSSCSRLDE  264 (419)
T ss_pred             hhhHHhhcchhheeHHHHHHHHHHHHhhhhccccccccCcHHHHHHhccccceeeccccccccchhHHHHHHHhhhhHhh
Confidence            46889999988665432 334778999999999999887777778888899999999998 577542  23788999999


Q ss_pred             EeccCCcCCCCCchhhhh-ccccCceeeccccCCCcccchhcccccCCccccHHHhcCCCCCceeEEEecchhhHHHHhh
Q 038398          592 LNLEYMNNLNQFPRLVIS-AFSKLQVLRMFDCGGSKIERLKINVLFGGHQFLVEELMGMKHLMVLTITLKSWQALKELLI  670 (720)
Q Consensus       592 L~l~~~~~l~~lp~~~~~-~l~~L~~L~~~~~~~~~l~~l~~~~~~~~~~~~~~~l~~l~~L~~L~~~~~~~~~l~~l~~  670 (720)
                      |+++.|......-..++. --.+|..|++.+|..|-..           .....-...+++|..|+++.+..-.- .+..
T Consensus       265 LNlsWc~l~~~~Vtv~V~hise~l~~LNlsG~rrnl~~-----------sh~~tL~~rcp~l~~LDLSD~v~l~~-~~~~  332 (419)
T KOG2120|consen  265 LNLSWCFLFTEKVTVAVAHISETLTQLNLSGYRRNLQK-----------SHLSTLVRRCPNLVHLDLSDSVMLKN-DCFQ  332 (419)
T ss_pred             cCchHhhccchhhhHHHhhhchhhhhhhhhhhHhhhhh-----------hHHHHHHHhCCceeeeccccccccCc-hHHH
Confidence            999998544433221122 2346788999988776311           11222345789999999986654332 3344


Q ss_pred             hhhhhhhccccccccccCCCccccccccccCCcceeeecCCC
Q 038398          671 SQELQRSTQSLFLRCFNDSKSLDIFCLAGLRNLNKLYVAGCK  712 (720)
Q Consensus       671 ~~~~~~~L~~L~l~~~~~l~~l~~~~l~~l~~L~~L~l~~c~  712 (720)
                      .+..++.|++|+++.|=.+..--+-.+...|+|.+|++.||-
T Consensus       333 ~~~kf~~L~~lSlsRCY~i~p~~~~~l~s~psl~yLdv~g~v  374 (419)
T KOG2120|consen  333 EFFKFNYLQHLSLSRCYDIIPETLLELNSKPSLVYLDVFGCV  374 (419)
T ss_pred             HHHhcchheeeehhhhcCCChHHeeeeccCcceEEEEecccc
Confidence            555667999999999865433333357889999999999985

>PRK10865 protein disaggregation chaperone; Provisional

Probab=97.88  E-value=9.1e-05  Score=86.60  Aligned_cols=156  Identities=18%  Similarity=0.221  Sum_probs=87.9

Q ss_pred             CCCCcCchHHHHHHHHHhcCCCceEEEEEcCCCChHHHHHHHHHhhhcC--CCCC-cC-EEEEEEecCcCCHHHHHHHHH
Q 038398          125 CEPTVGLESTFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLG--APNV-FD-VVIWVVVSKDLQLEKIQEKIG  200 (720)
Q Consensus       125 ~~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~--~~~~-f~-~~~wv~v~~~~~~~~~~~~i~  200 (720)
                      .+++|||+.++++++..|.......+.++|++|+|||++|+.+......  +... .. .++++.++.      +.    
T Consensus       177 l~~vigr~~ei~~~i~iL~r~~~~n~lL~G~pGvGKT~l~~~la~~i~~~~vp~~l~~~~~~~l~l~~------l~----  246 (857)
T PRK10865        177 LDPVIGRDEEIRRTIQVLQRRTKNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALDMGA------LV----  246 (857)
T ss_pred             CCcCCCCHHHHHHHHHHHhcCCcCceEEECCCCCCHHHHHHHHHHHhhcCCCchhhCCCEEEEEehhh------hh----
Confidence            3678999999999999997766667779999999999999999988621  0000 12 233333221      10    


Q ss_pred             HHhCCCCCccCCCChhHHHHHHHHHh--ccCcEEEEEecccccc---------ccccccccCCCCCCCcEEEEEcCChhH
Q 038398          201 RRIGFFDESWKNGSLEDKTSDILRIL--GKKKFLLLLDDIWERV---------DLTKVGIPFPDPENKSKIVFTTHFLEI  269 (720)
Q Consensus       201 ~~l~~~~~~~~~~~~~~~~~~l~~~l--~~k~~LlVlDdv~~~~---------~~~~l~~~~~~~~~gs~iiiTtR~~~v  269 (720)
                      ..  ..    .....++....+.+.+  .+++.+|++|+++...         +...+..+.... ..-++|-+|..++.
T Consensus       247 ag--~~----~~g~~e~~lk~~~~~~~~~~~~~ILfIDEih~l~~~~~~~~~~d~~~~lkp~l~~-g~l~~IgaTt~~e~  319 (857)
T PRK10865        247 AG--AK----YRGEFEERLKGVLNDLAKQEGNVILFIDELHTMVGAGKADGAMDAGNMLKPALAR-GELHCVGATTLDEY  319 (857)
T ss_pred             hc--cc----hhhhhHHHHHHHHHHHHHcCCCeEEEEecHHHhccCCCCccchhHHHHhcchhhc-CCCeEEEcCCCHHH
Confidence            00  00    1112233333333322  2468999999986532         111222121111 23456655554443


Q ss_pred             hh-------hhccCceeeccCCChhhHHHHHHHHh
Q 038398          270 CG-------ALKAHEFLKVECLGPEDAWRLFRENL  297 (720)
Q Consensus       270 ~~-------~~~~~~~~~l~~L~~~e~~~Lf~~~~  297 (720)
                      -.       ...-...+.+...+.++...++....
T Consensus       320 r~~~~~d~al~rRf~~i~v~eP~~~~~~~iL~~l~  354 (857)
T PRK10865        320 RQYIEKDAALERRFQKVFVAEPSVEDTIAILRGLK  354 (857)
T ss_pred             HHHhhhcHHHHhhCCEEEeCCCCHHHHHHHHHHHh
Confidence            11       11122356677778898888886554

>KOG1909 consensus Ran GTPase-activating protein [RNA processing and modification; Nuclear structure; Signal transduction mechanisms]

Probab=97.86  E-value=1.7e-05  Score=78.59  Aligned_cols=189  Identities=19%  Similarity=0.139  Sum_probs=93.1

Q ss_pred             ccccceeEEEeccccccc-----C-CCCCCCCcccEEEccCCC---C-cCcch------HHhccCCcccEEEccCCCCCc
Q 038398          491 QNWRNVRRMSLMKNKIEN-----L-SETPTCPHLLSLFLSDNS---L-KMSTD------DFFQSMPSLRVFNMSNNHLLW  554 (720)
Q Consensus       491 ~~~~~l~~L~l~~~~~~~-----~-~~~~~~~~L~~L~l~~~~---~-~~~~~------~~~~~l~~L~~L~L~~~~~~~  554 (720)
                      ..+..+..+++++|.+..     + +.+.+.++|+.-++++--   + ..+|+      ..+.++++|++||||.|-+..
T Consensus        27 ~~~~s~~~l~lsgnt~G~EAa~~i~~~L~~~~~L~~v~~sd~ftGR~~~Ei~e~L~~l~~aL~~~~~L~~ldLSDNA~G~  106 (382)
T KOG1909|consen   27 EPMDSLTKLDLSGNTFGTEAARAIAKVLASKKELREVNLSDMFTGRLKDEIPEALKMLSKALLGCPKLQKLDLSDNAFGP  106 (382)
T ss_pred             cccCceEEEeccCCchhHHHHHHHHHHHhhcccceeeehHhhhcCCcHHHHHHHHHHHHHHHhcCCceeEeeccccccCc
Confidence            344567777888776532     0 112344566666665431   1 11111      123455677777777774433


Q ss_pred             cCCcc----ccCCCCCCEEeccCCCCcccc--------------hhhhcCCCCCEEeccCCcCCCCCchhhh-hccccCc
Q 038398          555 KLPSG----ISTLVSLEHLDLSSTAITHLP--------------IELQKLVNLKCLNLEYMNNLNQFPRLVI-SAFSKLQ  615 (720)
Q Consensus       555 ~lp~~----i~~l~~L~~L~L~~~~i~~lp--------------~~i~~l~~L~~L~l~~~~~l~~lp~~~~-~~l~~L~  615 (720)
                      ..+..    +..+..|++|.|.+|.+...-              .-+..-++|+.+.... |.+..-+...+ ..+....
T Consensus       107 ~g~~~l~~ll~s~~~L~eL~L~N~Glg~~ag~~l~~al~~l~~~kk~~~~~~Lrv~i~~r-Nrlen~ga~~~A~~~~~~~  185 (382)
T KOG1909|consen  107 KGIRGLEELLSSCTDLEELYLNNCGLGPEAGGRLGRALFELAVNKKAASKPKLRVFICGR-NRLENGGATALAEAFQSHP  185 (382)
T ss_pred             cchHHHHHHHHhccCHHHHhhhcCCCChhHHHHHHHHHHHHHHHhccCCCcceEEEEeec-cccccccHHHHHHHHHhcc
Confidence            33322    335566777777777665221              1133345677777665 34444332211 1122223


Q ss_pred             eeeccccCCCcccchhcccccCCccccHHHhcCCCCCceeEEEecchhhHHH--Hhhhhhhhhhcccccccccc
Q 038398          616 VLRMFDCGGSKIERLKINVLFGGHQFLVEELMGMKHLMVLTITLKSWQALKE--LLISQELQRSTQSLFLRCFN  687 (720)
Q Consensus       616 ~L~~~~~~~~~l~~l~~~~~~~~~~~~~~~l~~l~~L~~L~~~~~~~~~l~~--l~~~~~~~~~L~~L~l~~~~  687 (720)
                      .|.-..|..|.|.+-.       .......+..+++|++|++..|.++.-..  +....+..++|+.|+++.|.
T Consensus       186 ~leevr~~qN~I~~eG-------~~al~eal~~~~~LevLdl~DNtft~egs~~LakaL~s~~~L~El~l~dcl  252 (382)
T KOG1909|consen  186 TLEEVRLSQNGIRPEG-------VTALAEALEHCPHLEVLDLRDNTFTLEGSVALAKALSSWPHLRELNLGDCL  252 (382)
T ss_pred             ccceEEEecccccCch-------hHHHHHHHHhCCcceeeecccchhhhHHHHHHHHHhcccchheeecccccc
Confidence            3333344444432100       11334556677777777777666544332  22233334467777777764

>TIGR00362 DnaA chromosomal replication initiator protein DnaA

Probab=97.86  E-value=0.00016  Score=78.00  Aligned_cols=156  Identities=21%  Similarity=0.200  Sum_probs=91.2

Q ss_pred             eEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHHHHHhCCCCCccCCCChhHHHHHHHHHhc
Q 038398          148 GIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKIGRRIGFFDESWKNGSLEDKTSDILRILG  227 (720)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~  227 (720)
                      ..+.|+|++|+|||+|++++++... ....-..++|++.      .++...+...+...       ..    ..+.+.+.
T Consensus       137 n~l~l~G~~G~GKThL~~ai~~~l~-~~~~~~~v~yi~~------~~~~~~~~~~~~~~-------~~----~~~~~~~~  198 (405)
T TIGR00362       137 NPLFIYGGVGLGKTHLLHAIGNEIL-ENNPNAKVVYVSS------EKFTNDFVNALRNN-------KM----EEFKEKYR  198 (405)
T ss_pred             CeEEEECCCCCcHHHHHHHHHHHHH-HhCCCCcEEEEEH------HHHHHHHHHHHHcC-------CH----HHHHHHHH
Confidence            5688999999999999999999872 1111124566643      34444555544311       11    22333333


Q ss_pred             cCcEEEEEeccccccc---c-ccccccCCC-CCCCcEEEEEcCCh-hH--------hhhhccCceeeccCCChhhHHHHH
Q 038398          228 KKKFLLLLDDIWERVD---L-TKVGIPFPD-PENKSKIVFTTHFL-EI--------CGALKAHEFLKVECLGPEDAWRLF  293 (720)
Q Consensus       228 ~k~~LlVlDdv~~~~~---~-~~l~~~~~~-~~~gs~iiiTtR~~-~v--------~~~~~~~~~~~l~~L~~~e~~~Lf  293 (720)
                      + .-+|||||++....   + +.+...+.. ...|..+|+|+... ..        ...+.....+.+++.+.++-..++
T Consensus       199 ~-~dlLiiDDi~~l~~~~~~~~~l~~~~n~~~~~~~~iiits~~~p~~l~~l~~~l~SRl~~g~~v~i~~pd~~~r~~il  277 (405)
T TIGR00362       199 S-VDLLLIDDIQFLAGKERTQEEFFHTFNALHENGKQIVLTSDRPPKELPGLEERLRSRFEWGLVVDIEPPDLETRLAIL  277 (405)
T ss_pred             h-CCEEEEehhhhhcCCHHHHHHHHHHHHHHHHCCCCEEEecCCCHHHHhhhhhhhhhhccCCeEEEeCCCCHHHHHHHH
Confidence            3 34889999974321   1 112111110 12355688887642 21        122223356889999999999999


Q ss_pred             HHHhccCccCCCCChHHHHHHHHHHhCCcchH
Q 038398          294 RENLRRDVLDNHPDIPELARSVAQECAGLPLA  325 (720)
Q Consensus       294 ~~~~~~~~~~~~~~~~~~~~~i~~~c~GlPLa  325 (720)
                      .+.+.......   -+++...|++.+.|.+-.
T Consensus       278 ~~~~~~~~~~l---~~e~l~~ia~~~~~~~r~  306 (405)
T TIGR00362       278 QKKAEEEGLEL---PDEVLEFIAKNIRSNVRE  306 (405)
T ss_pred             HHHHHHcCCCC---CHHHHHHHHHhcCCCHHH
Confidence            98876543222   257778888888876553

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).

>CHL00095 clpC Clp protease ATP binding subunit

Probab=97.85  E-value=9.1e-05  Score=86.70  Aligned_cols=180  Identities=17%  Similarity=0.244  Sum_probs=98.8

Q ss_pred             CCCcCchHHHHHHHHHhcCCCceEEEEEcCCCChHHHHHHHHHhhhcC--CCCCc-CEEEEEEecCcCCHHHHHHHHHHH
Q 038398          126 EPTVGLESTFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLG--APNVF-DVVIWVVVSKDLQLEKIQEKIGRR  202 (720)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~--~~~~f-~~~~wv~v~~~~~~~~~~~~i~~~  202 (720)
                      .+++||+++++++++.|......-+.++|++|+|||++|+.++.....  +.... +..+|. +    +...++    . 
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            567999999999999997766666779999999999999999887621  11111 233442 1    111111    1 


Q ss_pred             hCCCCCccCCCChhHHHHHHHHHhc-cCcEEEEEecccccc---------ccccccccCCCCCCCcEEEEEcCChhHhhh
Q 038398          203 IGFFDESWKNGSLEDKTSDILRILG-KKKFLLLLDDIWERV---------DLTKVGIPFPDPENKSKIVFTTHFLEICGA  272 (720)
Q Consensus       203 l~~~~~~~~~~~~~~~~~~l~~~l~-~k~~LlVlDdv~~~~---------~~~~l~~~~~~~~~gs~iiiTtR~~~v~~~  272 (720)
                       +..    ...+.++....+.+.+. .++.+|++|+++...         +...+..+... ...-++|.+|........
T Consensus       249 -g~~----~~ge~e~rl~~i~~~~~~~~~~ILfiDEih~l~~~g~~~g~~~~a~lLkp~l~-rg~l~~IgaTt~~ey~~~  322 (821)
T CHL00095        249 -GTK----YRGEFEERLKRIFDEIQENNNIILVIDEVHTLIGAGAAEGAIDAANILKPALA-RGELQCIGATTLDEYRKH  322 (821)
T ss_pred             -cCC----CccHHHHHHHHHHHHHHhcCCeEEEEecHHHHhcCCCCCCcccHHHHhHHHHh-CCCcEEEEeCCHHHHHHH
Confidence             111    11233444444444333 468999999996321         11111111111 123456666665543211


Q ss_pred             -------hccCceeeccCCChhhHHHHHHHHhccCc-cCCCCChHHHHHHHHHHhCC
Q 038398          273 -------LKAHEFLKVECLGPEDAWRLFRENLRRDV-LDNHPDIPELARSVAQECAG  321 (720)
Q Consensus       273 -------~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~-~~~~~~~~~~~~~i~~~c~G  321 (720)
                             ......+.++..+.++...++........ .....--.+....+++.++|
T Consensus       323 ie~D~aL~rRf~~I~v~ep~~~e~~aILr~l~~~~e~~~~v~i~deal~~i~~ls~~  379 (821)
T CHL00095        323 IEKDPALERRFQPVYVGEPSVEETIEILFGLRSRYEKHHNLSISDKALEAAAKLSDQ  379 (821)
T ss_pred             HhcCHHHHhcceEEecCCCCHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhhc
Confidence                   12235678888999998888765432100 00001224555666666654

>PRK14088 dnaA chromosomal replication initiation protein; Provisional

Probab=97.85  E-value=0.00016  Score=78.19  Aligned_cols=156  Identities=22%  Similarity=0.191  Sum_probs=93.8

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcC-EEEEEEecCcCCHHHHHHHHHHHhCCCCCccCCCChhHHHHHHHHH
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFD-VVIWVVVSKDLQLEKIQEKIGRRIGFFDESWKNGSLEDKTSDILRI  225 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~-~~~wv~v~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~  225 (720)
                      ..-+.|+|++|+|||+|++++++...  ..... .++|++.      .++...+...+...       ..+    ...+.
T Consensus       130 ~n~l~lyG~~G~GKTHLl~ai~~~l~--~~~~~~~v~yi~~------~~f~~~~~~~~~~~-------~~~----~f~~~  190 (440)
T PRK14088        130 YNPLFIYGGVGLGKTHLLQSIGNYVV--QNEPDLRVMYITS------EKFLNDLVDSMKEG-------KLN----EFREK  190 (440)
T ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHH--HhCCCCeEEEEEH------HHHHHHHHHHHhcc-------cHH----HHHHH
Confidence            34699999999999999999999872  22233 5677753      34556665555311       112    23333


Q ss_pred             hccCcEEEEEecccccc---cc-ccccccCC-CCCCCcEEEEEcC-ChhHh--------hhhccCceeeccCCChhhHHH
Q 038398          226 LGKKKFLLLLDDIWERV---DL-TKVGIPFP-DPENKSKIVFTTH-FLEIC--------GALKAHEFLKVECLGPEDAWR  291 (720)
Q Consensus       226 l~~k~~LlVlDdv~~~~---~~-~~l~~~~~-~~~~gs~iiiTtR-~~~v~--------~~~~~~~~~~l~~L~~~e~~~  291 (720)
                      +..+.-+|++||+....   .. ..+...+. ....|..||+||. .+.-.        ..+.....+.+++.+.+.-..
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            33445689999997431   11 12211111 0123457888874 32221        122334577899999999999


Q ss_pred             HHHHHhccCccCCCCChHHHHHHHHHHhCCcch
Q 038398          292 LFRENLRRDVLDNHPDIPELARSVAQECAGLPL  324 (720)
Q Consensus       292 Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~GlPL  324 (720)
                      ++.+.+.......   -+++...|++.+.|..-
T Consensus       271 IL~~~~~~~~~~l---~~ev~~~Ia~~~~~~~R  300 (440)
T PRK14088        271 IARKMLEIEHGEL---PEEVLNFVAENVDDNLR  300 (440)
T ss_pred             HHHHHHHhcCCCC---CHHHHHHHHhccccCHH
Confidence            9998876433122   26678888888877543

>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=97.84  E-value=1.7e-05  Score=54.80  Aligned_cols=40  Identities=35%  Similarity=0.591  Sum_probs=27.0

Q ss_pred             CcccEEEccCCCCCccCCccccCCCCCCEEeccCCCCcccc
Q 038398          540 PSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSSTAITHLP  580 (720)
Q Consensus       540 ~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~~~i~~lp  580 (720)
                      ++|++|++++|++ ..+|..+++|++|++|++++|+|+.+|
T Consensus         1 ~~L~~L~l~~N~i-~~l~~~l~~l~~L~~L~l~~N~i~~i~   40 (44)
T PF12799_consen    1 KNLEELDLSNNQI-TDLPPELSNLPNLETLNLSNNPISDIS   40 (44)
T ss_dssp             TT-SEEEETSSS--SSHGGHGTTCTTSSEEEETSSCCSBEG
T ss_pred             CcceEEEccCCCC-cccCchHhCCCCCCEEEecCCCCCCCc
Confidence            3577777777743 466666777777777777777777665

...

>PRK15386 type III secretion protein GogB; Provisional

Probab=97.84  E-value=2.9e-05  Score=80.67  Aligned_cols=160  Identities=19%  Similarity=0.231  Sum_probs=97.1

Q ss_pred             CCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCccCCccccCCCCCCEEeccCC-CCcccchhhhcCCCCCE
Q 038398          513 PTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSST-AITHLPIELQKLVNLKC  591 (720)
Q Consensus       513 ~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~~-~i~~lp~~i~~l~~L~~  591 (720)
                      ..|+++..|++++|.++.+|.  +  ..+|+.|++++|.....+|..+.  .+|++|++++| .+..+|.+      |+.
T Consensus        49 ~~~~~l~~L~Is~c~L~sLP~--L--P~sLtsL~Lsnc~nLtsLP~~LP--~nLe~L~Ls~Cs~L~sLP~s------Le~  116 (426)
T PRK15386         49 EEARASGRLYIKDCDIESLPV--L--PNELTEITIENCNNLTTLPGSIP--EGLEKLTVCHCPEISGLPES------VRS  116 (426)
T ss_pred             HHhcCCCEEEeCCCCCcccCC--C--CCCCcEEEccCCCCcccCCchhh--hhhhheEccCcccccccccc------cce
Confidence            346889999999998888762  2  24699999999877778887653  68999999998 78888754      555


Q ss_pred             EeccC--CcCCCCCchhhhhccccCceeeccccCCCcccchhcccccCCccccHHHhcCCCCCceeEEEecchhhHHHHh
Q 038398          592 LNLEY--MNNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKINVLFGGHQFLVEELMGMKHLMVLTITLKSWQALKELL  669 (720)
Q Consensus       592 L~l~~--~~~l~~lp~~~~~~l~~L~~L~~~~~~~~~l~~l~~~~~~~~~~~~~~~l~~l~~L~~L~~~~~~~~~l~~l~  669 (720)
                      |++.+  |..+..+|.       +|+.|.+.+...+....+            ...+  -++|+.|.+.++....+   +
T Consensus       117 L~L~~n~~~~L~~LPs-------sLk~L~I~~~n~~~~~~l------------p~~L--PsSLk~L~Is~c~~i~L---P  172 (426)
T PRK15386        117 LEIKGSATDSIKNVPN-------GLTSLSINSYNPENQARI------------DNLI--SPSLKTLSLTGCSNIIL---P  172 (426)
T ss_pred             EEeCCCCCcccccCcc-------hHhheecccccccccccc------------cccc--CCcccEEEecCCCcccC---c
Confidence            66654  223444554       345555533211110000            0001  15788899986654321   1


Q ss_pred             hhhhhhhhccccccccccCCCc--cccccccccCCcceeeecCCCCC
Q 038398          670 ISQELQRSTQSLFLRCFNDSKS--LDIFCLAGLRNLNKLYVAGCKHL  714 (720)
Q Consensus       670 ~~~~~~~~L~~L~l~~~~~l~~--l~~~~l~~l~~L~~L~l~~c~~l  714 (720)
                        ...+.+|+.|+++.+. +..  ++...+.  +++ .|++.+|-++
T Consensus       173 --~~LP~SLk~L~ls~n~-~~sLeI~~~sLP--~nl-~L~f~n~lkL  213 (426)
T PRK15386        173 --EKLPESLQSITLHIEQ-KTTWNISFEGFP--DGL-DIDLQNSVLL  213 (426)
T ss_pred             --ccccccCcEEEecccc-cccccCcccccc--ccc-Eechhhhccc
Confidence              2244689999987643 222  2212232  456 7888887554

>PRK00149 dnaA chromosomal replication initiation protein; Reviewed

Probab=97.82  E-value=0.00017  Score=78.64  Aligned_cols=157  Identities=19%  Similarity=0.175  Sum_probs=92.7

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHHHHHhCCCCCccCCCChhHHHHHHHHHh
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKIGRRIGFFDESWKNGSLEDKTSDILRIL  226 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l  226 (720)
                      ...+.|+|++|+|||+|++++++... ....--.++|++.      ..+...+...+..       ...    ..+.+.+
T Consensus       148 ~~~l~l~G~~G~GKThL~~ai~~~~~-~~~~~~~v~yi~~------~~~~~~~~~~~~~-------~~~----~~~~~~~  209 (450)
T PRK00149        148 YNPLFIYGGVGLGKTHLLHAIGNYIL-EKNPNAKVVYVTS------EKFTNDFVNALRN-------NTM----EEFKEKY  209 (450)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHH-HhCCCCeEEEEEH------HHHHHHHHHHHHc-------CcH----HHHHHHH
Confidence            35689999999999999999999872 1111224566643      2334444444421       111    2333344


Q ss_pred             ccCcEEEEEeccccccc----cccccccCC-CCCCCcEEEEEcCChh---------HhhhhccCceeeccCCChhhHHHH
Q 038398          227 GKKKFLLLLDDIWERVD----LTKVGIPFP-DPENKSKIVFTTHFLE---------ICGALKAHEFLKVECLGPEDAWRL  292 (720)
Q Consensus       227 ~~k~~LlVlDdv~~~~~----~~~l~~~~~-~~~~gs~iiiTtR~~~---------v~~~~~~~~~~~l~~L~~~e~~~L  292 (720)
                      + +.-+|||||++....    .+.+...+. ....|..||+||....         +...+.....+++++++.++-..+
T Consensus       210 ~-~~dlLiiDDi~~l~~~~~~~~~l~~~~n~l~~~~~~iiits~~~p~~l~~l~~~l~SRl~~gl~v~i~~pd~~~r~~i  288 (450)
T PRK00149        210 R-SVDVLLIDDIQFLAGKERTQEEFFHTFNALHEAGKQIVLTSDRPPKELPGLEERLRSRFEWGLTVDIEPPDLETRIAI  288 (450)
T ss_pred             h-cCCEEEEehhhhhcCCHHHHHHHHHHHHHHHHCCCcEEEECCCCHHHHHHHHHHHHhHhcCCeeEEecCCCHHHHHHH
Confidence            4 344899999964211    112211111 0123456888876432         122333345789999999999999


Q ss_pred             HHHHhccCccCCCCChHHHHHHHHHHhCCcchH
Q 038398          293 FRENLRRDVLDNHPDIPELARSVAQECAGLPLA  325 (720)
Q Consensus       293 f~~~~~~~~~~~~~~~~~~~~~i~~~c~GlPLa  325 (720)
                      +.+.+.....   .--+++...|++.+.|..-.
T Consensus       289 l~~~~~~~~~---~l~~e~l~~ia~~~~~~~R~  318 (450)
T PRK00149        289 LKKKAEEEGI---DLPDEVLEFIAKNITSNVRE  318 (450)
T ss_pred             HHHHHHHcCC---CCCHHHHHHHHcCcCCCHHH
Confidence            9998764321   12357788888888886553

>COG3267 ExeA Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]

Probab=97.82  E-value=0.00077  Score=64.59  Aligned_cols=183  Identities=18%  Similarity=0.203  Sum_probs=106.0

Q ss_pred             CCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEec-CcCCHHHHHHHHHHHhCCCCCccCCCChhHHHHHHH
Q 038398          145 EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVS-KDLQLEKIQEKIGRRIGFFDESWKNGSLEDKTSDIL  223 (720)
Q Consensus       145 ~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~-~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~  223 (720)
                      ++-+++.|+|.-|+|||+++++......    . +.++-|.+. ...+...+...+...+............++..+.+.
T Consensus        49 d~qg~~~vtGevGsGKTv~~Ral~~s~~----~-d~~~~v~i~~~~~s~~~~~~ai~~~l~~~p~~~~~~~~e~~~~~L~  123 (269)
T COG3267          49 DGQGILAVTGEVGSGKTVLRRALLASLN----E-DQVAVVVIDKPTLSDATLLEAIVADLESQPKVNVNAVLEQIDRELA  123 (269)
T ss_pred             cCCceEEEEecCCCchhHHHHHHHHhcC----C-CceEEEEecCcchhHHHHHHHHHHHhccCccchhHHHHHHHHHHHH
Confidence            4557999999999999999996655541    1 112223333 345667788888888866221111112233344444


Q ss_pred             HHh-ccCc-EEEEEeccccc--cccccccccC--C-CCCCCcEEEEEcCCh-------hHhhhhc-cCce-eeccCCChh
Q 038398          224 RIL-GKKK-FLLLLDDIWER--VDLTKVGIPF--P-DPENKSKIVFTTHFL-------EICGALK-AHEF-LKVECLGPE  287 (720)
Q Consensus       224 ~~l-~~k~-~LlVlDdv~~~--~~~~~l~~~~--~-~~~~gs~iiiTtR~~-------~v~~~~~-~~~~-~~l~~L~~~  287 (720)
                      +.. ++++ ..++.||..+.  ..++.++...  . ....--+|+..-..+       .+..... -... |++.|++.+
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            443 3566 89999998653  2222221111  1 111112233322210       1111111 1123 899999999


Q ss_pred             hHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCcchHHHHHHHH
Q 038398          288 DAWRLFRENLRRDVLDNHPDIPELARSVAQECAGLPLALITIGRA  332 (720)
Q Consensus       288 e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~GlPLai~~~~~~  332 (720)
                      +...++..+..+.....+---.+....|.....|.|.+|+.++..
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            999999998876642333334567788999999999999988743

>COG0466 Lon ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]

Probab=97.81  E-value=0.0017  Score=70.90  Aligned_cols=157  Identities=21%  Similarity=0.252  Sum_probs=89.8

Q ss_pred             CCcCchHHHHHHHHHhcC------CCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHHH
Q 038398          127 PTVGLESTFDKVWRCLGE------EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKIG  200 (720)
Q Consensus       127 ~~vGr~~~~~~l~~~L~~------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i~  200 (720)
                      +-+|.++.+++|++.|.-      -.-+++.++||+|+|||+|++.++...   ...|   +-++++.-.|-.+|..   
T Consensus       324 dHYGLekVKeRIlEyLAV~~l~~~~kGpILcLVGPPGVGKTSLgkSIA~al---~Rkf---vR~sLGGvrDEAEIRG---  394 (782)
T COG0466         324 DHYGLEKVKERILEYLAVQKLTKKLKGPILCLVGPPGVGKTSLGKSIAKAL---GRKF---VRISLGGVRDEAEIRG---  394 (782)
T ss_pred             cccCchhHHHHHHHHHHHHHHhccCCCcEEEEECCCCCCchhHHHHHHHHh---CCCE---EEEecCccccHHHhcc---
Confidence            458999999999999831      234799999999999999999999987   3344   2234444444443321   


Q ss_pred             HHhCCCCCccCCCChhHHHHHHHHHhccCcEEEEEecccccc---------ccccccc---------cCCCCC-CCcEEE
Q 038398          201 RRIGFFDESWKNGSLEDKTSDILRILGKKKFLLLLDDIWERV---------DLTKVGI---------PFPDPE-NKSKIV  261 (720)
Q Consensus       201 ~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~---------~~~~l~~---------~~~~~~-~gs~ii  261 (720)
                           ....+...-+....+.+. ..+.+.-+++||.++...         .+.++..         .+.... -=|+|+
T Consensus       395 -----HRRTYIGamPGrIiQ~mk-ka~~~NPv~LLDEIDKm~ss~rGDPaSALLEVLDPEQN~~F~DhYLev~yDLS~Vm  468 (782)
T COG0466         395 -----HRRTYIGAMPGKIIQGMK-KAGVKNPVFLLDEIDKMGSSFRGDPASALLEVLDPEQNNTFSDHYLEVPYDLSKVM  468 (782)
T ss_pred             -----ccccccccCChHHHHHHH-HhCCcCCeEEeechhhccCCCCCChHHHHHhhcCHhhcCchhhccccCccchhheE
Confidence                 110111111122222222 234466799999987421         1111111         110000 114444


Q ss_pred             -EEcCC-hh-H-hhhhccCceeeccCCChhhHHHHHHHHhc
Q 038398          262 -FTTHF-LE-I-CGALKAHEFLKVECLGPEDAWRLFRENLR  298 (720)
Q Consensus       262 -iTtR~-~~-v-~~~~~~~~~~~l~~L~~~e~~~Lf~~~~~  298 (720)
                       |||-| -. + ...++...++++.+.+++|-.++-+++..
T Consensus       469 FiaTANsl~tIP~PLlDRMEiI~lsgYt~~EKl~IAk~~Li  509 (782)
T COG0466         469 FIATANSLDTIPAPLLDRMEVIRLSGYTEDEKLEIAKRHLI  509 (782)
T ss_pred             EEeecCccccCChHHhcceeeeeecCCChHHHHHHHHHhcc
Confidence             44433 22 2 23344557899999999999988888764

>KOG1859 consensus Leucine-rich repeat proteins [General function prediction only]

Probab=97.79  E-value=7.6e-07  Score=95.50  Aligned_cols=125  Identities=27%  Similarity=0.372  Sum_probs=89.1

Q ss_pred             ccccceeEEEecccccccCCCC-CCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCccCCccccCCCCCCEE
Q 038398          491 QNWRNVRRMSLMKNKIENLSET-PTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVSLEHL  569 (720)
Q Consensus       491 ~~~~~l~~L~l~~~~~~~~~~~-~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L  569 (720)
                      ..|.+|...+.+.|.+..+... .-++.|+.|+|++|++++..  ++..|++|+.|||++|. +..+|.--..-.+|+.|
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--NLRRLPKLKHLDLSYNC-LRHVPQLSMVGCKLQLL  237 (1096)
T ss_pred             hhhhhHhhhhcchhhHHhHHHHHHHHHHhhhhccchhhhhhhH--HHHhcccccccccccch-hccccccchhhhhheee
Confidence            3467788888888887665443 55689999999999988876  58899999999999994 44666422222349999


Q ss_pred             eccCCCCcccchhhhcCCCCCEEeccCCcCCCCCchh-hhhccccCceeecc
Q 038398          570 DLSSTAITHLPIELQKLVNLKCLNLEYMNNLNQFPRL-VISAFSKLQVLRMF  620 (720)
Q Consensus       570 ~L~~~~i~~lp~~i~~l~~L~~L~l~~~~~l~~lp~~-~~~~l~~L~~L~~~  620 (720)
                      ++++|.++++- ++.+|.+|++||+++| .+...... -+..|..|+.|.+-
T Consensus       238 ~lrnN~l~tL~-gie~LksL~~LDlsyN-ll~~hseL~pLwsLs~L~~L~Le  287 (1096)
T KOG1859|consen  238 NLRNNALTTLR-GIENLKSLYGLDLSYN-LLSEHSELEPLWSLSSLIVLWLE  287 (1096)
T ss_pred             eecccHHHhhh-hHHhhhhhhccchhHh-hhhcchhhhHHHHHHHHHHHhhc
Confidence            99999999884 6899999999999984 33333220 13344444444444

>PRK07399 DNA polymerase III subunit delta'; Validated

Probab=97.77  E-value=0.00093  Score=68.64  Aligned_cols=196  Identities=14%  Similarity=0.144  Sum_probs=106.6

Q ss_pred             CCCcCchHHHHHHHHHhcCCCc-eEEEEEcCCCChHHHHHHHHHhhhcCCC------------CCcCEEEEEEecCcCCH
Q 038398          126 EPTVGLESTFDKVWRCLGEEQV-GIIGLYGMGGVGKTTLLTKINNKLLGAP------------NVFDVVIWVVVSKDLQL  192 (720)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~~~~~------------~~f~~~~wv~v~~~~~~  192 (720)
                      .+++|.+..++.+...+..+.. ....++|+.|+||+++|..+........            ..+.-..|+.-....+-
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            5679999999999999987764 7899999999999999998877652111            11122334321100000


Q ss_pred             HHHHHHHHHHhCCCCCccCCCChhHHHHHHHHHhc-----cCcEEEEEeccccc--cccccccccCCCCCCCcEEEEEcC
Q 038398          193 EKIQEKIGRRIGFFDESWKNGSLEDKTSDILRILG-----KKKFLLLLDDIWER--VDLTKVGIPFPDPENKSKIVFTTH  265 (720)
Q Consensus       193 ~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~-----~k~~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~iiiTtR  265 (720)
                      ..+-...+...+...........++ ++.+.+.+.     +++-++|+|+++..  .....+...+....+..-|++|+.
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            0000011111111000001111222 233444443     45668999998753  223333222322222333444444


Q ss_pred             ChhHhh-hhccCceeeccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCcchHHHH
Q 038398          266 FLEICG-ALKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGLPLALIT  328 (720)
Q Consensus       266 ~~~v~~-~~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~GlPLai~~  328 (720)
                      ...+.. ..+-...+++.++++++..+.+........      .......++..++|.|..+..
T Consensus       163 ~~~Ll~TI~SRcq~i~f~~l~~~~~~~~L~~~~~~~~------~~~~~~~l~~~a~Gs~~~al~  220 (314)
T PRK07399        163 PESLLPTIVSRCQIIPFYRLSDEQLEQVLKRLGDEEI------LNINFPELLALAQGSPGAAIA  220 (314)
T ss_pred             hHhCcHHHHhhceEEecCCCCHHHHHHHHHHhhcccc------chhHHHHHHHHcCCCHHHHHH
Confidence            434332 223346889999999999999987643211      111236788999999965544

>PF05673 DUF815: Protein of unknown function (DUF815); InterPro: IPR008533 This domain consists of several bacterial proteins of unknown function

Probab=97.76  E-value=0.0007  Score=65.17  Aligned_cols=50  Identities=18%  Similarity=0.283  Sum_probs=40.0

Q ss_pred             CCCCCCCcCchHHHHHHHHHh----cCCCceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          122 QRPCEPTVGLESTFDKVWRCL----GEEQVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       122 ~~~~~~~vGr~~~~~~l~~~L----~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      +.+.+.++|.|..++.|++-.    ......-+.+||..|+|||++++++.+..
T Consensus        23 ~~~l~~L~Gie~Qk~~l~~Nt~~Fl~G~pannvLL~G~rGtGKSSlVkall~~y   76 (249)
T PF05673_consen   23 PIRLDDLIGIERQKEALIENTEQFLQGLPANNVLLWGARGTGKSSLVKALLNEY   76 (249)
T ss_pred             CCCHHHhcCHHHHHHHHHHHHHHHHcCCCCcceEEecCCCCCHHHHHHHHHHHH
Confidence            334467899999998886643    33456778899999999999999999887

>TIGR01241 FtsH_fam ATP-dependent metalloprotease FtsH

Probab=97.75  E-value=0.00042  Score=76.62  Aligned_cols=177  Identities=12%  Similarity=0.140  Sum_probs=94.4

Q ss_pred             CCCcCchHHHHHHHHHh---cC---------CCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHH
Q 038398          126 EPTVGLESTFDKVWRCL---GE---------EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLE  193 (720)
Q Consensus       126 ~~~vGr~~~~~~l~~~L---~~---------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~  193 (720)
                      ++++|.+..++++.+.+   ..         ...+-+.++|++|+|||++|+.++...   ...     |+.++.    .
T Consensus        55 ~di~g~~~~k~~l~~~~~~l~~~~~~~~~g~~~~~giLL~GppGtGKT~la~alA~~~---~~~-----~~~i~~----~  122 (495)
T TIGR01241        55 KDVAGIDEAKEELMEIVDFLKNPSKFTKLGAKIPKGVLLVGPPGTGKTLLAKAVAGEA---GVP-----FFSISG----S  122 (495)
T ss_pred             HHhCCHHHHHHHHHHHHHHHHCHHHHHhcCCCCCCcEEEECCCCCCHHHHHHHHHHHc---CCC-----eeeccH----H
Confidence            45688887766655433   21         224568899999999999999999876   222     222221    1


Q ss_pred             HHHHHHHHHhCCCCCccCCCChhHHHHHHHHHhccCcEEEEEeccccccc----------------cccccccCC--CCC
Q 038398          194 KIQEKIGRRIGFFDESWKNGSLEDKTSDILRILGKKKFLLLLDDIWERVD----------------LTKVGIPFP--DPE  255 (720)
Q Consensus       194 ~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~----------------~~~l~~~~~--~~~  255 (720)
                      .+..    ..       ...........+.......+.+|+|||++....                +..+...+.  ...
T Consensus       123 ~~~~----~~-------~g~~~~~l~~~f~~a~~~~p~Il~iDEid~l~~~r~~~~~~~~~~~~~~~~~lL~~~d~~~~~  191 (495)
T TIGR01241       123 DFVE----MF-------VGVGASRVRDLFEQAKKNAPCIIFIDEIDAVGRQRGAGLGGGNDEREQTLNQLLVEMDGFGTN  191 (495)
T ss_pred             HHHH----HH-------hcccHHHHHHHHHHHHhcCCCEEEEechhhhhhccccCcCCccHHHHHHHHHHHhhhccccCC
Confidence            1111    11       001111222222333345678999999964210                001111111  122


Q ss_pred             CCcEEEEEcCChhHhh-hh----ccCceeeccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCc-chHHHHH
Q 038398          256 NKSKIVFTTHFLEICG-AL----KAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGL-PLALITI  329 (720)
Q Consensus       256 ~gs~iiiTtR~~~v~~-~~----~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~Gl-PLai~~~  329 (720)
                      .+..||.||....... .+    .-...+.++..+.++-.++|..++.......    ......+++.+.|. +--|..+
T Consensus       192 ~~v~vI~aTn~~~~ld~al~r~gRfd~~i~i~~Pd~~~R~~il~~~l~~~~~~~----~~~l~~la~~t~G~sgadl~~l  267 (495)
T TIGR01241       192 TGVIVIAATNRPDVLDPALLRPGRFDRQVVVDLPDIKGREEILKVHAKNKKLAP----DVDLKAVARRTPGFSGADLANL  267 (495)
T ss_pred             CCeEEEEecCChhhcCHHHhcCCcceEEEEcCCCCHHHHHHHHHHHHhcCCCCc----chhHHHHHHhCCCCCHHHHHHH
Confidence            3445666665443211 11    2345788999999999999988775432111    12245778888774 3444443

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.

>COG1373 Predicted ATPase (AAA+ superfamily) [General function prediction only]

Probab=97.74  E-value=0.00033  Score=74.54  Aligned_cols=165  Identities=19%  Similarity=0.166  Sum_probs=96.6

Q ss_pred             CchHHHHHHHHHhcCCCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHHHHHhCCCCCc
Q 038398          130 GLESTFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKIGRRIGFFDES  209 (720)
Q Consensus       130 Gr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i~~~l~~~~~~  209 (720)
                      -|..-..++.+.+..... ++.|.|+-++||||+++.+....   .+.   .+++..-.......-+.            
T Consensus        21 ~~~~~~~~l~~~~~~~~~-i~~i~GpR~~GKTtll~~l~~~~---~~~---~iy~~~~d~~~~~~~l~------------   81 (398)
T COG1373          21 ERRKLLPRLIKKLDLRPF-IILILGPRQVGKTTLLKLLIKGL---LEE---IIYINFDDLRLDRIELL------------   81 (398)
T ss_pred             hHHhhhHHHHhhcccCCc-EEEEECCccccHHHHHHHHHhhC---Ccc---eEEEEecchhcchhhHH------------
Confidence            344555666666654433 99999999999999998777665   222   55554332211110001            


Q ss_pred             cCCCChhHHHHHHHHHhccCcEEEEEeccccccccccccccCCCCCCCcEEEEEcCChhHhhh-----h-ccCceeeccC
Q 038398          210 WKNGSLEDKTSDILRILGKKKFLLLLDDIWERVDLTKVGIPFPDPENKSKIVFTTHFLEICGA-----L-KAHEFLKVEC  283 (720)
Q Consensus       210 ~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~~~~l~~~~~~~~~gs~iiiTtR~~~v~~~-----~-~~~~~~~l~~  283 (720)
                             +....+...-..++..|+||.|....+|......+.+.++. +|++|+.+......     . +-...+++.|
T Consensus        82 -------d~~~~~~~~~~~~~~yifLDEIq~v~~W~~~lk~l~d~~~~-~v~itgsss~ll~~~~~~~L~GR~~~~~l~P  153 (398)
T COG1373          82 -------DLLRAYIELKEREKSYIFLDEIQNVPDWERALKYLYDRGNL-DVLITGSSSSLLSKEISESLAGRGKDLELYP  153 (398)
T ss_pred             -------HHHHHHHHhhccCCceEEEecccCchhHHHHHHHHHccccc-eEEEECCchhhhccchhhhcCCCceeEEECC
Confidence                   11111111112277899999999999998776666555555 89998887665322     1 2245689999


Q ss_pred             CChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCcchHHHH
Q 038398          284 LGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGLPLALIT  328 (720)
Q Consensus       284 L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~GlPLai~~  328 (720)
                      ||..|-..+-...+     .. .... ..-+-.-..||.|.++..
T Consensus       154 lSF~Efl~~~~~~~-----~~-~~~~-~~f~~Yl~~GGfP~~v~~  191 (398)
T COG1373         154 LSFREFLKLKGEEI-----EP-SKLE-LLFEKYLETGGFPESVKA  191 (398)
T ss_pred             CCHHHHHhhccccc-----ch-hHHH-HHHHHHHHhCCCcHHHhC
Confidence            99999876543000     00 0111 122223356888887764

>PRK12422 chromosomal replication initiation protein; Provisional

Probab=97.74  E-value=0.00041  Score=74.79  Aligned_cols=158  Identities=14%  Similarity=0.087  Sum_probs=90.3

Q ss_pred             eEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHHHHHhCCCCCccCCCChhHHHHHHHHHhc
Q 038398          148 GIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKIGRRIGFFDESWKNGSLEDKTSDILRILG  227 (720)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~  227 (720)
                      .-+.|+|+.|+|||+|++++++...   .....++|++      ...+...+...+...       .    ...+++.+.
T Consensus       142 npl~L~G~~G~GKTHLl~Ai~~~l~---~~~~~v~yi~------~~~f~~~~~~~l~~~-------~----~~~f~~~~~  201 (445)
T PRK12422        142 NPIYLFGPEGSGKTHLMQAAVHALR---ESGGKILYVR------SELFTEHLVSAIRSG-------E----MQRFRQFYR  201 (445)
T ss_pred             ceEEEEcCCCCCHHHHHHHHHHHHH---HcCCCEEEee------HHHHHHHHHHHHhcc-------h----HHHHHHHcc
Confidence            5688999999999999999999872   1223455664      234444555554211       1    122333333


Q ss_pred             cCcEEEEEeccccccc----cccccccCCC-CCCCcEEEEEcCCh-h--------HhhhhccCceeeccCCChhhHHHHH
Q 038398          228 KKKFLLLLDDIWERVD----LTKVGIPFPD-PENKSKIVFTTHFL-E--------ICGALKAHEFLKVECLGPEDAWRLF  293 (720)
Q Consensus       228 ~k~~LlVlDdv~~~~~----~~~l~~~~~~-~~~gs~iiiTtR~~-~--------v~~~~~~~~~~~l~~L~~~e~~~Lf  293 (720)
                       ..-+|++||+.....    .+.+...+.. ...|..||+||... .        +...+.....+.+.+++.++-..++
T Consensus       202 -~~dvLiIDDiq~l~~k~~~qeelf~l~N~l~~~~k~IIlts~~~p~~l~~l~~rL~SR~~~Gl~~~l~~pd~e~r~~iL  280 (445)
T PRK12422        202 -NVDALFIEDIEVFSGKGATQEEFFHTFNSLHTEGKLIVISSTCAPQDLKAMEERLISRFEWGIAIPLHPLTKEGLRSFL  280 (445)
T ss_pred             -cCCEEEEcchhhhcCChhhHHHHHHHHHHHHHCCCcEEEecCCCHHHHhhhHHHHHhhhcCCeEEecCCCCHHHHHHHH
Confidence             344888899864321    1122111110 12355788888542 1        1222333467889999999999999


Q ss_pred             HHHhccCccCCCCChHHHHHHHHHHhCC-cchHHHHH
Q 038398          294 RENLRRDVLDNHPDIPELARSVAQECAG-LPLALITI  329 (720)
Q Consensus       294 ~~~~~~~~~~~~~~~~~~~~~i~~~c~G-lPLai~~~  329 (720)
                      .+.+......   --+++..-|++.+.| .|-....+
T Consensus       281 ~~k~~~~~~~---l~~evl~~la~~~~~dir~L~g~l  314 (445)
T PRK12422        281 ERKAEALSIR---IEETALDFLIEALSSNVKSLLHAL  314 (445)
T ss_pred             HHHHHHcCCC---CCHHHHHHHHHhcCCCHHHHHHHH
Confidence            8887653311   125566667776664 34333333

>KOG1909 consensus Ran GTPase-activating protein [RNA processing and modification; Nuclear structure; Signal transduction mechanisms]

Probab=97.71  E-value=2.6e-05  Score=77.34  Aligned_cols=191  Identities=22%  Similarity=0.232  Sum_probs=125.4

Q ss_pred             CCCCCcccEEEccCCCCcCcc----hHHhccCCcccEEEccCCCCCc----cCCcc-------ccCCCCCCEEeccCCCC
Q 038398          512 TPTCPHLLSLFLSDNSLKMST----DDFFQSMPSLRVFNMSNNHLLW----KLPSG-------ISTLVSLEHLDLSSTAI  576 (720)
Q Consensus       512 ~~~~~~L~~L~l~~~~~~~~~----~~~~~~l~~L~~L~L~~~~~~~----~lp~~-------i~~l~~L~~L~L~~~~i  576 (720)
                      ......+..+++++|.+..-.    ...+.+.+.|+..++++- +.+    ++|..       +-..++|++|+||.|-+
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            355678899999999774432    234677889999999874 333    34443       34667999999999976


Q ss_pred             c-c----cchhhhcCCCCCEEeccCCcCCCCCchhhh----------hccccCceeeccccCCCcccchhcccccCCccc
Q 038398          577 T-H----LPIELQKLVNLKCLNLEYMNNLNQFPRLVI----------SAFSKLQVLRMFDCGGSKIERLKINVLFGGHQF  641 (720)
Q Consensus       577 ~-~----lp~~i~~l~~L~~L~l~~~~~l~~lp~~~~----------~~l~~L~~L~~~~~~~~~l~~l~~~~~~~~~~~  641 (720)
                      . .    +-.-+..++.|++|.|.+|. +.......+          ....+=..|..+.|++|.+..-+       -..
T Consensus       105 G~~g~~~l~~ll~s~~~L~eL~L~N~G-lg~~ag~~l~~al~~l~~~kk~~~~~~Lrv~i~~rNrlen~g-------a~~  176 (382)
T KOG1909|consen  105 GPKGIRGLEELLSSCTDLEELYLNNCG-LGPEAGGRLGRALFELAVNKKAASKPKLRVFICGRNRLENGG-------ATA  176 (382)
T ss_pred             CccchHHHHHHHHhccCHHHHhhhcCC-CChhHHHHHHHHHHHHHHHhccCCCcceEEEEeecccccccc-------HHH
Confidence            5 2    22237778999999999862 222221111          12233345677778888764322       223


Q ss_pred             cHHHhcCCCCCceeEEEecchh--hHHHHhhhhhhhhhccccccccccCCCccc---c-ccccccCCcceeeecCCC
Q 038398          642 LVEELMGMKHLMVLTITLKSWQ--ALKELLISQELQRSTQSLFLRCFNDSKSLD---I-FCLAGLRNLNKLYVAGCK  712 (720)
Q Consensus       642 ~~~~l~~l~~L~~L~~~~~~~~--~l~~l~~~~~~~~~L~~L~l~~~~~l~~l~---~-~~l~~l~~L~~L~l~~c~  712 (720)
                      ....+...+.|+.+.+..|.+.  ...-+......+++|+.|+|.. |-.+.-.   + ..++.+++|+.|++++|-
T Consensus       177 ~A~~~~~~~~leevr~~qN~I~~eG~~al~eal~~~~~LevLdl~D-Ntft~egs~~LakaL~s~~~L~El~l~dcl  252 (382)
T KOG1909|consen  177 LAEAFQSHPTLEEVRLSQNGIRPEGVTALAEALEHCPHLEVLDLRD-NTFTLEGSVALAKALSSWPHLRELNLGDCL  252 (382)
T ss_pred             HHHHHHhccccceEEEecccccCchhHHHHHHHHhCCcceeeeccc-chhhhHHHHHHHHHhcccchheeecccccc
Confidence            3455667788999999988763  3344556667788999999997 3222111   1 246778899999999986

>smart00382 AAA ATPases associated with a variety of cellular activities

Probab=97.71  E-value=0.00011  Score=66.15  Aligned_cols=88  Identities=27%  Similarity=0.127  Sum_probs=50.1

Q ss_pred             eEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHHHHHhCCCCCccCCCChhHHHHHHHHHhc
Q 038398          148 GIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKIGRRIGFFDESWKNGSLEDKTSDILRILG  227 (720)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~  227 (720)
                      ..+.|+|++|+||||+|+.++....   .....++++..+........... .......   ............+.+...
T Consensus         3 ~~~~l~G~~G~GKTtl~~~l~~~~~---~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~---~~~~~~~~~~~~~~~~~~   75 (148)
T smart00382        3 EVILIVGPPGSGKTTLARALARELG---PPGGGVIYIDGEDILEEVLDQLL-LIIVGGK---KASGSGELRLRLALALAR   75 (148)
T ss_pred             CEEEEECCCCCcHHHHHHHHHhccC---CCCCCEEEECCEEccccCHHHHH-hhhhhcc---CCCCCHHHHHHHHHHHHH
Confidence            5789999999999999999998872   22234566655543322222111 0011100   022233333444455554


Q ss_pred             cCc-EEEEEecccccc
Q 038398          228 KKK-FLLLLDDIWERV  242 (720)
Q Consensus       228 ~k~-~LlVlDdv~~~~  242 (720)
                      ..+ .++++|+++...
T Consensus        76 ~~~~~viiiDei~~~~   91 (148)
T smart00382       76 KLKPDVLILDEITSLL   91 (148)
T ss_pred             hcCCCEEEEECCcccC
Confidence            444 899999998643

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.

>PRK05707 DNA polymerase III subunit delta'; Validated

Probab=97.70  E-value=0.0008  Score=69.50  Aligned_cols=94  Identities=9%  Similarity=0.112  Sum_probs=57.4

Q ss_pred             CcEEEEEeccccc--cccccccccCCCCCCCcEEEEEcCChh-Hh-hhhccCceeeccCCChhhHHHHHHHHhccCccCC
Q 038398          229 KKFLLLLDDIWER--VDLTKVGIPFPDPENKSKIVFTTHFLE-IC-GALKAHEFLKVECLGPEDAWRLFRENLRRDVLDN  304 (720)
Q Consensus       229 k~~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~iiiTtR~~~-v~-~~~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~  304 (720)
                      ++-++|+|+++..  .....+...+.....++.+|+||.+.. +. ...+--..+.+.+++.+++.+.+......     
T Consensus       106 ~~kv~iI~~a~~m~~~aaNaLLK~LEEPp~~~~fiL~t~~~~~ll~TI~SRc~~~~~~~~~~~~~~~~L~~~~~~-----  180 (328)
T PRK05707        106 GRKVVLIEPAEAMNRNAANALLKSLEEPSGDTVLLLISHQPSRLLPTIKSRCQQQACPLPSNEESLQWLQQALPE-----  180 (328)
T ss_pred             CCeEEEECChhhCCHHHHHHHHHHHhCCCCCeEEEEEECChhhCcHHHHhhceeeeCCCcCHHHHHHHHHHhccc-----
Confidence            3445577999753  333333333333334667777776543 32 22233457899999999999998765311     


Q ss_pred             CCChHHHHHHHHHHhCCcchHHHHH
Q 038398          305 HPDIPELARSVAQECAGLPLALITI  329 (720)
Q Consensus       305 ~~~~~~~~~~i~~~c~GlPLai~~~  329 (720)
                        ...+.+..++..++|.|+....+
T Consensus       181 --~~~~~~~~~l~la~Gsp~~A~~l  203 (328)
T PRK05707        181 --SDERERIELLTLAGGSPLRALQL  203 (328)
T ss_pred             --CChHHHHHHHHHcCCCHHHHHHH
Confidence              11344667889999999755444

>TIGR00602 rad24 checkpoint protein rad24

Probab=97.69  E-value=0.00016  Score=80.37  Aligned_cols=199  Identities=14%  Similarity=0.162  Sum_probs=101.3

Q ss_pred             CCCCcCchHHHHHHHHHhcCC-----CceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEec---CcCCHHHHH
Q 038398          125 CEPTVGLESTFDKVWRCLGEE-----QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVS---KDLQLEKIQ  196 (720)
Q Consensus       125 ~~~~vGr~~~~~~l~~~L~~~-----~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~---~~~~~~~~~  196 (720)
                      .++++|.++.++++..++...     ..+++.|+|++|+||||+++.++....     ++..-|++-.   ...+...+.
T Consensus        83 ldel~~~~~ki~~l~~~l~~~~~~~~~~~illL~GP~GsGKTTl~~~la~~l~-----~~~~Ew~npv~~~~~~~~~~~~  157 (637)
T TIGR00602        83 QHELAVHKKKIEEVETWLKAQVLENAPKRILLITGPSGCGKSTTIKILSKELG-----IQVQEWSNPTLPDFQKNDHKVT  157 (637)
T ss_pred             HHHhcCcHHHHHHHHHHHHhcccccCCCcEEEEECCCCCCHHHHHHHHHHHhh-----hHHHHHhhhhhhcccccccccc
Confidence            356899999999999998652     335799999999999999999987751     2222232100   000000111


Q ss_pred             HHHHHHhCCCCCccCCCChhHHHHHHHH---H----hccCcEEEEEecccccc-----ccccccc-cCCCCCCCcEEEEE
Q 038398          197 EKIGRRIGFFDESWKNGSLEDKTSDILR---I----LGKKKFLLLLDDIWERV-----DLTKVGI-PFPDPENKSKIVFT  263 (720)
Q Consensus       197 ~~i~~~l~~~~~~~~~~~~~~~~~~l~~---~----l~~k~~LlVlDdv~~~~-----~~~~l~~-~~~~~~~gs~iiiT  263 (720)
                      ..+..++.....  ..............   .    ..+++.+|++|++.+..     .+..+.. .+...+.-.-|+||
T Consensus       158 ~s~~~~~~~~~s--~~~~F~~fl~~a~~~~~~~g~~~~~~~~IILIDEiPn~~~r~~~~lq~lLr~~~~e~~~~pLI~I~  235 (637)
T TIGR00602       158 LSLESCFSNFQS--QIEVFSEFLLRATNKLQMLGDDLMTDKKIILVEDLPNQFYRDTRALHEILRWKYVSIGRCPLVFII  235 (637)
T ss_pred             hhhhhccccccc--hHHHHHHHHHHHHhhhcccccccCCceeEEEeecchhhchhhHHHHHHHHHHHhhcCCCceEEEEe
Confidence            111222111100  00001111111111   1    13467899999995421     2222222 12122222345555


Q ss_pred             cCChh---------Hh-------hhh--ccCceeeccCCChhhHHHHHHHHhccCccCC-CC---ChHHHHHHHHHHhCC
Q 038398          264 THFLE---------IC-------GAL--KAHEFLKVECLGPEDAWRLFRENLRRDVLDN-HP---DIPELARSVAQECAG  321 (720)
Q Consensus       264 tR~~~---------v~-------~~~--~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~-~~---~~~~~~~~i~~~c~G  321 (720)
                      |.+..         ..       ...  .....+.+++++..+..+.+.+.+....... ..   .-.+....|+..++|
T Consensus       236 TE~~~~~~~~~~~~f~~~~lL~~eLls~~rv~~I~FnPia~t~l~K~L~rIl~~E~~~~~~~~~~p~~~~l~~I~~~s~G  315 (637)
T TIGR00602       236 TESLEGDNNQRRLLFPAETIMNKEILEEPRVSNISFNPIAPTIMKKFLNRIVTIEAKKNGEKIKVPKKTSVELLCQGCSG  315 (637)
T ss_pred             cCCccccccccccccchhcccCHhHhcccceeEEEeCCCCHHHHHHHHHHHHHhhhhccccccccCCHHHHHHHHHhCCC
Confidence            53211         00       011  1224588999999998888877765432111 11   124567777777777


Q ss_pred             -cchHHHHHH
Q 038398          322 -LPLALITIG  330 (720)
Q Consensus       322 -lPLai~~~~  330 (720)
                       .--||..+-
T Consensus       316 DiRsAIn~LQ  325 (637)
T TIGR00602       316 DIRSAINSLQ  325 (637)
T ss_pred             hHHHHHHHHH
Confidence             566666664

This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).

>PRK14086 dnaA chromosomal replication initiation protein; Provisional

Probab=97.68  E-value=0.00052  Score=75.42  Aligned_cols=154  Identities=19%  Similarity=0.160  Sum_probs=91.3

Q ss_pred             eEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHHHHHhCCCCCccCCCChhHHHHHHHHHhc
Q 038398          148 GIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKIGRRIGFFDESWKNGSLEDKTSDILRILG  227 (720)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~  227 (720)
                      ..+.|+|..|+|||.|++++++.... ...--.++|++.      .++..++...+..       ..    ...+.+.+.
T Consensus       315 NpL~LyG~sGsGKTHLL~AIa~~a~~-~~~g~~V~Yita------eef~~el~~al~~-------~~----~~~f~~~y~  376 (617)
T PRK14086        315 NPLFIYGESGLGKTHLLHAIGHYARR-LYPGTRVRYVSS------EEFTNEFINSIRD-------GK----GDSFRRRYR  376 (617)
T ss_pred             CcEEEECCCCCCHHHHHHHHHHHHHH-hCCCCeEEEeeH------HHHHHHHHHHHHh-------cc----HHHHHHHhh
Confidence            45899999999999999999998721 111124566643      4444555444421       11    122333333


Q ss_pred             cCcEEEEEecccccc---cc-ccccccCC-CCCCCcEEEEEcCCh---------hHhhhhccCceeeccCCChhhHHHHH
Q 038398          228 KKKFLLLLDDIWERV---DL-TKVGIPFP-DPENKSKIVFTTHFL---------EICGALKAHEFLKVECLGPEDAWRLF  293 (720)
Q Consensus       228 ~k~~LlVlDdv~~~~---~~-~~l~~~~~-~~~~gs~iiiTtR~~---------~v~~~~~~~~~~~l~~L~~~e~~~Lf  293 (720)
                      + .=+|||||+....   .+ +.+...+. ....|..|||||+..         .+...+...-.+.+++.+.+.-..++
T Consensus       377 ~-~DLLlIDDIq~l~gke~tqeeLF~l~N~l~e~gk~IIITSd~~P~eL~~l~~rL~SRf~~GLvv~I~~PD~EtR~aIL  455 (617)
T PRK14086        377 E-MDILLVDDIQFLEDKESTQEEFFHTFNTLHNANKQIVLSSDRPPKQLVTLEDRLRNRFEWGLITDVQPPELETRIAIL  455 (617)
T ss_pred             c-CCEEEEehhccccCCHHHHHHHHHHHHHHHhcCCCEEEecCCChHhhhhccHHHHhhhhcCceEEcCCCCHHHHHHHH
Confidence            3 3478899996431   12 11211111 112356788888752         12333444567899999999999999


Q ss_pred             HHHhccCccCCCCChHHHHHHHHHHhCCcc
Q 038398          294 RENLRRDVLDNHPDIPELARSVAQECAGLP  323 (720)
Q Consensus       294 ~~~~~~~~~~~~~~~~~~~~~i~~~c~GlP  323 (720)
                      .+++.......   -+++..-|++.+.+..
T Consensus       456 ~kka~~r~l~l---~~eVi~yLa~r~~rnv  482 (617)
T PRK14086        456 RKKAVQEQLNA---PPEVLEFIASRISRNI  482 (617)
T ss_pred             HHHHHhcCCCC---CHHHHHHHHHhccCCH
Confidence            98876543222   2567777777776543

>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional

Probab=97.67  E-value=0.0002  Score=81.85  Aligned_cols=156  Identities=18%  Similarity=0.294  Sum_probs=89.8

Q ss_pred             CCCcCchHHHHHHHHHhcCCCceEEEEEcCCCChHHHHHHHHHhhhcCCCCC---cCEEEEEEecCcCCHHHHHHHHHHH
Q 038398          126 EPTVGLESTFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNV---FDVVIWVVVSKDLQLEKIQEKIGRR  202 (720)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~---f~~~~wv~v~~~~~~~~~~~~i~~~  202 (720)
                      ++++||++++++++..|......-+.++|++|+|||++|+.++.......-.   .+..+|..     +...+    +. 
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            5679999999999999977555566789999999999999998775211111   13344421     11111    10 


Q ss_pred             hCCCCCccCCCChhHHHHHHHHHh-ccCcEEEEEeccccc----------cccccccccCCCCCCCcEEEEEcCChhHhh
Q 038398          203 IGFFDESWKNGSLEDKTSDILRIL-GKKKFLLLLDDIWER----------VDLTKVGIPFPDPENKSKIVFTTHFLEICG  271 (720)
Q Consensus       203 l~~~~~~~~~~~~~~~~~~l~~~l-~~k~~LlVlDdv~~~----------~~~~~l~~~~~~~~~gs~iiiTtR~~~v~~  271 (720)
                       +..    ...+.+.....+...+ +..+.+|++|+++..          .+...+..++.. ...-++|-+|...+...
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    1123334444444434 346789999999642          111111112211 12344555555443311


Q ss_pred             h-------hccCceeeccCCChhhHHHHHHHHh
Q 038398          272 A-------LKAHEFLKVECLGPEDAWRLFRENL  297 (720)
Q Consensus       272 ~-------~~~~~~~~l~~L~~~e~~~Lf~~~~  297 (720)
                      .       ..-...+.++.++.+++.+++....
T Consensus       330 ~~~~D~AL~rRFq~I~v~ePs~~~~~~IL~~~~  362 (758)
T PRK11034        330 IFEKDRALARRFQKIDITEPSIEETVQIINGLK  362 (758)
T ss_pred             HhhccHHHHhhCcEEEeCCCCHHHHHHHHHHHH
Confidence            1       1123578999999999999998654

>CHL00176 ftsH cell division protein; Validated

Probab=97.66  E-value=0.00061  Score=76.48  Aligned_cols=170  Identities=15%  Similarity=0.151  Sum_probs=94.7

Q ss_pred             CCCcCchHHHHHHHHH---hcCC---------CceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHH
Q 038398          126 EPTVGLESTFDKVWRC---LGEE---------QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLE  193 (720)
Q Consensus       126 ~~~vGr~~~~~~l~~~---L~~~---------~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~  193 (720)
                      .+++|.++.++++.+.   +...         ..+-|.++|++|+|||+||+.++...   ...     |+.++..    
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            5678888766665443   3321         24568999999999999999999876   222     2333211    


Q ss_pred             HHHHHHHHHhCCCCCccCCCChhHHHHHHHHHhccCcEEEEEecccccc----------------ccccccccCC--CCC
Q 038398          194 KIQEKIGRRIGFFDESWKNGSLEDKTSDILRILGKKKFLLLLDDIWERV----------------DLTKVGIPFP--DPE  255 (720)
Q Consensus       194 ~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~----------------~~~~l~~~~~--~~~  255 (720)
                      .+..    ..       ...........+.......+++|+|||++...                .+..+...+.  ...
T Consensus       251 ~f~~----~~-------~g~~~~~vr~lF~~A~~~~P~ILfIDEID~l~~~r~~~~~~~~~e~~~~L~~LL~~~dg~~~~  319 (638)
T CHL00176        251 EFVE----MF-------VGVGAARVRDLFKKAKENSPCIVFIDEIDAVGRQRGAGIGGGNDEREQTLNQLLTEMDGFKGN  319 (638)
T ss_pred             HHHH----Hh-------hhhhHHHHHHHHHHHhcCCCcEEEEecchhhhhcccCCCCCCcHHHHHHHHHHHhhhccccCC
Confidence            1111    00       00011122223333445678999999996421                0111211111  122


Q ss_pred             CCcEEEEEcCChhHhhh-h----ccCceeeccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCc
Q 038398          256 NKSKIVFTTHFLEICGA-L----KAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGL  322 (720)
Q Consensus       256 ~gs~iiiTtR~~~v~~~-~----~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~Gl  322 (720)
                      .+..||.||........ +    .-...+.++..+.++-.++++.++.....    ........+++.+.|.
T Consensus       320 ~~ViVIaaTN~~~~LD~ALlRpGRFd~~I~v~lPd~~~R~~IL~~~l~~~~~----~~d~~l~~lA~~t~G~  387 (638)
T CHL00176        320 KGVIVIAATNRVDILDAALLRPGRFDRQITVSLPDREGRLDILKVHARNKKL----SPDVSLELIARRTPGF  387 (638)
T ss_pred             CCeeEEEecCchHhhhhhhhccccCceEEEECCCCHHHHHHHHHHHHhhccc----chhHHHHHHHhcCCCC
Confidence            35566667765443221 1    12357888999999999999888764321    1123456777787773

>KOG0733 consensus Nuclear AAA ATPase (VCP subfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=97.66  E-value=0.00044  Score=73.64  Aligned_cols=170  Identities=17%  Similarity=0.141  Sum_probs=91.8

Q ss_pred             CCCcCchHHHHHHHHHhcC------------CCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHH
Q 038398          126 EPTVGLESTFDKVWRCLGE------------EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLE  193 (720)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~------------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~  193 (720)
                      .++=|.++.+.++.+.+.-            ...+-|.++|++|+|||.||++++... .       +-|+.++..    
T Consensus       190 ~diGG~d~~~~el~~li~~i~~Pe~~~~lGv~PprGvLlHGPPGCGKT~lA~AiAgel-~-------vPf~~isAp----  257 (802)
T KOG0733|consen  190 SDIGGLDKTLAELCELIIHIKHPEVFSSLGVRPPRGVLLHGPPGCGKTSLANAIAGEL-G-------VPFLSISAP----  257 (802)
T ss_pred             hhccChHHHHHHHHHHHHHhcCchhHhhcCCCCCCceeeeCCCCccHHHHHHHHhhhc-C-------CceEeecch----
Confidence            3456899988888776631            246789999999999999999999987 2       234444432    


Q ss_pred             HHHHHHHHHhCCCCCccCCCChhHHHHHHHHHhccCcEEEEEecccccc----------------ccccccccCCC---C
Q 038398          194 KIQEKIGRRIGFFDESWKNGSLEDKTSDILRILGKKKFLLLLDDIWERV----------------DLTKVGIPFPD---P  254 (720)
Q Consensus       194 ~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~----------------~~~~l~~~~~~---~  254 (720)
                          +|....       ...+++...+...+.-..-++++++|+++...                ++-..+..+..   .
T Consensus       258 ----eivSGv-------SGESEkkiRelF~~A~~~aPcivFiDeIDAI~pkRe~aqreMErRiVaQLlt~mD~l~~~~~~  326 (802)
T KOG0733|consen  258 ----EIVSGV-------SGESEKKIRELFDQAKSNAPCIVFIDEIDAITPKREEAQREMERRIVAQLLTSMDELSNEKTK  326 (802)
T ss_pred             ----hhhccc-------CcccHHHHHHHHHHHhccCCeEEEeecccccccchhhHHHHHHHHHHHHHHHhhhcccccccC
Confidence                111111       12223333333333445579999999986420                11111111111   1


Q ss_pred             CCCcEEEE-EcCChhHhhhh---c-cCceeeccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCc
Q 038398          255 ENKSKIVF-TTHFLEICGAL---K-AHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGL  322 (720)
Q Consensus       255 ~~gs~iii-TtR~~~v~~~~---~-~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~Gl  322 (720)
                      +.+--||- |+|...+-...   + -.+.+.+.--++..-.+++...+.+-....+-++    ++|++..-|.
T Consensus       327 g~~VlVIgATnRPDslDpaLRRaGRFdrEI~l~vP~e~aR~~IL~~~~~~lrl~g~~d~----~qlA~lTPGf  395 (802)
T KOG0733|consen  327 GDPVLVIGATNRPDSLDPALRRAGRFDREICLGVPSETAREEILRIICRGLRLSGDFDF----KQLAKLTPGF  395 (802)
T ss_pred             CCCeEEEecCCCCcccCHHHhccccccceeeecCCchHHHHHHHHHHHhhCCCCCCcCH----HHHHhcCCCc
Confidence            22322232 44554442222   1 2356777777777777777666543332333333    4444555443

>KOG1644 consensus U2-associated snRNP A' protein [RNA processing and modification]

Probab=97.64  E-value=7.3e-05  Score=68.54  Aligned_cols=101  Identities=25%  Similarity=0.405  Sum_probs=80.2

Q ss_pred             ceeEEEecccccccCCCCCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCccCC--ccccCCCCCCEEecc
Q 038398          495 NVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLP--SGISTLVSLEHLDLS  572 (720)
Q Consensus       495 ~l~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~lp--~~i~~l~~L~~L~L~  572 (720)
                      ....++++.|.+..++.++.++.|.+|.+.+|.++.+.+..-..+++|..|.|++|++. .+.  ..+..++.|++|.+-
T Consensus        43 ~~d~iDLtdNdl~~l~~lp~l~rL~tLll~nNrIt~I~p~L~~~~p~l~~L~LtnNsi~-~l~dl~pLa~~p~L~~Ltll  121 (233)
T KOG1644|consen   43 QFDAIDLTDNDLRKLDNLPHLPRLHTLLLNNNRITRIDPDLDTFLPNLKTLILTNNSIQ-ELGDLDPLASCPKLEYLTLL  121 (233)
T ss_pred             ccceecccccchhhcccCCCccccceEEecCCcceeeccchhhhccccceEEecCcchh-hhhhcchhccCCccceeeec
Confidence            45568899999888888889999999999999999988876667788999999998543 221  235578899999999


Q ss_pred             CCCCcccchh----hhcCCCCCEEeccC
Q 038398          573 STAITHLPIE----LQKLVNLKCLNLEY  596 (720)
Q Consensus       573 ~~~i~~lp~~----i~~l~~L~~L~l~~  596 (720)
                      +|.+++-+.-    +.++++|+.||...
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            9988865432    77889999999876

>TIGR00763 lon ATP-dependent protease La

Probab=97.64  E-value=0.0044  Score=72.30  Aligned_cols=45  Identities=31%  Similarity=0.397  Sum_probs=37.2

Q ss_pred             CCcCchHHHHHHHHHhcC------CCceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          127 PTVGLESTFDKVWRCLGE------EQVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       127 ~~vGr~~~~~~l~~~L~~------~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ..+|.++.+++|.+++..      ....++.++|++|+|||++|+.+++..
T Consensus       321 ~~~G~~~~k~~i~~~~~~~~~~~~~~~~~lll~GppG~GKT~lAk~iA~~l  371 (775)
T TIGR00763       321 DHYGLKKVKERILEYLAVQKLRGKMKGPILCLVGPPGVGKTSLGKSIAKAL  371 (775)
T ss_pred             hcCChHHHHHHHHHHHHHHHhhcCCCCceEEEECCCCCCHHHHHHHHHHHh
Confidence            468999999998886631      133578999999999999999999987

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.

>KOG4579 consensus Leucine-rich repeat (LRR) protein associated with apoptosis in muscle tissue [General function prediction only]

Probab=97.58  E-value=1.5e-05  Score=68.23  Aligned_cols=112  Identities=28%  Similarity=0.377  Sum_probs=85.1

Q ss_pred             CcccEEEccCCCCcCcch--HHhccCCcccEEEccCCCCCccCCccccCC-CCCCEEeccCCCCcccchhhhcCCCCCEE
Q 038398          516 PHLLSLFLSDNSLKMSTD--DFFQSMPSLRVFNMSNNHLLWKLPSGISTL-VSLEHLDLSSTAITHLPIELQKLVNLKCL  592 (720)
Q Consensus       516 ~~L~~L~l~~~~~~~~~~--~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l-~~L~~L~L~~~~i~~lp~~i~~l~~L~~L  592 (720)
                      ..+-.++|+.|.+..++.  ..+....+|...+|++| ....+|..|... +.+.+|+|++|.|..+|..+..++.|+.|
T Consensus        27 kE~h~ldLssc~lm~i~davy~l~~~~el~~i~ls~N-~fk~fp~kft~kf~t~t~lNl~~neisdvPeE~Aam~aLr~l  105 (177)
T KOG4579|consen   27 KELHFLDLSSCQLMYIADAVYMLSKGYELTKISLSDN-GFKKFPKKFTIKFPTATTLNLANNEISDVPEELAAMPALRSL  105 (177)
T ss_pred             HHhhhcccccchhhHHHHHHHHHhCCceEEEEecccc-hhhhCCHHHhhccchhhhhhcchhhhhhchHHHhhhHHhhhc
Confidence            345667888886644432  22456678888999999 667888888755 48999999999999999999999999999


Q ss_pred             eccCCcCCCCCchhhhhccccCceeeccccCCCcccchhcc
Q 038398          593 NLEYMNNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKIN  633 (720)
Q Consensus       593 ~l~~~~~l~~lp~~~~~~l~~L~~L~~~~~~~~~l~~l~~~  633 (720)
                      +++. |.++..|.- +..   |..|...+...|.+.+++..
T Consensus       106 Nl~~-N~l~~~p~v-i~~---L~~l~~Lds~~na~~eid~d  141 (177)
T KOG4579|consen  106 NLRF-NPLNAEPRV-IAP---LIKLDMLDSPENARAEIDVD  141 (177)
T ss_pred             cccc-CccccchHH-HHH---HHhHHHhcCCCCccccCcHH
Confidence            9998 677778874 444   55566666667777666654

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

Probab=97.56  E-value=8.1e-06  Score=82.58  Aligned_cols=202  Identities=16%  Similarity=0.090  Sum_probs=110.0

Q ss_pred             CCCCcccEEEccCCC-CcC--cchHHhccCCcccEEEccCCCCCcc--CCccccCCCCCCEEeccCC-CCcccc--hhhh
Q 038398          513 PTCPHLLSLFLSDNS-LKM--STDDFFQSMPSLRVFNMSNNHLLWK--LPSGISTLVSLEHLDLSST-AITHLP--IELQ  584 (720)
Q Consensus       513 ~~~~~L~~L~l~~~~-~~~--~~~~~~~~l~~L~~L~L~~~~~~~~--lp~~i~~l~~L~~L~L~~~-~i~~lp--~~i~  584 (720)
                      ..|++|.+|++++|. +.+  +. ..+++++.|+.+.+.||.-.+.  +-..=+....+-.+++..| .++...  ..-.
T Consensus       213 ~gC~kL~~lNlSwc~qi~~~gv~-~~~rG~~~l~~~~~kGC~e~~le~l~~~~~~~~~i~~lnl~~c~~lTD~~~~~i~~  291 (483)
T KOG4341|consen  213 EGCRKLKYLNLSWCPQISGNGVQ-ALQRGCKELEKLSLKGCLELELEALLKAAAYCLEILKLNLQHCNQLTDEDLWLIAC  291 (483)
T ss_pred             HhhhhHHHhhhccCchhhcCcch-HHhccchhhhhhhhcccccccHHHHHHHhccChHhhccchhhhccccchHHHHHhh
Confidence            345666666666652 211  11 2244555555555555421110  0000112223444454455 333221  1123


Q ss_pred             cCCCCCEEeccCCcCCCCCchh-hhhccccCceeeccccCCC---cccchh----------cccccCCccccHHHh-cCC
Q 038398          585 KLVNLKCLNLEYMNNLNQFPRL-VISAFSKLQVLRMFDCGGS---KIERLK----------INVLFGGHQFLVEEL-MGM  649 (720)
Q Consensus       585 ~l~~L~~L~l~~~~~l~~lp~~-~~~~l~~L~~L~~~~~~~~---~l~~l~----------~~~~~~~~~~~~~~l-~~l  649 (720)
                      .+..||.|+.++|+.+...+-. ...+..+|+.|.+..|..-   .++.+.          .....-.....+..+ .++
T Consensus       292 ~c~~lq~l~~s~~t~~~d~~l~aLg~~~~~L~~l~l~~c~~fsd~~ft~l~rn~~~Le~l~~e~~~~~~d~tL~sls~~C  371 (483)
T KOG4341|consen  292 GCHALQVLCYSSCTDITDEVLWALGQHCHNLQVLELSGCQQFSDRGFTMLGRNCPHLERLDLEECGLITDGTLASLSRNC  371 (483)
T ss_pred             hhhHhhhhcccCCCCCchHHHHHHhcCCCceEEEeccccchhhhhhhhhhhcCChhhhhhcccccceehhhhHhhhccCC
Confidence            4678888888888654443321 2345678888888887631   111111          111110111122233 367


Q ss_pred             CCCceeEEEecchh---hHHHHhhhhhhhhhccccccccccCCCccccccccccCCcceeeecCCCCCc
Q 038398          650 KHLMVLTITLKSWQ---ALKELLISQELQRSTQSLFLRCFNDSKSLDIFCLAGLRNLNKLYVAGCKHLE  715 (720)
Q Consensus       650 ~~L~~L~~~~~~~~---~l~~l~~~~~~~~~L~~L~l~~~~~l~~l~~~~l~~l~~L~~L~l~~c~~l~  715 (720)
                      +.|+.|.++.+...   .+..+......+..|..+.|++|+.+..-.+..+..+++|+.+++.+|..+.
T Consensus       372 ~~lr~lslshce~itD~gi~~l~~~~c~~~~l~~lEL~n~p~i~d~~Le~l~~c~~Leri~l~~~q~vt  440 (483)
T KOG4341|consen  372 PRLRVLSLSHCELITDEGIRHLSSSSCSLEGLEVLELDNCPLITDATLEHLSICRNLERIELIDCQDVT  440 (483)
T ss_pred             chhccCChhhhhhhhhhhhhhhhhccccccccceeeecCCCCchHHHHHHHhhCcccceeeeechhhhh
Confidence            89999999855432   2233444445667899999999998887777788899999999999998764

>PRK08118 topology modulation protein; Reviewed

Probab=97.56  E-value=4.8e-05  Score=70.57  Aligned_cols=36  Identities=36%  Similarity=0.558  Sum_probs=28.8

Q ss_pred             eEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEE
Q 038398          148 GIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIW  183 (720)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~w  183 (720)
                      ..|.|+|++|+||||||+.+++...-..-+||..+|
T Consensus         2 ~rI~I~G~~GsGKSTlak~L~~~l~~~~~~lD~l~~   37 (167)
T PRK08118          2 KKIILIGSGGSGKSTLARQLGEKLNIPVHHLDALFW   37 (167)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHhCCCceecchhhc
Confidence            468999999999999999999987322356777776

>PRK08116 hypothetical protein; Validated

Probab=97.55  E-value=0.00017  Score=72.49  Aligned_cols=101  Identities=26%  Similarity=0.265  Sum_probs=58.0

Q ss_pred             eEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHHHHHhCCCCCccCCCChhHHHHHHHHHhc
Q 038398          148 GIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKIGRRIGFFDESWKNGSLEDKTSDILRILG  227 (720)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~  227 (720)
                      ..+.++|.+|+|||.||.++++...   ..-..++|++      ..+++..+.......    ...+    ...+.+.+.
T Consensus       115 ~gl~l~G~~GtGKThLa~aia~~l~---~~~~~v~~~~------~~~ll~~i~~~~~~~----~~~~----~~~~~~~l~  177 (268)
T PRK08116        115 VGLLLWGSVGTGKTYLAACIANELI---EKGVPVIFVN------FPQLLNRIKSTYKSS----GKED----ENEIIRSLV  177 (268)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHHH---HcCCeEEEEE------HHHHHHHHHHHHhcc----cccc----HHHHHHHhc
Confidence            4588999999999999999999972   2233566665      344555555544321    1111    222334444


Q ss_pred             cCcEEEEEecccc--ccccc--cccccCC-CCCCCcEEEEEcCC
Q 038398          228 KKKFLLLLDDIWE--RVDLT--KVGIPFP-DPENKSKIVFTTHF  266 (720)
Q Consensus       228 ~k~~LlVlDdv~~--~~~~~--~l~~~~~-~~~~gs~iiiTtR~  266 (720)
                      +-. ||||||+..  ..+|.  .+...+. ....+..+||||..
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 899999943  22332  1211111 12345678999864

>PRK10536 hypothetical protein; Provisional

Probab=97.54  E-value=0.00058  Score=66.57  Aligned_cols=55  Identities=16%  Similarity=0.163  Sum_probs=41.5

Q ss_pred             CCCcCchHHHHHHHHHhcCCCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEE
Q 038398          126 EPTVGLESTFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIW  183 (720)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~w  183 (720)
                      ..+.++......+..++.+.  .+|.+.|++|+|||+||.++..+. -..+.|+.++.
T Consensus        55 ~~i~p~n~~Q~~~l~al~~~--~lV~i~G~aGTGKT~La~a~a~~~-l~~~~~~kIiI  109 (262)
T PRK10536         55 SPILARNEAQAHYLKAIESK--QLIFATGEAGCGKTWISAAKAAEA-LIHKDVDRIIV  109 (262)
T ss_pred             ccccCCCHHHHHHHHHHhcC--CeEEEECCCCCCHHHHHHHHHHHH-HhcCCeeEEEE
Confidence            45678888899999988653  599999999999999999988763 11234554443

>PRK08058 DNA polymerase III subunit delta'; Validated

Probab=97.52  E-value=0.0018  Score=67.40  Aligned_cols=160  Identities=10%  Similarity=0.030  Sum_probs=84.1

Q ss_pred             CCcC-chHHHHHHHHHhcCCCc-eEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHHHHHhC
Q 038398          127 PTVG-LESTFDKVWRCLGEEQV-GIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKIGRRIG  204 (720)
Q Consensus       127 ~~vG-r~~~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i~~~l~  204 (720)
                      .++| .+..++.+...+..+++ ....++|+.|+||||+|+.+.+..... ......       .++.....+.+...-.
T Consensus         6 ~i~~~q~~~~~~L~~~~~~~~l~ha~Lf~G~~G~gk~~~a~~la~~l~c~-~~~~~~-------~cg~C~~c~~~~~~~h   77 (329)
T PRK08058          6 QLTALQPVVVKMLQNSIAKNRLSHAYLFEGAKGTGKKATALWLAKSLFCL-ERNGVE-------PCGTCTNCKRIDSGNH   77 (329)
T ss_pred             HHHhhHHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHHHCCC-CCCCCC-------CCCcCHHHHHHhcCCC
Confidence            4566 77788888888877654 566899999999999999997775211 100000       0000000111100000


Q ss_pred             CCC----CccCCCChhHHHHHHHHH-----hccCcEEEEEeccccc--cccccccccCCCCCCCcEEEEEcCChh-Hhh-
Q 038398          205 FFD----ESWKNGSLEDKTSDILRI-----LGKKKFLLLLDDIWER--VDLTKVGIPFPDPENKSKIVFTTHFLE-ICG-  271 (720)
Q Consensus       205 ~~~----~~~~~~~~~~~~~~l~~~-----l~~k~~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~iiiTtR~~~-v~~-  271 (720)
                      .+.    ........++..+ +.+.     ..+.+-++|+|+++..  .....+...+.....++.+|++|.+.. +.. 
T Consensus        78 pD~~~i~~~~~~i~id~ir~-l~~~~~~~~~~~~~kvviI~~a~~~~~~a~NaLLK~LEEPp~~~~~Il~t~~~~~ll~T  156 (329)
T PRK08058         78 PDVHLVAPDGQSIKKDQIRY-LKEEFSKSGVESNKKVYIIEHADKMTASAANSLLKFLEEPSGGTTAILLTENKHQILPT  156 (329)
T ss_pred             CCEEEeccccccCCHHHHHH-HHHHHhhCCcccCceEEEeehHhhhCHHHHHHHHHHhcCCCCCceEEEEeCChHhCcHH
Confidence            000    0000111122222 2222     2244557899998653  223334333433445677777765533 322 


Q ss_pred             hhccCceeeccCCChhhHHHHHHH
Q 038398          272 ALKAHEFLKVECLGPEDAWRLFRE  295 (720)
Q Consensus       272 ~~~~~~~~~l~~L~~~e~~~Lf~~  295 (720)
                      ..+-...+++.+++.++..+.+..
T Consensus       157 IrSRc~~i~~~~~~~~~~~~~L~~  180 (329)
T PRK08058        157 ILSRCQVVEFRPLPPESLIQRLQE  180 (329)
T ss_pred             HHhhceeeeCCCCCHHHHHHHHHH
Confidence            223346789999999999888865

>KOG0730 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=97.49  E-value=0.0036  Score=67.79  Aligned_cols=162  Identities=19%  Similarity=0.201  Sum_probs=88.5

Q ss_pred             CCcCchHHHHHHHHHhcC-------------CCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHH
Q 038398          127 PTVGLESTFDKVWRCLGE-------------EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLE  193 (720)
Q Consensus       127 ~~vGr~~~~~~l~~~L~~-------------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~  193 (720)
                      ++=|.|+.+.++...+.-             ...+-|..+|+||+|||++|+++++..   ...|     +.++..    
T Consensus       435 dIGGlE~lK~elq~~V~~p~~~pe~F~r~Gi~ppkGVLlyGPPGC~KT~lAkalAne~---~~nF-----lsvkgp----  502 (693)
T KOG0730|consen  435 DIGGLEELKRELQQAVEWPLKHPEKFARFGISPPKGVLLYGPPGCGKTLLAKALANEA---GMNF-----LSVKGP----  502 (693)
T ss_pred             hccCHHHHHHHHHHHHhhhhhchHHHHHhcCCCCceEEEECCCCcchHHHHHHHhhhh---cCCe-----eeccCH----
Confidence            334577777776655421             356789999999999999999999987   3333     333221    


Q ss_pred             HHHHHHHHHhCCCCCccCCCChhHHHHHHHHHh-ccCcEEEEEeccccccc-------------cccccccCCCCCCC-c
Q 038398          194 KIQEKIGRRIGFFDESWKNGSLEDKTSDILRIL-GKKKFLLLLDDIWERVD-------------LTKVGIPFPDPENK-S  258 (720)
Q Consensus       194 ~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l-~~k~~LlVlDdv~~~~~-------------~~~l~~~~~~~~~g-s  258 (720)
                          ++....        ..+.+..+..+.+.- +--+++|.||+++...-             +..+...+...... .
T Consensus       503 ----EL~sk~--------vGeSEr~ir~iF~kAR~~aP~IiFfDEiDsi~~~R~g~~~~v~~RVlsqLLtEmDG~e~~k~  570 (693)
T KOG0730|consen  503 ----ELFSKY--------VGESERAIREVFRKARQVAPCIIFFDEIDALAGSRGGSSSGVTDRVLSQLLTEMDGLEALKN  570 (693)
T ss_pred             ----HHHHHh--------cCchHHHHHHHHHHHhhcCCeEEehhhHHhHhhccCCCccchHHHHHHHHHHHcccccccCc
Confidence                111111        011122222332222 23568999998864211             11111122211122 2


Q ss_pred             E-EEEEc-CChhHh-hhhc---cCceeeccCCChhhHHHHHHHHhccCccCCCCChHHHH
Q 038398          259 K-IVFTT-HFLEIC-GALK---AHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELA  312 (720)
Q Consensus       259 ~-iiiTt-R~~~v~-~~~~---~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~  312 (720)
                      . ||-.| |...+- ..+.   .+..+.++.-+.+--.++|+.++.+....+.-++++++
T Consensus       571 V~ViAATNRpd~ID~ALlRPGRlD~iiyVplPD~~aR~~Ilk~~~kkmp~~~~vdl~~La  630 (693)
T KOG0730|consen  571 VLVIAATNRPDMIDPALLRPGRLDRIIYVPLPDLEARLEILKQCAKKMPFSEDVDLEELA  630 (693)
T ss_pred             EEEEeccCChhhcCHHHcCCcccceeEeecCccHHHHHHHHHHHHhcCCCCccccHHHHH
Confidence            2 33333 433331 2222   35678888888888999999999776644444555554

>COG1223 Predicted ATPase (AAA+ superfamily) [General function prediction only]

Probab=97.48  E-value=0.00088  Score=63.85  Aligned_cols=170  Identities=15%  Similarity=0.213  Sum_probs=98.1

Q ss_pred             CCCcCchHHHHH---HHHHhcCC------CceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHH
Q 038398          126 EPTVGLESTFDK---VWRCLGEE------QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQ  196 (720)
Q Consensus       126 ~~~vGr~~~~~~---l~~~L~~~------~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~  196 (720)
                      ++.||.|..+.+   |++.|.+.      .++.|..+|++|.|||.+|+++.+..   +-.|     +.+..       .
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            456899887654   56777652      46889999999999999999999987   2222     22211       1


Q ss_pred             HHHHHHhCCCCCccCCCChhHHHHHHHHHhc-cCcEEEEEeccccc----------ccc----ccccccCC--CCCCCcE
Q 038398          197 EKIGRRIGFFDESWKNGSLEDKTSDILRILG-KKKFLLLLDDIWER----------VDL----TKVGIPFP--DPENKSK  259 (720)
Q Consensus       197 ~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~-~k~~LlVlDdv~~~----------~~~----~~l~~~~~--~~~~gs~  259 (720)
                      +-|....         .+....+..+.+.-+ .-++++.+|.++..          .+.    ..+...+.  ..+.|-.
T Consensus       186 ~liGehV---------Gdgar~Ihely~rA~~~aPcivFiDE~DAiaLdRryQelRGDVsEiVNALLTelDgi~eneGVv  256 (368)
T COG1223         186 ELIGEHV---------GDGARRIHELYERARKAAPCIVFIDELDAIALDRRYQELRGDVSEIVNALLTELDGIKENEGVV  256 (368)
T ss_pred             HHHHHHh---------hhHHHHHHHHHHHHHhcCCeEEEehhhhhhhhhhhHHHhcccHHHHHHHHHHhccCcccCCceE
Confidence            1111111         122233333333333 36899999988642          111    12211221  1234555


Q ss_pred             EEEEcCChhHhhhh---ccCceeeccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCcc
Q 038398          260 IVFTTHFLEICGAL---KAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGLP  323 (720)
Q Consensus       260 iiiTtR~~~v~~~~---~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~GlP  323 (720)
                      .|-.|.+.......   .-...++....+++|-.+++..++..-.....    .-.+.++++.+|+.
T Consensus       257 tIaaTN~p~~LD~aiRsRFEeEIEF~LP~~eEr~~ile~y~k~~Plpv~----~~~~~~~~~t~g~S  319 (368)
T COG1223         257 TIAATNRPELLDPAIRSRFEEEIEFKLPNDEERLEILEYYAKKFPLPVD----ADLRYLAAKTKGMS  319 (368)
T ss_pred             EEeecCChhhcCHHHHhhhhheeeeeCCChHHHHHHHHHHHHhCCCccc----cCHHHHHHHhCCCC
Confidence            56666655553321   22356777888899999999988865432222    22566677777654

>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=97.46  E-value=0.00023  Score=63.35  Aligned_cols=22  Identities=45%  Similarity=0.496  Sum_probs=20.7

Q ss_pred             EEEEcCCCChHHHHHHHHHhhh
Q 038398          150 IGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       150 i~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      |.|+|++|+||||+|+.+++..
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 ....

>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=97.43  E-value=0.00029  Score=68.28  Aligned_cols=36  Identities=28%  Similarity=0.372  Sum_probs=30.4

Q ss_pred             eEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEe
Q 038398          148 GIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVV  186 (720)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v  186 (720)
                      -.++|+|..|+|||||+..+....   ...|.++++++-
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            367899999999999999999887   678888877754

This is thought to be an ATPase involved in viral DNA packaging [].

>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=97.42  E-value=0.0088  Score=62.39  Aligned_cols=203  Identities=15%  Similarity=0.222  Sum_probs=124.7

Q ss_pred             chHHHHHHHHHhcCCCceEEEEEcCCCChHHHHH-HHHHhhhcCCCCCcCEEEEEEecCc---CCHHHHHHHHHHHhCCC
Q 038398          131 LESTFDKVWRCLGEEQVGIIGLYGMGGVGKTTLL-TKINNKLLGAPNVFDVVIWVVVSKD---LQLEKIQEKIGRRIGFF  206 (720)
Q Consensus       131 r~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa-~~v~~~~~~~~~~f~~~~wv~v~~~---~~~~~~~~~i~~~l~~~  206 (720)
                      |.+.+++|..||.+..-..|.|.||-|+||+.|+ .++.++.   +    .+..+.|.+-   .+-..+...++.++|.-
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    2677776542   33445666666666532


Q ss_pred             C-----------------------CccCCCChhHHHHHHHH---Hhc--------------------------cCcEEEE
Q 038398          207 D-----------------------ESWKNGSLEDKTSDILR---ILG--------------------------KKKFLLL  234 (720)
Q Consensus       207 ~-----------------------~~~~~~~~~~~~~~l~~---~l~--------------------------~k~~LlV  234 (720)
                      .                       ..+.+....++...+..   .|+                          .++-+||
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                       11122222222221110   111                          1256999


Q ss_pred             Eeccccccc-----cccc---cccCCCCCCCcEEEEEcCChhHhh----hhc--cCceeeccCCChhhHHHHHHHHhccC
Q 038398          235 LDDIWERVD-----LTKV---GIPFPDPENKSKIVFTTHFLEICG----ALK--AHEFLKVECLGPEDAWRLFRENLRRD  300 (720)
Q Consensus       235 lDdv~~~~~-----~~~l---~~~~~~~~~gs~iiiTtR~~~v~~----~~~--~~~~~~l~~L~~~e~~~Lf~~~~~~~  300 (720)
                      +|++.....     |+.+   ...+ ...+=..||++|-+.....    .+.  ..+.+.|.-.+++-|..+...+....
T Consensus       154 IdnF~~k~~~~~~iy~~laeWAa~L-v~~nIAHVIFlT~dv~~~k~LskaLPn~vf~tI~L~Das~~~Ak~yV~~~L~~~  232 (431)
T PF10443_consen  154 IDNFLHKAEENDFIYDKLAEWAASL-VQNNIAHVIFLTDDVSYSKPLSKALPNRVFKTISLSDASPESAKQYVLSQLDED  232 (431)
T ss_pred             EcchhccCcccchHHHHHHHHHHHH-HhcCccEEEEECCCCchhhhHHHhCCCCceeEEeecCCCHHHHHHHHHHHhccc
Confidence            999854321     1111   1111 1224457888887654432    332  23567899999999999999988643


Q ss_pred             ccC------------CC-----CChHHHHHHHHHHhCCcchHHHHHHHHHhcCCChhH
Q 038398          301 VLD------------NH-----PDIPELARSVAQECAGLPLALITIGRAMACKKTPQE  341 (720)
Q Consensus       301 ~~~------------~~-----~~~~~~~~~i~~~c~GlPLai~~~~~~l~~~~~~~~  341 (720)
                      ...            ..     .....-....+...||=-.=+..+++-++.+.++.+
T Consensus       233 ~~~~~~~~~~~~~~~~~~~~~~~~~~~eld~~i~~LGGRltDLe~lvrRiksGe~p~~  290 (431)
T PF10443_consen  233 TEDSSDSKESNEQNKNDKSAENEKDLAELDECIEPLGGRLTDLEFLVRRIKSGESPEE  290 (431)
T ss_pred             ccccccccccccccccccccccccchHHHHHHHHHcCCcHHHHHHHHHHHHcCCCHHH
Confidence            100            00     123344566788889999999999998887655543

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 [].

>KOG3665 consensus ZYG-1-like serine/threonine protein kinases [General function prediction only]

Probab=97.41  E-value=6.8e-05  Score=84.77  Aligned_cols=158  Identities=18%  Similarity=0.186  Sum_probs=93.5

Q ss_pred             CcccEEEccCCC-CcCcch-HHhccCCcccEEEccCCCCC-ccCCccccCCCCCCEEeccCCCCcccchhhhcCCCCCEE
Q 038398          516 PHLLSLFLSDNS-LKMSTD-DFFQSMPSLRVFNMSNNHLL-WKLPSGISTLVSLEHLDLSSTAITHLPIELQKLVNLKCL  592 (720)
Q Consensus       516 ~~L~~L~l~~~~-~~~~~~-~~~~~l~~L~~L~L~~~~~~-~~lp~~i~~l~~L~~L~L~~~~i~~lp~~i~~l~~L~~L  592 (720)
                      .+|+.|+++|.. +..-++ ..-..||+|+.|.+++-.+. ..+-.-..++++|..||+|+++++.+ .++++|++|+.|
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            578888988863 222222 22345789999999885443 22334455789999999999999988 789999999999


Q ss_pred             eccCCcCCCCCch-hhhhccccCceeeccccCCCcccchhcccccCCccccHHHhcCCCCCceeEEEecchhhHHHHhhh
Q 038398          593 NLEYMNNLNQFPR-LVISAFSKLQVLRMFDCGGSKIERLKINVLFGGHQFLVEELMGMKHLMVLTITLKSWQALKELLIS  671 (720)
Q Consensus       593 ~l~~~~~l~~lp~-~~~~~l~~L~~L~~~~~~~~~l~~l~~~~~~~~~~~~~~~l~~l~~L~~L~~~~~~~~~l~~l~~~  671 (720)
                      .+.+ -.+..-.. ..+-.|++|+.|+++.-..+....+        ....+.--..|+.|+.|+.++..... ..+...
T Consensus       201 ~mrn-Le~e~~~~l~~LF~L~~L~vLDIS~~~~~~~~~i--------i~qYlec~~~LpeLrfLDcSgTdi~~-~~le~l  270 (699)
T KOG3665|consen  201 SMRN-LEFESYQDLIDLFNLKKLRVLDISRDKNNDDTKI--------IEQYLECGMVLPELRFLDCSGTDINE-EILEEL  270 (699)
T ss_pred             hccC-CCCCchhhHHHHhcccCCCeeeccccccccchHH--------HHHHHHhcccCccccEEecCCcchhH-HHHHHH
Confidence            9876 22332221 1245566677776665443331110        01112222347889999988766643 112222


Q ss_pred             hhhhhhccccccc
Q 038398          672 QELQRSTQSLFLR  684 (720)
Q Consensus       672 ~~~~~~L~~L~l~  684 (720)
                      ....++|+.+..-
T Consensus       271 l~sH~~L~~i~~~  283 (699)
T KOG3665|consen  271 LNSHPNLQQIAAL  283 (699)
T ss_pred             HHhCccHhhhhhh
Confidence            2233455555444

>PRK10787 DNA-binding ATP-dependent protease La; Provisional

Probab=97.36  E-value=0.0034  Score=72.51  Aligned_cols=158  Identities=18%  Similarity=0.185  Sum_probs=84.9

Q ss_pred             CCCcCchHHHHHHHHHhcC------CCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHH
Q 038398          126 EPTVGLESTFDKVWRCLGE------EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKI  199 (720)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i  199 (720)
                      .+.+|.++.+++|++++..      ....++.++|++|+||||+|+.++...   ...|-   -+..+...+...+...-
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            3469999999999988742      234689999999999999999999876   22332   23333333332221111


Q ss_pred             HHHhCCCCCccCCCChhHHHHHHHHHhccCcEEEEEeccccccc------cccccccCC---------------CCCCCc
Q 038398          200 GRRIGFFDESWKNGSLEDKTSDILRILGKKKFLLLLDDIWERVD------LTKVGIPFP---------------DPENKS  258 (720)
Q Consensus       200 ~~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~------~~~l~~~~~---------------~~~~gs  258 (720)
                      ...        ...........+.. .....-+++||+++....      ...+...+.               ..-.+.
T Consensus       396 ~~~--------~g~~~G~~~~~l~~-~~~~~~villDEidk~~~~~~g~~~~aLlevld~~~~~~~~d~~~~~~~dls~v  466 (784)
T PRK10787        396 RTY--------IGSMPGKLIQKMAK-VGVKNPLFLLDEIDKMSSDMRGDPASALLEVLDPEQNVAFSDHYLEVDYDLSDV  466 (784)
T ss_pred             hcc--------CCCCCcHHHHHHHh-cCCCCCEEEEEChhhcccccCCCHHHHHHHHhccccEEEEecccccccccCCce
Confidence            000        11111222222322 222344788999864211      011111110               011233


Q ss_pred             EEEEEcCChhHhhh-hccCceeeccCCChhhHHHHHHHHhc
Q 038398          259 KIVFTTHFLEICGA-LKAHEFLKVECLGPEDAWRLFRENLR  298 (720)
Q Consensus       259 ~iiiTtR~~~v~~~-~~~~~~~~l~~L~~~e~~~Lf~~~~~  298 (720)
                      -+|.|+.+..+... .+-..++++.+++.+|-.++.+++..
T Consensus       467 ~~i~TaN~~~i~~aLl~R~~ii~~~~~t~eek~~Ia~~~L~  507 (784)
T PRK10787        467 MFVATSNSMNIPAPLLDRMEVIRLSGYTEDEKLNIAKRHLL  507 (784)
T ss_pred             EEEEcCCCCCCCHHHhcceeeeecCCCCHHHHHHHHHHhhh
Confidence            34445543322111 12235788999999999888877763

>KOG3665 consensus ZYG-1-like serine/threonine protein kinases [General function prediction only]

Probab=97.36  E-value=0.00017  Score=81.61  Aligned_cols=131  Identities=25%  Similarity=0.422  Sum_probs=87.7

Q ss_pred             cceeEEEeccccccc--CCC--CCCCCcccEEEccCCCCcCc-chHHhccCCcccEEEccCCCCCccCCccccCCCCCCE
Q 038398          494 RNVRRMSLMKNKIEN--LSE--TPTCPHLLSLFLSDNSLKMS-TDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVSLEH  568 (720)
Q Consensus       494 ~~l~~L~l~~~~~~~--~~~--~~~~~~L~~L~l~~~~~~~~-~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~  568 (720)
                      .+|++|++++...-.  ++.  ..-+|.|++|.+.+-.+..- ......++++|..||+|++++ ..+ ..+++|++|+.
T Consensus       122 ~nL~~LdI~G~~~~s~~W~~kig~~LPsL~sL~i~~~~~~~~dF~~lc~sFpNL~sLDIS~TnI-~nl-~GIS~LknLq~  199 (699)
T KOG3665|consen  122 QNLQHLDISGSELFSNGWPKKIGTMLPSLRSLVISGRQFDNDDFSQLCASFPNLRSLDISGTNI-SNL-SGISRLKNLQV  199 (699)
T ss_pred             HhhhhcCccccchhhccHHHHHhhhCcccceEEecCceecchhHHHHhhccCccceeecCCCCc-cCc-HHHhccccHHH
Confidence            479999998864321  111  14589999999998654222 223367899999999999944 455 68999999999


Q ss_pred             EeccCCCCcccc--hhhhcCCCCCEEeccCCcCCCCCch---hhhhccccCceeeccccCCCcc
Q 038398          569 LDLSSTAITHLP--IELQKLVNLKCLNLEYMNNLNQFPR---LVISAFSKLQVLRMFDCGGSKI  627 (720)
Q Consensus       569 L~L~~~~i~~lp--~~i~~l~~L~~L~l~~~~~l~~lp~---~~~~~l~~L~~L~~~~~~~~~l  627 (720)
                      |.+++-.+..-+  ..+.+|++|++||+|.... ..-+.   ..+..-..|..|...+|+++.+
T Consensus       200 L~mrnLe~e~~~~l~~LF~L~~L~vLDIS~~~~-~~~~~ii~qYlec~~~LpeLrfLDcSgTdi  262 (699)
T KOG3665|consen  200 LSMRNLEFESYQDLIDLFNLKKLRVLDISRDKN-NDDTKIIEQYLECGMVLPELRFLDCSGTDI  262 (699)
T ss_pred             HhccCCCCCchhhHHHHhcccCCCeeecccccc-ccchHHHHHHHHhcccCccccEEecCCcch
Confidence            999887776543  3477899999999998432 22221   1122222355566666766654

>KOG2982 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.36  E-value=4.3e-05  Score=73.97  Aligned_cols=201  Identities=17%  Similarity=0.129  Sum_probs=108.2

Q ss_pred             ccceeEEEecccccccCCCC----CCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCccC-CccccCCCCCC
Q 038398          493 WRNVRRMSLMKNKIENLSET----PTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKL-PSGISTLVSLE  567 (720)
Q Consensus       493 ~~~l~~L~l~~~~~~~~~~~----~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~l-p~~i~~l~~L~  567 (720)
                      ++.++.++|.+|.+..++..    .++|+|++|++++|.+..........+.+|++|-|.|+...+.. -..+..+|.++
T Consensus        70 ~~~v~elDL~~N~iSdWseI~~ile~lP~l~~LNls~N~L~s~I~~lp~p~~nl~~lVLNgT~L~w~~~~s~l~~lP~vt  149 (418)
T KOG2982|consen   70 VTDVKELDLTGNLISDWSEIGAILEQLPALTTLNLSCNSLSSDIKSLPLPLKNLRVLVLNGTGLSWTQSTSSLDDLPKVT  149 (418)
T ss_pred             hhhhhhhhcccchhccHHHHHHHHhcCccceEeeccCCcCCCccccCcccccceEEEEEcCCCCChhhhhhhhhcchhhh
Confidence            45678889999988776543    67899999999999765544331135678999999888665443 34456777778


Q ss_pred             EEeccCCCCcccc---hhhhcC-CCCCEEeccCCcCC--CCCchhhhhccccCceeeccccCCCcccchhcccccCCccc
Q 038398          568 HLDLSSTAITHLP---IELQKL-VNLKCLNLEYMNNL--NQFPRLVISAFSKLQVLRMFDCGGSKIERLKINVLFGGHQF  641 (720)
Q Consensus       568 ~L~L~~~~i~~lp---~~i~~l-~~L~~L~l~~~~~l--~~lp~~~~~~l~~L~~L~~~~~~~~~l~~l~~~~~~~~~~~  641 (720)
                      .|.++.|.+..+-   ..+... +.+.+|...+|...  ..+-. ....++++..+.+..|..-.             ..
T Consensus       150 elHmS~N~~rq~n~Dd~c~e~~s~~v~tlh~~~c~~~~w~~~~~-l~r~Fpnv~sv~v~e~PlK~-------------~s  215 (418)
T KOG2982|consen  150 ELHMSDNSLRQLNLDDNCIEDWSTEVLTLHQLPCLEQLWLNKNK-LSRIFPNVNSVFVCEGPLKT-------------ES  215 (418)
T ss_pred             hhhhccchhhhhccccccccccchhhhhhhcCCcHHHHHHHHHh-HHhhcccchheeeecCcccc-------------hh
Confidence            8877777554321   111111 24455555444210  00000 11234444444444432111             11


Q ss_pred             cHHHhcCCCCCceeEEEecchhhHHHHhhhhhhhhhccccccccccCCCccccc-----cccccCCcceeee
Q 038398          642 LVEELMGMKHLMVLTITLKSWQALKELLISQELQRSTQSLFLRCFNDSKSLDIF-----CLAGLRNLNKLYV  708 (720)
Q Consensus       642 ~~~~l~~l~~L~~L~~~~~~~~~l~~l~~~~~~~~~L~~L~l~~~~~l~~l~~~-----~l~~l~~L~~L~l  708 (720)
                      .-.....++.+..|.++.+++.++..+.... .+++|+.|.+++.+-...+.-.     -++.+++++.|+=
T Consensus       216 ~ek~se~~p~~~~LnL~~~~idswasvD~Ln-~f~~l~dlRv~~~Pl~d~l~~~err~llIaRL~~v~vLNG  286 (418)
T KOG2982|consen  216 SEKGSEPFPSLSCLNLGANNIDSWASVDALN-GFPQLVDLRVSENPLSDPLRGGERRFLLIARLTKVQVLNG  286 (418)
T ss_pred             hcccCCCCCcchhhhhcccccccHHHHHHHc-CCchhheeeccCCcccccccCCcceEEEEeeccceEEecC
Confidence            1122333444555566656655555554433 3347777777765544333211     2455666666553

>COG0593 DnaA ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]

Probab=97.35  E-value=0.0029  Score=66.13  Aligned_cols=134  Identities=21%  Similarity=0.196  Sum_probs=83.2

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcC--EEEEEEecCcCCHHHHHHHHHHHhCCCCCccCCCChhHHHHHHH
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFD--VVIWVVVSKDLQLEKIQEKIGRRIGFFDESWKNGSLEDKTSDIL  223 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~--~~~wv~v~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~  223 (720)
                      ....+.|||..|.|||.|++++.+..   .....  .++++      +......++...+..           ......+
T Consensus       112 ~~nplfi~G~~GlGKTHLl~Aign~~---~~~~~~a~v~y~------~se~f~~~~v~a~~~-----------~~~~~Fk  171 (408)
T COG0593         112 AYNPLFIYGGVGLGKTHLLQAIGNEA---LANGPNARVVYL------TSEDFTNDFVKALRD-----------NEMEKFK  171 (408)
T ss_pred             cCCcEEEECCCCCCHHHHHHHHHHHH---HhhCCCceEEec------cHHHHHHHHHHHHHh-----------hhHHHHH
Confidence            36789999999999999999999998   33333  45554      234444444444421           1233444


Q ss_pred             HHhccCcEEEEEecccccc---cc-ccccccCCC-CCCCcEEEEEcCCh---------hHhhhhccCceeeccCCChhhH
Q 038398          224 RILGKKKFLLLLDDIWERV---DL-TKVGIPFPD-PENKSKIVFTTHFL---------EICGALKAHEFLKVECLGPEDA  289 (720)
Q Consensus       224 ~~l~~k~~LlVlDdv~~~~---~~-~~l~~~~~~-~~~gs~iiiTtR~~---------~v~~~~~~~~~~~l~~L~~~e~  289 (720)
                      +..  .-=++++||++-..   .+ +++...|.. ...|-.||+|++..         .+.+.+...-.+.+.+++.+..
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  33388899996421   11 222222211 12344899998542         2234444556899999999999


Q ss_pred             HHHHHHHhccCc
Q 038398          290 WRLFRENLRRDV  301 (720)
Q Consensus       290 ~~Lf~~~~~~~~  301 (720)
                      ...+.+.+....
T Consensus       250 ~aiL~kka~~~~  261 (408)
T COG0593         250 LAILRKKAEDRG  261 (408)
T ss_pred             HHHHHHHHHhcC
Confidence            999998776554

>KOG0991 consensus Replication factor C, subunit RFC2 [Replication, recombination and repair]

Probab=97.34  E-value=0.00039  Score=65.07  Aligned_cols=69  Identities=22%  Similarity=0.267  Sum_probs=51.7

Q ss_pred             CCCcCchHHHHHHHHHhcCCCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHH
Q 038398          126 EPTVGLESTFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKI  195 (720)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~  195 (720)
                      .++||-|+.++.+.-...+++.+-+.|.||+|+||||-+..+++... ...+-+.+.-.+.|+...+..+
T Consensus        27 ~dIVGNe~tv~rl~via~~gnmP~liisGpPG~GKTTsi~~LAr~LL-G~~~ke~vLELNASdeRGIDvV   95 (333)
T KOG0991|consen   27 QDIVGNEDTVERLSVIAKEGNMPNLIISGPPGTGKTTSILCLARELL-GDSYKEAVLELNASDERGIDVV   95 (333)
T ss_pred             HHhhCCHHHHHHHHHHHHcCCCCceEeeCCCCCchhhHHHHHHHHHh-ChhhhhHhhhccCccccccHHH
Confidence            46799999999998888888899999999999999999999888872 2223345555555555444443

>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=97.34  E-value=0.0017  Score=59.88  Aligned_cols=137  Identities=15%  Similarity=0.176  Sum_probs=72.1

Q ss_pred             CchHHHHHHHHHhcCCCc-eEEEEEcCCCChHHHHHHHHHhhhcCCCC-----------------CcCEEEEEEecCc--
Q 038398          130 GLESTFDKVWRCLGEEQV-GIIGLYGMGGVGKTTLLTKINNKLLGAPN-----------------VFDVVIWVVVSKD--  189 (720)
Q Consensus       130 Gr~~~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~~~~~~-----------------~f~~~~wv~v~~~--  189 (720)
                      |.++.++.+.+.+..+.. ..+.++|+.|+||+|+|..+....-....                 ...-+.|+.-...  
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            667788888888877665 46899999999999999998876621111                 1122233322211  


Q ss_pred             -CCHHHHHHHHHHHhCCCCCccCCCChhHHHHHHHHHhccCcEEEEEeccccc--cccccccccCCCCCCCcEEEEEcCC
Q 038398          190 -LQLEKIQEKIGRRIGFFDESWKNGSLEDKTSDILRILGKKKFLLLLDDIWER--VDLTKVGIPFPDPENKSKIVFTTHF  266 (720)
Q Consensus       190 -~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~iiiTtR~  266 (720)
                       ...+++. ++...+....                  ..++.=++|+|+++..  .....+...+.....++.+|++|++
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             2222222 3333322111                  1235668999999863  3344443334344567888888876


Q ss_pred             hh-Hh-hhhccCceeeccCCC
Q 038398          267 LE-IC-GALKAHEFLKVECLG  285 (720)
Q Consensus       267 ~~-v~-~~~~~~~~~~l~~L~  285 (720)
                      .. +. ...+--..+.+.++|
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            54 22 222223455665553

...

>PRK08769 DNA polymerase III subunit delta'; Validated

Probab=97.31  E-value=0.0083  Score=61.49  Aligned_cols=173  Identities=12%  Similarity=0.067  Sum_probs=93.5

Q ss_pred             HHHHHHHHHhcCCCc-eEEEEEcCCCChHHHHHHHHHhhhcCCC----------------CCcCEEEEEEecCcCCHHHH
Q 038398          133 STFDKVWRCLGEEQV-GIIGLYGMGGVGKTTLLTKINNKLLGAP----------------NVFDVVIWVVVSKDLQLEKI  195 (720)
Q Consensus       133 ~~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~~~~~----------------~~f~~~~wv~v~~~~~~~~~  195 (720)
                      ...+.+...+..+++ ..+.+.|+.|+||+++|..++.......                .|-| ..|+.......    
T Consensus        11 ~~~~~l~~~~~~~rl~HA~Lf~Gp~G~GK~~lA~~lA~~LlC~~~~~~~~c~~c~~~~~g~HPD-~~~i~~~p~~~----   85 (319)
T PRK08769         11 RAYDQTVAALDAGRLGHGLLICGPEGLGKRAVALALAEHVLASGPDPAAAQRTRQLIAAGTHPD-LQLVSFIPNRT----   85 (319)
T ss_pred             HHHHHHHHHHHcCCcceeEeeECCCCCCHHHHHHHHHHHHhCCCCCCCCcchHHHHHhcCCCCC-EEEEecCCCcc----
Confidence            455667777766654 4688999999999999999887652110                0111 11111000000    


Q ss_pred             HHHHHHHhCCCCCccCCCChhHHHHHHHHHh-----ccCcEEEEEeccccc--cccccccccCCCCCCCcEEEEEcCC-h
Q 038398          196 QEKIGRRIGFFDESWKNGSLEDKTSDILRIL-----GKKKFLLLLDDIWER--VDLTKVGIPFPDPENKSKIVFTTHF-L  267 (720)
Q Consensus       196 ~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l-----~~k~~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~iiiTtR~-~  267 (720)
                              +..  .......+ .++.+.+.+     .+++-++|+|+++..  ..-..+...+.....++.+|++|.+ .
T Consensus        86 --------~~k--~~~~I~id-qIR~l~~~~~~~p~~g~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~~~fiL~~~~~~  154 (319)
T PRK08769         86 --------GDK--LRTEIVIE-QVREISQKLALTPQYGIAQVVIVDPADAINRAACNALLKTLEEPSPGRYLWLISAQPA  154 (319)
T ss_pred             --------ccc--ccccccHH-HHHHHHHHHhhCcccCCcEEEEeccHhhhCHHHHHHHHHHhhCCCCCCeEEEEECChh
Confidence                    000  00000111 122222222     235568999998753  2222332233333446666666654 3


Q ss_pred             hHhh-hhccCceeeccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCcchHHHHHH
Q 038398          268 EICG-ALKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGLPLALITIG  330 (720)
Q Consensus       268 ~v~~-~~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~GlPLai~~~~  330 (720)
                      .+.. ..+--..+.+.+++.+++.+.+....      .+   .+.+..++..++|.|+....+.
T Consensus       155 ~lLpTIrSRCq~i~~~~~~~~~~~~~L~~~~------~~---~~~a~~~~~l~~G~p~~A~~~~  209 (319)
T PRK08769        155 RLPATIRSRCQRLEFKLPPAHEALAWLLAQG------VS---ERAAQEALDAARGHPGLAAQWL  209 (319)
T ss_pred             hCchHHHhhheEeeCCCcCHHHHHHHHHHcC------CC---hHHHHHHHHHcCCCHHHHHHHh
Confidence            3332 22333578899999999988886531      11   2336678999999998665443

>PRK07261 topology modulation protein; Provisional

Probab=97.31  E-value=0.00079  Score=62.80  Aligned_cols=67  Identities=24%  Similarity=0.379  Sum_probs=42.8

Q ss_pred             EEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHHHHHhCCCCCccCCCChhHHHHHHHHHhcc
Q 038398          149 IIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKIGRRIGFFDESWKNGSLEDKTSDILRILGK  228 (720)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~  228 (720)
                      .|.|+|++|+||||||+.+.....-..-+.|...|-..                       +...+.++....+.+.+.+
T Consensus         2 ri~i~G~~GsGKSTla~~l~~~~~~~~i~~D~~~~~~~-----------------------~~~~~~~~~~~~~~~~~~~   58 (171)
T PRK07261          2 KIAIIGYSGSGKSTLARKLSQHYNCPVLHLDTLHFQPN-----------------------WQERDDDDMIADISNFLLK   58 (171)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHhCCCeEecCCEEeccc-----------------------cccCCHHHHHHHHHHHHhC
Confidence            58999999999999999998775111123444444211                       1223445566666777766


Q ss_pred             CcEEEEEecccc
Q 038398          229 KKFLLLLDDIWE  240 (720)
Q Consensus       229 k~~LlVlDdv~~  240 (720)
                      .+  .|+|+...
T Consensus        59 ~~--wIidg~~~   68 (171)
T PRK07261         59 HD--WIIDGNYS   68 (171)
T ss_pred             CC--EEEcCcch
Confidence            66  67788654

>PRK12608 transcription termination factor Rho; Provisional

Probab=97.29  E-value=0.0016  Score=67.23  Aligned_cols=105  Identities=13%  Similarity=0.115  Sum_probs=65.3

Q ss_pred             HHHHHHHHhcC-CCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCE-EEEEEecC-cCCHHHHHHHHHHHhCCCCCcc
Q 038398          134 TFDKVWRCLGE-EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDV-VIWVVVSK-DLQLEKIQEKIGRRIGFFDESW  210 (720)
Q Consensus       134 ~~~~l~~~L~~-~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~-~~wv~v~~-~~~~~~~~~~i~~~l~~~~~~~  210 (720)
                      ...++++.+.. +.-..+.|+|++|+|||||++.+.+...  .++-+. ++|+.+.. ..++.++.+.+...+.....+.
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 3346779999999999999999988762  223343 46766665 4577888888887665432110


Q ss_pred             CCCC---hhHHHHHHHHHh--ccCcEEEEEecccc
Q 038398          211 KNGS---LEDKTSDILRIL--GKKKFLLLLDDIWE  240 (720)
Q Consensus       211 ~~~~---~~~~~~~l~~~l--~~k~~LlVlDdv~~  240 (720)
                      ....   .......+.+++  .+++++||+|++..
T Consensus       197 ~~~~~~~v~~~~~~~Ae~f~~~GkdVVLvlDsltr  231 (380)
T PRK12608        197 PPDEHIRVAELVLERAKRLVEQGKDVVILLDSLTR  231 (380)
T ss_pred             CHHHHHHHHHHHHHHHHHHHHcCCCEEEEEeCcHH
Confidence            1000   111111222222  47899999999853

>CHL00195 ycf46 Ycf46; Provisional

Probab=97.29  E-value=0.0014  Score=71.09  Aligned_cols=172  Identities=15%  Similarity=0.143  Sum_probs=90.3

Q ss_pred             CCCcCchHHHHHHHHHh---cC-------CCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHH
Q 038398          126 EPTVGLESTFDKVWRCL---GE-------EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKI  195 (720)
Q Consensus       126 ~~~vGr~~~~~~l~~~L---~~-------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~  195 (720)
                      +++.|.+..++.+....   ..       ...+-|.++|++|+|||.+|+.+++..   .-.|   +-+..+.       
T Consensus       228 ~dvgGl~~lK~~l~~~~~~~~~~~~~~gl~~pkGILL~GPpGTGKTllAkaiA~e~---~~~~---~~l~~~~-------  294 (489)
T CHL00195        228 SDIGGLDNLKDWLKKRSTSFSKQASNYGLPTPRGLLLVGIQGTGKSLTAKAIANDW---QLPL---LRLDVGK-------  294 (489)
T ss_pred             HHhcCHHHHHHHHHHHHHHhhHHHHhcCCCCCceEEEECCCCCcHHHHHHHHHHHh---CCCE---EEEEhHH-------
Confidence            34568877666655421   11       235678999999999999999999987   2222   1222111       


Q ss_pred             HHHHHHHhCCCCCccCCCChhHHHHHHHHH-hccCcEEEEEeccccccc----c----------ccccccCCCCCCCcEE
Q 038398          196 QEKIGRRIGFFDESWKNGSLEDKTSDILRI-LGKKKFLLLLDDIWERVD----L----------TKVGIPFPDPENKSKI  260 (720)
Q Consensus       196 ~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~-l~~k~~LlVlDdv~~~~~----~----------~~l~~~~~~~~~gs~i  260 (720)
                         +....       ...+ +.....+.+. -...+++|++|+++....    .          ..+...+.....+--|
T Consensus       295 ---l~~~~-------vGes-e~~l~~~f~~A~~~~P~IL~IDEID~~~~~~~~~~d~~~~~rvl~~lL~~l~~~~~~V~v  363 (489)
T CHL00195        295 ---LFGGI-------VGES-ESRMRQMIRIAEALSPCILWIDEIDKAFSNSESKGDSGTTNRVLATFITWLSEKKSPVFV  363 (489)
T ss_pred             ---hcccc-------cChH-HHHHHHHHHHHHhcCCcEEEehhhhhhhccccCCCCchHHHHHHHHHHHHHhcCCCceEE
Confidence               11000       1111 1222222222 234789999999974211    0          0011111112223345


Q ss_pred             EEEcCChhH-h----hhhccCceeeccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCcc
Q 038398          261 VFTTHFLEI-C----GALKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGLP  323 (720)
Q Consensus       261 iiTtR~~~v-~----~~~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~GlP  323 (720)
                      |.||.+... -    ..-.-...+.++..+.++-.++|..+..+.......  ..-...+++.+.|..
T Consensus       364 IaTTN~~~~Ld~allR~GRFD~~i~v~lP~~~eR~~Il~~~l~~~~~~~~~--~~dl~~La~~T~GfS  429 (489)
T CHL00195        364 VATANNIDLLPLEILRKGRFDEIFFLDLPSLEEREKIFKIHLQKFRPKSWK--KYDIKKLSKLSNKFS  429 (489)
T ss_pred             EEecCChhhCCHHHhCCCcCCeEEEeCCcCHHHHHHHHHHHHhhcCCCccc--ccCHHHHHhhcCCCC
Confidence            556654432 1    111234678899999999999999887653211100  112456666776653

>KOG0733 consensus Nuclear AAA ATPase (VCP subfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=97.27  E-value=0.0028  Score=67.73  Aligned_cols=152  Identities=18%  Similarity=0.287  Sum_probs=87.5

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHHHHHhCCCCCccCCCChhHHHHHHHHH
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKIGRRIGFFDESWKNGSLEDKTSDILRI  225 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~  225 (720)
                      ...-|.+||++|+|||-||++|++..   +-.     |++|...    +++    ...        ....+..+..+.+.
T Consensus       544 ~PsGvLL~GPPGCGKTLlAKAVANEa---g~N-----FisVKGP----ELl----NkY--------VGESErAVR~vFqR  599 (802)
T KOG0733|consen  544 APSGVLLCGPPGCGKTLLAKAVANEA---GAN-----FISVKGP----ELL----NKY--------VGESERAVRQVFQR  599 (802)
T ss_pred             CCCceEEeCCCCccHHHHHHHHhhhc---cCc-----eEeecCH----HHH----HHH--------hhhHHHHHHHHHHH
Confidence            45678899999999999999999987   334     3444332    111    111        01122333333333


Q ss_pred             hc-cCcEEEEEecccccc-------c------cccccccCC--CCCCCcEEEEEcCChhHh-hhh----ccCceeeccCC
Q 038398          226 LG-KKKFLLLLDDIWERV-------D------LTKVGIPFP--DPENKSKIVFTTHFLEIC-GAL----KAHEFLKVECL  284 (720)
Q Consensus       226 l~-~k~~LlVlDdv~~~~-------~------~~~l~~~~~--~~~~gs~iiiTtR~~~v~-~~~----~~~~~~~l~~L  284 (720)
                      -+ .-+++|.||+++...       .      ...+...+.  ....|--||-.|..+++. ..+    .-++...++.-
T Consensus       600 AR~saPCVIFFDEiDaL~p~R~~~~s~~s~RvvNqLLtElDGl~~R~gV~viaATNRPDiIDpAiLRPGRlDk~LyV~lP  679 (802)
T KOG0733|consen  600 ARASAPCVIFFDEIDALVPRRSDEGSSVSSRVVNQLLTELDGLEERRGVYVIAATNRPDIIDPAILRPGRLDKLLYVGLP  679 (802)
T ss_pred             hhcCCCeEEEecchhhcCcccCCCCchhHHHHHHHHHHHhcccccccceEEEeecCCCcccchhhcCCCccCceeeecCC
Confidence            33 478999999987521       1      111222221  123455566666444442 111    22456778888


Q ss_pred             ChhhHHHHHHHHhc--cCccCCCCChHHHHHHHHHHhCCcc
Q 038398          285 GPEDAWRLFRENLR--RDVLDNHPDIPELARSVAQECAGLP  323 (720)
Q Consensus       285 ~~~e~~~Lf~~~~~--~~~~~~~~~~~~~~~~i~~~c~GlP  323 (720)
                      +.+|-.++++....  +.....+.++.+++..  .+|.|.-
T Consensus       680 n~~eR~~ILK~~tkn~k~pl~~dVdl~eia~~--~~c~gft  718 (802)
T KOG0733|consen  680 NAEERVAILKTITKNTKPPLSSDVDLDEIARN--TKCEGFT  718 (802)
T ss_pred             CHHHHHHHHHHHhccCCCCCCcccCHHHHhhc--ccccCCc
Confidence            89999999998887  3333445566666653  3555654

>PRK06871 DNA polymerase III subunit delta'; Validated

Probab=97.24  E-value=0.014  Score=59.97  Aligned_cols=177  Identities=7%  Similarity=0.016  Sum_probs=93.8

Q ss_pred             HHHHHHHHHhcCCC-ceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHHHHHhCCCC----
Q 038398          133 STFDKVWRCLGEEQ-VGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKIGRRIGFFD----  207 (720)
Q Consensus       133 ~~~~~l~~~L~~~~-~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i~~~l~~~~----  207 (720)
                      ...+.+.+.+..+. ...+.+.|+.|+||+++|+.++....... ...       ...++.-..-+.+...-..+.    
T Consensus         9 ~~~~~l~~~~~~~rl~HA~Lf~G~~G~GK~~lA~~~A~~llC~~-~~~-------~~~Cg~C~sC~~~~~g~HPD~~~i~   80 (325)
T PRK06871          9 PTYQQITQAFQQGLGHHALLFKADSGLGTEQLIRALAQWLMCQT-PQG-------DQPCGQCHSCHLFQAGNHPDFHILE   80 (325)
T ss_pred             HHHHHHHHHHHcCCcceeEEeECCCCCCHHHHHHHHHHHHcCCC-CCC-------CCCCCCCHHHHHHhcCCCCCEEEEc
Confidence            34556777776655 35777999999999999999887662111 000       001111111111111100000    


Q ss_pred             C-ccCCCChhHHHHHHHHHh-----ccCcEEEEEeccccc--cccccccccCCCCCCCcEEEEEcCCh-hHhhh-hccCc
Q 038398          208 E-SWKNGSLEDKTSDILRIL-----GKKKFLLLLDDIWER--VDLTKVGIPFPDPENKSKIVFTTHFL-EICGA-LKAHE  277 (720)
Q Consensus       208 ~-~~~~~~~~~~~~~l~~~l-----~~k~~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~iiiTtR~~-~v~~~-~~~~~  277 (720)
                      + .......++. +.+.+.+     .+++-++|+|+++..  .....+...+.....++.+|++|.+. .+..- .+--.
T Consensus        81 p~~~~~I~id~i-R~l~~~~~~~~~~g~~KV~iI~~a~~m~~~AaNaLLKtLEEPp~~~~fiL~t~~~~~llpTI~SRC~  159 (325)
T PRK06871         81 PIDNKDIGVDQV-REINEKVSQHAQQGGNKVVYIQGAERLTEAAANALLKTLEEPRPNTYFLLQADLSAALLPTIYSRCQ  159 (325)
T ss_pred             cccCCCCCHHHH-HHHHHHHhhccccCCceEEEEechhhhCHHHHHHHHHHhcCCCCCeEEEEEECChHhCchHHHhhce
Confidence            0 0001112222 2222222     245568889999753  23333333333344556666666554 34322 23346


Q ss_pred             eeeccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCcchHH
Q 038398          278 FLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGLPLAL  326 (720)
Q Consensus       278 ~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~GlPLai  326 (720)
                      .+.+.++++++..+.+.......        ...+...++.++|.|+..
T Consensus       160 ~~~~~~~~~~~~~~~L~~~~~~~--------~~~~~~~~~l~~g~p~~A  200 (325)
T PRK06871        160 TWLIHPPEEQQALDWLQAQSSAE--------ISEILTALRINYGRPLLA  200 (325)
T ss_pred             EEeCCCCCHHHHHHHHHHHhccC--------hHHHHHHHHHcCCCHHHH
Confidence            78999999999999888754211        123566788999999633

>KOG1644 consensus U2-associated snRNP A' protein [RNA processing and modification]

Probab=97.21  E-value=0.00044  Score=63.57  Aligned_cols=124  Identities=22%  Similarity=0.241  Sum_probs=78.4

Q ss_pred             eEEEecccccccCCCCC-CCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCccCCccccCCCCCCEEeccCCC
Q 038398          497 RRMSLMKNKIENLSETP-TCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSSTA  575 (720)
Q Consensus       497 ~~L~l~~~~~~~~~~~~-~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~~~  575 (720)
                      +.+++.+.++..+...+ -..+.-.+++++|.+..+..  |..++.|.+|.|++|++...-|.--.-+++|..|.|.+|+
T Consensus        22 ~e~~LR~lkip~ienlg~~~d~~d~iDLtdNdl~~l~~--lp~l~rL~tLll~nNrIt~I~p~L~~~~p~l~~L~LtnNs   99 (233)
T KOG1644|consen   22 RELDLRGLKIPVIENLGATLDQFDAIDLTDNDLRKLDN--LPHLPRLHTLLLNNNRITRIDPDLDTFLPNLKTLILTNNS   99 (233)
T ss_pred             cccccccccccchhhccccccccceecccccchhhccc--CCCccccceEEecCCcceeeccchhhhccccceEEecCcc
Confidence            34555555544333321 23456678888887766554  7778888899998887665555444456778888898888


Q ss_pred             Ccccch--hhhcCCCCCEEeccCCcCCCCCch---hhhhccccCceeeccccC
Q 038398          576 ITHLPI--ELQKLVNLKCLNLEYMNNLNQFPR---LVISAFSKLQVLRMFDCG  623 (720)
Q Consensus       576 i~~lp~--~i~~l~~L~~L~l~~~~~l~~lp~---~~~~~l~~L~~L~~~~~~  623 (720)
                      |.++-+  .+..+++|++|.+-+| ..+.-+.   -++-.+++|+.|+..+..
T Consensus       100 i~~l~dl~pLa~~p~L~~Ltll~N-pv~~k~~YR~yvl~klp~l~~LDF~kVt  151 (233)
T KOG1644|consen  100 IQELGDLDPLASCPKLEYLTLLGN-PVEHKKNYRLYVLYKLPSLRTLDFQKVT  151 (233)
T ss_pred             hhhhhhcchhccCCccceeeecCC-chhcccCceeEEEEecCcceEeehhhhh
Confidence            876522  2566788888888773 3333221   135566677777666543

>PRK06835 DNA replication protein DnaC; Validated

Probab=97.21  E-value=0.0051  Score=63.46  Aligned_cols=36  Identities=33%  Similarity=0.402  Sum_probs=28.2

Q ss_pred             eEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEe
Q 038398          148 GIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVV  186 (720)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v  186 (720)
                      ..+.++|++|+|||.||.++++...  ... ..++|+++
T Consensus       184 ~~Lll~G~~GtGKThLa~aIa~~l~--~~g-~~V~y~t~  219 (329)
T PRK06835        184 ENLLFYGNTGTGKTFLSNCIAKELL--DRG-KSVIYRTA  219 (329)
T ss_pred             CcEEEECCCCCcHHHHHHHHHHHHH--HCC-CeEEEEEH
Confidence            7799999999999999999999872  222 35667654

>COG2812 DnaX DNA polymerase III, gamma/tau subunits [DNA replication, recombination, and repair]

Probab=97.20  E-value=0.0021  Score=69.33  Aligned_cols=186  Identities=15%  Similarity=0.160  Sum_probs=103.6

Q ss_pred             CCCCcCchHHHHHHHHHhcCCCc-eEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHHHHHh
Q 038398          125 CEPTVGLESTFDKVWRCLGEEQV-GIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKIGRRI  203 (720)
Q Consensus       125 ~~~~vGr~~~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i~~~l  203 (720)
                      .+++||.+..+..|...+..+.. ......|+-|+||||+|+.++...-....        .....++--...+.|-..-
T Consensus        15 F~evvGQe~v~~~L~nal~~~ri~hAYlfsG~RGvGKTt~Ari~AkalNC~~~--------~~~ePC~~C~~Ck~I~~g~   86 (515)
T COG2812          15 FDDVVGQEHVVKTLSNALENGRIAHAYLFSGPRGVGKTTIARILAKALNCENG--------PTAEPCGKCISCKEINEGS   86 (515)
T ss_pred             HHHhcccHHHHHHHHHHHHhCcchhhhhhcCCCCcCchhHHHHHHHHhcCCCC--------CCCCcchhhhhhHhhhcCC
Confidence            35679999999999999977653 45678899999999999998876521110        0011112112222222220


Q ss_pred             CCCC---CccCCCChhHHHHHHHHHh-----ccCcEEEEEecccc--ccccccccccCCCCCCCcEEEE-EcCChhH-hh
Q 038398          204 GFFD---ESWKNGSLEDKTSDILRIL-----GKKKFLLLLDDIWE--RVDLTKVGIPFPDPENKSKIVF-TTHFLEI-CG  271 (720)
Q Consensus       204 ~~~~---~~~~~~~~~~~~~~l~~~l-----~~k~~LlVlDdv~~--~~~~~~l~~~~~~~~~gs~iii-TtR~~~v-~~  271 (720)
                      ..+.   +.-+... -+-.+.|.+..     .++.=+.|+|+|.-  ...|..+..-+...-...+.|+ ||-...+ ..
T Consensus        87 ~~DviEiDaASn~g-VddiR~i~e~v~y~P~~~ryKVyiIDEvHMLS~~afNALLKTLEEPP~hV~FIlATTe~~Kip~T  165 (515)
T COG2812          87 LIDVIEIDAASNTG-VDDIREIIEKVNYAPSEGRYKVYIIDEVHMLSKQAFNALLKTLEEPPSHVKFILATTEPQKIPNT  165 (515)
T ss_pred             cccchhhhhhhccC-hHHHHHHHHHhccCCccccceEEEEecHHhhhHHHHHHHhcccccCccCeEEEEecCCcCcCchh
Confidence            0000   0001111 11222233322     23445899999974  3455555444433333444454 4444444 23


Q ss_pred             hhccCceeeccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCc
Q 038398          272 ALKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGL  322 (720)
Q Consensus       272 ~~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~Gl  322 (720)
                      ..+....|.++.++.++-...+...+......   ..++....|++..+|.
T Consensus       166 IlSRcq~f~fkri~~~~I~~~L~~i~~~E~I~---~e~~aL~~ia~~a~Gs  213 (515)
T COG2812         166 ILSRCQRFDFKRLDLEEIAKHLAAILDKEGIN---IEEDALSLIARAAEGS  213 (515)
T ss_pred             hhhccccccccCCCHHHHHHHHHHHHHhcCCc---cCHHHHHHHHHHcCCC
Confidence            33445789999999999999998887654422   2244556666666663

>KOG2739 consensus Leucine-rich acidic nuclear protein [Cell cycle control, cell division, chromosome partitioning; General function prediction only]

Probab=97.20  E-value=0.00021  Score=68.59  Aligned_cols=88  Identities=28%  Similarity=0.357  Sum_probs=44.0

Q ss_pred             hccCCcccEEEccCC--CCCccCCccccCCCCCCEEeccCCCCcc---cchhhhcCCCCCEEeccCCcCCCCCc---hhh
Q 038398          536 FQSMPSLRVFNMSNN--HLLWKLPSGISTLVSLEHLDLSSTAITH---LPIELQKLVNLKCLNLEYMNNLNQFP---RLV  607 (720)
Q Consensus       536 ~~~l~~L~~L~L~~~--~~~~~lp~~i~~l~~L~~L~L~~~~i~~---lp~~i~~l~~L~~L~l~~~~~l~~lp---~~~  607 (720)
                      |..|++|++|.++.|  +....++-....+++|++|++++|+|+.   ++ ....+.+|..|++.+|...+ +-   ..+
T Consensus        61 ~P~Lp~LkkL~lsdn~~~~~~~l~vl~e~~P~l~~l~ls~Nki~~lstl~-pl~~l~nL~~Ldl~n~~~~~-l~dyre~v  138 (260)
T KOG2739|consen   61 FPKLPKLKKLELSDNYRRVSGGLEVLAEKAPNLKVLNLSGNKIKDLSTLR-PLKELENLKSLDLFNCSVTN-LDDYREKV  138 (260)
T ss_pred             CCCcchhhhhcccCCcccccccceehhhhCCceeEEeecCCccccccccc-hhhhhcchhhhhcccCCccc-cccHHHHH
Confidence            334455555555555  3334444334444666666666665542   21 14455566666666653322 21   223


Q ss_pred             hhccccCceeeccccCCC
Q 038398          608 ISAFSKLQVLRMFDCGGS  625 (720)
Q Consensus       608 ~~~l~~L~~L~~~~~~~~  625 (720)
                      +.-+++|..|+-.++..+
T Consensus       139 f~ll~~L~~LD~~dv~~~  156 (260)
T KOG2739|consen  139 FLLLPSLKYLDGCDVDGE  156 (260)
T ss_pred             HHHhhhhccccccccCCc
Confidence            445566666665555444

>KOG2004 consensus Mitochondrial ATP-dependent protease PIM1/LON [Posttranslational modification, protein turnover, chaperones]

Probab=97.19  E-value=0.0026  Score=69.30  Aligned_cols=155  Identities=21%  Similarity=0.262  Sum_probs=90.3

Q ss_pred             CCCcCchHHHHHHHHHhcC------CCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHH
Q 038398          126 EPTVGLESTFDKVWRCLGE------EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKI  199 (720)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i  199 (720)
                      ++-+|.++.+++|++++.=      -+-.++..+||+|+|||++|+.++....  +.+|    -++|+.-.+..+|-.  
T Consensus       411 eDHYgm~dVKeRILEfiAV~kLrgs~qGkIlCf~GPPGVGKTSI~kSIA~ALn--RkFf----RfSvGG~tDvAeIkG--  482 (906)
T KOG2004|consen  411 EDHYGMEDVKERILEFIAVGKLRGSVQGKILCFVGPPGVGKTSIAKSIARALN--RKFF----RFSVGGMTDVAEIKG--  482 (906)
T ss_pred             ccccchHHHHHHHHHHHHHHhhcccCCCcEEEEeCCCCCCcccHHHHHHHHhC--CceE----EEeccccccHHhhcc--
Confidence            4568999999999998832      2457999999999999999999999872  2333    345566555555421  


Q ss_pred             HHHhCCCCCccCCCChhHHHHHHHHHhc---cCcEEEEEecccccc---------ccccccc---------cCCC-CCCC
Q 038398          200 GRRIGFFDESWKNGSLEDKTSDILRILG---KKKFLLLLDDIWERV---------DLTKVGI---------PFPD-PENK  257 (720)
Q Consensus       200 ~~~l~~~~~~~~~~~~~~~~~~l~~~l~---~k~~LlVlDdv~~~~---------~~~~l~~---------~~~~-~~~g  257 (720)
                            .    ...-...+..++.+.|+   ...-|+.||+|+...         .+.++..         .+.+ .--=
T Consensus       483 ------H----RRTYVGAMPGkiIq~LK~v~t~NPliLiDEvDKlG~g~qGDPasALLElLDPEQNanFlDHYLdVp~DL  552 (906)
T KOG2004|consen  483 ------H----RRTYVGAMPGKIIQCLKKVKTENPLILIDEVDKLGSGHQGDPASALLELLDPEQNANFLDHYLDVPVDL  552 (906)
T ss_pred             ------c----ceeeeccCChHHHHHHHhhCCCCceEEeehhhhhCCCCCCChHHHHHHhcChhhccchhhhccccccch
Confidence                  1    11112222233334443   345688899986421         1111111         1100 0113


Q ss_pred             cEEEEEcCChhH----hhhhccCceeeccCCChhhHHHHHHHHhc
Q 038398          258 SKIVFTTHFLEI----CGALKAHEFLKVECLGPEDAWRLFRENLR  298 (720)
Q Consensus       258 s~iiiTtR~~~v----~~~~~~~~~~~l~~L~~~e~~~Lf~~~~~  298 (720)
                      |||++...-..+    ....+..+.+++.+...+|-.++-.++..
T Consensus       553 SkVLFicTAN~idtIP~pLlDRMEvIelsGYv~eEKv~IA~~yLi  597 (906)
T KOG2004|consen  553 SKVLFICTANVIDTIPPPLLDRMEVIELSGYVAEEKVKIAERYLI  597 (906)
T ss_pred             hheEEEEeccccccCChhhhhhhheeeccCccHHHHHHHHHHhhh
Confidence            666653322222    11123346889999999998887777653

>KOG0741 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=97.18  E-value=0.0064  Score=63.97  Aligned_cols=156  Identities=21%  Similarity=0.212  Sum_probs=92.9

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHHHHHhCCCCCccCCCChhHHHHHHHHH
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKIGRRIGFFDESWKNGSLEDKTSDILRI  225 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~  225 (720)
                      ....+.+.|++|+|||+||..++...     .|..+--++-      +++               ...++......+...
T Consensus       537 ~lvSvLl~Gp~~sGKTaLAA~iA~~S-----~FPFvKiiSp------e~m---------------iG~sEsaKc~~i~k~  590 (744)
T KOG0741|consen  537 PLVSVLLEGPPGSGKTALAAKIALSS-----DFPFVKIISP------EDM---------------IGLSESAKCAHIKKI  590 (744)
T ss_pred             cceEEEEecCCCCChHHHHHHHHhhc-----CCCeEEEeCh------HHc---------------cCccHHHHHHHHHHH
Confidence            45677889999999999999998653     5654433321      110               112223333344433


Q ss_pred             ----hccCcEEEEEeccccccccccccccCCC-------------CCCCcEE--EEEcCChhHhhhhcc----Cceeecc
Q 038398          226 ----LGKKKFLLLLDDIWERVDLTKVGIPFPD-------------PENKSKI--VFTTHFLEICGALKA----HEFLKVE  282 (720)
Q Consensus       226 ----l~~k~~LlVlDdv~~~~~~~~l~~~~~~-------------~~~gs~i--iiTtR~~~v~~~~~~----~~~~~l~  282 (720)
                          .+..--.||+||+....+|..+++.|..             ...|.|.  +-||....+...|+-    ...|+++
T Consensus       591 F~DAYkS~lsiivvDdiErLiD~vpIGPRfSN~vlQaL~VllK~~ppkg~kLli~~TTS~~~vL~~m~i~~~F~~~i~Vp  670 (744)
T KOG0741|consen  591 FEDAYKSPLSIIVVDDIERLLDYVPIGPRFSNLVLQALLVLLKKQPPKGRKLLIFGTTSRREVLQEMGILDCFSSTIHVP  670 (744)
T ss_pred             HHHhhcCcceEEEEcchhhhhcccccCchhhHHHHHHHHHHhccCCCCCceEEEEecccHHHHHHHcCHHHhhhheeecC
Confidence                3445679999999888787776654421             1234454  446666677777653    3568889


Q ss_pred             CCCh-hhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCcchHHHHHHHHH
Q 038398          283 CLGP-EDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGLPLALITIGRAM  333 (720)
Q Consensus       283 ~L~~-~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~GlPLai~~~~~~l  333 (720)
                      .++. ++..+.++..-.    -.+.+.+.++.+...+|  +-.+|+.+-.++
T Consensus       671 nl~~~~~~~~vl~~~n~----fsd~~~~~~~~~~~~~~--~~vgIKklL~li  716 (744)
T KOG0741|consen  671 NLTTGEQLLEVLEELNI----FSDDEVRAIAEQLLSKK--VNVGIKKLLMLI  716 (744)
T ss_pred             ccCchHHHHHHHHHccC----CCcchhHHHHHHHhccc--cchhHHHHHHHH
Confidence            8887 777777765421    12334456666666666  333444444443

>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=97.18  E-value=0.011  Score=61.85  Aligned_cols=40  Identities=25%  Similarity=0.447  Sum_probs=32.8

Q ss_pred             hHHHHHHHHHhcC---CCceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          132 ESTFDKVWRCLGE---EQVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       132 ~~~~~~l~~~L~~---~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      +...+.+.+.+.+   +...+|+|.|.-|+||||+.+.+.+..
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            4455667777754   457899999999999999999999888

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 [].

>PRK08181 transposase; Validated

Probab=97.18  E-value=0.00053  Score=68.43  Aligned_cols=78  Identities=26%  Similarity=0.232  Sum_probs=46.4

Q ss_pred             HHhcCCCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHHHHHhCCCCCccCCCChhHHH
Q 038398          140 RCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKIGRRIGFFDESWKNGSLEDKT  219 (720)
Q Consensus       140 ~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~  219 (720)
                      +|+.  ....+.++|++|+|||.||..+.+...   ...-.++|+.      ..++...+.....       ......  
T Consensus       101 ~~~~--~~~nlll~Gp~GtGKTHLa~Aia~~a~---~~g~~v~f~~------~~~L~~~l~~a~~-------~~~~~~--  160 (269)
T PRK08181        101 SWLA--KGANLLLFGPPGGGKSHLAAAIGLALI---ENGWRVLFTR------TTDLVQKLQVARR-------ELQLES--  160 (269)
T ss_pred             HHHh--cCceEEEEecCCCcHHHHHHHHHHHHH---HcCCceeeee------HHHHHHHHHHHHh-------CCcHHH--
Confidence            4554  335689999999999999999998762   2223456654      3445555543321       111222  


Q ss_pred             HHHHHHhccCcEEEEEecccc
Q 038398          220 SDILRILGKKKFLLLLDDIWE  240 (720)
Q Consensus       220 ~~l~~~l~~k~~LlVlDdv~~  240 (720)
                        ..+.+. +.=||||||+..
T Consensus       161 --~l~~l~-~~dLLIIDDlg~  178 (269)
T PRK08181        161 --AIAKLD-KFDLLILDDLAY  178 (269)
T ss_pred             --HHHHHh-cCCEEEEecccc
Confidence              222222 344999999953

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

Probab=97.16  E-value=4.2e-05  Score=77.57  Aligned_cols=192  Identities=18%  Similarity=0.116  Sum_probs=99.0

Q ss_pred             CCCCcccEEEccCC-CCcCcchH-HhccCCcccEEEccCCCCCcc--CCccccCCCCCCEEeccCCC-Cc--ccchhhhc
Q 038398          513 PTCPHLLSLFLSDN-SLKMSTDD-FFQSMPSLRVFNMSNNHLLWK--LPSGISTLVSLEHLDLSSTA-IT--HLPIELQK  585 (720)
Q Consensus       513 ~~~~~L~~L~l~~~-~~~~~~~~-~~~~l~~L~~L~L~~~~~~~~--lp~~i~~l~~L~~L~L~~~~-i~--~lp~~i~~  585 (720)
                      ..|++|+.|++..| .++...-. ...++++|.+|+++.|..+..  +-.-..++..|+.+.+++|. +.  .+-..-+.
T Consensus       187 ~~C~~l~~l~L~~c~~iT~~~Lk~la~gC~kL~~lNlSwc~qi~~~gv~~~~rG~~~l~~~~~kGC~e~~le~l~~~~~~  266 (483)
T KOG4341|consen  187 RYCRKLRHLNLHSCSSITDVSLKYLAEGCRKLKYLNLSWCPQISGNGVQALQRGCKELEKLSLKGCLELELEALLKAAAY  266 (483)
T ss_pred             HhcchhhhhhhcccchhHHHHHHHHHHhhhhHHHhhhccCchhhcCcchHHhccchhhhhhhhcccccccHHHHHHHhcc
Confidence            34566666666654 33332211 234566666666666643322  11112334445555555542 11  11111122


Q ss_pred             CCCCCEEeccCCcCCCCCchh-hhhccccCceeeccccCCCcccchhcccccCCccccHHHhc-CCCCCceeEEEecchh
Q 038398          586 LVNLKCLNLEYMNNLNQFPRL-VISAFSKLQVLRMFDCGGSKIERLKINVLFGGHQFLVEELM-GMKHLMVLTITLKSWQ  663 (720)
Q Consensus       586 l~~L~~L~l~~~~~l~~lp~~-~~~~l~~L~~L~~~~~~~~~l~~l~~~~~~~~~~~~~~~l~-~l~~L~~L~~~~~~~~  663 (720)
                      ...+..+++..|+.++..... +-..+..|+.|...+|+..             +......|+ ++.+|+.|.+..+..-
T Consensus       267 ~~~i~~lnl~~c~~lTD~~~~~i~~~c~~lq~l~~s~~t~~-------------~d~~l~aLg~~~~~L~~l~l~~c~~f  333 (483)
T KOG4341|consen  267 CLEILKLNLQHCNQLTDEDLWLIACGCHALQVLCYSSCTDI-------------TDEVLWALGQHCHNLQVLELSGCQQF  333 (483)
T ss_pred             ChHhhccchhhhccccchHHHHHhhhhhHhhhhcccCCCCC-------------chHHHHHHhcCCCceEEEeccccchh
Confidence            333445555566444443311 1123455666666665442             333444454 5688999988865431


Q ss_pred             hHHHHhhhhhhhhhccccccccccCCCccccccc-cccCCcceeeecCCCCCccc
Q 038398          664 ALKELLISQELQRSTQSLFLRCFNDSKSLDIFCL-AGLRNLNKLYVAGCKHLEDS  717 (720)
Q Consensus       664 ~l~~l~~~~~~~~~L~~L~l~~~~~l~~l~~~~l-~~l~~L~~L~l~~c~~l~~i  717 (720)
                      +-..+.......+.|+.+++..|.......+..+ .+++.|+.|.|+.|..+.+-
T Consensus       334 sd~~ft~l~rn~~~Le~l~~e~~~~~~d~tL~sls~~C~~lr~lslshce~itD~  388 (483)
T KOG4341|consen  334 SDRGFTMLGRNCPHLERLDLEECGLITDGTLASLSRNCPRLRVLSLSHCELITDE  388 (483)
T ss_pred             hhhhhhhhhcCChhhhhhcccccceehhhhHhhhccCCchhccCChhhhhhhhhh
Confidence            1112222233446899999998876554433333 56899999999999877653

>TIGR02640 gas_vesic_GvpN gas vesicle protein GvpN

Probab=97.15  E-value=0.0082  Score=60.34  Aligned_cols=56  Identities=23%  Similarity=0.286  Sum_probs=36.2

Q ss_pred             hHHHHHHHHHhcCCCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHH
Q 038398          132 ESTFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKI  195 (720)
Q Consensus       132 ~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~  195 (720)
                      .+.++++..++..+  .-|.+.|++|+|||++|+.+....   ..   ..+++++....+..++
T Consensus         8 ~~l~~~~l~~l~~g--~~vLL~G~~GtGKT~lA~~la~~l---g~---~~~~i~~~~~~~~~dl   63 (262)
T TIGR02640         8 KRVTSRALRYLKSG--YPVHLRGPAGTGKTTLAMHVARKR---DR---PVMLINGDAELTTSDL   63 (262)
T ss_pred             HHHHHHHHHHHhcC--CeEEEEcCCCCCHHHHHHHHHHHh---CC---CEEEEeCCccCCHHHH
Confidence            34455566666543  456789999999999999998754   22   2345555555444444

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).

>COG0542 clpA ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]

Probab=97.14  E-value=0.01  Score=66.86  Aligned_cols=104  Identities=20%  Similarity=0.348  Sum_probs=64.2

Q ss_pred             CCCcCchHHHHHHHHHhcC---------CCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHH
Q 038398          126 EPTVGLESTFDKVWRCLGE---------EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQ  196 (720)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~---------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~  196 (720)
                      ...+|.+..++.+.+.+..         ....+....||.|||||-||++++....   +.=+..+-++.|.-..    -
T Consensus       491 ~rViGQd~AV~avs~aIrraRaGL~dp~rPigsFlF~GPTGVGKTELAkaLA~~Lf---g~e~aliR~DMSEy~E----k  563 (786)
T COG0542         491 KRVIGQDEAVEAVSDAIRRARAGLGDPNRPIGSFLFLGPTGVGKTELAKALAEALF---GDEQALIRIDMSEYME----K  563 (786)
T ss_pred             cceeChHHHHHHHHHHHHHHhcCCCCCCCCceEEEeeCCCcccHHHHHHHHHHHhc---CCCccceeechHHHHH----H
Confidence            4579999999999888842         2356777899999999999999988772   1113334443333211    1


Q ss_pred             HHHHHHhCCCCCccCCCChhHHHHHHHHHhccCcE-EEEEecccc
Q 038398          197 EKIGRRIGFFDESWKNGSLEDKTSDILRILGKKKF-LLLLDDIWE  240 (720)
Q Consensus       197 ~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~-LlVlDdv~~  240 (720)
                      ..+.+-+|.+ +.+...+.   ...|-+..+.++| +|.||++..
T Consensus       564 HsVSrLIGaP-PGYVGyee---GG~LTEaVRr~PySViLlDEIEK  604 (786)
T COG0542         564 HSVSRLIGAP-PGYVGYEE---GGQLTEAVRRKPYSVILLDEIEK  604 (786)
T ss_pred             HHHHHHhCCC-CCCceecc---ccchhHhhhcCCCeEEEechhhh
Confidence            2222333332 22111111   3456667777887 888999975

>PRK06090 DNA polymerase III subunit delta'; Validated

Probab=97.13  E-value=0.018  Score=58.99  Aligned_cols=176  Identities=12%  Similarity=0.064  Sum_probs=93.0

Q ss_pred             HHHHHHHHHhcCCC-ceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHHHHHhCCC-----
Q 038398          133 STFDKVWRCLGEEQ-VGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKIGRRIGFF-----  206 (720)
Q Consensus       133 ~~~~~l~~~L~~~~-~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i~~~l~~~-----  206 (720)
                      ...+++.+.+..++ ...+.+.|+.|+||+++|+.+....-..... +        ..++.-..-+.+...-..+     
T Consensus        10 ~~~~~l~~~~~~~rl~hA~L~~G~~G~Gk~~lA~~~a~~llC~~~~-~--------~~Cg~C~sC~~~~~g~HPD~~~i~   80 (319)
T PRK06090         10 PVWQNWKAGLDAGRIPGALLLQSDEGLGVESLVELFSRALLCQNYQ-S--------EACGFCHSCELMQSGNHPDLHVIK   80 (319)
T ss_pred             HHHHHHHHHHHcCCcceeEeeECCCCCCHHHHHHHHHHHHcCCCCC-C--------CCCCCCHHHHHHHcCCCCCEEEEe
Confidence            34566667666555 4578899999999999999987765211100 0        0000001111111100000     


Q ss_pred             -CCccCCCChhHHHHHHHHHh-----ccCcEEEEEeccccc--cccccccccCCCCCCCcEEEEEcCCh-hHh-hhhccC
Q 038398          207 -DESWKNGSLEDKTSDILRIL-----GKKKFLLLLDDIWER--VDLTKVGIPFPDPENKSKIVFTTHFL-EIC-GALKAH  276 (720)
Q Consensus       207 -~~~~~~~~~~~~~~~l~~~l-----~~k~~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~iiiTtR~~-~v~-~~~~~~  276 (720)
                       .........++. +.+.+.+     .+++-++|+|+++..  .....+...+.....++.+|++|.+. .+. +..+--
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             000011122222 2233333     234558888998753  23333433333334556666665543 343 222334


Q ss_pred             ceeeccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCcchHHHHH
Q 038398          277 EFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGLPLALITI  329 (720)
Q Consensus       277 ~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~GlPLai~~~  329 (720)
                      ..+.+.+++.+++.+.+....      .+     .+..+++.++|.|+....+
T Consensus       160 q~~~~~~~~~~~~~~~L~~~~------~~-----~~~~~l~l~~G~p~~A~~~  201 (319)
T PRK06090        160 QQWVVTPPSTAQAMQWLKGQG------IT-----VPAYALKLNMGSPLKTLAM  201 (319)
T ss_pred             eeEeCCCCCHHHHHHHHHHcC------Cc-----hHHHHHHHcCCCHHHHHHH
Confidence            678999999999998886531      11     1456788999999876544

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=97.13  E-value=0.0072  Score=70.34  Aligned_cols=176  Identities=16%  Similarity=0.188  Sum_probs=96.2

Q ss_pred             CCCcCchHHHHHHHHHhcC-------------CCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCH
Q 038398          126 EPTVGLESTFDKVWRCLGE-------------EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQL  192 (720)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~-------------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~  192 (720)
                      .++.|.+..++++.+.+.-             ...+-|.++|++|+|||++|+++++..   ...|     +.+...   
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            4457888887777665421             234568899999999999999999986   2232     222211   


Q ss_pred             HHHHHHHHHHhCCCCCccCCCChhHHHHHHHHHh-ccCcEEEEEeccccccc--------------cccccccCCC--CC
Q 038398          193 EKIQEKIGRRIGFFDESWKNGSLEDKTSDILRIL-GKKKFLLLLDDIWERVD--------------LTKVGIPFPD--PE  255 (720)
Q Consensus       193 ~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l-~~k~~LlVlDdv~~~~~--------------~~~l~~~~~~--~~  255 (720)
                       +    ++...       .. ..+.....+.+.. ...+.+|+||+++....              ...+...+..  ..
T Consensus       522 -~----l~~~~-------vG-ese~~i~~~f~~A~~~~p~iifiDEid~l~~~r~~~~~~~~~~~~~~~lL~~ldg~~~~  588 (733)
T TIGR01243       522 -E----ILSKW-------VG-ESEKAIREIFRKARQAAPAIIFFDEIDAIAPARGARFDTSVTDRIVNQLLTEMDGIQEL  588 (733)
T ss_pred             -H----Hhhcc-------cC-cHHHHHHHHHHHHHhcCCEEEEEEChhhhhccCCCCCCccHHHHHHHHHHHHhhcccCC
Confidence             1    11111       11 1122333333322 35679999999864210              0111111111  12


Q ss_pred             CCcEEEEEcCChhHhhh-h----ccCceeeccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCcc-hHHHHH
Q 038398          256 NKSKIVFTTHFLEICGA-L----KAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGLP-LALITI  329 (720)
Q Consensus       256 ~gs~iiiTtR~~~v~~~-~----~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~GlP-Lai~~~  329 (720)
                      .+..||.||........ .    .-...+.++..+.++-.++|+.+..........+    ...+++.+.|.- -.|..+
T Consensus       589 ~~v~vI~aTn~~~~ld~allRpgRfd~~i~v~~Pd~~~R~~i~~~~~~~~~~~~~~~----l~~la~~t~g~sgadi~~~  664 (733)
T TIGR01243       589 SNVVVIAATNRPDILDPALLRPGRFDRLILVPPPDEEARKEIFKIHTRSMPLAEDVD----LEELAEMTEGYTGADIEAV  664 (733)
T ss_pred             CCEEEEEeCCChhhCCHhhcCCCccceEEEeCCcCHHHHHHHHHHHhcCCCCCccCC----HHHHHHHcCCCCHHHHHHH
Confidence            34445566654443221 1    2346788999999999999987765433222222    455667787754 334443

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.

>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA

Probab=97.11  E-value=0.0028  Score=73.45  Aligned_cols=46  Identities=26%  Similarity=0.412  Sum_probs=36.8

Q ss_pred             CCCcCchHHHHHHHHHhcC--------C-CceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          126 EPTVGLESTFDKVWRCLGE--------E-QVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~--------~-~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ..++|.+..++.+...+..        + ...++.++|++|+|||+||+.++...
T Consensus       454 ~~v~GQ~~ai~~l~~~i~~~~~g~~~~~~p~~~~lf~Gp~GvGKT~lA~~la~~l  508 (731)
T TIGR02639       454 AKIFGQDEAIDSLVSSIKRSRAGLGNPNKPVGSFLFTGPTGVGKTELAKQLAEAL  508 (731)
T ss_pred             cceeCcHHHHHHHHHHHHHHhcCCCCCCCCceeEEEECCCCccHHHHHHHHHHHh
Confidence            3468999999988887742        1 23468899999999999999998876

>KOG1514 consensus Origin recognition complex, subunit 1, and related proteins [Replication, recombination and repair]

Probab=97.10  E-value=0.014  Score=63.85  Aligned_cols=198  Identities=17%  Similarity=0.102  Sum_probs=116.7

Q ss_pred             CCcCchHHHHHHHHHhcC-----CCceEEEEEcCCCChHHHHHHHHHhhhcC--CCC---CcCEEEEEEecCcCCHHHHH
Q 038398          127 PTVGLESTFDKVWRCLGE-----EQVGIIGLYGMGGVGKTTLLTKINNKLLG--APN---VFDVVIWVVVSKDLQLEKIQ  196 (720)
Q Consensus       127 ~~vGr~~~~~~l~~~L~~-----~~~~vi~I~G~gGiGKTtLa~~v~~~~~~--~~~---~f~~~~wv~v~~~~~~~~~~  196 (720)
                      .+-+||.+..+|.+++..     +..+.+.|.|-+|+|||..+..|.+....  .++   .|+ .+.|+.-.-....++.
T Consensus       397 sLpcRe~E~~~I~~f~~~~i~~~~~g~~mYIsGvPGtGKT~tV~~Vm~~Lq~~s~~~e~p~f~-yveINgm~l~~~~~~Y  475 (767)
T KOG1514|consen  397 SLPCRENEFSEIEDFLRSFISDQGLGSCMYISGVPGTGKTATVLEVMKELQTSSAQKELPKFD-YVEINGLRLASPREIY  475 (767)
T ss_pred             cccchhHHHHHHHHHHHhhcCCCCCceeEEEecCCCCCceehHHHHHHHHHHHHhhcCCCCcc-EEEEcceeecCHHHHH
Confidence            446899999999888742     23458999999999999999999986521  112   333 2334434445688999


Q ss_pred             HHHHHHhCCCCCccCCCChhHHHHHHHHHhc-----cCcEEEEEeccccccc--cccccccCCC-CCCCcEEEEEcC--C
Q 038398          197 EKIGRRIGFFDESWKNGSLEDKTSDILRILG-----KKKFLLLLDDIWERVD--LTKVGIPFPD-PENKSKIVFTTH--F  266 (720)
Q Consensus       197 ~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~-----~k~~LlVlDdv~~~~~--~~~l~~~~~~-~~~gs~iiiTtR--~  266 (720)
                      ..|..++...     ........+.+..++.     .+.+++++|+++....  -+-+...|.| ..++||++|.+=  .
T Consensus       476 ~~I~~~lsg~-----~~~~~~al~~L~~~f~~~k~~~~~~VvLiDElD~Lvtr~QdVlYn~fdWpt~~~sKLvvi~IaNT  550 (767)
T KOG1514|consen  476 EKIWEALSGE-----RVTWDAALEALNFRFTVPKPKRSTTVVLIDELDILVTRSQDVLYNIFDWPTLKNSKLVVIAIANT  550 (767)
T ss_pred             HHHHHhcccC-----cccHHHHHHHHHHhhccCCCCCCCEEEEeccHHHHhcccHHHHHHHhcCCcCCCCceEEEEeccc
Confidence            9999998753     3445556666666664     3578999999864211  0111111222 345777666441  1


Q ss_pred             hhH---------hhhhccCceeeccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCcchHHHHHHH
Q 038398          267 LEI---------CGALKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGLPLALITIGR  331 (720)
Q Consensus       267 ~~v---------~~~~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~GlPLai~~~~~  331 (720)
                      ...         +..+ ....+...+.+.++-.+....+..+...-.+...+=++++|+.-.|-.-.|+.+.-+
T Consensus       551 mdlPEr~l~nrvsSRl-g~tRi~F~pYth~qLq~Ii~~RL~~~~~f~~~aielvarkVAavSGDaRraldic~R  623 (767)
T KOG1514|consen  551 MDLPERLLMNRVSSRL-GLTRICFQPYTHEQLQEIISARLKGLDAFENKAIELVARKVAAVSGDARRALDICRR  623 (767)
T ss_pred             ccCHHHHhccchhhhc-cceeeecCCCCHHHHHHHHHHhhcchhhcchhHHHHHHHHHHhccccHHHHHHHHHH
Confidence            111         1111 123466777888888887777765443122222333455555555555555554433

>KOG2228 consensus Origin recognition complex, subunit 4 [Replication, recombination and repair]

Probab=97.10  E-value=0.0061  Score=60.69  Aligned_cols=170  Identities=19%  Similarity=0.173  Sum_probs=101.5

Q ss_pred             CCCcCchHHHHHHHHHhcC----CCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHH-HHHHHHH
Q 038398          126 EPTVGLESTFDKVWRCLGE----EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLE-KIQEKIG  200 (720)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~----~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~-~~~~~i~  200 (720)
                      .+++|-.++..++-.++..    ++..-|.|+||.|.|||+|.-....+..+..++|   +-|...+....+ -.++.|.
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            4678999999998888854    4556788999999999999988887753333333   444444433322 2345555


Q ss_pred             HHhCCCCCc--cCCCChhHHHHHHHHHhcc------CcEEEEEeccccccc------cccccccC-CCCCCCcEEEEEcC
Q 038398          201 RRIGFFDES--WKNGSLEDKTSDILRILGK------KKFLLLLDDIWERVD------LTKVGIPF-PDPENKSKIVFTTH  265 (720)
Q Consensus       201 ~~l~~~~~~--~~~~~~~~~~~~l~~~l~~------k~~LlVlDdv~~~~~------~~~l~~~~-~~~~~gs~iiiTtR  265 (720)
                      +++......  ....+..+....+.+.|+.      -++++|+|+++--..      +-.+...- ....+-|-|-+|||
T Consensus       101 rql~~e~~~~~k~~gsfte~l~~lL~~L~~~~~~t~~~ViFIldEfDlf~~h~rQtllYnlfDisqs~r~Piciig~Ttr  180 (408)
T KOG2228|consen  101 RQLALELNRIVKSFGSFTENLSKLLEALKKGDETTSGKVIFILDEFDLFAPHSRQTLLYNLFDISQSARAPICIIGVTTR  180 (408)
T ss_pred             HHHHHHHhhhheeecccchhHHHHHHHHhcCCCCCCceEEEEeehhhccccchhhHHHHHHHHHHhhcCCCeEEEEeecc
Confidence            554322111  1234455666677777754      368999998764211      11111111 12334566778998


Q ss_pred             ChhH-------hhhhccCceeeccCCChhhHHHHHHHHhc
Q 038398          266 FLEI-------CGALKAHEFLKVECLGPEDAWRLFRENLR  298 (720)
Q Consensus       266 ~~~v-------~~~~~~~~~~~l~~L~~~e~~~Lf~~~~~  298 (720)
                      -...       -.......++-++.++-++...++++...
T Consensus       181 ld~lE~LEKRVKSRFshr~I~m~~~~~l~~yv~l~r~ll~  220 (408)
T KOG2228|consen  181 LDILELLEKRVKSRFSHRVIFMLPSLPLGDYVDLYRKLLS  220 (408)
T ss_pred             ccHHHHHHHHHHhhcccceeeccCCCChHHHHHHHHHHhc
Confidence            6433       22222233566778888888888887764

>PRK10865 protein disaggregation chaperone; Provisional

Probab=97.09  E-value=0.024  Score=66.62  Aligned_cols=46  Identities=24%  Similarity=0.402  Sum_probs=37.1

Q ss_pred             CCCcCchHHHHHHHHHhcC--------C-CceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          126 EPTVGLESTFDKVWRCLGE--------E-QVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~--------~-~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ..++|.+..++.|...+..        + ...++.++|+.|+|||++|+.+++..
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            4578999999888887742        1 22578899999999999999998775

>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=97.07  E-value=0.0018  Score=61.64  Aligned_cols=89  Identities=21%  Similarity=0.193  Sum_probs=54.2

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCc-CCHHHHHHHHHHHhCCCCCcc-CCCChhHHHHHHHH
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKD-LQLEKIQEKIGRRIGFFDESW-KNGSLEDKTSDILR  224 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~-~~~~~~~~~i~~~l~~~~~~~-~~~~~~~~~~~l~~  224 (720)
                      +++|.++|+.|+||||.+.+++....   ..-..+..++.... ....+.++..++.++.+.... ...+..+......+
T Consensus         1 p~vi~lvGptGvGKTTt~aKLAa~~~---~~~~~v~lis~D~~R~ga~eQL~~~a~~l~vp~~~~~~~~~~~~~~~~~l~   77 (196)
T PF00448_consen    1 PKVIALVGPTGVGKTTTIAKLAARLK---LKGKKVALISADTYRIGAVEQLKTYAEILGVPFYVARTESDPAEIAREALE   77 (196)
T ss_dssp             SEEEEEEESTTSSHHHHHHHHHHHHH---HTT--EEEEEESTSSTHHHHHHHHHHHHHTEEEEESSTTSCHHHHHHHHHH
T ss_pred             CEEEEEECCCCCchHhHHHHHHHHHh---hccccceeecCCCCCccHHHHHHHHHHHhccccchhhcchhhHHHHHHHHH
Confidence            46899999999999988888887762   22346777776432 345677888888888653211 12234444443333


Q ss_pred             HhccCc-EEEEEecc
Q 038398          225 ILGKKK-FLLLLDDI  238 (720)
Q Consensus       225 ~l~~k~-~LlVlDdv  238 (720)
                      .+..++ =++++|=.
T Consensus        78 ~~~~~~~D~vlIDT~   92 (196)
T PF00448_consen   78 KFRKKGYDLVLIDTA   92 (196)
T ss_dssp             HHHHTTSSEEEEEE-
T ss_pred             HHhhcCCCEEEEecC
Confidence            344333 47777865

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 ....

>smart00763 AAA_PrkA PrkA AAA domain

Probab=97.07  E-value=0.00061  Score=69.92  Aligned_cols=45  Identities=24%  Similarity=0.384  Sum_probs=39.8

Q ss_pred             CCcCchHHHHHHHHHhcC------CCceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          127 PTVGLESTFDKVWRCLGE------EQVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       127 ~~vGr~~~~~~l~~~L~~------~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      .++|.++.++++++++..      ...++++++|++|+||||||+.+.+..
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            689999999999999843      245789999999999999999999887

This is a family of PrkA bacterial and archaeal serine kinases approximately 630 residues long. This is the N-terminal AAA domain.

>KOG2739 consensus Leucine-rich acidic nuclear protein [Cell cycle control, cell division, chromosome partitioning; General function prediction only]

Probab=97.07  E-value=0.00031  Score=67.44  Aligned_cols=105  Identities=27%  Similarity=0.351  Sum_probs=77.2

Q ss_pred             cccceeEEEecccccccCCCCCCCCcccEEEccCC--CCcCcchHHhccCCcccEEEccCCCCCc--cCCccccCCCCCC
Q 038398          492 NWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDN--SLKMSTDDFFQSMPSLRVFNMSNNHLLW--KLPSGISTLVSLE  567 (720)
Q Consensus       492 ~~~~l~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~--~~~~~~~~~~~~l~~L~~L~L~~~~~~~--~lp~~i~~l~~L~  567 (720)
                      .+.++..+++.+..+..+..++.+++|+.|.++.|  ....-.......+++|++|++++|++..  .++ .+..+.+|.
T Consensus        41 ~~~~le~ls~~n~gltt~~~~P~Lp~LkkL~lsdn~~~~~~~l~vl~e~~P~l~~l~ls~Nki~~lstl~-pl~~l~nL~  119 (260)
T KOG2739|consen   41 EFVELELLSVINVGLTTLTNFPKLPKLKKLELSDNYRRVSGGLEVLAEKAPNLKVLNLSGNKIKDLSTLR-PLKELENLK  119 (260)
T ss_pred             cccchhhhhhhccceeecccCCCcchhhhhcccCCcccccccceehhhhCCceeEEeecCCccccccccc-hhhhhcchh
Confidence            44567788888888888878889999999999999  4333223335677999999999995431  222 345677888


Q ss_pred             EEeccCCCCcccch----hhhcCCCCCEEeccCC
Q 038398          568 HLDLSSTAITHLPI----ELQKLVNLKCLNLEYM  597 (720)
Q Consensus       568 ~L~L~~~~i~~lp~----~i~~l~~L~~L~l~~~  597 (720)
                      .|++.+|..+.+-.    -|.-+++|.+||-..+
T Consensus       120 ~Ldl~n~~~~~l~dyre~vf~ll~~L~~LD~~dv  153 (260)
T KOG2739|consen  120 SLDLFNCSVTNLDDYREKVFLLLPSLKYLDGCDV  153 (260)
T ss_pred             hhhcccCCccccccHHHHHHHHhhhhcccccccc
Confidence            99999998776632    2666889999987664

>PRK06526 transposase; Provisional

Probab=97.07  E-value=0.00053  Score=68.10  Aligned_cols=26  Identities=23%  Similarity=0.254  Sum_probs=22.7

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      +...+.++|++|+|||+||..+....
T Consensus        97 ~~~nlll~Gp~GtGKThLa~al~~~a  122 (254)
T PRK06526         97 GKENVVFLGPPGTGKTHLAIGLGIRA  122 (254)
T ss_pred             cCceEEEEeCCCCchHHHHHHHHHHH
Confidence            34568999999999999999998876

>PRK12377 putative replication protein; Provisional

Probab=97.05  E-value=0.0033  Score=61.97  Aligned_cols=74  Identities=31%  Similarity=0.297  Sum_probs=45.6

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHHHHHhCCCCCccCCCChhHHHHHHHHH
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKIGRRIGFFDESWKNGSLEDKTSDILRI  225 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~  225 (720)
                      +...+.++|++|+|||+||.++++...   .....++|+++      .++...+......      .....    .+.+.
T Consensus       100 ~~~~l~l~G~~GtGKThLa~AIa~~l~---~~g~~v~~i~~------~~l~~~l~~~~~~------~~~~~----~~l~~  160 (248)
T PRK12377        100 GCTNFVFSGKPGTGKNHLAAAIGNRLL---AKGRSVIVVTV------PDVMSRLHESYDN------GQSGE----KFLQE  160 (248)
T ss_pred             cCCeEEEECCCCCCHHHHHHHHHHHHH---HcCCCeEEEEH------HHHHHHHHHHHhc------cchHH----HHHHH
Confidence            346789999999999999999999882   23334566654      3444444443311      01111    22223


Q ss_pred             hccCcEEEEEeccc
Q 038398          226 LGKKKFLLLLDDIW  239 (720)
Q Consensus       226 l~~k~~LlVlDdv~  239 (720)
                      + .+.-||||||+.
T Consensus       161 l-~~~dLLiIDDlg  173 (248)
T PRK12377        161 L-CKVDLLVLDEIG  173 (248)
T ss_pred             h-cCCCEEEEcCCC
Confidence            3 345699999994

>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=97.05  E-value=0.00048  Score=60.25  Aligned_cols=23  Identities=35%  Similarity=0.576  Sum_probs=21.7

Q ss_pred             EEEEEcCCCChHHHHHHHHHhhh
Q 038398          149 IIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      +|+|.|++|+||||+|+.+.+..
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

...

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=97.02  E-value=0.0034  Score=73.03  Aligned_cols=172  Identities=17%  Similarity=0.138  Sum_probs=91.4

Q ss_pred             CCCcCchHHHHHHHHHhcC-------------CCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCH
Q 038398          126 EPTVGLESTFDKVWRCLGE-------------EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQL  192 (720)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~-------------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~  192 (720)
                      +++.|.+..+++|.+.+.-             ...+.|.++|++|+|||+||+.+++..   ...|   +.++.+     
T Consensus       178 ~di~G~~~~~~~l~~~i~~~~~~~~~~~~~gi~~~~giLL~GppGtGKT~laraia~~~---~~~~---i~i~~~-----  246 (733)
T TIGR01243       178 EDIGGLKEAKEKIREMVELPMKHPELFEHLGIEPPKGVLLYGPPGTGKTLLAKAVANEA---GAYF---ISINGP-----  246 (733)
T ss_pred             HHhcCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCceEEEECCCCCChHHHHHHHHHHh---CCeE---EEEecH-----
Confidence            3467999999888776521             234678899999999999999999876   2222   222211     


Q ss_pred             HHHHHHHHHHhCCCCCccCCCChhHHHHHHHHHhccCcEEEEEeccccccc-------------cccccccCCC-CCCCc
Q 038398          193 EKIQEKIGRRIGFFDESWKNGSLEDKTSDILRILGKKKFLLLLDDIWERVD-------------LTKVGIPFPD-PENKS  258 (720)
Q Consensus       193 ~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~-------------~~~l~~~~~~-~~~gs  258 (720)
                       .+.    ...       ...........+.......+.+|+||+++....             ...+...+.. ...+.
T Consensus       247 -~i~----~~~-------~g~~~~~l~~lf~~a~~~~p~il~iDEid~l~~~r~~~~~~~~~~~~~~Ll~~ld~l~~~~~  314 (733)
T TIGR01243       247 -EIM----SKY-------YGESEERLREIFKEAEENAPSIIFIDEIDAIAPKREEVTGEVEKRVVAQLLTLMDGLKGRGR  314 (733)
T ss_pred             -HHh----ccc-------ccHHHHHHHHHHHHHHhcCCcEEEeehhhhhcccccCCcchHHHHHHHHHHHHhhccccCCC
Confidence             110    000       011111222222233345678999999864210             1111111111 12233


Q ss_pred             EEEE-EcCChh-Hhhhh----ccCceeeccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCcch
Q 038398          259 KIVF-TTHFLE-ICGAL----KAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGLPL  324 (720)
Q Consensus       259 ~iii-TtR~~~-v~~~~----~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~GlPL  324 (720)
                      .++| ||.... +....    .-...+.+...+.++-.+++...........    ......+++.+.|..-
T Consensus       315 vivI~atn~~~~ld~al~r~gRfd~~i~i~~P~~~~R~~Il~~~~~~~~l~~----d~~l~~la~~t~G~~g  382 (733)
T TIGR01243       315 VIVIGATNRPDALDPALRRPGRFDREIVIRVPDKRARKEILKVHTRNMPLAE----DVDLDKLAEVTHGFVG  382 (733)
T ss_pred             EEEEeecCChhhcCHHHhCchhccEEEEeCCcCHHHHHHHHHHHhcCCCCcc----ccCHHHHHHhCCCCCH
Confidence            4444 444322 21111    1234677888888888888886553322111    1225677888888653

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.

>KOG0734 consensus AAA+-type ATPase containing the peptidase M41 domain [Posttranslational modification, protein turnover, chaperones]

Probab=97.02  E-value=0.0037  Score=65.76  Aligned_cols=45  Identities=20%  Similarity=0.307  Sum_probs=35.8

Q ss_pred             CCcCchH---HHHHHHHHhcCC--------C-ceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          127 PTVGLES---TFDKVWRCLGEE--------Q-VGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       127 ~~vGr~~---~~~~l~~~L~~~--------~-~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      +.-|-|+   ++++|+++|.+.        . ++-|.++|++|.|||-||++++-..
T Consensus       305 dVkG~DEAK~ELeEiVefLkdP~kftrLGGKLPKGVLLvGPPGTGKTlLARAvAGEA  361 (752)
T KOG0734|consen  305 DVKGVDEAKQELEEIVEFLKDPTKFTRLGGKLPKGVLLVGPPGTGKTLLARAVAGEA  361 (752)
T ss_pred             cccChHHHHHHHHHHHHHhcCcHHhhhccCcCCCceEEeCCCCCchhHHHHHhhccc
Confidence            3457665   677889999762        2 4678999999999999999998876

>PRK09361 radB DNA repair and recombination protein RadB; Provisional

Probab=96.99  E-value=0.0027  Score=62.36  Aligned_cols=45  Identities=24%  Similarity=0.324  Sum_probs=34.7

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHH
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKI  195 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~  195 (720)
                      -.++.|+|++|+|||++|.+++....   ..-..++|++.. .++...+
T Consensus        23 g~i~~i~G~~GsGKT~l~~~la~~~~---~~~~~v~yi~~e-~~~~~r~   67 (225)
T PRK09361         23 GTITQIYGPPGSGKTNICLQLAVEAA---KNGKKVIYIDTE-GLSPERF   67 (225)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHH---HCCCeEEEEECC-CCCHHHH
Confidence            46899999999999999999987762   234678899887 5555444

>PRK04296 thymidine kinase; Provisional

Probab=96.97  E-value=0.00073  Score=64.26  Aligned_cols=113  Identities=17%  Similarity=0.054  Sum_probs=61.8

Q ss_pred             eEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHHHHHhCCCCCccCCCChhHHHHHHHHHhc
Q 038398          148 GIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKIGRRIGFFDESWKNGSLEDKTSDILRILG  227 (720)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~  227 (720)
                      .++.|+|+.|.||||+|..+..+.   ..+-..++++.  ..++.......++.+++............+....+.+ ..
T Consensus         3 ~i~litG~~GsGKTT~~l~~~~~~---~~~g~~v~i~k--~~~d~~~~~~~i~~~lg~~~~~~~~~~~~~~~~~~~~-~~   76 (190)
T PRK04296          3 KLEFIYGAMNSGKSTELLQRAYNY---EERGMKVLVFK--PAIDDRYGEGKVVSRIGLSREAIPVSSDTDIFELIEE-EG   76 (190)
T ss_pred             EEEEEECCCCCHHHHHHHHHHHHH---HHcCCeEEEEe--ccccccccCCcEecCCCCcccceEeCChHHHHHHHHh-hC
Confidence            477899999999999999998887   22233344442  1112122233445555543221112233444444444 33


Q ss_pred             cCcEEEEEeccccc--cccccccccCCCCCCCcEEEEEcCChh
Q 038398          228 KKKFLLLLDDIWER--VDLTKVGIPFPDPENKSKIVFTTHFLE  268 (720)
Q Consensus       228 ~k~~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~iiiTtR~~~  268 (720)
                      ++.-+||+|.+.-.  ++..++...+  ...|..||+|.++..
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            35559999998532  2222222111  245788999988743

>PRK06921 hypothetical protein; Provisional

Probab=96.97  E-value=0.0007  Score=67.86  Aligned_cols=39  Identities=33%  Similarity=0.397  Sum_probs=29.3

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEe
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVV  186 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v  186 (720)
                      ....+.++|.+|+|||.||.++++...  ...-..++|++.
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            356789999999999999999999872  221345667654

>PRK07993 DNA polymerase III subunit delta'; Validated

Probab=96.95  E-value=0.031  Score=58.05  Aligned_cols=178  Identities=8%  Similarity=0.009  Sum_probs=93.0

Q ss_pred             HHHHHHHHHhcCCC-ceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHHHHHhCCCC----
Q 038398          133 STFDKVWRCLGEEQ-VGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKIGRRIGFFD----  207 (720)
Q Consensus       133 ~~~~~l~~~L~~~~-~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i~~~l~~~~----  207 (720)
                      ..-+++...+..++ ...+.+.|+.|+||+++|..++....... .-+.       ..++.-.--+.+...-..+.    
T Consensus         9 ~~~~~l~~~~~~~rl~HA~Lf~G~~G~Gk~~lA~~~A~~LlC~~-~~~~-------~~Cg~C~sC~~~~~g~HPD~~~i~   80 (334)
T PRK07993          9 PDYEQLVGSYQAGRGHHALLIQALPGMGDDALIYALSRWLMCQQ-PQGH-------KSCGHCRGCQLMQAGTHPDYYTLT   80 (334)
T ss_pred             HHHHHHHHHHHcCCcceEEeeECCCCCCHHHHHHHHHHHHcCCC-CCCC-------CCCCCCHHHHHHHcCCCCCEEEEe
Confidence            34566777776655 45778999999999999999877652110 0000       00000011111110000000    


Q ss_pred             Ccc--CCCChhHHHHHHHHHh-----ccCcEEEEEeccccc--cccccccccCCCCCCCcEEEEEcCC-hhHhhh-hccC
Q 038398          208 ESW--KNGSLEDKTSDILRIL-----GKKKFLLLLDDIWER--VDLTKVGIPFPDPENKSKIVFTTHF-LEICGA-LKAH  276 (720)
Q Consensus       208 ~~~--~~~~~~~~~~~l~~~l-----~~k~~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~iiiTtR~-~~v~~~-~~~~  276 (720)
                      +..  .....++. +.+.+.+     .+++-++|+|+++..  ..-..+...+.....++.+|++|.+ ..+..- .+--
T Consensus        81 p~~~~~~I~idqi-R~l~~~~~~~~~~g~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~t~fiL~t~~~~~lLpTIrSRC  159 (334)
T PRK07993         81 PEKGKSSLGVDAV-REVTEKLYEHARLGGAKVVWLPDAALLTDAAANALLKTLEEPPENTWFFLACREPARLLATLRSRC  159 (334)
T ss_pred             cccccccCCHHHH-HHHHHHHhhccccCCceEEEEcchHhhCHHHHHHHHHHhcCCCCCeEEEEEECChhhChHHHHhcc
Confidence            000  01112222 2222322     245668999998753  2333333333333456666666654 334322 2333


Q ss_pred             ceeeccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCcchHHH
Q 038398          277 EFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGLPLALI  327 (720)
Q Consensus       277 ~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~GlPLai~  327 (720)
                      ..+.+.+++.+++.+.+....+.        -.+.+..++..++|.|....
T Consensus       160 q~~~~~~~~~~~~~~~L~~~~~~--------~~~~a~~~~~la~G~~~~Al  202 (334)
T PRK07993        160 RLHYLAPPPEQYALTWLSREVTM--------SQDALLAALRLSAGAPGAAL  202 (334)
T ss_pred             ccccCCCCCHHHHHHHHHHccCC--------CHHHHHHHHHHcCCCHHHHH
Confidence            56889999999999888654211        12346788999999996443

>KOG0731 consensus AAA+-type ATPase containing the peptidase M41 domain [Posttranslational modification, protein turnover, chaperones]

Probab=96.95  E-value=0.0099  Score=66.49  Aligned_cols=174  Identities=17%  Similarity=0.206  Sum_probs=99.7

Q ss_pred             CCCcCchHH---HHHHHHHhcCC---------CceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHH
Q 038398          126 EPTVGLEST---FDKVWRCLGEE---------QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLE  193 (720)
Q Consensus       126 ~~~vGr~~~---~~~l~~~L~~~---------~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~  193 (720)
                      .++.|-|+.   +++++++|...         -++-|.++|++|+|||-||++++-.. .       +=|++++..    
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            455687764   55566677541         35678899999999999999999876 2       345555543    


Q ss_pred             HHHHHHHHHhCCCCCccCCCChhHHHHHHHHHh-ccCcEEEEEeccccccc-----------------cccccccCCCCC
Q 038398          194 KIQEKIGRRIGFFDESWKNGSLEDKTSDILRIL-GKKKFLLLLDDIWERVD-----------------LTKVGIPFPDPE  255 (720)
Q Consensus       194 ~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l-~~k~~LlVlDdv~~~~~-----------------~~~l~~~~~~~~  255 (720)
                          ++...+...        ....++.+...- .+.++++.+|+++...-                 +..+...+....
T Consensus       379 ----EFvE~~~g~--------~asrvr~lf~~ar~~aP~iifideida~~~~r~G~~~~~~~~e~e~tlnQll~emDgf~  446 (774)
T KOG0731|consen  379 ----EFVEMFVGV--------GASRVRDLFPLARKNAPSIIFIDEIDAVGRKRGGKGTGGGQDEREQTLNQLLVEMDGFE  446 (774)
T ss_pred             ----HHHHHhccc--------chHHHHHHHHHhhccCCeEEEecccccccccccccccCCCChHHHHHHHHHHHHhcCCc
Confidence                111221110        012223333322 24678999998764211                 122222222111


Q ss_pred             C--CcEEEEEcCChhHhhh--h---ccCceeeccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCcchHH
Q 038398          256 N--KSKIVFTTHFLEICGA--L---KAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGLPLAL  326 (720)
Q Consensus       256 ~--gs~iiiTtR~~~v~~~--~---~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~GlPLai  326 (720)
                      .  +--++-+|+..++...  +   .-+..+.++.-+...-.++|.-++......  .+..++++ |+...-|.+=|.
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            2  2223335554444322  1   234678888889999999999988654422  34456666 888888877543

>PRK06964 DNA polymerase III subunit delta'; Validated

Probab=96.94  E-value=0.042  Score=56.95  Aligned_cols=91  Identities=15%  Similarity=0.158  Sum_probs=54.6

Q ss_pred             cCcEEEEEeccccc--cccccccccCCCCCCCcEEEEEcCC-hhHhhh-hccCceeeccCCChhhHHHHHHHHhccCccC
Q 038398          228 KKKFLLLLDDIWER--VDLTKVGIPFPDPENKSKIVFTTHF-LEICGA-LKAHEFLKVECLGPEDAWRLFRENLRRDVLD  303 (720)
Q Consensus       228 ~k~~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~iiiTtR~-~~v~~~-~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~  303 (720)
                      +++-++|+|+++..  .....+...+.....++.+|++|.+ ..+..- .+--..+.+.+++.++..+.+....   .  
T Consensus       131 ~~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~t~fiL~t~~~~~LLpTI~SRcq~i~~~~~~~~~~~~~L~~~~---~--  205 (342)
T PRK06964        131 GGARVVVLYPAEALNVAAANALLKTLEEPPPGTVFLLVSARIDRLLPTILSRCRQFPMTVPAPEAAAAWLAAQG---V--  205 (342)
T ss_pred             CCceEEEEechhhcCHHHHHHHHHHhcCCCcCcEEEEEECChhhCcHHHHhcCEEEEecCCCHHHHHHHHHHcC---C--
Confidence            34558889998753  3344443334344456655555544 444322 2333678999999999999987641   1  


Q ss_pred             CCCChHHHHHHHHHHhCCcchHHHHH
Q 038398          304 NHPDIPELARSVAQECAGLPLALITI  329 (720)
Q Consensus       304 ~~~~~~~~~~~i~~~c~GlPLai~~~  329 (720)
                      .  .    ...++..++|.|.....+
T Consensus       206 ~--~----~~~~l~~~~Gsp~~Al~~  225 (342)
T PRK06964        206 A--D----ADALLAEAGGAPLAALAL  225 (342)
T ss_pred             C--h----HHHHHHHcCCCHHHHHHH
Confidence            1  1    233577889999755443

>PRK09183 transposase/IS protein; Provisional

Probab=96.92  E-value=0.0007  Score=67.69  Aligned_cols=25  Identities=36%  Similarity=0.389  Sum_probs=21.8

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ...+.|+|++|+|||+||..++...
T Consensus       102 ~~~v~l~Gp~GtGKThLa~al~~~a  126 (259)
T PRK09183        102 NENIVLLGPSGVGKTHLAIALGYEA  126 (259)
T ss_pred             CCeEEEEeCCCCCHHHHHHHHHHHH
Confidence            3568899999999999999998765

>PLN00020 ribulose bisphosphate carboxylase/oxygenase activase -RuBisCO activase (RCA); Provisional

Probab=96.89  E-value=0.0013  Score=67.09  Aligned_cols=27  Identities=26%  Similarity=0.390  Sum_probs=24.8

Q ss_pred             CCceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          145 EQVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       145 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ..+..++|||++|+|||.+|+++++..
T Consensus       146 k~PlgllL~GPPGcGKTllAraiA~el  172 (413)
T PLN00020        146 KVPLILGIWGGKGQGKSFQCELVFKKM  172 (413)
T ss_pred             CCCeEEEeeCCCCCCHHHHHHHHHHHc
Confidence            356899999999999999999999997

>TIGR02237 recomb_radB DNA repair and recombination protein RadB

Probab=96.88  E-value=0.0028  Score=61.51  Aligned_cols=47  Identities=21%  Similarity=0.307  Sum_probs=36.3

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHH
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQE  197 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~  197 (720)
                      -.++.|+|++|+|||++|.+++...   ...-..++|++... ++...+.+
T Consensus        12 g~i~~i~G~~GsGKT~l~~~~~~~~---~~~g~~v~yi~~e~-~~~~rl~~   58 (209)
T TIGR02237        12 GTITQIYGPPGSGKTNICMILAVNA---ARQGKKVVYIDTEG-LSPERFKQ   58 (209)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHH---HhCCCeEEEEECCC-CCHHHHHH
Confidence            4789999999999999999988776   23346889999875 55555444

This family consists exclusively of archaeal RadB protein, a homolog of bacterial RecA (TIGR02012), eukaryotic RAD51 (TIGR02239) and DMC1 (TIGR02238), and archaeal RadA (TIGR02236).

>KOG0652 consensus 26S proteasome regulatory complex, ATPase RPT5 [Posttranslational modification, protein turnover, chaperones]

Probab=96.87  E-value=0.035  Score=53.12  Aligned_cols=173  Identities=17%  Similarity=0.226  Sum_probs=92.0

Q ss_pred             ccccCCCCCC---CcCchHHHHHHHHHhcC-------------CCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEE
Q 038398          118 PAVDQRPCEP---TVGLESTFDKVWRCLGE-------------EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVV  181 (720)
Q Consensus       118 ~~~~~~~~~~---~vGr~~~~~~l~~~L~~-------------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~  181 (720)
                      ..++++|.+.   +=|.++.++++++++.-             ..+.-|..+|++|.|||-+|++.+...   ...|-  
T Consensus       160 MevDekPtE~YsDiGGldkQIqELvEAiVLpmth~ekF~~lgi~pPKGvLmYGPPGTGKTlmARAcAaqT---~aTFL--  234 (424)
T KOG0652|consen  160 MEVDEKPTEQYSDIGGLDKQIQELVEAIVLPMTHKEKFENLGIRPPKGVLMYGPPGTGKTLMARACAAQT---NATFL--  234 (424)
T ss_pred             eeeccCCcccccccccHHHHHHHHHHHhccccccHHHHHhcCCCCCCceEeeCCCCCcHHHHHHHHHHhc---cchHH--
Confidence            3456666554   45899999999998731             245678899999999999999987765   22221  


Q ss_pred             EEEEecCcCCHHHHHHHHHHHhCCCCCccCCCChhHHHHHHHHHhc-cCcEEEEEeccccc----cc------------c
Q 038398          182 IWVVVSKDLQLEKIQEKIGRRIGFFDESWKNGSLEDKTSDILRILG-KKKFLLLLDDIWER----VD------------L  244 (720)
Q Consensus       182 ~wv~v~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~-~k~~LlVlDdv~~~----~~------------~  244 (720)
                                  ++..--+.|...       .+...+.......-+ ..+.+|.+|.++..    .+            .
T Consensus       235 ------------KLAgPQLVQMfI-------GdGAkLVRDAFaLAKEkaP~IIFIDElDAIGtKRfDSek~GDREVQRTM  295 (424)
T KOG0652|consen  235 ------------KLAGPQLVQMFI-------GDGAKLVRDAFALAKEKAPTIIFIDELDAIGTKRFDSEKAGDREVQRTM  295 (424)
T ss_pred             ------------HhcchHHHhhhh-------cchHHHHHHHHHHhhccCCeEEEEechhhhccccccccccccHHHHHHH
Confidence                        111111111111       112223333333333 35789999987531    11            0


Q ss_pred             ccccccCCCC--CCCcEEEEEcCChhHh-----hhhccCceeeccCCChhhHHHHHHHHhccCccCCCCChHHHHHH
Q 038398          245 TKVGIPFPDP--ENKSKIVFTTHFLEIC-----GALKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARS  314 (720)
Q Consensus       245 ~~l~~~~~~~--~~gs~iiiTtR~~~v~-----~~~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~  314 (720)
                      .++...+..+  ...-|||..|..-.+.     .+-.-...++.+..+++.-..++.-+..+.....+..++++++.
T Consensus       296 LELLNQLDGFss~~~vKviAATNRvDiLDPALlRSGRLDRKIEfP~Pne~aRarIlQIHsRKMnv~~DvNfeELaRs  372 (424)
T KOG0652|consen  296 LELLNQLDGFSSDDRVKVIAATNRVDILDPALLRSGRLDRKIEFPHPNEEARARILQIHSRKMNVSDDVNFEELARS  372 (424)
T ss_pred             HHHHHhhcCCCCccceEEEeecccccccCHHHhhcccccccccCCCCChHHHHHHHHHhhhhcCCCCCCCHHHHhhc
Confidence            1111222222  2345778777544442     22222345565555554444555555555444555566666553

>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=96.87  E-value=0.0011  Score=59.68  Aligned_cols=42  Identities=33%  Similarity=0.352  Sum_probs=31.4

Q ss_pred             EEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHH
Q 038398          150 IGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQE  197 (720)
Q Consensus       150 i~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~  197 (720)
                      |.++|++|+|||+||+.+++..   ..   ...-+.++...+..++..
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            6799999999999999999887   11   344567777777766543

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.

>PRK12727 flagellar biosynthesis regulator FlhF; Provisional

Probab=96.85  E-value=0.03  Score=60.59  Aligned_cols=88  Identities=25%  Similarity=0.295  Sum_probs=46.7

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecC-cCCHHHHHHHHHHHhCCCCCccCCCChhHHHHHHHHH
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSK-DLQLEKIQEKIGRRIGFFDESWKNGSLEDKTSDILRI  225 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~-~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~  225 (720)
                      ..+|+|+|++|+||||++..+.... ........+..++... .......++.....++....  ...+.......+ +.
T Consensus       350 G~vIaLVGPtGvGKTTtaakLAa~l-a~~~~gkkVaLIdtDtyRigA~EQLk~ya~iLgv~v~--~a~d~~~L~~aL-~~  425 (559)
T PRK12727        350 GGVIALVGPTGAGKTTTIAKLAQRF-AAQHAPRDVALVTTDTQRVGGREQLHSYGRQLGIAVH--EADSAESLLDLL-ER  425 (559)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHH-HHhcCCCceEEEecccccccHHHHHHHhhcccCceeE--ecCcHHHHHHHH-HH
Confidence            4799999999999999999988765 1122223455555422 11222333333333433221  112223333333 33


Q ss_pred             hccCcEEEEEeccc
Q 038398          226 LGKKKFLLLLDDIW  239 (720)
Q Consensus       226 l~~k~~LlVlDdv~  239 (720)
                      +.+ .=+|++|...
T Consensus       426 l~~-~DLVLIDTaG  438 (559)
T PRK12727        426 LRD-YKLVLIDTAG  438 (559)
T ss_pred             hcc-CCEEEecCCC
Confidence            433 4478888764

>PRK04132 replication factor C small subunit; Provisional

Probab=96.85  E-value=0.017  Score=66.50  Aligned_cols=156  Identities=13%  Similarity=0.069  Sum_probs=93.8

Q ss_pred             Ec--CCCChHHHHHHHHHhhhcCCCCCc-CEEEEEEecCcCCHHHHHHHHHHHhCCCCCccCCCChhHHHHHHHHHhccC
Q 038398          153 YG--MGGVGKTTLLTKINNKLLGAPNVF-DVVIWVVVSKDLQLEKIQEKIGRRIGFFDESWKNGSLEDKTSDILRILGKK  229 (720)
Q Consensus       153 ~G--~gGiGKTtLa~~v~~~~~~~~~~f-~~~~wv~v~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~k  229 (720)
                      .|  |.++||||+|..++++..  .+.+ ..++-++.+...+...+.+.+-.......   .              -..+
T Consensus       570 ~G~lPh~lGKTT~A~ala~~l~--g~~~~~~~lElNASd~rgid~IR~iIk~~a~~~~---~--------------~~~~  630 (846)
T PRK04132        570 GGNLPTVLHNTTAALALARELF--GENWRHNFLELNASDERGINVIREKVKEFARTKP---I--------------GGAS  630 (846)
T ss_pred             cCCCCCcccHHHHHHHHHHhhh--cccccCeEEEEeCCCcccHHHHHHHHHHHHhcCC---c--------------CCCC
Confidence            36  789999999999998862  1222 25677777766565544433322221110   0              0124


Q ss_pred             cEEEEEeccccc--cccccccccCCCCCCCcEEEEEcCCh-hHhhh-hccCceeeccCCChhhHHHHHHHHhccCccCCC
Q 038398          230 KFLLLLDDIWER--VDLTKVGIPFPDPENKSKIVFTTHFL-EICGA-LKAHEFLKVECLGPEDAWRLFRENLRRDVLDNH  305 (720)
Q Consensus       230 ~~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~iiiTtR~~-~v~~~-~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~  305 (720)
                      .-++|+|+++..  .....+...+......+++|++|.+. .+... .+....+++.+++.++..+.+...+......  
T Consensus       631 ~KVvIIDEaD~Lt~~AQnALLk~lEep~~~~~FILi~N~~~kIi~tIrSRC~~i~F~~ls~~~i~~~L~~I~~~Egi~--  708 (846)
T PRK04132        631 FKIIFLDEADALTQDAQQALRRTMEMFSSNVRFILSCNYSSKIIEPIQSRCAIFRFRPLRDEDIAKRLRYIAENEGLE--  708 (846)
T ss_pred             CEEEEEECcccCCHHHHHHHHHHhhCCCCCeEEEEEeCChhhCchHHhhhceEEeCCCCCHHHHHHHHHHHHHhcCCC--
Confidence            579999999864  23444433333333456666666543 33222 2234688999999999988887766532211  


Q ss_pred             CChHHHHHHHHHHhCCcch-HHHHHH
Q 038398          306 PDIPELARSVAQECAGLPL-ALITIG  330 (720)
Q Consensus       306 ~~~~~~~~~i~~~c~GlPL-ai~~~~  330 (720)
                       --++....|++.|+|-+- |+..+-
T Consensus       709 -i~~e~L~~Ia~~s~GDlR~AIn~Lq  733 (846)
T PRK04132        709 -LTEEGLQAILYIAEGDMRRAINILQ  733 (846)
T ss_pred             -CCHHHHHHHHHHcCCCHHHHHHHHH
Confidence             125678899999999764 444443

>COG5238 RNA1 Ran GTPase-activating protein (RanGAP) involved in mRNA processing and transport [Signal transduction mechanisms / RNA processing and modification]

Probab=96.85  E-value=0.0017  Score=62.34  Aligned_cols=186  Identities=16%  Similarity=0.125  Sum_probs=106.2

Q ss_pred             cccceeEEEecccccccC------CCCCCCCcccEEEccCCCC---cC-cc------hHHhccCCcccEEEccCCCCCcc
Q 038398          492 NWRNVRRMSLMKNKIENL------SETPTCPHLLSLFLSDNSL---KM-ST------DDFFQSMPSLRVFNMSNNHLLWK  555 (720)
Q Consensus       492 ~~~~l~~L~l~~~~~~~~------~~~~~~~~L~~L~l~~~~~---~~-~~------~~~~~~l~~L~~L~L~~~~~~~~  555 (720)
                      .+..+..++|++|.|..-      ..+.+-.+|+..+++.--.   .. ++      ...+-+||+|+..+||.|-+...
T Consensus        28 ~~d~~~evdLSGNtigtEA~e~l~~~ia~~~~L~vvnfsd~ftgr~kde~~~~L~~Ll~aLlkcp~l~~v~LSDNAfg~~  107 (388)
T COG5238          28 MMDELVEVDLSGNTIGTEAMEELCNVIANVRNLRVVNFSDAFTGRDKDELYSNLVMLLKALLKCPRLQKVDLSDNAFGSE  107 (388)
T ss_pred             hhcceeEEeccCCcccHHHHHHHHHHHhhhcceeEeehhhhhhcccHHHHHHHHHHHHHHHhcCCcceeeeccccccCcc
Confidence            356778888888877421      1123456677766665311   11 11      11245778888888888866555


Q ss_pred             CCcc----ccCCCCCCEEeccCCCCcccchh--------------hhcCCCCCEEeccCCcCCCCCchhh----hhcccc
Q 038398          556 LPSG----ISTLVSLEHLDLSSTAITHLPIE--------------LQKLVNLKCLNLEYMNNLNQFPRLV----ISAFSK  613 (720)
Q Consensus       556 lp~~----i~~l~~L~~L~L~~~~i~~lp~~--------------i~~l~~L~~L~l~~~~~l~~lp~~~----~~~l~~  613 (720)
                      .|..    |+.-..|.+|.+++|.+..+-..              ...-+.|+...... |.+..-|...    +..-.+
T Consensus       108 ~~e~L~d~is~~t~l~HL~l~NnGlGp~aG~rigkal~~la~nKKaa~kp~Le~vicgr-NRlengs~~~~a~~l~sh~~  186 (388)
T COG5238         108 FPEELGDLISSSTDLVHLKLNNNGLGPIAGGRIGKALFHLAYNKKAADKPKLEVVICGR-NRLENGSKELSAALLESHEN  186 (388)
T ss_pred             cchHHHHHHhcCCCceeEEeecCCCCccchhHHHHHHHHHHHHhhhccCCCceEEEecc-chhccCcHHHHHHHHHhhcC
Confidence            5544    34556788888888876643211              22346777777766 4455444321    111124


Q ss_pred             CceeeccccCCCcccchhcccccCCccccHHHhcCCCCCceeEEEecchhhHHHHhhhh--hhhhhcccccccccc
Q 038398          614 LQVLRMFDCGGSKIERLKINVLFGGHQFLVEELMGMKHLMVLTITLKSWQALKELLISQ--ELQRSTQSLFLRCFN  687 (720)
Q Consensus       614 L~~L~~~~~~~~~l~~l~~~~~~~~~~~~~~~l~~l~~L~~L~~~~~~~~~l~~l~~~~--~~~~~L~~L~l~~~~  687 (720)
                      |+.+.+..   |.|.+-      +........+..+.+|+.|++..|.++.........  ..-+.|+.|.+..|-
T Consensus       187 lk~vki~q---NgIrpe------gv~~L~~~gl~y~~~LevLDlqDNtft~~gS~~La~al~~W~~lrEL~lnDCl  253 (388)
T COG5238         187 LKEVKIQQ---NGIRPE------GVTMLAFLGLFYSHSLEVLDLQDNTFTLEGSRYLADALCEWNLLRELRLNDCL  253 (388)
T ss_pred             ceeEEeee---cCcCcc------hhHHHHHHHHHHhCcceeeeccccchhhhhHHHHHHHhcccchhhhccccchh
Confidence            44444443   443311      113455667778899999999988876655443332  222457888888873

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=96.84  E-value=0.002  Score=75.40  Aligned_cols=46  Identities=24%  Similarity=0.418  Sum_probs=37.5

Q ss_pred             CCCcCchHHHHHHHHHhcC---------CCceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          126 EPTVGLESTFDKVWRCLGE---------EQVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~---------~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ..++|.+..++.+.+.+..         ....++.++|++|+|||.||+.+....
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            4568999999999888731         134578899999999999999998776

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.

>KOG0736 consensus Peroxisome assembly factor 2 containing the AAA+-type ATPase domain [Posttranslational modification, protein turnover, chaperones]

Probab=96.83  E-value=0.036  Score=61.28  Aligned_cols=91  Identities=18%  Similarity=0.268  Sum_probs=59.4

Q ss_pred             CCCcCchHHHHHHHHHhcC---------C---CceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHH
Q 038398          126 EPTVGLESTFDKVWRCLGE---------E---QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLE  193 (720)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~---------~---~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~  193 (720)
                      +++=|.++.+.+|.+-+.-         .   ..+-|.++|++|.|||-||++|+-..        ..-|++|...    
T Consensus       672 dDVGGLeevK~eIldTIqlPL~hpeLfssglrkRSGILLYGPPGTGKTLlAKAVATEc--------sL~FlSVKGP----  739 (953)
T KOG0736|consen  672 DDVGGLEEVKTEILDTIQLPLKHPELFSSGLRKRSGILLYGPPGTGKTLLAKAVATEC--------SLNFLSVKGP----  739 (953)
T ss_pred             hcccCHHHHHHHHHHHhcCcccChhhhhccccccceeEEECCCCCchHHHHHHHHhhc--------eeeEEeecCH----
Confidence            5566889999999887742         1   24578899999999999999999887        2345666543    


Q ss_pred             HHHHHHHHHhCCCCCccCCCChhHHHHHHHHHh-ccCcEEEEEecccc
Q 038398          194 KIQEKIGRRIGFFDESWKNGSLEDKTSDILRIL-GKKKFLLLLDDIWE  240 (720)
Q Consensus       194 ~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l-~~k~~LlVlDdv~~  240 (720)
                      ++++    .-       ...+ ++..+.+.+.- ..++++|.||++++
T Consensus       740 ELLN----MY-------VGqS-E~NVR~VFerAR~A~PCVIFFDELDS  775 (953)
T KOG0736|consen  740 ELLN----MY-------VGQS-EENVREVFERARSAAPCVIFFDELDS  775 (953)
T ss_pred             HHHH----HH-------hcch-HHHHHHHHHHhhccCCeEEEeccccc
Confidence            1111    11       1112 22333333333 35899999999876

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=96.83  E-value=0.0043  Score=73.11  Aligned_cols=60  Identities=25%  Similarity=0.363  Sum_probs=43.5

Q ss_pred             CCCcCchHHHHHHHHHhcC------C---CceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecC
Q 038398          126 EPTVGLESTFDKVWRCLGE------E---QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSK  188 (720)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~------~---~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~  188 (720)
                      ..++|.+..++.+...+..      +   ...++.++|++|+|||++|+.+....   ...-...+.++++.
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            4579999999999888843      1   24578899999999999999999876   22223344555543

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.

>cd01393 recA_like RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response

Probab=96.82  E-value=0.011  Score=58.18  Aligned_cols=91  Identities=18%  Similarity=0.236  Sum_probs=54.1

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhhcCCCC----CcCEEEEEEecCcCCHHHHHHHHHHHhCCCCC----c---cCCCCh
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKLLGAPN----VFDVVIWVVVSKDLQLEKIQEKIGRRIGFFDE----S---WKNGSL  215 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~----~f~~~~wv~v~~~~~~~~~~~~i~~~l~~~~~----~---~~~~~~  215 (720)
                      -.++.|+|++|+|||+||.+++.... ...    .=..++|++....++...+.+ +.........    .   ....+.
T Consensus        19 g~v~~I~G~~GsGKT~l~~~ia~~~~-~~~~~~g~~~~v~yi~~e~~~~~~rl~~-~~~~~~~~~~~~~~~i~~~~~~~~   96 (226)
T cd01393          19 GRITEIFGEFGSGKTQLCLQLAVEAQ-LPGELGGLEGKVVYIDTEGAFRPERLVQ-LAVRFGLDPEEVLDNIYVARPYNG   96 (226)
T ss_pred             CcEEEEeCCCCCChhHHHHHHHHHhh-cccccCCCcceEEEEecCCCCCHHHHHH-HHHHhccchhhhhccEEEEeCCCH
Confidence            47999999999999999999876641 111    115788998877766655433 3333221100    0   012344


Q ss_pred             hHHHHHHHHHhc----cCcEEEEEeccc
Q 038398          216 EDKTSDILRILG----KKKFLLLLDDIW  239 (720)
Q Consensus       216 ~~~~~~l~~~l~----~k~~LlVlDdv~  239 (720)
                      ++....+.+...    .+.-++|+|.+.
T Consensus        97 ~~~~~~l~~~~~~~~~~~~~lvVIDsis  124 (226)
T cd01393          97 EQQLEIVEELERIMSSGRVDLVVVDSVA  124 (226)
T ss_pred             HHHHHHHHHHHHHhhcCCeeEEEEcCcc
Confidence            455555554432    244588889874

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.

>KOG0739 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=96.79  E-value=0.022  Score=55.71  Aligned_cols=170  Identities=16%  Similarity=0.212  Sum_probs=92.4

Q ss_pred             CCCcCchHHHHHHHHHhc----------CC--CceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHH
Q 038398          126 EPTVGLESTFDKVWRCLG----------EE--QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLE  193 (720)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~----------~~--~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~  193 (720)
                      +++-|.|...+.+.+...          ..  .-+-|.++|++|.||+.||++|+-..   ..     -|++||...-+.
T Consensus       133 sDVAGLE~AKeALKEAVILPIKFPqlFtGkR~PwrgiLLyGPPGTGKSYLAKAVATEA---nS-----TFFSvSSSDLvS  204 (439)
T KOG0739|consen  133 SDVAGLEGAKEALKEAVILPIKFPQLFTGKRKPWRGILLYGPPGTGKSYLAKAVATEA---NS-----TFFSVSSSDLVS  204 (439)
T ss_pred             hhhccchhHHHHHHhheeecccchhhhcCCCCcceeEEEeCCCCCcHHHHHHHHHhhc---CC-----ceEEeehHHHHH
Confidence            345688888888877652          11  35789999999999999999999876   12     234454431111


Q ss_pred             HHHHHHHHHhCCCCCccCCCChhHHHHHHHHHhc-cCcEEEEEeccccc---------cccccccc----cCC---CCCC
Q 038398          194 KIQEKIGRRIGFFDESWKNGSLEDKTSDILRILG-KKKFLLLLDDIWER---------VDLTKVGI----PFP---DPEN  256 (720)
Q Consensus       194 ~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~-~k~~LlVlDdv~~~---------~~~~~l~~----~~~---~~~~  256 (720)
                             ..++         ..+.++..|.+.-+ +++-+|.+|+++..         +....+..    .+.   ....
T Consensus       205 -------KWmG---------ESEkLVknLFemARe~kPSIIFiDEiDslcg~r~enEseasRRIKTEfLVQMqGVG~d~~  268 (439)
T KOG0739|consen  205 -------KWMG---------ESEKLVKNLFEMARENKPSIIFIDEIDSLCGSRSENESEASRRIKTEFLVQMQGVGNDND  268 (439)
T ss_pred             -------HHhc---------cHHHHHHHHHHHHHhcCCcEEEeehhhhhccCCCCCchHHHHHHHHHHHHhhhccccCCC
Confidence                   1111         12445555555444 58899999998642         11111211    111   2233


Q ss_pred             CcEEEEEcCChhHhhhh---ccCceeeccCCChhhHH-HHHHHHhccCccCCCCChHHHHHHHHHHhCCcc
Q 038398          257 KSKIVFTTHFLEICGAL---KAHEFLKVECLGPEDAW-RLFRENLRRDVLDNHPDIPELARSVAQECAGLP  323 (720)
Q Consensus       257 gs~iiiTtR~~~v~~~~---~~~~~~~l~~L~~~e~~-~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~GlP  323 (720)
                      |.-|+-.|..+-+....   .-...+.+ ||.+..|. .+|+-+++...   +.-.+.-.+++.++..|..
T Consensus       269 gvLVLgATNiPw~LDsAIRRRFekRIYI-PLPe~~AR~~MF~lhlG~tp---~~LT~~d~~eL~~kTeGyS  335 (439)
T KOG0739|consen  269 GVLVLGATNIPWVLDSAIRRRFEKRIYI-PLPEAHARARMFKLHLGDTP---HVLTEQDFKELARKTEGYS  335 (439)
T ss_pred             ceEEEecCCCchhHHHHHHHHhhcceec-cCCcHHHhhhhheeccCCCc---cccchhhHHHHHhhcCCCC
Confidence            44555566655554332   11222333 44444444 45666665432   2223444666777776653

>PRK06696 uridine kinase; Validated

Probab=96.78  E-value=0.002  Score=63.20  Aligned_cols=42  Identities=12%  Similarity=0.177  Sum_probs=35.1

Q ss_pred             CchHHHHHHHHHhc---CCCceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          130 GLESTFDKVWRCLG---EEQVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       130 Gr~~~~~~l~~~L~---~~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      .|++.+++|.+.+.   .+...+|+|.|.+|+||||||+.+....
T Consensus         2 ~~~~~~~~la~~~~~~~~~~~~iI~I~G~sgsGKSTlA~~L~~~l   46 (223)
T PRK06696          2 SRKQLIKELAEHILTLNLTRPLRVAIDGITASGKTTFADELAEEI   46 (223)
T ss_pred             cHHHHHHHHHHHHHHhCCCCceEEEEECCCCCCHHHHHHHHHHHH
Confidence            46677788877774   3567899999999999999999999887

>PRK07952 DNA replication protein DnaC; Validated

Probab=96.76  E-value=0.0083  Score=59.02  Aligned_cols=88  Identities=23%  Similarity=0.263  Sum_probs=51.2

Q ss_pred             HHHHHHHHhcC--CCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHHHHHhCCCCCccC
Q 038398          134 TFDKVWRCLGE--EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKIGRRIGFFDESWK  211 (720)
Q Consensus       134 ~~~~l~~~L~~--~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i~~~l~~~~~~~~  211 (720)
                      .+..+.++...  .+...+.++|.+|+|||+||.++++...   ..-..+++++      ..++...+-.....     .
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            34444444432  2335788999999999999999999872   2223556664      34455554443321     1


Q ss_pred             CCChhHHHHHHHHHhccCcEEEEEecccc
Q 038398          212 NGSLEDKTSDILRILGKKKFLLLLDDIWE  240 (720)
Q Consensus       212 ~~~~~~~~~~l~~~l~~k~~LlVlDdv~~  240 (720)
                      ....    ..+.+.+. +.=+|||||+..
T Consensus       150 ~~~~----~~~l~~l~-~~dlLvIDDig~  173 (244)
T PRK07952        150 ETSE----EQLLNDLS-NVDLLVIDEIGV  173 (244)
T ss_pred             cccH----HHHHHHhc-cCCEEEEeCCCC
Confidence            1111    22333454 344888899964

>KOG0728 consensus 26S proteasome regulatory complex, ATPase RPT6 [Posttranslational modification, protein turnover, chaperones]

Probab=96.74  E-value=0.017  Score=54.83  Aligned_cols=165  Identities=15%  Similarity=0.197  Sum_probs=90.6

Q ss_pred             Cc-CchHHHHHHHHHhcC-------------CCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHH
Q 038398          128 TV-GLESTFDKVWRCLGE-------------EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLE  193 (720)
Q Consensus       128 ~v-Gr~~~~~~l~~~L~~-------------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~  193 (720)
                      +| |.+..+++|.+.+.-             .++.-+.++|++|.|||-||++|+++.        .+.|+.||..    
T Consensus       148 MiGgLd~QIkeIkEVIeLPvKHPELF~aLGIaQPKGvlLygppgtGktLlaraVahht--------~c~firvsgs----  215 (404)
T KOG0728|consen  148 MIGGLDKQIKEIKEVIELPVKHPELFEALGIAQPKGVLLYGPPGTGKTLLARAVAHHT--------DCTFIRVSGS----  215 (404)
T ss_pred             HhccHHHHHHHHHHHHhccccCHHHHHhcCCCCCcceEEecCCCCchhHHHHHHHhhc--------ceEEEEechH----
Confidence            45 456666666655421             356778899999999999999999886        2445666653    


Q ss_pred             HHHHHHHHHhCCCCCccCCCChhHHHHHHHHHhc-cCcEEEEEecccccc----------c------cccccccCC--CC
Q 038398          194 KIQEKIGRRIGFFDESWKNGSLEDKTSDILRILG-KKKFLLLLDDIWERV----------D------LTKVGIPFP--DP  254 (720)
Q Consensus       194 ~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~-~k~~LlVlDdv~~~~----------~------~~~l~~~~~--~~  254 (720)
                      ++.++..    ..        .......+.-..+ .-+.+|.+|++++..          +      ..++...+.  ..
T Consensus       216 elvqk~i----ge--------gsrmvrelfvmarehapsiifmdeidsigs~r~e~~~ggdsevqrtmlellnqldgfea  283 (404)
T KOG0728|consen  216 ELVQKYI----GE--------GSRMVRELFVMAREHAPSIIFMDEIDSIGSSRVESGSGGDSEVQRTMLELLNQLDGFEA  283 (404)
T ss_pred             HHHHHHh----hh--------hHHHHHHHHHHHHhcCCceEeeecccccccccccCCCCccHHHHHHHHHHHHhcccccc
Confidence            2221111    10        0122222222222 357788888886521          0      011111121  22


Q ss_pred             CCCcEEEEEcCChhHhhh-----hccCceeeccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHH
Q 038398          255 ENKSKIVFTTHFLEICGA-----LKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVA  316 (720)
Q Consensus       255 ~~gs~iiiTtR~~~v~~~-----~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~  316 (720)
                      .++-+||.+|..-++...     -..+..++.++.+++.-.++++-+........-.++..+|.++.
T Consensus       284 tknikvimatnridild~allrpgridrkiefp~p~e~ar~~ilkihsrkmnl~rgi~l~kiaekm~  350 (404)
T KOG0728|consen  284 TKNIKVIMATNRIDILDPALLRPGRIDRKIEFPPPNEEARLDILKIHSRKMNLTRGINLRKIAEKMP  350 (404)
T ss_pred             ccceEEEEeccccccccHhhcCCCcccccccCCCCCHHHHHHHHHHhhhhhchhcccCHHHHHHhCC
Confidence            456788887755444322     12345677888887777777776654433222334555555443

>COG0542 clpA ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]

Probab=96.74  E-value=0.012  Score=66.25  Aligned_cols=154  Identities=19%  Similarity=0.280  Sum_probs=88.6

Q ss_pred             CCCCcCchHHHHHHHHHhcCCCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCc-----CEEEEEEecCcCCHHHHHHHH
Q 038398          125 CEPTVGLESTFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVF-----DVVIWVVVSKDLQLEKIQEKI  199 (720)
Q Consensus       125 ~~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f-----~~~~wv~v~~~~~~~~~~~~i  199 (720)
                      .++.+||+++++++++-|......--.++|.+|+|||++|.-++.+..  .+.-     +..++- .    ++       
T Consensus       169 lDPvIGRd~EI~r~iqIL~RR~KNNPvLiGEpGVGKTAIvEGLA~rIv--~g~VP~~L~~~~i~s-L----D~-------  234 (786)
T COG0542         169 LDPVIGRDEEIRRTIQILSRRTKNNPVLVGEPGVGKTAIVEGLAQRIV--NGDVPESLKDKRIYS-L----DL-------  234 (786)
T ss_pred             CCCCcChHHHHHHHHHHHhccCCCCCeEecCCCCCHHHHHHHHHHHHh--cCCCCHHHcCCEEEE-e----cH-------
Confidence            356899999999999999764333345689999999999988887762  1111     111111 0    11       


Q ss_pred             HHHhCCCCCccCCCChhHHHHHHHHHhc-cCcEEEEEecccccc--------ccc--cccccCCCCCCC-cEEEEEcCCh
Q 038398          200 GRRIGFFDESWKNGSLEDKTSDILRILG-KKKFLLLLDDIWERV--------DLT--KVGIPFPDPENK-SKIVFTTHFL  267 (720)
Q Consensus       200 ~~~l~~~~~~~~~~~~~~~~~~l~~~l~-~k~~LlVlDdv~~~~--------~~~--~l~~~~~~~~~g-s~iiiTtR~~  267 (720)
                      ..-....  . -..+.++....+.+.++ ..+++|++|.+....        ..+  .+..|  .-..| -++|-.|...
T Consensus       235 g~LvAGa--k-yRGeFEeRlk~vl~ev~~~~~vILFIDEiHtiVGAG~~~G~a~DAaNiLKP--aLARGeL~~IGATT~~  309 (786)
T COG0542         235 GSLVAGA--K-YRGEFEERLKAVLKEVEKSKNVILFIDEIHTIVGAGATEGGAMDAANLLKP--ALARGELRCIGATTLD  309 (786)
T ss_pred             HHHhccc--c-ccCcHHHHHHHHHHHHhcCCCeEEEEechhhhcCCCcccccccchhhhhHH--HHhcCCeEEEEeccHH
Confidence            1111100  0 23455666666555554 358999999986521        111  12111  12223 3445444433


Q ss_pred             hHh-------hhhccCceeeccCCChhhHHHHHHHHh
Q 038398          268 EIC-------GALKAHEFLKVECLGPEDAWRLFRENL  297 (720)
Q Consensus       268 ~v~-------~~~~~~~~~~l~~L~~~e~~~Lf~~~~  297 (720)
                      +.-       ....-.+.+.+...+.+++..++.-..
T Consensus       310 EYRk~iEKD~AL~RRFQ~V~V~EPs~e~ti~ILrGlk  346 (786)
T COG0542         310 EYRKYIEKDAALERRFQKVLVDEPSVEDTIAILRGLK  346 (786)
T ss_pred             HHHHHhhhchHHHhcCceeeCCCCCHHHHHHHHHHHH
Confidence            331       112234678899999999999987654

>cd01131 PilT Pilus retraction ATPase PilT

Probab=96.71  E-value=0.0019  Score=61.84  Aligned_cols=110  Identities=14%  Similarity=0.161  Sum_probs=59.6

Q ss_pred             eEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHHHHHhCCCCCccCCCChhHHHHHHHHHhc
Q 038398          148 GIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKIGRRIGFFDESWKNGSLEDKTSDILRILG  227 (720)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~  227 (720)
                      ++|.|+|+.|+||||++..+....   .......++. +......  ..... ..+ ..... ...+.....+.++..+.
T Consensus         2 GlilI~GptGSGKTTll~~ll~~~---~~~~~~~i~t-~e~~~E~--~~~~~-~~~-i~q~~-vg~~~~~~~~~i~~aLr   72 (198)
T cd01131           2 GLVLVTGPTGSGKSTTLAAMIDYI---NKNKTHHILT-IEDPIEF--VHESK-RSL-INQRE-VGLDTLSFENALKAALR   72 (198)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHh---hhcCCcEEEE-EcCCccc--cccCc-cce-eeecc-cCCCccCHHHHHHHHhc
Confidence            578999999999999999887776   2222333332 1111110  00000 000 00000 11122345566777787


Q ss_pred             cCcEEEEEeccccccccccccccCCCCCCCcEEEEEcCChhH
Q 038398          228 KKKFLLLLDDIWERVDLTKVGIPFPDPENKSKIVFTTHFLEI  269 (720)
Q Consensus       228 ~k~~LlVlDdv~~~~~~~~l~~~~~~~~~gs~iiiTtR~~~v  269 (720)
                      ..+=++++|++.+.+........   ...|..++.|+....+
T Consensus        73 ~~pd~ii~gEird~e~~~~~l~~---a~~G~~v~~t~Ha~~~  111 (198)
T cd01131          73 QDPDVILVGEMRDLETIRLALTA---AETGHLVMSTLHTNSA  111 (198)
T ss_pred             CCcCEEEEcCCCCHHHHHHHHHH---HHcCCEEEEEecCCcH
Confidence            77889999999776554432211   1235567777765544

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.

>cd00983 recA RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response

Probab=96.71  E-value=0.0039  Score=63.68  Aligned_cols=86  Identities=17%  Similarity=0.182  Sum_probs=55.6

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHHHHHhCCCCCc---cCCCChhHHHHHH
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKIGRRIGFFDES---WKNGSLEDKTSDI  222 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i~~~l~~~~~~---~~~~~~~~~~~~l  222 (720)
                      .-+++-|+|++|+||||||.+++...   ...-..++||+....++..     .+.+++...+.   ....+.++....+
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            34688999999999999999987765   2233468899877666543     34444433211   1233455556555


Q ss_pred             HHHhcc-CcEEEEEeccc
Q 038398          223 LRILGK-KKFLLLLDDIW  239 (720)
Q Consensus       223 ~~~l~~-k~~LlVlDdv~  239 (720)
                      ...++. ..-++|+|.|-
T Consensus       126 ~~li~s~~~~lIVIDSva  143 (325)
T cd00983         126 DSLVRSGAVDLIVVDSVA  143 (325)
T ss_pred             HHHHhccCCCEEEEcchH
Confidence            555544 56699999874

RecA couples ATP hydrolysis to DNA strand exchange.

>cd01123 Rad51_DMC1_radA Rad51_DMC1_radA,B

Probab=96.71  E-value=0.0062  Score=60.30  Aligned_cols=49  Identities=18%  Similarity=0.308  Sum_probs=36.1

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhhcCCCC----CcCEEEEEEecCcCCHHHHH
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKLLGAPN----VFDVVIWVVVSKDLQLEKIQ  196 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~----~f~~~~wv~v~~~~~~~~~~  196 (720)
                      -.++.|+|++|+|||+||.+++... ....    ....++|++....++...+.
T Consensus        19 g~i~~i~G~~GsGKT~l~~~l~~~~-~~~~~~~g~~~~viyi~~e~~~~~~rl~   71 (235)
T cd01123          19 GSITEIFGEFGSGKTQLCHQLAVTV-QLPIELGGLEGKAVYIDTEGTFRPERLV   71 (235)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHe-eCccccCCCCccEEEEeCCCCcCHHHHH
Confidence            4789999999999999999997553 1111    13589999987776655443

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 .

>TIGR02012 tigrfam_recA protein RecA

Probab=96.71  E-value=0.0041  Score=63.50  Aligned_cols=87  Identities=16%  Similarity=0.159  Sum_probs=56.0

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHHHHHhCCCCCc---cCCCChhHHHHHH
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKIGRRIGFFDES---WKNGSLEDKTSDI  222 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i~~~l~~~~~~---~~~~~~~~~~~~l  222 (720)
                      .-+++-|+|++|+||||||.+++....   ..-..++||+....++..     .+++++...+.   ......++....+
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            347899999999999999999877662   223467888776655542     34455443221   1233455556656


Q ss_pred             HHHhc-cCcEEEEEecccc
Q 038398          223 LRILG-KKKFLLLLDDIWE  240 (720)
Q Consensus       223 ~~~l~-~k~~LlVlDdv~~  240 (720)
                      ...++ +..-++|+|.|-.
T Consensus       126 ~~li~~~~~~lIVIDSv~a  144 (321)
T TIGR02012       126 ETLVRSGAVDIIVVDSVAA  144 (321)
T ss_pred             HHHhhccCCcEEEEcchhh
Confidence            55554 3566999998753

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=96.70  E-value=0.0089  Score=62.47  Aligned_cols=122  Identities=14%  Similarity=0.128  Sum_probs=71.4

Q ss_pred             CCcCchHHHHHHHHHhcC-CCce-EEEEEcCCCChHHHHHHHHHhhhcCCCC------------------CcCEEEEEEe
Q 038398          127 PTVGLESTFDKVWRCLGE-EQVG-IIGLYGMGGVGKTTLLTKINNKLLGAPN------------------VFDVVIWVVV  186 (720)
Q Consensus       127 ~~vGr~~~~~~l~~~L~~-~~~~-vi~I~G~gGiGKTtLa~~v~~~~~~~~~------------------~f~~~~wv~v  186 (720)
                      .++|-+....++..+..+ ++.. .+.++|++|+||||+|..+.+.......                  ..+.+..++-
T Consensus         2 ~~~~~~~~~~~l~~~~~~~~~~~halL~~Gp~G~Gktt~a~~lA~~l~~~~~~~~~~~~~~~~~~~~~~~~~~d~lel~~   81 (325)
T COG0470           2 ELVPWQEAVKRLLVQALESGRLPHALLFYGPPGVGKTTAALALAKELLCENPTGLLPCGHCRSCKLIPAGNHPDFLELNP   81 (325)
T ss_pred             CcccchhHHHHHHHHHHhcCCCCceeeeeCCCCCCHHHHHHHHHHHHhCCCcccCCcccchhhhhHHhhcCCCceEEecc
Confidence            357778888888888864 3344 4999999999999999999988721110                  1233444444


Q ss_pred             cCcCC---HHHHHHHHHHHhCCCCCccCCCChhHHHHHHHHHhccCcEEEEEecccccc--ccccccccCCCCCCCcEEE
Q 038398          187 SKDLQ---LEKIQEKIGRRIGFFDESWKNGSLEDKTSDILRILGKKKFLLLLDDIWERV--DLTKVGIPFPDPENKSKIV  261 (720)
Q Consensus       187 ~~~~~---~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~--~~~~l~~~~~~~~~gs~ii  261 (720)
                      +....   ..+..+++........                  ..++.-++++|+++...  .-..+...+......+.+|
T Consensus        82 s~~~~~~i~~~~vr~~~~~~~~~~------------------~~~~~kviiidead~mt~~A~nallk~lEep~~~~~~i  143 (325)
T COG0470          82 SDLRKIDIIVEQVRELAEFLSESP------------------LEGGYKVVIIDEADKLTEDAANALLKTLEEPPKNTRFI  143 (325)
T ss_pred             cccCCCcchHHHHHHHHHHhccCC------------------CCCCceEEEeCcHHHHhHHHHHHHHHHhccCCCCeEEE
Confidence            43333   2333333333332211                  02466799999997532  2223332333344567777


Q ss_pred             EEcCC
Q 038398          262 FTTHF  266 (720)
Q Consensus       262 iTtR~  266 (720)
                      ++|..
T Consensus       144 l~~n~  148 (325)
T COG0470         144 LITND  148 (325)
T ss_pred             EEcCC
Confidence            77763

>cd01133 F1-ATPase_beta F1 ATP synthase beta subunit, nucleotide-binding domain

Probab=96.69  E-value=0.0048  Score=61.24  Aligned_cols=92  Identities=20%  Similarity=0.307  Sum_probs=56.1

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhhcCCCCCc-CEEEEEEecCc-CCHHHHHHHHHHHhCCCCC----ccCCCCh-h--
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVF-DVVIWVVVSKD-LQLEKIQEKIGRRIGFFDE----SWKNGSL-E--  216 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f-~~~~wv~v~~~-~~~~~~~~~i~~~l~~~~~----~~~~~~~-~--  216 (720)
                      .-+.++|.|.+|+|||||++.+++..   +.+| +.++++-++.. ....++.+.+...-.....    ....... .  
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            34689999999999999999999987   3344 45666767654 3455666666543211110    0011111 1  


Q ss_pred             ---HHHHHHHHHh--c-cCcEEEEEecccc
Q 038398          217 ---DKTSDILRIL--G-KKKFLLLLDDIWE  240 (720)
Q Consensus       217 ---~~~~~l~~~l--~-~k~~LlVlDdv~~  240 (720)
                         ...-.+.+++  + ++.+|+++||+-.
T Consensus       145 ~~~~~a~~~AEyfr~~~g~~Vl~~~Dsltr  174 (274)
T cd01133         145 RVALTGLTMAEYFRDEEGQDVLLFIDNIFR  174 (274)
T ss_pred             HHHHHHHHHHHHHHHhcCCeEEEEEeChhH
Confidence               1122344555  3 7899999999843

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.

>KOG2035 consensus Replication factor C, subunit RFC3 [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]

Probab=96.69  E-value=0.013  Score=56.81  Aligned_cols=210  Identities=14%  Similarity=0.206  Sum_probs=118.5

Q ss_pred             CCCcCchHHHHHHHHHhcCCCceEEEEEcCCCChHHHHHHHHHhhhcCC---CCCcCEEEEEEecCc----------C--
Q 038398          126 EPTVGLESTFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGA---PNVFDVVIWVVVSKD----------L--  190 (720)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~---~~~f~~~~wv~v~~~----------~--  190 (720)
                      ....++++...++......++.+...++|++|.||-|.+..+.+....+   +-.-+..-|.+-+..          +  
T Consensus        13 ~~l~~~~e~~~~Lksl~~~~d~PHll~yGPSGaGKKTrimclL~elYG~gveklki~~~t~~tpS~kklEistvsS~yHl   92 (351)
T KOG2035|consen   13 DELIYHEELANLLKSLSSTGDFPHLLVYGPSGAGKKTRIMCLLRELYGVGVEKLKIETRTFTTPSKKKLEISTVSSNYHL   92 (351)
T ss_pred             hhcccHHHHHHHHHHhcccCCCCeEEEECCCCCCchhhHHHHHHHHhCCCchheeeeeEEEecCCCceEEEEEecccceE
Confidence            4467888888888887776778999999999999999888877765221   112233444432221          1  


Q ss_pred             ---------CHHHHHHHHHHHhCCCCCccCCCChhHHHHHHHHHhccCcE-EEEEeccccc--cccccccccCCCCCCCc
Q 038398          191 ---------QLEKIQEKIGRRIGFFDESWKNGSLEDKTSDILRILGKKKF-LLLLDDIWER--VDLTKVGIPFPDPENKS  258 (720)
Q Consensus       191 ---------~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~-LlVlDdv~~~--~~~~~l~~~~~~~~~gs  258 (720)
                               .-+.+.++++.......+             + +.-..+.| ++|+-.+++.  +.-..++.-+......+
T Consensus        93 EitPSDaG~~DRvViQellKevAQt~q-------------i-e~~~qr~fKvvvi~ead~LT~dAQ~aLRRTMEkYs~~~  158 (351)
T KOG2035|consen   93 EITPSDAGNYDRVVIQELLKEVAQTQQ-------------I-ETQGQRPFKVVVINEADELTRDAQHALRRTMEKYSSNC  158 (351)
T ss_pred             EeChhhcCcccHHHHHHHHHHHHhhcc-------------h-hhccccceEEEEEechHhhhHHHHHHHHHHHHHHhcCc
Confidence                     112334444444332110             0 00112344 5666666531  11112221122234567


Q ss_pred             EEEEEcCChh-Hhhhh-ccCceeeccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCcc-hHHHHHHHHHhc
Q 038398          259 KIVFTTHFLE-ICGAL-KAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGLP-LALITIGRAMAC  335 (720)
Q Consensus       259 ~iiiTtR~~~-v~~~~-~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~GlP-Lai~~~~~~l~~  335 (720)
                      |+|+...+.+ +.... +.--.++++..+++|-...+++.+.......+   ++++.+|+++++|.- -|+-.+-..-..
T Consensus       159 RlIl~cns~SriIepIrSRCl~iRvpaps~eeI~~vl~~v~~kE~l~lp---~~~l~rIa~kS~~nLRrAllmlE~~~~~  235 (351)
T KOG2035|consen  159 RLILVCNSTSRIIEPIRSRCLFIRVPAPSDEEITSVLSKVLKKEGLQLP---KELLKRIAEKSNRNLRRALLMLEAVRVN  235 (351)
T ss_pred             eEEEEecCcccchhHHhhheeEEeCCCCCHHHHHHHHHHHHHHhcccCc---HHHHHHHHHHhcccHHHHHHHHHHHHhc
Confidence            7777543321 11111 11235789999999999999998877663333   789999999999864 444433322111


Q ss_pred             C---------CChhHHHHHHHHHhcc
Q 038398          336 K---------KTPQEWHYAIQVLRRS  352 (720)
Q Consensus       336 ~---------~~~~~w~~~l~~l~~~  352 (720)
                      +         -...+|+-++.++...
T Consensus       236 n~~~~a~~~~i~~~dWe~~i~e~a~~  261 (351)
T KOG2035|consen  236 NEPFTANSQVIPKPDWEIYIQEIARV  261 (351)
T ss_pred             cccccccCCCCCCccHHHHHHHHHHH
Confidence            1         2456899887765443

>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]

Probab=96.67  E-value=0.0094  Score=59.29  Aligned_cols=89  Identities=25%  Similarity=0.248  Sum_probs=53.3

Q ss_pred             CchHHHHHHH---HHhcCCCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHHHHHhCCC
Q 038398          130 GLESTFDKVW---RCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKIGRRIGFF  206 (720)
Q Consensus       130 Gr~~~~~~l~---~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i~~~l~~~  206 (720)
                      ++.+.+..+.   +++.  +..-+.++|++|+|||.||.++.++.   ...--.+.|+++      .++..++...... 
T Consensus        87 ~~~~~l~~~~~~~~~~~--~~~nl~l~G~~G~GKThLa~Ai~~~l---~~~g~sv~f~~~------~el~~~Lk~~~~~-  154 (254)
T COG1484          87 IDKKALEDLASLVEFFE--RGENLVLLGPPGVGKTHLAIAIGNEL---LKAGISVLFITA------PDLLSKLKAAFDE-  154 (254)
T ss_pred             hhHHHHHHHHHHHHHhc--cCCcEEEECCCCCcHHHHHHHHHHHH---HHcCCeEEEEEH------HHHHHHHHHHHhc-
Confidence            3444444443   3443  55678999999999999999999998   222235566643      4566666655532 


Q ss_pred             CCccCCCChhHHHHHHHHHhccCcEEEEEecccc
Q 038398          207 DESWKNGSLEDKTSDILRILGKKKFLLLLDDIWE  240 (720)
Q Consensus       207 ~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~  240 (720)
                               .....++...+. +-=||||||+..
T Consensus       155 ---------~~~~~~l~~~l~-~~dlLIiDDlG~  178 (254)
T COG1484         155 ---------GRLEEKLLRELK-KVDLLIIDDIGY  178 (254)
T ss_pred             ---------CchHHHHHHHhh-cCCEEEEecccC
Confidence                     111222333222 233899999854

>PRK15455 PrkA family serine protein kinase; Provisional

Probab=96.67  E-value=0.0021  Score=69.47  Aligned_cols=46  Identities=26%  Similarity=0.411  Sum_probs=40.3

Q ss_pred             CCCcCchHHHHHHHHHh------cCCCceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          126 EPTVGLESTFDKVWRCL------GEEQVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       126 ~~~vGr~~~~~~l~~~L------~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      .+++|.++.+++|++.|      .+..-+++.++||+|+||||||+.+.+-.
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            45799999999999988      23456899999999999999999999887

>COG2607 Predicted ATPase (AAA+ superfamily) [General function prediction only]

Probab=96.64  E-value=0.0079  Score=57.06  Aligned_cols=49  Identities=20%  Similarity=0.287  Sum_probs=38.6

Q ss_pred             CCCCCCcCchHHHHHHHHHh----cCCCceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          123 RPCEPTVGLESTFDKVWRCL----GEEQVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       123 ~~~~~~vGr~~~~~~l~~~L----~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      .....++|.|...+.+++--    ..-...-|.+||.-|.|||+|++++.+..
T Consensus        57 i~L~~l~Gvd~qk~~L~~NT~~F~~G~pANnVLLwGaRGtGKSSLVKA~~~e~  109 (287)
T COG2607          57 IDLADLVGVDRQKEALVRNTEQFAEGLPANNVLLWGARGTGKSSLVKALLNEY  109 (287)
T ss_pred             cCHHHHhCchHHHHHHHHHHHHHHcCCcccceEEecCCCCChHHHHHHHHHHH
Confidence            33456799998888876643    33355678999999999999999999987

>cd01394 radB RadB

Probab=96.63  E-value=0.015  Score=56.88  Aligned_cols=42  Identities=17%  Similarity=0.205  Sum_probs=31.8

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcC
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDL  190 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~  190 (720)
                      .-.++.|.|.+|+||||+|.+++...   ...-..++|++....+
T Consensus        18 ~g~i~~i~G~~GsGKT~l~~~~a~~~---~~~g~~v~yi~~e~~~   59 (218)
T cd01394          18 RGTVTQVYGPPGTGKTNIAIQLAVET---AGQGKKVAYIDTEGLS   59 (218)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH---HhcCCeEEEEECCCCC
Confidence            34789999999999999999998776   2223467888765444

The archaeal protein radB shares similarity radA, the archaeal functional homologue to the bacterial RecA. The precise function of radB is unclear.

>KOG2123 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.62  E-value=0.0002  Score=68.88  Aligned_cols=55  Identities=22%  Similarity=0.293  Sum_probs=27.3

Q ss_pred             cceeEEEecccccccCCCCCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCC
Q 038398          494 RNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNN  550 (720)
Q Consensus       494 ~~l~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~  550 (720)
                      .+++.|++.+|.+.++.-...++.|.+|.|+=|.++.+.+  |..|++|+.|+|..|
T Consensus        19 ~~vkKLNcwg~~L~DIsic~kMp~lEVLsLSvNkIssL~p--l~rCtrLkElYLRkN   73 (388)
T KOG2123|consen   19 ENVKKLNCWGCGLDDISICEKMPLLEVLSLSVNKISSLAP--LQRCTRLKELYLRKN   73 (388)
T ss_pred             HHhhhhcccCCCccHHHHHHhcccceeEEeeccccccchh--HHHHHHHHHHHHHhc
Confidence            3445555555555544434444555555555555444433  444555555555544

>PRK09354 recA recombinase A; Provisional

Probab=96.61  E-value=0.0055  Score=63.06  Aligned_cols=87  Identities=15%  Similarity=0.158  Sum_probs=57.4

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHHHHHhCCCCCc---cCCCChhHHHHHH
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKIGRRIGFFDES---WKNGSLEDKTSDI  222 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i~~~l~~~~~~---~~~~~~~~~~~~l  222 (720)
                      .-+++-|+|++|+||||||.+++...   ...-..++||.....++..     .+++++...+.   ....+.++....+
T Consensus        59 ~G~IteI~G~~GsGKTtLal~~~~~~---~~~G~~~~yId~E~s~~~~-----~a~~lGvdld~lli~qp~~~Eq~l~i~  130 (349)
T PRK09354         59 RGRIVEIYGPESSGKTTLALHAIAEA---QKAGGTAAFIDAEHALDPV-----YAKKLGVDIDNLLVSQPDTGEQALEIA  130 (349)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH---HHcCCcEEEECCccchHHH-----HHHHcCCCHHHeEEecCCCHHHHHHHH
Confidence            34788999999999999999987765   2233578899887766652     34555443221   1233455666656


Q ss_pred             HHHhcc-CcEEEEEecccc
Q 038398          223 LRILGK-KKFLLLLDDIWE  240 (720)
Q Consensus       223 ~~~l~~-k~~LlVlDdv~~  240 (720)
                      ...++. ..-++|+|-|-.
T Consensus       131 ~~li~s~~~~lIVIDSvaa  149 (349)
T PRK09354        131 DTLVRSGAVDLIVVDSVAA  149 (349)
T ss_pred             HHHhhcCCCCEEEEeChhh
Confidence            555544 566999998753

>CHL00095 clpC Clp protease ATP binding subunit

Probab=96.60  E-value=0.0077  Score=70.80  Aligned_cols=46  Identities=20%  Similarity=0.319  Sum_probs=37.2

Q ss_pred             CCCcCchHHHHHHHHHhcC--------C-CceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          126 EPTVGLESTFDKVWRCLGE--------E-QVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~--------~-~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ..++|.+..++.|...+..        + ....+.++|+.|+|||+||+.+.+..
T Consensus       509 ~~v~GQ~~ai~~l~~~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKt~lA~~LA~~l  563 (821)
T CHL00095        509 KRIIGQDEAVVAVSKAIRRARVGLKNPNRPIASFLFSGPTGVGKTELTKALASYF  563 (821)
T ss_pred             CcCcChHHHHHHHHHHHHHHhhcccCCCCCceEEEEECCCCCcHHHHHHHHHHHh
Confidence            4578999999999887742        1 23466789999999999999999876

>KOG0727 consensus 26S proteasome regulatory complex, ATPase RPT3 [Posttranslational modification, protein turnover, chaperones]

Probab=96.60  E-value=0.26  Score=47.19  Aligned_cols=160  Identities=16%  Similarity=0.205  Sum_probs=83.4

Q ss_pred             CcCchHHHHHHHHHhc-------------CCCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHH
Q 038398          128 TVGLESTFDKVWRCLG-------------EEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEK  194 (720)
Q Consensus       128 ~vGr~~~~~~l~~~L~-------------~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~  194 (720)
                      +=|.+-.+++|.+...             -+.++-|.++|++|+|||.||++|+++.   ...|     +.|...     
T Consensus       157 iggld~qkqeireavelplt~~~ly~qigidpprgvllygppg~gktml~kava~~t---~a~f-----irvvgs-----  223 (408)
T KOG0727|consen  157 IGGLDVQKQEIREAVELPLTHADLYKQIGIDPPRGVLLYGPPGTGKTMLAKAVANHT---TAAF-----IRVVGS-----  223 (408)
T ss_pred             cccchhhHHHHHHHHhccchHHHHHHHhCCCCCcceEEeCCCCCcHHHHHHHHhhcc---chhe-----eeeccH-----
Confidence            3466766666665542             1467889999999999999999999987   3444     332211     


Q ss_pred             HHHHHHHHhCCCCCccCCCChhHHHHHHHHHh-ccCcEEEEEecccccc----------c------cccccccCC--CCC
Q 038398          195 IQEKIGRRIGFFDESWKNGSLEDKTSDILRIL-GKKKFLLLLDDIWERV----------D------LTKVGIPFP--DPE  255 (720)
Q Consensus       195 ~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l-~~k~~LlVlDdv~~~~----------~------~~~l~~~~~--~~~  255 (720)
                         ++.++.-...        ......+.+.- .+-+.+|.+|+++...          +      +-++...+.  +..
T Consensus       224 ---efvqkylgeg--------prmvrdvfrlakenapsiifideidaiatkrfdaqtgadrevqril~ellnqmdgfdq~  292 (408)
T KOG0727|consen  224 ---EFVQKYLGEG--------PRMVRDVFRLAKENAPSIIFIDEIDAIATKRFDAQTGADREVQRILIELLNQMDGFDQT  292 (408)
T ss_pred             ---HHHHHHhccC--------cHHHHHHHHHHhccCCcEEEeehhhhHhhhhccccccccHHHHHHHHHHHHhccCcCcc
Confidence               1111111111        12222233322 3467889999886421          0      111211222  233


Q ss_pred             CCcEEEEEcCChhHh-----hhhccCceeeccCCChhhHHHHHHHHhccCccCCCCChHHH
Q 038398          256 NKSKIVFTTHFLEIC-----GALKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPEL  311 (720)
Q Consensus       256 ~gs~iiiTtR~~~v~-----~~~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~  311 (720)
                      .+.|+|..|...+..     ..-.-...++.+.-+..+-.-.|.....+.......+++++
T Consensus       293 ~nvkvimatnradtldpallrpgrldrkiefplpdrrqkrlvf~titskm~ls~~vdle~~  353 (408)
T KOG0727|consen  293 TNVKVIMATNRADTLDPALLRPGRLDRKIEFPLPDRRQKRLVFSTITSKMNLSDEVDLEDL  353 (408)
T ss_pred             cceEEEEecCcccccCHhhcCCccccccccCCCCchhhhhhhHHhhhhcccCCcccCHHHH
Confidence            456788777433321     11112345666644555555557666555443444444443

>PRK05541 adenylylsulfate kinase; Provisional

Probab=96.57  E-value=0.0045  Score=58.22  Aligned_cols=36  Identities=28%  Similarity=0.458  Sum_probs=29.0

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEE
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWV  184 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv  184 (720)
                      ...+|.+.|++|+||||+|+.++...   ...+..++++
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            44689999999999999999999987   3445555555

>COG0464 SpoVK ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]

Probab=96.56  E-value=0.029  Score=62.32  Aligned_cols=151  Identities=15%  Similarity=0.129  Sum_probs=83.6

Q ss_pred             CcCchHHHHHHHHHhc---C----------CCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHH
Q 038398          128 TVGLESTFDKVWRCLG---E----------EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEK  194 (720)
Q Consensus       128 ~vGr~~~~~~l~~~L~---~----------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~  194 (720)
                      ..|.+...+.+.+.+.   .          ...+.+.++|++|.|||.||+++++..   ...|-.+.     .. +   
T Consensus       244 iggl~~~k~~l~e~v~~~~~~~e~~~~~~~~~~~giLl~GpPGtGKT~lAkava~~~---~~~fi~v~-----~~-~---  311 (494)
T COG0464         244 IGGLEEAKEELKEAIETPLKRPELFRKLGLRPPKGVLLYGPPGTGKTLLAKAVALES---RSRFISVK-----GS-E---  311 (494)
T ss_pred             hhcHHHHHHHHHHHHHhHhhChHHHHhcCCCCCCeeEEECCCCCCHHHHHHHHHhhC---CCeEEEee-----CH-H---
Confidence            3566666655544431   1          245689999999999999999999965   33443222     11 0   


Q ss_pred             HHHHHHHHhCCCCCccCCCChhHHHHHHHHHhccCcEEEEEeccccccccc-------------cccccCC--CCCCCcE
Q 038398          195 IQEKIGRRIGFFDESWKNGSLEDKTSDILRILGKKKFLLLLDDIWERVDLT-------------KVGIPFP--DPENKSK  259 (720)
Q Consensus       195 ~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~~~-------------~l~~~~~--~~~~gs~  259 (720)
                          +....       -..............-+..++.|.+|+++....+.             .+...+.  ....+..
T Consensus       312 ----l~sk~-------vGesek~ir~~F~~A~~~~p~iiFiDEiDs~~~~r~~~~~~~~~r~~~~lL~~~d~~e~~~~v~  380 (494)
T COG0464         312 ----LLSKW-------VGESEKNIRELFEKARKLAPSIIFIDEIDSLASGRGPSEDGSGRRVVGQLLTELDGIEKAEGVL  380 (494)
T ss_pred             ----Hhccc-------cchHHHHHHHHHHHHHcCCCcEEEEEchhhhhccCCCCCchHHHHHHHHHHHHhcCCCccCceE
Confidence                11100       11112222223333335688999999996532211             1111221  1222333


Q ss_pred             EEEEcCChhHhhh---h--ccCceeeccCCChhhHHHHHHHHhccCc
Q 038398          260 IVFTTHFLEICGA---L--KAHEFLKVECLGPEDAWRLFRENLRRDV  301 (720)
Q Consensus       260 iiiTtR~~~v~~~---~--~~~~~~~l~~L~~~e~~~Lf~~~~~~~~  301 (720)
                      ||-||........   .  .-...+.+++.+.++..+.|+.+.....
T Consensus       381 vi~aTN~p~~ld~a~lR~gRfd~~i~v~~pd~~~r~~i~~~~~~~~~  427 (494)
T COG0464         381 VIAATNRPDDLDPALLRPGRFDRLIYVPLPDLEERLEIFKIHLRDKK  427 (494)
T ss_pred             EEecCCCccccCHhhcccCccceEeecCCCCHHHHHHHHHHHhcccC
Confidence            4555543333221   1  2245788999999999999999987433

>PRK08699 DNA polymerase III subunit delta'; Validated

Probab=96.56  E-value=0.055  Score=55.93  Aligned_cols=25  Identities=24%  Similarity=0.250  Sum_probs=22.0

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ...+.++|+.|+||||+|+.+....
T Consensus        21 ~hA~Lf~G~~G~GK~~la~~~a~~l   45 (325)
T PRK08699         21 PNAWLFAGKKGIGKTAFARFAAQAL   45 (325)
T ss_pred             ceEEEeECCCCCCHHHHHHHHHHHH
Confidence            4568899999999999999988775

>cd01120 RecA-like_NTPases RecA-like NTPases

Probab=96.55  E-value=0.013  Score=53.94  Aligned_cols=39  Identities=26%  Similarity=0.448  Sum_probs=30.1

Q ss_pred             EEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcC
Q 038398          149 IIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDL  190 (720)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~  190 (720)
                      ++.|+|++|+||||++..+....   ...-..++|+......
T Consensus         1 ~~~i~G~~G~GKT~l~~~i~~~~---~~~~~~v~~~~~e~~~   39 (165)
T cd01120           1 LILVFGPTGSGKTTLALQLALNI---ATKGGKVVYVDIEEEI   39 (165)
T ss_pred             CeeEeCCCCCCHHHHHHHHHHHH---HhcCCEEEEEECCcch
Confidence            36899999999999999998876   2234567788776554

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.

>PRK08939 primosomal protein DnaI; Reviewed

Probab=96.54  E-value=0.0091  Score=61.11  Aligned_cols=115  Identities=23%  Similarity=0.240  Sum_probs=64.2

Q ss_pred             CchHHHHHHHHHhcC----CCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHHHHHhCC
Q 038398          130 GLESTFDKVWRCLGE----EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKIGRRIGF  205 (720)
Q Consensus       130 Gr~~~~~~l~~~L~~----~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i~~~l~~  205 (720)
                      ++....+...+++..    ....-+.++|+.|+|||.||.++++...  ...+ .+.|+.+      ..+...+......
T Consensus       135 ~~~~~~~~~~~fi~~~~~~~~~~gl~L~G~~G~GKThLa~Aia~~l~--~~g~-~v~~~~~------~~l~~~lk~~~~~  205 (306)
T PRK08939        135 DRLDALMAALDFLEAYPPGEKVKGLYLYGDFGVGKSYLLAAIANELA--KKGV-SSTLLHF------PEFIRELKNSISD  205 (306)
T ss_pred             HHHHHHHHHHHHHHHhhccCCCCeEEEECCCCCCHHHHHHHHHHHHH--HcCC-CEEEEEH------HHHHHHHHHHHhc
Confidence            455555555555542    1346799999999999999999999982  2223 3556654      3455555554421


Q ss_pred             CCCccCCCChhHHHHHHHHHhccCcEEEEEeccccc--ccccc--ccccC-CCC-CCCcEEEEEcC
Q 038398          206 FDESWKNGSLEDKTSDILRILGKKKFLLLLDDIWER--VDLTK--VGIPF-PDP-ENKSKIVFTTH  265 (720)
Q Consensus       206 ~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~--~~~~~--l~~~~-~~~-~~gs~iiiTtR  265 (720)
                             .+..+    ..+.+. +.=||||||+...  .+|..  +...+ ... ..+..+|+||.
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                   11122    222232 4558999999632  33432  22211 111 23456777775

>KOG0743 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=96.53  E-value=0.26  Score=51.73  Aligned_cols=149  Identities=21%  Similarity=0.198  Sum_probs=78.9

Q ss_pred             eEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHHHHHhCCCCCccCCCChhHHHHHHHHHhc
Q 038398          148 GIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKIGRRIGFFDESWKNGSLEDKTSDILRILG  227 (720)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~  227 (720)
                      |--.++||||.||||++.++++..     .|+. +=+..+...+-                       .+    |+..|.
T Consensus       236 RGYLLYGPPGTGKSS~IaAmAn~L-----~ydI-ydLeLt~v~~n-----------------------~d----Lr~LL~  282 (457)
T KOG0743|consen  236 RGYLLYGPPGTGKSSFIAAMANYL-----NYDI-YDLELTEVKLD-----------------------SD----LRHLLL  282 (457)
T ss_pred             ccceeeCCCCCCHHHHHHHHHhhc-----CCce-EEeeeccccCc-----------------------HH----HHHHHH
Confidence            567899999999999999999987     3432 11222111111                       11    222222


Q ss_pred             --cCcEEEEEecccccccccc--------------------ccccCC--CCCC-CcEE-EEEcCChhHhh--hh---ccC
Q 038398          228 --KKKFLLLLDDIWERVDLTK--------------------VGIPFP--DPEN-KSKI-VFTTHFLEICG--AL---KAH  276 (720)
Q Consensus       228 --~k~~LlVlDdv~~~~~~~~--------------------l~~~~~--~~~~-gs~i-iiTtR~~~v~~--~~---~~~  276 (720)
                        ..+-+||+.|++...++..                    +...+.  +... +=|| |.||...+-..  .+   ..+
T Consensus       283 ~t~~kSIivIEDIDcs~~l~~~~~~~~~~~~~~~~~VTlSGLLNfiDGlwSscg~ERIivFTTNh~EkLDPALlRpGRmD  362 (457)
T KOG0743|consen  283 ATPNKSILLIEDIDCSFDLRERRKKKKENFEGDLSRVTLSGLLNFLDGLWSSCGDERIIVFTTNHKEKLDPALLRPGRMD  362 (457)
T ss_pred             hCCCCcEEEEeecccccccccccccccccccCCcceeehHHhhhhhccccccCCCceEEEEecCChhhcCHhhcCCCcce
Confidence              2455777787764321100                    111111  1112 2345 55766543321  11   123


Q ss_pred             ceeeccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCcchHHHHHHH-HHhc
Q 038398          277 EFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGLPLALITIGR-AMAC  335 (720)
Q Consensus       277 ~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~GlPLai~~~~~-~l~~  335 (720)
                      ..+.+.-=+++.-..|+..+.+...  ++    .++.+|.+...|.-+.=..+++ +|..
T Consensus       363 mhI~mgyCtf~~fK~La~nYL~~~~--~h----~L~~eie~l~~~~~~tPA~V~e~lm~~  416 (457)
T KOG0743|consen  363 MHIYMGYCTFEAFKTLASNYLGIEE--DH----RLFDEIERLIEETEVTPAQVAEELMKN  416 (457)
T ss_pred             eEEEcCCCCHHHHHHHHHHhcCCCC--Cc----chhHHHHHHhhcCccCHHHHHHHHhhc
Confidence            4677888899999999999886532  22    3455555555555444444444 4444

>KOG0735 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=96.53  E-value=0.0058  Score=66.57  Aligned_cols=160  Identities=18%  Similarity=0.119  Sum_probs=87.3

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcC--CHHHHHHHHHHHhCCCCCccCCCChhHHHHHHHH
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDL--QLEKIQEKIGRRIGFFDESWKNGSLEDKTSDILR  224 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~--~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~  224 (720)
                      ...|.|.|+.|+|||+||+++++.. . +...-++.+|+++.-.  ...++++.+-..+                   .+
T Consensus       431 ~~~Ill~G~~GsGKT~L~kal~~~~-~-k~~~~hv~~v~Cs~l~~~~~e~iQk~l~~vf-------------------se  489 (952)
T KOG0735|consen  431 HGNILLNGPKGSGKTNLVKALFDYY-S-KDLIAHVEIVSCSTLDGSSLEKIQKFLNNVF-------------------SE  489 (952)
T ss_pred             cccEEEeCCCCCCHhHHHHHHHHHh-c-cccceEEEEEechhccchhHHHHHHHHHHHH-------------------HH
Confidence            4678999999999999999999998 3 5555677777776432  2333333332222                   23


Q ss_pred             HhccCcEEEEEecccccc--------ccccc---cccCC------CCCCCcE--EEEEcCChhHh-hhh----ccCceee
Q 038398          225 ILGKKKFLLLLDDIWERV--------DLTKV---GIPFP------DPENKSK--IVFTTHFLEIC-GAL----KAHEFLK  280 (720)
Q Consensus       225 ~l~~k~~LlVlDdv~~~~--------~~~~l---~~~~~------~~~~gs~--iiiTtR~~~v~-~~~----~~~~~~~  280 (720)
                      .+.-.+-+|||||++...        +|...   ...+.      ....+.+  +|.|.....-. ...    -......
T Consensus       490 ~~~~~PSiIvLDdld~l~~~s~~e~~q~~~~~~rla~flnqvi~~y~~~~~~ia~Iat~qe~qtl~~~L~s~~~Fq~~~~  569 (952)
T KOG0735|consen  490 ALWYAPSIIVLDDLDCLASASSNENGQDGVVSERLAAFLNQVIKIYLKRNRKIAVIATGQELQTLNPLLVSPLLFQIVIA  569 (952)
T ss_pred             HHhhCCcEEEEcchhhhhccCcccCCcchHHHHHHHHHHHHHHHHHHccCcEEEEEEechhhhhcChhhcCccceEEEEe
Confidence            445578899999986321        11110   00000      1223444  33333322211 111    1224567


Q ss_pred             ccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCc-chHHHHHH
Q 038398          281 VECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGL-PLALITIG  330 (720)
Q Consensus       281 l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~Gl-PLai~~~~  330 (720)
                      ++.+...+-.++++.......   .....+...-+..+|+|. |.-+.++-
T Consensus       570 L~ap~~~~R~~IL~~~~s~~~---~~~~~~dLd~ls~~TEGy~~~DL~ifV  617 (952)
T KOG0735|consen  570 LPAPAVTRRKEILTTIFSKNL---SDITMDDLDFLSVKTEGYLATDLVIFV  617 (952)
T ss_pred             cCCcchhHHHHHHHHHHHhhh---hhhhhHHHHHHHHhcCCccchhHHHHH
Confidence            888888777777665543322   111123334488888884 55555443

>cd00561 CobA_CobO_BtuR ATP:corrinoid adenosyltransferase BtuR/CobO/CobP

Probab=96.53  E-value=0.0099  Score=53.95  Aligned_cols=117  Identities=21%  Similarity=0.139  Sum_probs=60.2

Q ss_pred             eEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecC---cCCHHHHHHHHHHHhCC---CC-CccCCCChhH---
Q 038398          148 GIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSK---DLQLEKIQEKIGRRIGF---FD-ESWKNGSLED---  217 (720)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~---~~~~~~~~~~i~~~l~~---~~-~~~~~~~~~~---  217 (720)
                      ..|-|++..|.||||+|...+-+..   .+=-.+.++..-+   ..+-..+++.+- .+..   .. ..+...+..+   
T Consensus         3 G~i~vy~g~G~Gkt~~a~g~~~ra~---~~g~~v~~vQFlKg~~~~gE~~~l~~l~-~v~~~~~g~~~~~~~~~~~~~~~   78 (159)
T cd00561           3 GLIQVYTGNGKGKTTAALGLALRAL---GHGYRVGVVQFLKGGWKYGELKALERLP-NIEIHRMGRGFFWTTENDEEDIA   78 (159)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHH---HCCCeEEEEEEeCCCCccCHHHHHHhCC-CcEEEECCCCCccCCCChHHHHH
Confidence            5788999999999999998877762   2222455544333   233333333331 0100   00 0001111222   


Q ss_pred             ----HHHHHHHHhccC-cEEEEEeccccc-----cccccccccCCCCCCCcEEEEEcCChh
Q 038398          218 ----KTSDILRILGKK-KFLLLLDDIWER-----VDLTKVGIPFPDPENKSKIVFTTHFLE  268 (720)
Q Consensus       218 ----~~~~l~~~l~~k-~~LlVlDdv~~~-----~~~~~l~~~~~~~~~gs~iiiTtR~~~  268 (720)
                          ..+..++.+... -=|+|||++-..     .+.+.+...+.....+.-+|+|.|+..
T Consensus        79 ~a~~~~~~a~~~~~~~~~dLlVLDEi~~a~~~gli~~~~v~~ll~~rp~~~evIlTGr~~p  139 (159)
T cd00561          79 AAAEGWAFAKEAIASGEYDLVILDEINYALGYGLLDVEEVVDLLKAKPEDLELVLTGRNAP  139 (159)
T ss_pred             HHHHHHHHHHHHHhcCCCCEEEEechHhHhhCCCCCHHHHHHHHHcCCCCCEEEEECCCCC
Confidence                222333444443 449999998543     222233333333445678999999854

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.

>PRK06547 hypothetical protein; Provisional

Probab=96.51  E-value=0.0037  Score=58.16  Aligned_cols=36  Identities=22%  Similarity=0.183  Sum_probs=29.3

Q ss_pred             HHHHHHhcCCCceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          136 DKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       136 ~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      +.+...+......+|+|.|++|+||||+|+.+.+..
T Consensus         4 ~~~~~~~~~~~~~~i~i~G~~GsGKTt~a~~l~~~~   39 (172)
T PRK06547          4 ALIAARLCGGGMITVLIDGRSGSGKTTLAGALAART   39 (172)
T ss_pred             HHHHHHhhcCCCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            344445556678899999999999999999998875

>PRK10733 hflB ATP-dependent metalloprotease; Reviewed

Probab=96.51  E-value=0.015  Score=66.27  Aligned_cols=168  Identities=16%  Similarity=0.161  Sum_probs=87.2

Q ss_pred             CcCchHHHHHHHH---HhcC---------CCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHH
Q 038398          128 TVGLESTFDKVWR---CLGE---------EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKI  195 (720)
Q Consensus       128 ~vGr~~~~~~l~~---~L~~---------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~  195 (720)
                      +.|.+...+++.+   ++..         .-.+-|.++|++|+|||++|+.++...   ...|     +.++..    .+
T Consensus       154 i~g~~~~~~~l~~i~~~~~~~~~~~~~~~~~~~gill~G~~G~GKt~~~~~~a~~~---~~~f-----~~is~~----~~  221 (644)
T PRK10733        154 VAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEA---KVPF-----FTISGS----DF  221 (644)
T ss_pred             HcCHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCcEEEECCCCCCHHHHHHHHHHHc---CCCE-----EEEehH----Hh
Confidence            4576665555443   3322         113458999999999999999998876   2222     222211    11


Q ss_pred             HHHHHHHhCCCCCccCCCChhHHHHHHHHHhccCcEEEEEeccccccc----------------cccccccCCC--CCCC
Q 038398          196 QEKIGRRIGFFDESWKNGSLEDKTSDILRILGKKKFLLLLDDIWERVD----------------LTKVGIPFPD--PENK  257 (720)
Q Consensus       196 ~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~----------------~~~l~~~~~~--~~~g  257 (720)
                      ..    ..       ...........+...-...+++|++|+++....                +..+...+..  ...+
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            10    00       001111222222233344688999999865310                1111111111  1234


Q ss_pred             cEEEEEcCChhHhhh-h----ccCceeeccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCc
Q 038398          258 SKIVFTTHFLEICGA-L----KAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGL  322 (720)
Q Consensus       258 s~iiiTtR~~~v~~~-~----~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~Gl  322 (720)
                      .-+|.||...+.... .    .....+.++..+.++-.+++..+..........+    ...+++.+.|.
T Consensus       291 vivIaaTN~p~~lD~Al~RpgRfdr~i~v~~Pd~~~R~~Il~~~~~~~~l~~~~d----~~~la~~t~G~  356 (644)
T PRK10733        291 IIVIAATNRPDVLDPALLRPGRFDRQVVVGLPDVRGREQILKVHMRRVPLAPDID----AAIIARGTPGF  356 (644)
T ss_pred             eeEEEecCChhhcCHHHhCCcccceEEEcCCCCHHHHHHHHHHHhhcCCCCCcCC----HHHHHhhCCCC
Confidence            455557765554221 1    1246778888888888888888775433222222    23456666653

>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=96.50  E-value=0.0091  Score=55.71  Aligned_cols=124  Identities=15%  Similarity=0.136  Sum_probs=63.6

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhhcCC--CC---CcC--EEEEEEecCcCCHHHHHHHHHHHhCCCCC---c-cCCCC
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGA--PN---VFD--VVIWVVVSKDLQLEKIQEKIGRRIGFFDE---S-WKNGS  214 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~--~~---~f~--~~~wv~v~~~~~~~~~~~~i~~~l~~~~~---~-~~~~~  214 (720)
                      .-.+++|+|+.|+|||||.+.+..+..++  ..   .|.  .+.|+  .+        .+.+..++....   . ...-+
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            34689999999999999999986432111  00   111  13332  22        345566654321   0 01111


Q ss_pred             -hhHHHHHHHHHhccC--cEEEEEeccccccc---cccccccCCC-CCCCcEEEEEcCChhHhhhhccCceeec
Q 038398          215 -LEDKTSDILRILGKK--KFLLLLDDIWERVD---LTKVGIPFPD-PENKSKIVFTTHFLEICGALKAHEFLKV  281 (720)
Q Consensus       215 -~~~~~~~l~~~l~~k--~~LlVlDdv~~~~~---~~~l~~~~~~-~~~gs~iiiTtR~~~v~~~~~~~~~~~l  281 (720)
                       -+...-.+...+-.+  +-++++|+.-...+   ...+...+.. ...|..||++|.+......  ..+.+.+
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             122223344455556  77889998754322   1112111111 1246778888888766532  4445544

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.

>PF08423 Rad51: Rad51; InterPro: IPR013632 This domain is found at the C terminus of the DNA repair and recombination protein Rad51

Probab=96.49  E-value=0.012  Score=58.62  Aligned_cols=57  Identities=23%  Similarity=0.337  Sum_probs=40.4

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhhcC---CCCCcCEEEEEEecCcCCHHHHHHHHHHHhC
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKLLG---APNVFDVVIWVVVSKDLQLEKIQEKIGRRIG  204 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~~~---~~~~f~~~~wv~v~~~~~~~~~~~~i~~~l~  204 (720)
                      -.+.=|+|++|+|||.|+.+++-...-   ..+.=..++|++....+....+.+ |++..+
T Consensus        38 g~itEi~G~~gsGKTql~l~l~~~~~l~~~~~g~~~~vvyidTe~~f~~~Rl~~-i~~~~~   97 (256)
T PF08423_consen   38 GSITEIVGESGSGKTQLCLQLAVNVQLPEEIGGLGGKVVYIDTEGTFSPERLQQ-IAERFG   97 (256)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHHHHTTSGGCTTSSSSEEEEEESSSSS-HHHHHH-HHHHTT
T ss_pred             CcEEEEEEecccccchHHHHHHHHhhcccccccCCCceEEEeCCCCCCHHHHHH-Hhhccc
Confidence            368889999999999999888654311   112234799999999998887754 555544

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 ....

>KOG1969 consensus DNA replication checkpoint protein CHL12/CTF18 [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]

Probab=96.48  E-value=0.0063  Score=66.59  Aligned_cols=72  Identities=26%  Similarity=0.343  Sum_probs=54.8

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHHHHHhCCCCCccCCCChhHHHHHHHHHh
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKIGRRIGFFDESWKNGSLEDKTSDILRIL  226 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l  226 (720)
                      -++..++|++|+||||||..++++.     .| .++=|+.|+..+...+-..|...+....                 .+
T Consensus       326 kKilLL~GppGlGKTTLAHViAkqa-----GY-sVvEINASDeRt~~~v~~kI~~avq~~s-----------------~l  382 (877)
T KOG1969|consen  326 KKILLLCGPPGLGKTTLAHVIAKQA-----GY-SVVEINASDERTAPMVKEKIENAVQNHS-----------------VL  382 (877)
T ss_pred             cceEEeecCCCCChhHHHHHHHHhc-----Cc-eEEEecccccccHHHHHHHHHHHHhhcc-----------------cc
Confidence            4789999999999999999998875     22 4677888888888887777777664321                 22


Q ss_pred             --ccCcEEEEEeccccc
Q 038398          227 --GKKKFLLLLDDIWER  241 (720)
Q Consensus       227 --~~k~~LlVlDdv~~~  241 (720)
                        .+++.-||+|+++..
T Consensus       383 ~adsrP~CLViDEIDGa  399 (877)
T KOG1969|consen  383 DADSRPVCLVIDEIDGA  399 (877)
T ss_pred             ccCCCcceEEEecccCC
Confidence              257888999998753

>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional

Probab=96.47  E-value=0.0062  Score=69.91  Aligned_cols=45  Identities=22%  Similarity=0.367  Sum_probs=36.9

Q ss_pred             CCcCchHHHHHHHHHhcC---------CCceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          127 PTVGLESTFDKVWRCLGE---------EQVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       127 ~~vGr~~~~~~l~~~L~~---------~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      .+||.++.++.|...+..         .....+.++|++|+|||++|+.++...
T Consensus       459 ~ViGQ~~ai~~l~~~i~~~~~gl~~~~kp~~~~Lf~GP~GvGKT~lAk~LA~~l  512 (758)
T PRK11034        459 LVFGQDKAIEALTEAIKMSRAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKAL  512 (758)
T ss_pred             eEeCcHHHHHHHHHHHHHHhccccCCCCCcceEEEECCCCCCHHHHHHHHHHHh
Confidence            468999999988888742         124578899999999999999998876

>COG2884 FtsE Predicted ATPase involved in cell division [Cell division and chromosome partitioning]

Probab=96.46  E-value=0.016  Score=53.10  Aligned_cols=125  Identities=19%  Similarity=0.170  Sum_probs=69.1

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEe---------------------cCcC--------------
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVV---------------------SKDL--------------  190 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v---------------------~~~~--------------  190 (720)
                      .-..+.|+|++|.||||+.+.+|....    .-.+.+|+.-                     -|++              
T Consensus        27 ~Gef~fl~GpSGAGKSTllkLi~~~e~----pt~G~i~~~~~dl~~l~~~~iP~LRR~IGvVFQD~rLL~~~tvyeNVA~  102 (223)
T COG2884          27 KGEFVFLTGPSGAGKSTLLKLIYGEER----PTRGKILVNGHDLSRLKGREIPFLRRQIGVVFQDFRLLPDRTVYENVAL  102 (223)
T ss_pred             CceEEEEECCCCCCHHHHHHHHHhhhc----CCCceEEECCeecccccccccchhhheeeeEeeeccccccchHhhhhhh
Confidence            346899999999999999999998752    1122333320                     0111              


Q ss_pred             -------CHHHHHH---HHHHHhCCCCCc----cCCCChhHHHHHHHHHhccCcEEEEEecc----ccccccccccccCC
Q 038398          191 -------QLEKIQE---KIGRRIGFFDES----WKNGSLEDKTSDILRILGKKKFLLLLDDI----WERVDLTKVGIPFP  252 (720)
Q Consensus       191 -------~~~~~~~---~i~~~l~~~~~~----~~~~~~~~~~~~l~~~l~~k~~LlVlDdv----~~~~~~~~l~~~~~  252 (720)
                             ...++.+   +.+...++....    .+-+.-++..-.|.+.+-+++-+|+=|+-    +....|+-+...-.
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                   1222322   233333332210    01222333444566666778888888853    33333432211111


Q ss_pred             CCCCCcEEEEEcCChhHhhhhc
Q 038398          253 DPENKSKIVFTTHFLEICGALK  274 (720)
Q Consensus       253 ~~~~gs~iiiTtR~~~v~~~~~  274 (720)
                      -+..|..||++|.+..+...+.
T Consensus       183 inr~GtTVl~ATHd~~lv~~~~  204 (223)
T COG2884         183 INRLGTTVLMATHDLELVNRMR  204 (223)
T ss_pred             HhhcCcEEEEEeccHHHHHhcc
Confidence            2456899999999998876653

>COG0572 Udk Uridine kinase [Nucleotide transport and metabolism]

Probab=96.44  E-value=0.0086  Score=56.84  Aligned_cols=79  Identities=20%  Similarity=0.182  Sum_probs=43.8

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHHHHHhCCCCCccCCCChhHHHHHHHHH
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKIGRRIGFFDESWKNGSLEDKTSDILRI  225 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~  225 (720)
                      .+-+|||.|.+|+||||+|+.++..+   ....-.+  ++...-+. ..-............+....-+.+-+.+.|...
T Consensus         7 ~~iiIgIaG~SgSGKTTva~~l~~~~---~~~~~~~--I~~D~YYk-~~~~~~~~~~~~~n~d~p~A~D~dLl~~~L~~L   80 (218)
T COG0572           7 KVIIIGIAGGSGSGKTTVAKELSEQL---GVEKVVV--ISLDDYYK-DQSHLPFEERNKINYDHPEAFDLDLLIEHLKDL   80 (218)
T ss_pred             ceEEEEEeCCCCCCHHHHHHHHHHHh---CcCcceE--eecccccc-chhhcCHhhcCCcCccChhhhcHHHHHHHHHHH
Confidence            45799999999999999999999988   3232111  11100000 000001111111122222345666777788888


Q ss_pred             hccCc
Q 038398          226 LGKKK  230 (720)
Q Consensus       226 l~~k~  230 (720)
                      +.+++
T Consensus        81 ~~g~~   85 (218)
T COG0572          81 KQGKP   85 (218)
T ss_pred             HcCCc
Confidence            88877

>KOG0744 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=96.40  E-value=0.0067  Score=59.95  Aligned_cols=81  Identities=17%  Similarity=0.229  Sum_probs=51.0

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhhcCCC--CCcCEEEEEEecCcCCHHHHHHHHHHHhCCCCCccCCCChhHHHHHHHH
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKLLGAP--NVFDVVIWVVVSKDLQLEKIQEKIGRRIGFFDESWKNGSLEDKTSDILR  224 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~--~~f~~~~wv~v~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~  224 (720)
                      .++|.++||+|.|||+|++++++.. .++  +.+....-+.++.    ..++.+-...        ...-...+.++|.+
T Consensus       177 NRliLlhGPPGTGKTSLCKaLaQkL-SIR~~~~y~~~~liEins----hsLFSKWFsE--------SgKlV~kmF~kI~E  243 (423)
T KOG0744|consen  177 NRLILLHGPPGTGKTSLCKALAQKL-SIRTNDRYYKGQLIEINS----HSLFSKWFSE--------SGKLVAKMFQKIQE  243 (423)
T ss_pred             eeEEEEeCCCCCChhHHHHHHHHhh-eeeecCccccceEEEEeh----hHHHHHHHhh--------hhhHHHHHHHHHHH
Confidence            5899999999999999999999987 332  3333333343322    1222222111        23445667777777


Q ss_pred             HhccCc--EEEEEecccc
Q 038398          225 ILGKKK--FLLLLDDIWE  240 (720)
Q Consensus       225 ~l~~k~--~LlVlDdv~~  240 (720)
                      .+.++.  +.+.+|+|.+
T Consensus       244 Lv~d~~~lVfvLIDEVES  261 (423)
T KOG0744|consen  244 LVEDRGNLVFVLIDEVES  261 (423)
T ss_pred             HHhCCCcEEEEEeHHHHH
Confidence            777765  3556898864

>cd03247 ABCC_cytochrome_bd The CYD subfamily implicated in cytochrome bd biogenesis

Probab=96.39  E-value=0.015  Score=54.68  Aligned_cols=127  Identities=20%  Similarity=0.191  Sum_probs=62.7

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHHHHHhCCCCC--c----------c-CC
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKIGRRIGFFDE--S----------W-KN  212 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i~~~l~~~~~--~----------~-~~  212 (720)
                      .-.+++|.|+.|+|||||++.+..-..    .-.+.+++.-.   ++......+...++....  .          . .-
T Consensus        27 ~Ge~~~i~G~nGsGKStLl~~l~G~~~----~~~G~i~~~g~---~~~~~~~~~~~~i~~~~q~~~~~~~tv~~~i~~~L   99 (178)
T cd03247          27 QGEKIALLGRSGSGKSTLLQLLTGDLK----PQQGEITLDGV---PVSDLEKALSSLISVLNQRPYLFDTTLRNNLGRRF   99 (178)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhccCC----CCCCEEEECCE---EHHHHHHHHHhhEEEEccCCeeecccHHHhhcccC
Confidence            346899999999999999999987641    11233333211   111111111111111000  0          0 01


Q ss_pred             CChhHHHHHHHHHhccCcEEEEEecccccccc---ccccccCCCCCCCcEEEEEcCChhHhhhhccCceeec
Q 038398          213 GSLEDKTSDILRILGKKKFLLLLDDIWERVDL---TKVGIPFPDPENKSKIVFTTHFLEICGALKAHEFLKV  281 (720)
Q Consensus       213 ~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~~---~~l~~~~~~~~~gs~iiiTtR~~~v~~~~~~~~~~~l  281 (720)
                      +.-+...-.+...+-.++-+++||+..+.-|.   +.+...+.....+..||++|.+......  ..+.+.+
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            11122233345556677889999987643221   1111111111236778888887766542  3444444

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.

>KOG0737 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=96.39  E-value=0.038  Score=56.09  Aligned_cols=50  Identities=30%  Similarity=0.275  Sum_probs=37.0

Q ss_pred             CCCcCchHHHHHHHHHhcC--------------CCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCc
Q 038398          126 EPTVGLESTFDKVWRCLGE--------------EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVF  178 (720)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~--------------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f  178 (720)
                      .++-|.+..++++.+...=              ....-|..+||+|.|||-||+++..+.   ...|
T Consensus        92 ~DIggLe~v~~~L~e~VilPlr~pelF~~g~Ll~p~kGiLL~GPpG~GKTmlAKA~Akea---ga~f  155 (386)
T KOG0737|consen   92 DDIGGLEEVKDALQELVILPLRRPELFAKGKLLRPPKGILLYGPPGTGKTMLAKAIAKEA---GANF  155 (386)
T ss_pred             hhccchHHHHHHHHHHHhhcccchhhhcccccccCCccceecCCCCchHHHHHHHHHHHc---CCCc
Confidence            3445777777776665421              245778999999999999999999987   4555

>KOG0738 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=96.39  E-value=0.035  Score=56.49  Aligned_cols=44  Identities=18%  Similarity=0.149  Sum_probs=31.5

Q ss_pred             CcCchHHHHHHHHHhcC------------CCceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          128 TVGLESTFDKVWRCLGE------------EQVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       128 ~vGr~~~~~~l~~~L~~------------~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      +.|.++.++-|.++..-            ..=+-|..+|++|.|||-||++|+...
T Consensus       214 Iagl~~AK~lL~EAVvlPi~mPe~F~GirrPWkgvLm~GPPGTGKTlLAKAvATEc  269 (491)
T KOG0738|consen  214 IAGLHEAKKLLKEAVVLPIWMPEFFKGIRRPWKGVLMVGPPGTGKTLLAKAVATEC  269 (491)
T ss_pred             hcchHHHHHHHHHHHhhhhhhHHHHhhcccccceeeeeCCCCCcHHHHHHHHHHhh
Confidence            45666655555554321            123568899999999999999999887

>TIGR02238 recomb_DMC1 meiotic recombinase Dmc1

Probab=96.36  E-value=0.02  Score=58.76  Aligned_cols=59  Identities=19%  Similarity=0.214  Sum_probs=41.9

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhhcCC---CCCcCEEEEEEecCcCCHHHHHHHHHHHhCCC
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKLLGA---PNVFDVVIWVVVSKDLQLEKIQEKIGRRIGFF  206 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~---~~~f~~~~wv~v~~~~~~~~~~~~i~~~l~~~  206 (720)
                      -+++-|+|++|+|||+|+.+++-.....   ...=..++||+....++...+.+ +++.++..
T Consensus        96 G~iteI~G~~GsGKTql~lqla~~~~~~~~~gg~~~~vvYIdtE~~f~~eRi~~-~a~~~g~d  157 (313)
T TIGR02238        96 MSITEVFGEFRCGKTQLSHTLCVTAQLPREMGGGNGKVAYIDTEGTFRPDRIRA-IAERFGVD  157 (313)
T ss_pred             CeEEEEECCCCCCcCHHHHHHHHHHhcchhhcCCCCeEEEEEcCCCCCHHHHHH-HHHHcCCC
Confidence            4688899999999999998876433110   11224789999988888887754 45666543

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.

>PRK13531 regulatory ATPase RavA; Provisional

Probab=96.36  E-value=0.011  Score=63.33  Aligned_cols=44  Identities=9%  Similarity=0.052  Sum_probs=38.2

Q ss_pred             CCCcCchHHHHHHHHHhcCCCceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          126 EPTVGLESTFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ..++||++.++.+...+..+  .-|.|.|++|+|||++|+.+....
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            35799999999998888654  458899999999999999999876

>PHA00729 NTP-binding motif containing protein

Probab=96.35  E-value=0.0047  Score=59.32  Aligned_cols=35  Identities=23%  Similarity=0.332  Sum_probs=28.8

Q ss_pred             HHHHHhcCCCceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          137 KVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       137 ~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      .+++.+...+...|.|+|.+|+||||||..+.+..
T Consensus         7 ~~~~~l~~~~f~nIlItG~pGvGKT~LA~aLa~~l   41 (226)
T PHA00729          7 KIVSAYNNNGFVSAVIFGKQGSGKTTYALKVARDV   41 (226)
T ss_pred             HHHHHHhcCCeEEEEEECCCCCCHHHHHHHHHHHH
Confidence            45555655666789999999999999999999875

>PF14532 Sigma54_activ_2: Sigma-54 interaction domain; PDB: 3CO5_B 3N70_H

Probab=96.34  E-value=0.0037  Score=56.03  Aligned_cols=43  Identities=21%  Similarity=0.303  Sum_probs=31.3

Q ss_pred             cCchHHHHHHHHHhcC--CCceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          129 VGLESTFDKVWRCLGE--EQVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       129 vGr~~~~~~l~~~L~~--~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ||....++++.+.+..  .....|.|+|..|+||+++|+.++...
T Consensus         1 vG~S~~~~~l~~~l~~~a~~~~pvli~GE~GtGK~~~A~~lh~~~   45 (138)
T PF14532_consen    1 VGKSPAMRRLRRQLERLAKSSSPVLITGEPGTGKSLLARALHRYS   45 (138)
T ss_dssp             --SCHHHHHHHHHHHHHHCSSS-EEEECCTTSSHHHHHHCCHHTT
T ss_pred             CCCCHHHHHHHHHHHHHhCCCCcEEEEcCCCCCHHHHHHHHHhhc
Confidence            5666677777666643  344668899999999999999998876

>PF01695 IstB_IS21: IstB-like ATP binding protein; InterPro: IPR002611 Proteins in this entry contain an ATP/GTP binding P-loop motif

Probab=96.34  E-value=0.011  Score=55.30  Aligned_cols=74  Identities=28%  Similarity=0.425  Sum_probs=42.6

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHHHHHhCCCCCccCCCChhHHHHHHHHH
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKIGRRIGFFDESWKNGSLEDKTSDILRI  225 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~  225 (720)
                      ...-+.++|++|+|||.||..+.+...  ... -.+.|+.+      .+++..+-..-       .....++    +.+.
T Consensus        46 ~~~~l~l~G~~G~GKThLa~ai~~~~~--~~g-~~v~f~~~------~~L~~~l~~~~-------~~~~~~~----~~~~  105 (178)
T PF01695_consen   46 NGENLILYGPPGTGKTHLAVAIANEAI--RKG-YSVLFITA------SDLLDELKQSR-------SDGSYEE----LLKR  105 (178)
T ss_dssp             C--EEEEEESTTSSHHHHHHHHHHHHH--HTT---EEEEEH------HHHHHHHHCCH-------CCTTHCH----HHHH
T ss_pred             cCeEEEEEhhHhHHHHHHHHHHHHHhc--cCC-cceeEeec------Cceeccccccc-------cccchhh----hcCc
Confidence            346799999999999999999988762  222 24566643      44554443221       1112222    2233


Q ss_pred             hccCcEEEEEecccc
Q 038398          226 LGKKKFLLLLDDIWE  240 (720)
Q Consensus       226 l~~k~~LlVlDdv~~  240 (720)
                      +. +.=||||||+..
T Consensus       106 l~-~~dlLilDDlG~  119 (178)
T PF01695_consen  106 LK-RVDLLILDDLGY  119 (178)
T ss_dssp             HH-TSSCEEEETCTS
T ss_pred             cc-cccEecccccce
Confidence            33 334788999864

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.

>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=96.29  E-value=0.0048  Score=54.78  Aligned_cols=24  Identities=54%  Similarity=0.580  Sum_probs=22.4

Q ss_pred             eEEEEEcCCCChHHHHHHHHHhhh
Q 038398          148 GIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      --|+|.||+|+||||+++.+.+..
T Consensus         6 mki~ITG~PGvGKtTl~~ki~e~L   29 (179)
T COG1618           6 MKIFITGRPGVGKTTLVLKIAEKL   29 (179)
T ss_pred             eEEEEeCCCCccHHHHHHHHHHHH
Confidence            468999999999999999999887

>cd01121 Sms Sms (bacterial radA) DNA repair protein

Probab=96.28  E-value=0.021  Score=60.03  Aligned_cols=83  Identities=30%  Similarity=0.393  Sum_probs=49.1

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHHHHHhCCCCCcc---CCCChhHHHHHHH
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKIGRRIGFFDESW---KNGSLEDKTSDIL  223 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i~~~l~~~~~~~---~~~~~~~~~~~l~  223 (720)
                      -.++.|.|.+|+|||||+.+++....   ..-..++|++...  +..++. .-+..++...+..   ...+.++    +.
T Consensus        82 GslvLI~G~pG~GKStLllq~a~~~a---~~g~~VlYvs~EE--s~~qi~-~Ra~rlg~~~~~l~l~~e~~le~----I~  151 (372)
T cd01121          82 GSVILIGGDPGIGKSTLLLQVAARLA---KRGGKVLYVSGEE--SPEQIK-LRADRLGISTENLYLLAETNLED----IL  151 (372)
T ss_pred             CeEEEEEeCCCCCHHHHHHHHHHHHH---hcCCeEEEEECCc--CHHHHH-HHHHHcCCCcccEEEEccCcHHH----HH
Confidence            46899999999999999999987762   2234678887543  233332 2234555432211   1122233    33


Q ss_pred             HHhc-cCcEEEEEeccc
Q 038398          224 RILG-KKKFLLLLDDIW  239 (720)
Q Consensus       224 ~~l~-~k~~LlVlDdv~  239 (720)
                      +.+. .+.-++|+|.+.
T Consensus       152 ~~i~~~~~~lVVIDSIq  168 (372)
T cd01121         152 ASIEELKPDLVIIDSIQ  168 (372)
T ss_pred             HHHHhcCCcEEEEcchH
Confidence            3332 356688888874

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.

>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=96.28  E-value=0.017  Score=60.25  Aligned_cols=88  Identities=22%  Similarity=0.223  Sum_probs=51.6

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecC-cCCHHHHHHHHHHHhCCCCCccCCCChhHHHHHHHHH
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSK-DLQLEKIQEKIGRRIGFFDESWKNGSLEDKTSDILRI  225 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~-~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~  225 (720)
                      -.+++++|+.|+||||++.++..... .......+.+++... .....+-++...+.++.+..  ...+..+....+ ..
T Consensus       137 g~ii~lvGptGvGKTTtiakLA~~~~-~~~G~~~V~lit~D~~R~ga~EqL~~~a~~~gv~~~--~~~~~~~l~~~l-~~  212 (374)
T PRK14722        137 GGVFALMGPTGVGKTTTTAKLAARCV-MRFGASKVALLTTDSYRIGGHEQLRIFGKILGVPVH--AVKDGGDLQLAL-AE  212 (374)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHH-HhcCCCeEEEEecccccccHHHHHHHHHHHcCCceE--ecCCcccHHHHH-HH
Confidence            47999999999999999999988751 111123566665432 22345556666666665432  122222333333 34


Q ss_pred             hccCcEEEEEeccc
Q 038398          226 LGKKKFLLLLDDIW  239 (720)
Q Consensus       226 l~~k~~LlVlDdv~  239 (720)
                      +.++. ++++|...
T Consensus       213 l~~~D-lVLIDTaG  225 (374)
T PRK14722        213 LRNKH-MVLIDTIG  225 (374)
T ss_pred             hcCCC-EEEEcCCC
Confidence            45554 55689874

>PRK00771 signal recognition particle protein Srp54; Provisional

Probab=96.28  E-value=0.027  Score=60.33  Aligned_cols=89  Identities=19%  Similarity=0.146  Sum_probs=51.0

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCc-CCHHHHHHHHHHHhCCCCCcc-CCCChhHHHHHHH
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKD-LQLEKIQEKIGRRIGFFDESW-KNGSLEDKTSDIL  223 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~-~~~~~~~~~i~~~l~~~~~~~-~~~~~~~~~~~l~  223 (720)
                      .+.+|.++|++|+||||+|..++.... . ..+ .+..|++... ....+.++.+..+++.+.... ...+.........
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-K-KGL-KVGLVAADTYRPAAYDQLKQLAEKIGVPFYGDPDNKDAVEIAKEGL  170 (437)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHH-H-cCC-eEEEecCCCCCHHHHHHHHHHHHHcCCcEEecCCccCHHHHHHHHH
Confidence            467899999999999999999988772 2 222 4444544321 223455666677766543211 1122233333333


Q ss_pred             HHhccCcEEEEEecc
Q 038398          224 RILGKKKFLLLLDDI  238 (720)
Q Consensus       224 ~~l~~k~~LlVlDdv  238 (720)
                      +.+.+. -++|+|..
T Consensus       171 ~~~~~~-DvVIIDTA  184 (437)
T PRK00771        171 EKFKKA-DVIIVDTA  184 (437)
T ss_pred             HHhhcC-CEEEEECC
Confidence            334443 56778876

>COG4608 AppF ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]

Probab=96.27  E-value=0.019  Score=56.20  Aligned_cols=125  Identities=18%  Similarity=0.152  Sum_probs=73.2

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecC-----cCCHHHHHHHHHHHhCCCCCc-----cCCCCh
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSK-----DLQLEKIQEKIGRRIGFFDES-----WKNGSL  215 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~-----~~~~~~~~~~i~~~l~~~~~~-----~~~~~~  215 (720)
                      .-.+++|+|.+|+||||+++.+..-.    ..-.+.+++.-.+     .....+-..+++...+....-     ..-+..
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            44789999999999999999998654    2222334433211     222344566677776654311     111222


Q ss_pred             hHHHHHHHHHhccCcEEEEEeccccccc------cccccccCCCCCCCcEEEEEcCChhHhhhhcc
Q 038398          216 EDKTSDILRILGKKKFLLLLDDIWERVD------LTKVGIPFPDPENKSKIVFTTHFLEICGALKA  275 (720)
Q Consensus       216 ~~~~~~l~~~l~~k~~LlVlDdv~~~~~------~~~l~~~~~~~~~gs~iiiTtR~~~v~~~~~~  275 (720)
                      +...-.+.+.|.-++-++|.|+.-+.-+      ...+...+ ....|-..++.|.+-.+...+..
T Consensus       114 QrQRi~IARALal~P~liV~DEpvSaLDvSiqaqIlnLL~dl-q~~~~lt~lFIsHDL~vv~~isd  178 (268)
T COG4608         114 QRQRIGIARALALNPKLIVADEPVSALDVSVQAQILNLLKDL-QEELGLTYLFISHDLSVVRYISD  178 (268)
T ss_pred             hhhhHHHHHHHhhCCcEEEecCchhhcchhHHHHHHHHHHHH-HHHhCCeEEEEEEEHHhhhhhcc
Confidence            2223346667788999999998654322      11221111 22346678888888888766543

>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=96.26  E-value=0.017  Score=54.10  Aligned_cols=23  Identities=48%  Similarity=0.602  Sum_probs=21.1

Q ss_pred             EEEEEcCCCChHHHHHHHHHhhh
Q 038398          149 IIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ++.+.|++|+||||++..+....
T Consensus         2 ~~~~~G~~G~GKTt~~~~la~~~   24 (173)
T cd03115           2 VILLVGLQGVGKTTTAAKLALYL   24 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            67899999999999999998876

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.

>TIGR03877 thermo_KaiC_1 KaiC domain protein, Ph0284 family

Probab=96.25  E-value=0.028  Score=55.66  Aligned_cols=48  Identities=15%  Similarity=0.186  Sum_probs=34.4

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHH
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEK  198 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~  198 (720)
                      .-.++.|.|++|+|||++|.++....   -..-..++||+...  +..++.+.
T Consensus        20 ~gs~~lI~G~pGsGKT~la~~~l~~~---~~~ge~~lyvs~ee--~~~~i~~~   67 (237)
T TIGR03877        20 ERNVVLLSGGPGTGKSIFSQQFLWNG---LQMGEPGIYVALEE--HPVQVRRN   67 (237)
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHH---HHcCCcEEEEEeeC--CHHHHHHH
Confidence            45799999999999999999876654   12245788888754  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.

>PRK10463 hydrogenase nickel incorporation protein HypB; Provisional

Probab=96.23  E-value=0.017  Score=57.77  Aligned_cols=33  Identities=30%  Similarity=0.342  Sum_probs=27.8

Q ss_pred             HHHhcCCCceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          139 WRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       139 ~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      .+++...+..+|.|.|.+|+|||||+..+....
T Consensus        96 r~~~~~~~~~~v~l~G~pGsGKTTLl~~l~~~l  128 (290)
T PRK10463         96 RARFAARKQLVLNLVSSPGSGKTTLLTETLMRL  128 (290)
T ss_pred             HHHHHhcCCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            334444678999999999999999999999886

>PF00485 PRK: Phosphoribulokinase / Uridine kinase family; InterPro: IPR006083 Phosphoribulokinase (PRK) 2

Probab=96.20  E-value=0.0038  Score=59.69  Aligned_cols=83  Identities=18%  Similarity=0.194  Sum_probs=44.8

Q ss_pred             EEEEEcCCCChHHHHHHHHHhhhcCCCCCcC---EEEEEEecCcCCHHHHHHHHHHHh-CCCCCccCCCChhHHHHHHHH
Q 038398          149 IIGLYGMGGVGKTTLLTKINNKLLGAPNVFD---VVIWVVVSKDLQLEKIQEKIGRRI-GFFDESWKNGSLEDKTSDILR  224 (720)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~---~~~wv~v~~~~~~~~~~~~i~~~l-~~~~~~~~~~~~~~~~~~l~~  224 (720)
                      ||+|.|++|+||||+|+.+.....  .....   ....+..............-...- ..........+.+.+.+.+..
T Consensus         1 IIgI~G~sgSGKTTla~~L~~~L~--~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~p~a~d~~~l~~~l~~   78 (194)
T PF00485_consen    1 IIGIAGPSGSGKTTLAKRLAQILN--KRGIPAMEMDIILSLDDFYDDYHLRDRKGRGENRYNFDHPDAFDFDLLKEDLKA   78 (194)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHT--TCTTTCCCSEEEEEGGGGBHHHHHHHHHHHCTTTSSTTSGGGBSHHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHHHhC--ccCcCccceeEEEeecccccccchhhHhhccccccCCCCccccCHHHHHHHHHH
Confidence            799999999999999999999882  12222   233443333222222222211110 111111134556667777777


Q ss_pred             HhccCcEEE
Q 038398          225 ILGKKKFLL  233 (720)
Q Consensus       225 ~l~~k~~Ll  233 (720)
                      ...++.+-+
T Consensus        79 L~~g~~i~~   87 (194)
T PF00485_consen   79 LKNGGSIEI   87 (194)
T ss_dssp             HHTTSCEEE
T ss_pred             HhCCCcccc
Confidence            666666544

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 ....

>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=96.20  E-value=0.0038  Score=55.09  Aligned_cols=22  Identities=41%  Similarity=0.794  Sum_probs=20.2

Q ss_pred             EEEEcCCCChHHHHHHHHHhhh
Q 038398          150 IGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       150 i~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      |+|.|++|+||||+|+.+....
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            7899999999999999998874

...

>COG1875 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]

Probab=96.16  E-value=0.0099  Score=59.95  Aligned_cols=52  Identities=15%  Similarity=0.185  Sum_probs=36.7

Q ss_pred             CchHHHHHHHHHhcCCCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEE
Q 038398          130 GLESTFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVV  181 (720)
Q Consensus       130 Gr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~  181 (720)
                      +|..+..--.++|.++.+..|.+.|.+|.|||-||-+..-..-..+..|..+
T Consensus       228 prn~eQ~~ALdlLld~dI~lV~L~G~AGtGKTlLALaAgleqv~e~~~y~Ki  279 (436)
T COG1875         228 PRNAEQRVALDLLLDDDIDLVSLGGKAGTGKTLLALAAGLEQVLERKRYRKI  279 (436)
T ss_pred             cccHHHHHHHHHhcCCCCCeEEeeccCCccHhHHHHHHHHHHHHHHhhhceE
Confidence            5666666667888889999999999999999988865432221234455533

>KOG1947 consensus Leucine rich repeat proteins, some proteins contain F-box [General function prediction only]

Probab=96.16  E-value=0.0041  Score=68.95  Aligned_cols=209  Identities=21%  Similarity=0.247  Sum_probs=106.5

Q ss_pred             ccceeEEEecccc-ccc--C-CCCCCCCcccEEEccCC-C-CcCcc---hHHhccCCcccEEEccCCCCCcc-CCcccc-
Q 038398          493 WRNVRRMSLMKNK-IEN--L-SETPTCPHLLSLFLSDN-S-LKMST---DDFFQSMPSLRVFNMSNNHLLWK-LPSGIS-  561 (720)
Q Consensus       493 ~~~l~~L~l~~~~-~~~--~-~~~~~~~~L~~L~l~~~-~-~~~~~---~~~~~~l~~L~~L~L~~~~~~~~-lp~~i~-  561 (720)
                      ++.++.+.+.++. +..  + +....+++|+.|.++++ . ....+   ......+++|+.|+++++..+.. .-..+. 
T Consensus       187 ~~~L~~l~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~L~~l~l~~~~~isd~~l~~l~~  266 (482)
T KOG1947|consen  187 CPLLKRLSLSGCSKITDDSLDALALKCPNLEELDLSGCCLLITLSPLLLLLLLSICRKLKSLDLSGCGLVTDIGLSALAS  266 (482)
T ss_pred             CchhhHhhhcccccCChhhHHHHHhhCchhheecccCcccccccchhHhhhhhhhcCCcCccchhhhhccCchhHHHHHh
Confidence            4566666666553 221  1 22356788888888763 1 11111   12345667888888888753222 111222 


Q ss_pred             CCCCCCEEeccCCC-Ccc--cchhhhcCCCCCEEeccCCcCCCC--CchhhhhccccCceeeccccCC-Ccccchhcccc
Q 038398          562 TLVSLEHLDLSSTA-ITH--LPIELQKLVNLKCLNLEYMNNLNQ--FPRLVISAFSKLQVLRMFDCGG-SKIERLKINVL  635 (720)
Q Consensus       562 ~l~~L~~L~L~~~~-i~~--lp~~i~~l~~L~~L~l~~~~~l~~--lp~~~~~~l~~L~~L~~~~~~~-~~l~~l~~~~~  635 (720)
                      .+++|++|.+.+|. ++.  +-.....+++|++|++++|..+..  +... ...+++|+.|.+..+.. ..++.......
T Consensus       267 ~c~~L~~L~l~~c~~lt~~gl~~i~~~~~~L~~L~l~~c~~~~d~~l~~~-~~~c~~l~~l~~~~~~~c~~l~~~~l~~~  345 (482)
T KOG1947|consen  267 RCPNLETLSLSNCSNLTDEGLVSIAERCPSLRELDLSGCHGLTDSGLEAL-LKNCPNLRELKLLSLNGCPSLTDLSLSGL  345 (482)
T ss_pred             hCCCcceEccCCCCccchhHHHHHHHhcCcccEEeeecCccchHHHHHHH-HHhCcchhhhhhhhcCCCccHHHHHHHHh
Confidence            36788888877774 542  223355677788888888765432  2222 34466666666655543 11222221111


Q ss_pred             cCCc--cccHHHhcCCCCCceeEEEecchhhHHHHhhhhhhhhhcc-ccccccccCCCccccccc-cccCCcceeeecCC
Q 038398          636 FGGH--QFLVEELMGMKHLMVLTITLKSWQALKELLISQELQRSTQ-SLFLRCFNDSKSLDIFCL-AGLRNLNKLYVAGC  711 (720)
Q Consensus       636 ~~~~--~~~~~~l~~l~~L~~L~~~~~~~~~l~~l~~~~~~~~~L~-~L~l~~~~~l~~l~~~~l-~~l~~L~~L~l~~c  711 (720)
                      ....  ......+.++++++.+.+......             ... .+.+.+|+.++ ..+... .....|+.|+++.|
T Consensus       346 ~~~~~d~~~~~~~~~~~~l~~~~l~~~~~~-------------~~~~~~~l~gc~~l~-~~l~~~~~~~~~l~~L~l~~~  411 (482)
T KOG1947|consen  346 LTLTSDDLAELILRSCPKLTDLSLSYCGIS-------------DLGLELSLRGCPNLT-ESLELRLCRSDSLRVLNLSDC  411 (482)
T ss_pred             hccCchhHhHHHHhcCCCcchhhhhhhhcc-------------CcchHHHhcCCcccc-hHHHHHhccCCccceEecccC
Confidence            1111  223334445555555555433311             111 45566666663 222222 22233788888888


Q ss_pred             CCCcc
Q 038398          712 KHLED  716 (720)
Q Consensus       712 ~~l~~  716 (720)
                      ..+..
T Consensus       412 ~~~t~  416 (482)
T KOG1947|consen  412 RLVTD  416 (482)
T ss_pred             ccccc
Confidence            87653

>PF13306 LRR_5: Leucine rich repeats (6 copies); PDB: 3ZYJ_A 3V47_B 3V44_A 3ZYN_A 3ZYO_A 3SB4_A

Probab=96.15  E-value=0.017  Score=50.95  Aligned_cols=117  Identities=24%  Similarity=0.357  Sum_probs=45.0

Q ss_pred             cccccceeEEEecccccccCCC--CCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCccCCccccCCCCCC
Q 038398          490 IQNWRNVRRMSLMKNKIENLSE--TPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVSLE  567 (720)
Q Consensus       490 ~~~~~~l~~L~l~~~~~~~~~~--~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~  567 (720)
                      +..+++++.+.+.. .+..++.  +..+++|+.+.+..+ +..+....|.+++.|+.+.+..+ ....-...+..+.+|+
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-LTSIGDNAFSNCKSLESITFPNN-LKSIGDNAFSNCTNLK   84 (129)
T ss_dssp             TTT-TT--EEEETS-T--EE-TTTTTT-TT-SEEEESST-TSCE-TTTTTT-TT-EEEEETST-T-EE-TTTTTT-TTEC
T ss_pred             HhCCCCCCEEEECC-CeeEeChhhccccccccccccccc-ccccceeeeeccccccccccccc-cccccccccccccccc
Confidence            34445566666553 3333322  245556666666554 55555555666666666666542 2222223444566666


Q ss_pred             EEeccCCCCcccchh-hhcCCCCCEEeccCCcCCCCCchhhhhcccc
Q 038398          568 HLDLSSTAITHLPIE-LQKLVNLKCLNLEYMNNLNQFPRLVISAFSK  613 (720)
Q Consensus       568 ~L~L~~~~i~~lp~~-i~~l~~L~~L~l~~~~~l~~lp~~~~~~l~~  613 (720)
                      .+.+..+ +..++.. +.+. +|+.+.+..  .+..++...+.++++
T Consensus        85 ~i~~~~~-~~~i~~~~f~~~-~l~~i~~~~--~~~~i~~~~F~~~~~  127 (129)
T PF13306_consen   85 NIDIPSN-ITEIGSSSFSNC-NLKEINIPS--NITKIEENAFKNCTK  127 (129)
T ss_dssp             EEEETTT--BEEHTTTTTT--T--EEE-TT--B-SS----GGG----
T ss_pred             ccccCcc-ccEEchhhhcCC-CceEEEECC--CccEECCcccccccc
Confidence            6666543 4444332 4444 666665543  334455444444443

>PRK06067 flagellar accessory protein FlaH; Validated

Probab=96.14  E-value=0.036  Score=54.75  Aligned_cols=88  Identities=13%  Similarity=0.175  Sum_probs=54.1

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHHHHHhCCCCCc----------------
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKIGRRIGFFDES----------------  209 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i~~~l~~~~~~----------------  209 (720)
                      .-+++.|.|.+|+|||++|.++.....   ..=..++|++....  ..++.+.+ .+++....+                
T Consensus        24 ~g~~~~i~G~~GsGKt~l~~~~~~~~~---~~g~~~~y~~~e~~--~~~~~~~~-~~~g~~~~~~~~~g~l~i~~~~~~~   97 (234)
T PRK06067         24 FPSLILIEGDHGTGKSVLSQQFVYGAL---KQGKKVYVITTENT--SKSYLKQM-ESVKIDISDFFLWGYLRIFPLNTEG   97 (234)
T ss_pred             CCcEEEEECCCCCChHHHHHHHHHHHH---hCCCEEEEEEcCCC--HHHHHHHH-HHCCCChhHHHhCCCceEEeccccc
Confidence            357899999999999999999865541   12347888888654  34454443 233321110                


Q ss_pred             --cCCCChhHHHHHHHHHhcc-CcEEEEEeccc
Q 038398          210 --WKNGSLEDKTSDILRILGK-KKFLLLLDDIW  239 (720)
Q Consensus       210 --~~~~~~~~~~~~l~~~l~~-k~~LlVlDdv~  239 (720)
                        ......++....+.+.+.. +.-++|+|.+-
T Consensus        98 ~~~~~~~~~~ll~~l~~~i~~~~~~~iviDs~t  130 (234)
T PRK06067         98 FEWNSTLANKLLELIIEFIKSKREDVIIIDSLT  130 (234)
T ss_pred             cccCcchHHHHHHHHHHHHHhcCCCEEEEecHH
Confidence              0112234556666666654 55588899864

>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=96.14  E-value=0.0044  Score=47.80  Aligned_cols=23  Identities=39%  Similarity=0.654  Sum_probs=20.9

Q ss_pred             EEEEEcCCCChHHHHHHHHHhhh
Q 038398          149 IIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      +|+|.|.+|+||||+++.+.+..
T Consensus         1 ~i~i~G~~gsGKst~~~~l~~~l   23 (69)
T cd02019           1 IIAITGGSGSGKSTVAKKLAEQL   23 (69)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHh
Confidence            47899999999999999998874

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.

>COG0465 HflB ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]

Probab=96.13  E-value=0.043  Score=60.29  Aligned_cols=172  Identities=13%  Similarity=0.128  Sum_probs=89.3

Q ss_pred             CCCcCchHHHH---HHHHHhcCC---------CceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHH
Q 038398          126 EPTVGLESTFD---KVWRCLGEE---------QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLE  193 (720)
Q Consensus       126 ~~~vGr~~~~~---~l~~~L~~~---------~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~  193 (720)
                      .+.-|.|+.++   ++++.|.+.         -++-|..+|++|.|||.||+++.... .+  .|     .+.|...   
T Consensus       150 ~DVAG~dEakeel~EiVdfLk~p~ky~~lGakiPkGvlLvGpPGTGKTLLAkAvAgEA-~V--PF-----f~iSGS~---  218 (596)
T COG0465         150 ADVAGVDEAKEELSELVDFLKNPKKYQALGAKIPKGVLLVGPPGTGKTLLAKAVAGEA-GV--PF-----FSISGSD---  218 (596)
T ss_pred             hhhcCcHHHHHHHHHHHHHHhCchhhHhcccccccceeEecCCCCCcHHHHHHHhccc-CC--Cc-----eeccchh---
Confidence            34568887655   456666642         24678899999999999999999886 33  22     2222210   


Q ss_pred             HHHHHHHHHhCCCCCccCCCChhHHHHHHHHHhccCcEEEEEecccccc----------------ccccccccCCCCC--
Q 038398          194 KIQEKIGRRIGFFDESWKNGSLEDKTSDILRILGKKKFLLLLDDIWERV----------------DLTKVGIPFPDPE--  255 (720)
Q Consensus       194 ~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~----------------~~~~l~~~~~~~~--  255 (720)
                           ....+       .........+...+..++-++++++|.++...                .+..+...+..++  
T Consensus       219 -----FVemf-------VGvGAsRVRdLF~qAkk~aP~IIFIDEiDAvGr~Rg~g~GggnderEQTLNQlLvEmDGF~~~  286 (596)
T COG0465         219 -----FVEMF-------VGVGASRVRDLFEQAKKNAPCIIFIDEIDAVGRQRGAGLGGGNDEREQTLNQLLVEMDGFGGN  286 (596)
T ss_pred             -----hhhhh-------cCCCcHHHHHHHHHhhccCCCeEEEehhhhcccccCCCCCCCchHHHHHHHHHHhhhccCCCC
Confidence                 00010       00111122223333445568999999886421                1222222222222  


Q ss_pred             CCcEEEEEcCChhHhhh-----hccCceeeccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCcch
Q 038398          256 NKSKIVFTTHFLEICGA-----LKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGLPL  324 (720)
Q Consensus       256 ~gs~iiiTtR~~~v~~~-----~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~GlPL  324 (720)
                      .|-.|+..|..++|...     -.-+..+.++..+-..-.+.++-++.........++..    |++.+-|.--
T Consensus       287 ~gviviaaTNRpdVlD~ALlRpgRFDRqI~V~~PDi~gRe~IlkvH~~~~~l~~~Vdl~~----iAr~tpGfsG  356 (596)
T COG0465         287 EGVIVIAATNRPDVLDPALLRPGRFDRQILVELPDIKGREQILKVHAKNKPLAEDVDLKK----IARGTPGFSG  356 (596)
T ss_pred             CceEEEecCCCcccchHhhcCCCCcceeeecCCcchhhHHHHHHHHhhcCCCCCcCCHHH----HhhhCCCccc
Confidence            23334444444444321     12234566666666777777776665444333333332    7777766554

>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=96.13  E-value=0.018  Score=54.32  Aligned_cols=121  Identities=21%  Similarity=0.247  Sum_probs=63.5

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEec--CcCCHHHHH------HHHHHHhCCCCC---cc-CCC
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVS--KDLQLEKIQ------EKIGRRIGFFDE---SW-KNG  213 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~--~~~~~~~~~------~~i~~~l~~~~~---~~-~~~  213 (720)
                      .-.+++|+|+.|+|||||++.++...    ....+.+++.-.  ...+.....      .+++..++....   .. .-+
T Consensus        24 ~G~~~~l~G~nGsGKStLl~~i~G~~----~~~~G~v~~~g~~~~~~~~~~~~~~i~~~~q~l~~~gl~~~~~~~~~~LS   99 (180)
T cd03214          24 AGEIVGILGPNGAGKSTLLKTLAGLL----KPSSGEILLDGKDLASLSPKELARKIAYVPQALELLGLAHLADRPFNELS   99 (180)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC----CCCCcEEEECCEECCcCCHHHHHHHHhHHHHHHHHcCCHhHhcCCcccCC
Confidence            34689999999999999999998754    123344443211  111221211      114455544321   00 111


Q ss_pred             ChhHHHHHHHHHhccCcEEEEEeccccccc---cccccccCCC--CCCCcEEEEEcCChhHh
Q 038398          214 SLEDKTSDILRILGKKKFLLLLDDIWERVD---LTKVGIPFPD--PENKSKIVFTTHFLEIC  270 (720)
Q Consensus       214 ~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~---~~~l~~~~~~--~~~gs~iiiTtR~~~v~  270 (720)
                      .-+...-.+...+-..+-++++|+.-...|   ...+...+..  ...+..||++|.+....
T Consensus       100 ~G~~qrl~laral~~~p~llllDEP~~~LD~~~~~~~~~~l~~~~~~~~~tiii~sh~~~~~  161 (180)
T cd03214         100 GGERQRVLLARALAQEPPILLLDEPTSHLDIAHQIELLELLRRLARERGKTVVMVLHDLNLA  161 (180)
T ss_pred             HHHHHHHHHHHHHhcCCCEEEEeCCccCCCHHHHHHHHHHHHHHHHhcCCEEEEEeCCHHHH
Confidence            222333345556667888999998754322   2222222211  11267788888876654

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.

>COG0194 Gmk Guanylate kinase [Nucleotide transport and metabolism]

Probab=96.11  E-value=0.019  Score=52.62  Aligned_cols=24  Identities=38%  Similarity=0.450  Sum_probs=21.8

Q ss_pred             eEEEEEcCCCChHHHHHHHHHhhh
Q 038398          148 GIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      .++.|.||+|+|||||+++++++.
T Consensus         5 ~l~vlsgPSG~GKsTl~k~L~~~~   28 (191)
T COG0194           5 LLIVLSGPSGVGKSTLVKALLEDD   28 (191)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhhc
Confidence            578899999999999999999874

>TIGR03499 FlhF flagellar biosynthetic protein FlhF

Probab=96.11  E-value=0.023  Score=57.61  Aligned_cols=88  Identities=23%  Similarity=0.224  Sum_probs=47.7

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcC-CHHHHHHHHHHHhCCCCCccCCCChhHHHHHHHH
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDL-QLEKIQEKIGRRIGFFDESWKNGSLEDKTSDILR  224 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~-~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~  224 (720)
                      ..++|+|+|++|+||||++..++... .....-..+..|+..... .....+......++.+..  ...+..+....+. 
T Consensus       193 ~~~vi~~vGptGvGKTTt~~kLa~~~-~~~~g~~~V~li~~D~~r~~a~eql~~~~~~~~~p~~--~~~~~~~l~~~l~-  268 (282)
T TIGR03499       193 QGGVIALVGPTGVGKTTTLAKLAARF-VLEHGNKKVALITTDTYRIGAVEQLKTYAKILGVPVK--VARDPKELRKALD-  268 (282)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH-HHHcCCCeEEEEECCccchhHHHHHHHHHHHhCCcee--ccCCHHHHHHHHH-
Confidence            35799999999999999999988776 111111345666643321 223333444444444331  2223334433333 


Q ss_pred             HhccCcEEEEEecc
Q 038398          225 ILGKKKFLLLLDDI  238 (720)
Q Consensus       225 ~l~~k~~LlVlDdv  238 (720)
                      .+.+ .=+|++|..
T Consensus       269 ~~~~-~d~vliDt~  281 (282)
T TIGR03499       269 RLRD-KDLILIDTA  281 (282)
T ss_pred             HccC-CCEEEEeCC
Confidence            3333 346777753

>TIGR02239 recomb_RAD51 DNA repair protein RAD51

Probab=96.10  E-value=0.032  Score=57.50  Aligned_cols=59  Identities=17%  Similarity=0.195  Sum_probs=40.0

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhhcC---CCCCcCEEEEEEecCcCCHHHHHHHHHHHhCC
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKLLG---APNVFDVVIWVVVSKDLQLEKIQEKIGRRIGF  205 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~---~~~~f~~~~wv~v~~~~~~~~~~~~i~~~l~~  205 (720)
                      .-.++.|+|.+|+|||||+..++.....   ....-..++|++....+....+ .++++.++.
T Consensus        95 ~g~i~~i~G~~g~GKT~l~~~~~~~~~~~~~~Gg~~~~vvyIdtE~~f~~~Rl-~~ia~~~~~  156 (316)
T TIGR02239        95 TGSITEIFGEFRTGKTQLCHTLAVTCQLPIDQGGGEGKALYIDTEGTFRPERL-LAIAERYGL  156 (316)
T ss_pred             CCeEEEEECCCCCCcCHHHHHHHHHHhhhhhcCCCCceEEEEECCCCCCHHHH-HHHHHHcCC
Confidence            3578999999999999999988754310   1112236799998887777664 334555543

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).

>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=96.10  E-value=0.029  Score=52.09  Aligned_cols=125  Identities=14%  Similarity=0.165  Sum_probs=63.0

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhhcCCCCC--cC---EEEEEEecCcCCH--HHHHHHHHHHhCCCCCccCCCChhHH
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNV--FD---VVIWVVVSKDLQL--EKIQEKIGRRIGFFDESWKNGSLEDK  218 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~--f~---~~~wv~v~~~~~~--~~~~~~i~~~l~~~~~~~~~~~~~~~  218 (720)
                      .-.+++|+|+.|.|||||++.+........+.  ++   .+.++  .+....  ..+.+.+.-.   ...  .-+.-+..
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            34689999999999999999998764211111  11   12222  222211  1233332210   110  12222333


Q ss_pred             HHHHHHHhccCcEEEEEeccccccc---cccccccCCCCCCCcEEEEEcCChhHhhhhccCceeec
Q 038398          219 TSDILRILGKKKFLLLLDDIWERVD---LTKVGIPFPDPENKSKIVFTTHFLEICGALKAHEFLKV  281 (720)
Q Consensus       219 ~~~l~~~l~~k~~LlVlDdv~~~~~---~~~l~~~~~~~~~gs~iiiTtR~~~v~~~~~~~~~~~l  281 (720)
                      .-.+...+-.++-++++|+--+.-|   ...+...+...  +..||++|.+.....  ..++.+.+
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            3445556667778899998654322   11121112111  356888887766543  23444443

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

>PRK14723 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=96.09  E-value=0.3  Score=55.68  Aligned_cols=88  Identities=25%  Similarity=0.310  Sum_probs=51.4

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecC-cCCHHHHHHHHHHHhCCCCCccCCCChhHHHHHHHHH
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSK-DLQLEKIQEKIGRRIGFFDESWKNGSLEDKTSDILRI  225 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~-~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~  225 (720)
                      ..+|+++|+.|+||||++..++.... .......+..++... .....+.++.....++.+..  ...+..+....+. .
T Consensus       185 g~Vi~lVGpnGvGKTTTiaKLA~~~~-~~~G~kkV~lit~Dt~RigA~eQL~~~a~~~gvpv~--~~~~~~~l~~al~-~  260 (767)
T PRK14723        185 GGVLALVGPTGVGKTTTTAKLAARCV-AREGADQLALLTTDSFRIGALEQLRIYGRILGVPVH--AVKDAADLRFALA-A  260 (767)
T ss_pred             CeEEEEECCCCCcHHHHHHHHHhhHH-HHcCCCeEEEecCcccchHHHHHHHHHHHhCCCCcc--ccCCHHHHHHHHH-H
Confidence            47999999999999999998887651 111123455555432 12244556666666665432  2234455444443 3


Q ss_pred             hccCcEEEEEeccc
Q 038398          226 LGKKKFLLLLDDIW  239 (720)
Q Consensus       226 l~~k~~LlVlDdv~  239 (720)
                      +.++. ++++|-..
T Consensus       261 ~~~~D-~VLIDTAG  273 (767)
T PRK14723        261 LGDKH-LVLIDTVG  273 (767)
T ss_pred             hcCCC-EEEEeCCC
Confidence            44443 66677654

>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=96.08  E-value=0.02  Score=51.68  Aligned_cols=104  Identities=23%  Similarity=0.309  Sum_probs=55.3

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHHHHHhCCCCCccCCCChhHHHHHHHHH
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKIGRRIGFFDESWKNGSLEDKTSDILRI  225 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~  225 (720)
                      .-.+++|+|+.|.|||||++.+..-..    ...+.+|+.-..             .++.-.   +-+.-+...-.+...
T Consensus        25 ~Ge~~~i~G~nGsGKStLl~~l~G~~~----~~~G~i~~~~~~-------------~i~~~~---~lS~G~~~rv~lara   84 (144)
T cd03221          25 PGDRIGLVGRNGAGKSTLLKLIAGELE----PDEGIVTWGSTV-------------KIGYFE---QLSGGEKMRLALAKL   84 (144)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHcCCCC----CCceEEEECCeE-------------EEEEEc---cCCHHHHHHHHHHHH
Confidence            346899999999999999999977641    223334432100             000000   011122233334555


Q ss_pred             hccCcEEEEEeccccccc---cccccccCCCCCCCcEEEEEcCChhHhh
Q 038398          226 LGKKKFLLLLDDIWERVD---LTKVGIPFPDPENKSKIVFTTHFLEICG  271 (720)
Q Consensus       226 l~~k~~LlVlDdv~~~~~---~~~l~~~~~~~~~gs~iiiTtR~~~v~~  271 (720)
                      +-.++-++++|+.-..-|   ...+...+...  +..||++|.+.....
T Consensus        85 l~~~p~illlDEP~~~LD~~~~~~l~~~l~~~--~~til~~th~~~~~~  131 (144)
T cd03221          85 LLENPNLLLLDEPTNHLDLESIEALEEALKEY--PGTVILVSHDRYFLD  131 (144)
T ss_pred             HhcCCCEEEEeCCccCCCHHHHHHHHHHHHHc--CCEEEEEECCHHHHH
Confidence            666777999998754322   12221112111  246888887765543

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.

>PLN03187 meiotic recombination protein DMC1 homolog; Provisional

Probab=96.06  E-value=0.027  Score=58.33  Aligned_cols=59  Identities=19%  Similarity=0.146  Sum_probs=42.3

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhhcC---CCCCcCEEEEEEecCcCCHHHHHHHHHHHhCCC
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKLLG---APNVFDVVIWVVVSKDLQLEKIQEKIGRRIGFF  206 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~~~---~~~~f~~~~wv~v~~~~~~~~~~~~i~~~l~~~  206 (720)
                      -.++-|+|++|+|||+|+.+++-....   ....-..++||+....+...++.+ +++.++..
T Consensus       126 G~ItEI~G~~GsGKTql~lqlav~~qlp~~~gg~~~~vvyIdTE~tF~peRl~~-ia~~~g~d  187 (344)
T PLN03187        126 RCITEAFGEFRSGKTQLAHTLCVTTQLPTEMGGGNGKVAYIDTEGTFRPDRIVP-IAERFGMD  187 (344)
T ss_pred             CeEEEEecCCCCChhHHHHHHHHHHhcchhhCCCCceEEEEEcCCCCCHHHHHH-HHHHcCCC
Confidence            468889999999999999988643311   112234889999999888888755 45666543

>PRK07667 uridine kinase; Provisional

Probab=96.06  E-value=0.0082  Score=57.26  Aligned_cols=37  Identities=22%  Similarity=0.449  Sum_probs=29.0

Q ss_pred             HHHHHHHhcC--CCceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          135 FDKVWRCLGE--EQVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       135 ~~~l~~~L~~--~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      .+.|.+.+..  +...+|+|.|.+|+||||+|+.+....
T Consensus         3 ~~~~~~~~~~~~~~~~iIgI~G~~gsGKStla~~L~~~l   41 (193)
T PRK07667          3 TNELINIMKKHKENRFILGIDGLSRSGKTTFVANLKENM   41 (193)
T ss_pred             HHHHHHHHHhcCCCCEEEEEECCCCCCHHHHHHHHHHHH
Confidence            3455555533  345799999999999999999999876

>PRK08233 hypothetical protein; Provisional

Probab=96.06  E-value=0.0053  Score=58.05  Aligned_cols=25  Identities=40%  Similarity=0.587  Sum_probs=23.0

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ..+|+|.|++|+||||||+.+....
T Consensus         3 ~~iI~I~G~~GsGKtTla~~L~~~l   27 (182)
T PRK08233          3 TKIITIAAVSGGGKTTLTERLTHKL   27 (182)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhhC
Confidence            4689999999999999999999876

>KOG2123 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.05  E-value=0.00093  Score=64.37  Aligned_cols=93  Identities=25%  Similarity=0.401  Sum_probs=74.7

Q ss_pred             EEcCCCCccCcccccccceeEEEecccccccCCCCCCCCcccEEEccCCCCcCcch-HHhccCCcccEEEccCCCCCccC
Q 038398          478 VHAGLGLTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTD-DFFQSMPSLRVFNMSNNHLLWKL  556 (720)
Q Consensus       478 ~~~~~~~~~~~~~~~~~~l~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~-~~~~~l~~L~~L~L~~~~~~~~l  556 (720)
                      ...|.++.++.-...++.|..|+|+-|+|+.+..+..|++|+.|+|..|.+..+.. ..+.++++|+.|-|..|.-.+.-
T Consensus        25 Ncwg~~L~DIsic~kMp~lEVLsLSvNkIssL~pl~rCtrLkElYLRkN~I~sldEL~YLknlpsLr~LWL~ENPCc~~a  104 (388)
T KOG2123|consen   25 NCWGCGLDDISICEKMPLLEVLSLSVNKISSLAPLQRCTRLKELYLRKNCIESLDELEYLKNLPSLRTLWLDENPCCGEA  104 (388)
T ss_pred             cccCCCccHHHHHHhcccceeEEeeccccccchhHHHHHHHHHHHHHhcccccHHHHHHHhcCchhhhHhhccCCccccc
Confidence            34566677777778889999999999999999999999999999999998776643 23789999999999998766655


Q ss_pred             Ccc-----ccCCCCCCEEe
Q 038398          557 PSG-----ISTLVSLEHLD  570 (720)
Q Consensus       557 p~~-----i~~l~~L~~L~  570 (720)
                      +..     +.-||+|+.||
T Consensus       105 g~nYR~~VLR~LPnLkKLD  123 (388)
T KOG2123|consen  105 GQNYRRKVLRVLPNLKKLD  123 (388)
T ss_pred             chhHHHHHHHHcccchhcc
Confidence            433     44677777775

>TIGR01425 SRP54_euk signal recognition particle protein SRP54

Probab=96.02  E-value=0.14  Score=54.49  Aligned_cols=26  Identities=35%  Similarity=0.457  Sum_probs=23.1

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ...+|.++|++|+||||+|..++...
T Consensus        99 ~~~vi~lvG~~GvGKTTtaaKLA~~l  124 (429)
T TIGR01425        99 KQNVIMFVGLQGSGKTTTCTKLAYYY  124 (429)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            46899999999999999999988766

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.

>PRK09270 nucleoside triphosphate hydrolase domain-containing protein; Reviewed

Probab=96.02  E-value=0.0077  Score=59.27  Aligned_cols=27  Identities=33%  Similarity=0.522  Sum_probs=24.4

Q ss_pred             CCceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          145 EQVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       145 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      +...+|+|.|+.|+|||||++.+....
T Consensus        31 ~~~~iigi~G~~GsGKTTl~~~L~~~l   57 (229)
T PRK09270         31 QRRTIVGIAGPPGAGKSTLAEFLEALL   57 (229)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            457799999999999999999998876

>PTZ00301 uridine kinase; Provisional

Probab=96.00  E-value=0.0059  Score=58.71  Aligned_cols=25  Identities=40%  Similarity=0.684  Sum_probs=22.5

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ..+|+|.|.+|+||||||+.+.+..
T Consensus         3 ~~iIgIaG~SgSGKTTla~~l~~~l   27 (210)
T PTZ00301          3 CTVIGISGASGSGKSSLSTNIVSEL   27 (210)
T ss_pred             CEEEEEECCCcCCHHHHHHHHHHHH
Confidence            4689999999999999999988765

>PRK05480 uridine/cytidine kinase; Provisional

Probab=96.00  E-value=0.0066  Score=58.89  Aligned_cols=27  Identities=41%  Similarity=0.573  Sum_probs=24.2

Q ss_pred             CCceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          145 EQVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       145 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      .+..+|+|.|++|+||||||+.+....
T Consensus         4 ~~~~iI~I~G~sGsGKTTl~~~l~~~l   30 (209)
T PRK05480          4 KKPIIIGIAGGSGSGKTTVASTIYEEL   30 (209)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            356799999999999999999999876

>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=95.98  E-value=0.0025  Score=36.51  Aligned_cols=20  Identities=40%  Similarity=0.630  Sum_probs=10.9

Q ss_pred             CCEEeccCCCCcccchhhhc
Q 038398          566 LEHLDLSSTAITHLPIELQK  585 (720)
Q Consensus       566 L~~L~L~~~~i~~lp~~i~~  585 (720)
                      |++|+|++|.++.+|++|++
T Consensus         2 L~~Ldls~n~l~~ip~~~~~   21 (22)
T PF00560_consen    2 LEYLDLSGNNLTSIPSSFSN   21 (22)
T ss_dssp             ESEEEETSSEESEEGTTTTT
T ss_pred             ccEEECCCCcCEeCChhhcC
Confidence            55555555555555555443

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 ....

>TIGR02858 spore_III_AA stage III sporulation protein AA

Probab=95.98  E-value=0.054  Score=54.24  Aligned_cols=124  Identities=16%  Similarity=0.058  Sum_probs=65.9

Q ss_pred             HHHHHHhc-CCCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEE---ecCcCCHHHHHHHHHHHhCC-CCCcc
Q 038398          136 DKVWRCLG-EEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVV---VSKDLQLEKIQEKIGRRIGF-FDESW  210 (720)
Q Consensus       136 ~~l~~~L~-~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~---v~~~~~~~~~~~~i~~~l~~-~~~~~  210 (720)
                      +.++..+. ......++|+|+.|+|||||.+.+.....    .....+++.   +......    .++...... +....
T Consensus        99 ~~~l~~l~~~~~~~~~~i~g~~g~GKttl~~~l~~~~~----~~~G~i~~~g~~v~~~d~~----~ei~~~~~~~~q~~~  170 (270)
T TIGR02858        99 DKLLPYLVRNNRVLNTLIISPPQCGKTTLLRDLARILS----TGISQLGLRGKKVGIVDER----SEIAGCVNGVPQHDV  170 (270)
T ss_pred             HHHHHHHHhCCCeeEEEEEcCCCCCHHHHHHHHhCccC----CCCceEEECCEEeecchhH----HHHHHHhcccccccc
Confidence            34444443 34457899999999999999999987762    222333332   1111111    223222211 11100


Q ss_pred             ----CCCChhHHHHHHHHHhc-cCcEEEEEeccccccccccccccCCCCCCCcEEEEEcCChhHh
Q 038398          211 ----KNGSLEDKTSDILRILG-KKKFLLLLDDIWERVDLTKVGIPFPDPENKSKIVFTTHFLEIC  270 (720)
Q Consensus       211 ----~~~~~~~~~~~l~~~l~-~k~~LlVlDdv~~~~~~~~l~~~~~~~~~gs~iiiTtR~~~v~  270 (720)
                          ...+.......+...+. ..+-++++|++...+.+..+...+   ..|..+|+||.+..+.
T Consensus       171 ~~r~~v~~~~~k~~~~~~~i~~~~P~villDE~~~~e~~~~l~~~~---~~G~~vI~ttH~~~~~  232 (270)
T TIGR02858       171 GIRTDVLDGCPKAEGMMMLIRSMSPDVIVVDEIGREEDVEALLEAL---HAGVSIIATAHGRDVE  232 (270)
T ss_pred             cccccccccchHHHHHHHHHHhCCCCEEEEeCCCcHHHHHHHHHHH---hCCCEEEEEechhHHH
Confidence                00011111222333333 478899999987766555553333   2477899999876553

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.

>PRK04301 radA DNA repair and recombination protein RadA; Validated

Probab=95.97  E-value=0.033  Score=57.78  Aligned_cols=57  Identities=19%  Similarity=0.390  Sum_probs=40.9

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhhcCCCC----CcCEEEEEEecCcCCHHHHHHHHHHHhC
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPN----VFDVVIWVVVSKDLQLEKIQEKIGRRIG  204 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~----~f~~~~wv~v~~~~~~~~~~~~i~~~l~  204 (720)
                      .-.++-|+|++|+|||++|.+++-.. ....    .=..++||+....++...+.+. +..++
T Consensus       101 ~g~vtei~G~~GsGKT~l~~~~~~~~-~~~~~~gg~~~~~~yi~te~~f~~~rl~~~-~~~~g  161 (317)
T PRK04301        101 TQSITEFYGEFGSGKTQICHQLAVNV-QLPEEKGGLEGKAVYIDTEGTFRPERIEQM-AEALG  161 (317)
T ss_pred             CCcEEEEECCCCCCHhHHHHHHHHHh-ccccccCCCCceEEEEeCCCCcCHHHHHHH-HHHcC
Confidence            34788899999999999999998664 1111    1148999999888887766543 34444

>cd03228 ABCC_MRP_Like The MRP (Mutidrug Resistance Protein)-like transporters are involved in drug, peptide, and lipid export

Probab=95.97  E-value=0.022  Score=53.23  Aligned_cols=26  Identities=27%  Similarity=0.346  Sum_probs=22.9

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      .-.+++|.|+.|.|||||++.++.-.
T Consensus        27 ~G~~~~l~G~nGsGKstLl~~i~G~~   52 (171)
T cd03228          27 PGEKVAIVGPSGSGKSTLLKLLLRLY   52 (171)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHcCC
Confidence            34689999999999999999998765

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.

>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=95.95  E-value=0.0062  Score=54.95  Aligned_cols=23  Identities=39%  Similarity=0.629  Sum_probs=21.1

Q ss_pred             EEEEEcCCCChHHHHHHHHHhhh
Q 038398          149 IIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      +|.++|++|+||||+|+.+....
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            58899999999999999998776

...

>KOG1947 consensus Leucine rich repeat proteins, some proteins contain F-box [General function prediction only]

Probab=95.93  E-value=0.0037  Score=69.30  Aligned_cols=189  Identities=24%  Similarity=0.302  Sum_probs=117.6

Q ss_pred             CCCCcccEEEccCC-CCcCc-chHHhccCCcccEEEccCC-CCCccC----CccccCCCCCCEEeccCCC-Ccccc-hhh
Q 038398          513 PTCPHLLSLFLSDN-SLKMS-TDDFFQSMPSLRVFNMSNN-HLLWKL----PSGISTLVSLEHLDLSSTA-ITHLP-IEL  583 (720)
Q Consensus       513 ~~~~~L~~L~l~~~-~~~~~-~~~~~~~l~~L~~L~L~~~-~~~~~l----p~~i~~l~~L~~L~L~~~~-i~~lp-~~i  583 (720)
                      ..+++|+.|.+..+ .+... .......++.|+.|+++++ ......    +.....+.+|+.|+++++. ++..- ..+
T Consensus       185 ~~~~~L~~l~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~L~~l~l~~~~~isd~~l~~l  264 (482)
T KOG1947|consen  185 SSCPLLKRLSLSGCSKITDDSLDALALKCPNLEELDLSGCCLLITLSPLLLLLLLSICRKLKSLDLSGCGLVTDIGLSAL  264 (482)
T ss_pred             hhCchhhHhhhcccccCChhhHHHHHhhCchhheecccCcccccccchhHhhhhhhhcCCcCccchhhhhccCchhHHHH
Confidence            34788999999888 34432 1234678899999999973 222221    2234466899999999986 66331 122


Q ss_pred             -hcCCCCCEEeccCCcCCCCCch-hhhhccccCceeeccccCCCcccchhcccccCCccccHHHhcCCCCCceeEEEecc
Q 038398          584 -QKLVNLKCLNLEYMNNLNQFPR-LVISAFSKLQVLRMFDCGGSKIERLKINVLFGGHQFLVEELMGMKHLMVLTITLKS  661 (720)
Q Consensus       584 -~~l~~L~~L~l~~~~~l~~lp~-~~~~~l~~L~~L~~~~~~~~~l~~l~~~~~~~~~~~~~~~l~~l~~L~~L~~~~~~  661 (720)
                       ..+++|++|.+.+|..++.-.- .+...+++|++|++.+|....            .........++++|+.|.+....
T Consensus       265 ~~~c~~L~~L~l~~c~~lt~~gl~~i~~~~~~L~~L~l~~c~~~~------------d~~l~~~~~~c~~l~~l~~~~~~  332 (482)
T KOG1947|consen  265 ASRCPNLETLSLSNCSNLTDEGLVSIAERCPSLRELDLSGCHGLT------------DSGLEALLKNCPNLRELKLLSLN  332 (482)
T ss_pred             HhhCCCcceEccCCCCccchhHHHHHHHhcCcccEEeeecCccch------------HHHHHHHHHhCcchhhhhhhhcC
Confidence             2378999999888865432211 134567889999999887652            11122224456666666644322


Q ss_pred             -hhhHHHHhhhh--hhh-hhccccccccccCCCccccccccccCCcc-eeeecCCCCC
Q 038398          662 -WQALKELLISQ--ELQ-RSTQSLFLRCFNDSKSLDIFCLAGLRNLN-KLYVAGCKHL  714 (720)
Q Consensus       662 -~~~l~~l~~~~--~~~-~~L~~L~l~~~~~l~~l~~~~l~~l~~L~-~L~l~~c~~l  714 (720)
                       +..+..+....  ... ..+..+.+..|++++.+.+...+ ..... .+.+.+|+.|
T Consensus       333 ~c~~l~~~~l~~~~~~~~d~~~~~~~~~~~~l~~~~l~~~~-~~~~~~~~~l~gc~~l  389 (482)
T KOG1947|consen  333 GCPSLTDLSLSGLLTLTSDDLAELILRSCPKLTDLSLSYCG-ISDLGLELSLRGCPNL  389 (482)
T ss_pred             CCccHHHHHHHHhhccCchhHhHHHHhcCCCcchhhhhhhh-ccCcchHHHhcCCccc
Confidence             22333332221  222 37788888888888888866666 44444 6888889888

>TIGR00554 panK_bact pantothenate kinase, bacterial type

Probab=95.92  E-value=0.047  Score=55.15  Aligned_cols=27  Identities=30%  Similarity=0.278  Sum_probs=22.9

Q ss_pred             CCceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          145 EQVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       145 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ....+|||.|+.|+||||+|+.+..-.
T Consensus        60 ~~p~IIGIaG~~GSGKSTlar~L~~ll   86 (290)
T TIGR00554        60 KIPYIISIAGSVAVGKSTTARILQALL   86 (290)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHH
Confidence            456799999999999999998776554

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.

>COG1066 Sms Predicted ATP-dependent serine protease [Posttranslational modification, protein turnover, chaperones]

Probab=95.91  E-value=0.052  Score=55.96  Aligned_cols=96  Identities=25%  Similarity=0.367  Sum_probs=58.7

Q ss_pred             HHHHHHHhcCC--CceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHHHHHhCCCCCcc--
Q 038398          135 FDKVWRCLGEE--QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKIGRRIGFFDESW--  210 (720)
Q Consensus       135 ~~~l~~~L~~~--~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i~~~l~~~~~~~--  210 (720)
                      +.++-+.|..+  .-.+|.|-|-+|+|||||.-+++.+..   ..- .+.||+-...  ..+ .+--+..++...+..  
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            44555556543  347999999999999999999999983   222 7788764433  322 233455565433221  


Q ss_pred             -CCCChhHHHHHHHHHhccCcEEEEEecccc
Q 038398          211 -KNGSLEDKTSDILRILGKKKFLLLLDDIWE  240 (720)
Q Consensus       211 -~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~  240 (720)
                       ...+.++..+.+.+   .++-++|+|-+..
T Consensus       152 ~aEt~~e~I~~~l~~---~~p~lvVIDSIQT  179 (456)
T COG1066         152 LAETNLEDIIAELEQ---EKPDLVVIDSIQT  179 (456)
T ss_pred             ehhcCHHHHHHHHHh---cCCCEEEEeccce
Confidence             22333443333333   5788999998754

>cd03216 ABC_Carb_Monos_I This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos)

Probab=95.91  E-value=0.011  Score=54.77  Aligned_cols=116  Identities=18%  Similarity=0.165  Sum_probs=60.8

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCc--CCHHHHHHHHHHHhCCCCCccCCCChhHHHHHHH
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKD--LQLEKIQEKIGRRIGFFDESWKNGSLEDKTSDIL  223 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~--~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~  223 (720)
                      .-.+++|.|+.|+|||||.+.++...    ....+.+++.-..-  .+..+.   ....++...   +-+.-+...-.+.
T Consensus        25 ~Ge~~~l~G~nGsGKSTLl~~i~G~~----~~~~G~v~~~g~~~~~~~~~~~---~~~~i~~~~---qLS~G~~qrl~la   94 (163)
T cd03216          25 RGEVHALLGENGAGKSTLMKILSGLY----KPDSGEILVDGKEVSFASPRDA---RRAGIAMVY---QLSVGERQMVEIA   94 (163)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC----CCCCeEEEECCEECCcCCHHHH---HhcCeEEEE---ecCHHHHHHHHHH
Confidence            34689999999999999999998654    23344455432111  111111   111111110   1122233333455


Q ss_pred             HHhccCcEEEEEeccccccc---cccccccCCC-CCCCcEEEEEcCChhHhh
Q 038398          224 RILGKKKFLLLLDDIWERVD---LTKVGIPFPD-PENKSKIVFTTHFLEICG  271 (720)
Q Consensus       224 ~~l~~k~~LlVlDdv~~~~~---~~~l~~~~~~-~~~gs~iiiTtR~~~v~~  271 (720)
                      ..+-.++-++++|+.-+.-|   ...+...+.. ...|..||++|.+.....
T Consensus        95 ral~~~p~illlDEP~~~LD~~~~~~l~~~l~~~~~~~~tiii~sh~~~~~~  146 (163)
T cd03216          95 RALARNARLLILDEPTAALTPAEVERLFKVIRRLRAQGVAVIFISHRLDEVF  146 (163)
T ss_pred             HHHhcCCCEEEEECCCcCCCHHHHHHHHHHHHHHHHCCCEEEEEeCCHHHHH
Confidence            56666788999998754322   1122111211 123667888888766433

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.

>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=95.91  E-value=0.15  Score=52.13  Aligned_cols=96  Identities=17%  Similarity=0.157  Sum_probs=58.3

Q ss_pred             HHHHHhcCC---CceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHHHHHhCCCCCcc---
Q 038398          137 KVWRCLGEE---QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKIGRRIGFFDESW---  210 (720)
Q Consensus       137 ~l~~~L~~~---~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i~~~l~~~~~~~---  210 (720)
                      .|-..|..+   .-+++-|+|+.|+||||||..+....   ...-..++||.....++..     .+.+++...+..   
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            444455433   34699999999999999999988776   2234578899987776653     344455443221   


Q ss_pred             CCCChhHHHHHHHHHhccC-cEEEEEecccc
Q 038398          211 KNGSLEDKTSDILRILGKK-KFLLLLDDIWE  240 (720)
Q Consensus       211 ~~~~~~~~~~~l~~~l~~k-~~LlVlDdv~~  240 (720)
                      .....++..+.+.+.++.. .-++|+|-|-.
T Consensus       112 ~P~~~E~al~~~e~lirsg~~~lVVvDSv~a  142 (322)
T PF00154_consen  112 QPDTGEQALWIAEQLIRSGAVDLVVVDSVAA  142 (322)
T ss_dssp             E-SSHHHHHHHHHHHHHTTSESEEEEE-CTT
T ss_pred             cCCcHHHHHHHHHHHhhcccccEEEEecCcc
Confidence            2344566666666666554 45889998864

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 ....

>PRK13765 ATP-dependent protease Lon; Provisional

Probab=95.90  E-value=0.014  Score=65.60  Aligned_cols=76  Identities=12%  Similarity=0.143  Sum_probs=57.3

Q ss_pred             CCCCCcCchHHHHHHHHHhcCCCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHHHHHh
Q 038398          124 PCEPTVGLESTFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKIGRRI  203 (720)
Q Consensus       124 ~~~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i~~~l  203 (720)
                      ..+.++|.++.++.+...+...  +.+.++|++|+||||+|+.+.+...  ...++..+|..- ...+...+++.+...+
T Consensus        29 ~~~~vigq~~a~~~L~~~~~~~--~~~l~~G~~G~GKttla~~l~~~l~--~~~~~~~~~~~n-p~~~~~~~~~~v~~~~  103 (637)
T PRK13765         29 LIDQVIGQEHAVEVIKKAAKQR--RHVMMIGSPGTGKSMLAKAMAELLP--KEELQDILVYPN-PEDPNNPKIRTVPAGK  103 (637)
T ss_pred             cHHHcCChHHHHHHHHHHHHhC--CeEEEECCCCCcHHHHHHHHHHHcC--hHhHHHheEeeC-CCcchHHHHHHHHHhc
Confidence            3356799999999888877654  4788999999999999999998762  345677888665 3335666777777655


Q ss_pred             C
Q 038398          204 G  204 (720)
Q Consensus       204 ~  204 (720)
                      +
T Consensus       104 G  104 (637)
T PRK13765        104 G  104 (637)
T ss_pred             C
Confidence            4

>PRK10867 signal recognition particle protein; Provisional

Probab=95.90  E-value=0.034  Score=59.50  Aligned_cols=26  Identities=35%  Similarity=0.474  Sum_probs=22.6

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      .+.+|.++|++|+||||+|..++...
T Consensus        99 ~p~vI~~vG~~GsGKTTtaakLA~~l  124 (433)
T PRK10867         99 PPTVIMMVGLQGAGKTTTAGKLAKYL  124 (433)
T ss_pred             CCEEEEEECCCCCcHHHHHHHHHHHH
Confidence            46899999999999999888887765

>COG1136 SalX ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]

Probab=95.90  E-value=0.036  Score=53.24  Aligned_cols=57  Identities=18%  Similarity=0.186  Sum_probs=34.8

Q ss_pred             hHHHHHHHHHhccCcEEEEEecccc------ccccccccccCCCCCCCcEEEEEcCChhHhhhh
Q 038398          216 EDKTSDILRILGKKKFLLLLDDIWE------RVDLTKVGIPFPDPENKSKIVFTTHFLEICGAL  273 (720)
Q Consensus       216 ~~~~~~l~~~l~~k~~LlVlDdv~~------~~~~~~l~~~~~~~~~gs~iiiTtR~~~v~~~~  273 (720)
                      ++..-.+.+.|-..+-+|+-|+--.      ......+...+ ....|..||+.|.+..++..+
T Consensus       147 qqQRVAIARAL~~~P~iilADEPTgnLD~~t~~~V~~ll~~~-~~~~g~tii~VTHd~~lA~~~  209 (226)
T COG1136         147 QQQRVAIARALINNPKIILADEPTGNLDSKTAKEVLELLREL-NKERGKTIIMVTHDPELAKYA  209 (226)
T ss_pred             HHHHHHHHHHHhcCCCeEEeeCccccCChHHHHHHHHHHHHH-HHhcCCEEEEEcCCHHHHHhC
Confidence            3444456667778888999997421      11122221111 223578899999999998764

>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=95.87  E-value=0.017  Score=53.98  Aligned_cols=25  Identities=32%  Similarity=0.365  Sum_probs=22.3

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      -.+++|+|+.|+|||||++.++.-.
T Consensus        28 Ge~~~i~G~nGsGKStLl~~l~G~~   52 (173)
T cd03246          28 GESLAIIGPSGSGKSTLARLILGLL   52 (173)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhcc
Confidence            4689999999999999999998754

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

>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=95.87  E-value=0.04  Score=57.33  Aligned_cols=89  Identities=21%  Similarity=0.211  Sum_probs=49.0

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCc-CCHHHHHHHHHHHhCCCCCccCCCChhHHHHHHHH
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKD-LQLEKIQEKIGRRIGFFDESWKNGSLEDKTSDILR  224 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~-~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~  224 (720)
                      ..++|+++|++|+||||++..++....  ... ..+.+++.... ....+-++.....++.+..  ...+.....+.+..
T Consensus       240 ~~~vI~LVGptGvGKTTTiaKLA~~L~--~~G-kkVglI~aDt~RiaAvEQLk~yae~lgipv~--v~~d~~~L~~aL~~  314 (436)
T PRK11889        240 EVQTIALIGPTGVGKTTTLAKMAWQFH--GKK-KTVGFITTDHSRIGTVQQLQDYVKTIGFEVI--AVRDEAAMTRALTY  314 (436)
T ss_pred             CCcEEEEECCCCCcHHHHHHHHHHHHH--HcC-CcEEEEecCCcchHHHHHHHHHhhhcCCcEE--ecCCHHHHHHHHHH
Confidence            357999999999999999999987762  122 23445554322 1223334444444444321  12344455444433


Q ss_pred             Hhcc-CcEEEEEeccc
Q 038398          225 ILGK-KKFLLLLDDIW  239 (720)
Q Consensus       225 ~l~~-k~~LlVlDdv~  239 (720)
                      .-.. +.=++++|-..
T Consensus       315 lk~~~~~DvVLIDTaG  330 (436)
T PRK11889        315 FKEEARVDYILIDTAG  330 (436)
T ss_pred             HHhccCCCEEEEeCcc
Confidence            3221 23467778664

>TIGR00390 hslU ATP-dependent protease HslVU, ATPase subunit

Probab=95.85  E-value=0.019  Score=60.23  Aligned_cols=46  Identities=22%  Similarity=0.253  Sum_probs=36.3

Q ss_pred             CCCcCchHHHHHHHHHhcCC--------------CceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          126 EPTVGLESTFDKVWRCLGEE--------------QVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~--------------~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ..+||.++.++.+.-++...              ..+.|.++|++|+|||++|+.+....
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            35789998888876554320              24688999999999999999999887

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.

>PF07726 AAA_3: ATPase family associated with various cellular activities (AAA); InterPro: IPR011703 This entry includes some of the AAA proteins not detected by the IPR003959 from INTERPRO model

Probab=95.84  E-value=0.0061  Score=52.51  Aligned_cols=28  Identities=39%  Similarity=0.485  Sum_probs=19.8

Q ss_pred             EEEEcCCCChHHHHHHHHHhhhcCCCCCcCE
Q 038398          150 IGLYGMGGVGKTTLLTKINNKLLGAPNVFDV  180 (720)
Q Consensus       150 i~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~  180 (720)
                      |.|+|.+|+||||+|+.++...   ...|..
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            6799999999999999999987   556654

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.

>PRK06762 hypothetical protein; Provisional

Probab=95.83  E-value=0.0076  Score=56.00  Aligned_cols=25  Identities=32%  Similarity=0.557  Sum_probs=22.6

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ..+|.|.|++|+||||+|+.+.+..
T Consensus         2 ~~li~i~G~~GsGKST~A~~L~~~l   26 (166)
T PRK06762          2 TTLIIIRGNSGSGKTTIAKQLQERL   26 (166)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHh
Confidence            3689999999999999999998876

>TIGR00959 ffh signal recognition particle protein

Probab=95.82  E-value=0.038  Score=59.10  Aligned_cols=92  Identities=20%  Similarity=0.186  Sum_probs=48.4

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCc-CCHHHHHHHHHHHhCCCCCcc-CCCChhHHHHHHH
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKD-LQLEKIQEKIGRRIGFFDESW-KNGSLEDKTSDIL  223 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~-~~~~~~~~~i~~~l~~~~~~~-~~~~~~~~~~~l~  223 (720)
                      .+.+|.++|++|+||||+|..++.... .+.. ..+..|++... +...+.++......+.+.... ...++.+......
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 PPTVILMVGLQGSGKTTTCGKLAYYLK-KKQG-KKVLLVACDLYRPAAIEQLKVLGQQVGVPVFALGKGQSPVEIARRAL  175 (428)
T ss_pred             CCEEEEEECCCCCcHHHHHHHHHHHHH-HhCC-CeEEEEeccccchHHHHHHHHHHHhcCCceEecCCCCCHHHHHHHHH
Confidence            467999999999999999988887751 1111 23444544321 122333444455555432111 1223334433333


Q ss_pred             HHhccCcE-EEEEeccc
Q 038398          224 RILGKKKF-LLLLDDIW  239 (720)
Q Consensus       224 ~~l~~k~~-LlVlDdv~  239 (720)
                      +.+..+.+ ++|+|-.-
T Consensus       176 ~~~~~~~~DvVIIDTaG  192 (428)
T TIGR00959       176 EYAKENGFDVVIVDTAG  192 (428)
T ss_pred             HHHHhcCCCEEEEeCCC
Confidence            33433444 77777653

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.

>TIGR02030 BchI-ChlI magnesium chelatase ATPase subunit I

Probab=95.82  E-value=0.014  Score=60.48  Aligned_cols=48  Identities=21%  Similarity=0.286  Sum_probs=40.3

Q ss_pred             CCCCCcCchHHHHHHHHHhcCCCceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          124 PCEPTVGLESTFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       124 ~~~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      |...+||.++.+..+.-.+.+....-|.|.|..|+|||||++.+..-.
T Consensus         2 pf~~ivgq~~~~~al~~~~~~~~~g~vli~G~~G~gKttl~r~~~~~~   49 (337)
T TIGR02030         2 PFTAIVGQDEMKLALLLNVIDPKIGGVMVMGDRGTGKSTAVRALAALL   49 (337)
T ss_pred             CccccccHHHHHHHHHHHhcCCCCCeEEEEcCCCCCHHHHHHHHHHhh
Confidence            446789999999998777766666778899999999999999997655

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.

>TIGR00708 cobA cob(I)alamin adenosyltransferase

Probab=95.82  E-value=0.046  Score=50.30  Aligned_cols=118  Identities=18%  Similarity=0.154  Sum_probs=60.6

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEE---EEEecCcCCHHHHHHHHHHHhCCCCC--ccCCCCh------
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVI---WVVVSKDLQLEKIQEKIGRRIGFFDE--SWKNGSL------  215 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~---wv~v~~~~~~~~~~~~i~~~l~~~~~--~~~~~~~------  215 (720)
                      ...|-|++..|.||||.|..+.-+..  ...+ .++   |+.-.....-..++..+.-.+.....  .+...+.      
T Consensus         5 ~Gli~v~~g~GkGKtt~a~g~a~ra~--~~g~-~v~ivQFlKg~~~~GE~~~l~~~~~~~~~~g~g~~~~~~~~~~~~~~   81 (173)
T TIGR00708         5 RGIIIVHTGNGKGKTTAAFGMALRAL--GHGK-KVGVIQFIKGAWPNGERAAFEPHGVEFQVMGTGFTWETQNREADTAI   81 (173)
T ss_pred             ccEEEEECCCCCChHHHHHHHHHHHH--HCCC-eEEEEEEecCCcccChHHHHHhcCcEEEECCCCCeecCCCcHHHHHH
Confidence            46888999999999999998877762  2223 333   33333223333444332100000000  0111111      


Q ss_pred             -hHHHHHHHHHhccCc-EEEEEeccccc-----cccccccccCCCCCCCcEEEEEcCCh
Q 038398          216 -EDKTSDILRILGKKK-FLLLLDDIWER-----VDLTKVGIPFPDPENKSKIVFTTHFL  267 (720)
Q Consensus       216 -~~~~~~l~~~l~~k~-~LlVlDdv~~~-----~~~~~l~~~~~~~~~gs~iiiTtR~~  267 (720)
                       .+..+..++.+...+ =|+|||++-..     -+.+.+...+.....+.-||+|-|+.
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             122333444444444 49999998532     22223333333344567899999975

Alternate name: corrinoid adenosyltransferase.

>KOG0729 consensus 26S proteasome regulatory complex, ATPase RPT1 [Posttranslational modification, protein turnover, chaperones]

Probab=95.81  E-value=0.015  Score=55.69  Aligned_cols=88  Identities=17%  Similarity=0.268  Sum_probs=54.5

Q ss_pred             cCchHHHHHHHHHhcC-------------CCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHH
Q 038398          129 VGLESTFDKVWRCLGE-------------EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKI  195 (720)
Q Consensus       129 vGr~~~~~~l~~~L~~-------------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~  195 (720)
                      =|-.+.++++.+...-             +.+.-|..+|++|.|||-+|++|+++.   ..     +|+.|-.       
T Consensus       180 ggckeqieklrevve~pll~perfv~lgidppkgvllygppgtgktl~aravanrt---da-----cfirvig-------  244 (435)
T KOG0729|consen  180 GGCKEQIEKLREVVELPLLHPERFVNLGIDPPKGVLLYGPPGTGKTLCARAVANRT---DA-----CFIRVIG-------  244 (435)
T ss_pred             cchHHHHHHHHHHHhccccCHHHHhhcCCCCCCceEEeCCCCCchhHHHHHHhccc---Cc-----eEEeehh-------
Confidence            3666677766554321             356778999999999999999999987   33     3343321       


Q ss_pred             HHHHHHHhCCCCCccCCCChhHHHHHHHHHhcc-CcEEEEEecccc
Q 038398          196 QEKIGRRIGFFDESWKNGSLEDKTSDILRILGK-KKFLLLLDDIWE  240 (720)
Q Consensus       196 ~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~-k~~LlVlDdv~~  240 (720)
                       .++.+..-        .........+.+..+. |-++|.||+++.
T Consensus       245 -selvqkyv--------gegarmvrelf~martkkaciiffdeida  281 (435)
T KOG0729|consen  245 -SELVQKYV--------GEGARMVRELFEMARTKKACIIFFDEIDA  281 (435)
T ss_pred             -HHHHHHHh--------hhhHHHHHHHHHHhcccceEEEEeecccc
Confidence             22222221        1123445556665555 567888998753

>cd03222 ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibitor (RLI) is a key enzyme in ribosomal biogenesis, formation of translation preinitiation complexes, and assembly of HIV capsids

Probab=95.80  E-value=0.029  Score=52.47  Aligned_cols=26  Identities=35%  Similarity=0.590  Sum_probs=22.6

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      .-.+++|+|+.|+|||||++.+..-.
T Consensus        24 ~Ge~~~l~G~nGsGKSTLl~~l~Gl~   49 (177)
T cd03222          24 EGEVIGIVGPNGTGKTTAVKILAGQL   49 (177)
T ss_pred             CCCEEEEECCCCChHHHHHHHHHcCC
Confidence            34699999999999999999988654

RLI's are not transport proteins, and thus cluster with a group of soluble proteins that lack the transmembrane components commonly found in other members of the family. Structurally, RLI's have an N-terminal Fe-S domain and two nucleotide-binding domains, which are arranged to form two composite active sites in their interface cleft. RLI is one of the most conserved enzymes between archaea and eukaryotes with a sequence identity more than 48%. The high degree of evolutionary conservation suggests that RLI performs a central role in archaeal and eukaryotic physiology.

>COG1121 ZnuC ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]

Probab=95.80  E-value=0.051  Score=53.13  Aligned_cols=122  Identities=22%  Similarity=0.240  Sum_probs=67.3

Q ss_pred             eEEEEEcCCCChHHHHHHHHHhhhcCCCC----------Cc---CEEEEEEec----CcC--CH----------------
Q 038398          148 GIIGLYGMGGVGKTTLLTKINNKLLGAPN----------VF---DVVIWVVVS----KDL--QL----------------  192 (720)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~----------~f---~~~~wv~v~----~~~--~~----------------  192 (720)
                      .+++|+|+.|.|||||.+.+..-....++          .+   ..+.||.=.    ..+  ++                
T Consensus        31 ~~~~iiGPNGaGKSTLlK~iLGll~p~~G~i~~~g~~~~~~~~~~~IgYVPQ~~~~d~~fP~tV~d~V~~g~~~~~g~~~  110 (254)
T COG1121          31 EITALIGPNGAGKSTLLKAILGLLKPSSGEIKIFGKPVRKRRKRLRIGYVPQKSSVDRSFPITVKDVVLLGRYGKKGWFR  110 (254)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCCcCCcceEEEccccccccccCCeEEEcCcccccCCCCCcCHHHHHHccCcccccccc
Confidence            79999999999999999999873311010          01   245665311    111  11                


Q ss_pred             ------HHHHHHHHHHhCCCC---CccCCCChhHH-HHHHHHHhccCcEEEEEeccccc------cccccccccCCCCCC
Q 038398          193 ------EKIQEKIGRRIGFFD---ESWKNGSLEDK-TSDILRILGKKKFLLLLDDIWER------VDLTKVGIPFPDPEN  256 (720)
Q Consensus       193 ------~~~~~~i~~~l~~~~---~~~~~~~~~~~-~~~l~~~l~~k~~LlVlDdv~~~------~~~~~l~~~~~~~~~  256 (720)
                            .+...+.++..+...   .....-+-.+. .-.|.+.|..++=|++||+--..      ..+-.+...+..  .
T Consensus       111 ~~~~~d~~~v~~aL~~Vgm~~~~~r~i~~LSGGQ~QRV~lARAL~~~p~lllLDEP~~gvD~~~~~~i~~lL~~l~~--e  188 (254)
T COG1121         111 RLNKKDKEKVDEALERVGMEDLRDRQIGELSGGQKQRVLLARALAQNPDLLLLDEPFTGVDVAGQKEIYDLLKELRQ--E  188 (254)
T ss_pred             cccHHHHHHHHHHHHHcCchhhhCCcccccCcHHHHHHHHHHHhccCCCEEEecCCcccCCHHHHHHHHHHHHHHHH--C
Confidence                  133444455554432   11122222233 33456678888999999975332      222333223322  3


Q ss_pred             CcEEEEEcCChhHhh
Q 038398          257 KSKIVFTTHFLEICG  271 (720)
Q Consensus       257 gs~iiiTtR~~~v~~  271 (720)
                      |+.|+++|.+-....
T Consensus       189 g~tIl~vtHDL~~v~  203 (254)
T COG1121         189 GKTVLMVTHDLGLVM  203 (254)
T ss_pred             CCEEEEEeCCcHHhH
Confidence            889999998865543

>PF10236 DAP3: Mitochondrial ribosomal death-associated protein 3; InterPro: IPR019368 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=95.79  E-value=0.2  Score=51.56  Aligned_cols=49  Identities=20%  Similarity=0.164  Sum_probs=35.6

Q ss_pred             eeeccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCcchHH
Q 038398          278 FLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGLPLAL  326 (720)
Q Consensus       278 ~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~GlPLai  326 (720)
                      ++++++++.+|+..++.-+....-.......+...+++.-..+|+|--+
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            7899999999999999888765542222344556667777779998644

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).

>PF13481 AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C

Probab=95.78  E-value=0.038  Score=52.75  Aligned_cols=42  Identities=21%  Similarity=0.330  Sum_probs=28.7

Q ss_pred             eEEEEEcCCCChHHHHHHHHHhhhcCCCCCc-------CEEEEEEecCc
Q 038398          148 GIIGLYGMGGVGKTTLLTKINNKLLGAPNVF-------DVVIWVVVSKD  189 (720)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f-------~~~~wv~v~~~  189 (720)
                      .++.|.|++|+||||++..+..........|       ..++|++....
T Consensus        33 ~l~~i~g~~g~GKT~~~~~l~~~~~~g~~~~g~~~~~~~~Vl~i~~E~~   81 (193)
T PF13481_consen   33 ELTLIAGPPGSGKTTLALQLAAALATGRPFLGELPPRPGRVLYISLEDS   81 (193)
T ss_dssp             SEEEEEECSTSSHHHHHHHHHHHHHT---TT---------EEEEESSS-
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHHHHhCCccCCcccccCceEEEEeccCC
Confidence            5888999999999999999887763212121       37888876655

>COG1102 Cmk Cytidylate kinase [Nucleotide transport and metabolism]

Probab=95.78  E-value=0.014  Score=51.91  Aligned_cols=44  Identities=27%  Similarity=0.470  Sum_probs=34.0

Q ss_pred             EEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHHHHHhCCC
Q 038398          149 IIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKIGRRIGFF  206 (720)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i~~~l~~~  206 (720)
                      +|.|-|++|+||||+|+.+.++. ..  .     +      .+.-.+++++++..+..
T Consensus         2 ~ItIsG~pGsG~TTva~~lAe~~-gl--~-----~------vsaG~iFR~~A~e~gms   45 (179)
T COG1102           2 VITISGLPGSGKTTVARELAEHL-GL--K-----L------VSAGTIFREMARERGMS   45 (179)
T ss_pred             EEEeccCCCCChhHHHHHHHHHh-CC--c-----e------eeccHHHHHHHHHcCCC
Confidence            68999999999999999999987 11  1     1      13346788888888765

>PRK03839 putative kinase; Provisional

Probab=95.78  E-value=0.0077  Score=56.83  Aligned_cols=23  Identities=48%  Similarity=0.680  Sum_probs=21.5

Q ss_pred             EEEEEcCCCChHHHHHHHHHhhh
Q 038398          149 IIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      .|.|.|++|+||||+|+.+++..
T Consensus         2 ~I~l~G~pGsGKsT~~~~La~~~   24 (180)
T PRK03839          2 IIAITGTPGVGKTTVSKLLAEKL   24 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            58899999999999999999987

>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=95.77  E-value=0.043  Score=53.42  Aligned_cols=23  Identities=39%  Similarity=0.515  Sum_probs=21.3

Q ss_pred             EEEEEcCCCChHHHHHHHHHhhh
Q 038398          149 IIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      +|+|.|++|+||||+|+.+....
T Consensus         1 IigI~G~sGSGKTTla~~L~~~l   23 (220)
T cd02025           1 IIGIAGSVAVGKSTTARVLQALL   23 (220)
T ss_pred             CEEeeCCCCCCHHHHHHHHHHHH
Confidence            58999999999999999998876

The reaction carried out by this enzyme is a key regulatory point in CoA biosynthesis.

>TIGR01360 aden_kin_iso1 adenylate kinase, isozyme 1 subfamily

Probab=95.75  E-value=0.0083  Score=57.04  Aligned_cols=26  Identities=38%  Similarity=0.374  Sum_probs=23.3

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      +..+|.|.|++|+||||+|+.+....
T Consensus         2 ~~~ii~i~G~~GsGKsTl~~~l~~~~   27 (188)
T TIGR01360         2 KCKIIFIVGGPGSGKGTQCEKIVEKY   27 (188)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            35789999999999999999998775

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.

>KOG0735 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=95.74  E-value=0.17  Score=55.63  Aligned_cols=148  Identities=18%  Similarity=0.185  Sum_probs=77.0

Q ss_pred             eEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHHHHHhCCCCCccCCCChhHHHHHHHHHh-
Q 038398          148 GIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKIGRRIGFFDESWKNGSLEDKTSDILRIL-  226 (720)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l-  226 (720)
                      .-|.++|++|+|||-||-++....        ..-||+|...        +++.+..       ..+ ++..+.+.+.- 
T Consensus       702 ~giLLyGppGcGKT~la~a~a~~~--------~~~fisvKGP--------ElL~KyI-------GaS-Eq~vR~lF~rA~  757 (952)
T KOG0735|consen  702 TGILLYGPPGCGKTLLASAIASNS--------NLRFISVKGP--------ELLSKYI-------GAS-EQNVRDLFERAQ  757 (952)
T ss_pred             cceEEECCCCCcHHHHHHHHHhhC--------CeeEEEecCH--------HHHHHHh-------ccc-HHHHHHHHHHhh
Confidence            468899999999999999998876        1235666543        1222211       112 33334444433 


Q ss_pred             ccCcEEEEEecccccc-------------ccccccccCC--CCCCCcEEEE-EcCChhHhhh-h---ccCceeeccCCCh
Q 038398          227 GKKKFLLLLDDIWERV-------------DLTKVGIPFP--DPENKSKIVF-TTHFLEICGA-L---KAHEFLKVECLGP  286 (720)
Q Consensus       227 ~~k~~LlVlDdv~~~~-------------~~~~l~~~~~--~~~~gs~iii-TtR~~~v~~~-~---~~~~~~~l~~L~~  286 (720)
                      .-+++++.||++++..             ....+...+.  .+-.|--|+. |||..-+-.. .   .-++.+.-+..++
T Consensus       758 ~a~PCiLFFDEfdSiAPkRGhDsTGVTDRVVNQlLTelDG~Egl~GV~i~aaTsRpdliDpALLRpGRlD~~v~C~~P~~  837 (952)
T KOG0735|consen  758 SAKPCILFFDEFDSIAPKRGHDSTGVTDRVVNQLLTELDGAEGLDGVYILAATSRPDLIDPALLRPGRLDKLVYCPLPDE  837 (952)
T ss_pred             ccCCeEEEeccccccCcccCCCCCCchHHHHHHHHHhhccccccceEEEEEecCCccccCHhhcCCCccceeeeCCCCCc
Confidence            4599999999987531             0112222221  1123444444 5554333111 1   1123344455566


Q ss_pred             hhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCcc
Q 038398          287 EDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGLP  323 (720)
Q Consensus       287 ~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~GlP  323 (720)
                      .|-.++|.............+    .+.++.+..|..
T Consensus       838 ~eRl~il~~ls~s~~~~~~vd----l~~~a~~T~g~t  870 (952)
T KOG0735|consen  838 PERLEILQVLSNSLLKDTDVD----LECLAQKTDGFT  870 (952)
T ss_pred             HHHHHHHHHHhhccCCccccc----hHHHhhhcCCCc
Confidence            677777776654322122222    445666666654

>TIGR00235 udk uridine kinase

Probab=95.74  E-value=0.0088  Score=57.86  Aligned_cols=26  Identities=46%  Similarity=0.560  Sum_probs=23.5

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ...+|+|+|++|+||||||+.+....
T Consensus         5 ~g~vi~I~G~sGsGKSTl~~~l~~~l   30 (207)
T TIGR00235         5 KGIIIGIGGGSGSGKTTVARKIYEQL   30 (207)
T ss_pred             CeEEEEEECCCCCCHHHHHHHHHHHh
Confidence            45789999999999999999999876

Model contains a number of longer eukaryotic proteins and starts bringing in phosphoribulokinase hits at scores of 160 and below

>PRK14527 adenylate kinase; Provisional

Probab=95.73  E-value=0.015  Score=55.48  Aligned_cols=26  Identities=23%  Similarity=0.393  Sum_probs=23.4

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ...+|.|+|++|+||||+|+.+.+..
T Consensus         5 ~~~~i~i~G~pGsGKsT~a~~La~~~   30 (191)
T PRK14527          5 KNKVVIFLGPPGAGKGTQAERLAQEL   30 (191)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            45789999999999999999998876

>TIGR00064 ftsY signal recognition particle-docking protein FtsY

Probab=95.71  E-value=0.057  Score=54.33  Aligned_cols=91  Identities=21%  Similarity=0.228  Sum_probs=48.9

Q ss_pred             CCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCH--HHHHHHHHHHhCCCCCc-cCCCChhHH-HH
Q 038398          145 EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQL--EKIQEKIGRRIGFFDES-WKNGSLEDK-TS  220 (720)
Q Consensus       145 ~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~--~~~~~~i~~~l~~~~~~-~~~~~~~~~-~~  220 (720)
                      .+.++|.++|++|+||||++..++....   ..-..+.+++... +..  .+-+.......+.+.-. ....+.... ..
T Consensus        70 ~~~~vi~l~G~~G~GKTTt~akLA~~l~---~~g~~V~li~~D~-~r~~a~~ql~~~~~~~~i~~~~~~~~~dp~~~~~~  145 (272)
T TIGR00064        70 NKPNVILFVGVNGVGKTTTIAKLANKLK---KQGKSVLLAAGDT-FRAAAIEQLEEWAKRLGVDVIKQKEGADPAAVAFD  145 (272)
T ss_pred             CCCeEEEEECCCCCcHHHHHHHHHHHHH---hcCCEEEEEeCCC-CCHHHHHHHHHHHHhCCeEEEeCCCCCCHHHHHHH
Confidence            3468999999999999999999987762   2223566665432 222  23333344444432110 011222222 23


Q ss_pred             HHHHHhccCcEEEEEeccc
Q 038398          221 DILRILGKKKFLLLLDDIW  239 (720)
Q Consensus       221 ~l~~~l~~k~~LlVlDdv~  239 (720)
                      .+.....+..=++++|-.-
T Consensus       146 ~l~~~~~~~~D~ViIDT~G  164 (272)
T TIGR00064       146 AIQKAKARNIDVVLIDTAG  164 (272)
T ss_pred             HHHHHHHCCCCEEEEeCCC
Confidence            3333333444578888653

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.

>COG0468 RecA RecA/RadA recombinase [DNA replication, recombination, and repair]

Probab=95.71  E-value=0.041  Score=54.97  Aligned_cols=90  Identities=18%  Similarity=0.145  Sum_probs=55.4

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHHHHHhCCCCCccCCCChhHH---HHHH
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKIGRRIGFFDESWKNGSLEDK---TSDI  222 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~---~~~l  222 (720)
                      .-+++=|+|+.|+||||+|.+++-..   +..-..++|++..+.+++..+.+--...+..-. -.+..+.++.   +..+
T Consensus        59 ~g~ItEiyG~~gsGKT~lal~~~~~a---q~~g~~a~fIDtE~~l~p~r~~~l~~~~~d~l~-v~~~~~~e~q~~i~~~~  134 (279)
T COG0468          59 RGRITEIYGPESSGKTTLALQLVANA---QKPGGKAAFIDTEHALDPERAKQLGVDLLDNLL-VSQPDTGEQQLEIAEKL  134 (279)
T ss_pred             cceEEEEecCCCcchhhHHHHHHHHh---hcCCCeEEEEeCCCCCCHHHHHHHHHhhhccee-EecCCCHHHHHHHHHHH
Confidence            34688899999999999999987665   333448899999998888766443333121100 0122233332   3333


Q ss_pred             HHHhccCcEEEEEeccc
Q 038398          223 LRILGKKKFLLLLDDIW  239 (720)
Q Consensus       223 ~~~l~~k~~LlVlDdv~  239 (720)
                      ......+--|+|+|.+-
T Consensus       135 ~~~~~~~i~LvVVDSva  151 (279)
T COG0468         135 ARSGAEKIDLLVVDSVA  151 (279)
T ss_pred             HHhccCCCCEEEEecCc
Confidence            33333345688888874

>TIGR00150 HI0065_YjeE ATPase, YjeE family

Probab=95.71  E-value=0.016  Score=50.81  Aligned_cols=38  Identities=29%  Similarity=0.364  Sum_probs=28.2

Q ss_pred             HHHHHHHHhcC--CCceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          134 TFDKVWRCLGE--EQVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       134 ~~~~l~~~L~~--~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      +.+++.+.|..  ..-.+|.+.|.-|+||||+++.++...
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            34444444432  234689999999999999999999986

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.

>PRK14974 cell division protein FtsY; Provisional

Probab=95.70  E-value=0.088  Score=54.45  Aligned_cols=91  Identities=20%  Similarity=0.172  Sum_probs=48.8

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcC--CHHHHHHHHHHHhCCCCCc-cCCCChhHHH-HH
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDL--QLEKIQEKIGRRIGFFDES-WKNGSLEDKT-SD  221 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~--~~~~~~~~i~~~l~~~~~~-~~~~~~~~~~-~~  221 (720)
                      +..+|.++|++|+||||++..++....  ...+ .++.+.. +.+  .....++.....++.+... ....+..... ..
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            467999999999999999888887662  2223 3444432 222  2333455666666654311 1112222222 22


Q ss_pred             HHHHhccCcEEEEEecccc
Q 038398          222 ILRILGKKKFLLLLDDIWE  240 (720)
Q Consensus       222 l~~~l~~k~~LlVlDdv~~  240 (720)
                      +...-....=++++|-...
T Consensus       215 i~~~~~~~~DvVLIDTaGr  233 (336)
T PRK14974        215 IEHAKARGIDVVLIDTAGR  233 (336)
T ss_pred             HHHHHhCCCCEEEEECCCc
Confidence            2222222223888898743

>PRK04328 hypothetical protein; Provisional

Probab=95.69  E-value=0.034  Score=55.41  Aligned_cols=41  Identities=15%  Similarity=0.178  Sum_probs=30.9

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCc
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKD  189 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~  189 (720)
                      .-.++.|.|++|+|||+||.++....   -..-..++|++....
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            34789999999999999999977654   122356788887653

>PRK13407 bchI magnesium chelatase subunit I; Provisional

Probab=95.68  E-value=0.012  Score=60.68  Aligned_cols=48  Identities=23%  Similarity=0.315  Sum_probs=38.2

Q ss_pred             CCCCCcCchHHHHHHHHHhcCCCceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          124 PCEPTVGLESTFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       124 ~~~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      +.+.++|.++.++.+.-.+.+.+..-+.+.|.+|+||||+|+.+..-.
T Consensus         6 ~f~~i~Gq~~~~~~l~~~~~~~~~~~vLl~G~pG~gKT~lar~la~ll   53 (334)
T PRK13407          6 PFSAIVGQEEMKQAMVLTAIDPGIGGVLVFGDRGTGKSTAVRALAALL   53 (334)
T ss_pred             CHHHhCCHHHHHHHHHHHHhccCCCcEEEEcCCCCCHHHHHHHHHHHC
Confidence            446779999999988755544444568999999999999999997665

>COG0396 sufC Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=95.66  E-value=0.049  Score=51.68  Aligned_cols=64  Identities=22%  Similarity=0.305  Sum_probs=41.2

Q ss_pred             hHHHHHHHHHhccCcEEEEEecccccccccccccc---CC-CCCCCcEEEEEcCChhHhhhhccCcee
Q 038398          216 EDKTSDILRILGKKKFLLLLDDIWERVDLTKVGIP---FP-DPENKSKIVFTTHFLEICGALKAHEFL  279 (720)
Q Consensus       216 ~~~~~~l~~~l~~k~~LlVlDdv~~~~~~~~l~~~---~~-~~~~gs~iiiTtR~~~v~~~~~~~~~~  279 (720)
                      +.....+.+.+-=++-+.|||..++--|.+.+...   +. -...|+-+++.|..+.++.....+.++
T Consensus       149 EkKR~EilQ~~~lePkl~ILDE~DSGLDIdalk~V~~~i~~lr~~~~~~liITHy~rll~~i~pD~vh  216 (251)
T COG0396         149 EKKRNEILQLLLLEPKLAILDEPDSGLDIDALKIVAEGINALREEGRGVLIITHYQRLLDYIKPDKVH  216 (251)
T ss_pred             hHHHHHHHHHHhcCCCEEEecCCCcCccHHHHHHHHHHHHHHhcCCCeEEEEecHHHHHhhcCCCEEE
Confidence            33445566666667889999999886665554211   10 123477788888888888877555443

>CHL00081 chlI Mg-protoporyphyrin IX chelatase

Probab=95.66  E-value=0.011  Score=61.09  Aligned_cols=48  Identities=23%  Similarity=0.302  Sum_probs=41.7

Q ss_pred             CCCCCcCchHHHHHHHHHhcCCCceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          124 PCEPTVGLESTFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       124 ~~~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      |...+||.++.+..+...+.+...+-|.|.|..|+||||+|+.+++-.
T Consensus        15 pf~~ivGq~~~k~al~~~~~~p~~~~vli~G~~GtGKs~~ar~~~~~l   62 (350)
T CHL00081         15 PFTAIVGQEEMKLALILNVIDPKIGGVMIMGDRGTGKSTTIRALVDLL   62 (350)
T ss_pred             CHHHHhChHHHHHHHHHhccCCCCCeEEEEcCCCCCHHHHHHHHHHHH
Confidence            346679999999999988888777888899999999999999997765

>PF00910 RNA_helicase: RNA helicase; InterPro: IPR000605 Helicases have been classified in 5 superfamilies (SF1-SF5)

Probab=95.65  E-value=0.0079  Score=51.14  Aligned_cols=22  Identities=41%  Similarity=0.736  Sum_probs=19.9

Q ss_pred             EEEEcCCCChHHHHHHHHHhhh
Q 038398          150 IGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       150 i~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      |.|+|++|+|||++|+.++.+.
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            5689999999999999988776

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

>KOG0651 consensus 26S proteasome regulatory complex, ATPase RPT4 [Posttranslational modification, protein turnover, chaperones]

Probab=95.64  E-value=0.03  Score=55.24  Aligned_cols=26  Identities=31%  Similarity=0.391  Sum_probs=24.0

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      .+..++|||++|.|||-+|+.|+...
T Consensus       165 ~Pkg~ll~GppGtGKTlla~~Vaa~m  190 (388)
T KOG0651|consen  165 PPKGLLLYGPPGTGKTLLARAVAATM  190 (388)
T ss_pred             CCceeEEeCCCCCchhHHHHHHHHhc
Confidence            45789999999999999999999987

>TIGR03881 KaiC_arch_4 KaiC domain protein, PAE1156 family

Probab=95.64  E-value=0.055  Score=53.26  Aligned_cols=40  Identities=28%  Similarity=0.269  Sum_probs=29.8

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecC
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSK  188 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~  188 (720)
                      .-.++.|.|.+|+||||+|.++.....   ..-..++|++...
T Consensus        19 ~G~~~~i~G~~G~GKT~l~~~~~~~~~---~~g~~~~~is~e~   58 (229)
T TIGR03881        19 RGFFVAVTGEPGTGKTIFCLHFAYKGL---RDGDPVIYVTTEE   58 (229)
T ss_pred             CCeEEEEECCCCCChHHHHHHHHHHHH---hcCCeEEEEEccC
Confidence            347899999999999999998765541   1234678887643

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.

>cd01129 PulE-GspE PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP)

Probab=95.63  E-value=0.033  Score=55.84  Aligned_cols=104  Identities=22%  Similarity=0.230  Sum_probs=58.2

Q ss_pred             cCchHHHHHHHHHhcCCCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHHHHHhCCCCC
Q 038398          129 VGLESTFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKIGRRIGFFDE  208 (720)
Q Consensus       129 vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i~~~l~~~~~  208 (720)
                      .|...+..+.+..+......+|.|.|+.|+||||+++.+.+...   ..-..++.+.-........+     .++..   
T Consensus        62 lg~~~~~~~~l~~~~~~~~GlilisG~tGSGKTT~l~all~~i~---~~~~~iitiEdp~E~~~~~~-----~q~~v---  130 (264)
T cd01129          62 LGLKPENLEIFRKLLEKPHGIILVTGPTGSGKTTTLYSALSELN---TPEKNIITVEDPVEYQIPGI-----NQVQV---  130 (264)
T ss_pred             cCCCHHHHHHHHHHHhcCCCEEEEECCCCCcHHHHHHHHHhhhC---CCCCeEEEECCCceecCCCc-----eEEEe---
Confidence            45444444433433334457899999999999999998877652   11113333321111111100     11111   


Q ss_pred             ccCCCChhHHHHHHHHHhccCcEEEEEeccccccccc
Q 038398          209 SWKNGSLEDKTSDILRILGKKKFLLLLDDIWERVDLT  245 (720)
Q Consensus       209 ~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~~~  245 (720)
                        ...........++..++..+=.|+++++.+.+...
T Consensus       131 --~~~~~~~~~~~l~~~lR~~PD~i~vgEiR~~e~a~  165 (264)
T cd01129         131 --NEKAGLTFARGLRAILRQDPDIIMVGEIRDAETAE  165 (264)
T ss_pred             --CCcCCcCHHHHHHHHhccCCCEEEeccCCCHHHHH
Confidence              11111235666777888888899999998876543

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.

>PLN03186 DNA repair protein RAD51 homolog; Provisional

Probab=95.63  E-value=0.084  Score=54.79  Aligned_cols=59  Identities=17%  Similarity=0.222  Sum_probs=41.6

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhhcC--CC-CCcCEEEEEEecCcCCHHHHHHHHHHHhCC
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKLLG--AP-NVFDVVIWVVVSKDLQLEKIQEKIGRRIGF  205 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~--~~-~~f~~~~wv~v~~~~~~~~~~~~i~~~l~~  205 (720)
                      .-.++-|+|.+|+|||+||..++-....  .. ..-..++||+....+...++. ++++.++.
T Consensus       122 ~g~i~~i~G~~g~GKT~l~~~l~~~~~~~~~~gg~~g~vlyIdtE~~f~~eRl~-qia~~~~~  183 (342)
T PLN03186        122 TGSITEIYGEFRTGKTQLCHTLCVTCQLPLDQGGGEGKAMYIDTEGTFRPQRLI-QIAERFGL  183 (342)
T ss_pred             CceEEEEECCCCCCccHHHHHHHHHhhcchhhCCCCceEEEEECCCCccHHHHH-HHHHHcCC
Confidence            3468889999999999999887754310  01 112379999999988887764 45566554

>PRK08972 fliI flagellum-specific ATP synthase; Validated

Probab=95.63  E-value=0.027  Score=59.73  Aligned_cols=90  Identities=22%  Similarity=0.252  Sum_probs=53.6

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCc-CCHHHHHHHHHHHhCCCCCc----cCCCChhH---
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKD-LQLEKIQEKIGRRIGFFDES----WKNGSLED---  217 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~-~~~~~~~~~i~~~l~~~~~~----~~~~~~~~---  217 (720)
                      .-..++|+|..|+|||||++.++...     ..+.++++-++.. ....++.+.++..-+....-    ..+.....   
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            44789999999999999999998654     2256666666554 34555666654442221100    01111111   


Q ss_pred             ---HHHHHHHHh--ccCcEEEEEecccc
Q 038398          218 ---KTSDILRIL--GKKKFLLLLDDIWE  240 (720)
Q Consensus       218 ---~~~~l~~~l--~~k~~LlVlDdv~~  240 (720)
                         ..-.+.+++  +++.+|+++||+-.
T Consensus       236 a~~~A~tiAEyfrd~G~~VLl~~DslTR  263 (444)
T PRK08972        236 GCETATTIAEYFRDQGLNVLLLMDSLTR  263 (444)
T ss_pred             HHHHHHHHHHHHHHcCCCEEEEEcChHH
Confidence               112244455  57899999999843

>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=95.63  E-value=0.062  Score=51.75  Aligned_cols=97  Identities=23%  Similarity=0.310  Sum_probs=56.9

Q ss_pred             HHHHhcC-CCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCc-CCHHHHHHHHHHHhCCCCC----ccC
Q 038398          138 VWRCLGE-EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKD-LQLEKIQEKIGRRIGFFDE----SWK  211 (720)
Q Consensus       138 l~~~L~~-~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~-~~~~~~~~~i~~~l~~~~~----~~~  211 (720)
                      .++.+.. ..-..++|.|.+|+|||+|+..+.+..     .-+.++++.+++. .+..++.+++...-.....    ...
T Consensus         5 ~ID~l~Pig~Gqr~~I~g~~g~GKt~Ll~~i~~~~-----~~d~~V~~~iGer~~Ev~~~~~~~~~~~~~~~t~vv~~t~   79 (215)
T PF00006_consen    5 AIDLLFPIGRGQRIGIFGGAGVGKTVLLQEIANNQ-----DADVVVYALIGERGREVTEFIEELKGEGALERTVVVAATS   79 (215)
T ss_dssp             HHHHHSCEETTSEEEEEESTTSSHHHHHHHHHHHC-----TTTEEEEEEESECHHHHHHHHHHHHHTTGGGGEEEEEEET
T ss_pred             eeccccccccCCEEEEEcCcccccchhhHHHHhcc-----cccceeeeeccccchhHHHHHHHHhhcccccccccccccc
Confidence            3444433 233689999999999999999999886     2344588888754 4566666666443111100    001


Q ss_pred             CCChhH------HHHHHHHHh--ccCcEEEEEeccc
Q 038398          212 NGSLED------KTSDILRIL--GKKKFLLLLDDIW  239 (720)
Q Consensus       212 ~~~~~~------~~~~l~~~l--~~k~~LlVlDdv~  239 (720)
                      ......      ..-.+.+++  +++.+|+++||+-
T Consensus        80 ~~~~~~r~~~~~~a~t~AEyfrd~G~dVlli~Dslt  115 (215)
T PF00006_consen   80 DEPPAARYRAPYTALTIAEYFRDQGKDVLLIIDSLT  115 (215)
T ss_dssp             TS-HHHHHHHHHHHHHHHHHHHHTTSEEEEEEETHH
T ss_pred             hhhHHHHhhhhccchhhhHHHhhcCCceeehhhhhH
Confidence            111111      111222333  5799999999983

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 ....

>PF01583 APS_kinase: Adenylylsulphate kinase; InterPro: IPR002891 Protein phosphorylation, which plays a key role in most cellular activities, is a reversible process mediated by protein kinases and phosphoprotein phosphatases

Probab=95.62  E-value=0.013  Score=52.86  Aligned_cols=36  Identities=31%  Similarity=0.223  Sum_probs=27.3

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEE
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVV  185 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~  185 (720)
                      ..+|.|.|.+|+||||||+++....   ...-..++++.
T Consensus         2 g~vIwltGlsGsGKtTlA~~L~~~L---~~~g~~~~~LD   37 (156)
T PF01583_consen    2 GFVIWLTGLSGSGKTTLARALERRL---FARGIKVYLLD   37 (156)
T ss_dssp             -EEEEEESSTTSSHHHHHHHHHHHH---HHTTS-EEEEE
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHH---HHcCCcEEEec
Confidence            3589999999999999999999988   23334556654

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 ....

>KOG3347 consensus Predicted nucleotide kinase/nuclear protein involved oxidative stress response [Nucleotide transport and metabolism]

Probab=95.61  E-value=0.017  Score=50.47  Aligned_cols=34  Identities=26%  Similarity=0.349  Sum_probs=26.6

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecC
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSK  188 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~  188 (720)
                      .+-|.|.|-+|+||||+|.+++...        ..-|+++|+
T Consensus         7 ~PNILvtGTPG~GKstl~~~lae~~--------~~~~i~isd   40 (176)
T KOG3347|consen    7 RPNILVTGTPGTGKSTLAERLAEKT--------GLEYIEISD   40 (176)
T ss_pred             CCCEEEeCCCCCCchhHHHHHHHHh--------CCceEehhh
Confidence            3568899999999999999999765        134666654

>PRK05342 clpX ATP-dependent protease ATP-binding subunit ClpX; Provisional

Probab=95.60  E-value=0.035  Score=59.18  Aligned_cols=45  Identities=27%  Similarity=0.211  Sum_probs=34.7

Q ss_pred             CCcCchHHHHHHHHHhcC-------C---------CceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          127 PTVGLESTFDKVWRCLGE-------E---------QVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       127 ~~vGr~~~~~~l~~~L~~-------~---------~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      .+||.+..++.+...+..       .         ..+.|.++|++|+|||++|+.+....
T Consensus        72 ~ViGq~~ak~~l~~av~~~~~r~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~lAr~lA~~l  132 (412)
T PRK05342         72 YVIGQERAKKVLSVAVYNHYKRLRHGDKKDDDVELQKSNILLIGPTGSGKTLLAQTLARIL  132 (412)
T ss_pred             HeeChHHHHHHHHHHHHHHHHhhhcccccccccccCCceEEEEcCCCCCHHHHHHHHHHHh
Confidence            468999988877554411       0         13568999999999999999998776

>PTZ00088 adenylate kinase 1; Provisional

Probab=95.60  E-value=0.01  Score=57.99  Aligned_cols=23  Identities=39%  Similarity=0.533  Sum_probs=21.2

Q ss_pred             EEEEEcCCCChHHHHHHHHHhhh
Q 038398          149 IIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      .|.|.|++|+||||+|+.+.+..
T Consensus         8 rIvl~G~PGsGK~T~a~~La~~~   30 (229)
T PTZ00088          8 KIVLFGAPGVGKGTFAEILSKKE   30 (229)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHh
Confidence            48899999999999999999886

>KOG0726 consensus 26S proteasome regulatory complex, ATPase RPT2 [Posttranslational modification, protein turnover, chaperones]

Probab=95.56  E-value=0.081  Score=51.70  Aligned_cols=44  Identities=30%  Similarity=0.364  Sum_probs=36.4

Q ss_pred             CcCchHHHHHHHHHhcC-------------CCceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          128 TVGLESTFDKVWRCLGE-------------EQVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       128 ~vGr~~~~~~l~~~L~~-------------~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      +=|.|..+++|.+...-             ..+.-|.++|.+|.|||-||++|+|..
T Consensus       187 iGGle~QiQEiKEsvELPLthPE~YeemGikpPKGVIlyG~PGTGKTLLAKAVANqT  243 (440)
T KOG0726|consen  187 IGGLESQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGEPGTGKTLLAKAVANQT  243 (440)
T ss_pred             cccHHHHHHHHHHhhcCCCCCHHHHHHcCCCCCCeeEEeCCCCCchhHHHHHHhccc
Confidence            45899999999887632             245678899999999999999999986

>COG1428 Deoxynucleoside kinases [Nucleotide transport and metabolism]

Probab=95.56  E-value=0.023  Score=53.26  Aligned_cols=47  Identities=30%  Similarity=0.403  Sum_probs=32.4

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHH
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKI  199 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i  199 (720)
                      ..+|+|-||-|+||||||+.+.++.   .  | .+++-.+.+++-+.....++
T Consensus         4 ~~~IvI~G~IG~GKSTLa~~La~~l---~--~-~~~~E~vednp~L~~FY~d~   50 (216)
T COG1428           4 AMVIVIEGMIGAGKSTLAQALAEHL---G--F-KVFYELVEDNPFLDLFYEDP   50 (216)
T ss_pred             ccEEEEecccccCHHHHHHHHHHHh---C--C-ceeeecccCChHHHHHHHhH
Confidence            4689999999999999999999998   2  2 23344445554444444443

>PRK04040 adenylate kinase; Provisional

Probab=95.56  E-value=0.011  Score=55.93  Aligned_cols=25  Identities=44%  Similarity=0.647  Sum_probs=22.8

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ..+|+|+|++|+||||+++.+.+..
T Consensus         2 ~~~i~v~G~pG~GKtt~~~~l~~~l   26 (188)
T PRK04040          2 MKVVVVTGVPGVGKTTVLNKALEKL   26 (188)
T ss_pred             CeEEEEEeCCCCCHHHHHHHHHHHh
Confidence            3589999999999999999999887

>PRK11823 DNA repair protein RadA; Provisional

Probab=95.55  E-value=0.048  Score=59.15  Aligned_cols=94  Identities=26%  Similarity=0.392  Sum_probs=52.8

Q ss_pred             HHHHHHhcCC--CceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHHHHHhCCCCCcc---
Q 038398          136 DKVWRCLGEE--QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKIGRRIGFFDESW---  210 (720)
Q Consensus       136 ~~l~~~L~~~--~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i~~~l~~~~~~~---  210 (720)
                      .++-+.|..+  .-.++.|.|.+|+|||||+.+++....   ..-..++|++....  ..++... +..++...+..   
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            3444445432  346899999999999999999988762   22236788875433  3333222 44554422111   


Q ss_pred             CCCChhHHHHHHHHHhc-cCcEEEEEeccc
Q 038398          211 KNGSLEDKTSDILRILG-KKKFLLLLDDIW  239 (720)
Q Consensus       211 ~~~~~~~~~~~l~~~l~-~k~~LlVlDdv~  239 (720)
                      ...+.++    +.+.+. .+.-++|+|.+.
T Consensus       141 ~e~~l~~----i~~~i~~~~~~lVVIDSIq  166 (446)
T PRK11823        141 AETNLEA----ILATIEEEKPDLVVIDSIQ  166 (446)
T ss_pred             CCCCHHH----HHHHHHhhCCCEEEEechh
Confidence            1122232    333332 355678888874

>PRK05201 hslU ATP-dependent protease ATP-binding subunit HslU; Provisional

Probab=95.54  E-value=0.027  Score=59.06  Aligned_cols=46  Identities=22%  Similarity=0.224  Sum_probs=37.3

Q ss_pred             CCCcCchHHHHHHHHHhcC--------------CCceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          126 EPTVGLESTFDKVWRCLGE--------------EQVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~--------------~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ..++|.++.++.+..++..              -....|.++|++|+|||++|+.+....
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            3578999999888776632              014678999999999999999998886

>TIGR02236 recomb_radA DNA repair and recombination protein RadA

Probab=95.53  E-value=0.047  Score=56.49  Aligned_cols=56  Identities=18%  Similarity=0.357  Sum_probs=40.5

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhhcCCC----CCcCEEEEEEecCcCCHHHHHHHHHHHhC
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKLLGAP----NVFDVVIWVVVSKDLQLEKIQEKIGRRIG  204 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~----~~f~~~~wv~v~~~~~~~~~~~~i~~~l~  204 (720)
                      -.++-|+|++|+|||+++.+++... ...    ..-..++||+....++...+.+ ++..++
T Consensus        95 g~i~ei~G~~g~GKT~l~~~~~~~~-~~~~~~g~~~~~~~yi~te~~f~~~rl~~-~~~~~g  154 (310)
T TIGR02236        95 QAITEVFGEFGSGKTQICHQLAVNV-QLPEEKGGLGGKAVYIDTENTFRPERIMQ-MAEARG  154 (310)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHh-cCCcccCCCcceEEEEECCCCCCHHHHHH-HHHHcC
Confidence            4788999999999999999997664 111    0113799999988888776544 344444

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.

>PRK07132 DNA polymerase III subunit delta'; Validated

Probab=95.51  E-value=0.52  Score=48.02  Aligned_cols=168  Identities=11%  Similarity=0.045  Sum_probs=91.2

Q ss_pred             HHHHHHHHhcCCCc-eEEEEEcCCCChHHHHHHHHHhhhcC-------CCCCcCEEEEEEe-cCcCCHHHHHHHHHHHhC
Q 038398          134 TFDKVWRCLGEEQV-GIIGLYGMGGVGKTTLLTKINNKLLG-------APNVFDVVIWVVV-SKDLQLEKIQEKIGRRIG  204 (720)
Q Consensus       134 ~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~~~-------~~~~f~~~~wv~v-~~~~~~~~~~~~i~~~l~  204 (720)
                      .++.+.+.+..+.. .+..++|..|.||+++|+.+.+....       ...+-+.+.++.. +......++. .+...+.
T Consensus         4 ~~~~l~~~i~~~~l~haYLf~G~eg~gk~~~a~~~a~~l~c~~~~~~~~~~~p~n~~~~d~~g~~i~vd~Ir-~l~~~~~   82 (299)
T PRK07132          4 WIKFLDNSATQNKISHSFLLKSNYNEDIDEKILYFLNKFNNLQITNLNEQELPANIILFDIFDKDLSKSEFL-SAINKLY   82 (299)
T ss_pred             HHHHHHHHHHhCCCCeEEEEeCCCCCCHHHHHHHHHHHHcCcCCCCCCCCCCCcceEEeccCCCcCCHHHHH-HHHHHhc
Confidence            34555666655544 56669999999999999998877511       1112222333321 1222333322 2333332


Q ss_pred             CCCCccCCCChhHHHHHHHHHhccCcEEEEEecccccc--ccccccccCCCCCCCcEEEEEcCC-hhHhh-hhccCceee
Q 038398          205 FFDESWKNGSLEDKTSDILRILGKKKFLLLLDDIWERV--DLTKVGIPFPDPENKSKIVFTTHF-LEICG-ALKAHEFLK  280 (720)
Q Consensus       205 ~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~--~~~~l~~~~~~~~~gs~iiiTtR~-~~v~~-~~~~~~~~~  280 (720)
                      ...                 .-.+.+-++|+|+++...  ....+...+.....++.+|++|.+ ..+.. ..+....++
T Consensus        83 ~~~-----------------~~~~~~KvvII~~~e~m~~~a~NaLLK~LEEPp~~t~~il~~~~~~kll~TI~SRc~~~~  145 (299)
T PRK07132         83 FSS-----------------FVQSQKKILIIKNIEKTSNSLLNALLKTIEEPPKDTYFLLTTKNINKVLPTIVSRCQVFN  145 (299)
T ss_pred             cCC-----------------cccCCceEEEEecccccCHHHHHHHHHHhhCCCCCeEEEEEeCChHhChHHHHhCeEEEE
Confidence            110                 001466688889986532  233333334344456666665543 34432 233457899


Q ss_pred             ccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCcchHHHH
Q 038398          281 VECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGLPLALIT  328 (720)
Q Consensus       281 l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~GlPLai~~  328 (720)
                      +.++++++..+.+... .     .   -++.+..++...+|.=-|+..
T Consensus       146 f~~l~~~~l~~~l~~~-~-----~---~~~~a~~~a~~~~~~~~a~~~  184 (299)
T PRK07132        146 VKEPDQQKILAKLLSK-N-----K---EKEYNWFYAYIFSNFEQAEKY  184 (299)
T ss_pred             CCCCCHHHHHHHHHHc-C-----C---ChhHHHHHHHHcCCHHHHHHH
Confidence            9999999998877654 1     1   124466667677763345544

>PRK06002 fliI flagellum-specific ATP synthase; Validated

Probab=95.51  E-value=0.041  Score=58.65  Aligned_cols=89  Identities=21%  Similarity=0.243  Sum_probs=49.8

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHHHHHhC-----CCCCccCCCChh-----
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKIGRRIG-----FFDESWKNGSLE-----  216 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i~~~l~-----~~~~~~~~~~~~-----  216 (720)
                      -..++|+|+.|+|||||++.+....    .....++++.-.+..++.++....+....     .-... ......     
T Consensus       165 Gqri~I~G~SGsGKTTLL~~Ia~l~----~pd~gvv~liGergrev~e~~~~~l~~~r~rtI~vV~qs-d~~~~~r~~~~  239 (450)
T PRK06002        165 GQRIGIFAGSGVGKSTLLAMLARAD----AFDTVVIALVGERGREVREFLEDTLADNLKKAVAVVATS-DESPMMRRLAP  239 (450)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCCC----CCCeeeeeecccCCccHHHHhHHHHHHhhCCeEEEEEcC-CCCHHHHHHHH
Confidence            4689999999999999999887543    12224455443344555555544443321     10000 111111     


Q ss_pred             HHHHHHHHHh--ccCcEEEEEecccc
Q 038398          217 DKTSDILRIL--GKKKFLLLLDDIWE  240 (720)
Q Consensus       217 ~~~~~l~~~l--~~k~~LlVlDdv~~  240 (720)
                      ...-.+.+++  +++.+|+++||+-.
T Consensus       240 ~~a~~iAEyfrd~G~~Vll~~DslTr  265 (450)
T PRK06002        240 LTATAIAEYFRDRGENVLLIVDSVTR  265 (450)
T ss_pred             HHHHHHHHHHHHcCCCEEEeccchHH
Confidence            1122234444  47899999999843

>PRK00625 shikimate kinase; Provisional

Probab=95.48  E-value=0.011  Score=54.97  Aligned_cols=23  Identities=35%  Similarity=0.372  Sum_probs=21.2

Q ss_pred             EEEEEcCCCChHHHHHHHHHhhh
Q 038398          149 IIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      .|.++||+|+||||+++.+.+..
T Consensus         2 ~I~LiG~pGsGKTT~~k~La~~l   24 (173)
T PRK00625          2 QIFLCGLPTVGKTSFGKALAKFL   24 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            48899999999999999998886

>PTZ00035 Rad51 protein; Provisional

Probab=95.48  E-value=0.15  Score=52.99  Aligned_cols=58  Identities=22%  Similarity=0.271  Sum_probs=39.7

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhhcCC----CCCcCEEEEEEecCcCCHHHHHHHHHHHhCC
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGA----PNVFDVVIWVVVSKDLQLEKIQEKIGRRIGF  205 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~----~~~f~~~~wv~v~~~~~~~~~~~~i~~~l~~  205 (720)
                      .-.++.|+|++|+|||||+..++-.. ..    ...-..++||+....+....+ ..+++.++.
T Consensus       117 ~G~iteI~G~~GsGKT~l~~~l~~~~-qlp~~~gg~~g~vvyIdtE~~f~~eri-~~ia~~~g~  178 (337)
T PTZ00035        117 TGSITELFGEFRTGKTQLCHTLCVTC-QLPIEQGGGEGKVLYIDTEGTFRPERI-VQIAERFGL  178 (337)
T ss_pred             CCeEEEEECCCCCchhHHHHHHHHHh-ccccccCCCCceEEEEEccCCCCHHHH-HHHHHHhCC
Confidence            34789999999999999999887544 21    112236779998777777664 334555543

>cd02027 APSK Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS)

Probab=95.48  E-value=0.05  Score=49.38  Aligned_cols=23  Identities=39%  Similarity=0.684  Sum_probs=21.0

Q ss_pred             EEEEEcCCCChHHHHHHHHHhhh
Q 038398          149 IIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      +|.|+|.+|+||||+|+.+....
T Consensus         1 ~i~i~G~~GsGKSTla~~L~~~l   23 (149)
T cd02027           1 VIWLTGLSGSGKSTIARALEEKL   23 (149)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHH
Confidence            57899999999999999998876

The end-product PAPS is a biologically "activated" sulfate form important for the assimilation of inorganic sulfate.

>PRK12726 flagellar biosynthesis regulator FlhF; Provisional

Probab=95.46  E-value=0.079  Score=54.97  Aligned_cols=89  Identities=19%  Similarity=0.100  Sum_probs=52.9

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcC-CHHHHHHHHHHHhCCCCCccCCCChhHHHHHHHH
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDL-QLEKIQEKIGRRIGFFDESWKNGSLEDKTSDILR  224 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~-~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~  224 (720)
                      +.++|.++|+.|+||||++..++... ...  -..+.+|+..... ....-++.....++.+..  ...+..+....+..
T Consensus       205 ~~~ii~lvGptGvGKTTt~akLA~~l-~~~--g~~V~lItaDtyR~gAveQLk~yae~lgvpv~--~~~dp~dL~~al~~  279 (407)
T PRK12726        205 NHRIISLIGQTGVGKTTTLVKLGWQL-LKQ--NRTVGFITTDTFRSGAVEQFQGYADKLDVELI--VATSPAELEEAVQY  279 (407)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH-HHc--CCeEEEEeCCccCccHHHHHHHHhhcCCCCEE--ecCCHHHHHHHHHH
Confidence            45799999999999999999988765 112  2356677664322 234455556666654321  23345555444433


Q ss_pred             Hhc-cCcEEEEEeccc
Q 038398          225 ILG-KKKFLLLLDDIW  239 (720)
Q Consensus       225 ~l~-~k~~LlVlDdv~  239 (720)
                      .-. +..=++++|-..
T Consensus       280 l~~~~~~D~VLIDTAG  295 (407)
T PRK12726        280 MTYVNCVDHILIDTVG  295 (407)
T ss_pred             HHhcCCCCEEEEECCC
Confidence            221 334577778664

>cd03230 ABC_DR_subfamily_A This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity

Probab=95.46  E-value=0.026  Score=52.77  Aligned_cols=118  Identities=26%  Similarity=0.280  Sum_probs=59.2

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHHHHHhCC--CCCc-cCC---------CC
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKIGRRIGF--FDES-WKN---------GS  214 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i~~~l~~--~~~~-~~~---------~~  214 (720)
                      -.+++|+|+.|+|||||++.++....    ...+.+++.-.......   ..+...++.  .... +..         +.
T Consensus        26 Ge~~~i~G~nGsGKStLl~~l~G~~~----~~~G~i~~~g~~~~~~~---~~~~~~i~~~~q~~~~~~~~tv~~~~~LS~   98 (173)
T cd03230          26 GEIYGLLGPNGAGKTTLIKIILGLLK----PDSGEIKVLGKDIKKEP---EEVKRRIGYLPEEPSLYENLTVRENLKLSG   98 (173)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCCCC----CCCeEEEECCEEcccch---HhhhccEEEEecCCccccCCcHHHHhhcCH
Confidence            46899999999999999999987541    22344443211100000   111111111  0000 000         11


Q ss_pred             hhHHHHHHHHHhccCcEEEEEecccccccc---ccccccCCC-CCCCcEEEEEcCChhHhh
Q 038398          215 LEDKTSDILRILGKKKFLLLLDDIWERVDL---TKVGIPFPD-PENKSKIVFTTHFLEICG  271 (720)
Q Consensus       215 ~~~~~~~l~~~l~~k~~LlVlDdv~~~~~~---~~l~~~~~~-~~~gs~iiiTtR~~~v~~  271 (720)
                      -+...-.+...+..++-++++|+.-..-|.   ..+...+.. ...|..||++|.+.....
T Consensus        99 G~~qrv~laral~~~p~illlDEPt~~LD~~~~~~l~~~l~~~~~~g~tiii~th~~~~~~  159 (173)
T cd03230          99 GMKQRLALAQALLHDPELLILDEPTSGLDPESRREFWELLRELKKEGKTILLSSHILEEAE  159 (173)
T ss_pred             HHHHHHHHHHHHHcCCCEEEEeCCccCCCHHHHHHHHHHHHHHHHCCCEEEEECCCHHHHH
Confidence            122223455566678889999987543221   111111111 123677899998876544

In bacteria and archaea, these transporters usually include an ATP-binding protein and one or two integral membrane proteins. Eukaryote systems of the ABCA subfamily display ABC domains that are quite similar to this family. The ATP-binding domain shows the highest similarity between all members of the ABC transporter family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>TIGR00764 lon_rel lon-related putative ATP-dependent protease

Probab=95.43  E-value=0.04  Score=62.08  Aligned_cols=76  Identities=14%  Similarity=0.148  Sum_probs=51.4

Q ss_pred             CCCCCcCchHHHHHHHHHhcCCCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHHHHHh
Q 038398          124 PCEPTVGLESTFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKIGRRI  203 (720)
Q Consensus       124 ~~~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i~~~l  203 (720)
                      ..+.++|.++.++.+...+...  +.+.++|++|+||||+|+.+.+...  ...|..++++.-+ ..+...+++.+...+
T Consensus        16 ~~~~viG~~~a~~~l~~a~~~~--~~~ll~G~pG~GKT~la~~la~~l~--~~~~~~~~~~~n~-~~~~~~~~~~v~~~~   90 (608)
T TIGR00764        16 LIDQVIGQEEAVEIIKKAAKQK--RNVLLIGEPGVGKSMLAKAMAELLP--DEELEDILVYPNP-EDPNMPRIVEVPAGE   90 (608)
T ss_pred             hHhhccCHHHHHHHHHHHHHcC--CCEEEECCCCCCHHHHHHHHHHHcC--chhheeEEEEeCC-CCCchHHHHHHHHhh
Confidence            3466799999888888877654  3566999999999999999998872  3344434443322 223445566666655


Q ss_pred             C
Q 038398          204 G  204 (720)
Q Consensus       204 ~  204 (720)
                      +
T Consensus        91 g   91 (608)
T TIGR00764        91 G   91 (608)
T ss_pred             c
Confidence            4

Members of this family from Pyrococcus horikoshii and Pyrococcus abyssi each contain a predicted intein.

>KOG2170 consensus ATPase of the AAA+ superfamily [General function prediction only]

Probab=95.42  E-value=0.027  Score=55.44  Aligned_cols=99  Identities=14%  Similarity=0.132  Sum_probs=56.3

Q ss_pred             CcCchHHHHHHHHHhcC-------CCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHHH
Q 038398          128 TVGLESTFDKVWRCLGE-------EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKIG  200 (720)
Q Consensus       128 ~vGr~~~~~~l~~~L~~-------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i~  200 (720)
                      ++|..-.++.|+..+.+       .++-+++.+|.+|+||.-+++.+++...+...+-               .....+.
T Consensus        84 lfGQHla~~~Vv~alk~~~~n~~p~KPLvLSfHG~tGTGKN~Va~iiA~n~~~~Gl~S---------------~~V~~fv  148 (344)
T KOG2170|consen   84 LFGQHLAKQLVVNALKSHWANPNPRKPLVLSFHGWTGTGKNYVAEIIAENLYRGGLRS---------------PFVHHFV  148 (344)
T ss_pred             hhchHHHHHHHHHHHHHHhcCCCCCCCeEEEecCCCCCchhHHHHHHHHHHHhccccc---------------hhHHHhh
Confidence            46766666666666632       3567999999999999999999988873221111               1122222


Q ss_pred             HHhCCCCCccCCCChhHHHHHHHHHhcc-CcEEEEEeccccc
Q 038398          201 RRIGFFDESWKNGSLEDKTSDILRILGK-KKFLLLLDDIWER  241 (720)
Q Consensus       201 ~~l~~~~~~~~~~~~~~~~~~l~~~l~~-k~~LlVlDdv~~~  241 (720)
                      ....-+..+....-.+++...+++.++. ++-|+|||+++..
T Consensus       149 at~hFP~~~~ie~Yk~eL~~~v~~~v~~C~rslFIFDE~DKm  190 (344)
T KOG2170|consen  149 ATLHFPHASKIEDYKEELKNRVRGTVQACQRSLFIFDEVDKL  190 (344)
T ss_pred             hhccCCChHHHHHHHHHHHHHHHHHHHhcCCceEEechhhhc
Confidence            3332221110111122333334433333 7899999999864

>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]

Probab=95.42  E-value=0.12  Score=53.85  Aligned_cols=99  Identities=23%  Similarity=0.197  Sum_probs=54.9

Q ss_pred             HHHHHHHhcCC----CceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCc-CCHHHHHHHHHHHhCCCCCc
Q 038398          135 FDKVWRCLGEE----QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKD-LQLEKIQEKIGRRIGFFDES  209 (720)
Q Consensus       135 ~~~l~~~L~~~----~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~-~~~~~~~~~i~~~l~~~~~~  209 (720)
                      ...+..++.++    +.++|.++||.|+||||-...++.++ .....-..+..|+...- ....+-++..+.-++.+.. 
T Consensus       187 l~~~~~~~~~~~~~~~~~vi~LVGPTGVGKTTTlAKLAar~-~~~~~~~kVaiITtDtYRIGA~EQLk~Ya~im~vp~~-  264 (407)
T COG1419         187 LRKLLLSLIENLIVEQKRVIALVGPTGVGKTTTLAKLAARY-VMLKKKKKVAIITTDTYRIGAVEQLKTYADIMGVPLE-  264 (407)
T ss_pred             HHHHHHhhccccccccCcEEEEECCCCCcHHHHHHHHHHHH-HhhccCcceEEEEeccchhhHHHHHHHHHHHhCCceE-
Confidence            34444455443    47899999999999975444444444 11233345667765432 3455566677777776542 


Q ss_pred             cCCCChhHHHHHHHHHhccCcEEEEEecc
Q 038398          210 WKNGSLEDKTSDILRILGKKKFLLLLDDI  238 (720)
Q Consensus       210 ~~~~~~~~~~~~l~~~l~~k~~LlVlDdv  238 (720)
                       ...+..++...+.. +++.. +|.+|-+
T Consensus       265 -vv~~~~el~~ai~~-l~~~d-~ILVDTa  290 (407)
T COG1419         265 -VVYSPKELAEAIEA-LRDCD-VILVDTA  290 (407)
T ss_pred             -EecCHHHHHHHHHH-hhcCC-EEEEeCC
Confidence             23444454444433 34444 3444544

>TIGR01359 UMP_CMP_kin_fam UMP-CMP kinase family

Probab=95.41  E-value=0.01  Score=56.09  Aligned_cols=23  Identities=30%  Similarity=0.397  Sum_probs=21.2

Q ss_pred             EEEEEcCCCChHHHHHHHHHhhh
Q 038398          149 IIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      +|.|+|++|+||||+|+.+.+..
T Consensus         1 ~i~i~G~pGsGKst~a~~la~~~   23 (183)
T TIGR01359         1 VVFVLGGPGSGKGTQCAKIVENF   23 (183)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHc
Confidence            58899999999999999998876

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.

>PRK08533 flagellar accessory protein FlaH; Reviewed

Probab=95.41  E-value=0.082  Score=51.91  Aligned_cols=48  Identities=21%  Similarity=0.259  Sum_probs=31.7

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHH
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKI  199 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i  199 (720)
                      -.++.|.|++|+||||+|.+++....  +.. ..++|++..  .+..++.+.+
T Consensus        24 g~~~~i~G~~G~GKTtl~~~~~~~~~--~~g-~~~~yi~~e--~~~~~~~~~~   71 (230)
T PRK08533         24 GSLILIEGDESTGKSILSQRLAYGFL--QNG-YSVSYVSTQ--LTTTEFIKQM   71 (230)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHH--hCC-CcEEEEeCC--CCHHHHHHHH
Confidence            46999999999999999877655441  111 356677633  3445555555

>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=95.41  E-value=0.053  Score=49.79  Aligned_cols=115  Identities=26%  Similarity=0.292  Sum_probs=61.3

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCC--HHHHHHHHHHHhCCCCCccCCCChhHHHHHHHH
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQ--LEKIQEKIGRRIGFFDESWKNGSLEDKTSDILR  224 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~--~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~  224 (720)
                      -.+++|+|..|.|||||++.+....    ......+++.......  ...    ....+....   +-+.-+...-.+..
T Consensus        25 g~~~~i~G~nGsGKStll~~l~g~~----~~~~G~i~~~~~~~~~~~~~~----~~~~i~~~~---qlS~G~~~r~~l~~   93 (157)
T cd00267          25 GEIVALVGPNGSGKSTLLRAIAGLL----KPTSGEILIDGKDIAKLPLEE----LRRRIGYVP---QLSGGQRQRVALAR   93 (157)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCC----CCCccEEEECCEEcccCCHHH----HHhceEEEe---eCCHHHHHHHHHHH
Confidence            3689999999999999999998765    2234445543221111  111    111121110   11122333334555


Q ss_pred             HhccCcEEEEEeccccccc---cccccccCCC-CCCCcEEEEEcCChhHhhh
Q 038398          225 ILGKKKFLLLLDDIWERVD---LTKVGIPFPD-PENKSKIVFTTHFLEICGA  272 (720)
Q Consensus       225 ~l~~k~~LlVlDdv~~~~~---~~~l~~~~~~-~~~gs~iiiTtR~~~v~~~  272 (720)
                      .+...+-++++|+.-...|   ...+...+.. ...+..++++|.+......
T Consensus        94 ~l~~~~~i~ilDEp~~~lD~~~~~~l~~~l~~~~~~~~tii~~sh~~~~~~~  145 (157)
T cd00267          94 ALLLNPDLLLLDEPTSGLDPASRERLLELLRELAEEGRTVIIVTHDPELAEL  145 (157)
T ss_pred             HHhcCCCEEEEeCCCcCCCHHHHHHHHHHHHHHHHCCCEEEEEeCCHHHHHH
Confidence            6666788999999754322   1122111111 1125678888887766544

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.

>PRK12597 F0F1 ATP synthase subunit beta; Provisional

Probab=95.40  E-value=0.043  Score=58.92  Aligned_cols=92  Identities=21%  Similarity=0.249  Sum_probs=58.1

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCc-CCHHHHHHHHHHHhCCCCCc----cCCCChh----
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKD-LQLEKIQEKIGRRIGFFDES----WKNGSLE----  216 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~-~~~~~~~~~i~~~l~~~~~~----~~~~~~~----  216 (720)
                      .-..++|.|.+|+|||||+.++.....  +.+-+.++++-++.. ....++...+...-......    ....+..    
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            347899999999999999999888762  235677888877643 45666666665542221100    0111111    


Q ss_pred             --HHHHHHHHHh---ccCcEEEEEeccc
Q 038398          217 --DKTSDILRIL---GKKKFLLLLDDIW  239 (720)
Q Consensus       217 --~~~~~l~~~l---~~k~~LlVlDdv~  239 (720)
                        ...-.+.+++   .++.+|+++|++-
T Consensus       220 a~~~a~tiAEyfrd~~G~~VLl~~DslT  247 (461)
T PRK12597        220 VVLTGLTIAEYLRDEEKEDVLLFIDNIF  247 (461)
T ss_pred             HHHHHHHHHHHHHHhcCCceEEEeccch
Confidence              1223345555   3789999999984

>PRK12678 transcription termination factor Rho; Provisional

Probab=95.39  E-value=0.027  Score=60.94  Aligned_cols=98  Identities=18%  Similarity=0.159  Sum_probs=52.0

Q ss_pred             HHHHhcC-CCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEE-EEEecCcC-CHHHHHHHHHHHhCCCCCccCCCC
Q 038398          138 VWRCLGE-EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVI-WVVVSKDL-QLEKIQEKIGRRIGFFDESWKNGS  214 (720)
Q Consensus       138 l~~~L~~-~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~-wv~v~~~~-~~~~~~~~i~~~l~~~~~~~~~~~  214 (720)
                      +++++.. ..-...+|+|++|+|||||++.+.+...  ..+-+..+ ++-|..-. .+.++.+.+-..+....  +....
T Consensus       406 vIDll~PIGkGQR~LIvgpp~aGKTtLL~~IAn~i~--~n~~~~~~ivvLIgERpeEVtdm~rsVkgeVVasT--~D~p~  481 (672)
T PRK12678        406 VIDLIMPIGKGQRGLIVSPPKAGKTTILQNIANAIT--TNNPECHLMVVLVDERPEEVTDMQRSVKGEVIAST--FDRPP  481 (672)
T ss_pred             eeeeecccccCCEeEEeCCCCCCHHHHHHHHHHHHh--hcCCCeEEEEEEEeCchhhHHHHHHhccceEEEEC--CCCCH
Confidence            4444433 3346789999999999999999998652  23334333 44444432 23333333211110000  01111


Q ss_pred             -----hhHHHHHHHHHh--ccCcEEEEEeccc
Q 038398          215 -----LEDKTSDILRIL--GKKKFLLLLDDIW  239 (720)
Q Consensus       215 -----~~~~~~~l~~~l--~~k~~LlVlDdv~  239 (720)
                           .....-.+.+++  .++.+||++|++-
T Consensus       482 ~~~~~~a~~ai~~Ae~fre~G~dVlillDSlT  513 (672)
T PRK12678        482 SDHTTVAELAIERAKRLVELGKDVVVLLDSIT  513 (672)
T ss_pred             HHHHHHHHHHHHHHHHHHHcCCCEEEEEeCch
Confidence                 111222333444  5789999999984

>PRK06217 hypothetical protein; Validated

Probab=95.39  E-value=0.013  Score=55.34  Aligned_cols=24  Identities=33%  Similarity=0.433  Sum_probs=21.9

Q ss_pred             eEEEEEcCCCChHHHHHHHHHhhh
Q 038398          148 GIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ..|.|.|++|+||||+|+++....
T Consensus         2 ~~I~i~G~~GsGKSTla~~L~~~l   25 (183)
T PRK06217          2 MRIHITGASGSGTTTLGAALAERL   25 (183)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHc
Confidence            358999999999999999999886

>cd02023 UMPK Uridine monophosphate kinase (UMPK, EC 2

Probab=95.36  E-value=0.011  Score=56.79  Aligned_cols=23  Identities=48%  Similarity=0.702  Sum_probs=20.9

Q ss_pred             EEEEEcCCCChHHHHHHHHHhhh
Q 038398          149 IIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      +|+|.|++|+||||||+.+....
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.

>PRK05986 cob(I)alamin adenolsyltransferase/cobinamide ATP-dependent adenolsyltransferase; Validated

Probab=95.35  E-value=0.058  Score=50.38  Aligned_cols=119  Identities=18%  Similarity=0.144  Sum_probs=61.7

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecC---cCCHHHHHHHHH--HH--hCCCCCccCCCChh--
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSK---DLQLEKIQEKIG--RR--IGFFDESWKNGSLE--  216 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~---~~~~~~~~~~i~--~~--l~~~~~~~~~~~~~--  216 (720)
                      ....|.|+|..|-||||.|..+.-+..  ...+ .+..+..-+   ..+-...++.+-  ..  .+.. -.+...+.+  
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--GHGK-KVGVVQFIKGAWSTGERNLLEFGGGVEFHVMGTG-FTWETQDRERD   96 (191)
T ss_pred             cCCeEEEECCCCCChHHHHHHHHHHHH--HCCC-eEEEEEEecCCCccCHHHHHhcCCCcEEEECCCC-CcccCCCcHHH
Confidence            347899999999999999998877762  2222 344443322   223333333321  00  0110 001111111  


Q ss_pred             -----HHHHHHHHHhccC-cEEEEEeccccc-----cccccccccCCCCCCCcEEEEEcCChh
Q 038398          217 -----DKTSDILRILGKK-KFLLLLDDIWER-----VDLTKVGIPFPDPENKSKIVFTTHFLE  268 (720)
Q Consensus       217 -----~~~~~l~~~l~~k-~~LlVlDdv~~~-----~~~~~l~~~~~~~~~gs~iiiTtR~~~  268 (720)
                           +..+..++.+... -=++|||++-..     -+.+++...+.....+.-||+|-|+..
T Consensus        97 ~~~~~~~~~~a~~~l~~~~ydlvVLDEi~~Al~~gli~~eevi~~L~~rp~~~evVlTGR~~p  159 (191)
T PRK05986         97 IAAAREGWEEAKRMLADESYDLVVLDELTYALKYGYLDVEEVLEALNARPGMQHVVITGRGAP  159 (191)
T ss_pred             HHHHHHHHHHHHHHHhCCCCCEEEEehhhHHHHCCCccHHHHHHHHHcCCCCCEEEEECCCCC
Confidence                 1233344445444 449999998532     222333333333445678999999753

>COG0541 Ffh Signal recognition particle GTPase [Intracellular trafficking and secretion]

Probab=95.35  E-value=0.77  Score=48.12  Aligned_cols=59  Identities=20%  Similarity=0.191  Sum_probs=40.1

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEec-CcCCHHHHHHHHHHHhCCCC
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVS-KDLQLEKIQEKIGRRIGFFD  207 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~-~~~~~~~~~~~i~~~l~~~~  207 (720)
                      .+.+|-.+|.-|.||||.|-.+++.+.   .+=..+.-|++. ..+...+-++.+..+.+.+.
T Consensus        99 ~P~vImmvGLQGsGKTTt~~KLA~~lk---k~~~kvllVaaD~~RpAA~eQL~~La~q~~v~~  158 (451)
T COG0541          99 PPTVILMVGLQGSGKTTTAGKLAKYLK---KKGKKVLLVAADTYRPAAIEQLKQLAEQVGVPF  158 (451)
T ss_pred             CCeEEEEEeccCCChHhHHHHHHHHHH---HcCCceEEEecccCChHHHHHHHHHHHHcCCce
Confidence            467899999999999999999998882   211223333322 22344566788888887654

>cd02024 NRK1 Nicotinamide riboside kinase (NRK) is an enzyme involved in the metabolism of nicotinamide adenine dinucleotide (NAD+)

Probab=95.35  E-value=0.012  Score=55.44  Aligned_cols=23  Identities=39%  Similarity=0.615  Sum_probs=21.3

Q ss_pred             EEEEEcCCCChHHHHHHHHHhhh
Q 038398          149 IIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      +|+|.|.+|+||||+|+.+....
T Consensus         1 ii~i~G~sgsGKTtla~~l~~~~   23 (187)
T cd02024           1 IVGISGVTNSGKTTLAKLLQRIL   23 (187)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHc
Confidence            58999999999999999999875

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.

>TIGR03878 thermo_KaiC_2 KaiC domain protein, AF_0795 family

Probab=95.34  E-value=0.07  Score=53.46  Aligned_cols=40  Identities=18%  Similarity=0.326  Sum_probs=30.4

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecC
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSK  188 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~  188 (720)
                      .-.++.|.|++|+|||++|.+++....   ..=..++|++...
T Consensus        35 ~gs~~lI~G~pGtGKT~l~~qf~~~~a---~~Ge~vlyis~Ee   74 (259)
T TIGR03878        35 AYSVINITGVSDTGKSLMVEQFAVTQA---SRGNPVLFVTVES   74 (259)
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHHHH---hCCCcEEEEEecC
Confidence            347899999999999999999876541   2234678888764

This KaiC domain-containing protein family occurs sporadically across a broad taxonomic range (Euryarchaeota, Aquificae, Dictyoglomi, Epsilonproteobacteria, and Firmicutes), but exclusively in thermophiles.

>PRK12723 flagellar biosynthesis regulator FlhF; Provisional

Probab=95.33  E-value=0.067  Score=56.44  Aligned_cols=90  Identities=22%  Similarity=0.199  Sum_probs=52.0

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhhcCCC-CCcCEEEEEEecCc-CCHHHHHHHHHHHhCCCCCccCCCChhHHHHHHH
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAP-NVFDVVIWVVVSKD-LQLEKIQEKIGRRIGFFDESWKNGSLEDKTSDIL  223 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~-~~f~~~~wv~v~~~-~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~  223 (720)
                      ...+|.++|+.|+||||.+..++....... ..-..+..++.... ......++...+.++.+..  ...+.......+.
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            357999999999999999999887762111 12235555655432 1223335666666665431  2233344443333


Q ss_pred             HHhccCcEEEEEeccc
Q 038398          224 RILGKKKFLLLLDDIW  239 (720)
Q Consensus       224 ~~l~~k~~LlVlDdv~  239 (720)
                      . + .+.-++++|...
T Consensus       251 ~-~-~~~DlVLIDTaG  264 (388)
T PRK12723        251 Q-S-KDFDLVLVDTIG  264 (388)
T ss_pred             H-h-CCCCEEEEcCCC
Confidence            3 3 345588889874

>TIGR03498 FliI_clade3 flagellar protein export ATPase FliI

Probab=95.31  E-value=0.042  Score=58.45  Aligned_cols=91  Identities=23%  Similarity=0.288  Sum_probs=51.3

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHHHHHhCCCCC-----ccCCCChhH---
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKIGRRIGFFDE-----SWKNGSLED---  217 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i~~~l~~~~~-----~~~~~~~~~---  217 (720)
                      .-..++|+|..|+|||||++.+....   . ....++...-.+...+.++.+..+..-+....     .........   
T Consensus       139 ~Gq~i~I~G~sG~GKTtLl~~I~~~~---~-~~~gvi~~iGer~~ev~~~~~~~l~~~~~~~tvvv~atsd~~~~~r~~a  214 (418)
T TIGR03498       139 RGQRLGIFAGSGVGKSTLLSMLARNT---D-ADVVVIALVGERGREVREFLEDDLGEEGLKRSVVVVATSDESPLMRRQA  214 (418)
T ss_pred             CCcEEEEECCCCCChHHHHHHHhCCC---C-CCEEEEEEEeeechHHHHHHHHhhhccccceeEEEEECCCCCHHHHHHH
Confidence            34689999999999999999888664   1 22233333333344555666555443322110     001111111   


Q ss_pred             --HHHHHHHHh--ccCcEEEEEecccc
Q 038398          218 --KTSDILRIL--GKKKFLLLLDDIWE  240 (720)
Q Consensus       218 --~~~~l~~~l--~~k~~LlVlDdv~~  240 (720)
                        ..-.+.+++  +++.+|+++||+-.
T Consensus       215 ~~~a~~iAEyfrd~G~~Vll~~DslTr  241 (418)
T TIGR03498       215 AYTATAIAEYFRDQGKDVLLLMDSVTR  241 (418)
T ss_pred             HHHHHHHHHHHHHcCCCEEEeccchhH
Confidence              122344555  56899999999843

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.

>PRK00131 aroK shikimate kinase; Reviewed

Probab=95.31  E-value=0.015  Score=54.40  Aligned_cols=25  Identities=32%  Similarity=0.369  Sum_probs=22.9

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ...|.|+|++|+||||+|+.+.+..
T Consensus         4 ~~~i~l~G~~GsGKstla~~La~~l   28 (175)
T PRK00131          4 GPNIVLIGFMGAGKSTIGRLLAKRL   28 (175)
T ss_pred             CCeEEEEcCCCCCHHHHHHHHHHHh
Confidence            4689999999999999999999887

>TIGR02902 spore_lonB ATP-dependent protease LonB

Probab=95.30  E-value=0.024  Score=62.91  Aligned_cols=46  Identities=22%  Similarity=0.285  Sum_probs=38.8

Q ss_pred             CCCcCchHHHHHHHHHhcCCCceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          126 EPTVGLESTFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ++++|.+..++.+...+......-|.|+|++|+|||++|+.+++..
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            5689999999999888766555677899999999999999998653

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.

>PRK12724 flagellar biosynthesis regulator FlhF; Provisional

Probab=95.29  E-value=0.057  Score=56.89  Aligned_cols=25  Identities=32%  Similarity=0.430  Sum_probs=22.0

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ..++.|+|++|+||||++..++...
T Consensus       223 ~~vi~lvGptGvGKTTtaaKLA~~~  247 (432)
T PRK12724        223 RKVVFFVGPTGSGKTTSIAKLAAKY  247 (432)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHH
Confidence            4689999999999999999998654

>PRK08149 ATP synthase SpaL; Validated

Probab=95.26  E-value=0.062  Score=57.15  Aligned_cols=90  Identities=14%  Similarity=0.192  Sum_probs=53.0

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecC-cCCHHHHHHHHHHHhCCCCCc----cCCCCh-h---
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSK-DLQLEKIQEKIGRRIGFFDES----WKNGSL-E---  216 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~-~~~~~~~~~~i~~~l~~~~~~----~~~~~~-~---  216 (720)
                      .-..++|+|..|+|||||+..++...     .-+.+++..+.. ..++.++..+.........-.    ..+.+. .   
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            44689999999999999999888654     223444444443 345666666666543221100    011111 1   


Q ss_pred             --HHHHHHHHHh--ccCcEEEEEecccc
Q 038398          217 --DKTSDILRIL--GKKKFLLLLDDIWE  240 (720)
Q Consensus       217 --~~~~~l~~~l--~~k~~LlVlDdv~~  240 (720)
                        .....+.+++  +++.+|+++||+-.
T Consensus       225 a~~~a~tiAE~fr~~G~~Vll~~DslTr  252 (428)
T PRK08149        225 AALVATTVAEYFRDQGKRVVLFIDSMTR  252 (428)
T ss_pred             HHHHHHHHHHHHHHcCCCEEEEccchHH
Confidence              1222344444  57999999999843

>PF06309 Torsin: Torsin; InterPro: IPR010448 This family consists of several eukaryotic torsin proteins

Probab=95.25  E-value=0.029  Score=48.24  Aligned_cols=45  Identities=18%  Similarity=0.259  Sum_probs=34.0

Q ss_pred             CCcCchHHHHHHHHHhc----C---CCceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          127 PTVGLESTFDKVWRCLG----E---EQVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       127 ~~vGr~~~~~~l~~~L~----~---~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      .++|..-..+.|++++.    .   +.+-|++.+|++|+|||.+++.+++..
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            45777766666666553    2   356789999999999999998888774

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

>TIGR00416 sms DNA repair protein RadA

Probab=95.24  E-value=0.089  Score=57.12  Aligned_cols=51  Identities=29%  Similarity=0.379  Sum_probs=34.7

Q ss_pred             HHHHHHHhcCC--CceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecC
Q 038398          135 FDKVWRCLGEE--QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSK  188 (720)
Q Consensus       135 ~~~l~~~L~~~--~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~  188 (720)
                      +.++-+.|..+  .-.++.|.|.+|+|||||+.++.....   ..-..++|++...
T Consensus        80 i~~LD~vLgGGi~~GsvilI~G~pGsGKTTL~lq~a~~~a---~~g~kvlYvs~EE  132 (454)
T TIGR00416        80 FGELDRVLGGGIVPGSLILIGGDPGIGKSTLLLQVACQLA---KNQMKVLYVSGEE  132 (454)
T ss_pred             cHHHHHHhcCCccCCeEEEEEcCCCCCHHHHHHHHHHHHH---hcCCcEEEEECcC
Confidence            34444545432  347899999999999999999977662   1113577886543

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)).

>TIGR02322 phosphon_PhnN phosphonate metabolism protein/1,5-bisphosphokinase (PRPP-forming) PhnN

Probab=95.21  E-value=0.016  Score=54.60  Aligned_cols=24  Identities=38%  Similarity=0.527  Sum_probs=21.7

Q ss_pred             eEEEEEcCCCChHHHHHHHHHhhh
Q 038398          148 GIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      .+++|.|++|+|||||++.+....
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.

>PF06745 KaiC: KaiC; InterPro: IPR014774 This entry represents a domain within bacterial and archaeal proteins, most of which are hypothetical

Probab=95.20  E-value=0.021  Score=56.19  Aligned_cols=88  Identities=22%  Similarity=0.215  Sum_probs=52.6

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhhcCCCCC-cCEEEEEEecCcCCHHHHHHHHHHHhCCCCC--------------cc
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNV-FDVVIWVVVSKDLQLEKIQEKIGRRIGFFDE--------------SW  210 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~-f~~~~wv~v~~~~~~~~~~~~i~~~l~~~~~--------------~~  210 (720)
                      .-.++.|.|++|+|||++|.++....   -.. =..++||+....  ...+.+.+. .++....              ..
T Consensus        18 ~gs~~li~G~~GsGKT~l~~q~l~~~---~~~~ge~vlyvs~ee~--~~~l~~~~~-s~g~d~~~~~~~g~l~~~d~~~~   91 (226)
T PF06745_consen   18 KGSVVLISGPPGSGKTTLALQFLYNG---LKNFGEKVLYVSFEEP--PEELIENMK-SFGWDLEEYEDSGKLKIIDAFPE   91 (226)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHH---HHHHT--EEEEESSS---HHHHHHHHH-TTTS-HHHHHHTTSEEEEESSGG
T ss_pred             CCcEEEEEeCCCCCcHHHHHHHHHHh---hhhcCCcEEEEEecCC--HHHHHHHHH-HcCCcHHHHhhcCCEEEEecccc
Confidence            34799999999999999999876544   122 246788876544  344444433 3332110              00


Q ss_pred             -C---CCChhHHHHHHHHHhcc-CcEEEEEeccc
Q 038398          211 -K---NGSLEDKTSDILRILGK-KKFLLLLDDIW  239 (720)
Q Consensus       211 -~---~~~~~~~~~~l~~~l~~-k~~LlVlDdv~  239 (720)
                       .   ..+.......+.+.++. +...+|+|.+.
T Consensus        92 ~~~~~~~~~~~l~~~i~~~i~~~~~~~vVIDsls  125 (226)
T PF06745_consen   92 RIGWSPNDLEELLSKIREAIEELKPDRVVIDSLS  125 (226)
T ss_dssp             GST-TSCCHHHHHHHHHHHHHHHTSSEEEEETHH
T ss_pred             cccccccCHHHHHHHHHHHHHhcCCCEEEEECHH
Confidence             0   34566666777776655 45788888863

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 ....

>PF00625 Guanylate_kin: Guanylate kinase; InterPro: IPR008144 Guanylate kinase (2

Probab=95.19  E-value=0.028  Score=53.16  Aligned_cols=36  Identities=31%  Similarity=0.426  Sum_probs=29.7

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEE
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVV  185 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~  185 (720)
                      .++|.|+|+.|+|||||++++....   ...|..++..+
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   56776555544

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 ....

>PRK09519 recA DNA recombination protein RecA; Reviewed

Probab=95.19  E-value=0.055  Score=61.69  Aligned_cols=86  Identities=15%  Similarity=0.177  Sum_probs=57.4

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHHHHHhCCCCCc---cCCCChhHHHHHH
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKIGRRIGFFDES---WKNGSLEDKTSDI  222 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i~~~l~~~~~~---~~~~~~~~~~~~l  222 (720)
                      .-+++-|+|++|+||||||.+++....   ..=..++|+.....++.     ..+.+++...+.   ......++....+
T Consensus        59 ~GsiteI~G~~GsGKTtLal~~~~~a~---~~G~~v~yId~E~t~~~-----~~A~~lGvDl~~llv~~~~~~E~~l~~i  130 (790)
T PRK09519         59 RGRVIEIYGPESSGKTTVALHAVANAQ---AAGGVAAFIDAEHALDP-----DYAKKLGVDTDSLLVSQPDTGEQALEIA  130 (790)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHH---HcCCcEEEECCccchhH-----HHHHHcCCChhHeEEecCCCHHHHHHHH
Confidence            357888999999999999988765541   22246789987776663     356666654321   1233445555566


Q ss_pred             HHHhcc-CcEEEEEeccc
Q 038398          223 LRILGK-KKFLLLLDDIW  239 (720)
Q Consensus       223 ~~~l~~-k~~LlVlDdv~  239 (720)
                      ...++. +.-|+|+|.+-
T Consensus       131 ~~lv~~~~~~LVVIDSI~  148 (790)
T PRK09519        131 DMLIRSGALDIVVIDSVA  148 (790)
T ss_pred             HHHhhcCCCeEEEEcchh
Confidence            665544 56689999875

>TIGR00382 clpX endopeptidase Clp ATP-binding regulatory subunit (clpX)

Probab=95.18  E-value=0.08  Score=56.24  Aligned_cols=45  Identities=24%  Similarity=0.174  Sum_probs=35.0

Q ss_pred             CCcCchHHHHHHHHHhc-------C----C-------CceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          127 PTVGLESTFDKVWRCLG-------E----E-------QVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       127 ~~vGr~~~~~~l~~~L~-------~----~-------~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      .+||.++.++.+...+.       .    .       ....|.++|++|+|||++|+.+....
T Consensus        78 ~ViGQe~A~~~l~~av~~h~~~~~~~~~~~~~~~~~~~~~~iLL~GP~GsGKT~lAraLA~~l  140 (413)
T TIGR00382        78 YVIGQEQAKKVLSVAVYNHYKRLNFEKNKKSDNGVELSKSNILLIGPTGSGKTLLAQTLARIL  140 (413)
T ss_pred             eecCHHHHHHHHHHHHHHHHhhhccccccccccccccCCceEEEECCCCcCHHHHHHHHHHhc
Confidence            45899999988865541       1    1       12579999999999999999998766

A member of the ATP-dependent proteases, ClpX has ATP-dependent chaperone activity and is required for specific ATP-dependent proteolytic activities expressed by ClpPX. The gene is also found to be involved in stress tolerance in Bacillus subtilis and is essential for the efficient acquisition of genes specifying type IA and IB restriction.

>cd01135 V_A-ATPase_B V/A-type ATP synthase (non-catalytic) subunit B

Probab=95.18  E-value=0.074  Score=52.78  Aligned_cols=95  Identities=12%  Similarity=0.102  Sum_probs=58.4

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhhcC-CCCCcCEEEEEEecCc-CCHHHHHHHHHHHhCCCCC-----ccCCCChhH-
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKLLG-APNVFDVVIWVVVSKD-LQLEKIQEKIGRRIGFFDE-----SWKNGSLED-  217 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~-~~~~f~~~~wv~v~~~-~~~~~~~~~i~~~l~~~~~-----~~~~~~~~~-  217 (720)
                      .-+.++|.|..|+|||+|+..+.+...- .+..-+.++++-+++. .+..++.+++...-.....     ........+ 
T Consensus        68 ~GQR~gIfgg~GvGKt~L~~~i~~~~~~~~~~~~~v~V~~~IGeR~rev~e~~~~~~~~~~l~~tv~v~~t~~~~~~~r~  147 (276)
T cd01135          68 RGQKIPIFSGSGLPHNELAAQIARQAGVVGEEENFAVVFAAMGITMEDARFFKDDFEETGALERVVLFLNLANDPTIERI  147 (276)
T ss_pred             cCCEEEeecCCCCChhHHHHHHHHhhhccccCCCCEEEEEEeccccHHHHHHHHHhhhcCCcceEEEEEecCCCCHHHHH
Confidence            3467899999999999999998876510 1233578889988765 4566677666654222110     001111111 


Q ss_pred             ----HHHHHHHHhc---cCcEEEEEecccc
Q 038398          218 ----KTSDILRILG---KKKFLLLLDDIWE  240 (720)
Q Consensus       218 ----~~~~l~~~l~---~k~~LlVlDdv~~  240 (720)
                          ..-.+.++++   ++++|+++||+-.
T Consensus       148 ~a~~~a~aiAEyfrd~~g~~VLl~~D~ltr  177 (276)
T cd01135         148 ITPRMALTTAEYLAYEKGKHVLVILTDMTN  177 (276)
T ss_pred             HHHHHHHHHHHHHHhccCCeEEEEEcChhH
Confidence                1223445553   6899999999854

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.

>PRK05439 pantothenate kinase; Provisional

Probab=95.17  E-value=0.15  Score=52.02  Aligned_cols=27  Identities=33%  Similarity=0.345  Sum_probs=23.7

Q ss_pred             CCceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          145 EQVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       145 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ...-+|+|.|.+|+||||+|+.+....
T Consensus        84 ~~~~iIgIaG~~gsGKSTla~~L~~~l  110 (311)
T PRK05439         84 KVPFIIGIAGSVAVGKSTTARLLQALL  110 (311)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHH
Confidence            356799999999999999999988765

>PF03205 MobB: Molybdopterin guanine dinucleotide synthesis protein B; PDB: 2F1R_B 1P9N_A 1NP6_B 2NPI_A 1XJC_A

Probab=95.17  E-value=0.027  Score=50.41  Aligned_cols=39  Identities=26%  Similarity=0.355  Sum_probs=27.8

Q ss_pred             eEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecC
Q 038398          148 GIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSK  188 (720)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~  188 (720)
                      ++|.|+|+.|+|||||++.+.+...  +..+...++.....
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  34455555555444

>TIGR01420 pilT_fam pilus retraction protein PilT

Probab=95.15  E-value=0.028  Score=58.89  Aligned_cols=111  Identities=14%  Similarity=0.112  Sum_probs=60.9

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHHHHHhCCCCCccCCCChhHHHHHHHHH
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKIGRRIGFFDESWKNGSLEDKTSDILRI  225 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~  225 (720)
                      ....|.|.|+.|+||||+++.+....   .......++. +.+....  ..... ..+.. ... ...+.......++..
T Consensus       121 ~~g~ili~G~tGSGKTT~l~al~~~i---~~~~~~~i~t-iEdp~E~--~~~~~-~~~i~-q~e-vg~~~~~~~~~l~~~  191 (343)
T TIGR01420       121 PRGLILVTGPTGSGKSTTLASMIDYI---NKNAAGHIIT-IEDPIEY--VHRNK-RSLIN-QRE-VGLDTLSFANALRAA  191 (343)
T ss_pred             cCcEEEEECCCCCCHHHHHHHHHHhh---CcCCCCEEEE-EcCChhh--hccCc-cceEE-ccc-cCCCCcCHHHHHHHh
Confidence            34789999999999999999988765   2233333332 2222111  00000 00000 000 111223456667778


Q ss_pred             hccCcEEEEEeccccccccccccccCCCCCCCcEEEEEcCChh
Q 038398          226 LGKKKFLLLLDDIWERVDLTKVGIPFPDPENKSKIVFTTHFLE  268 (720)
Q Consensus       226 l~~k~~LlVlDdv~~~~~~~~l~~~~~~~~~gs~iiiTtR~~~  268 (720)
                      ++..+=.|++|++.+.+.+.....   ....|..++.|.....
T Consensus       192 lr~~pd~i~vgEird~~~~~~~l~---aa~tGh~v~~T~Ha~~  231 (343)
T TIGR01420       192 LREDPDVILIGEMRDLETVELALT---AAETGHLVFGTLHTNS  231 (343)
T ss_pred             hccCCCEEEEeCCCCHHHHHHHHH---HHHcCCcEEEEEcCCC
Confidence            888999999999987655443211   1234555666665433

This model represents the PilT subfamily of proteins related to GspE, a protein involved in type II secretion (also called the General Secretion Pathway). PilT is an apparent cytosolic ATPase associated with type IV pilus systems. It is not required for pilin biogenesis, but is required for twitching motility and social gliding behaviors, shown in some species, powered by pilus retraction. Members of this family may be found in some species that type IV pili but have related structures for DNA uptake and natural transformation.

>TIGR03575 selen_PSTK_euk L-seryl-tRNA(Sec) kinase, eukaryotic

Probab=95.13  E-value=0.063  Score=55.41  Aligned_cols=22  Identities=32%  Similarity=0.478  Sum_probs=20.2

Q ss_pred             EEEEcCCCChHHHHHHHHHhhh
Q 038398          150 IGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       150 i~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      +.+.|++|+||||+++.+.+..
T Consensus         2 ~~l~Gl~GaGKST~~~~l~~~l   23 (340)
T TIGR03575         2 CVLCGLPAAGKSTLARSLSATL   23 (340)
T ss_pred             eEEECCCCCCHHHHHHHHHHHH
Confidence            5789999999999999999877

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.

>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=95.12  E-value=0.019  Score=53.99  Aligned_cols=23  Identities=43%  Similarity=0.804  Sum_probs=21.5

Q ss_pred             EEEEEcCCCChHHHHHHHHHhhh
Q 038398          149 IIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      +|+|.|.+|+||||||+.+....
T Consensus         1 ii~i~G~sgsGKttla~~l~~~l   23 (179)
T cd02028           1 VVGIAGPSGSGKTTFAKKLSNQL   23 (179)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHH
Confidence            58999999999999999999886

7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK).

>COG1124 DppF ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]

Probab=95.12  E-value=0.026  Score=54.09  Aligned_cols=26  Identities=27%  Similarity=0.396  Sum_probs=22.3

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      .-.+++|+|.+|+|||||++.+.--.
T Consensus        32 ~Ge~lgivGeSGsGKSTL~r~l~Gl~   57 (252)
T COG1124          32 RGETLGIVGESGSGKSTLARLLAGLE   57 (252)
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHhccc
Confidence            34689999999999999999987544

>PRK10751 molybdopterin-guanine dinucleotide biosynthesis protein B; Provisional

Probab=95.11  E-value=0.021  Score=52.75  Aligned_cols=26  Identities=35%  Similarity=0.546  Sum_probs=23.7

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ...+++|+|+.|+|||||++.+....
T Consensus         5 ~~~ii~ivG~sgsGKTTLi~~li~~l   30 (173)
T PRK10751          5 MIPLLAIAAWSGTGKTTLLKKLIPAL   30 (173)
T ss_pred             CceEEEEECCCCChHHHHHHHHHHHH
Confidence            45799999999999999999999887

>PRK05922 type III secretion system ATPase; Validated

Probab=95.11  E-value=0.063  Score=57.14  Aligned_cols=90  Identities=13%  Similarity=0.224  Sum_probs=50.7

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecC-cCCHHHHHHHHHHHhCCCCCcc----CCCCh-h---
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSK-DLQLEKIQEKIGRRIGFFDESW----KNGSL-E---  216 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~-~~~~~~~~~~i~~~l~~~~~~~----~~~~~-~---  216 (720)
                      .-..++|+|..|+|||||++.+....     ..+...++.++. .......+.+..........-.    ...+. .   
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            44679999999999999999998664     123334433433 3344455545444332221100    11111 1   


Q ss_pred             --HHHHHHHHHh--ccCcEEEEEecccc
Q 038398          217 --DKTSDILRIL--GKKKFLLLLDDIWE  240 (720)
Q Consensus       217 --~~~~~l~~~l--~~k~~LlVlDdv~~  240 (720)
                        ...-.+.+++  +++.+|+++|++-.
T Consensus       231 a~~~a~tiAEyfrd~G~~VLl~~DslTR  258 (434)
T PRK05922        231 AGRAAMTIAEYFRDQGHRVLFIMDSLSR  258 (434)
T ss_pred             HHHHHHHHHHHHHHcCCCEEEeccchhH
Confidence              1122344555  47899999999843

>COG0563 Adk Adenylate kinase and related kinases [Nucleotide transport and metabolism]

Probab=95.11  E-value=0.017  Score=54.00  Aligned_cols=23  Identities=43%  Similarity=0.576  Sum_probs=21.3

Q ss_pred             EEEEEcCCCChHHHHHHHHHhhh
Q 038398          149 IIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      .|.|.|++|+||||+|+.+.+..
T Consensus         2 riiilG~pGaGK~T~A~~La~~~   24 (178)
T COG0563           2 RILILGPPGAGKSTLAKKLAKKL   24 (178)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHh
Confidence            47899999999999999999986

>cd03217 ABC_FeS_Assembly ABC-type transport system involved in Fe-S cluster assembly, ATPase component

Probab=95.11  E-value=0.053  Score=52.05  Aligned_cols=25  Identities=32%  Similarity=0.433  Sum_probs=22.1

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhh
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNK  170 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~  170 (720)
                      .-.+++|+|..|.|||||++.+...
T Consensus        25 ~Ge~~~i~G~nGsGKStLl~~l~G~   49 (200)
T cd03217          25 KGEVHALMGPNGSGKSTLAKTIMGH   49 (200)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCC
Confidence            3469999999999999999998875

Biosynthesis of iron-sulfur clusters (Fe-S) depends on multiprotein systems. The SUF system of E. coli and Erwinia chrysanthemi is important for Fe-S biogenesis under stressful conditions. The SUF system is made of six proteins: SufC is an atypical cytoplasmic ABC-ATPase, which forms a complex with SufB and SufD; SufA plays the role of a scaffold protein for assembly of iron-sulfur clusters and delivery to target proteins; SufS is a cysteine desulfurase which mobilizes the sulfur atom from cysteine and provides it to the cluster; SufE has no associated function yet.

>PRK14721 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=95.10  E-value=0.12  Score=54.94  Aligned_cols=87  Identities=23%  Similarity=0.263  Sum_probs=46.3

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecC-cCCHHHHHHHHHHHhCCCCCccCCCChhHHHHHHHHH
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSK-DLQLEKIQEKIGRRIGFFDESWKNGSLEDKTSDILRI  225 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~-~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~  225 (720)
                      ..+|+++|+.|+||||++..+.... ......+.+.++.... .....+-+....+.++.+..  ...+..+.... ...
T Consensus       191 g~vi~lvGpnG~GKTTtlakLA~~~-~~~~~~~~v~~i~~d~~rigalEQL~~~a~ilGvp~~--~v~~~~dl~~a-l~~  266 (420)
T PRK14721        191 GGVYALIGPTGVGKTTTTAKLAARA-VIRHGADKVALLTTDSYRIGGHEQLRIYGKLLGVSVR--SIKDIADLQLM-LHE  266 (420)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHH-HHhcCCCeEEEEecCCcchhHHHHHHHHHHHcCCcee--cCCCHHHHHHH-HHH
Confidence            4799999999999999999887654 1111223344444322 12333445556666655432  22233333322 233


Q ss_pred             hccCcEEEEEecc
Q 038398          226 LGKKKFLLLLDDI  238 (720)
Q Consensus       226 l~~k~~LlVlDdv  238 (720)
                      +.++. ++++|-.
T Consensus       267 l~~~d-~VLIDTa  278 (420)
T PRK14721        267 LRGKH-MVLIDTV  278 (420)
T ss_pred             hcCCC-EEEecCC
Confidence            44443 4555654

>PRK05973 replicative DNA helicase; Provisional

Probab=95.09  E-value=0.13  Score=50.29  Aligned_cols=49  Identities=12%  Similarity=0.165  Sum_probs=33.6

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHH
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKI  199 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i  199 (720)
                      .-.++.|.|.+|+|||++|.++.....  +. =..++|++....  ..++...+
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            346899999999999999999876651  22 235777766543  44554444

>cd00544 CobU Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU)

Probab=95.09  E-value=0.11  Score=48.07  Aligned_cols=80  Identities=18%  Similarity=0.238  Sum_probs=47.2

Q ss_pred             EEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHHHHHhCCCCCccCCCChhHHHHHHHHHhcc
Q 038398          149 IIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKIGRRIGFFDESWKNGSLEDKTSDILRILGK  228 (720)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~  228 (720)
                      ++.|.|.+|+|||++|.++....      ...++|+.-...++. ++.+.|.........   .....+....+.+.+..
T Consensus         1 ~~li~G~~~sGKS~~a~~~~~~~------~~~~~y~at~~~~d~-em~~rI~~H~~~R~~---~w~t~E~~~~l~~~l~~   70 (169)
T cd00544           1 IILVTGGARSGKSRFAERLAAEL------GGPVTYIATAEAFDD-EMAERIARHRKRRPA---HWRTIETPRDLVSALKE   70 (169)
T ss_pred             CEEEECCCCCCHHHHHHHHHHhc------CCCeEEEEccCcCCH-HHHHHHHHHHHhCCC---CceEeecHHHHHHHHHh
Confidence            36799999999999999987652      135677776666654 344444433222221   22222333444444432


Q ss_pred             --CcEEEEEecc
Q 038398          229 --KKFLLLLDDI  238 (720)
Q Consensus       229 --k~~LlVlDdv  238 (720)
                        +.-.+++|.+
T Consensus        71 ~~~~~~VLIDcl   82 (169)
T cd00544          71 LDPGDVVLIDCL   82 (169)
T ss_pred             cCCCCEEEEEcH
Confidence              2347999986

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.

>COG1703 ArgK Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]

Probab=95.08  E-value=0.034  Score=54.86  Aligned_cols=59  Identities=25%  Similarity=0.320  Sum_probs=41.1

Q ss_pred             HHHHHHhcC--CCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHH
Q 038398          136 DKVWRCLGE--EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKI  195 (720)
Q Consensus       136 ~~l~~~L~~--~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~  195 (720)
                      .+++..+..  ++..+|||.|.||+|||||.-.+...+ ..+++--.++=|.-|..++--.+
T Consensus        38 ~~ll~~l~p~tG~a~viGITG~PGaGKSTli~~L~~~l-~~~G~rVaVlAVDPSSp~TGGsi   98 (323)
T COG1703          38 RELLRALYPRTGNAHVIGITGVPGAGKSTLIEALGREL-RERGHRVAVLAVDPSSPFTGGSI   98 (323)
T ss_pred             HHHHHHHhhcCCCCcEEEecCCCCCchHHHHHHHHHHH-HHCCcEEEEEEECCCCCCCCccc
Confidence            455555543  567899999999999999999998887 33444445666655665554333

>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=95.07  E-value=0.029  Score=57.27  Aligned_cols=46  Identities=26%  Similarity=0.395  Sum_probs=40.7

Q ss_pred             CCCcCchHHHHHHHHHhcC------CCceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          126 EPTVGLESTFDKVWRCLGE------EQVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~------~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ..++|.++.++++++.+..      ..-+++.++||.|.||||||..+.+-.
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            3689999999999998843      356899999999999999999998887

PrkA possesses the A-motif of nucleotide-binding proteins and exhibits distant homology to eukaryotic protein kinases []. Note that many of these are hypothetical.

>KOG1532 consensus GTPase XAB1, interacts with DNA repair protein XPA [Replication, recombination and repair]

Probab=95.07  E-value=0.023  Score=54.84  Aligned_cols=26  Identities=42%  Similarity=0.668  Sum_probs=23.4

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ...+|.|+||+|+||||..++++.+.
T Consensus        18 ~p~~ilVvGMAGSGKTTF~QrL~~hl   43 (366)
T KOG1532|consen   18 RPVIILVVGMAGSGKTTFMQRLNSHL   43 (366)
T ss_pred             CCcEEEEEecCCCCchhHHHHHHHHH
Confidence            45688899999999999999999887

>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=95.06  E-value=0.021  Score=57.52  Aligned_cols=88  Identities=24%  Similarity=0.336  Sum_probs=47.4

Q ss_pred             HHHHHHhcCCCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHHHHHhCCCCCccCCCCh
Q 038398          136 DKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKIGRRIGFFDESWKNGSL  215 (720)
Q Consensus       136 ~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i~~~l~~~~~~~~~~~~  215 (720)
                      ..+++.+...+ +-+.++|+.|+|||++++...... . ...| .+.-++.+...+...+++.+-..+....     .  
T Consensus        23 ~~ll~~l~~~~-~pvLl~G~~GtGKT~li~~~l~~l-~-~~~~-~~~~~~~s~~Tts~~~q~~ie~~l~k~~-----~--   91 (272)
T PF12775_consen   23 SYLLDLLLSNG-RPVLLVGPSGTGKTSLIQNFLSSL-D-SDKY-LVITINFSAQTTSNQLQKIIESKLEKRR-----G--   91 (272)
T ss_dssp             HHHHHHHHHCT-EEEEEESSTTSSHHHHHHHHHHCS-T-TCCE-EEEEEES-TTHHHHHHHHCCCTTECECT-----T--
T ss_pred             HHHHHHHHHcC-CcEEEECCCCCchhHHHHhhhccC-C-cccc-ceeEeeccCCCCHHHHHHHHhhcEEcCC-----C--
Confidence            34555554443 566899999999999999988765 2 2222 2344555554444443322211111000     0  


Q ss_pred             hHHHHHHHHHhccCcEEEEEeccc
Q 038398          216 EDKTSDILRILGKKKFLLLLDDIW  239 (720)
Q Consensus       216 ~~~~~~l~~~l~~k~~LlVlDdv~  239 (720)
                      .     ...--.+|+.++.+||+.
T Consensus        92 ~-----~~gP~~~k~lv~fiDDlN  110 (272)
T PF12775_consen   92 R-----VYGPPGGKKLVLFIDDLN  110 (272)
T ss_dssp             E-----EEEEESSSEEEEEEETTT
T ss_pred             C-----CCCCCCCcEEEEEecccC
Confidence            0     000013688899999985

>cd03369 ABCC_NFT1 Domain 2 of NFT1 (New full-length MRP-type transporter 1)

Probab=95.05  E-value=0.13  Score=49.58  Aligned_cols=26  Identities=35%  Similarity=0.463  Sum_probs=22.3

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      .-.+++|.|+.|+|||||++.+..-.
T Consensus        33 ~G~~~~i~G~nGsGKSTLl~~l~Gl~   58 (207)
T cd03369          33 AGEKIGIVGRTGAGKSTLILALFRFL   58 (207)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhccc
Confidence            34689999999999999999997643

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.

>PRK00279 adk adenylate kinase; Reviewed

Probab=95.04  E-value=0.033  Score=54.18  Aligned_cols=23  Identities=35%  Similarity=0.323  Sum_probs=21.0

Q ss_pred             EEEEEcCCCChHHHHHHHHHhhh
Q 038398          149 IIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      .|.|.|++|+||||+|+.++...
T Consensus         2 ~I~v~G~pGsGKsT~a~~la~~~   24 (215)
T PRK00279          2 RLILLGPPGAGKGTQAKFIAEKY   24 (215)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            48899999999999999998876

>cd00227 CPT Chloramphenicol (Cm) phosphotransferase (CPT)

Probab=95.02  E-value=0.019  Score=53.78  Aligned_cols=24  Identities=29%  Similarity=0.412  Sum_probs=22.1

Q ss_pred             eEEEEEcCCCChHHHHHHHHHhhh
Q 038398          148 GIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ++|.+.|++|+||||+|+.+....
T Consensus         3 ~~i~l~G~~gsGKst~a~~l~~~~   26 (175)
T cd00227           3 RIIILNGGSSAGKSSIARALQSVL   26 (175)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHhh
Confidence            589999999999999999998875

Cm-inactivating enzyme; modifies the primary (C-3) hydroxyl of the antibiotic. Related structurally to shikimate kinase II.

>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=95.02  E-value=0.017  Score=52.30  Aligned_cols=23  Identities=39%  Similarity=0.605  Sum_probs=21.2

Q ss_pred             EEEEEcCCCChHHHHHHHHHhhh
Q 038398          149 IIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      +|.|.|++|+||||+|+.+....
T Consensus         1 ~I~i~G~~GsGKst~a~~la~~~   23 (147)
T cd02020           1 IIAIDGPAGSGKSTVAKLLAKKL   23 (147)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHh
Confidence            58999999999999999999876

>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=95.02  E-value=0.037  Score=53.83  Aligned_cols=57  Identities=23%  Similarity=0.254  Sum_probs=35.1

Q ss_pred             HHHHHHHHhcC--CCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCC
Q 038398          134 TFDKVWRCLGE--EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQ  191 (720)
Q Consensus       134 ~~~~l~~~L~~--~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~  191 (720)
                      ...++++.+..  .+..+|+|.|+||+|||||.-.+...+. .+++--.++=|.-|..++
T Consensus        14 ~~~~ll~~l~~~~g~a~~iGiTG~PGaGKSTli~~l~~~~~-~~g~~VaVlAVDPSSp~t   72 (266)
T PF03308_consen   14 EARELLKRLYPHTGRAHVIGITGPPGAGKSTLIDALIRELR-ERGKRVAVLAVDPSSPFT   72 (266)
T ss_dssp             HHHHHHHHHGGGTT-SEEEEEEE-TTSSHHHHHHHHHHHHH-HTT--EEEEEE-GGGGCC
T ss_pred             HHHHHHHHHHhhcCCceEEEeeCCCCCcHHHHHHHHHHHHh-hcCCceEEEEECCCCCCC
Confidence            34455555533  4678999999999999999999988872 233333444454444444

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.

>PRK05800 cobU adenosylcobinamide kinase/adenosylcobinamide-phosphate guanylyltransferase; Validated

Probab=95.02  E-value=0.091  Score=48.75  Aligned_cols=83  Identities=13%  Similarity=0.161  Sum_probs=45.5

Q ss_pred             eEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHHHHHhCCCCCccCCC-ChhHHHHHHHHHh
Q 038398          148 GIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKIGRRIGFFDESWKNG-SLEDKTSDILRIL  226 (720)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i~~~l~~~~~~~~~~-~~~~~~~~l~~~l  226 (720)
                      .+|.|.|.+|+||||+|..+.... .  .   .++|+.-... ...+..+.+..........|... ...++...+....
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---QVLYIATAQP-FDDEMAARIAHHRQRRPAHWQTVEEPLDLAELLRADA   74 (170)
T ss_pred             CEEEEECCCCccHHHHHHHHHHHc-C--C---CcEeCcCCCC-ChHHHHHHHHHHHhcCCCCCeEecccccHHHHHHhhc
Confidence            368999999999999999998775 1  1   2344443333 33345555544443222222211 1122333333333


Q ss_pred             ccCcEEEEEecc
Q 038398          227 GKKKFLLLLDDI  238 (720)
Q Consensus       227 ~~k~~LlVlDdv  238 (720)
                      .+ .-++++|.+
T Consensus        75 ~~-~~~VlID~L   85 (170)
T PRK05800         75 AP-GRCVLVDCL   85 (170)
T ss_pred             CC-CCEEEehhH
Confidence            33 337888886

>cd00071 GMPK Guanosine monophosphate kinase (GMPK, EC 2

Probab=95.02  E-value=0.019  Score=51.22  Aligned_cols=23  Identities=43%  Similarity=0.706  Sum_probs=20.7

Q ss_pred             EEEEEcCCCChHHHHHHHHHhhh
Q 038398          149 IIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      .|+|+|+.|+|||||++.+....
T Consensus         1 ~i~i~GpsGsGKstl~~~L~~~~   23 (137)
T cd00071           1 LIVLSGPSGVGKSTLLKRLLEEF   23 (137)
T ss_pred             CEEEECCCCCCHHHHHHHHHhcC
Confidence            37899999999999999998875

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.

>cd01125 repA Hexameric Replicative Helicase RepA

Probab=95.01  E-value=0.15  Score=50.60  Aligned_cols=23  Identities=30%  Similarity=0.518  Sum_probs=19.8

Q ss_pred             EEEEEcCCCChHHHHHHHHHhhh
Q 038398          149 IIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      +..|+|++|+|||+||..++-..
T Consensus         3 ~~ll~g~~G~GKS~lal~la~~v   25 (239)
T cd01125           3 VSALVAPGGTGKSSLLLVLALAM   25 (239)
T ss_pred             eeEEEcCCCCCHHHHHHHHHHHH
Confidence            45689999999999999988754

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.

>PF13086 AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A

Probab=95.01  E-value=0.046  Score=53.88  Aligned_cols=35  Identities=31%  Similarity=0.365  Sum_probs=22.6

Q ss_pred             HHHHHHHhcCCCceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          135 FDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       135 ~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      .+.+...+....  +..|+|++|.||||++..+....
T Consensus         7 ~~Ai~~~~~~~~--~~~i~GpPGTGKT~~l~~~i~~~   41 (236)
T PF13086_consen    7 REAIQSALSSNG--ITLIQGPPGTGKTTTLASIIAQL   41 (236)
T ss_dssp             HHHHHHHCTSSE---EEEE-STTSSHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCC--CEEEECCCCCChHHHHHHHHHHh
Confidence            444545554332  78899999999998777766655

>PRK15453 phosphoribulokinase; Provisional

Probab=95.01  E-value=0.13  Score=51.19  Aligned_cols=27  Identities=26%  Similarity=0.396  Sum_probs=23.8

Q ss_pred             CCceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          145 EQVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       145 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ....+|+|.|.+|+||||+|+.+.+.+
T Consensus         3 ~k~piI~ItG~SGsGKTTva~~l~~if   29 (290)
T PRK15453          3 AKHPIIAVTGSSGAGTTTVKRAFEKIF   29 (290)
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            345799999999999999999998766

>PRK14530 adenylate kinase; Provisional

Probab=95.01  E-value=0.019  Score=55.87  Aligned_cols=24  Identities=29%  Similarity=0.376  Sum_probs=21.9

Q ss_pred             eEEEEEcCCCChHHHHHHHHHhhh
Q 038398          148 GIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      +.|.|+|++|+||||+|+.++...
T Consensus         4 ~~I~i~G~pGsGKsT~~~~La~~~   27 (215)
T PRK14530          4 PRILLLGAPGAGKGTQSSNLAEEF   27 (215)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHh
Confidence            368999999999999999998876

>PF01078 Mg_chelatase: Magnesium chelatase, subunit ChlI; InterPro: IPR000523 Magnesium-chelatase is a three-component enzyme that catalyses the insertion of Mg2+ into protoporphyrin IX

Probab=94.99  E-value=0.04  Score=52.07  Aligned_cols=44  Identities=25%  Similarity=0.210  Sum_probs=33.3

Q ss_pred             CCCcCchHHHHHHHHHhcCCCceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          126 EPTVGLESTFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ++++|.+..+..+.-....  ..-+.++|++|+|||++|+.+-.-.
T Consensus         3 ~dI~GQe~aKrAL~iAAaG--~h~lLl~GppGtGKTmlA~~l~~lL   46 (206)
T PF01078_consen    3 SDIVGQEEAKRALEIAAAG--GHHLLLIGPPGTGKTMLARRLPSLL   46 (206)
T ss_dssp             CCSSSTHHHHHHHHHHHHC--C--EEEES-CCCTHHHHHHHHHHCS
T ss_pred             hhhcCcHHHHHHHHHHHcC--CCCeEEECCCCCCHHHHHHHHHHhC
Confidence            5689999888887665543  3678999999999999999987654

This is the first unique step in the synthesis of (bacterio)chlorophyll. As a result, it is thought that Mg-chelatase has an important role in channeling intermediates into the (bacterio)chlorophyll branch in response to conditions suitable for photosynthetic growth. ChlI and BchD have molecular weights between 38-42 kDa.; GO: 0016851 magnesium chelatase activity, 0015979 photosynthesis, 0015995 chlorophyll biosynthetic process; PDB: 2X31_J 1G8P_A 3K1J_B.

>PRK13949 shikimate kinase; Provisional

Probab=94.99  E-value=0.02  Score=53.15  Aligned_cols=24  Identities=42%  Similarity=0.438  Sum_probs=22.0

Q ss_pred             eEEEEEcCCCChHHHHHHHHHhhh
Q 038398          148 GIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ..|.|+|++|+||||+++.++...
T Consensus         2 ~~I~liG~~GsGKstl~~~La~~l   25 (169)
T PRK13949          2 ARIFLVGYMGAGKTTLGKALAREL   25 (169)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHc
Confidence            358999999999999999999887

>cd02021 GntK Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate

Probab=94.98  E-value=0.017  Score=52.57  Aligned_cols=23  Identities=35%  Similarity=0.602  Sum_probs=20.5

Q ss_pred             EEEEEcCCCChHHHHHHHHHhhh
Q 038398          149 IIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      +|.|.|++|+||||+|+.+....
T Consensus         1 li~l~G~~GsGKST~a~~l~~~~   23 (150)
T cd02021           1 IIVVMGVSGSGKSTVGKALAERL   23 (150)
T ss_pred             CEEEEcCCCCCHHHHHHHHHhhc
Confidence            47899999999999999998775

The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits.

>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=94.97  E-value=0.074  Score=57.16  Aligned_cols=87  Identities=20%  Similarity=0.193  Sum_probs=47.9

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcC-CHHHHHHHHHHHhCCCCCccCCCChhHHHHHHHHH
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDL-QLEKIQEKIGRRIGFFDESWKNGSLEDKTSDILRI  225 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~-~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~  225 (720)
                      .+++.++|++|+||||++..++... .....-..+..|+..... .....+......++.+..  ...+..+....+.+ 
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            3689999999999999999887765 101222356667653321 112233334444544331  22333444444433 


Q ss_pred             hccCcEEEEEecc
Q 038398          226 LGKKKFLLLLDDI  238 (720)
Q Consensus       226 l~~k~~LlVlDdv  238 (720)
                      +. ..=++++|..
T Consensus       297 ~~-~~DlVlIDt~  308 (424)
T PRK05703        297 LR-DCDVILIDTA  308 (424)
T ss_pred             hC-CCCEEEEeCC
Confidence            33 3457888865

>PRK13947 shikimate kinase; Provisional

Probab=94.95  E-value=0.021  Score=53.27  Aligned_cols=23  Identities=39%  Similarity=0.507  Sum_probs=21.4

Q ss_pred             EEEEEcCCCChHHHHHHHHHhhh
Q 038398          149 IIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      .|.|+|++|+||||+|+.+.+..
T Consensus         3 ~I~l~G~~GsGKst~a~~La~~l   25 (171)
T PRK13947          3 NIVLIGFMGTGKTTVGKRVATTL   25 (171)
T ss_pred             eEEEEcCCCCCHHHHHHHHHHHh
Confidence            48899999999999999999887

>COG0003 ArsA Predicted ATPase involved in chromosome partitioning [Cell division and chromosome partitioning]

Probab=94.95  E-value=0.038  Score=56.56  Aligned_cols=49  Identities=29%  Similarity=0.317  Sum_probs=36.1

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHH
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEK  198 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~  198 (720)
                      .+++.+.|.||+||||+|.+..-...   .....+.-|+.....++.+++..
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            47899999999999999998766552   12244777777777777666544

>COG1936 Predicted nucleotide kinase (related to CMP and AMP kinases) [Nucleotide transport and metabolism]

Probab=94.93  E-value=0.019  Score=51.87  Aligned_cols=20  Identities=40%  Similarity=0.647  Sum_probs=18.8

Q ss_pred             EEEEEcCCCChHHHHHHHHH
Q 038398          149 IIGLYGMGGVGKTTLLTKIN  168 (720)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~  168 (720)
                      .|+|.|.||+||||+++.+.
T Consensus         2 ~I~ITGTPGvGKTT~~~~L~   21 (180)
T COG1936           2 LIAITGTPGVGKTTVCKLLR   21 (180)
T ss_pred             eEEEeCCCCCchHHHHHHHH
Confidence            58999999999999999987

>PRK15429 formate hydrogenlyase transcriptional activator FhlA; Provisional

Probab=94.93  E-value=0.056  Score=62.53  Aligned_cols=46  Identities=17%  Similarity=0.234  Sum_probs=36.7

Q ss_pred             CCCcCchHHHHHHHHHhcC--CCceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          126 EPTVGLESTFDKVWRCLGE--EQVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~--~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ..++|+...++++.+.+..  ....-|.|+|..|+|||++|+.+++..
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            4689999888887666532  233578899999999999999998765

>PRK09280 F0F1 ATP synthase subunit beta; Validated

Probab=94.93  E-value=0.13  Score=55.19  Aligned_cols=93  Identities=19%  Similarity=0.266  Sum_probs=57.3

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCc-CCHHHHHHHHHHHhCCCCCc----cCCCChh----
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKD-LQLEKIQEKIGRRIGFFDES----WKNGSLE----  216 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~-~~~~~~~~~i~~~l~~~~~~----~~~~~~~----  216 (720)
                      .-..++|.|.+|+|||||+.++.....  .++-+.++++-++.. ..+.++.+++...-.....-    ....+..    
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            347899999999999999999877652  122246777777653 45666777766542221100    0111111    


Q ss_pred             --HHHHHHHHHh---ccCcEEEEEecccc
Q 038398          217 --DKTSDILRIL---GKKKFLLLLDDIWE  240 (720)
Q Consensus       217 --~~~~~l~~~l---~~k~~LlVlDdv~~  240 (720)
                        ...-.+.+++   +++.+|+++|++-.
T Consensus       221 a~~~a~tiAEyfrd~~G~~VLll~DslTR  249 (463)
T PRK09280        221 VALTGLTMAEYFRDVEGQDVLLFIDNIFR  249 (463)
T ss_pred             HHHHHHHHHHHHHHhcCCceEEEecchHH
Confidence              1223355666   67999999999843

>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=94.93  E-value=0.039  Score=51.13  Aligned_cols=44  Identities=18%  Similarity=0.202  Sum_probs=31.9

Q ss_pred             CcCchHHHHHHHHHhcC--CCceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          128 TVGLESTFDKVWRCLGE--EQVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       128 ~vGr~~~~~~l~~~L~~--~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      +||....+.++.+.+..  ....-|.|+|..|+||+.+|+.+++..
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            36777777777776633  233567799999999999999999865

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 ....

>TIGR01351 adk adenylate kinases

Probab=94.89  E-value=0.033  Score=53.95  Aligned_cols=22  Identities=36%  Similarity=0.466  Sum_probs=20.3

Q ss_pred             EEEEcCCCChHHHHHHHHHhhh
Q 038398          150 IGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       150 i~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      |.|.|++|+||||+|+.+....
T Consensus         2 I~i~G~pGsGKsT~a~~La~~~   23 (210)
T TIGR01351         2 LVLLGPPGSGKGTQAKRIAEKY   23 (210)
T ss_pred             EEEECCCCCCHHHHHHHHHHHc
Confidence            7899999999999999998876

Adenylate kinase (EC 2.7.4.3) converts ATP + AMP to ADP + ADP, that is, uses ATP as a phosphate donor for AMP. Most members of this family are known or believed to be adenylate kinase. However, some members accept other nucleotide triphosphates as donors, may be unable to use ATP, and may fail to complement adenylate kinase mutants. An example of a nucleoside-triphosphate--adenylate kinase (EC 2.7.4.10) is a GTP:AMP phosphotransferase. This family is designated subfamily rather than equivalog for this reason.

>TIGR03263 guanyl_kin guanylate kinase

Probab=94.86  E-value=0.021  Score=53.87  Aligned_cols=24  Identities=33%  Similarity=0.443  Sum_probs=21.8

Q ss_pred             eEEEEEcCCCChHHHHHHHHHhhh
Q 038398          148 GIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ++|+|+|+.|+||||||+.+....
T Consensus         2 ~ii~l~G~~GsGKsTl~~~L~~~~   25 (180)
T TIGR03263         2 LLIVISGPSGVGKSTLVKALLEED   25 (180)
T ss_pred             cEEEEECCCCCCHHHHHHHHHccC
Confidence            579999999999999999998864

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.

>PF13245 AAA_19: Part of AAA domain

Probab=94.84  E-value=0.033  Score=43.73  Aligned_cols=25  Identities=28%  Similarity=0.263  Sum_probs=18.0

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhh
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNK  170 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~  170 (720)
                      +.+++.|.|++|.|||+++......
T Consensus         9 ~~~~~vv~g~pGtGKT~~~~~~i~~   33 (76)
T PF13245_consen    9 GSPLFVVQGPPGTGKTTTLAARIAE   33 (76)
T ss_pred             hCCeEEEECCCCCCHHHHHHHHHHH
Confidence            3467888999999999555544433

>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=94.83  E-value=0.028  Score=53.43  Aligned_cols=52  Identities=19%  Similarity=0.146  Sum_probs=35.1

Q ss_pred             chHHHHHHHHHhcCCCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEE
Q 038398          131 LESTFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVV  185 (720)
Q Consensus       131 r~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~  185 (720)
                      +..+....++.|.  ...++.+.|++|.|||.||.+..-+. -..+.|+.++++.
T Consensus         5 ~~~~Q~~~~~al~--~~~~v~~~G~AGTGKT~LA~a~Al~~-v~~g~~~kiii~R   56 (205)
T PF02562_consen    5 KNEEQKFALDALL--NNDLVIVNGPAGTGKTFLALAAALEL-VKEGEYDKIIITR   56 (205)
T ss_dssp             -SHHHHHHHHHHH--H-SEEEEE--TTSSTTHHHHHHHHHH-HHTTS-SEEEEEE
T ss_pred             CCHHHHHHHHHHH--hCCeEEEECCCCCcHHHHHHHHHHHH-HHhCCCcEEEEEe
Confidence            4445555666665  45799999999999999999887665 2347888888774

; GO: 0005524 ATP binding; PDB: 3B85_A.

>PRK00889 adenylylsulfate kinase; Provisional

Probab=94.81  E-value=0.029  Score=52.61  Aligned_cols=25  Identities=32%  Similarity=0.466  Sum_probs=23.0

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ..+|.|.|++|+||||+|+.+....
T Consensus         4 g~~i~~~G~~GsGKST~a~~la~~l   28 (175)
T PRK00889          4 GVTVWFTGLSGAGKTTIARALAEKL   28 (175)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHH
Confidence            4689999999999999999999887

>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=94.81  E-value=0.023  Score=49.21  Aligned_cols=22  Identities=36%  Similarity=0.563  Sum_probs=20.3

Q ss_pred             EEEEcCCCChHHHHHHHHHhhh
Q 038398          150 IGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       150 i~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      |.|+|..|+|||||.+.+....
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            7899999999999999998775

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.

>PF03215 Rad17: Rad17 cell cycle checkpoint protein

Probab=94.81  E-value=0.03  Score=61.44  Aligned_cols=54  Identities=28%  Similarity=0.383  Sum_probs=40.7

Q ss_pred             CCcCchHHHHHHHHHhcC-----CCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEE
Q 038398          127 PTVGLESTFDKVWRCLGE-----EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVV  185 (720)
Q Consensus       127 ~~vGr~~~~~~l~~~L~~-----~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~  185 (720)
                      +++--.+-+++|..||..     ...+++.+.||+|+||||.++.+++..     .|+.+-|.+
T Consensus        20 eLavhkkKv~eV~~wl~~~~~~~~~~~iLlLtGP~G~GKtttv~~La~el-----g~~v~Ew~n   78 (519)
T PF03215_consen   20 ELAVHKKKVEEVRSWLEEMFSGSSPKRILLLTGPSGCGKTTTVKVLAKEL-----GFEVQEWIN   78 (519)
T ss_pred             HhhccHHHHHHHHHHHHHHhccCCCcceEEEECCCCCCHHHHHHHHHHHh-----CCeeEEecC
Confidence            344446678888888854     235789999999999999999999886     355666754

>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=94.81  E-value=0.12  Score=56.04  Aligned_cols=59  Identities=22%  Similarity=0.276  Sum_probs=36.1

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecC-cCCHHHHHHHHHHHhCCC
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSK-DLQLEKIQEKIGRRIGFF  206 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~-~~~~~~~~~~i~~~l~~~  206 (720)
                      ..+++++|+.|+||||++..++.... .+..-..+..+.... .....+-++.....++..
T Consensus       256 g~Vi~LvGpnGvGKTTTiaKLA~~~~-~~~G~~kV~LI~~Dt~RigA~EQLr~~AeilGVp  315 (484)
T PRK06995        256 GGVFALMGPTGVGKTTTTAKLAARCV-MRHGASKVALLTTDSYRIGGHEQLRIYGKILGVP  315 (484)
T ss_pred             CcEEEEECCCCccHHHHHHHHHHHHH-HhcCCCeEEEEeCCccchhHHHHHHHHHHHhCCC
Confidence            37999999999999999999987651 111112445555432 122334455555655543

>PRK08927 fliI flagellum-specific ATP synthase; Validated

Probab=94.78  E-value=0.077  Score=56.55  Aligned_cols=90  Identities=18%  Similarity=0.228  Sum_probs=52.8

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCc-CCHHHHHHHHHHHhCCCCC----ccCCCCh-hH--
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKD-LQLEKIQEKIGRRIGFFDE----SWKNGSL-ED--  217 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~-~~~~~~~~~i~~~l~~~~~----~~~~~~~-~~--  217 (720)
                      .-..++|+|..|+|||||++.++...     ..+.++++-++.. ....++..+.+..-+....    ...+... ..  
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            45789999999999999999988765     1245566666543 3444555544433222110    0011111 11  


Q ss_pred             ---HHHHHHHHh--ccCcEEEEEecccc
Q 038398          218 ---KTSDILRIL--GKKKFLLLLDDIWE  240 (720)
Q Consensus       218 ---~~~~l~~~l--~~k~~LlVlDdv~~  240 (720)
                         ..-.+.+++  +++.+|+++||+-.
T Consensus       232 a~~~a~tiAEyfrd~G~~Vll~~DslTr  259 (442)
T PRK08927        232 AAYLTLAIAEYFRDQGKDVLCLMDSVTR  259 (442)
T ss_pred             HHHHHHHHHHHHHHCCCcEEEEEeCcHH
Confidence               122344455  57899999999843

>PRK10416 signal recognition particle-docking protein FtsY; Provisional

Probab=94.77  E-value=0.3  Score=50.34  Aligned_cols=26  Identities=38%  Similarity=0.537  Sum_probs=23.7

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ...+|+++|++|+||||++..++...
T Consensus       113 ~~~vi~lvGpnGsGKTTt~~kLA~~l  138 (318)
T PRK10416        113 KPFVILVVGVNGVGKTTTIGKLAHKY  138 (318)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHH
Confidence            46899999999999999999998877

>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=94.76  E-value=0.024  Score=52.48  Aligned_cols=22  Identities=55%  Similarity=0.679  Sum_probs=19.6

Q ss_pred             EEEEcCCCChHHHHHHHHHhhh
Q 038398          150 IGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       150 i~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      |.|.|.+|+|||||++.+++..
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            7899999999999999999887

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.

>TIGR00073 hypB hydrogenase accessory protein HypB

Probab=94.76  E-value=0.03  Score=54.07  Aligned_cols=30  Identities=30%  Similarity=0.512  Sum_probs=26.4

Q ss_pred             hcCCCceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          142 LGEEQVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       142 L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      +.+.++++|+++|+.|+|||||..++.+..
T Consensus        17 ~~~~~~~~i~~~G~~gsGKTTli~~l~~~~   46 (207)
T TIGR00073        17 LDKHGLVVLNFMSSPGSGKTTLIEKLIDNL   46 (207)
T ss_pred             hhhcCcEEEEEECCCCCCHHHHHHHHHHHH
Confidence            344689999999999999999999998875

HypB is implicated in insertion of nickel into the large subunit of NiFe hydrogenases.

>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=94.76  E-value=0.036  Score=55.50  Aligned_cols=24  Identities=33%  Similarity=0.390  Sum_probs=19.6

Q ss_pred             eEEEEEcCCCChHHHHHHHHHhhh
Q 038398          148 GIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      +.|.|+|.+|+||||+|+.+....
T Consensus         2 pLiil~G~P~SGKTt~a~~L~~~~   25 (270)
T PF08433_consen    2 PLIILCGLPCSGKTTRAKELKKYL   25 (270)
T ss_dssp             -EEEEE--TTSSHHHHHHHHHHHH
T ss_pred             EEEEEEcCCCCcHHHHHHHHHHHH
Confidence            568999999999999999999887

The Elongator complex has histone acetyltransferase activity. ; PDB: 3ADB_B 3ADC_B 3A4M_B 3A4N_B 3AM1_A 3A4L_B 3ADD_A.

>COG0714 MoxR-like ATPases [General function prediction only]

Probab=94.75  E-value=0.062  Score=56.09  Aligned_cols=62  Identities=26%  Similarity=0.250  Sum_probs=46.0

Q ss_pred             CCcCchHHHHHHHHHhcCCCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHH
Q 038398          127 PTVGLESTFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQ  196 (720)
Q Consensus       127 ~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~  196 (720)
                      .++|+++.+..+...+..+  +.+.+.|++|+|||+||+.+....   .   -..++|.+.......++.
T Consensus        25 ~~~g~~~~~~~~l~a~~~~--~~vll~G~PG~gKT~la~~lA~~l---~---~~~~~i~~t~~l~p~d~~   86 (329)
T COG0714          25 VVVGDEEVIELALLALLAG--GHVLLEGPPGVGKTLLARALARAL---G---LPFVRIQCTPDLLPSDLL   86 (329)
T ss_pred             eeeccHHHHHHHHHHHHcC--CCEEEECCCCccHHHHHHHHHHHh---C---CCeEEEecCCCCCHHHhc
Confidence            4789888888887777554  458899999999999999999987   2   233556666665555543

>cd00820 PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis

Probab=94.70  E-value=0.028  Score=47.12  Aligned_cols=22  Identities=27%  Similarity=0.285  Sum_probs=19.9

Q ss_pred             ceEEEEEcCCCChHHHHHHHHH
Q 038398          147 VGIIGLYGMGGVGKTTLLTKIN  168 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~  168 (720)
                      -..++|.|++|+|||||++.+.
T Consensus        15 ge~v~I~GpSGsGKSTLl~~l~   36 (107)
T cd00820          15 KVGVLITGDSGIGKTELALELI   36 (107)
T ss_pred             CEEEEEEcCCCCCHHHHHHHhh
Confidence            3689999999999999999976

It catalyzes the reversible decarboxylation and phosphorylation of oxaloacetate to yield phosphoenolpyruvate and carbon dioxide, using a nucleotide molecule (ATP or GTP) for the phosphoryl transfer, and has a strict requirement for divalent metal ions for activity. PEPCK's separate into two phylogenetic groups based on their nucleotide substrate specificity (the ATP-, and GTP-dependent groups).HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent phosphorylation of HPr and its dephosphorylation by phosphorolysis. PEPCK and the C-terminal catalytic domain of HprK/P are structural

>TIGR01039 atpD ATP synthase, F1 beta subunit

Probab=94.70  E-value=0.092  Score=56.03  Aligned_cols=93  Identities=19%  Similarity=0.269  Sum_probs=57.2

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecC-cCCHHHHHHHHHHHhCCCCC----ccCCCC-hhH--
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSK-DLQLEKIQEKIGRRIGFFDE----SWKNGS-LED--  217 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~-~~~~~~~~~~i~~~l~~~~~----~~~~~~-~~~--  217 (720)
                      .-..++|.|.+|+|||||+..+.....  .++-+.++++-++. .....++.+++...-.....    .....+ ...  
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            347899999999999999999887651  22234677777765 34566677766543222110    001111 111  


Q ss_pred             ---HHHHHHHHh---ccCcEEEEEecccc
Q 038398          218 ---KTSDILRIL---GKKKFLLLLDDIWE  240 (720)
Q Consensus       218 ---~~~~l~~~l---~~k~~LlVlDdv~~  240 (720)
                         ..-.+.+++   +++.+|+++|++-.
T Consensus       220 a~~~a~tiAEyfrd~~G~~VLll~DslTR  248 (461)
T TIGR01039       220 VALTGLTMAEYFRDEQGQDVLLFIDNIFR  248 (461)
T ss_pred             HHHHHHHHHHHHHHhcCCeeEEEecchhH
Confidence               223455666   45899999999843

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.

>PF03029 ATP_bind_1: Conserved hypothetical ATP binding protein; InterPro: IPR004130 Members of this family are found in a range of archaea and eukaryotes and have hypothesised ATP binding activity

Probab=94.69  E-value=0.038  Score=54.43  Aligned_cols=34  Identities=26%  Similarity=0.238  Sum_probs=22.7

Q ss_pred             EEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecC
Q 038398          152 LYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSK  188 (720)
Q Consensus       152 I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~  188 (720)
                      |+||+|+||||+++.+.+.. .  ..-..++-|+...
T Consensus         1 ViGpaGSGKTT~~~~~~~~~-~--~~~~~~~~vNLDP   34 (238)
T PF03029_consen    1 VIGPAGSGKTTFCKGLSEWL-E--SNGRDVYIVNLDP   34 (238)
T ss_dssp             -EESTTSSHHHHHHHHHHHH-T--TT-S-EEEEE--T
T ss_pred             CCCCCCCCHHHHHHHHHHHH-H--hccCCceEEEcch
Confidence            68999999999999999988 2  2323455555433

; GO: 0000166 nucleotide binding; PDB: 1YR7_A 1YRA_B 1YR8_A 1YR6_A 1YR9_A 1YRB_A 2OXR_A.

>COG0467 RAD55 RecA-superfamily ATPases implicated in signal transduction [Signal transduction mechanisms]

Probab=94.68  E-value=0.036  Score=55.76  Aligned_cols=50  Identities=18%  Similarity=0.214  Sum_probs=38.2

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHHH
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKIG  200 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i~  200 (720)
                      .-+++.|.|.+|+|||++|.++....   ......++||+....  ...+.+...
T Consensus        22 ~g~~~lI~G~pGsGKT~f~~qfl~~~---~~~ge~vlyvs~~e~--~~~l~~~~~   71 (260)
T COG0467          22 RGSVVLITGPPGTGKTIFALQFLYEG---AREGEPVLYVSTEES--PEELLENAR   71 (260)
T ss_pred             CCcEEEEEcCCCCcHHHHHHHHHHHH---HhcCCcEEEEEecCC--HHHHHHHHH
Confidence            45799999999999999999998887   344778999987654  334444433

>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=94.67  E-value=0.026  Score=51.57  Aligned_cols=22  Identities=45%  Similarity=0.530  Sum_probs=20.5

Q ss_pred             EEEEcCCCChHHHHHHHHHhhh
Q 038398          150 IGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       150 i~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      |.|+|++|+||||+|+.+....
T Consensus         2 i~l~G~~GsGKstla~~la~~l   23 (154)
T cd00464           2 IVLIGMMGAGKTTVGRLLAKAL   23 (154)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHh
Confidence            7899999999999999998876

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.

>CHL00206 ycf2 Ycf2; Provisional

Probab=94.65  E-value=0.2  Score=61.68  Aligned_cols=26  Identities=19%  Similarity=0.203  Sum_probs=23.6

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ..+-|.++|++|+|||.||++++.+.
T Consensus      1629 pPKGILLiGPPGTGKTlLAKALA~es 1654 (2281)
T CHL00206       1629 PSRGILVIGSIGTGRSYLVKYLATNS 1654 (2281)
T ss_pred             CCCceEEECCCCCCHHHHHHHHHHhc
Confidence            45689999999999999999999886

>PRK06936 type III secretion system ATPase; Provisional

Probab=94.63  E-value=0.087  Score=56.09  Aligned_cols=90  Identities=19%  Similarity=0.289  Sum_probs=53.8

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCc-CCHHHHHHHHHHHhCCCCCc----cCCCChhH---
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKD-LQLEKIQEKIGRRIGFFDES----WKNGSLED---  217 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~-~~~~~~~~~i~~~l~~~~~~----~~~~~~~~---  217 (720)
                      .-..++|.|..|+|||||.+.++...     ..+.++++-++.. ....++.+..+..-+.....    ....+...   
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            44789999999999999999998765     2356777777654 34555554433322211100    01111111   


Q ss_pred             ---HHHHHHHHh--ccCcEEEEEecccc
Q 038398          218 ---KTSDILRIL--GKKKFLLLLDDIWE  240 (720)
Q Consensus       218 ---~~~~l~~~l--~~k~~LlVlDdv~~  240 (720)
                         ..-.+.+++  +++.+|+++|++-.
T Consensus       236 a~~~a~tiAEyfrd~G~~Vll~~DslTR  263 (439)
T PRK06936        236 AGFVATSIAEYFRDQGKRVLLLMDSVTR  263 (439)
T ss_pred             HHHHHHHHHHHHHHcCCCEEEeccchhH
Confidence               112344444  57999999999843

>PRK00300 gmk guanylate kinase; Provisional

Probab=94.63  E-value=0.027  Score=54.41  Aligned_cols=26  Identities=31%  Similarity=0.378  Sum_probs=23.1

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ...+|+|+|++|+||||||+.++...
T Consensus         4 ~g~~i~i~G~sGsGKstl~~~l~~~~   29 (205)
T PRK00300          4 RGLLIVLSGPSGAGKSTLVKALLERD   29 (205)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhhC
Confidence            34689999999999999999998875

>PRK12339 2-phosphoglycerate kinase; Provisional

Probab=94.63  E-value=0.031  Score=53.19  Aligned_cols=25  Identities=32%  Similarity=0.328  Sum_probs=22.7

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ..+|.|.|.+|+||||+|+.+..+.
T Consensus         3 ~~~i~i~G~~G~GKst~a~~l~~~~   27 (197)
T PRK12339          3 STIHFIGGIPGVGKTSISGYIARHR   27 (197)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHhc
Confidence            4689999999999999999999875

>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=94.62  E-value=0.087  Score=51.89  Aligned_cols=79  Identities=11%  Similarity=0.033  Sum_probs=42.7

Q ss_pred             EEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCc--CCHHHHHHHHHHHh----CCCCCccCCCChhHHHHHH
Q 038398          149 IIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKD--LQLEKIQEKIGRRI----GFFDESWKNGSLEDKTSDI  222 (720)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~--~~~~~~~~~i~~~l----~~~~~~~~~~~~~~~~~~l  222 (720)
                      +|+|.|.+|+||||+|+.+.+.+. ..+  ..+..++...-  .+-......+....    +...-.....+.+.+.+.+
T Consensus         1 IIgItG~SGSGKTTv~~~l~~~l~-~~g--~~v~vI~~D~yyr~~r~~~~~~~~~a~~~~~nfdHf~PeAnd~dlL~~~l   77 (277)
T cd02029           1 VIAVTGSSGAGTTTVKRAFEHIFA-REG--IHPAVVEGDSFHRYERMEMKMAIAEALDAGRNFSHFGPEANLFDLLEELF   77 (277)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHHH-hcC--CceEEEeccccccCCchhHHHHHHHHhhcCCCCCCCCcccccHHHHHHHH
Confidence            589999999999999999988762 111  12344443222  12222222222221    1111011445666677777


Q ss_pred             HHHhccCc
Q 038398          223 LRILGKKK  230 (720)
Q Consensus       223 ~~~l~~k~  230 (720)
                      +.+..++.
T Consensus        78 ~~L~~g~~   85 (277)
T cd02029          78 RTYGETGR   85 (277)
T ss_pred             HHHHcCCC
Confidence            77666543

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.

>COG3640 CooC CO dehydrogenase maturation factor [Cell division and chromosome partitioning]

Probab=94.61  E-value=0.056  Score=51.43  Aligned_cols=42  Identities=36%  Similarity=0.497  Sum_probs=28.5

Q ss_pred             EEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCH
Q 038398          149 IIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQL  192 (720)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~  192 (720)
                      .|+|+|-||+||||+|..+...... ++.| .+.=|....++++
T Consensus         2 kIaI~GKGG~GKTtiaalll~~l~~-~~~~-~VLvVDaDpd~nL   43 (255)
T COG3640           2 KIAITGKGGVGKTTIAALLLKRLLS-KGGY-NVLVVDADPDSNL   43 (255)
T ss_pred             eEEEecCCCccHHHHHHHHHHHHHh-cCCc-eEEEEeCCCCCCh
Confidence            5899999999999999997666622 2223 3444555555544

>TIGR01313 therm_gnt_kin carbohydrate kinase, thermoresistant glucokinase family

Probab=94.57  E-value=0.023  Score=52.53  Aligned_cols=22  Identities=32%  Similarity=0.647  Sum_probs=20.0

Q ss_pred             EEEEcCCCChHHHHHHHHHhhh
Q 038398          150 IGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       150 i~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      |.|+|++|+||||+|+.+....
T Consensus         1 i~l~G~~GsGKSTla~~l~~~l   22 (163)
T TIGR01313         1 FVLMGVAGSGKSTIASALAHRL   22 (163)
T ss_pred             CEEECCCCCCHHHHHHHHHHhc
Confidence            4689999999999999998876

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.

>TIGR01040 V-ATPase_V1_B V-type (H+)-ATPase V1, B subunit

Probab=94.57  E-value=0.12  Score=55.15  Aligned_cols=93  Identities=12%  Similarity=0.178  Sum_probs=57.1

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhhcCC-----------CCCcCEEEEEEecCcCCHHHHHHHHHHHhC-CCCC-----
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGA-----------PNVFDVVIWVVVSKDLQLEKIQEKIGRRIG-FFDE-----  208 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~-----------~~~f~~~~wv~v~~~~~~~~~~~~i~~~l~-~~~~-----  208 (720)
                      .-+.++|.|.+|+|||||+.++.+.. ..           ++.-..+++..++......+.+.+.+..-+ ....     
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            34689999999999999999988775 21           011116677778877666665555555544 2110     


Q ss_pred             ccCCCChhH-----HHHHHHHHhc---cCcEEEEEeccc
Q 038398          209 SWKNGSLED-----KTSDILRILG---KKKFLLLLDDIW  239 (720)
Q Consensus       209 ~~~~~~~~~-----~~~~l~~~l~---~k~~LlVlDdv~  239 (720)
                      .........     ..-.+.++++   ++.+|+++||+-
T Consensus       219 tsd~p~~~R~~a~~~a~tiAEyfr~~~G~~VLl~~DslT  257 (466)
T TIGR01040       219 LANDPTIERIITPRLALTTAEYLAYQCEKHVLVILTDMS  257 (466)
T ss_pred             CCCCCHHHHHHHHhhhHHHHHHHHHhcCCcEEEeccChH
Confidence            001111111     1223556665   589999999984

This models eukaryotic vacuolar (H+)-ATPase that is responsible for acidifying cellular compartments. This enzyme shares extensive sequence similarity with archaeal ATP synthase.

>PRK10078 ribose 1,5-bisphosphokinase; Provisional

Probab=94.55  E-value=0.028  Score=53.32  Aligned_cols=24  Identities=33%  Similarity=0.541  Sum_probs=21.4

Q ss_pred             eEEEEEcCCCChHHHHHHHHHhhh
Q 038398          148 GIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      .+|.|+|+.|+|||||++.+....
T Consensus         3 ~~i~l~G~sGsGKsTl~~~l~~~~   26 (186)
T PRK10078          3 KLIWLMGPSGSGKDSLLAALRQRE   26 (186)
T ss_pred             cEEEEECCCCCCHHHHHHHHhccC
Confidence            478999999999999999997764

>PRK05057 aroK shikimate kinase I; Reviewed

Probab=94.54  E-value=0.032  Score=52.06  Aligned_cols=25  Identities=32%  Similarity=0.345  Sum_probs=22.4

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ...|.|+|+.|+||||+++.+....
T Consensus         4 ~~~I~liG~~GaGKStl~~~La~~l   28 (172)
T PRK05057          4 KRNIFLVGPMGAGKSTIGRQLAQQL   28 (172)
T ss_pred             CCEEEEECCCCcCHHHHHHHHHHHc
Confidence            3569999999999999999999876

>PTZ00185 ATPase alpha subunit; Provisional

Probab=94.54  E-value=0.16  Score=54.61  Aligned_cols=93  Identities=14%  Similarity=0.141  Sum_probs=52.8

Q ss_pred             CceEEEEEcCCCChHHHHH-HHHHhhhcCC-----CCCcCEEEEEEecCcCC-HHHHHHHHHHHhC-CCCC-----ccCC
Q 038398          146 QVGIIGLYGMGGVGKTTLL-TKINNKLLGA-----PNVFDVVIWVVVSKDLQ-LEKIQEKIGRRIG-FFDE-----SWKN  212 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa-~~v~~~~~~~-----~~~f~~~~wv~v~~~~~-~~~~~~~i~~~l~-~~~~-----~~~~  212 (720)
                      .-..++|.|..|+|||+|| -.+.+.. .+     .+.-+.++|+.+++... ..+ ..+.+..-+ ....     ....
T Consensus       188 RGQR~lIfGd~GtGKTtLAld~IinQ~-~~~~~~~~~~~~v~VyvaIGeR~rEV~e-i~~~L~e~GaL~~TvVV~AtAde  265 (574)
T PTZ00185        188 RGQRELIVGDRQTGKTSIAVSTIINQV-RINQQILSKNAVISIYVSIGQRCSNVAR-IHRLLRSYGALRYTTVMAATAAE  265 (574)
T ss_pred             CCCEEEeecCCCCChHHHHHHHHHhhh-hhccccccCCCCEEEEEEeccchHHHHH-HHHHHHhcCCccceEEEEECCCC
Confidence            3468999999999999997 5555553 11     12446788898887654 334 333333333 1110     0011


Q ss_pred             CChhH-----HHHHHHHHh--ccCcEEEEEecccc
Q 038398          213 GSLED-----KTSDILRIL--GKKKFLLLLDDIWE  240 (720)
Q Consensus       213 ~~~~~-----~~~~l~~~l--~~k~~LlVlDdv~~  240 (720)
                      ....+     ..-.+.+++  +++.+|+|+||+-.
T Consensus       266 p~~~r~~Apy~a~tiAEYFrd~GkdVLiv~DDLTr  300 (574)
T PTZ00185        266 PAGLQYLAPYSGVTMGEYFMNRGRHCLCVYDDLSK  300 (574)
T ss_pred             CHHHHHHHHHHHHHHHHHHHHcCCCEEEEEcCchH
Confidence            11111     112333444  47899999999853

>PRK14529 adenylate kinase; Provisional

Probab=94.51  E-value=0.13  Score=49.86  Aligned_cols=22  Identities=32%  Similarity=0.445  Sum_probs=20.6

Q ss_pred             EEEEcCCCChHHHHHHHHHhhh
Q 038398          150 IGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       150 i~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      |.|.|++|+||||+|+.+....
T Consensus         3 I~l~G~PGsGK~T~a~~La~~~   24 (223)
T PRK14529          3 ILIFGPNGSGKGTQGALVKKKY   24 (223)
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
Confidence            7889999999999999999887

>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=94.51  E-value=0.051  Score=49.37  Aligned_cols=36  Identities=22%  Similarity=0.327  Sum_probs=29.9

Q ss_pred             HHHHHHHHHhcCCCceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          133 STFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       133 ~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ..++++..++.+   +++.++|..|+|||||+..+....
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            356777777754   789999999999999999998764

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.

>COG0488 Uup ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]

Probab=94.50  E-value=0.18  Score=55.49  Aligned_cols=129  Identities=22%  Similarity=0.201  Sum_probs=0.0

Q ss_pred             EEEEEcCCCChHHHHHHHHHhhhcCCCCCcC-----EEEEEEecCcCCH-----------------HHHHHHHHHHhCCC
Q 038398          149 IIGLYGMGGVGKTTLLTKINNKLLGAPNVFD-----VVIWVVVSKDLQL-----------------EKIQEKIGRRIGFF  206 (720)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~-----~~~wv~v~~~~~~-----------------~~~~~~i~~~l~~~  206 (720)
                      .|+|+|+.|+|||||.+.+........+...     .+.|+.-....-.                 ..-.+..+..++..
T Consensus       350 riaiiG~NG~GKSTLlk~l~g~~~~~~G~v~~g~~v~igyf~Q~~~~l~~~~t~~d~l~~~~~~~~e~~~r~~L~~f~F~  429 (530)
T COG0488         350 RIAIVGPNGAGKSTLLKLLAGELGPLSGTVKVGETVKIGYFDQHRDELDPDKTVLEELSEGFPDGDEQEVRAYLGRFGFT  429 (530)
T ss_pred             EEEEECCCCCCHHHHHHHHhhhcccCCceEEeCCceEEEEEEehhhhcCccCcHHHHHHhhCccccHHHHHHHHHHcCCC


Q ss_pred             CCcc-----CCCChhHHHHHHHHHhccCcEEEEEe------ccccccccccccccCCCCCCCcEEEEEcCChhHhhhhcc
Q 038398          207 DESW-----KNGSLEDKTSDILRILGKKKFLLLLD------DIWERVDLTKVGIPFPDPENKSKIVFTTHFLEICGALKA  275 (720)
Q Consensus       207 ~~~~-----~~~~~~~~~~~l~~~l~~k~~LlVlD------dv~~~~~~~~l~~~~~~~~~gs~iiiTtR~~~v~~~~~~  275 (720)
                      .+..     .-+.-+...-.+...+-.++-+||||      |+.+.+.++.....++..     ||+.|.+........ 
T Consensus       430 ~~~~~~~v~~LSGGEk~Rl~La~ll~~~pNvLiLDEPTNhLDi~s~~aLe~aL~~f~Gt-----vl~VSHDr~Fl~~va-  503 (530)
T COG0488         430 GEDQEKPVGVLSGGEKARLLLAKLLLQPPNLLLLDEPTNHLDIESLEALEEALLDFEGT-----VLLVSHDRYFLDRVA-  503 (530)
T ss_pred             hHHHhCchhhcCHhHHHHHHHHHHhccCCCEEEEcCCCccCCHHHHHHHHHHHHhCCCe-----EEEEeCCHHHHHhhc-


Q ss_pred             CceeeccC
Q 038398          276 HEFLKVEC  283 (720)
Q Consensus       276 ~~~~~l~~  283 (720)
                      .+++.+.+
T Consensus       504 ~~i~~~~~  511 (530)
T COG0488         504 TRIWLVED  511 (530)
T ss_pred             ceEEEEcC

>KOG1051 consensus Chaperone HSP104 and related ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones]

Probab=94.50  E-value=0.15  Score=58.76  Aligned_cols=102  Identities=17%  Similarity=0.266  Sum_probs=65.9

Q ss_pred             CCCcCchHHHHHHHHHhcC------C--CceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHH
Q 038398          126 EPTVGLESTFDKVWRCLGE------E--QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQE  197 (720)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~------~--~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~  197 (720)
                      ..++|.++.+..|.+.+..      +  ......+.|+.|+|||-||+++....   -+..+..+-++.|      +...
T Consensus       562 ~~V~gQ~eAv~aIa~AI~~sr~gl~~~~~~awflflGpdgvGKt~lAkaLA~~~---Fgse~~~IriDms------e~~e  632 (898)
T KOG1051|consen  562 ERVIGQDEAVAAIAAAIRRSRAGLKDPNPDAWFLFLGPDGVGKTELAKALAEYV---FGSEENFIRLDMS------EFQE  632 (898)
T ss_pred             hhccchHHHHHHHHHHHHhhhcccCCCCCCeEEEEECCCchhHHHHHHHHHHHH---cCCccceEEechh------hhhh
Confidence            3457888888888888743      2  35677889999999999999998876   3444444444333      2222


Q ss_pred             HHHHHhCCCCCccCCCChhHHHHHHHHHhccCcE-EEEEeccccc
Q 038398          198 KIGRRIGFFDESWKNGSLEDKTSDILRILGKKKF-LLLLDDIWER  241 (720)
Q Consensus       198 ~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~-LlVlDdv~~~  241 (720)
                       +.+.++.+ +.   .-..+....|-+.++.++| +|+||||+..
T Consensus       633 -vskligsp-~g---yvG~e~gg~LteavrrrP~sVVLfdeIEkA  672 (898)
T KOG1051|consen  633 -VSKLIGSP-PG---YVGKEEGGQLTEAVKRRPYSVVLFEEIEKA  672 (898)
T ss_pred             -hhhccCCC-cc---cccchhHHHHHHHHhcCCceEEEEechhhc
Confidence             22222322 11   1223344577788888876 7779999753

>TIGR03305 alt_F1F0_F1_bet alternate F1F0 ATPase, F1 subunit beta

Probab=94.48  E-value=0.084  Score=56.39  Aligned_cols=93  Identities=24%  Similarity=0.323  Sum_probs=57.8

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCc-CCHHHHHHHHHHHhCCCCCc----cCCCCh-h---
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKD-LQLEKIQEKIGRRIGFFDES----WKNGSL-E---  216 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~-~~~~~~~~~i~~~l~~~~~~----~~~~~~-~---  216 (720)
                      .-..++|.|.+|+|||+|+..+.... . +.+-+.++|+-++.. ....++.+.+...-......    ..+.+. .   
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            34689999999999999999988775 2 233478888888654 34566666665432221100    011111 1   


Q ss_pred             --HHHHHHHHHhc---cCcEEEEEecccc
Q 038398          217 --DKTSDILRILG---KKKFLLLLDDIWE  240 (720)
Q Consensus       217 --~~~~~l~~~l~---~k~~LlVlDdv~~  240 (720)
                        ...-.+.++++   ++.+|+++||+-.
T Consensus       215 ~~~~a~tiAEyfrd~~G~~VLl~~DslTR  243 (449)
T TIGR03305       215 VGHTALTMAEYFRDDEKQDVLLLIDNIFR  243 (449)
T ss_pred             HHHHHHHHHHHHHHhcCCceEEEecChHH
Confidence              12233455554   5899999999843

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.

>PRK13948 shikimate kinase; Provisional

Probab=94.47  E-value=0.038  Score=51.83  Aligned_cols=26  Identities=27%  Similarity=0.409  Sum_probs=23.6

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ..+.|.++|+.|+||||+++.+.+..
T Consensus         9 ~~~~I~LiG~~GsGKSTvg~~La~~l   34 (182)
T PRK13948          9 PVTWVALAGFMGTGKSRIGWELSRAL   34 (182)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHc
Confidence            45789999999999999999999886

>TIGR01069 mutS2 MutS2 family protein

Probab=94.47  E-value=0.042  Score=63.59  Aligned_cols=114  Identities=18%  Similarity=0.235  Sum_probs=57.6

Q ss_pred             cCcEEEEEeccccccc---cccc----cccCCCCCCCcEEEEEcCChhHhhhhccCceeeccCCChhhHHHH-HHHHhcc
Q 038398          228 KKKFLLLLDDIWERVD---LTKV----GIPFPDPENKSKIVFTTHFLEICGALKAHEFLKVECLGPEDAWRL-FRENLRR  299 (720)
Q Consensus       228 ~k~~LlVlDdv~~~~~---~~~l----~~~~~~~~~gs~iiiTtR~~~v~~~~~~~~~~~l~~L~~~e~~~L-f~~~~~~  299 (720)
                      ..+-|+++|++-..-+   ...+    ...+  ...|+.+|+||....+.........+.-..+..++- .+ |..++..
T Consensus       401 ~~~sLvLlDE~g~GtD~~eg~ala~aiLe~l--~~~g~~viitTH~~eL~~~~~~~~~v~~~~~~~d~~-~l~p~Ykl~~  477 (771)
T TIGR01069       401 TENSLVLFDELGAGTDPDEGSALAISILEYL--LKQNAQVLITTHYKELKALMYNNEGVENASVLFDEE-TLSPTYKLLK  477 (771)
T ss_pred             CCCcEEEecCCCCCCCHHHHHHHHHHHHHHH--HhcCCEEEEECChHHHHHHhcCCCCeEEeEEEEcCC-CCceEEEECC
Confidence            4789999999865322   1111    1122  135789999999887744322211111111111110 00 1001111


Q ss_pred             CccCCCCChHHHHHHHHHHhCCcchHHHHHHHHHhcCCChhHHHHHHHHHhc
Q 038398          300 DVLDNHPDIPELARSVAQECAGLPLALITIGRAMACKKTPQEWHYAIQVLRR  351 (720)
Q Consensus       300 ~~~~~~~~~~~~~~~i~~~c~GlPLai~~~~~~l~~~~~~~~w~~~l~~l~~  351 (720)
                      +.    + -...|-+|++++ |+|-.+..-|..+.. ....+++.+++.+..
T Consensus       478 G~----~-g~S~a~~iA~~~-Glp~~ii~~A~~~~~-~~~~~~~~li~~L~~  522 (771)
T TIGR01069       478 GI----P-GESYAFEIAQRY-GIPHFIIEQAKTFYG-EFKEEINVLIEKLSA  522 (771)
T ss_pred             CC----C-CCcHHHHHHHHh-CcCHHHHHHHHHHHH-hhHHHHHHHHHHHHH
Confidence            10    1 134577888777 789888877776654 334456666555544

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.

>PRK14737 gmk guanylate kinase; Provisional

Probab=94.46  E-value=0.035  Score=52.47  Aligned_cols=26  Identities=15%  Similarity=0.287  Sum_probs=23.0

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ...+|.|+|++|+|||||++.+....
T Consensus         3 ~~~~ivl~GpsG~GK~tl~~~l~~~~   28 (186)
T PRK14737          3 SPKLFIISSVAGGGKSTIIQALLEEH   28 (186)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHhcC
Confidence            35789999999999999999998765

>cd03281 ABC_MSH5_euk MutS5 homolog in eukaryotes

Probab=94.45  E-value=0.029  Score=54.30  Aligned_cols=23  Identities=22%  Similarity=0.340  Sum_probs=20.8

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHh
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINN  169 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~  169 (720)
                      .+++.|+|+.|.||||+.+.+..
T Consensus        29 ~~~~~itGpNg~GKStlLk~i~~   51 (213)
T cd03281          29 PSIMVITGPNSSGKSVYLKQVAL   51 (213)
T ss_pred             ceEEEEECCCCCChHHHHHHHHH
Confidence            48899999999999999999874

The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal domain with a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form sliding c

>PF05970 PIF1: PIF1-like helicase; InterPro: IPR010285 This entry represents PIF1 helicase and related proteins

Probab=94.45  E-value=0.078  Score=56.10  Aligned_cols=38  Identities=29%  Similarity=0.351  Sum_probs=31.1

Q ss_pred             HHHHHHHHhcCCCceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          134 TFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       134 ~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ..+.+++.+.......+.|.|+||+|||+|.+++.+..
T Consensus         9 ~~~~v~~~~~~~~~~~~fv~G~~GtGKs~l~~~i~~~~   46 (364)
T PF05970_consen    9 VFDTVIEAIENEEGLNFFVTGPAGTGKSFLIKAIIDYL   46 (364)
T ss_pred             HHHHHHHHHHccCCcEEEEEcCCCCChhHHHHHHHHHh
Confidence            44556666665666889999999999999999999887

The PIF1 helicase inhibits telomerase activity and is cell cycle regulated [, ].

>PLN02200 adenylate kinase family protein

Probab=94.43  E-value=0.036  Score=54.50  Aligned_cols=26  Identities=31%  Similarity=0.208  Sum_probs=23.2

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ...+|.|.|++|+||||+|+.+.+..
T Consensus        42 ~~~ii~I~G~PGSGKsT~a~~La~~~   67 (234)
T PLN02200         42 TPFITFVLGGPGSGKGTQCEKIVETF   67 (234)
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            45689999999999999999998876

>cd01122 GP4d_helicase GP4d_helicase is a homohexameric 5'-3' helicases

Probab=94.41  E-value=0.28  Score=49.62  Aligned_cols=52  Identities=21%  Similarity=0.158  Sum_probs=36.4

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHHHHH
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKIGRR  202 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i~~~  202 (720)
                      -.++.|.|++|+||||++.+++....  ..+=..++|++...  ...++...+...
T Consensus        30 g~~~~i~g~~G~GKT~l~~~~~~~~~--~~~g~~vl~iS~E~--~~~~~~~r~~~~   81 (271)
T cd01122          30 GELIILTAGTGVGKTTFLREYALDLI--TQHGVRVGTISLEE--PVVRTARRLLGQ   81 (271)
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHHHH--HhcCceEEEEEccc--CHHHHHHHHHHH
Confidence            35888999999999999999877651  22234688887655  345555555544

Helicases couple NTP hydrolysis to the unwinding of nucleic acid duplexes into their component strands.

>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=94.38  E-value=0.043  Score=56.28  Aligned_cols=46  Identities=26%  Similarity=0.317  Sum_probs=30.6

Q ss_pred             eEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHH
Q 038398          148 GIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQ  196 (720)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~  196 (720)
                      +++.+.|.||+||||+|.+.+-...+ ++  ..+.-++.....++.+++
T Consensus         2 r~~~~~GKGGVGKTT~aaA~A~~~A~-~G--~rtLlvS~Dpa~~L~d~l   47 (305)
T PF02374_consen    2 RILFFGGKGGVGKTTVAAALALALAR-RG--KRTLLVSTDPAHSLSDVL   47 (305)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHHHHHH-TT--S-EEEEESSTTTHHHHHH
T ss_pred             eEEEEecCCCCCcHHHHHHHHHHHhh-CC--CCeeEeecCCCccHHHHh
Confidence            68999999999999999887766522 22  235556655554444443

...

>cd01132 F1_ATPase_alpha F1 ATP synthase alpha, central domain

Probab=94.29  E-value=0.11  Score=51.56  Aligned_cols=89  Identities=15%  Similarity=0.132  Sum_probs=50.3

Q ss_pred             ceEEEEEcCCCChHHHHH-HHHHhhhcCCCCCcCEE-EEEEecCc-CCHHHHHHHHHHHhCCCCC-----ccCCCChhH-
Q 038398          147 VGIIGLYGMGGVGKTTLL-TKINNKLLGAPNVFDVV-IWVVVSKD-LQLEKIQEKIGRRIGFFDE-----SWKNGSLED-  217 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa-~~v~~~~~~~~~~f~~~-~wv~v~~~-~~~~~~~~~i~~~l~~~~~-----~~~~~~~~~-  217 (720)
                      -+.++|.|.+|+|||+|| ..+.+..     .-+.+ +++-++.. ....++.+.+...-.....     ......... 
T Consensus        69 GQr~~Ifg~~g~GKt~L~l~~i~~~~-----~~~v~~V~~~iGer~~ev~e~~~~~~~~~~~~~tvvv~~t~d~~~~~r~  143 (274)
T cd01132          69 GQRELIIGDRQTGKTAIAIDTIINQK-----GKKVYCIYVAIGQKASTVAQVVKTLEEHGAMEYTIVVAATASDPAPLQY  143 (274)
T ss_pred             CCEEEeeCCCCCCccHHHHHHHHHhc-----CCCeEEEEEecccchHHHHHHHHHHHhcCccceeEEEEeCCCCchhHHH
Confidence            468999999999999996 5555432     23333 66666654 4556666666643221110     001111111 


Q ss_pred             ----HHHHHHHHh--ccCcEEEEEecccc
Q 038398          218 ----KTSDILRIL--GKKKFLLLLDDIWE  240 (720)
Q Consensus       218 ----~~~~l~~~l--~~k~~LlVlDdv~~  240 (720)
                          ..-.+.+++  +++.+|+++||+-.
T Consensus       144 ~a~~~a~aiAE~fr~~G~~Vlvl~DslTr  172 (274)
T cd01132         144 LAPYTGCAMGEYFMDNGKHALIIYDDLSK  172 (274)
T ss_pred             HHHHHHHHHHHHHHHCCCCEEEEEcChHH
Confidence                112233333  47899999999854

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.

>PRK13975 thymidylate kinase; Provisional

Probab=94.28  E-value=0.038  Score=52.87  Aligned_cols=24  Identities=38%  Similarity=0.491  Sum_probs=22.6

Q ss_pred             eEEEEEcCCCChHHHHHHHHHhhh
Q 038398          148 GIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ..|.|.|+.|+||||+|+.+.+..
T Consensus         3 ~~I~ieG~~GsGKtT~~~~L~~~l   26 (196)
T PRK13975          3 KFIVFEGIDGSGKTTQAKLLAEKL   26 (196)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            579999999999999999999987

>COG1126 GlnQ ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]

Probab=94.25  E-value=0.036  Score=52.06  Aligned_cols=35  Identities=29%  Similarity=0.228  Sum_probs=25.7

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEE
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVV  185 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~  185 (720)
                      -.++.|+|++|+|||||.+.+..=.    ..=.+.+||.
T Consensus        28 Gevv~iiGpSGSGKSTlLRclN~LE----~~~~G~I~i~   62 (240)
T COG1126          28 GEVVVIIGPSGSGKSTLLRCLNGLE----EPDSGSITVD   62 (240)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHCCc----CCCCceEEEC
Confidence            4689999999999999999875432    2223566663

>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=94.25  E-value=0.029  Score=29.74  Aligned_cols=16  Identities=50%  Similarity=0.779  Sum_probs=6.7

Q ss_pred             CCCEEeccCCCCcccc
Q 038398          565 SLEHLDLSSTAITHLP  580 (720)
Q Consensus       565 ~L~~L~L~~~~i~~lp  580 (720)
                      +|+.|++++|+++++|
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            4555555555555554

...

>COG1116 TauB ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=94.25  E-value=0.037  Score=53.46  Aligned_cols=25  Identities=32%  Similarity=0.501  Sum_probs=21.6

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhh
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNK  170 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~  170 (720)
                      .-..|+|+|++|+|||||.+.+.--
T Consensus        28 ~GEfvsilGpSGcGKSTLLriiAGL   52 (248)
T COG1116          28 KGEFVAILGPSGCGKSTLLRLIAGL   52 (248)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            3468999999999999999998753

>PRK03846 adenylylsulfate kinase; Provisional

Probab=94.25  E-value=0.044  Score=52.51  Aligned_cols=27  Identities=22%  Similarity=0.418  Sum_probs=24.0

Q ss_pred             CCceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          145 EQVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       145 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ....+|+|+|++|+||||||+.+....
T Consensus        22 ~~~~~i~i~G~~GsGKSTla~~l~~~l   48 (198)
T PRK03846         22 HKGVVLWFTGLSGSGKSTVAGALEEAL   48 (198)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHH
Confidence            356799999999999999999998876

>PRK13946 shikimate kinase; Provisional

Probab=94.24  E-value=0.042  Score=51.97  Aligned_cols=25  Identities=28%  Similarity=0.418  Sum_probs=22.9

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ...|.++|++|+||||+++.+.+..
T Consensus        10 ~~~I~l~G~~GsGKsti~~~LA~~L   34 (184)
T PRK13946         10 KRTVVLVGLMGAGKSTVGRRLATML   34 (184)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHc
Confidence            3579999999999999999999987

>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=94.23  E-value=0.048  Score=51.70  Aligned_cols=45  Identities=24%  Similarity=0.199  Sum_probs=30.5

Q ss_pred             EEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHH
Q 038398          149 IIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEK  198 (720)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~  198 (720)
                      ++.|.|++|+|||+||.++.....   ..=..++|++...  +...+.+.
T Consensus         1 ~~li~G~~G~GKT~l~~~~~~~~~---~~g~~v~~~s~e~--~~~~~~~~   45 (187)
T cd01124           1 STLLSGGPGTGKTTFALQFLYAGL---ARGEPGLYVTLEE--SPEELIEN   45 (187)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHHH---HCCCcEEEEECCC--CHHHHHHH
Confidence            367999999999999999877652   1224577886643  34444433

A related protein is found in archaea.

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	720
3rfs_A	272	Design Of A Binding Scaffold Based On Variable Lymp		2e-06
2o6s_A	208	Structural Diversity Of The Hagfish Variable Lympho		1e-04
3rfj_A	279	Design Of A Binding Scaffold Based On Variable Lymp		8e-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 = 51.6 bits (122), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 41/133 (30%), Positives = 67/133 (50%), Gaps = 4/133 (3%)
Query: 490 IQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSN 549
           IQ   NVR ++L  NK+ ++S      +L  L L+ N L+   +  F  + +L+   +  
Sbjct: 59  IQYLPNVRYLALGGNKLHDISALKELTNLTYLILTGNQLQSLPNGVFDKLTNLKELVLVE 118
Query: 550 NHLLWKLPSGI-STLVSLEHLDLSSTAITHLPIEL-QKLVNLKCLNLEYMNNLNQFPRLV 607
           N  L  LP G+   L +L +L+L+   +  LP  +  KL NL  L+L Y N L   P  V
Sbjct: 119 NQ-LQSLPDGVFDKLTNLTYLNLAHNQLQSLPKGVFDKLTNLTELDLSY-NQLQSLPEGV 176
Query: 608 ISAFSKLQVLRMF 620
               ++L+ LR++
Sbjct: 177 FDKLTQLKDLRLY 189

>pdb|2O6S|A Chain A, Structural Diversity Of The Hagfish Variable Lymphocyte Receptors B59 Length = 208

Iteration: 1
 Score = 45.1 bits (105), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 35/106 (33%), Positives = 50/106 (47%), Gaps = 4/106 (3%)
Query: 518 LLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGI-STLVSLEHLDLSSTAI 576
           L  L+L  N L+   +  F  + SL   N+S N  L  LP+G+   L  L+ L L++  +
Sbjct: 54  LTQLYLGGNKLQSLPNGVFNKLTSLTYLNLSTNQ-LQSLPNGVFDKLTQLKELALNTNQL 112
Query: 577 THLPIEL-QKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFD 621
             LP  +  KL  LK L L Y N L   P  V    + LQ + + D
Sbjct: 113 QSLPDGVFDKLTQLKDLRL-YQNQLKSVPDGVFDRLTSLQYIWLHD 157

>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 = 42.7 bits (99), Expect = 8e-04,   Method: Compositional matrix adjust.
 Identities = 40/134 (29%), Positives = 64/134 (47%), Gaps = 4/134 (2%)
Query: 490 IQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSN 549
           IQ   NVR ++L  NK+ ++S      +L  L L+ N L+   +  F  + +L+   +  
Sbjct: 59  IQYLPNVRYLALGGNKLHDISALKELTNLTYLILTGNQLQSLPNGVFDKLTNLKELVLVE 118
Query: 550 NHLLWKLPSGI-STLVSLEHLDLSSTAITHLPIEL-QKLVNLKCLNLEYMNNLNQFPRLV 607
           N  L  LP G+   L +L +L L    +  LP  +  KL NL  L+L+  N L   P  V
Sbjct: 119 NQ-LQSLPDGVFDKLTNLTYLYLYHNQLQSLPKGVFDKLTNLTRLDLD-NNQLQSLPEGV 176
Query: 608 ISAFSKLQVLRMFD 621
               ++L+ L + D
Sbjct: 177 FDKLTQLKQLSLND 190

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	720
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	5e-53
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	5e-52
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	8e-40
3sfz_A	1249	APAF-1, apoptotic peptidase activating factor 1; a	5e-19
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	9e-19
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	6e-12
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	4e-07
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	2e-18
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	2e-15
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	1e-12
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	4e-10
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	9e-08
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	1e-07
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	2e-18
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	3e-15
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	1e-14
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	2e-14
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	9e-06
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	2e-04
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	2e-18
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	2e-16
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	2e-15
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	1e-13
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	8e-12
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	1e-09
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	3e-18
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	3e-16
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	3e-15
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	8e-13
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	5e-09
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	8e-06
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	4e-18
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	9e-15
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	3e-14
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	7e-14
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	3e-17
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	1e-14
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	1e-10
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	1e-07
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	4e-17
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	6e-15
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	9e-15
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	8e-13
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	6e-06
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	5e-17
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	1e-16
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	1e-16
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	5e-16
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	6e-15
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	4e-13
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	3e-09
1o6v_A	466	Internalin A; bacterial infection, extracellular r	6e-17
1o6v_A	466	Internalin A; bacterial infection, extracellular r	5e-16
1o6v_A	466	Internalin A; bacterial infection, extracellular r	6e-16
1o6v_A	466	Internalin A; bacterial infection, extracellular r	2e-15
1o6v_A	466	Internalin A; bacterial infection, extracellular r	2e-15
1o6v_A	466	Internalin A; bacterial infection, extracellular r	7e-14
1o6v_A	466	Internalin A; bacterial infection, extracellular r	2e-13
1o6v_A	466	Internalin A; bacterial infection, extracellular r	3e-07
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	1e-16
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	3e-16
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	4e-15
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	6e-13
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	1e-11
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	1e-16
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	1e-11
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	4e-08
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	2e-16
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	6e-14
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	2e-12
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	1e-04
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	2e-16
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	5e-16
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	8e-15
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	7e-14
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	4e-04
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	3e-16
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	3e-16
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	4e-16
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	5e-16
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	2e-13
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	3e-13
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	5e-12
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	8e-09
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	3e-06
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	7e-16
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	1e-14
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	4e-13
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	1e-11
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	7e-10
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	6e-08
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	7e-07
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	3e-05
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	8e-16
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	5e-15
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	7e-15
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	2e-11
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	2e-15
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	3e-15
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	2e-15
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	6e-15
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	4e-07
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	2e-04
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	3e-15
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	9e-15
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	1e-13
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	3e-08
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	7e-15
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	2e-13
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	2e-09
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	1e-04
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	8e-15
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	6e-13
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	1e-12
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	9e-10
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	2e-08
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	2e-04
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	9e-15
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	9e-12
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	2e-09
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	8e-07
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	1e-14
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	8e-14
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	9e-13
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	1e-12
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	7e-07
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	3e-04
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	1e-14
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	5e-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	5e-07
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	5e-06
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	2e-14
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	5e-14
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	3e-10
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	8e-06
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	2e-14
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	5e-11
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	2e-10
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	3e-05
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	3e-14
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	4e-13
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	7e-13
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	7e-09
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	4e-14
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	2e-11
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	1e-10
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	6e-05
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	5e-14
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	6e-13
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	5e-12
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	8e-12
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	2e-11
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	2e-11
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	5e-11
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	6e-10
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	1e-08
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	2e-08
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	3e-07
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	8e-06
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	4e-04
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	1e-13
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	1e-12
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	4e-11
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	7e-04
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	1e-13
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	1e-13
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	4e-13
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	2e-13
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	6e-09
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	5e-05
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	3e-13
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	2e-12
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	2e-10
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	3e-13
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	2e-12
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	4e-05
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	4e-13
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	9e-12
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	6e-10
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	4e-05
1wwl_A	312	Monocyte differentiation antigen CD14; LPS, immune	4e-13
1wwl_A	312	Monocyte differentiation antigen CD14; LPS, immune	2e-11
1wwl_A	312	Monocyte differentiation antigen CD14; LPS, immune	2e-07
1wwl_A	312	Monocyte differentiation antigen CD14; LPS, immune	4e-07
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	5e-13
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	1e-09
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	7e-09
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	1e-05
2xot_A	361	Amphoterin-induced protein 1; cell adhesion, neuro	9e-13
2xot_A	361	Amphoterin-induced protein 1; cell adhesion, neuro	5e-10
2xot_A	361	Amphoterin-induced protein 1; cell adhesion, neuro	9e-06
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	1e-12
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	2e-10
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	2e-08
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	6e-05
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	1e-11
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	1e-10
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	4e-09
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	2e-11
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	7e-11
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	3e-09
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	1e-05
1ds9_A	198	Outer arm dynein; leucine-rich repeat, beta-BETA-a	4e-11
1ds9_A	198	Outer arm dynein; leucine-rich repeat, beta-BETA-a	3e-07
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	4e-11
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	1e-08
2v9t_B	220	SLIT homolog 2 protein N-product; structural prote	5e-11
2v9t_B	220	SLIT homolog 2 protein N-product; structural prote	5e-10
2v9t_B	220	SLIT homolog 2 protein N-product; structural prote	3e-06
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	1e-10
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	2e-06
2o6q_A	270	Variable lymphocyte receptor A; leucine-rich repea	6e-10
1a9n_A	176	U2A', U2A'; complex (nuclear protein/RNA), RNA, sn	1e-09
1a9n_A	176	U2A', U2A'; complex (nuclear protein/RNA), RNA, sn	2e-08
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	2e-09
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	5e-06
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	2e-09
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	1e-08
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	2e-07
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	3e-07
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	2e-04
2ell_A	168	Acidic leucine-rich nuclear phosphoprotein 32 FAM	8e-09
2ell_A	168	Acidic leucine-rich nuclear phosphoprotein 32 FAM	1e-04
2ifg_A	347	High affinity nerve growth factor receptor; TRK, T	1e-08
2ifg_A	347	High affinity nerve growth factor receptor; TRK, T	3e-04
2je0_A	149	Acidic leucine-rich nuclear phosphoprotein 32 FAM	2e-07
3rfs_A	272	Internalin B, repeat modules, variable lymphocyte	2e-06
3m19_A	251	Variable lymphocyte receptor A diversity region; a	3e-06
3m19_A	251	Variable lymphocyte receptor A diversity region; a	6e-06
2v70_A	220	SLIT-2, SLIT homolog 2 protein N-product; neurogen	3e-06
2o6s_A	208	Variable lymphocyte receptor B; leucine-rich repea	5e-06
3e6j_A	229	Variable lymphocyte receptor diversity region; var	2e-05
2o6r_A	177	Variable lymphocyte receptor B; leucine-rich repea	2e-05
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	2e-04
3e4g_A	176	ATP synthase subunit S, mitochondrial; leucine-ric	2e-04
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	4e-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 =  191 bits (486), Expect = 5e-53
 Identities = 49/346 (14%), Positives = 110/346 (31%), Gaps = 33/346 (9%)

Query: 142 LGEEQVGIIGLYGMGGVGKTTLLTKI-NNKLLGAPNVFDVVIWVVVSKDL--QLEKIQEK 198
           + +     + L+G  G GK+ + ++  +         +D ++W+  S         +   
Sbjct: 147 MCDLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINYDSIVWLKDSGTAPKSTFDLFTD 206

Query: 199 IGRRIGFFDESWKNGSLEDKTSDILRI------LGKKKFLLLLDDIWERVDLTKVGIPFP 252
           I   +   D+     S+E  TS +L+       + +   L + DD+ +   +        
Sbjct: 207 ILLMLKSEDDLLNFPSVEHVTSVVLKRMICNALIDRPNTLFVFDDVVQEETI------RW 260

Query: 253 DPENKSKIVFTTHFLEICGALKAH-EFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPEL 311
             E + + + TT  +EI  A     EF++V  L  ++ +                   ++
Sbjct: 261 AQELRLRCLVTTRDVEISNAASQTCEFIEVTSLEIDECYDFLEAYGMPM--PVGEKEEDV 318

Query: 312 ARSVAQECAGLPLALITIGRAMACKKTPQEWHYAIQVLRRSA-----SEFPGMGKEVYPL 366
                +  +G P  L+   ++    KT ++       L            P   K +   
Sbjct: 319 LNKTIELSSGNPATLMMFFKSCE-PKTFEKMAQLNNKLESRGLVGVECITPYSYKSLAMA 377

Query: 367 LKFSYDSLPDDTIRSYLLYCGLFPEDYRIRKSELIDCWIGEGFLDQYDRSGAYNEGYYII 426
           L+   + L D+  RS L +  + P    I           +   ++ ++    +E    +
Sbjct: 378 LQRCVEVLSDE-DRSALAFAVVMPPGVDIPVKLWSCVIPVDICSNEEEQLD--DEVADRL 434

Query: 427 GILLHACLLEEEGGDIGEEESGEHVVKMHDVIRDMVLWIACKIEKE 472
             L     L         +       K+  +I   +  +       
Sbjct: 435 KRLSKRGALLS------GKRMPVLTFKIDHIIHMFLKHVVDAQTIA 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 =  189 bits (481), Expect = 5e-52
 Identities = 83/506 (16%), Positives = 165/506 (32%), Gaps = 57/506 (11%)

Query: 90  KRVAKTLQLVNNLMGEGAFDAVAEKV-PRPAVDQRPCEPT--VGLESTFDKVWRCL--GE 144
             +   + +V++  G+ +   +   V         P  P   V  +   + + + L   +
Sbjct: 85  ALLHDGIPVVSSSSGKDSVSGITSYVRTVLCEGGVPQRPVVFVTRKKLVNAIQQKLSKLK 144

Query: 145 EQVGIIGLYGMGGVGKTTLLTKI-NNKLLGAPNVFDVVIWVVVSKD---LQLEKIQEKIG 200
            + G + ++GM G GK+ L  +   +  L        V WV V K      L K+Q    
Sbjct: 145 GEPGWVTIHGMAGCGKSVLAAEAVRDHSLLEGCFPGGVHWVSVGKQDKSGLLMKLQNLCT 204

Query: 201 RRIGFFDESWKNGSLEDKTSDILR--ILGK-KKFLLLLDDIWERVDLTKVGIPFPDPENK 257
           R       S +     ++  D LR  +L K  + LL+LDD+W+              +++
Sbjct: 205 RLDQDESFSQRLPLNIEEAKDRLRILMLRKHPRSLLILDDVWDS-------WVLKAFDSQ 257

Query: 258 SKIVFTTHFLEICGALKAHEFL--KVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSV 315
            +I+ TT    +  ++   +++      LG E    +    +         D+PE A S+
Sbjct: 258 CQILLTTRDKSVTDSVMGPKYVVPVESSLGKEKGLEILSLFVNMK----KADLPEQAHSI 313

Query: 316 AQECAGLPLALITIGRAMACKKTPQEWHYAIQVLRRSASEFPGMGK-----EVYPLLKFS 370
            +EC G PL +  IG  +     P  W Y ++ L+    +            +   +  S
Sbjct: 314 IKECKGSPLVVSLIGALLRDF--PNRWEYYLKQLQNKQFKRIRKSSSYDYEALDEAMSIS 371

Query: 371 YDSLPDDTIRSYLLYCGLFPEDYRIRKSELIDCWIGEGFL-DQYDRSGAYNEGYYIIGIL 429
            + L +D I+ Y     +  +D ++    L   W  E    +         E        
Sbjct: 372 VEMLRED-IKDYYTDLSILQKDVKVPTKVLCILWDMETEEVEDI-----LQE-------F 418

Query: 430 LHACLLEEEGGDIGEEESGEHVVKMHDVIRDMVLWIACK-IEKEKENFLVHAGLGLTEAP 488
           ++  LL        +         +HD+  D +    C  ++   +  +          P
Sbjct: 419 VNKSLLFC------DRNGKSFRYYLHDLQVDFLTEKNCSQLQDLHKKIITQ--FQRYHQP 470

Query: 489 EIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDN--SLKMSTDDFFQSMPSLRVFN 546
              +      M        +++       L +L  S +    K         +     + 
Sbjct: 471 HTLSPDQEDCMYWYNFLAYHMASAKMHKELCALMFSLDWIKAKTELVGPAHLIHEFVEYR 530

Query: 547 MSNNHLLWKLPSGISTLVSLEHLDLS 572
              +     +       +SL    L 
Sbjct: 531 HILDEKDCAVSENFQEFLSLNGHLLG 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 =  157 bits (397), Expect = 8e-40
 Identities = 97/612 (15%), Positives = 181/612 (29%), Gaps = 131/612 (21%)

Query: 54  METEVGEL---------------MKD-GSQEVDKLCPGGCCSKNCRSSFEFGKRVAKTLQ 97
           M+ E GE                + +   ++V  +       +           V+ TL+
Sbjct: 7   MDFETGEHQYQYKDILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLR 66

Query: 98  LVNNLM--GEGAFDAVAEKVPRP----------AVDQRPCEPTVGLESTFDK-------- 137
           L   L+   E       E+V R              ++P   T       D+        
Sbjct: 67  LFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVF 126

Query: 138 ----VWR---------CLGEEQVG-IIGLYGMGGVGKTTLLTKI--NNKLLGAPNVFDVV 181
               V R          L E +    + + G+ G GKT +   +  + K+    +    +
Sbjct: 127 AKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMD--FKI 184

Query: 182 IWVVVSKDLQLEKIQEKIGRRIGFFDESWKNGS---------LEDKTSDILRILGKKKF- 231
            W+ +      E + E + + +   D +W + S         +    +++ R+L  K + 
Sbjct: 185 FWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYE 244

Query: 232 --LLLLDDIWERVDLTKVGIPFPDPENKSKIVFTTHFLEICGALKA----HEFLKVECLG 285
             LL+L ++       K    F       KI+ TT F ++   L A    H  L    + 
Sbjct: 245 NCLLVLLNVQNA----KAWNAF---NLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMT 297

Query: 286 --PEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGLPLALITIGRAMACKKTPQEWH 343
             P++   L  + L         D+P             P  L  I  ++  +     W 
Sbjct: 298 LTPDEVKSLLLKYLDCRP----QDLPREV------LTTNPRRLSIIAESI--RDGLATWD 345

Query: 344 YAIQVLRRSASEFPGMGKEVYPLLKFSYDSLPDDTIRSYLLYCGLFPEDYRIRKSELIDC 403
               V             ++  +++ S + L     R       +FP    I    L   
Sbjct: 346 NWKHVNC----------DKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLI 395

Query: 404 WIG------EGFLDQYDRSGAYNEGYYIIGILLHACLLEEEGGDIGEEESGEHVVKMHDV 457
           W           +++  +     +      I + +  LE        +   E+   +H  
Sbjct: 396 WFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLE-------LKVKLENEYALHRS 448

Query: 458 IRDMVLWIACKIEKEKEN-------FLVHAGLGLTEAPEIQNWRNVRRMSL----MKNKI 506
           I D    I    + +          F  H G  L      +     R + L    ++ KI
Sbjct: 449 IVDHYN-IPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDFRFLEQKI 507

Query: 507 ENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVSL 566
            + S        +   L    LK        + P    +    N +L  LP     L+  
Sbjct: 508 RHDSTAWNASGSILNTLQQ--LKFYKPYICDNDP---KYERLVNAILDFLPKIEENLICS 562

Query: 567 EHLDLSSTAITH 578
           ++ DL   A+  
Sbjct: 563 KYTDLLRIALMA 574

>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 = 91.4 bits (227), Expect = 5e-19
 Identities = 67/354 (18%), Positives = 121/354 (34%), Gaps = 45/354 (12%)

Query: 139 WRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVF-DVVIWVVVSKDLQ---LEK 194
                  + G + +YGM G GK+ L  +           F   V WV + K  +   L K
Sbjct: 139 KLWKLNGEPGWVTIYGMAGCGKSVLAAEAVRDHSLLEGCFSGGVHWVSIGKQDKSGLLMK 198

Query: 195 IQEKIGR--RIGFFDESWKNGSLEDKTSDILRILGK-KKFLLLLDDIWERVDLTKVGIPF 251
           +Q    R  +   F +       E K    + +L K  + LL+LDD+W+   L       
Sbjct: 199 LQNLCMRLDQEESFSQRLPLNIEEAKDRLRVLMLRKHPRSLLILDDVWDPWVLKAFDNQ- 257

Query: 252 PDPENKSKIVFTTHFLEICGALKAHEF-LKVE-CLGPEDAWRLFRENLRRDVLDNHPDIP 309
                  +I+ TT    +  ++   +  + VE  LG E    +    +         D+P
Sbjct: 258 ------CQILLTTRDKSVTDSVMGPKHVVPVESGLGREKGLEILSLFVNMKK----EDLP 307

Query: 310 ELARSVAQECAGLPLALITIGRAMACKKTPQEWHYAIQVLRRSASEFPGMGKEVYP---- 365
             A S+ +EC G PL +  IG A+      +  +Y  Q+  +            Y     
Sbjct: 308 AEAHSIIKECKGSPLVVSLIG-ALLRDFPNRWAYYLRQLQNKQFKRIRKSSSYDYEALDE 366

Query: 366 LLKFSYDSLPDDTIRSYLLYCGLFPEDYRIRKSELIDCW-IGEGFLDQYDRSGAYNEGYY 424
            +  S + L +D I+ Y     +  +D ++    L   W +    ++             
Sbjct: 367 AMSISVEMLRED-IKDYYTDLSILQKDVKVPTKVLCVLWDLETEEVED------------ 413

Query: 425 IIGILLHACLLEEEGGDIGEEESGEHVVKMHDVIRDMVLWIACKIEKEKENFLV 478
           I+   ++  LL                  +HD+  D +        ++    +V
Sbjct: 414 ILQEFVNKSLLFC------NRNGKSFCYYLHDLQVDFLTEKNRSQLQDLHRKMV 461

>2z66_A Variable lymphocyte receptor B, TOLL-like recepto; TLR4, TOLL-like receptor, MD-2, LPS, leucine-rich repeat, glycoprotein, immune response; HET: NAG BMA FUL; 1.90A {Eptatretus burgeri} Length = 306

 Score = 86.6 bits (215), Expect = 9e-19
 Identities = 31/149 (20%), Positives = 57/149 (38%), Gaps = 9/149 (6%)

Query: 494 RNVRRMSLMKNKIENLSETPT---CPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNN 550
             +  +    + ++ +SE        +L+ L +S    +++ +  F  + SL V  M+ N
Sbjct: 101 EQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDISHTHTRVAFNGIFNGLSSLEVLKMAGN 160

Query: 551 HLLWKLPSGI-STLVSLEHLDLSSTAITHLPIE-LQKLVNLKCLNLEYMNNLNQFPRLVI 608
                    I + L +L  LDLS   +  L       L +L+ LN+ + NN         
Sbjct: 161 SFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMSH-NNFFSLDT--- 216

Query: 609 SAFSKLQVLRMFDCGGSKIERLKINVLFG 637
             +  L  L++ D   + I   K   L  
Sbjct: 217 FPYKCLNSLQVLDYSLNHIMTSKKQELQH 245

>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 = 66.2 bits (162), Expect = 6e-12
 Identities = 46/217 (21%), Positives = 76/217 (35%), Gaps = 40/217 (18%)

Query: 516 PHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWK-LPSGI-STLVSLEHLDLSS 573
                L L  N L+      F  +  L   ++S+N L +K   S       SL++LDLS 
Sbjct: 28  SSATRLELESNKLQSLPHGVFDKLTQLTKLSLSSNGLSFKGCCSQSDFGTTSLKYLDLSF 87

Query: 574 TAITHLPIELQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKIN 633
             +  +      L  L+ L+ ++ +NL Q      S F  L+ L   D   +        
Sbjct: 88  NGVITMSSNFLGLEQLEHLDFQH-SNLKQMSEF--SVFLSLRNLIYLDISHTHTRVAFNG 144

Query: 634 VLFGGHQFLVEELMGMKHLMVLTIT----LKSWQA--------LKELLIS----QELQRS 677
           +             G+  L VL +      +++          L  L +S    ++L  +
Sbjct: 145 I-----------FNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPT 193

Query: 678 T-------QSLFLRCFNDSKSLDIFCLAGLRNLNKLY 707
                   Q L +   N+  SLD F    L +L  L 
Sbjct: 194 AFNSLSSLQVLNMSH-NNFFSLDTFPYKCLNSLQVLD 229

>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 = 51.6 bits (124), Expect = 4e-07
 Identities = 36/180 (20%), Positives = 57/180 (31%), Gaps = 47/180 (26%)

Query: 540 PSLRVFNMSNNHLLWKLPSGI-STLVSLEHLDLSSTAITHLPIE---LQKLVNLKCLNLE 595
            S     + +N L   LP G+   L  L  L LSS  ++             +LK L+L 
Sbjct: 28  SSATRLELESNKLQ-SLPHGVFDKLTQLTKLSLSSNGLSFKGCCSQSDFGTTSLKYLDLS 86

Query: 596 YMNNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKINVLFGGHQFLVEELMGMKHLMVL 655
           + N +        S F  L+ L   D   S ++++    +F                   
Sbjct: 87  F-NGVITMS----SNFLGLEQLEHLDFQHSNLKQMSEFSVFLS----------------- 124

Query: 656 TITLKSWQALKELLISQELQRSTQSLFLRCFNDSKSLDIFCLAGLRNLNKLYVAGCKHLE 715
              L++   L  L IS                 ++        GL +L  L +AG    E
Sbjct: 125 ---LRN---LIYLDISH--------------THTRVAFNGIFNGLSSLEVLKMAGNSFQE 164

>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 = 88.9 bits (221), Expect = 2e-18
 Identities = 30/135 (22%), Positives = 53/135 (39%), Gaps = 6/135 (4%)

Query: 488 PEIQNWRNVRRMSLMKNKIENLSETPT---CPHLLSLFLSDNSLKMSTDDFFQSMPSLRV 544
                   +  +    + ++ +SE        +L+ L +S    +++ +  F  + SL V
Sbjct: 390 SNFLGLEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDISHTHTRVAFNGIFNGLSSLEV 449

Query: 545 FNMSNNHLLWKLPSGI-STLVSLEHLDLSSTAITHL-PIELQKLVNLKCLNLEYMNNLNQ 602
             M+ N         I + L +L  LDLS   +  L P     L +L+ LN+ + NN   
Sbjct: 450 LKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMSH-NNFFS 508

Query: 603 FPRLVISAFSKLQVL 617
                    + LQVL
Sbjct: 509 LDTFPYKCLNSLQVL 523

>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 = 78.9 bits (195), Expect = 2e-15
 Identities = 49/244 (20%), Positives = 89/244 (36%), Gaps = 19/244 (7%)

Query: 481 GLGLTEAPEIQNWRNVRRMSLMKNKIENLSET--PTCPHLLSLFLSDNSLKMSTDDFFQS 538
            L   + P+     + + + L  N + +L      + P L  L LS   ++   D  +QS
Sbjct: 16  ELNFYKIPD-NLPFSTKNLDLSFNPLRHLGSYSFFSFPELQVLDLSRCEIQTIEDGAYQS 74

Query: 539 MPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSSTAITHL-PIELQKLVNLKCLNLEYM 597
           +  L    ++ N +        S L SL+ L    T +  L    +  L  LK LN+ + 
Sbjct: 75  LSHLSTLILTGNPIQSLALGAFSGLSSLQKLVAVETNLASLENFPIGHLKTLKELNVAH- 133

Query: 598 NNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKINVLFGGHQFLVEELMGMKHLMVLTI 657
           N +  F       FS L  L   D   +KI+ +              +L  +  + +L +
Sbjct: 134 NLIQSFKLP--EYFSNLTNLEHLDLSSNKIQSIY-----------CTDLRVLHQMPLLNL 180

Query: 658 TLK-SWQALKELLISQELQRSTQSLFLRCFNDSKSLDIFCLAGLRNLNKLYVAGCKHLED 716
           +L  S   +  +      +     L LR   DS ++   C+ GL  L    +   +   +
Sbjct: 181 SLDLSLNPMNFIQPGAFKEIRLHKLTLRNNFDSLNVMKTCIQGLAGLEVHRLVLGEFRNE 240

Query: 717 SQMT 720
             + 
Sbjct: 241 GNLE 244

>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 = 70.1 bits (172), Expect = 1e-12
 Identities = 53/252 (21%), Positives = 82/252 (32%), Gaps = 39/252 (15%)

Query: 490 IQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSM---------- 539
                NV   SL+   IE + +         L L +           +S+          
Sbjct: 278 FNCLTNVSSFSLVSVTIERVKDFSYNFGWQHLELVNCKFGQFPTLKLKSLKRLTFTSNKG 337

Query: 540 ---------PSLRVFNMSNNHLLWK--LPSGISTLVSLEHLDLSSTAITHLPIELQKLVN 588
                    PSL   ++S N L +K           SL++LDLS   +  +      L  
Sbjct: 338 GNAFSEVDLPSLEFLDLSRNGLSFKGCCSQSDFGTTSLKYLDLSFNGVITMSSNFLGLEQ 397

Query: 589 LKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKINVLFGGHQFLVEELMG 648
           L+ L+ ++ +NL Q      S F  L+ L   D   +       N +F G   L    M 
Sbjct: 398 LEHLDFQH-SNLKQMSEF--SVFLSLRNLIYLDISHTHTRVA-FNGIFNGLSSLEVLKMA 453

Query: 649 MKHLM--VLTITLKSWQALKELLIS----QELQRST-------QSLFLRCFNDSKSLDIF 695
                   L       + L  L +S    ++L  +        Q L +   N+  SLD F
Sbjct: 454 GNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMS-HNNFFSLDTF 512

Query: 696 CLAGLRNLNKLY 707
               L +L  L 
Sbjct: 513 PYKCLNSLQVLD 524

>3fxi_A TLR4, htoll, TOLL-like receptor 4; leucine rich repeat, glycoprotein, immune response, inflamma response, innate immunity, membrane, receptor; HET: PA1 KDO GMH FTT DAO MYR NAG GCS; 3.10A {Homo sapiens} Length = 605

 Score = 62.0 bits (151), Expect = 4e-10
 Identities = 28/88 (31%), Positives = 39/88 (44%), Gaps = 3/88 (3%)

Query: 515 CPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSST 574
             +L  L LS   L+  +   F S+ SL+V NMS+N+           L SL+ LD S  
Sbjct: 469 LRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMSHNNFFSLDTFPYKCLNSLQVLDYSLN 528

Query: 575 AITHLPIE-LQKLV-NLKCLNLEYMNNL 600
            I     + LQ    +L  LNL   N+ 
Sbjct: 529 HIMTSKKQELQHFPSSLAFLNLTQ-NDF 555

>3fxi_A TLR4, htoll, TOLL-like receptor 4; leucine rich repeat, glycoprotein, immune response, inflamma response, innate immunity, membrane, receptor; HET: PA1 KDO GMH FTT DAO MYR NAG GCS; 3.10A {Homo sapiens} Length = 605

 Score = 54.3 bits (131), Expect = 9e-08
 Identities = 21/122 (17%), Positives = 45/122 (36%), Gaps = 5/122 (4%)

Query: 500 SLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHL---LWKL 556
           ++MK  I+ L+       +L  F ++ +L+       + + +L +      +L   L  +
Sbjct: 215 NVMKTCIQGLAGLEVHRLVLGEFRNEGNLEKFDKSALEGLCNLTIEEFRLAYLDYYLDDI 274

Query: 557 PSGISTLVSLEHLDLSSTAITHLPIELQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQV 616
               + L ++    L S  I  +  +       + L L       QFP L + +  +L  
Sbjct: 275 IDLFNCLTNVSSFSLVSVTIERVK-DFSYNFGWQHLELVN-CKFGQFPTLKLKSLKRLTF 332

Query: 617 LR 618
             
Sbjct: 333 TS 334

>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 = 54.3 bits (131), Expect = 1e-07
 Identities = 21/88 (23%), Positives = 39/88 (44%), Gaps = 3/88 (3%)

Query: 489 EIQNWRNVRRMSLMKNKIENLSET--PTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFN 546
                RN+  + L + ++E LS T   +   L  L +S N+        ++ + SL+V +
Sbjct: 465 IFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMSHNNFFSLDTFPYKCLNSLQVLD 524

Query: 547 MSNNHLLWKLPSGISTLV-SLEHLDLSS 573
            S NH++      +     SL  L+L+ 
Sbjct: 525 YSLNHIMTSKKQELQHFPSSLAFLNLTQ 552

>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 = 86.2 bits (214), Expect = 2e-18
 Identities = 45/260 (17%), Positives = 76/260 (29%), Gaps = 31/260 (11%)

Query: 468 KIEKEKENFLVHAGLGLTEAPEIQNWRNVRRMSLMKNKIENLSETP------TCPHLLSL 521
                   +  H               N     +       L  T       T P  ++L
Sbjct: 27  PYHDVLSQWQRHYNADRNRWHSAWRQANSNNPQIETRTGRALKATADLLEDATQPGRVAL 86

Query: 522 FLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSSTAITHLPI 581
            L    L    D  F+ +  L+   +    L+ +LP  +     LE L L+   +  LP 
Sbjct: 87  ELRSVPLPQFPDQAFR-LSHLQHMTIDAAGLM-ELPDTMQQFAGLETLTLARNPLRALPA 144

Query: 582 ELQKLVNLKCLNLEYMNNLNQFPR-----LVISAFSKLQVLRMFDCGGSKIERLKINVLF 636
            +  L  L+ L++     L + P              L  L+      + I         
Sbjct: 145 SIASLNRLRELSIRACPELTELPEPLASTDASGEHQGLVNLQSLRLEWTGIRS------- 197

Query: 637 GGHQFLVEELMGMKHLMVLTITLKSWQALKELLISQELQRSTQSLFLRCFNDSKSL-DIF 695
                L   +  +++L  L I       L  L  +       + L LR     ++   IF
Sbjct: 198 -----LPASIANLQNLKSLKI---RNSPLSALGPAIHHLPKLEELDLRGCTALRNYPPIF 249

Query: 696 CLAGLRNLNKLYVAGCKHLE 715
              G   L +L +  C +L 
Sbjct: 250 G--GRAPLKRLILKDCSNLL 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 = 76.1 bits (188), Expect = 3e-15
 Identities = 28/141 (19%), Positives = 56/141 (39%), Gaps = 4/141 (2%)

Query: 484 LTEAPEIQNWRNVRRMSLMKNKIENL-SETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSL 542
              + E Q   N++ + L    I +L +      +L SL + ++ L          +P L
Sbjct: 173 TDASGEHQGLVNLQSLRLEWTGIRSLPASIANLQNLKSLKIRNSPLSALGPAIHH-LPKL 231

Query: 543 RVFNMSNNHLLWKLPSGISTLVSLEHLDLSS-TAITHLPIELQKLVNLKCLNLEYMNNLN 601
              ++     L   P        L+ L L   + +  LP+++ +L  L+ L+L    NL+
Sbjct: 232 EELDLRGCTALRNYPPIFGGRAPLKRLILKDCSNLLTLPLDIHRLTQLEKLDLRGCVNLS 291

Query: 602 QFPRLVISAFSKLQVLRMFDC 622
           + P L I+      ++ +   
Sbjct: 292 RLPSL-IAQLPANCIILVPPH 311

>4fcg_A Uncharacterized protein; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, LRR, N- and C-terminal helices; 2.00A {Xanthomonas campestris PV} Length = 328

 Score = 74.6 bits (184), Expect = 1e-14
 Identities = 51/265 (19%), Positives = 87/265 (32%), Gaps = 34/265 (12%)

Query: 463 LWIACKIEKEKENFLVHAGL-GLTEAPEIQNWRNVRRMSLMKNKIENL-SETPTCPHLLS 520
            W        +        L    +  E         + L    +     +     HL  
Sbjct: 49  AWRQANSNNPQIETRTGRALKATADLLEDATQPGRVALELRSVPLPQFPDQAFRLSHLQH 108

Query: 521 LFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSST-AITHL 579
           + +    L     D  Q    L    ++ N L   LP+ I++L  L  L + +   +T L
Sbjct: 109 MTIDAAGLM-ELPDTMQQFAGLETLTLARNPLR-ALPASIASLNRLRELSIRACPELTEL 166

Query: 580 P---------IELQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFDCGGSKIERL 630
           P          E Q LVNL+ L LE+   +   P    ++ + LQ L+      S +  L
Sbjct: 167 PEPLASTDASGEHQGLVNLQSLRLEW-TGIRSLP----ASIANLQNLKSLKIRNSPLSAL 221

Query: 631 KINVLFGGHQFLVEELMGMKHLMVLTITLKSWQALKELLISQELQRSTQSLFLRCFNDSK 690
                          +  +  L  L   L+   AL+        +   + L L+  ++  
Sbjct: 222 ------------GPAIHHLPKLEELD--LRGCTALRNYPPIFGGRAPLKRLILKDCSNLL 267

Query: 691 SLDIFCLAGLRNLNKLYVAGCKHLE 715
           +L    +  L  L KL + GC +L 
Sbjct: 268 TLP-LDIHRLTQLEKLDLRGCVNLS 291

>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 = 73.8 bits (182), Expect = 2e-14
 Identities = 36/155 (23%), Positives = 59/155 (38%), Gaps = 17/155 (10%)

Query: 488 PEIQNWRNVRRMSLMK-NKIENL----------SETPTCPHLLSLFLSDNSLKMSTDDFF 536
             I +   +R +S+    ++  L           E     +L SL L    ++       
Sbjct: 144 ASIASLNRLRELSIRACPELTELPEPLASTDASGEHQGLVNLQSLRLEWTGIRSLPASIA 203

Query: 537 QSMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSS-TAITHLPIELQKLVNLKCLNLE 595
             + +L+   + N+ L   L   I  L  LE LDL   TA+ + P        LK L L+
Sbjct: 204 N-LQNLKSLKIRNSPLS-ALGPAIHHLPKLEELDLRGCTALRNYPPIFGGRAPLKRLILK 261

Query: 596 YMNNLNQFPRLVISAFSKLQVLRMFDCGGSKIERL 630
             +NL   P   I   ++L+ L +  C    + RL
Sbjct: 262 DCSNLLTLPL-DIHRLTQLEKLDLRGC--VNLSRL 293

>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 = 47.2 bits (113), Expect = 9e-06
 Identities = 17/98 (17%), Positives = 31/98 (31%), Gaps = 2/98 (2%)

Query: 488 PEIQNWRNVRRMSLMK-NKIENLSETPT-CPHLLSLFLSDNSLKMSTDDFFQSMPSLRVF 545
           P I +   +  + L     + N          L  L L D S  ++       +  L   
Sbjct: 223 PAIHHLPKLEELDLRGCTALRNYPPIFGGRAPLKRLILKDCSNLLTLPLDIHRLTQLEKL 282

Query: 546 NMSNNHLLWKLPSGISTLVSLEHLDLSSTAITHLPIEL 583
           ++     L +LPS I+ L +   + +       L    
Sbjct: 283 DLRGCVNLSRLPSLIAQLPANCIILVPPHLQAQLDQHR 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 = 43.4 bits (103), Expect = 2e-04
 Identities = 25/187 (13%), Positives = 47/187 (25%), Gaps = 27/187 (14%)

Query: 531 STDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSSTAITHLPIELQKLVNLK 590
           S+                 +  L      +S      + D +     H         N +
Sbjct: 3   SSHHHHHHSSGRENLYFQGSTALRPYHDVLSQWQRHYNADRN---RWHSAWRQANSNNPQ 59

Query: 591 CLNLEYMNNLNQFPR-LVISAFSKLQVLRMFDCGGSKIERLKINVLFGGHQFLVEELMGM 649
                    L      L  +       L   +     + +              ++   +
Sbjct: 60  IETRTG-RALKATADLLEDATQPGRVAL---ELRSVPLPQFP------------DQAFRL 103

Query: 650 KHLMVLTITLKSWQALKELLISQELQRSTQSLFLRCFNDSKSL-DIFCLAGLRNLNKLYV 708
            HL  +TI       L EL  + +     ++L L   N  ++L        L  L +L +
Sbjct: 104 SHLQHMTI---DAAGLMELPDTMQQFAGLETLTLAR-NPLRALPASIA--SLNRLRELSI 157

Query: 709 AGCKHLE 715
             C  L 
Sbjct: 158 RACPELT 164

>3vq2_A TLR4, TOLL-like receptor 4; leucine rich repeat MD-2 related lipid recognition, receptor immunity, lipid binding, glycosylation, secreted, immune SY; HET: NAG LP4 LP5 DAO MYR; 2.48A {Mus musculus} PDB: 3vq1_A* 2z64_A* Length = 606

 Score = 88.6 bits (220), Expect = 2e-18
 Identities = 27/135 (20%), Positives = 49/135 (36%), Gaps = 6/135 (4%)

Query: 488 PEIQNWRNVRRMSLMKNKIENLSETPT---CPHLLSLFLSDNSLKMSTDDFFQSMPSLRV 544
                   ++ +    + ++ ++E         LL L +S  + K+  D  F  + SL  
Sbjct: 393 ANFMGLEELQHLDFQHSTLKRVTEFSAFLSLEKLLYLDISYTNTKIDFDGIFLGLTSLNT 452

Query: 545 FNMSNNHLLWKLPSGI-STLVSLEHLDLSSTAITHLPIE-LQKLVNLKCLNLEYMNNLNQ 602
             M+ N       S + +   +L  LDLS   +  +       L  L+ LN+ + NNL  
Sbjct: 453 LKMAGNSFKDNTLSNVFANTTNLTFLDLSKCQLEQISWGVFDTLHRLQLLNMSH-NNLLF 511

Query: 603 FPRLVISAFSKLQVL 617
                 +    L  L
Sbjct: 512 LDSSHYNQLYSLSTL 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 = 82.4 bits (204), Expect = 2e-16
 Identities = 41/223 (18%), Positives = 81/223 (36%), Gaps = 13/223 (5%)

Query: 494 RNVRRMSLMKNKIENLSET--PTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNH 551
            + + + L  N ++ L          L  L LS   ++   D  +  +  L    ++ N 
Sbjct: 32  SSTKNIDLSFNPLKILKSYSFSNFSELQWLDLSRCEIETIEDKAWHGLHHLSNLILTGNP 91

Query: 552 LLWKLPSGISTLVSLEHLDLSSTAITHLP-IELQKLVNLKCLNLEYMNNLNQFPRLVISA 610
           +    P   S L SLE+L    T +  L    + +L+ LK LN+ + N ++     + + 
Sbjct: 92  IQSFSPGSFSGLTSLENLVAVETKLASLESFPIGQLITLKKLNVAH-NFIHSCK--LPAY 148

Query: 611 FSKLQVLRMFDCGGSKIERLK---INVLFGGHQFLVEELMGMKHLMVLTITLKSWQALKE 667
           FS L  L   D   + I+ +    +  L    Q  +   M +  +  +         L E
Sbjct: 149 FSNLTNLVHVDLSYNYIQTITVNDLQFLRENPQVNLSLDMSLNPIDFIQDQAFQGIKLHE 208

Query: 668 LLISQELQRSTQSLFLRCFNDSKSLDIFCLAG--LRNLNKLYV 708
           L +       + ++   C  +   L +  L     ++   L +
Sbjct: 209 LTLRGNFN--SSNIMKTCLQNLAGLHVHRLILGEFKDERNLEI 249

>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 = 78.5 bits (194), Expect = 2e-15
 Identities = 42/232 (18%), Positives = 81/232 (34%), Gaps = 27/232 (11%)

Query: 484 LTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLR 543
           +    ++      + +S+++ +++        P L SL L+ N   +S      ++PSL 
Sbjct: 297 IKYLEDVPKHFKWQSLSIIRCQLKQFPTL-DLPFLKSLTLTMNKGSISFK--KVALPSLS 353

Query: 544 VFNMSNNHLLWKLPSGI---STLVSLEHLDLSSTAITHLPIELQKLVNLKCLNLEYMNNL 600
             ++S N L               SL HLDLS      +      L  L+ L+ ++ + L
Sbjct: 354 YLDLSRNAL-SFSGCCSYSDLGTNSLRHLDLSFNGAIIMSANFMGLEELQHLDFQH-STL 411

Query: 601 NQFPRLVISAFSKLQVLRMFDCGGSKIERLKINVLFGGHQFLVEELMGMKHLMVLTITLK 660
            +      SAF  L+ L   D   +  +     +             G+  L  L +   
Sbjct: 412 KRVTE--FSAFLSLEKLLYLDISYTNTKIDFDGIFL-----------GLTSLNTLKM--- 455

Query: 661 SWQALKELLISQELQRST--QSLFLRCFNDSKSLDIFCLAGLRNLNKLYVAG 710
           +  + K+  +S     +T    L L      + +       L  L  L ++ 
Sbjct: 456 AGNSFKDNTLSNVFANTTNLTFLDLS-KCQLEQISWGVFDTLHRLQLLNMSH 506

>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 = 73.5 bits (181), Expect = 1e-13
 Identities = 45/229 (19%), Positives = 73/229 (31%), Gaps = 50/229 (21%)

Query: 490 IQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSN 549
                NV  MSL    I+ L + P      SL +    L          +P L+   ++ 
Sbjct: 281 FHCLANVSAMSLAGVSIKYLEDVPKHFKWQSLSIIRCQL---KQFPTLDLPFLKSLTLTM 337

Query: 550 NHLLWKLPSGISTLVSLEHLDLSSTAITHLP---IELQKLVNLKCLNLEYMNNLNQFPRL 606
           N     +      L SL +LDLS  A++             +L+ L+L + N        
Sbjct: 338 NKG--SISFKKVALPSLSYLDLSRNALSFSGCCSYSDLGTNSLRHLDLSF-NGAIIMS-- 392

Query: 607 VISAFSKLQVLRMFDCGGSKIERLKINVLFGGHQFLVEELMGMKHLMVLTITLKSWQALK 666
             + F  L+ L+  D   S ++R+     F                          + L 
Sbjct: 393 --ANFMGLEELQHLDFQHSTLKRVTEFSAFLS-----------------------LEKLL 427

Query: 667 ELLISQELQRSTQSLFLRCFNDSKSLDIFCLAGLRNLNKLYVAGCKHLE 715
            L IS              + ++K        GL +LN L +AG    +
Sbjct: 428 YLDIS--------------YTNTKIDFDGIFLGLTSLNTLKMAGNSFKD 462

>3vq2_A TLR4, TOLL-like receptor 4; leucine rich repeat MD-2 related lipid recognition, receptor immunity, lipid binding, glycosylation, secreted, immune SY; HET: NAG LP4 LP5 DAO MYR; 2.48A {Mus musculus} PDB: 3vq1_A* 2z64_A* Length = 606

 Score = 67.4 bits (165), Expect = 8e-12
 Identities = 28/102 (27%), Positives = 46/102 (45%), Gaps = 5/102 (4%)

Query: 504 NKIENLSETPT---CPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGI 560
           N  ++ + +       +L  L LS   L+  +   F ++  L++ NMS+N+LL+   S  
Sbjct: 458 NSFKDNTLSNVFANTTNLTFLDLSKCQLEQISWGVFDTLHRLQLLNMSHNNLLFLDSSHY 517

Query: 561 STLVSLEHLDLSSTAITHLPIELQK-LVNLKCLNLEYMNNLN 601
           + L SL  LD S   I      LQ    +L   NL   N++ 
Sbjct: 518 NQLYSLSTLDCSFNRIETSKGILQHFPKSLAFFNLTN-NSVA 558

>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 = 60.8 bits (148), Expect = 1e-09
 Identities = 21/127 (16%), Positives = 51/127 (40%), Gaps = 7/127 (5%)

Query: 495 NVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRV--FNMSNNHL 552
           N    ++MK  ++NL+       +L  F  + +L++      + +  + +  F ++  + 
Sbjct: 214 NFNSSNIMKTCLQNLAGLHVHRLILGEFKDERNLEIFEPSIMEGLCDVTIDEFRLTYTND 273

Query: 553 LWKLPSGISTLVSLEHLDLSSTAITHLPIELQKLVNLKCLNLEYMNNLNQFPRLVISAFS 612
                     L ++  + L+  +I +L  ++ K    + L++     L QFP        
Sbjct: 274 FSDDIVKFHCLANVSAMSLAGVSIKYLE-DVPKHFKWQSLSIIR-CQLKQFP---TLDLP 328

Query: 613 KLQVLRM 619
            L+ L +
Sbjct: 329 FLKSLTL 335

>3o6n_A APL1; leucine-rich repeat, protein binding; HET: NAG; 1.85A {Anopheles gambiae} Length = 390

 Score = 86.3 bits (214), Expect = 3e-18
 Identities = 30/128 (23%), Positives = 51/128 (39%), Gaps = 5/128 (3%)

Query: 494 RNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLL 553
             +  + L  N + + +     P L+ + LS N L+      F  M  L    +SNN  L
Sbjct: 226 VELTILKLQHNNLTDTAWLLNYPGLVEVDLSYNELEKIMYHPFVKMQRLERLYISNNR-L 284

Query: 554 WKLPSGISTLVSLEHLDLSSTAITHLPIELQKLVNLKCLNLEYMNNLNQFPRLVISAFSK 613
             L      + +L+ LDLS   + H+     +   L+ L L++    N    L +S    
Sbjct: 285 VALNLYGQPIPTLKVLDLSHNHLLHVERNQPQFDRLENLYLDH----NSIVTLKLSTHHT 340

Query: 614 LQVLRMFD 621
           L+ L +  
Sbjct: 341 LKNLTLSH 348

>3o6n_A APL1; leucine-rich repeat, protein binding; HET: NAG; 1.85A {Anopheles gambiae} Length = 390

 Score = 80.5 bits (199), Expect = 3e-16
 Identities = 50/257 (19%), Positives = 93/257 (36%), Gaps = 50/257 (19%)

Query: 494 RNVRRMSLMKNKIENLSET--PTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNH 551
             ++++ +  N I  L        P L  L L  N L       F + P L   +MSNN+
Sbjct: 93  HTIQKLYMGFNAIRYLPPHVFQNVPLLTVLVLERNDLSSLPRGIFHNTPKLTTLSMSNNN 152

Query: 552 LLWKLPSGI-STLVSLEHLDLSSTAITHLPI-----------------ELQKLVNLKCLN 593
           L  ++         SL++L LSS  +TH+ +                  L   + ++ L+
Sbjct: 153 LE-RIEDDTFQATTSLQNLQLSSNRLTHVDLSLIPSLFHANVSYNLLSTLAIPIAVEELD 211

Query: 594 LEYMNNLNQFPRLV----------------ISAFSKLQVLRMFDCGGSKIERLKINVLFG 637
             + N++N     V                 +       L   D   +++E++  +  F 
Sbjct: 212 ASH-NSINVVRGPVNVELTILKLQHNNLTDTAWLLNYPGLVEVDLSYNELEKIMYHP-FV 269

Query: 638 GHQFLVEELMGMKHLMVLTITLKSWQALKELLIS----QELQRST------QSLFLRCFN 687
             Q L    +    L+ L +  +    LK L +S      ++R+       ++L+L   N
Sbjct: 270 KMQRLERLYISNNRLVALNLYGQPIPTLKVLDLSHNHLLHVERNQPQFDRLENLYLD-HN 328

Query: 688 DSKSLDIFCLAGLRNLN 704
              +L +     L+NL 
Sbjct: 329 SIVTLKLSTHHTLKNLT 345

>3o6n_A APL1; leucine-rich repeat, protein binding; HET: NAG; 1.85A {Anopheles gambiae} Length = 390

 Score = 77.4 bits (191), Expect = 3e-15
 Identities = 33/140 (23%), Positives = 63/140 (45%), Gaps = 9/140 (6%)

Query: 484 LTEAPEIQNWRNVRRMSLMKNKIENLSET--PTCPHLLSLFLSDNSLKMSTDDFFQSMPS 541
           LT+   + N+  +  + L  N++E +          L  L++S+N L  + + + Q +P+
Sbjct: 238 LTDTAWLLNYPGLVEVDLSYNELEKIMYHPFVKMQRLERLYISNNRLV-ALNLYGQPIPT 296

Query: 542 LRVFNMSNNHLLWKLPSGISTLVSLEHLDLSSTAITHLPIELQKLVNLKCLNLEYMNNLN 601
           L+V ++S+NHLL  +         LE+L L   +I  L +       LK L L + N+ +
Sbjct: 297 LKVLDLSHNHLL-HVERNQPQFDRLENLYLDHNSIVTLKLST--HHTLKNLTLSH-NDWD 352

Query: 602 QFPRLVISAFSKLQVLRMFD 621
                 +  F  +    + D
Sbjct: 353 CNSLRAL--FRNVARPAVDD 370

>3o6n_A APL1; leucine-rich repeat, protein binding; HET: NAG; 1.85A {Anopheles gambiae} Length = 390

 Score = 69.7 bits (171), Expect = 8e-13
 Identities = 29/205 (14%), Positives = 66/205 (32%), Gaps = 33/205 (16%)

Query: 516 PHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGI-STLVSLEHLDLSST 574
            +   +   +++++        S   + + N+++  +  ++ +   +   +++ L +   
Sbjct: 45  NNQKIVTFKNSTMRKLPAALLDSFRQVELLNLNDLQIE-EIDTYAFAYAHTIQKLYMGFN 103

Query: 575 AITHLPIE-LQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKIN 633
           AI +LP    Q +  L  L LE  N+L+  PR     F     L       + +ER++ +
Sbjct: 104 AIRYLPPHVFQNVPLLTVLVLER-NDLSSLPR---GIFHNTPKLTTLSMSNNNLERIEDD 159

Query: 634 VLFGGHQFLVEELMGMKHLMVL--------TITLKSWQALKELLISQ------ELQRSTQ 679
                             L  L         + L    +L    +S        +  + +
Sbjct: 160 T-----------FQATTSLQNLQLSSNRLTHVDLSLIPSLFHANVSYNLLSTLAIPIAVE 208

Query: 680 SLFLRCFNDSKSLDIFCLAGLRNLN 704
            L     N    +       L  L 
Sbjct: 209 ELDAS-HNSINVVRGPVNVELTILK 232

>3o6n_A APL1; leucine-rich repeat, protein binding; HET: NAG; 1.85A {Anopheles gambiae} Length = 390

 Score = 57.7 bits (140), Expect = 5e-09
 Identities = 31/199 (15%), Positives = 65/199 (32%), Gaps = 42/199 (21%)

Query: 521 LFLSDNSLKMSTDDFFQ-----SMPSLRVFNMSNNHLLWKLPSGI-STLVSLEHLDLSST 574
               D  + M T D +      ++ + ++    N+ +  KLP+ +  +   +E L+L+  
Sbjct: 21  CVFYDVHIDMQTQDVYFGFEDITLNNQKIVTFKNSTMR-KLPAALLDSFRQVELLNLNDL 79

Query: 575 AITHLPIE-LQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKIN 633
            I  +          ++ L + + N +   P      F  + +L +     + +  L   
Sbjct: 80  QIEEIDTYAFAYAHTIQKLYMGF-NAIRYLPP---HVFQNVPLLTVLVLERNDLSSLPRG 135

Query: 634 VLFGGHQFLVEELMGMKHLMVL--------TITLKSWQALKELLISQELQRSTQSLFLRC 685
           +                 L  L         I   ++QA   L          Q+L L  
Sbjct: 136 I-----------FHNTPKLTTLSMSNNNLERIEDDTFQATTSL----------QNLQLS- 173

Query: 686 FNDSKSLDIFCLAGLRNLN 704
            N    +D+  +  L + N
Sbjct: 174 SNRLTHVDLSLIPSLFHAN 192

>3o6n_A APL1; leucine-rich repeat, protein binding; HET: NAG; 1.85A {Anopheles gambiae} Length = 390

 Score = 47.7 bits (114), Expect = 8e-06
 Identities = 15/101 (14%), Positives = 31/101 (30%), Gaps = 5/101 (4%)

Query: 531 STDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSSTAITHLPIE-LQKLVNL 589
             D   Q        ++              TL + + +   ++ +  LP   L     +
Sbjct: 12  CIDSNLQYDCVFYDVHIDMQTQDVYFGFEDITLNNQKIVTFKNSTMRKLPAALLDSFRQV 71

Query: 590 KCLNLEYMNNLNQFPRLVISAFSKLQVLRMFDCGGSKIERL 630
           + LNL     + +       AF+    ++    G + I  L
Sbjct: 72  ELLNLND-LQIEEIDT---YAFAYAHTIQKLYMGFNAIRYL 108

>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 = 87.5 bits (217), Expect = 4e-18
 Identities = 30/144 (20%), Positives = 56/144 (38%), Gaps = 10/144 (6%)

Query: 488 PEIQNWRNVRRMSLMKNKIENLSETPT---CPHLLSLFLSDNSLKMSTDDFFQSMPSLRV 544
                   +  +    + ++ +SE        +L+ L +S    +++ +  F  + SL V
Sbjct: 390 SNFLGLEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDISHTHTRVAFNGIFNGLSSLEV 449

Query: 545 FNMSNNHLLWKLPSGI-STLVSLEHLDLSSTAITHLPIE-LQKLVNLKCLNLEYMNNLNQ 602
             M+ N         I + L +L  LDLS   +  L       L +L+ LN+   N L  
Sbjct: 450 LKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMAS-NQLKS 508

Query: 603 FPRLVISAFSKLQVLRM----FDC 622
            P  +    + LQ + +    +DC
Sbjct: 509 VPDGIFDRLTSLQKIWLHTNPWDC 532

>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 = 76.7 bits (189), Expect = 9e-15
 Identities = 40/210 (19%), Positives = 70/210 (33%), Gaps = 21/210 (10%)

Query: 508 NLSETPTC--PHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVS 565
           N  + P        +L LS N L+      F S P L+V ++S   +         +L  
Sbjct: 18  NFYKIPDNLPFSTKNLDLSFNPLRHLGSYSFFSFPELQVLDLSRCEIQTIEDGAYQSLSH 77

Query: 566 LEHLDLSSTAITHLPIE-LQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFDCGG 624
           L  L L+   I  L +     L +L+ L      NL       I     L+ L +     
Sbjct: 78  LSTLILTGNPIQSLALGAFSGLSSLQKLVAVE-TNLASLENFPIGHLKTLKELNV---AH 133

Query: 625 SKIERLKINVLFGGHQFLVEELMGMKHLMVLTITLKSWQALKELLIS--QELQRSTQSLF 682
           + I+  K+   F            + +L  L ++    Q++    +    ++     SL 
Sbjct: 134 NLIQSFKLPEYFS----------NLTNLEHLDLSSNKIQSIYCTDLRVLHQMPLLNLSLD 183

Query: 683 LRCFNDSKSLDIFCLAGLRNLNKLYVAGCK 712
           L   N    +       +  L+KL +    
Sbjct: 184 LSL-NPMNFIQPGAFKEI-RLHKLTLRNNF 211

>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 = 75.1 bits (185), Expect = 3e-14
 Identities = 37/220 (16%), Positives = 80/220 (36%), Gaps = 16/220 (7%)

Query: 494 RNVRRMSLMKNKIENLSET--PTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNH 551
             ++ + L + +I+ + +    +  HL +L L+ N ++      F  + SL+       +
Sbjct: 52  PELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNPIQSLALGAFSGLSSLQKLVAVETN 111

Query: 552 LLWKLPSG-ISTLVSLEHLDLSSTAITHLPI--ELQKLVNLKCLNLEYMNNLNQFPRLVI 608
           L   L +  I  L +L+ L+++   I    +      L NL+ L+L   N +       +
Sbjct: 112 L-ASLENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSS-NKIQSIYCTDL 169

Query: 609 SAFSKLQVLRMF-DCGGSKIERLKINVLFGGHQFLVEELMGMKHLMVLTITLKSWQALKE 667
               ++ +L +  D   + +  ++        +  + +L    +   L +     Q L  
Sbjct: 170 RVLHQMPLLNLSLDLSLNPMNFIQPGAF---KEIRLHKLTLRNNFDSLNVMKTCIQGLAG 226

Query: 668 LLISQELQRSTQSLFLRCFNDSKSLDIFCLAGLRNLNKLY 707
           L +             R   + +  D   L GL NL    
Sbjct: 227 LEVH-----RLVLGEFRNEGNLEKFDKSALEGLCNLTIEE 261

>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 = 7e-14
 Identities = 45/252 (17%), Positives = 82/252 (32%), Gaps = 37/252 (14%)

Query: 481 GLGLTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMP 540
            + +    +       + + L+  K            L  L  + N    +       +P
Sbjct: 291 SVTIERVKDFSYNFGWQHLELVNCKFGQFPTLK-LKSLKRLTFTSNKGGNAFS--EVDLP 347

Query: 541 SLRVFNMSNNHLLWK--LPSGISTLVSLEHLDLSSTAITHLPIELQKLVNLKCLNLEYMN 598
           SL   ++S N L +K           SL++LDLS   +  +      L  L+ L+ ++ +
Sbjct: 348 SLEFLDLSRNGLSFKGCCSQSDFGTTSLKYLDLSFNGVITMSSNFLGLEQLEHLDFQH-S 406

Query: 599 NLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKINVLFGGHQFLVEELMGMKHL------ 652
           NL Q      S F  L+ L   D   +        +  G        L  ++ L      
Sbjct: 407 NLKQMSEF--SVFLSLRNLIYLDISHTHTRVAFNGIFNG--------LSSLEVLKMAGNS 456

Query: 653 ---MVLTITLKSWQALKELLIS----QELQRST-------QSLFLRCFNDSKSLDIFCLA 698
                L       + L  L +S    ++L  +        Q L +   N  KS+      
Sbjct: 457 FQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMA-SNQLKSVPDGIFD 515

Query: 699 GLRNLNKLYVAG 710
            L +L K+++  
Sbjct: 516 RLTSLQKIWLHT 527

>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 = 84.6 bits (209), Expect = 4e-17
 Identities = 30/128 (23%), Positives = 51/128 (39%), Gaps = 5/128 (3%)

Query: 494 RNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLL 553
             +  + L  N + + +     P L+ + LS N L+      F  M  L    +SNN  L
Sbjct: 232 VELTILKLQHNNLTDTAWLLNYPGLVEVDLSYNELEKIMYHPFVKMQRLERLYISNNR-L 290

Query: 554 WKLPSGISTLVSLEHLDLSSTAITHLPIELQKLVNLKCLNLEYMNNLNQFPRLVISAFSK 613
             L      + +L+ LDLS   + H+     +   L+ L L++    N    L +S    
Sbjct: 291 VALNLYGQPIPTLKVLDLSHNHLLHVERNQPQFDRLENLYLDH----NSIVTLKLSTHHT 346

Query: 614 LQVLRMFD 621
           L+ L +  
Sbjct: 347 LKNLTLSH 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 = 77.3 bits (190), Expect = 6e-15
 Identities = 34/141 (24%), Positives = 64/141 (45%), Gaps = 9/141 (6%)

Query: 484 LTEAPEIQNWRNVRRMSLMKNKIENLSETP--TCPHLLSLFLSDNSLKMSTDDFFQSMPS 541
           LT+   + N+  +  + L  N++E +   P      L  L++S+N L  + + + Q +P+
Sbjct: 244 LTDTAWLLNYPGLVEVDLSYNELEKIMYHPFVKMQRLERLYISNNRLV-ALNLYGQPIPT 302

Query: 542 LRVFNMSNNHLLWKLPSGISTLVSLEHLDLSSTAITHLPIELQKLVNLKCLNLEYMNNLN 601
           L+V ++S+NHLL  +         LE+L L   +I  L +       LK L L + N+ +
Sbjct: 303 LKVLDLSHNHLLH-VERNQPQFDRLENLYLDHNSIVTLKLST--HHTLKNLTLSH-NDWD 358

Query: 602 QFPRLVISAFSKLQVLRMFDC 622
                 +  F  +    + D 
Sbjct: 359 CNSLRAL--FRNVARPAVDDA 377

>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 = 76.9 bits (189), Expect = 9e-15
 Identities = 50/257 (19%), Positives = 93/257 (36%), Gaps = 50/257 (19%)

Query: 494 RNVRRMSLMKNKIENLSETP--TCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNH 551
             ++++ +  N I  L        P L  L L  N L       F + P L   +MSNN+
Sbjct: 99  HTIQKLYMGFNAIRYLPPHVFQNVPLLTVLVLERNDLSSLPRGIFHNTPKLTTLSMSNNN 158

Query: 552 LLWKLPSGI-STLVSLEHLDLSSTAITHLPI-----------------ELQKLVNLKCLN 593
           L  ++         SL++L LSS  +TH+ +                  L   + ++ L+
Sbjct: 159 LE-RIEDDTFQATTSLQNLQLSSNRLTHVDLSLIPSLFHANVSYNLLSTLAIPIAVEELD 217

Query: 594 LEYMNNLNQFPRLV----------------ISAFSKLQVLRMFDCGGSKIERLKINVLFG 637
             + N++N     V                 +       L   D   +++E++  +  F 
Sbjct: 218 ASH-NSINVVRGPVNVELTILKLQHNNLTDTAWLLNYPGLVEVDLSYNELEKIMYHP-FV 275

Query: 638 GHQFLVEELMGMKHLMVLTITLKSWQALKELLIS----QELQRST------QSLFLRCFN 687
             Q L    +    L+ L +  +    LK L +S      ++R+       ++L+L   N
Sbjct: 276 KMQRLERLYISNNRLVALNLYGQPIPTLKVLDLSHNHLLHVERNQPQFDRLENLYLD-HN 334

Query: 688 DSKSLDIFCLAGLRNLN 704
              +L +     L+NL 
Sbjct: 335 SIVTLKLSTHHTLKNLT 351

>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 = 70.7 bits (173), Expect = 8e-13
 Identities = 23/133 (17%), Positives = 53/133 (39%), Gaps = 8/133 (6%)

Query: 514 TCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGI-STLVSLEHLDLS 572
           T  +   +   +++++        S   + + N+++  +  ++ +   +   +++ L + 
Sbjct: 49  TLNNQKIVTFKNSTMRKLPAALLDSFRQVELLNLNDLQIE-EIDTYAFAYAHTIQKLYMG 107

Query: 573 STAITHLPIE-LQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLK 631
             AI +LP    Q +  L  L LE  N+L+  PR     F     L       + +ER++
Sbjct: 108 FNAIRYLPPHVFQNVPLLTVLVLER-NDLSSLPR---GIFHNTPKLTTLSMSNNNLERIE 163

Query: 632 INVLFGGHQFLVE 644
            +  F     L  
Sbjct: 164 DDT-FQATTSLQN 175

>3oja_B Anopheles plasmodium-responsive leucine-rich REPE 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae} Length = 597

 Score = 48.8 bits (116), Expect = 6e-06
 Identities = 19/132 (14%), Positives = 37/132 (28%), Gaps = 32/132 (24%)

Query: 508 NLSETPTCPHLLS--------LFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSG 559
             +  P  P                D  + M T D +     +                 
Sbjct: 6   RYNVKPRQPEYKCIDSNLQYDCVFYDVHIDMQTQDVYFGFEDI----------------- 48

Query: 560 ISTLVSLEHLDLSSTAITHLPIE-LQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLR 618
             TL + + +   ++ +  LP   L     ++ LNL     + +       AF+    ++
Sbjct: 49  --TLNNQKIVTFKNSTMRKLPAALLDSFRQVELLNLND-LQIEEIDT---YAFAYAHTIQ 102

Query: 619 MFDCGGSKIERL 630
               G + I  L
Sbjct: 103 KLYMGFNAIRYL 114

>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 = 82.2 bits (204), Expect = 5e-17
 Identities = 35/240 (14%), Positives = 78/240 (32%), Gaps = 50/240 (20%)

Query: 483 GLTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSL 542
            +     I+   N+  ++L  N+I ++S       L +L++  N +        Q++ +L
Sbjct: 55  KVASIQGIEYLTNLEYLNLNGNQITDISPLSNLVKLTNLYIGTNKITDI--SALQNLTNL 112

Query: 543 RVFNMSNNHLLWKLPSGISTLVSLEHLDLSSTAITHLPIELQKLVNLKCLNLEYMNNLNQ 602
           R   ++ +++     S ++ L  +  L+L +         L  +  L  L +   + +  
Sbjct: 113 RELYLNEDNI--SDISPLANLTKMYSLNLGANHNLSDLSPLSNMTGLNYLTVTE-SKVKD 169

Query: 603 FPRLVISAFSKLQVLRMFDCGGSKIERLKINVLFGGHQFLVEELMGMKHLMVLTIT---- 658
                ++  + L  L       ++IE +               L  +  L   T      
Sbjct: 170 -----VTPIANLTDLYSLSLNYNQIEDI-------------SPLASLTSLHYFTAYVNQI 211

Query: 659 -----LKSWQALKELLISQ-ELQRSTQSLFLRCFNDSKSLDIFCLAGLRNLNKLYVAGCK 712
                + +   L  L I   ++                  D+  LA L  L  L +   +
Sbjct: 212 TDITPVANMTRLNSLKIGNNKIT-----------------DLSPLANLSQLTWLEIGTNQ 254

>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 = 81.0 bits (201), Expect = 1e-16
 Identities = 30/147 (20%), Positives = 61/147 (41%), Gaps = 11/147 (7%)

Query: 484 LTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLR 543
           +T+   + N   +  + +  NKI +LS       L  L +  N +  S  +  + +  L+
Sbjct: 211 ITDITPVANMTRLNSLKIGNNKITDLSPLANLSQLTWLEIGTNQI--SDINAVKDLTKLK 268

Query: 544 VFNMSNNHLLWKLPSGISTLVSLEHLDLSSTAITHLPIE-LQKLVNLKCLNLEYMNNLNQ 602
           + N+ +N +     S ++ L  L  L L++  + +  +E +  L NL  L L   N++  
Sbjct: 269 MLNVGSNQI--SDISVLNNLSQLNSLFLNNNQLGNEDMEVIGGLTNLTTLFLSQ-NHITD 325

Query: 603 FPRLVISAFSKLQVLRMFDCGGSKIER 629
                I   + L  +   D     I++
Sbjct: 326 -----IRPLASLSKMDSADFANQVIKK 347

>4fmz_A Internalin; leucine rich repeat, structural genomic center for structural genomics, JCSG, protein structure INI PSI-biology; HET: MSE; 1.91A {Listeria monocytogenes serotype 4B} Length = 347

 Score = 80.7 bits (200), Expect = 1e-16
 Identities = 37/232 (15%), Positives = 79/232 (34%), Gaps = 36/232 (15%)

Query: 484 LTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLR 543
           +T+    +   ++ ++ +   K+ ++       +L  L L+ N +   +     ++  L 
Sbjct: 34  VTDVVTQEELESITKLVVAGEKVASIQGIEYLTNLEYLNLNGNQITDISP--LSNLVKLT 91

Query: 544 VFNMSNNHLLWKLPSGISTLVSLEHLDLSSTAITHLPIELQKLVNLKCLNLEYMNNLNQF 603
              +  N +     S +  L +L  L L+   I+ +   L  L  +  LNL   N+    
Sbjct: 92  NLYIGTNKI--TDISALQNLTNLRELYLNEDNISDIS-PLANLTKMYSLNLGA-NHNLS- 146

Query: 604 PRLVISAFSKLQVLRMFDCGGSKIERLKINVLFGGHQFLVEELMGMKHLMVLTIT---LK 660
               +S  S +  L       SK++ +               +  +  L  L++    ++
Sbjct: 147 ---DLSPLSNMTGLNYLTVTESKVKDV-------------TPIANLTDLYSLSLNYNQIE 190

Query: 661 SWQALKELLISQELQRSTQSLFLRCFNDSKSLDIFCLAGLRNLNKLYVAGCK 712
               L  L     L              ++  DI  +A +  LN L +   K
Sbjct: 191 DISPLASL---TSL----HYFTA---YVNQITDITPVANMTRLNSLKIGNNK 232

>4fmz_A Internalin; leucine rich repeat, structural genomic center for structural genomics, JCSG, protein structure INI PSI-biology; HET: MSE; 1.91A {Listeria monocytogenes serotype 4B} Length = 347

 Score = 79.1 bits (196), Expect = 5e-16
 Identities = 46/252 (18%), Positives = 90/252 (35%), Gaps = 52/252 (20%)

Query: 484 LTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLR 543
           +T+   +QN  N+R + L ++ I ++S       + SL L  N   +S      +M  L 
Sbjct: 100 ITDISALQNLTNLRELYLNEDNISDISPLANLTKMYSLNLGANHN-LSDLSPLSNMTGLN 158

Query: 544 VFNMSNNHL-----LWKLP---------------SGISTLVSLEHLDLSSTAITHLPIEL 583
              ++ + +     +  L                S +++L SL +       IT +   +
Sbjct: 159 YLTVTESKVKDVTPIANLTDLYSLSLNYNQIEDISPLASLTSLHYFTAYVNQITDIT-PV 217

Query: 584 QKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKINVLFGGHQFLV 643
             +  L  L +   N +       +S  + L  L   + G ++I  +             
Sbjct: 218 ANMTRLNSLKIGN-NKITD-----LSPLANLSQLTWLEIGTNQISDI------------- 258

Query: 644 EELMGMKHLMVLTIT---LKSWQALKELLISQELQRSTQSLFLRCFNDSKSLDIFCLAGL 700
             +  +  L +L +    +     L  L    +L     SLFL   N   + D+  + GL
Sbjct: 259 NAVKDLTKLKMLNVGSNQISDISVLNNL---SQLN----SLFLN-NNQLGNEDMEVIGGL 310

Query: 701 RNLNKLYVAGCK 712
            NL  L+++   
Sbjct: 311 TNLTTLFLSQNH 322

>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 = 76.0 bits (188), Expect = 6e-15
 Identities = 43/241 (17%), Positives = 83/241 (34%), Gaps = 53/241 (21%)

Query: 484 LTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLR 543
           L++   + N   +  +++ ++K+++++       L SL L+ N +         S+ SL 
Sbjct: 145 LSDLSPLSNMTGLNYLTVTESKVKDVTPIANLTDLYSLSLNYNQI--EDISPLASLTSLH 202

Query: 544 VFNMSNNHLLWKLPSGISTLVSLEHLDLSSTAITHLPIELQKLVNLKCLNLEYMNNLNQF 603
            F    N +     + ++ +  L  L + +  IT L   L  L  L  L +   N ++  
Sbjct: 203 YFTAYVNQI--TDITPVANMTRLNSLKIGNNKITDLS-PLANLSQLTWLEIGT-NQISD- 257

Query: 604 PRLVISAFSKLQVLRMFDCGGSKIERLKINVLFGGHQFLVEELMGMKHLMVLTI------ 657
               I+A   L  L+M + G ++I  +               L  +  L  L +      
Sbjct: 258 ----INAVKDLTKLKMLNVGSNQISDI-------------SVLNNLSQLNSLFLNNNQLG 300

Query: 658 -----TLKSWQALKELLISQ-ELQRSTQSLFLRCFNDSKSLDIFCLAGLRNLNKLYVAGC 711
                 +     L  L +SQ  +                  DI  LA L  ++    A  
Sbjct: 301 NEDMEVIGGLTNLTTLFLSQNHIT-----------------DIRPLASLSKMDSADFANQ 343

Query: 712 K 712
            
Sbjct: 344 V 344

>4fmz_A Internalin; leucine rich repeat, structural genomic center for structural genomics, JCSG, protein structure INI PSI-biology; HET: MSE; 1.91A {Listeria monocytogenes serotype 4B} Length = 347

 Score = 70.3 bits (173), Expect = 4e-13
 Identities = 46/239 (19%), Positives = 84/239 (35%), Gaps = 36/239 (15%)

Query: 477 LVHAGLGLTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFF 536
           L      + +     +     R  L K  + ++        +  L ++   +        
Sbjct: 5   LATLPAPINQIFPDADLAEGIRAVLQKASVTDVVTQEELESITKLVVAGEKVASIQG--I 62

Query: 537 QSMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSSTAITHLPIELQKLVNLKCLNLEY 596
           + + +L   N++ N +     S +S LV L +L + +  IT +   LQ L NL+ L L  
Sbjct: 63  EYLTNLEYLNLNGNQI--TDISPLSNLVKLTNLYIGTNKITDIS-ALQNLTNLRELYL-N 118

Query: 597 MNNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKINVLFGGHQFLVEELMGMKHLMVLT 656
            +N++      IS  + L  +   + G +                 +  L  M  L  LT
Sbjct: 119 EDNISD-----ISPLANLTKMYSLNLGANHNLS------------DLSPLSNMTGLNYLT 161

Query: 657 IT---LKSWQALKELLISQELQRSTQSLFLRCFNDSKSLDIFCLAGLRNLNKLYVAGCK 712
           +T   +K    +  L           SL L   N ++  DI  LA L +L+       +
Sbjct: 162 VTESKVKDVTPIANL-------TDLYSLSL---NYNQIEDISPLASLTSLHYFTAYVNQ 210

>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 = 45/95 (47%), Gaps = 2/95 (2%)

Query: 483 GLTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSL 542
            +++   +++   ++ +++  N+I ++S       L SLFL++N L     +    + +L
Sbjct: 254 QISDINAVKDLTKLKMLNVGSNQISDISVLNNLSQLNSLFLNNNQLGNEDMEVIGGLTNL 313

Query: 543 RVFNMSNNHLLWKLPSGISTLVSLEHLDLSSTAIT 577
               +S NH+       +++L  ++  D ++  I 
Sbjct: 314 TTLFLSQNHI--TDIRPLASLSKMDSADFANQVIK 346

>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 = 83.1 bits (206), Expect = 6e-17
 Identities = 44/241 (18%), Positives = 92/241 (38%), Gaps = 33/241 (13%)

Query: 484 LTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLR 543
           +T+   + N   + R+ +  NK+ ++S      +L SL  ++N +  S       + +L 
Sbjct: 167 VTDLKPLANLTTLERLDISSNKVSDISVLAKLTNLESLIATNNQI--SDITPLGILTNLD 224

Query: 544 VFNMSNNHLLWKLPSGISTLVSLEHLDLSSTAITHLPIELQKLVNLKCLNLEYMNNLNQF 603
             +++ N L  K    +++L +L  LDL++  I++L   L  L  L  L L   N ++  
Sbjct: 225 ELSLNGNQL--KDIGTLASLTNLTDLDLANNQISNLA-PLSGLTKLTELKLGA-NQISN- 279

Query: 604 PRLVISAFSKLQVLRMFDCGGSKIERL-------KINVLFGGHQFL--VEELMGMKHLMV 654
               IS  + L  L   +   +++E +        +  L      +  +  +  +  L  
Sbjct: 280 ----ISPLAGLTALTNLELNENQLEDISPISNLKNLTYLTLYFNNISDISPVSSLTKLQR 335

Query: 655 LTIT---LKSWQALKELLISQELQRSTQSLFLRCFNDSKSLDIFCLAGLRNLNKLYVAGC 711
           L      +    +L  L        +   L       ++  D+  LA L  + +L +   
Sbjct: 336 LFFYNNKVSDVSSLANL-------TNINWLSA---GHNQISDLTPLANLTRITQLGLNDQ 385

Query: 712 K 712
            
Sbjct: 386 A 386

>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 = 80.4 bits (199), Expect = 5e-16
 Identities = 49/232 (21%), Positives = 89/232 (38%), Gaps = 38/232 (16%)

Query: 484 LTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLR 543
           +T+   ++N  N+ R+ L  N I ++S       L  L   +    +       ++ +L 
Sbjct: 124 ITDIDPLKNLTNLNRLELSSNTISDISALSGLTSLQQLSFGNQVTDLKP---LANLTTLE 180

Query: 544 VFNMSNNHLLWKLPSGISTLVSLEHLDLSSTAITHLPIELQKLVNLKCLNLEYMNNLNQF 603
             ++S+N +     S ++ L +LE L  ++  I+ +   L  L NL  L+L   N L   
Sbjct: 181 RLDISSNKV--SDISVLAKLTNLESLIATNNQISDIT-PLGILTNLDELSLNG-NQLKD- 235

Query: 604 PRLVISAFSKLQVLRMFDCGGSKIERLKINVLFGGHQFLVEELMGMKHLMVLTIT---LK 660
               I   + L  L   D   ++I  L               L G+  L  L +    + 
Sbjct: 236 ----IGTLASLTNLTDLDLANNQISNL-------------APLSGLTKLTELKLGANQIS 278

Query: 661 SWQALKELLISQELQRSTQSLFLRCFNDSKSLDIFCLAGLRNLNKLYVAGCK 712
           +   L  L     L     +L L   N+++  DI  ++ L+NL  L +    
Sbjct: 279 NISPLAGL---TALT----NLEL---NENQLEDISPISNLKNLTYLTLYFNN 320

>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 = 80.0 bits (198), Expect = 6e-16
 Identities = 48/251 (19%), Positives = 95/251 (37%), Gaps = 54/251 (21%)

Query: 484 LTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLR 543
           LT+   ++N   +  + +  N+I +++      +L  L L +N +     D  +++ +L 
Sbjct: 80  LTDITPLKNLTKLVDILMNNNQIADITPLANLTNLTGLTLFNNQITDI--DPLKNLTNLN 137

Query: 544 VFNMSNNHL--------LWKL-----------PSGISTLVSLEHLDLSSTAITHLPIELQ 584
              +S+N +        L  L              ++ L +LE LD+SS  ++ +   L 
Sbjct: 138 RLELSSNTISDISALSGLTSLQQLSFGNQVTDLKPLANLTTLERLDISSNKVSDIS-VLA 196

Query: 585 KLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKINVLFGGHQFLVE 644
           KL NL+ L     N ++      I+    L  L      G++++ +              
Sbjct: 197 KLTNLESLIATN-NQISD-----ITPLGILTNLDELSLNGNQLKDI-------------G 237

Query: 645 ELMGMKHLMVLTIT---LKSWQALKELLISQELQRSTQSLFLRCFNDSKSLDIFCLAGLR 701
            L  + +L  L +    + +   L  L    +L      L L     ++  +I  LAGL 
Sbjct: 238 TLASLTNLTDLDLANNQISNLAPLSGL---TKL----TELKL---GANQISNISPLAGLT 287

Query: 702 NLNKLYVAGCK 712
            L  L +   +
Sbjct: 288 ALTNLELNENQ 298

>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 = 78.9 bits (195), Expect = 2e-15
 Identities = 24/152 (15%), Positives = 57/152 (37%), Gaps = 11/152 (7%)

Query: 484 LTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLR 543
           ++    +     +  + L  N+I N+S       L +L L++N L         ++ +L 
Sbjct: 255 ISNLAPLSGLTKLTELKLGANQISNISPLAGLTALTNLELNENQL--EDISPISNLKNLT 312

Query: 544 VFNMSNNHLLWKLPSGISTLVSLEHLDLSSTAITHLPIELQKLVNLKCLNLEYMNNLNQF 603
              +  N++     S +S+L  L+ L   +  ++ +   L  L N+  L+  + N ++  
Sbjct: 313 YLTLYFNNI--SDISPVSSLTKLQRLFFYNNKVSDVS-SLANLTNINWLSAGH-NQISD- 367

Query: 604 PRLVISAFSKLQVLRMFDCGGSKIERLKINVL 635
               ++  + L  +              +N  
Sbjct: 368 ----LTPLANLTRITQLGLNDQAWTNAPVNYK 395

>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 = 78.5 bits (194), Expect = 2e-15
 Identities = 47/235 (20%), Positives = 87/235 (37%), Gaps = 44/235 (18%)

Query: 484 LTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLR 543
           +T+     +   V  +   +  I+++       +L  +  S+N L  +     +++  L 
Sbjct: 36  VTDTVSQTDLDQVTTLQADRLGIKSIDGVEYLNNLTQINFSNNQL--TDITPLKNLTKLV 93

Query: 544 VFNMSNNHLLWKLPSGISTLVSLEHLDLSSTAITHLPIELQKLVNLKCLNLEYMNNLNQF 603
              M+NN +     + ++ L +L  L L +  IT +   L+ L NL  L L   N ++  
Sbjct: 94  DILMNNNQI--ADITPLANLTNLTGLTLFNNQITDID-PLKNLTNLNRLELSS-NTISD- 148

Query: 604 PRLVISAFSKLQVLRMFDCGGSKIERLKINVLFGGHQFLVEELMGMKHLMVLTI------ 657
               ISA S L  L+    G    +              ++ L  +  L  L I      
Sbjct: 149 ----ISALSGLTSLQQLSFGNQVTD--------------LKPLANLTTLERLDISSNKVS 190

Query: 658 TLKSWQALKELLISQELQRSTQSLFLRCFNDSKSLDIFCLAGLRNLNKLYVAGCK 712
            +     L  L          +SL      +++  DI  L  L NL++L + G +
Sbjct: 191 DISVLAKLTNL----------ESLIA---TNNQISDITPLGILTNLDELSLNGNQ 232

>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 = 73.5 bits (181), Expect = 7e-14
 Identities = 32/212 (15%), Positives = 68/212 (32%), Gaps = 38/212 (17%)

Query: 504 NKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTL 563
             I  +         +   L   ++  +       +  +         +  K   G+  L
Sbjct: 12  TPINQIFTDTALAEKMKTVLGKTNV--TDTVSQTDLDQVTTLQADRLGI--KSIDGVEYL 67

Query: 564 VSLEHLDLSSTAITHLPIELQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFDCG 623
            +L  ++ S+  +T +   L+ L  L  + +   N +       I+  + L  L      
Sbjct: 68  NNLTQINFSNNQLTDIT-PLKNLTKLVDILMNN-NQIAD-----ITPLANLTNLTGLTLF 120

Query: 624 GSKIERLKINVLFGGHQFLVEELMGMKHLMVLTIT---LKSWQALKELLISQELQRSTQS 680
            ++I  +             + L  + +L  L ++   +    AL  L        S Q 
Sbjct: 121 NNQITDI-------------DPLKNLTNLNRLELSSNTISDISALSGL-------TSLQQ 160

Query: 681 LFLRCFNDSKSLDIFCLAGLRNLNKLYVAGCK 712
           L       ++  D+  LA L  L +L ++  K
Sbjct: 161 LSF----GNQVTDLKPLANLTTLERLDISSNK 188

>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 = 2e-13
 Identities = 23/134 (17%), Positives = 50/134 (37%), Gaps = 6/134 (4%)

Query: 484 LTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLR 543
           L +   I N +N+  ++L  N I ++S   +   L  LF  +N +         ++ ++ 
Sbjct: 299 LEDISPISNLKNLTYLTLYFNNISDISPVSSLTKLQRLFFYNNKVSDV--SSLANLTNIN 356

Query: 544 VFNMSNNHLLWKLPSGISTLVSLEHLDLSSTAITHLPIELQKLVNLKCLNLEYMNNLNQF 603
             +  +N +     + ++ L  +  L L+  A T+ P+  +  V++   N          
Sbjct: 357 WLSAGHNQI--SDLTPLANLTRITQLGLNDQAWTNAPVNYKANVSI--PNTVKNVTGALI 412

Query: 604 PRLVISAFSKLQVL 617
               IS        
Sbjct: 413 APATISDGGSYTEP 426

>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 = 3e-07
 Identities = 15/97 (15%), Positives = 38/97 (39%), Gaps = 2/97 (2%)

Query: 484 LTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLR 543
           +++   + N  N+  +S   N+I +L+       +  L L+D +   +  ++  ++    
Sbjct: 343 VSDVSSLANLTNINWLSAGHNQISDLTPLANLTRITQLGLNDQAWTNAPVNYKANVSIPN 402

Query: 544 VFNMSNNHLLWKLPSGISTLVSLEHLDLSSTAITHLP 580
                   L+   P+ IS   S    D++    ++  
Sbjct: 403 TVKNVTGALI--APATISDGGSYTEPDITWNLPSYTN 437

>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 = 83.7 bits (207), Expect = 1e-16
 Identities = 42/240 (17%), Positives = 85/240 (35%), Gaps = 35/240 (14%)

Query: 494 RNVRRMSLMKNKIENLSET--PTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNH 551
           ++++ ++L  NKI  +++       +L  L LS N L       F  +P +   ++  NH
Sbjct: 290 KDLKVLNLAYNKINKIADEAFYGLDNLQVLNLSYNLLGELYSSNFYGLPKVAYIDLQKNH 349

Query: 552 LLWKLPSGI-STLVSLEHLDLSSTAITHLPIELQKLVNLKCLNLEYMNNLNQFPRLVISA 610
           +   +       L  L+ LDL   A+T +      + ++  + L   N L   P++ ++A
Sbjct: 350 IA-IIQDQTFKFLEKLQTLDLRDNALTTIHF----IPSIPDIFLSG-NKLVTLPKINLTA 403

Query: 611 ------------------FSKLQVLRMFDCGGSKIERLKINVLFGGHQFLVEELMGMKHL 652
                               ++  L++     ++      +     +  L +  +G   L
Sbjct: 404 NLIHLSENRLENLDILYFLLRVPHLQILILNQNRFSSCSGDQTPSENPSLEQLFLGENML 463

Query: 653 MVLTITLKSWQALKELLISQELQRSTQSLFLRCFNDSKSLDIFCLAGLRNLNKLYVAGCK 712
            +   T   W   + L          Q L+L   N   SL     + L  L  L +   +
Sbjct: 464 QLAWETELCWDVFEGL-------SHLQVLYLN-HNYLNSLPPGVFSHLTALRGLSLNSNR 515

>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 = 81.8 bits (202), Expect = 3e-16
 Identities = 41/242 (16%), Positives = 82/242 (33%), Gaps = 23/242 (9%)

Query: 481 GLGLTEAPEIQNWRNVRRMSLMKNKIENLSET--PTCPHLLSLFLSDNSLKMS-TDDFFQ 537
              LT+ P  Q      R+ L  N I  ++ +  P    L  L L      ++   + F+
Sbjct: 13  FCNLTQVP--QVLNTTERLLLSFNYIRTVTASSFPFLEQLQLLELGSQYTPLTIDKEAFR 70

Query: 538 SMPSLRVFNMSNNHLLWKLPSGI-STLVSLEHLDLSSTAITHLPIE---LQKLVNLKCLN 593
           ++P+LR+ ++ ++ + + L       L  L  L L    ++   ++    + L  L  L+
Sbjct: 71  NLPNLRILDLGSSKI-YFLHPDAFQGLFHLFELRLYFCGLSDAVLKDGYFRNLKALTRLD 129

Query: 594 LEYMNNLNQFPRLVIS-AFSKLQVLRMFDCGGSKIERLKINVLFGGHQFLVEELMGMKHL 652
           L      NQ   L +  +F KL  L+  D   ++I  +  + L       +     +   
Sbjct: 130 LSK----NQIRSLYLHPSFGKLNSLKSIDFSSNQIFLVCEHELEPLQGKTLSFF-SLAAN 184

Query: 653 MVLTITLKSWQALKELLISQELQ-------RSTQSLFLRCFNDSKSLDIFCLAGLRNLNK 705
            + +     W        +  L+         T  +     N       F L    ++  
Sbjct: 185 SLYSRVSVDWGKCMNPFRNMVLEILDVSGNGWTVDITGNFSNAISKSQAFSLILAHHIMG 244

Query: 706 LY 707
             
Sbjct: 245 AG 246

>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 = 78.3 bits (193), Expect = 4e-15
 Identities = 43/245 (17%), Positives = 85/245 (34%), Gaps = 22/245 (8%)

Query: 481 GLGLTEAPEIQNWRNVRRMSLMKNKIENLSETP----TCPHLLSLFLSDNSLKMSTDDFF 536
            +  ++A  +    ++       + I++  +          +  L LS   +       F
Sbjct: 227 AISKSQAFSLILAHHIMGAGFGFHNIKDPDQNTFAGLARSSVRHLDLSHGFVFSLNSRVF 286

Query: 537 QSMPSLRVFNMSNNHLLWKLPSGI-STLVSLEHLDLSSTAITHLPIE-LQKLVNLKCLNL 594
           +++  L+V N++ N  + K+       L +L+ L+LS   +  L       L  +  ++L
Sbjct: 287 ETLKDLKVLNLAYNK-INKIADEAFYGLDNLQVLNLSYNLLGELYSSNFYGLPKVAYIDL 345

Query: 595 EYMNNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLK-INVLFGGHQFLVEELMGMKHLM 653
           +  N++            KLQ L + D   + I  +  I  +F     L         L 
Sbjct: 346 QK-NHIAIIQDQTFKFLEKLQTLDLRDNALTTIHFIPSIPDIFLSGNKL-------VTLP 397

Query: 654 VLTITLK----SWQALKELLISQELQR--STQSLFLRCFNDSKSLDIFCLAGLRNLNKLY 707
            + +T      S   L+ L I   L R    Q L L     S        +   +L +L+
Sbjct: 398 KINLTANLIHLSENRLENLDILYFLLRVPHLQILILNQNRFSSCSGDQTPSENPSLEQLF 457

Query: 708 VAGCK 712
           +    
Sbjct: 458 LGENM 462

>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 = 6e-13
 Identities = 36/162 (22%), Positives = 59/162 (36%), Gaps = 14/162 (8%)

Query: 489 EIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLK-MSTDDFFQSMPSLRVFNM 547
            I    ++  + L  NK+  L +         + LS+N L+ +    F   +P L++  +
Sbjct: 376 TIHFIPSIPDIFLSGNKLVTLPKINLT--ANLIHLSENRLENLDILYFLLRVPHLQILIL 433

Query: 548 SNNHLLWKLPSGI-STLVSLEHLDLSSTAITHLPIE------LQKLVNLKCLNLEYMNNL 600
           + N           S   SLE L L    +             + L +L+ L L + N L
Sbjct: 434 NQNRFSSCSGDQTPSENPSLEQLFLGENMLQLAWETELCWDVFEGLSHLQVLYLNH-NYL 492

Query: 601 NQFPRLVISAFSKLQVLRMFDCGGSKIERLKINVLFGGHQFL 642
           N  P      FS L  LR      +++  L  N L    + L
Sbjct: 493 NSLPP---GVFSHLTALRGLSLNSNRLTVLSHNDLPANLEIL 531

>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 = 66.8 bits (163), Expect = 1e-11
 Identities = 37/145 (25%), Positives = 64/145 (44%), Gaps = 17/145 (11%)

Query: 490 IQNWRNVRRMSLMKNKIENLSETPTC---PHLLSLFLSDNSLKMSTD-----DFFQSMPS 541
           +    +++ + L +N+  + S   T    P L  LFL +N L+++ +     D F+ +  
Sbjct: 422 LLRVPHLQILILNQNRFSSCSGDQTPSENPSLEQLFLGENMLQLAWETELCWDVFEGLSH 481

Query: 542 LRVFNMSNNHLLWKLPSGISTLVSLEHLDLSSTAITHLPIELQKLVNLKCLNLEYMNNLN 601
           L+V  +++N+L    P   S L +L  L L+S  +T L        NL+ L++   N L 
Sbjct: 482 LQVLYLNHNYLNSLPPGVFSHLTALRGLSLNSNRLTVLSHNDL-PANLEILDISR-NQLL 539

Query: 602 QFPRLVISAFSKLQVLRM----FDC 622
                    F  L VL +    F C
Sbjct: 540 APNP---DVFVSLSVLDITHNKFIC 561

>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 = 82.0 bits (203), Expect = 1e-16
 Identities = 57/244 (23%), Positives = 91/244 (37%), Gaps = 33/244 (13%)

Query: 484 LTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLR 543
           L + PE+QN   ++ + +  N ++ L + P  P L  +   +N L        Q++P L 
Sbjct: 143 LEKLPELQNSSFLKIIDVDNNSLKKLPDLP--PSLEFIAAGNNQL--EELPELQNLPFLT 198

Query: 544 VFNMSNNHLLWKLPSGISTLVSLEHLDLSSTAITHLPIELQKLVNLKCLNLEYMNNLNQF 603
                NN L  KLP       SLE +   +  +  LP ELQ L  L  +  +  N L   
Sbjct: 199 AIYADNNSLK-KLPDLPL---SLESIVAGNNILEELP-ELQNLPFLTTIYADN-NLLKTL 252

Query: 604 PRLVISAFSKLQVLRMFDCGGSKIERL-----KINVLFGGHQFLVEELMGMKHLMV---- 654
           P L       L+ L + D   + +  L      ++V       L E    + +L      
Sbjct: 253 PDL----PPSLEALNVRDNYLTDLPELPQSLTFLDVSENIFSGLSELPPNLYYLNASSNE 308

Query: 655 LTITLKSWQALKELLIS----QELQRSTQSL-FLRC-FNDSKSLDIFCLAGLRNLNKLYV 708
           +        +L+EL +S     EL      L  L   FN    +        +NL +L+V
Sbjct: 309 IRSLCDLPPSLEELNVSNNKLIELPALPPRLERLIASFNHLAEVP----ELPQNLKQLHV 364

Query: 709 AGCK 712
               
Sbjct: 365 EYNP 368

>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 = 66.6 bits (163), Expect = 1e-11
 Identities = 46/242 (19%), Positives = 86/242 (35%), Gaps = 40/242 (16%)

Query: 484 LTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLR 543
           L E PE+QN   +  +    N ++ L + P  P L +L + DN L     D  +   SL 
Sbjct: 227 LEELPELQNLPFLTTIYADNNLLKTLPDLP--PSLEALNVRDNYLT----DLPELPQSLT 280

Query: 544 VFNMSNNHLLWKLPSGISTLVSLEHLDLSSTAITHLPIELQKLVNLKCLNLEYMNNLNQF 603
             ++S N     L        +L +L+ SS  I  L        +L+ LN+   N L + 
Sbjct: 281 FLDVSENIFS-GLSELPP---NLYYLNASSNEIRSLCDLPP---SLEELNVSN-NKLIEL 332

Query: 604 PRLVISAFSKLQVLRMFDCGGSKIERL--------KINVLFGGHQFLVEELMGMKHLMV- 654
           P    +   +L+ L       + +  +        +++V +   +   +    ++ L + 
Sbjct: 333 P----ALPPRLERL---IASFNHLAEVPELPQNLKQLHVEYNPLREFPDIPESVEDLRMN 385

Query: 655 --LTITLKSWQALKELLISQ-------ELQRSTQSLFLRCFNDSKSLDIFCLAGLRNLNK 705
             L    +  Q LK+L +         ++  S + L +           F       L  
Sbjct: 386 SHLAEVPELPQNLKQLHVETNPLREFPDIPESVEDLRMNS-ERVVDPYEFAHETTDKLED 444

Query: 706 LY 707
             
Sbjct: 445 DV 446

>1jl5_A Outer protein YOPM; leucine-rich repeat, molecular pathogenesis, effector protein, virulence factor, toxin; 2.10A {Yersinia pestis} SCOP: c.10.2.6 PDB: 1g9u_A Length = 454

 Score = 55.4 bits (134), Expect = 4e-08
 Identities = 23/169 (13%), Positives = 49/169 (28%), Gaps = 31/169 (18%)

Query: 488 PEIQNWRNVRRMSLMKNKIENL-SETPTCPHLLSLFLSDNSLKMS--------TDDFFQS 538
           P   +   ++      + +  +  E          + + +  + +         +     
Sbjct: 5   PRNVSNTFLQEPLRHSSNLTEMPVEAENVKSKTEYYNAWSEWERNAPPGNGEQREMAVSR 64

Query: 539 MP-----SLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSSTAITHLPIELQKLVNLKCLN 593
           +            ++N  L   LP        LE L  S  ++T LP   Q L +L   N
Sbjct: 65  LRDCLDRQAHELELNNLGLS-SLPELPP---HLESLVASCNSLTELPELPQSLKSLLVDN 120

Query: 594 LEYMNNLNQFPRL------------VISAFSKLQVLRMFDCGGSKIERL 630
                 L+  P L             +        L++ D   + +++L
Sbjct: 121 NNL-KALSDLPPLLEYLGVSNNQLEKLPELQNSSFLKIIDVDNNSLKKL 168

>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 = 81.7 bits (202), Expect = 2e-16
 Identities = 57/244 (23%), Positives = 94/244 (38%), Gaps = 40/244 (16%)

Query: 481 GLGLTEAPEIQNWRNVRRMSLMKNKIENLSET--PTCPHLLSLFLSDNSLKMSTDDFFQS 538
                  PE       R + L KN+I+ L++    + PHL  L L++N +       F +
Sbjct: 20  RKRFVAVPEGIP-TETRLLDLGKNRIKTLNQDEFASFPHLEELELNENIVSAVEPGAFNN 78

Query: 539 MPSLRVFNMSNNHLLWKLPSGI-STLVSLEHLDLSSTAITHLPIEL-QKLVNLKCLNLEY 596
           + +LR   + +N L   +P G+ + L +L  LD+S   I  L   + Q L NLK L +  
Sbjct: 79  LFNLRTLGLRSNRLK-LIPLGVFTGLSNLTKLDISENKIVILLDYMFQDLYNLKSLEVGD 137

Query: 597 MNNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKINVLFGGHQFLVEELMGMKHLMVL- 655
            N+L        S  + L+ L +  C    +  +    L             +  L+VL 
Sbjct: 138 -NDLVYISHRAFSGLNSLEQLTLEKC---NLTSIPTEALS-----------HLHGLIVLR 182

Query: 656 -------TITLKSWQALKELLISQELQRSTQSLFLRCFNDSKSLDIFCLAGLRNLNKLYV 708
                   I   S++ L  L          + L +  +    ++   CL GL NL  L +
Sbjct: 183 LRHLNINAIRDYSFKRLYRL----------KVLEISHWPYLDTMTPNCLYGL-NLTSLSI 231

Query: 709 AGCK 712
             C 
Sbjct: 232 THCN 235

>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 = 73.6 bits (181), Expect = 6e-14
 Identities = 28/150 (18%), Positives = 61/150 (40%), Gaps = 7/150 (4%)

Query: 491 QNWRNVRRMSLMKNKIENLSET--PTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMS 548
               ++ +++L K  + ++          L+ L L   ++    D  F+ +  L+V  +S
Sbjct: 149 SGLNSLEQLTLEKCNLTSIPTEALSHLHGLIVLRLRHLNINAIRDYSFKRLYRLKVLEIS 208

Query: 549 NNHLLWKLPSGISTLVSLEHLDLSSTAITHLPIE-LQKLVNLKCLNLEYMNNLNQFPRLV 607
           +   L  +       ++L  L ++   +T +P   ++ LV L+ LNL Y    N    + 
Sbjct: 209 HWPYLDTMTPNCLYGLNLTSLSITHCNLTAVPYLAVRHLVYLRFLNLSY----NPISTIE 264

Query: 608 ISAFSKLQVLRMFDCGGSKIERLKINVLFG 637
            S   +L  L+     G ++  ++     G
Sbjct: 265 GSMLHELLRLQEIQLVGGQLAVVEPYAFRG 294

>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 = 69.0 bits (169), Expect = 2e-12
 Identities = 39/242 (16%), Positives = 76/242 (31%), Gaps = 41/242 (16%)

Query: 494 RNVRRMSLMKNKIENLSET--PTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNH 551
            N+ ++ + +NKI  L +       +L SL + DN L   +   F  + SL    +   +
Sbjct: 104 SNLTKLDISENKIVILLDYMFQDLYNLKSLEVGDNDLVYISHRAFSGLNSLEQLTLEKCN 163

Query: 552 LLWKLPSGISTLVSLEHLDLSSTAITHLPIE-LQKLVNLKCLNLEYMNNLNQFPRLVISA 610
           L       +S L  L  L L    I  +     ++L  LK L + +   L+       + 
Sbjct: 164 LTSIPTEALSHLHGLIVLRLRHLNINAIRDYSFKRLYRLKVLEISHWPYLDTMTP---NC 220

Query: 611 FSKLQVLRMFDCGGSKIERLKINVLFGGHQFLVEELMGMKHLMVLTI-----------TL 659
              L  L         +  +               +  + +L  L +            L
Sbjct: 221 LYGLN-LTSLSITHCNLTAVPYLA-----------VRHLVYLRFLNLSYNPISTIEGSML 268

Query: 660 KSWQALKELLIS----QELQRST-------QSLFLRCFNDSKSLDIFCLAGLRNLNKLYV 708
                L+E+ +       ++          + L +   N   +L+      + NL  L +
Sbjct: 269 HELLRLQEIQLVGGQLAVVEPYAFRGLNYLRVLNVS-GNQLTTLEESVFHSVGNLETLIL 327

Query: 709 AG 710
             
Sbjct: 328 DS 329

>2id5_A Lingo-1, leucine rich repeat neuronal 6A; CNS-specific LRR-IG containing, ligand binding protein,membr protein; HET: NAG MAN; 2.70A {Homo sapiens} Length = 477

 Score = 44.3 bits (105), Expect = 1e-04
 Identities = 13/72 (18%), Positives = 27/72 (37%), Gaps = 8/72 (11%)

Query: 491 QNWRNVRRMSLMKNKIENLSETP--TCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMS 548
                ++ + L+  ++  +         +L  L +S N L    +  F S+ +L    + 
Sbjct: 269 HELLRLQEIQLVGGQLAVVEPYAFRGLNYLRVLNVSGNQLTTLEESVFHSVGNLETLILD 328

Query: 549 NN------HLLW 554
           +N       LLW
Sbjct: 329 SNPLACDCRLLW 340

>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 = 82.0 bits (203), Expect = 2e-16
 Identities = 33/142 (23%), Positives = 56/142 (39%), Gaps = 5/142 (3%)

Query: 481 GLGLTEAPEIQNWRNVRRMSLMKNKIENLSET--PTCPHLLSLFLSDNSLKMSTDDFFQS 538
            LGL E P      +   +    N +  +  T      +L  L L+   +    +D FQS
Sbjct: 21  NLGLNEIPGTLP-NSTECLEFSFNVLPTIQNTTFSRLINLTFLDLTRCQIYWIHEDTFQS 79

Query: 539 MPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSSTAITHL-PIELQKLVNLKCLNLEYM 597
              L    ++ N L++   + +S   +L+HL    T I+ +  I L     L+ L L   
Sbjct: 80  QHRLDTLVLTANPLIFMAETALSGPKALKHLFFIQTGISSIDFIPLHNQKTLESLYLGS- 138

Query: 598 NNLNQFPRLVISAFSKLQVLRM 619
           N+++           KL+VL  
Sbjct: 139 NHISSIKLPKGFPTEKLKVLDF 160

>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 = 80.8 bits (200), Expect = 5e-16
 Identities = 44/241 (18%), Positives = 79/241 (32%), Gaps = 42/241 (17%)

Query: 494 RNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMS--TDDFFQSMPSLRVFNMSNNH 551
            N +R+ L    +ENL       +L  L LS + ++ S   +   +++  L+  N+S N 
Sbjct: 334 GNTKRLELGTGCLENL------ENLRELDLSHDDIETSDCCNLQLRNLSHLQSLNLSYNE 387

Query: 552 LLWKLPSGISTLVSLEHLDLSSTAITHLPIE--LQKLVNLKCLNLEYMNNLNQFPRLVIS 609
            L            LE LDL+ T +     +   Q L  LK LNL + + L+     +  
Sbjct: 388 PLSLKTEAFKECPQLELLDLAFTRLKVKDAQSPFQNLHLLKVLNLSH-SLLDISSEQLFD 446

Query: 610 AFSKLQVLRMFDCGGSKIERLKINVLFGGHQFLVEELMGMKHLMVLTI-----------T 658
               LQ L +             N    G+      L  +  L +L +            
Sbjct: 447 GLPALQHLNLQG-----------NHFPKGNIQKTNSLQTLGRLEILVLSFCDLSSIDQHA 495

Query: 659 LKSWQALKELLIS----QELQRST----QSLFLRC-FNDSKSLDIFCLAGLRNLNKLYVA 709
             S + +  + +S               + ++L    N    +    L  L     + + 
Sbjct: 496 FTSLKMMNHVDLSHNRLTSSSIEALSHLKGIYLNLASNHISIILPSLLPILSQQRTINLR 555

Query: 710 G 710
            
Sbjct: 556 Q 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 = 77.0 bits (190), Expect = 8e-15
 Identities = 29/153 (18%), Positives = 60/153 (39%), Gaps = 12/153 (7%)

Query: 490 IQNWRNVRRMSLMKNKIENLSETPT---CPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFN 546
            +    +  + L   +++             L  L LS + L +S++  F  +P+L+  N
Sbjct: 396 FKECPQLELLDLAFTRLKVKDAQSPFQNLHLLKVLNLSHSLLDISSEQLFDGLPALQHLN 455

Query: 547 MSNNHLLW---KLPSGISTLVSLEHLDLSSTAITHLPIE-LQKLVNLKCLNLEYMNNLNQ 602
           +  NH      +  + + TL  LE L LS   ++ +       L  +  ++L + N L  
Sbjct: 456 LQGNHFPKGNIQKTNSLQTLGRLEILVLSFCDLSSIDQHAFTSLKMMNHVDLSH-NRLTS 514

Query: 603 FPRLVISAFSKLQVLRMFDCGGSKIERLKINVL 635
                  A S L+ +   +   + I  +  ++L
Sbjct: 515 SSI---EALSHLKGIY-LNLASNHISIILPSLL 543

>3t6q_A CD180 antigen; protein-protein complex, leucine rich repeat, MD-2 related L recognition, receptor, innate immunity, glycosylation, IMMU; HET: NAG BMA MAN; 1.90A {Mus musculus} PDB: 3b2d_A* 3rg1_A* Length = 606

 Score = 73.9 bits (182), Expect = 7e-14
 Identities = 29/147 (19%), Positives = 53/147 (36%), Gaps = 5/147 (3%)

Query: 475 NFLVHAGLGLTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDD 534
           N +     G  ++   Q+  N      +    + L  + T   L      D   +  +  
Sbjct: 189 NDIAGIEPGAFDSAVFQS-LNFGGTQNLLVIFKGLKNS-TIQSLWLGTFEDMDDEDISPA 246

Query: 535 FFQSMP--SLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSSTAITHLPIELQKLVNLKCL 592
            F+ +   S+   N+  ++      +       L+ LDL++T ++ LP  L  L  LK L
Sbjct: 247 VFEGLCEMSVESINLQKHYFFNISSNTFHCFSGLQELDLTATHLSELPSGLVGLSTLKKL 306

Query: 593 NLEYMNNLNQFPRLVISAFSKLQVLRM 619
            L   N      ++  S F  L  L +
Sbjct: 307 VLSA-NKFENLCQISASNFPSLTHLSI 332

>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 = 42.7 bits (101), Expect = 4e-04
 Identities = 10/60 (16%), Positives = 23/60 (38%), Gaps = 1/60 (1%)

Query: 494 RNVRRMSLMKNKIENLSETP-TCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHL 552
           + +  + L  N++ + S    +    + L L+ N + +        +   R  N+  N L
Sbjct: 500 KMMNHVDLSHNRLTSSSIEALSHLKGIYLNLASNHISIILPSLLPILSQQRTINLRQNPL 559

>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 = 82.0 bits (203), Expect = 3e-16
 Identities = 48/225 (21%), Positives = 82/225 (36%), Gaps = 32/225 (14%)

Query: 497 RRMSLMKNKIENLSET--PTCPHLLSLFLSDNSLKMS-TDDFFQSMPSLRVFNMSNNHLL 553
             ++L KNKI  +         HL  L L  N +    T   ++ + ++    +S N  L
Sbjct: 384 HILNLTKNKISKIESDAFSWLGHLEVLDLGLNEIGQELTGQEWRGLENIFEIYLSYNKYL 443

Query: 554 WKLPSGISTLVSLEHLDLSS---TAITHLPIELQKLVNLKCLNLEYMNNLNQFPRLVISA 610
               +  + + SL+ L L       +   P   Q L NL  L+L   NN+          
Sbjct: 444 QLTRNSFALVPSLQRLMLRRVALKNVDSSPSPFQPLRNLTILDLSN-NNIANIND---DM 499

Query: 611 FSKLQVLRMFDCGGSKIERLKINVLFGGHQFLVEELMGMKHLMVL--------TITLKSW 662
              L+ L + D   + + RL  +   GG    +  L G+ HL +L         I ++ +
Sbjct: 500 LEGLEKLEILDLQHNNLARLWKHANPGG---PIYFLKGLSHLHILNLESNGFDEIPVEVF 556

Query: 663 QALKELLISQELQRSTQSLFLRCFNDSKSLDIFCLAGLRNLNKLY 707
           + L EL          + + L   N+  +L         +L  L 
Sbjct: 557 KDLFEL----------KIIDLG-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 = 81.6 bits (202), Expect = 3e-16
 Identities = 42/232 (18%), Positives = 80/232 (34%), Gaps = 18/232 (7%)

Query: 486 EAPEIQNWRNVRRMSLMKNKIENLSET--PTCPHLLSLFLSDNSLKMSTDDFFQSMPSLR 543
           E    Q    ++ ++L  N++  LS+     C +L  L L  NS++   ++ F    +L 
Sbjct: 65  EPELCQKLPMLKVLNLQHNELSQLSDKTFAFCTNLTELHLMSNSIQKIKNNPFVKQKNLI 124

Query: 544 VFNMSNNHLLWKLPSGISTLVSLEHLDLSSTAITHLP---IELQKLVNLKCLNLEYMNNL 600
             ++S+N L          L +L+ L LS+  I  L    +++    +LK L L   N +
Sbjct: 125 TLDLSHNGLSSTKLGTQVQLENLQELLLSNNKIQALKSEELDIFANSSLKKLELSS-NQI 183

Query: 601 NQFPRLVISAFSKLQVLRMFDCGGSKIERLKINVLFGGHQFLVEELMGMKHLMVLTITLK 660
            +F      A  +L  L            L    L       +   +    +  L+++  
Sbjct: 184 KEFSPGCFHAIGRLFGL-----------FLNNVQLGPSLTEKLCLELANTSIRNLSLSNS 232

Query: 661 SWQALKELLISQELQRSTQSLFLRCFNDSKSLDIFCLAGLRNLNKLYVAGCK 712
                           +   L L  +N+   +     A L  L   ++    
Sbjct: 233 QLSTTSNTTFLGLKWTNLTMLDLS-YNNLNVVGNDSFAWLPQLEYFFLEYNN 283

>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 = 81.2 bits (201), Expect = 4e-16
 Identities = 30/132 (22%), Positives = 52/132 (39%), Gaps = 4/132 (3%)

Query: 494 RNVRRMSLMKNKIENLSETP--TCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNH 551
            N+  ++L  N++  L          L SL +  N++     +  Q +P L+V N+ +N 
Sbjct: 25  TNITVLNLTHNQLRRLPAANFTRYSQLTSLDVGFNTISKLEPELCQKLPMLKVLNLQHNE 84

Query: 552 LLWKLPSGISTLVSLEHLDLSSTAITHL-PIELQKLVNLKCLNLEYMNNLNQFPRLVISA 610
           L        +   +L  L L S +I  +      K  NL  L+L + N L+         
Sbjct: 85  LSQLSDKTFAFCTNLTELHLMSNSIQKIKNNPFVKQKNLITLDLSH-NGLSSTKLGTQVQ 143

Query: 611 FSKLQVLRMFDC 622
              LQ L + + 
Sbjct: 144 LENLQELLLSNN 155

>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 = 81.2 bits (201), Expect = 5e-16
 Identities = 36/142 (25%), Positives = 58/142 (40%), Gaps = 14/142 (9%)

Query: 489 EIQNWRNVRRMSLMKNKIENLSET--PTCPHLLSLFLSDNSLKMSTD--DFFQSMPSLRV 544
           E +   N+  + L  NK   L+       P L  L L   +LK        FQ + +L +
Sbjct: 425 EWRGLENIFEIYLSYNKYLQLTRNSFALVPSLQRLMLRRVALKNVDSSPSPFQPLRNLTI 484

Query: 545 FNMSNNHLLWKLPSGISTLVSLEHLDLSSTAITHL---------PIELQKLVNLKCLNLE 595
            ++SNN++       +  L  LE LDL    +  L            L+ L +L  LNLE
Sbjct: 485 LDLSNNNIANINDDMLEGLEKLEILDLQHNNLARLWKHANPGGPIYFLKGLSHLHILNLE 544

Query: 596 YMNNLNQFPRLVISAFSKLQVL 617
             N  ++ P  V     +L+++
Sbjct: 545 S-NGFDEIPVEVFKDLFELKII 565

>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 = 72.7 bits (179), Expect = 2e-13
 Identities = 30/142 (21%), Positives = 60/142 (42%), Gaps = 15/142 (10%)

Query: 492 NWRNVRRMSLMKNKIENLSETP----TCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNM 547
              ++R +SL  +++   S T        +L  L LS N+L +  +D F  +P L  F +
Sbjct: 220 ANTSIRNLSLSNSQLSTTSNTTFLGLKWTNLTMLDLSYNNLNVVGNDSFAWLPQLEYFFL 279

Query: 548 SNNHLLWKLPSGISTLVSLEHLDL---------SSTAITHL-PIELQKLVNLKCLNLEYM 597
             N++       +  L ++ +L+L         S  ++  +     Q L  L+ LN+E  
Sbjct: 280 EYNNIQHLFSHSLHGLFNVRYLNLKRSFTKQSISLASLPKIDDFSFQWLKCLEHLNMED- 338

Query: 598 NNLNQFPRLVISAFSKLQVLRM 619
           N++      + +    L+ L +
Sbjct: 339 NDIPGIKSNMFTGLINLKYLSL 360

>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 = 72.3 bits (178), Expect = 3e-13
 Identities = 39/157 (24%), Positives = 59/157 (37%), Gaps = 18/157 (11%)

Query: 483 GLTEAP-EIQNWRNVRRMSLMKNKIENLSET--PTCPHLLSLFLSDNSLKMSTDD----- 534
            +  +P   Q  RN+  + L  N I N+++        L  L L  N+L           
Sbjct: 468 NVDSSPSPFQPLRNLTILDLSNNNIANINDDMLEGLEKLEILDLQHNNLARLWKHANPGG 527

Query: 535 ---FFQSMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSSTAITHLPIE-LQKLVNLK 590
              F + +  L + N+ +N            L  L+ +DL    +  LP       V+LK
Sbjct: 528 PIYFLKGLSHLHILNLESNGFDEIPVEVFKDLFELKIIDLGLNNLNTLPASVFNNQVSLK 587

Query: 591 CLNLEYMNNLNQFPRLVIS-AFSKLQVLRM----FDC 622
            LNL+  N +    + V   AF  L  L M    FDC
Sbjct: 588 SLNLQK-NLITSVEKKVFGPAFRNLTELDMRFNPFDC 623

>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 = 68.1 bits (167), Expect = 5e-12
 Identities = 45/249 (18%), Positives = 85/249 (34%), Gaps = 43/249 (17%)

Query: 486 EAPEIQNWRNVRRMSLMKNKIENLSETPTCP-----------HLLSLFLSDNSLKMSTDD 534
                     +    L  N I++L                        +S  SL    D 
Sbjct: 264 GNDSFAWLPQLEYFFLEYNNIQHLFSHSLHGLFNVRYLNLKRSFTKQSISLASLPKIDDF 323

Query: 535 FFQSMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSSTAITHLPIELQKLVNLKCLNL 594
            FQ +  L   NM +N +     +  + L++L++L LS++  +   +  +  V+L    L
Sbjct: 324 SFQWLKCLEHLNMEDNDIPGIKSNMFTGLINLKYLSLSNSFTSLRTLTNETFVSLAHSPL 383

Query: 595 EY----MNNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKINVLFGGHQFLVEELMGMK 650
                  N +++      S    L+VL +   G ++I          G +   +E  G++
Sbjct: 384 HILNLTKNKISKIESDAFSWLGHLEVLDL---GLNEI----------GQELTGQEWRGLE 430

Query: 651 HLMVLT-----ITLKSWQALKELLISQELQRSTQSLFLRCFNDSKSLDI--FCLAGLRNL 703
           ++  +          +  +   +     LQR    L LR     K++D        LRNL
Sbjct: 431 NIFEIYLSYNKYLQLTRNSFALV---PSLQR----LMLR-RVALKNVDSSPSPFQPLRNL 482

Query: 704 NKLYVAGCK 712
             L ++   
Sbjct: 483 TILDLSNNN 491

>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 = 57.7 bits (140), Expect = 8e-09
 Identities = 35/210 (16%), Positives = 72/210 (34%), Gaps = 46/210 (21%)

Query: 541 SLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSSTAITHL-PIELQKLVNLKCLNLEYMNN 599
           S  V + S+   L ++P  + T  ++  L+L+   +  L      +   L  L++ + N 
Sbjct: 5   SHEVADCSHLK-LTQVPDDLPT--NITVLNLTHNQLRRLPAANFTRYSQLTSLDVGF-NT 60

Query: 600 LNQFPRLVISAFSKLQVLRMFDCGGSKIERLKINVLFGGHQFLVE--------------E 645
           +++    +      L+VL +      ++ +L  +  F     L E               
Sbjct: 61  ISKLEPELCQKLPMLKVLNLQHN---ELSQL-SDKTFAFCTNLTELHLMSNSIQKIKNNP 116

Query: 646 LMGMKHLMVLTI-----------TLKSWQALKELLISQ-ELQRSTQSLFLRCFNDS---- 689
            +  K+L+ L +           T    + L+ELL+S  ++Q           N S    
Sbjct: 117 FVKQKNLITLDLSHNGLSSTKLGTQVQLENLQELLLSNNKIQALKSEELDIFANSSLKKL 176

Query: 690 -------KSLDIFCLAGLRNLNKLYVAGCK 712
                  K     C   +  L  L++   +
Sbjct: 177 ELSSNQIKEFSPGCFHAIGRLFGLFLNNVQ 206

>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 = 49.6 bits (119), Expect = 3e-06
 Identities = 34/154 (22%), Positives = 53/154 (34%), Gaps = 30/154 (19%)

Query: 564 VSLEHLDLSSTAITHLPIELQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFDCG 623
           VS E  D S   +T +P +L    N+  LNL + N L + P    + +S+L  L +    
Sbjct: 4   VSHEVADCSHLKLTQVPDDL--PTNITVLNLTH-NQLRRLPAANFTRYSQLTSLDVGFNT 60

Query: 624 GSKIERLKINVLFGGHQFLVEELMGMKHLMVLTIT---LKSWQALKELLISQELQRST-- 678
            SK+E               E    +  L VL +    L         L  +     T  
Sbjct: 61  ISKLEP--------------ELCQKLPMLKVLNLQHNELSQ-------LSDKTFAFCTNL 99

Query: 679 QSLFLRCFNDSKSLDIFCLAGLRNLNKLYVAGCK 712
             L L   N  + +        +NL  L ++   
Sbjct: 100 TELHLM-SNSIQKIKNNPFVKQKNLITLDLSHNG 132

>4ecn_A Leucine-rich repeat protein; leucine-rich repeats, DUF4458 domain, protein binding, extra protein, structural genomics; 2.80A {Bacteroides thetaiotaomicron} Length = 876

 Score = 81.1 bits (200), Expect = 7e-16
 Identities = 34/258 (13%), Positives = 75/258 (29%), Gaps = 50/258 (19%)

Query: 473 KENFLVHAGLGLTEAP-EIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMS 531
           K+  + +    +T     IQ    ++ +    +                          +
Sbjct: 426 KDTQIGNLTNRITFISKAIQRLTKLQIIYFANSPFTYD---NIAVDWEDANSDYAKQYEN 482

Query: 532 TDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSS----------TAITHLPI 581
            +  + ++  L    + N   + +LP  +  L  L+ L+++              T L  
Sbjct: 483 EELSWSNLKDLTDVELYNCPNMTQLPDFLYDLPELQSLNIACNRGISAAQLKADWTRLAD 542

Query: 582 ELQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKINVLFGGHQF 641
           +      ++   + Y NNL +FP    ++  K+  L + DC  +K+  L           
Sbjct: 543 DEDTGPKIQIFYMGY-NNLEEFP--ASASLQKMVKLGLLDCVHNKVRHL----------- 588

Query: 642 LVEELMGMKHLMVL--------TITLKSWQALKELLISQELQRSTQSLFLRCFNDSKSL- 692
             E       L  L         I         ++          + L     N  K + 
Sbjct: 589 --EAFGTNVKLTDLKLDYNQIEEIPEDFCAFTDQV----------EGLGFS-HNKLKYIP 635

Query: 693 DIFCLAGLRNLNKLYVAG 710
           +IF    +  +  +  + 
Sbjct: 636 NIFNAKSVYVMGSVDFSY 653

>4ecn_A Leucine-rich repeat protein; leucine-rich repeats, DUF4458 domain, protein binding, extra protein, structural genomics; 2.80A {Bacteroides thetaiotaomicron} Length = 876

 Score = 77.2 bits (190), Expect = 1e-14
 Identities = 28/170 (16%), Positives = 62/170 (36%), Gaps = 14/170 (8%)

Query: 474 ENFLVHAGLGLTEAPEIQNWRNVRRMSLMKNKIENL--SETPTCPHLLSLFLSDNSLK-- 529
            N +   G  ++ + +     N   ++L  N+I+        T   + ++ LS+N +   
Sbjct: 653 YNKIGSEGRNISCSMDDYKGINASTVTLSYNEIQKFPTELFATGSPISTIILSNNLMTSI 712

Query: 530 -----MSTDDFFQSMPSLRVFNMSNNHLLWKLPSGI--STLVSLEHLDLSSTAITHLPIE 582
                   D  +++   L   ++  N L   L      +TL  L ++D+S    +  P +
Sbjct: 713 PENSLKPKDGNYKNTYLLTTIDLRFNKLT-SLSDDFRATTLPYLSNMDVSYNCFSSFPTQ 771

Query: 583 LQKLVNLKCLNLEYMNNL--NQFPRLVISAFSKLQVLRMFDCGGSKIERL 630
                 LK   + +  +   N+  R   +  +    L     G + I ++
Sbjct: 772 PLNSSQLKAFGIRHQRDAEGNRILRQWPTGITTCPSLIQLQIGSNDIRKV 821

>4ecn_A Leucine-rich repeat protein; leucine-rich repeats, DUF4458 domain, protein binding, extra protein, structural genomics; 2.80A {Bacteroides thetaiotaomicron} Length = 876

 Score = 72.2 bits (177), Expect = 4e-13
 Identities = 29/153 (18%), Positives = 57/153 (37%), Gaps = 16/153 (10%)

Query: 488 PEIQNWRNVRRMSLMKNKIENLSETPTC---PHLLSLFLSDNSLKMSTDDFFQSMPSLRV 544
              +N   +  + L  NK+ +LS+       P+L ++ +S N               L+ 
Sbjct: 722 GNYKNTYLLTTIDLRFNKLTSLSDDFRATTLPYLSNMDVSYNCFSSFPTQPLN-SSQLKA 780

Query: 545 FN------MSNNHLLWKLPSGISTLVSLEHLDLSSTAITHLPIELQKLVNLKCLNLEYMN 598
           F          N +L + P+GI+T  SL  L + S  I  +  +L     L  L++    
Sbjct: 781 FGIRHQRDAEGNRILRQWPTGITTCPSLIQLQIGSNDIRKVDEKL--TPQLYILDIAD-- 836

Query: 599 NLNQFPRLVISAFSKLQVLRMFDCGGSKIERLK 631
             N    + +++        M+     K + ++
Sbjct: 837 --NPNISIDVTSVCPYIEAGMYVLLYDKTQDIR 867

>4ecn_A Leucine-rich repeat protein; leucine-rich repeats, DUF4458 domain, protein binding, extra protein, structural genomics; 2.80A {Bacteroides thetaiotaomicron} Length = 876

 Score = 67.6 bits (165), Expect = 1e-11
 Identities = 20/144 (13%), Positives = 44/144 (30%), Gaps = 18/144 (12%)

Query: 491 QNWRNVRRMSLMKNKIENL---SETPTCPHLLSLFLSDNSLKMSTDDFFQSMP-----SL 542
                V  +    NK++ +       +   + S+  S N +     +   SM      + 
Sbjct: 616 AFTDQVEGLGFSHNKLKYIPNIFNAKSVYVMGSVDFSYNKIGSEGRNISCSMDDYKGINA 675

Query: 543 RVFNMSNNHLLWKLPSGISTLVSLEHLDLSSTAITHLP--------IELQKLVNLKCLNL 594
               +S N +        +T   +  + LS+  +T +P           +    L  ++L
Sbjct: 676 STVTLSYNEIQKFPTELFATGSPISTIILSNNLMTSIPENSLKPKDGNYKNTYLLTTIDL 735

Query: 595 EYMNNLNQFPR-LVISAFSKLQVL 617
            + N L         +    L  +
Sbjct: 736 RF-NKLTSLSDDFRATTLPYLSNM 758

>4ecn_A Leucine-rich repeat protein; leucine-rich repeats, DUF4458 domain, protein binding, extra protein, structural genomics; 2.80A {Bacteroides thetaiotaomicron} Length = 876

 Score = 61.4 bits (149), Expect = 7e-10
 Identities = 31/278 (11%), Positives = 71/278 (25%), Gaps = 65/278 (23%)

Query: 488 PEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLF--LSDNSLKMS-TDDFFQSMPSLRV 544
             I     ++ +S   +             L         + ++M     F      L +
Sbjct: 341 DAIGQLTELKVLSFGTHSETVSGRLFGDEELTPDMSEERKHRIRMHYKKMFLDYDQRLNL 400

Query: 545 FNMSNNHL----------------------------LWKLPSGISTLVSLEHLDLSSTAI 576
            ++  + +                            +  +   I  L  L+ +  +++  
Sbjct: 401 SDLLQDAINRNPEMKPIKKDSRISLKDTQIGNLTNRITFISKAIQRLTKLQIIYFANSPF 460

Query: 577 THLPIELQKLV--------------------NLKCLNLEYMNNLNQFPRLVISAFSKLQV 616
           T+  I +                        +L  + L    N+ Q P         L  
Sbjct: 461 TYDNIAVDWEDANSDYAKQYENEELSWSNLKDLTDVELYNCPNMTQLP----DFLYDLPE 516

Query: 617 LRMFDCGGSKIERLKINVLFGGHQFLVEELMGMKHLMVLTITLKSWQALKELLISQELQR 676
           L+  +   ++        L      L ++      + +  +    +  L+E   S  LQ+
Sbjct: 517 LQSLNIACNRGI--SAAQLKADWTRLADDEDTGPKIQIFYM---GYNNLEEFPASASLQK 571

Query: 677 ST--QSLFLRCFNDSKSLDIFCLAGLRNLNKLYVAGCK 712
                 L     N  + L+ F       L  L +   +
Sbjct: 572 MVKLGLLDCV-HNKVRHLEAFG--TNVKLTDLKLDYNQ 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 = 55.3 bits (133), Expect = 6e-08
 Identities = 16/195 (8%), Positives = 60/195 (30%), Gaps = 23/195 (11%)

Query: 535 FFQSMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSSTAITHLPIELQKLVNLKCLNL 594
              +   +   +++      ++P  I  L  L+ L   + + T              ++ 
Sbjct: 318 DLDNNGRVTGLSLAGFGAKGRVPDAIGQLTELKVLSFGTHSETVSGRLFGDEELTPDMSE 377

Query: 595 EYMNNL-NQFPRLVISAFSKLQVLRMFDCGGSKI--------------ERLKINVLFGGH 639
           E  + +   + ++ +    +L +  +     ++               +  +I  L    
Sbjct: 378 ERKHRIRMHYKKMFLDYDQRLNLSDLLQDAINRNPEMKPIKKDSRISLKDTQIGNLTNRI 437

Query: 640 QFLVEELMGMKHLMVLTITLKSWQALKELLISQELQRSTQSLFLRCFNDSKSLDIFCLAG 699
            F+ + +  +  L ++     +        I+ + +          +      +    + 
Sbjct: 438 TFISKAIQRLTKLQIIYF---ANSPFTYDNIAVDWE-----DANSDYAKQYENEELSWSN 489

Query: 700 LRNLNKLYVAGCKHL 714
           L++L  + +  C ++
Sbjct: 490 LKDLTDVELYNCPNM 504

>4ecn_A Leucine-rich repeat protein; leucine-rich repeats, DUF4458 domain, protein binding, extra protein, structural genomics; 2.80A {Bacteroides thetaiotaomicron} Length = 876

 Score = 51.8 bits (124), Expect = 7e-07
 Identities = 36/227 (15%), Positives = 64/227 (28%), Gaps = 25/227 (11%)

Query: 489 EIQNWRNVRRMSLMKNKIENL--SETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFN 546
           ++ N   V  +SL     +            L  L    +S  +S   F     +  +  
Sbjct: 318 DLDNNGRVTGLSLAGFGAKGRVPDAIGQLTELKVLSFGTHSETVSGRLFGDEELTPDMSE 377

Query: 547 MSNNHLLWKLPSG-ISTLVSLEHLDLSSTAITHLPIELQKLVNLKCLNLEYMNNLNQFPR 605
              + +        +     L   DL   AI   P E++ +     ++L+     N   R
Sbjct: 378 ERKHRIRMHYKKMFLDYDQRLNLSDLLQDAINRNP-EMKPIKKDSRISLKDTQIGNLTNR 436

Query: 606 LVI--SAFSKLQVLRMFDCGGSKIERLKINVLFGGHQFLVEELMGMKHLMVLTITLKSWQ 663
           +     A  +L  L++     S             +  +  E     +         SW 
Sbjct: 437 ITFISKAIQRLTKLQIIYFANSPFTYD--------NIAVDWEDANSDYAKQYENEELSWS 488

Query: 664 ALKELLISQELQRSTQSLFLRCFNDSKSLDIFCLAGLRNLNKLYVAG 710
            LK+L            + L    +   L    L  L  L  L +A 
Sbjct: 489 NLKDL----------TDVELYNCPNMTQLPD-FLYDLPELQSLNIAC 524

>4ecn_A Leucine-rich repeat protein; leucine-rich repeats, DUF4458 domain, protein binding, extra protein, structural genomics; 2.80A {Bacteroides thetaiotaomicron} Length = 876

 Score = 46.4 bits (110), Expect = 3e-05
 Identities = 20/184 (10%), Positives = 52/184 (28%), Gaps = 16/184 (8%)

Query: 532 TDDFFQSMPSLRVFNMSNNHLLWKLPSGIS--TLVSLEHLDLSSTAIT-HLPIELQKLVN 588
                 +      +N +    +W    G+       +  L L+       +P  + +L  
Sbjct: 289 YSGTINNTIHSLNWNFNKELDMWGDQPGVDLDNNGRVTGLSLAGFGAKGRVPDAIGQLTE 348

Query: 589 LKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKINVLFGGHQFLVEELMG 648
           LK L+    ++     RL         +         +  R++++      +  ++    
Sbjct: 349 LKVLSFGT-HSETVSGRLFGDEELTPDMS------EERKHRIRMHY----KKMFLDYDQR 397

Query: 649 MKHLMVLTITLKSWQALKELLISQELQRSTQSLFLRCFNDSKSLDIFCLAGLRNLNKLYV 708
           +    +L   +     +K +     +      +     N    +    +  L  L  +Y 
Sbjct: 398 LNLSDLLQDAINRNPEMKPIKKDSRISLKDTQI-GNLTNRITFIS-KAIQRLTKLQIIYF 455

Query: 709 AGCK 712
           A   
Sbjct: 456 ANSP 459

>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 = 77.8 bits (192), Expect = 8e-16
 Identities = 48/233 (20%), Positives = 85/233 (36%), Gaps = 39/233 (16%)

Query: 484 LTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTD-DFFQSMPSL 542
           +T+     +   +  +S     +  +       +L+ L L DN +   TD    +++  +
Sbjct: 31  VTDTVTQADLDGITTLSAFGTGVTTIEGVQYLNNLIGLELKDNQI---TDLAPLKNLTKI 87

Query: 543 RVFNMSNNHLLWKLPSGISTLVSLEHLDLSSTAITHLPIELQKLVNLKCLNLEYMNNLNQ 602
               +S N L  K  S I+ L S++ LDL+ST IT +   L  L NL+ L L+  N +  
Sbjct: 88  TELELSGNPL--KNVSAIAGLQSIKTLDLTSTQITDVT-PLAGLSNLQVLYLDL-NQITN 143

Query: 603 FPRLVISAFSKLQVLRMFDCGGSKIERLKINVLFGGHQFLVEELMGMKHLMVLTIT---L 659
                IS  + L  L+    G +++  L               L  +  L  L      +
Sbjct: 144 -----ISPLAGLTNLQYLSIGNAQVSDL-------------TPLANLSKLTTLKADDNKI 185

Query: 660 KSWQALKELLISQELQRSTQSLFLRCFNDSKSLDIFCLAGLRNLNKLYVAGCK 712
                L  L    E+             +++  D+  LA   NL  + +    
Sbjct: 186 SDISPLASLPNLIEV----------HLKNNQISDVSPLANTSNLFIVTLTNQT 228

>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 = 75.5 bits (186), Expect = 5e-15
 Identities = 34/224 (15%), Positives = 81/224 (36%), Gaps = 37/224 (16%)

Query: 492 NWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNH 551
              N  +++  K+ + +         + +L      +     +  Q + +L    + +N 
Sbjct: 17  ALANAIKIAAGKSNVTDTVTQADLDGITTLSAFGTGVTTI--EGVQYLNNLIGLELKDNQ 74

Query: 552 LLWKLPSGISTLVSLEHLDLSSTAITHLPIELQKLVNLKCLNLEYMNNLNQFPRLVISAF 611
           +     + +  L  +  L+LS   + ++   +  L ++K L+L     +       ++  
Sbjct: 75  I--TDLAPLKNLTKITELELSGNPLKNVS-AIAGLQSIKTLDLTS-TQITD-----VTPL 125

Query: 612 SKLQVLRMFDCGGSKIERLKINVLFGGHQFLVEELMGMKHLMVLTIT---LKSWQALKEL 668
           + L  L++     ++I  +               L G+ +L  L+I    +     L  L
Sbjct: 126 AGLSNLQVLYLDLNQITNI-------------SPLAGLTNLQYLSIGNAQVSDLTPLANL 172

Query: 669 LISQELQRSTQSLFLRCFNDSKSLDIFCLAGLRNLNKLYVAGCK 712
                      +L     +D+K  DI  LA L NL ++++   +
Sbjct: 173 -------SKLTTLKA---DDNKISDISPLASLPNLIEVHLKNNQ 206

>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 = 75.1 bits (185), Expect = 7e-15
 Identities = 38/218 (17%), Positives = 78/218 (35%), Gaps = 47/218 (21%)

Query: 483 GLTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSL 542
           G+T    +Q   N+  + L  N+I +L+       +  L LS N LK         + S+
Sbjct: 52  GVTTIEGVQYLNNLIGLELKDNQITDLAPLKNLTKITELELSGNPLK--NVSAIAGLQSI 109

Query: 543 RVFNMSNNHL-----LWKLP---------------SGISTLVSLEHLDLSSTAITHLPIE 582
           +  ++++  +     L  L                S ++ L +L++L + +  ++ L   
Sbjct: 110 KTLDLTSTQITDVTPLAGLSNLQVLYLDLNQITNISPLAGLTNLQYLSIGNAQVSDLT-P 168

Query: 583 LQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKINVLFGGHQFL 642
           L  L  L  L  +  N ++      IS  + L  L       ++I  +            
Sbjct: 169 LANLSKLTTLKADD-NKISD-----ISPLASLPNLIEVHLKNNQISDV------------ 210

Query: 643 VEELMGMKHLMVL-----TITLKSWQALKELLISQELQ 675
              L    +L ++     TIT +       L++   ++
Sbjct: 211 -SPLANTSNLFIVTLTNQTITNQPVFYNNNLVVPNVVK 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 = 64.7 bits (158), Expect = 2e-11
 Identities = 26/126 (20%), Positives = 54/126 (42%), Gaps = 6/126 (4%)

Query: 484 LTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLR 543
           +T    +    N++ +S+   ++ +L+       L +L   DN  K+S      S+P+L 
Sbjct: 141 ITNISPLAGLTNLQYLSIGNAQVSDLTPLANLSKLTTLKADDN--KISDISPLASLPNLI 198

Query: 544 VFNMSNNHLLWKLPSGISTLVSLEHLDLSSTAITHLPIELQKLVNLKCLNLEYMNNLNQF 603
             ++ NN +   + S ++   +L  + L++  IT+ P+      NL   N+    +    
Sbjct: 199 EVHLKNNQIS-DV-SPLANTSNLFIVTLTNQTITNQPVFYNN--NLVVPNVVKGPSGAPI 254

Query: 604 PRLVIS 609
               IS
Sbjct: 255 APATIS 260

>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 = 79.0 bits (194), Expect = 2e-15
 Identities = 43/233 (18%), Positives = 85/233 (36%), Gaps = 43/233 (18%)

Query: 490 IQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSN 549
              +    + +L K  + +         +  +  +++ +   +    Q +P++    ++ 
Sbjct: 17  DDAFAETIKDNLKKKSVTDAVTQNELNSIDQIIANNSDI--KSVQGIQYLPNVTKLFLNG 74

Query: 550 NHLLWKLPSGISTLVSLEHLDLSSTAITHLPIELQKLVNLKCLNLEYMNNLNQFPRLVIS 609
           N L       ++ L +L  L L    I  L   L+ L  LK L+LE+ N ++      I+
Sbjct: 75  NKL--TDIKPLTNLKNLGWLFLDENKIKDLS-SLKDLKKLKSLSLEH-NGISD-----IN 125

Query: 610 AFSKLQVLRMFDCGGSKIERLKINVLFGGHQFLVEELMGMKHLMVLTI------TLKSWQ 663
               L  L     G +KI  +               L  +  L  L++       +    
Sbjct: 126 GLVHLPQLESLYLGNNKITDI-------------TVLSRLTKLDTLSLEDNQISDIVPLA 172

Query: 664 ALKELLISQELQRSTQSLFLRCFNDSKSLDIFCLAGLRNLNKLYVAGCKHLED 716
            L +L          Q+L+L   + +   D+  LAGL+NL+ L +   + L  
Sbjct: 173 GLTKL----------QNLYL---SKNHISDLRALAGLKNLDVLELFSQECLNK 212

>1m9s_A Internalin B; cell invasion, GW domains, SH3 domains, signaling protein; 2.65A {Listeria monocytogenes} SCOP: b.1.18.15 b.34.11.1 b.34.11.1 b.34.11.1 c.10.2.1 PDB: 2y5q_A Length = 605

 Score = 78.2 bits (192), Expect = 3e-15
 Identities = 42/252 (16%), Positives = 89/252 (35%), Gaps = 35/252 (13%)

Query: 483 GLTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSL 542
            +T+A       ++ ++    + I+++      P++  LFL+ N L         ++ +L
Sbjct: 32  SVTDAVTQNELNSIDQIIANNSDIKSVQGIQYLPNVTKLFLNGNKLTDIKP--LTNLKNL 89

Query: 543 RVFNMSNNHLLWKLPSGISTLVSLEHLDLSSTAITHLPIELQKLVNLKCLNLEYMNNLNQ 602
               +  N +  K  S +  L  L+ L L    I+ +   L  L  L+ L L   N +  
Sbjct: 90  GWLFLDENKI--KDLSSLKDLKKLKSLSLEHNGISDIN-GLVHLPQLESLYLGN-NKITD 145

Query: 603 FPRLVISAFSKLQVLRMFDCGGSKIERL-------KINVLFGGHQFL--VEELMGMKHLM 653
                I+  S+L  L       ++I  +       K+  L+     +  +  L G+K+L 
Sbjct: 146 -----ITVLSRLTKLDTLSLEDNQISDIVPLAGLTKLQNLYLSKNHISDLRALAGLKNLD 200

Query: 654 VL-----TITLKSWQALKELLISQELQRSTQSLFLRCFNDSKSLDIFCLAGLRNLNKLYV 708
           VL         K       L++   ++            D   +    ++   +  K  V
Sbjct: 201 VLELFSQECLNKPINHQSNLVVPNTVK----------NTDGSLVTPEIISDDGDYEKPNV 250

Query: 709 AGCKHLEDSQMT 720
                   ++++
Sbjct: 251 KWHLPEFTNEVS 262

>1h6t_A Internalin B; cell adhesion, leucine rich repeat, IG-like domain, EF-hand domain; 1.6A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 PDB: 2wqu_A 2uzy_A 2uzx_A 2wqv_A* 2wqw_A 2wqx_A 1d0b_A 1otn_A 1oto_A 1otm_A Length = 291

 Score = 76.2 bits (188), Expect = 2e-15
 Identities = 43/199 (21%), Positives = 77/199 (38%), Gaps = 31/199 (15%)

Query: 483 GLTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTD-DFFQSMPS 541
            +     IQ   NV ++ L  NK+ ++       +L  LFL +N +    D    + +  
Sbjct: 57  DIKSVQGIQYLPNVTKLFLNGNKLTDIKPLANLKNLGWLFLDENKV---KDLSSLKDLKK 113

Query: 542 LRVFNMSNNHLLWKLPSGISTLVSLEHLDLSSTAITHLPIELQKLVNLKCLNLEYMNNLN 601
           L+  ++ +N +     +G+  L  LE L L +  IT + + L +L  L  L+LE  N ++
Sbjct: 114 LKSLSLEHNGI--SDINGLVHLPQLESLYLGNNKITDITV-LSRLTKLDTLSLED-NQIS 169

Query: 602 QFPRLVISAFSKLQVLRMFDCGGSKIERLKINVLFGGHQFLVEELMGMKHLMVL-----T 656
                 I   + L  L+      + I  L               L G+K+L VL      
Sbjct: 170 D-----IVPLAGLTKLQNLYLSKNHISDL-------------RALAGLKNLDVLELFSQE 211

Query: 657 ITLKSWQALKELLISQELQ 675
              K       L++   ++
Sbjct: 212 CLNKPINHQSNLVVPNTVK 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 = 75.1 bits (185), Expect = 6e-15
 Identities = 42/227 (18%), Positives = 84/227 (37%), Gaps = 43/227 (18%)

Query: 492 NWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNH 551
            +    + +L K  + +         +  +  +++ +K       Q +P++    ++ N 
Sbjct: 22  AFAETIKDNLKKKSVTDAVTQNELNSIDQIIANNSDIKSV--QGIQYLPNVTKLFLNGNK 79

Query: 552 LLWKLPSGISTLVSLEHLDLSSTAITHLPIELQKLVNLKCLNLEYMNNLNQFPRLVISAF 611
           L       ++ L +L  L L    +  L   L+ L  LK L+LE+ N ++      I+  
Sbjct: 80  L--TDIKPLANLKNLGWLFLDENKVKDLS-SLKDLKKLKSLSLEH-NGISD-----INGL 130

Query: 612 SKLQVLRMFDCGGSKIERLKINVLFGGHQFLVEELMGMKHLMVLTI------TLKSWQAL 665
             L  L     G +KI  +               L  +  L  L++       +     L
Sbjct: 131 VHLPQLESLYLGNNKITDI-------------TVLSRLTKLDTLSLEDNQISDIVPLAGL 177

Query: 666 KELLISQELQRSTQSLFLRCFNDSKSLDIFCLAGLRNLNKLYVAGCK 712
            +L          Q+L+L   + +   D+  LAGL+NL+ L +   +
Sbjct: 178 TKL----------QNLYL---SKNHISDLRALAGLKNLDVLELFSQE 211

>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 = 51.2 bits (123), Expect = 4e-07
 Identities = 24/131 (18%), Positives = 53/131 (40%), Gaps = 5/131 (3%)

Query: 483 GLTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSL 542
            +T+   +     +  +SL  N+I ++        L +L+LS N +  S       + +L
Sbjct: 145 KITDITVLSRLTKLDTLSLEDNQISDIVPLAGLTKLQNLYLSKNHI--SDLRALAGLKNL 202

Query: 543 RVFNMSNNHLLWKLPSGISTLVSLEHLDLSSTAITHLPIELQKLVNLKCLNLEYMNNLNQ 602
            V  + +   L K  +  S LV    +  +  ++   P  +    + +  N+++  +L +
Sbjct: 203 DVLELFSQECLNKPINHQSNLVVPNTVKNTDGSLVT-PEIISDDGDYEKPNVKW--HLPE 259

Query: 603 FPRLVISAFSK 613
           F   V   F +
Sbjct: 260 FTNEVSFIFYQ 270

>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 = 43.1 bits (102), Expect = 2e-04
 Identities = 25/167 (14%), Positives = 57/167 (34%), Gaps = 29/167 (17%)

Query: 558 SGISTLVSLEHLDLSSTAITHLPIELQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVL 617
                       +L   ++T   +   +L ++  +     +++       +     L  +
Sbjct: 18  FSDDAFAETIKDNLKKKSVTDA-VTQNELNSIDQIIA-NNSDIKS-----VQGIQYLPNV 70

Query: 618 RMFDCGGSKIERL-------KINVLFGGHQFL--VEELMGMKHLMVLTIT---LKSWQAL 665
                 G+K+  +        +  LF     +  +  L  +K L  L++    +     L
Sbjct: 71  TKLFLNGNKLTDIKPLANLKNLGWLFLDENKVKDLSSLKDLKKLKSLSLEHNGISDINGL 130

Query: 666 KELLISQELQRSTQSLFLRCFNDSKSLDIFCLAGLRNLNKLYVAGCK 712
             L    +L    +SL+L    ++K  DI  L+ L  L+ L +   +
Sbjct: 131 VHL---PQL----ESLYL---GNNKITDITVLSRLTKLDTLSLEDNQ 167

>3o53_A Protein LRIM1, AGAP006348-PA; leucine-rich repeat, protein binding; HET: NAG; 2.00A {Anopheles gambiae} Length = 317

 Score = 76.2 bits (188), Expect = 3e-15
 Identities = 29/174 (16%), Positives = 56/174 (32%), Gaps = 25/174 (14%)

Query: 490 IQNWRNVRRMSLMKNKIENLSETP--TCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNM 547
            QN    +   +  + ++    +   +  ++  L LS N L   +         L + N+
Sbjct: 6   KQNGNRYKIEKVTDSSLKQALASLRQSAWNVKELDLSGNPLSQISAADLAPFTKLELLNL 65

Query: 548 SNNHL-----LWKLP------------SGISTLVSLEHLDLSSTAITHLPIELQKLVNLK 590
           S+N L     L  L               +    S+E L  ++  I+ +          K
Sbjct: 66  SSNVLYETLDLESLSTLRTLDLNNNYVQELLVGPSIETLHAANNNISRVSCSR--GQGKK 123

Query: 591 CLNLEYMNNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKINVLFGGHQFLVE 644
            + L   N +     L     S++Q L   D   ++I+ +    L      L  
Sbjct: 124 NIYLAN-NKITMLRDLDEGCRSRVQYL---DLKLNEIDTVNFAELAASSDTLEH 173

>3o53_A Protein LRIM1, AGAP006348-PA; leucine-rich repeat, protein binding; HET: NAG; 2.00A {Anopheles gambiae} Length = 317

 Score = 75.0 bits (185), Expect = 9e-15
 Identities = 26/167 (15%), Positives = 58/167 (34%), Gaps = 27/167 (16%)

Query: 484 LTEAPEIQNWRNVRRMSLMKNKIENLSETP------------------TCPHLLSLFLSD 525
           L E  ++++   +R + L  N ++ L   P                        +++L++
Sbjct: 70  LYETLDLESLSTLRTLDLNNNYVQELLVGPSIETLHAANNNISRVSCSRGQGKKNIYLAN 129

Query: 526 NSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSG--ISTLVSLEHLDLSSTAITHLPIEL 583
           N + M  D        ++  ++  N +   +      ++  +LEHL+L    I  +  ++
Sbjct: 130 NKITMLRDLDEGCRSRVQYLDLKLNEID-TVNFAELAASSDTLEHLNLQYNFIYDVKGQV 188

Query: 584 QKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFDCGGSKIERL 630
                LK L+L   N L          F     +       +K+  +
Sbjct: 189 V-FAKLKTLDLSS-NKLAFMG----PEFQSAAGVTWISLRNNKLVLI 229

>3o53_A Protein LRIM1, AGAP006348-PA; leucine-rich repeat, protein binding; HET: NAG; 2.00A {Anopheles gambiae} Length = 317

 Score = 71.6 bits (176), Expect = 1e-13
 Identities = 20/161 (12%), Positives = 48/161 (29%), Gaps = 17/161 (10%)

Query: 489 EIQNWRNVRRMSLMKNKIENLSE---TPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVF 545
           +      V+ + L  N+I+ ++      +   L  L L  N +             L+  
Sbjct: 139 DEGCRSRVQYLDLKLNEIDTVNFAELAASSDTLEHLNLQYNFIYDVKGQVV--FAKLKTL 196

Query: 546 NMSNNHLLWKLPSGISTLVSLEHLDLSSTAITHLPIELQKLVNLKCLNLEY--------- 596
           ++S+N L   +     +   +  + L +  +  +   L+   NL+  +L           
Sbjct: 197 DLSSNKLA-FMGPEFQSAAGVTWISLRNNKLVLIEKALRFSQNLEHFDLRGNGFHCGTLR 255

Query: 597 --MNNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKINVL 635
              +   +   +      KL      +C    +        
Sbjct: 256 DFFSKNQRVQTVAKQTVKKLTGQNEEECTVPTLGHYGAYCC 296

>3o53_A Protein LRIM1, AGAP006348-PA; leucine-rich repeat, protein binding; HET: NAG; 2.00A {Anopheles gambiae} Length = 317

 Score = 55.0 bits (133), Expect = 3e-08
 Identities = 20/98 (20%), Positives = 40/98 (40%), Gaps = 7/98 (7%)

Query: 534 DFFQSMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSSTAITHLPIE-LQKLVNLKCL 592
           +  Q+    ++  ++++ L   L S   +  +++ LDLS   ++ +    L     L+ L
Sbjct: 4   EIKQNGNRYKIEKVTDSSLKQALASLRQSAWNVKELDLSGNPLSQISAADLAPFTKLELL 63

Query: 593 NLEYMNNLNQFPRLVISAFSKLQVLRMFDCGGSKIERL 630
           NL   N L +           L  LR  D   + ++ L
Sbjct: 64  NLSS-NVLYE-----TLDLESLSTLRTLDLNNNYVQEL 95

>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 = 74.6 bits (184), Expect = 7e-15
 Identities = 37/162 (22%), Positives = 56/162 (34%), Gaps = 11/162 (6%)

Query: 481 GLGLTEAPE-IQNWRNVRRMSLMKNKIENLSET--PTCPHLLSLFLSDNSLKMSTDDFFQ 537
             GL   P  I      +R+ L  N+I ++       C +L  L+L  N L       F 
Sbjct: 20  QQGLQAVPVGIP--AASQRIFLHGNRISHVPAASFRACRNLTILWLHSNVLARIDAAAFT 77

Query: 538 SMPSLRVFNMSNNHLLWKLPSGI-STLVSLEHLDLSSTAITHLPIE-LQKLVNLKCLNLE 595
            +  L   ++S+N  L  +       L  L  L L    +  L     + L  L+ L L+
Sbjct: 78  GLALLEQLDLSDNAQLRSVDPATFHGLGRLHTLHLDRCGLQELGPGLFRGLAALQYLYLQ 137

Query: 596 YMNNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKINVLFG 637
             N L   P      F  L  L      G++I  +      G
Sbjct: 138 D-NALQALPD---DTFRDLGNLTHLFLHGNRISSVPERAFRG 175

>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 = 70.4 bits (173), Expect = 2e-13
 Identities = 33/152 (21%), Positives = 58/152 (38%), Gaps = 10/152 (6%)

Query: 491 QNWRNVRRMSLMKNKIENLSET--PTCPHLLSLFLSDNS-LKMSTDDFFQSMPSLRVFNM 547
           +  RN+  + L  N +  +          L  L LSDN+ L+      F  +  L   ++
Sbjct: 53  RACRNLTILWLHSNVLARIDAAAFTGLALLEQLDLSDNAQLRSVDPATFHGLGRLHTLHL 112

Query: 548 SNNHLLWKLPSGI-STLVSLEHLDLSSTAITHLPIE-LQKLVNLKCLNLEYMNNLNQFPR 605
               L  +L  G+   L +L++L L   A+  LP +  + L NL  L L      N+   
Sbjct: 113 DRCGL-QELGPGLFRGLAALQYLYLQDNALQALPDDTFRDLGNLTHLFLHG----NRISS 167

Query: 606 LVISAFSKLQVLRMFDCGGSKIERLKINVLFG 637
           +   AF  L  L       +++  +  +    
Sbjct: 168 VPERAFRGLHSLDRLLLHQNRVAHVHPHAFRD 199

>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 = 58.5 bits (142), Expect = 2e-09
 Identities = 24/102 (23%), Positives = 41/102 (40%), Gaps = 5/102 (4%)

Query: 497 RRMSLMKNKIENLSET--PTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLW 554
           + + L  N ++ L +       +L  LFL  N +    +  F+ + SL    +  N +  
Sbjct: 132 QYLYLQDNALQALPDDTFRDLGNLTHLFLHGNRISSVPERAFRGLHSLDRLLLHQNRVAH 191

Query: 555 KLPSGI-STLVSLEHLDLSSTAITHLPIE-LQKLVNLKCLNL 594
            +       L  L  L L +  ++ LP E L  L  L+ L L
Sbjct: 192 -VHPHAFRDLGRLMTLYLFANNLSALPTEALAPLRALQYLRL 232

>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 = 43.8 bits (104), Expect = 1e-04
 Identities = 10/72 (13%), Positives = 30/72 (41%), Gaps = 8/72 (11%)

Query: 491 QNWRNVRRMSLMKNKIENLSETP--TCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMS 548
           +   ++ R+ L +N++ ++          L++L+L  N+L     +    + +L+   ++
Sbjct: 174 RGLHSLDRLLLHQNRVAHVHPHAFRDLGRLMTLYLFANNLSALPTEALAPLRALQYLRLN 233

Query: 549 NN------HLLW 554
           +N          
Sbjct: 234 DNPWVCDCRARP 245

>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 = 76.7 bits (189), Expect = 8e-15
 Identities = 38/246 (15%), Positives = 87/246 (35%), Gaps = 35/246 (14%)

Query: 490 IQNWRNVRRMSLMKNKIENLSETP--TCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNM 547
           ++   N++ + L  ++I  +      +   L  L LSDN L   +  +F  + SL+  N+
Sbjct: 46  LRACANLQVLILKSSRINTIEGDAFYSLGSLEHLDLSDNHLSSLSSSWFGPLSSLKYLNL 105

Query: 548 SNNHL-----------LWKL---------------PSGISTLVSLEHLDLSSTAITHLPI 581
             N             L  L                   + L SL  L++ + ++ +   
Sbjct: 106 MGNPYQTLGVTSLFPNLTNLQTLRIGNVETFSEIRRIDFAGLTSLNELEIKALSLRNYQS 165

Query: 582 E-LQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKINVLFGGHQ 640
           + L+ + ++  L L   +       +     S ++ L + D     + R + + L     
Sbjct: 166 QSLKSIRDIHHLTLHL-SESAFLLEIFADILSSVRYLELRDT---NLARFQFSPLPVDEV 221

Query: 641 FLVEELMGMKHLMVLTITLKSWQALKELLIS-QELQRSTQSL-FLRCFNDSKSLDIFCLA 698
               + +  +  ++   +      L   ++   E++    +L  L  FN S+S  +  L 
Sbjct: 222 SSPMKKLAFRGSVLTDESFNELLKLLRYILELSEVEFDDCTLNGLGDFNPSESDVVSELG 281

Query: 699 GLRNLN 704
            +  + 
Sbjct: 282 KVETVT 287

>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 = 70.9 bits (174), Expect = 6e-13
 Identities = 33/174 (18%), Positives = 63/174 (36%), Gaps = 32/174 (18%)

Query: 475 NFLVHAGLGLTEAPEIQNWRNVRRMSLMKNKIENLSETP----TCPHLLSLFLSDNSLKM 530
           N +V     L  +     W +++ + L +N + ++ +T     T  +L SL +S N+   
Sbjct: 344 NLMVE--EYLKNSACKGAWPSLQTLVLSQNHLRSMQKTGEILLTLKNLTSLDISRNTFH- 400

Query: 531 STDDFFQSMPSLRVFNMSNNHLLWKLPSGIST------------------LVSLEHLDLS 572
              D  Q    +R  N+S+  +   + + I                    L  L+ L +S
Sbjct: 401 PMPDSCQWPEKMRFLNLSSTGIR-VVKTCIPQTLEVLDVSNNNLDSFSLFLPRLQELYIS 459

Query: 573 STAITHLPIELQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRM----FDC 622
              +  LP        L  + +   N L   P  +    + LQ + +    +DC
Sbjct: 460 RNKLKTLPDASL-FPVLLVMKISR-NQLKSVPDGIFDRLTSLQKIWLHTNPWDC 511

>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 = 39/218 (17%), Positives = 76/218 (34%), Gaps = 39/218 (17%)

Query: 508 NLSETPT--CPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGI-STLV 564
           + +  P+     + SL LS N +        ++  +L+V  + ++  +  +      +L 
Sbjct: 16  SFTSIPSGLTAAMKSLDLSFNKITYIGHGDLRACANLQVLILKSSR-INTIEGDAFYSLG 74

Query: 565 SLEHLDLSSTAITHLPIE-LQKLVNLKCLNLEYMNNLNQFP-RLVISAFSKLQVLRMFDC 622
           SLEHLDLS   ++ L       L +LK LNL   N         +    + LQ LR+ + 
Sbjct: 75  SLEHLDLSDNHLSSLSSSWFGPLSSLKYLNLMG-NPYQTLGVTSLFPNLTNLQTLRIGNV 133

Query: 623 GGSKIERLKINVLFGGHQFLVEELMGMKHLMVL--------TITLKSWQALKELLISQEL 674
                  ++                G+  L  L            +S ++++++      
Sbjct: 134 --ETFSEIRRID-----------FAGLTSLNELEIKALSLRNYQSQSLKSIRDI------ 174

Query: 675 QRSTQSLFLRCFNDSKSLDIFCLAGLRNLNKLYVAGCK 712
                 L L   ++S  L       L ++  L +    
Sbjct: 175 ----HHLTLH-LSESAFLLEIFADILSSVRYLELRDTN 207

>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 = 60.5 bits (147), Expect = 9e-10
 Identities = 29/217 (13%), Positives = 78/217 (35%), Gaps = 34/217 (15%)

Query: 515 CPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSST 574
           C        + +   + ++       ++R  ++   +L + L +  S L  ++ + + ++
Sbjct: 261 CTLNGLGDFNPSESDVVSELGKVETVTIRRLHIPQFYLFYDLSTVYSLLEKVKRITVENS 320

Query: 575 AITHLPIE-LQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKIN 633
            +  +P    Q L +L+ L+L   N + +      +       L+      + +  ++  
Sbjct: 321 KVFLVPCSFSQHLKSLEFLDLSE-NLMVEEYLKNSACKGAWPSLQTLVLSQNHLRSMQKT 379

Query: 634 VLFGGHQFLVEELMGMKHLMVLTI----------TLKSWQALKELLIS--------QELQ 675
                       L+ +K+L  L I          + +  + ++ L +S          + 
Sbjct: 380 GEI---------LLTLKNLTSLDISRNTFHPMPDSCQWPEKMRFLNLSSTGIRVVKTCIP 430

Query: 676 RSTQSLFLRCFNDSKSLDIFCLAGLRNLNKLYVAGCK 712
           ++ + L +   N+  S        L  L +LY++  K
Sbjct: 431 QTLEVLDVS-NNNLDSFS----LFLPRLQELYISRNK 462

>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 = 56.7 bits (137), Expect = 2e-08
 Identities = 26/233 (11%), Positives = 63/233 (27%), Gaps = 28/233 (12%)

Query: 484 LTEAPEIQNWRNVRRMSL-MKNKIENLSETP--TCPHLLSLFLSDNSLKMSTDDFFQSMP 540
           L       N  N++ + +        +          L  L +   SL+       +S+ 
Sbjct: 113 LGVTSLFPNLTNLQTLRIGNVETFSEIRRIDFAGLTSLNELEIKALSLRNYQSQSLKSIR 172

Query: 541 SLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSSTAITHLPIE-LQKLVNLKCLNLEYMNN 599
            +    +  +   + L      L S+ +L+L  T +       L        +       
Sbjct: 173 DIHHLTLHLSESAFLLEIFADILSSVRYLELRDTNLARFQFSPLPVDEVSSPMKKLA-FR 231

Query: 600 LNQFPRLVISAFSKLQVLRMFDCGGSKIERLKINVLFGGHQFLVEELMGMKHLMVLTITL 659
            +       +   KL    + +    + +   +N L   +    + +  +  +  +T   
Sbjct: 232 GSVLTDESFNELLKLLRY-ILELSEVEFDDCTLNGLGDFNPSESDVVSELGKVETVT--- 287

Query: 660 KSWQALKELLISQELQRSTQSLFLRCFNDSKSLDIFCLAGLRNLNKLYVAGCK 712
                ++ L I Q                         + L  + ++ V   K
Sbjct: 288 -----IRRLHIPQ--------------FYLFYDLSTVYSLLEKVKRITVENSK 321

>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 = 43.2 bits (102), Expect = 2e-04
 Identities = 31/163 (19%), Positives = 56/163 (34%), Gaps = 28/163 (17%)

Query: 565 SLEHLDLSSTAITHLPIELQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFDCGG 624
           +    D  S + T +P  L     +K L+L + N +       + A + LQVL +     
Sbjct: 6   ASGVCDGRSRSFTSIPSGL--TAAMKSLDLSF-NKITYIGHGDLRACANLQVLILKSS-- 60

Query: 625 SKIERLKINVLFGGHQFLVEELM---------------GMKHLMVLTITLKSWQALKELL 669
            +I  ++ +  F     L E L                 +  L  L +        + L 
Sbjct: 61  -RINTIEGDA-FYSLGSL-EHLDLSDNHLSSLSSSWFGPLSSLKYLNL---MGNPYQTLG 114

Query: 670 ISQELQRST--QSLFLRCFNDSKSLDIFCLAGLRNLNKLYVAG 710
           ++      T  Q+L +        +     AGL +LN+L +  
Sbjct: 115 VTSLFPNLTNLQTLRIGNVETFSEIRRIDFAGLTSLNELEIKA 157

>2z80_A TOLL-like receptor 2, variable lymphocyte recepto; TLR2, lipopeptide, innate immunity, glycoprotein, immune RES inflammatory response; HET: NAG; 1.80A {Homo sapiens} Length = 353

 Score = 75.5 bits (186), Expect = 9e-15
 Identities = 33/225 (14%), Positives = 74/225 (32%), Gaps = 16/225 (7%)

Query: 491 QNWRNVRRMSLMKNKIENLSET--PTCPHLLSLFLSDNSLKM-STDDFFQSMPSLRVFNM 547
            +  ++  + L  N + NLS +       L  L L  N  K       F  +  L++  +
Sbjct: 97  SSLGSLEHLDLSYNYLSNLSSSWFKPLSSLTFLNLLGNPYKTLGETSLFSHLTKLQILRV 156

Query: 548 SNNHLLWKLPSGI-STLVSLEHLDLSSTAITHLPIE-LQKLVNLKCLNLEYMNNLNQFPR 605
            N     K+     + L  LE L++ ++ +     + L+ + N+  L L           
Sbjct: 157 GNMDTFTKIQRKDFAGLTFLEELEIDASDLQSYEPKSLKSIQNVSHLILHM-KQHILLLE 215

Query: 606 LVISAFSKLQVLRMFDCGGSKIERLKINVLFGGHQFLVEELMGMKHLMVLTITLKSWQAL 665
           +          +   +   + ++    + L  G    + +    +++ +   +L     L
Sbjct: 216 I---FVDVTSSVECLELRDTDLDTFHFSELSTGETNSLIKKFTFRNVKITDESLFQVMKL 272

Query: 666 KELLISQELQRSTQSLFLRCFNDSKSLDIFCLAGLRNLNKLYVAG 710
              +           L     N  KS+       L +L K+++  
Sbjct: 273 LNQI------SGLLELEFS-RNQLKSVPDGIFDRLTSLQKIWLHT 310

>2z80_A TOLL-like receptor 2, variable lymphocyte recepto; TLR2, lipopeptide, innate immunity, glycoprotein, immune RES inflammatory response; HET: NAG; 1.80A {Homo sapiens} Length = 353

 Score = 66.3 bits (162), Expect = 9e-12
 Identities = 33/133 (24%), Positives = 56/133 (42%), Gaps = 6/133 (4%)

Query: 495 NVRRMSLMKNKIENLSET--PTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHL 552
            V+ + L  N+I  +S +    C +L +L L+ N +    +D F S+ SL   ++S N+L
Sbjct: 53  AVKSLDLSNNRITYISNSDLQRCVNLQALVLTSNGINTIEEDSFSSLGSLEHLDLSYNYL 112

Query: 553 LWKLPSGI-STLVSLEHLDLSSTAITHLP--IELQKLVNLKCLNLEYMNNLNQFPRLVIS 609
              L S     L SL  L+L       L        L  L+ L +  M+   +  R   +
Sbjct: 113 S-NLSSSWFKPLSSLTFLNLLGNPYKTLGETSLFSHLTKLQILRVGNMDTFTKIQRKDFA 171

Query: 610 AFSKLQVLRMFDC 622
             + L+ L +   
Sbjct: 172 GLTFLEELEIDAS 184

>2z80_A TOLL-like receptor 2, variable lymphocyte recepto; TLR2, lipopeptide, innate immunity, glycoprotein, immune RES inflammatory response; HET: NAG; 1.80A {Homo sapiens} Length = 353

 Score = 59.0 bits (143), Expect = 2e-09
 Identities = 32/125 (25%), Positives = 55/125 (44%), Gaps = 7/125 (5%)

Query: 516 PHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGI-STLVSLEHLDLSST 574
             + SL LS+N +   ++   Q   +L+   +++N +   +     S+L SLEHLDLS  
Sbjct: 52  EAVKSLDLSNNRITYISNSDLQRCVNLQALVLTSNGIN-TIEEDSFSSLGSLEHLDLSYN 110

Query: 575 AITHLPIEL-QKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFDCGG-SKIERLKI 632
            +++L     + L +L  LNL   N          S FS L  L++   G      +++ 
Sbjct: 111 YLSNLSSSWFKPLSSLTFLNLLG-NPYKTLGET--SLFSHLTKLQILRVGNMDTFTKIQR 167

Query: 633 NVLFG 637
               G
Sbjct: 168 KDFAG 172

>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 = 8e-07
 Identities = 38/206 (18%), Positives = 64/206 (31%), Gaps = 56/206 (27%)

Query: 514 TCPHLLSLFLSDNSLKMSTDDFFQSMPS-----LRVFNMSNNHLLWKLPSGI-STLVSLE 567
           +C        S  SL         S+PS     ++  ++SNN +   + +      V+L+
Sbjct: 29  SCDRNGICKGSSGSLN--------SIPSGLTEAVKSLDLSNNRI-TYISNSDLQRCVNLQ 79

Query: 568 HLDLSSTAITHLPIEL-QKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFDCGGSK 626
            L L+S  I  +  +    L +L+ L+L Y N L+       S F  L  L   +  G+ 
Sbjct: 80  ALVLTSNGINTIEEDSFSSLGSLEHLDLSY-NYLSNLSS---SWFKPLSSLTFLNLLGNP 135

Query: 627 IERLKINVLFGGHQFLVEELMGMKHLMVLTITLKSWQALKELLISQELQRSTQSLFLRCF 686
            + L    LF                                          Q L +   
Sbjct: 136 YKTLGETSLFSH------------------------------------LTKLQILRVGNM 159

Query: 687 NDSKSLDIFCLAGLRNLNKLYVAGCK 712
           +    +     AGL  L +L +    
Sbjct: 160 DTFTKIQRKDFAGLTFLEELEIDASD 185

>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 = 76.6 bits (189), Expect = 1e-14
 Identities = 26/155 (16%), Positives = 52/155 (33%), Gaps = 20/155 (12%)

Query: 483 GLTEAPEIQNWRNVRRMSLMKNKIENLS---------ETPTCPHLLSLFLSDNSLKMSTD 533
            +    + ++   +  +    N+I ++                ++ S+ LS+N +     
Sbjct: 391 YIPNIFDAKSVSVMSAIDFSYNEIGSVDGKNFDPLDPTPFKGINVSSINLSNNQISKFPK 450

Query: 534 DFFQSMPSLRVFNMSNNHL-------LWKLPSGISTLVSLEHLDLSSTAITHLP--IELQ 584
           + F +   L   N+  N L       L            L  +DL    +T L       
Sbjct: 451 ELFSTGSPLSSINLMGNMLTEIPKNSLKDENENFKNTYLLTSIDLRFNKLTKLSDDFRAT 510

Query: 585 KLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRM 619
            L  L  ++L Y N+ ++FP       S L+   +
Sbjct: 511 TLPYLVGIDLSY-NSFSKFPT-QPLNSSTLKGFGI 543

>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 = 73.9 bits (182), Expect = 8e-14
 Identities = 33/163 (20%), Positives = 61/163 (37%), Gaps = 16/163 (9%)

Query: 478 VHAGLGLTEAPEIQNWRNVRRMSLMKNKIENLSETP---TCPHLLSLFLSDNSLKMSTDD 534
           +       E    +N   +  + L  NK+  LS+     T P+L+ + LS NS       
Sbjct: 472 IPKNSLKDENENFKNTYLLTSIDLRFNKLTKLSDDFRATTLPYLVGIDLSYNSFS-KFPT 530

Query: 535 FFQSMPSLRVFNMSN------NHLLWKLPSGISTLVSLEHLDLSSTAITHLPIELQKLVN 588
              +  +L+ F + N      N  L + P GI+   SL  L + S  I  +  ++    N
Sbjct: 531 QPLNSSTLKGFGIRNQRDAQGNRTLREWPEGITLCPSLTQLQIGSNDIRKVNEKI--TPN 588

Query: 589 LKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLK 631
           +  L+++  N         +S         M+     K + ++
Sbjct: 589 ISVLDIKD-NPNISID---LSYVCPYIEAGMYMLFYDKTQDIR 627

>4eco_A Uncharacterized protein; leucine-rich repeats, protein binding, structural genomics, center for structural genomics, JCSG; 2.70A {Bacteroides eggerthii dsm 20697} Length = 636

 Score = 70.5 bits (173), Expect = 9e-13
 Identities = 23/245 (9%), Positives = 67/245 (27%), Gaps = 22/245 (8%)

Query: 488 PEIQNWRNVRRMSLMKNKIE------NLSETPTCPHLLSLFLSDNSL--KMSTDDFFQSM 539
             I     +  ++L  +  +                                  D  +  
Sbjct: 99  DAIGQLTELEVLALGSHGEKVNERLFGPKGISANMSDEQKQKMRMHYQKTFVDYDPREDF 158

Query: 540 PSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSSTAITHLPIELQKLVNLKCLNLEYMNN 599
             L    ++++     +       +    +   S  IT +   + +L  L+   +   + 
Sbjct: 159 SDLIKDCINSDPQQKSIKKSSRITLKDTQIGQLSNNITFVSKAVMRLTKLRQFYM-GNSP 217

Query: 600 LNQFPRLVISAFSKLQVLRMFDCGGSKIERLK--INVLFGGHQFLVE---ELMGMKHLMV 654
                          +  + +     K + LK   +V       L +    L  +  + +
Sbjct: 218 FVAENICEAWENENSEYAQQYKTEDLKWDNLKDLTDVEVYNCPNLTKLPTFLKALPEMQL 277

Query: 655 LT------ITLKSWQALKELLISQELQRSTQSLFLRCFNDSKSLDI-FCLAGLRNLNKLY 707
           +       I+ +  +   + L    +    Q +++  +N+ K+  +   L  ++ L  L 
Sbjct: 278 INVACNRGISGEQLKDDWQALADAPVGEKIQIIYIG-YNNLKTFPVETSLQKMKKLGMLE 336

Query: 708 VAGCK 712
               +
Sbjct: 337 CLYNQ 341

>4eco_A Uncharacterized protein; leucine-rich repeats, protein binding, structural genomics, center for structural genomics, JCSG; 2.70A {Bacteroides eggerthii dsm 20697} Length = 636

 Score = 70.1 bits (172), Expect = 1e-12
 Identities = 24/166 (14%), Positives = 59/166 (35%), Gaps = 16/166 (9%)

Query: 473 KENFLVHAGLGLTEAP-EIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMS 531
           K+  +      +T     +     +R+  +  +          C    +          +
Sbjct: 184 KDTQIGQLSNNITFVSKAVMRLTKLRQFYMGNSP---FVAENICEAWENENSEYAQQYKT 240

Query: 532 TDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSSTAITHLPI---------E 582
            D  + ++  L    + N   L KLP+ +  L  ++ ++++                  +
Sbjct: 241 EDLKWDNLKDLTDVEVYNCPNLTKLPTFLKALPEMQLINVACNRGISGEQLKDDWQALAD 300

Query: 583 LQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFDCGGSKIE 628
                 ++ + + Y NNL  FP  V ++  K++ L M +C  +++E
Sbjct: 301 APVGEKIQIIYIGY-NNLKTFP--VETSLQKMKKLGMLECLYNQLE 343

>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 = 51.6 bits (124), Expect = 7e-07
 Identities = 25/189 (13%), Positives = 59/189 (31%), Gaps = 17/189 (8%)

Query: 538 SMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSS-----TAITHLPIELQKLVNLKCL 592
           S   +   ++       ++P  I  L  LE L L S           P  +   ++ +  
Sbjct: 79  SNGRVTGLSLEGFGASGRVPDAIGQLTELEVLALGSHGEKVNERLFGPKGISANMSDEQK 138

Query: 593 NLEYMNNLNQFPRLVISA-FSKLQVLRMFDCGGSKIERLKINVLFGGHQFLVEELMGMKH 651
               M+    F        FS L    +     S  ++  I           +      +
Sbjct: 139 QKMRMHYQKTFVDYDPREDFSDLIKDCI----NSDPQQKSIKKSSRITLKDTQIGQLSNN 194

Query: 652 LMVLTITLKSWQALKEL------LISQELQRSTQSLFLRCFNDSKSLDIFCLAGLRNLNK 705
           +  ++  +     L++        +++ +  + ++         K+ D+     L++L  
Sbjct: 195 ITFVSKAVMRLTKLRQFYMGNSPFVAENICEAWENENSEYAQQYKTEDL-KWDNLKDLTD 253

Query: 706 LYVAGCKHL 714
           + V  C +L
Sbjct: 254 VEVYNCPNL 262

>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 = 43.1 bits (102), Expect = 3e-04
 Identities = 21/171 (12%), Positives = 47/171 (27%), Gaps = 18/171 (10%)

Query: 546 NMSNNHLLWKLPSGIS--TLVSLEHLDLSSTAIT-HLPIELQKLVNLKCLNLEYMNNLNQ 602
           N +    +W    G+S  +   +  L L     +  +P  + +L  L+ L L   +    
Sbjct: 61  NFNKELDMWGAQPGVSLNSNGRVTGLSLEGFGASGRVPDAIGQLTELEVLALGS-HGEKV 119

Query: 603 FPRLVI-SAFSKLQVLRMFDCGGSKIERLKINVLFGGHQFLVEELMGMKHLMVLTITLKS 661
             RL      S               ++  ++                    ++   + S
Sbjct: 120 NERLFGPKGISANMSDEQKQKMRMHYQKTFVD-----------YDPREDFSDLIKDCINS 168

Query: 662 WQALKELLISQELQRSTQSLFLRCFNDSKSLDIFCLAGLRNLNKLYVAGCK 712
               K +  S  +      +     N+   +    +  L  L + Y+    
Sbjct: 169 DPQQKSIKKSSRITLKDTQIGQL-SNNITFVSK-AVMRLTKLRQFYMGNSP 217

>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 = 76.0 bits (187), Expect = 1e-14
 Identities = 29/174 (16%), Positives = 56/174 (32%), Gaps = 25/174 (14%)

Query: 490 IQNWRNVRRMSLMKNKIENLSETP--TCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNM 547
            QN    +   +  + ++    +   +  ++  L LS N L   +         L + N+
Sbjct: 6   KQNGNRYKIEKVTDSSLKQALASLRQSAWNVKELDLSGNPLSQISAADLAPFTKLELLNL 65

Query: 548 SNNHL-----LWKLP------------SGISTLVSLEHLDLSSTAITHLPIELQKLVNLK 590
           S+N L     L  L               +    S+E L  ++  I+ +          K
Sbjct: 66  SSNVLYETLDLESLSTLRTLDLNNNYVQELLVGPSIETLHAANNNISRVSCSR--GQGKK 123

Query: 591 CLNLEYMNNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKINVLFGGHQFLVE 644
            + L   N +     L     S++Q L   D   ++I+ +    L      L  
Sbjct: 124 NIYLAN-NKITMLRDLDEGCRSRVQYL---DLKLNEIDTVNFAELAASSDTLEH 173

>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 = 5e-14
 Identities = 26/167 (15%), Positives = 58/167 (34%), Gaps = 27/167 (16%)

Query: 484 LTEAPEIQNWRNVRRMSLMKNKIENLSETP------------------TCPHLLSLFLSD 525
           L E  ++++   +R + L  N ++ L   P                        +++L++
Sbjct: 70  LYETLDLESLSTLRTLDLNNNYVQELLVGPSIETLHAANNNISRVSCSRGQGKKNIYLAN 129

Query: 526 NSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSG--ISTLVSLEHLDLSSTAITHLPIEL 583
           N + M  D        ++  ++  N +   +      ++  +LEHL+L    I  +  ++
Sbjct: 130 NKITMLRDLDEGCRSRVQYLDLKLNEID-TVNFAELAASSDTLEHLNLQYNFIYDVKGQV 188

Query: 584 QKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFDCGGSKIERL 630
                LK L+L   N L          F     +       +K+  +
Sbjct: 189 V-FAKLKTLDLSS-NKLAFMG----PEFQSAAGVTWISLRNNKLVLI 229

>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 = 26/233 (11%), Positives = 68/233 (29%), Gaps = 19/233 (8%)

Query: 489 EIQNWRNVRRMSLMKNKIENLSE---TPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVF 545
           +      V+ + L  N+I+ ++      +   L  L L  N +             L+  
Sbjct: 139 DEGCRSRVQYLDLKLNEIDTVNFAELAASSDTLEHLNLQYNFIYDVKGQVV--FAKLKTL 196

Query: 546 NMSNNHLLWKLPSGISTLVSLEHLDLSSTAITHLPIELQKLVNLKCLNLEY--------- 596
           ++S+N L + +     +   +  + L +  +  +   L+   NL+  +L           
Sbjct: 197 DLSSNKLAF-MGPEFQSAAGVTWISLRNNKLVLIEKALRFSQNLEHFDLRGNGFHCGTLR 255

Query: 597 --MNNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKINVLFGGHQFLVEELMGMKHLMV 654
              +   +   +      KL      +C    +                + L+ +K    
Sbjct: 256 DFFSKNQRVQTVAKQTVKKLTGQNEEECTVPTLGHYGAYCCEDLPAPFADRLIALKRKEH 315

Query: 655 LTITLKSWQALKELLISQELQRSTQSLFLRCFNDSKSLDIFCLAGLRNLNKLY 707
             ++       + L   +E Q   + +        +++        +    L 
Sbjct: 316 ALLSG-QGSETERLECERENQARQREIDAL-KEQYRTVIDQVTLRKQAKITLE 366

>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 = 51.8 bits (124), Expect = 5e-07
 Identities = 30/201 (14%), Positives = 54/201 (26%), Gaps = 9/201 (4%)

Query: 488 PEIQNWRNVRRMSLMKNKIENLSET-PTCPHLLSLFLSDNSLK-MSTDDFFQSMPSLRVF 545
           PE Q+   V  +SL  NK+  + +      +L    L  N     +  DFF     ++  
Sbjct: 208 PEFQSAAGVTWISLRNNKLVLIEKALRFSQNLEHFDLRGNGFHCGTLRDFFSKNQRVQTV 267

Query: 546 NMSNNHLLWKLPSGISTLVSLEHLDLSSTAITHLPIE-LQKLVNLKCLNLEYMNNLNQFP 604
                  L                   +     LP     +L+ LK      ++      
Sbjct: 268 AKQTVKKLTGQN--EEECTVPTLGHYGAYCCEDLPAPFADRLIALKRKEHALLSGQGSET 325

Query: 605 RLVISAFSKLQVLRMFDCGGSKIERLKINVLFGGHQFLVEELMGMKHLMVLTITLKSWQA 664
             +          R  D    +   +   V       +  E         ++   ++   
Sbjct: 326 ERLECERENQARQREIDALKEQYRTVIDQVTLRKQAKITLEQKKKALDEQVSNGRRAHAE 385

Query: 665 LKELLIS----QELQRSTQSL 681
           L   L       ELQ +T+  
Sbjct: 386 LDGTLQQAVGQIELQHATEEQ 406

>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 = 48.7 bits (116), Expect = 5e-06
 Identities = 24/177 (13%), Positives = 48/177 (27%), Gaps = 12/177 (6%)

Query: 499 MSLMKNKIENL-SETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLP 557
           +S   ++ E L  E         +       +   D       +          L  ++ 
Sbjct: 318 LSGQGSETERLECERENQARQREIDALKEQYRTVIDQVTLRKQAKITLEQKKKALDEQVS 377

Query: 558 SGISTLVSLEHLDLSSTAITHLPIELQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVL 617
           +G      L+     +     L    ++   L+ L              V     +   +
Sbjct: 378 NGRRAHAELDGTLQQAVGQIELQHATEEQSPLQLLRAIVKRYEEM---YVEQQSVQNNAI 434

Query: 618 RMFDCGGSKIERLKINVLFGGHQFLVEELMGMK--HLMVLTITLKSWQALKELLISQ 672
           R +D    K  +L            +++L G     L     TL+     ++ L SQ
Sbjct: 435 RDWDMYQHKETQLAEE------NARLKKLNGEADLALASANATLQELVVREQNLASQ 485

>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 = 71.5 bits (176), Expect = 2e-14
 Identities = 19/139 (13%), Positives = 50/139 (35%), Gaps = 10/139 (7%)

Query: 495 NVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTD-DFFQSMPSLRVFNMSNNHLL 553
           ++  ++L    + +L+      ++  L +++      T+ +    + +L    +    + 
Sbjct: 45  SLTYITLANINVTDLTGIEYAHNIKDLTINNIHA---TNYNPISGLSNLERLRIMGKDVT 101

Query: 554 WKLPSGISTLVSLEHLDLSSTAITHLPIE-LQKLVNLKCLNLEYMNNLNQFPRLVISAFS 612
                 +S L SL  LD+S +A     +  +  L  +  ++L Y   +       I    
Sbjct: 102 SDKIPNLSGLTSLTLLDISHSAHDDSILTKINTLPKVNSIDLSYNGAITD-----IMPLK 156

Query: 613 KLQVLRMFDCGGSKIERLK 631
            L  L+  +     +   +
Sbjct: 157 TLPELKSLNIQFDGVHDYR 175

>4ezg_A Putative uncharacterized protein; internalin-A, leucine-rich repeat protein, structural genomi center for structural genomics, JCSG; HET: MSE; 1.50A {Listeria monocytogenes} Length = 197

 Score = 70.4 bits (173), Expect = 5e-14
 Identities = 26/146 (17%), Positives = 57/146 (39%), Gaps = 8/146 (5%)

Query: 483 GLTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSL 542
            +T+   I+   N++ +++      N +      +L  L +    +          + SL
Sbjct: 55  NVTDLTGIEYAHNIKDLTINNIHATNYNPISGLSNLERLRIMGKDVTSDKIPNLSGLTSL 114

Query: 543 RVFNMSNNHLLWKLPSGISTLVSLEHLDLSS-TAITHLPIELQKLVNLKCLNLEYMNNLN 601
            + ++S++     + + I+TL  +  +DLS   AIT +   L+ L  LK LN+++ + ++
Sbjct: 115 TLLDISHSAHDDSILTKINTLPKVNSIDLSYNGAITDIM-PLKTLPELKSLNIQF-DGVH 172

Query: 602 QFPRLVISAFSKLQVLRMFDCGGSKI 627
                          L         I
Sbjct: 173 D-----YRGIEDFPKLNQLYAFSQTI 193

>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 = 59.2 bits (144), Expect = 3e-10
 Identities = 32/222 (14%), Positives = 68/222 (30%), Gaps = 51/222 (22%)

Query: 492 NWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNH 551
            ++      L ++   N++E      L  + L++ ++   T    +   +++   ++N H
Sbjct: 21  TFKAYLNGLLGQSSTANITEA-QMNSLTYITLANINVTDLT--GIEYAHNIKDLTINNIH 77

Query: 552 LLWKLPSGISTLVSLEHLDLSSTAITHLPIE-LQKLVNLKCLNLEYMNNLNQFPRLVISA 610
                 + IS L +LE L +    +T   I  L  L +L  L++ +    +     +++ 
Sbjct: 78  A--TNYNPISGLSNLERLRIMGKDVTSDKIPNLSGLTSLTLLDISH----SAHDDSILTK 131

Query: 611 FSKLQVLRMFDCGGSKIERLKINVLFGGHQFLVEELMGMKHLMVLTITLKSWQALKELLI 670
            + L  +   D   +      I  +          L  +  L  L I             
Sbjct: 132 INTLPKVNSIDLSYNG----AITDI--------MPLKTLPELKSLNI------------- 166

Query: 671 SQELQRSTQSLFLRCFNDSKSLDIFCLAGLRNLNKLYVAGCK 712
                                 D   +     LN+LY     
Sbjct: 167 ----------------QFDGVHDYRGIEDFPKLNQLYAFSQT 192

>4ezg_A Putative uncharacterized protein; internalin-A, leucine-rich repeat protein, structural genomi center for structural genomics, JCSG; HET: MSE; 1.50A {Listeria monocytogenes} Length = 197

 Score = 46.1 bits (110), Expect = 8e-06
 Identities = 17/107 (15%), Positives = 41/107 (38%), Gaps = 5/107 (4%)

Query: 473 KENFLVHAGLGLTEAPEIQNWRNVRRMSLMKNKIENLSETP--TCPHLLSLFLSDNSLKM 530
           +   ++   +   + P +    ++  + +  +  ++   T   T P + S+ LS N   +
Sbjct: 91  ERLRIMGKDVTSDKIPNLSGLTSLTLLDISHSAHDDSILTKINTLPKVNSIDLSYNG-AI 149

Query: 531 STDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSSTAIT 577
           +     +++P L+  N+  + +      GI     L  L   S  I 
Sbjct: 150 TDIMPLKTLPELKSLNIQFDGV--HDYRGIEDFPKLNQLYAFSQTIG 194

>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 = 75.3 bits (185), Expect = 2e-14
 Identities = 34/143 (23%), Positives = 57/143 (39%), Gaps = 16/143 (11%)

Query: 491 QNWRNVRRMSLMKNKIENLSETPTCPHLLS----LFLSDNSLKMS-TDDFFQSMPSLRVF 545
            +   +  + L  N+++ LS+       +     L +S NS+             SL   
Sbjct: 345 GHLTELETLILQMNQLKELSKIAEMTTQMKSLQQLDISQNSVSYDEKKGDCSWTKSLLSL 404

Query: 546 NMSNNHLLWKLPSGIST--LVSLEHLDLSSTAITHLPIELQKLVNLKCLNLEYMNNLNQF 603
           NMS+N     L   I       ++ LDL S  I  +P ++ KL  L+ LN+   N L   
Sbjct: 405 NMSSN----ILTDTIFRCLPPRIKVLDLHSNKIKSIPKQVVKLEALQELNVAS-NQLKSV 459

Query: 604 PRLVISAFSKLQVLRM----FDC 622
           P  +    + LQ + +    +DC
Sbjct: 460 PDGIFDRLTSLQKIWLHTNPWDC 482

>2z7x_B TOLL-like receptor 1, variable lymphocyte recepto; TLR2, TLR1, lipopeptide, innate immunity, glycoPro immune response, inflammatory response, leucine-rich repeat membrane, receptor; HET: NAG NDG MAN BMA PCJ; 2.10A {Homo sapiens} Length = 520

 Score = 64.5 bits (157), Expect = 5e-11
 Identities = 25/143 (17%), Positives = 53/143 (37%), Gaps = 14/143 (9%)

Query: 495 NVRRMSLMKNKIENLSETP--TCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHL 552
           N+   +   +    +           L L  S+N L  +  +    +  L    +  N L
Sbjct: 301 NMNIKNFTVSGTRMVHMLCPSKISPFLHLDFSNNLLTDTVFENCGHLTELETLILQMNQL 360

Query: 553 --LWKLPSGISTLVSLEHLDLSSTAITHLPIE--LQKLVNLKCLNLEYMNNLNQFPRLVI 608
             L K+    + + SL+ LD+S  ++++   +       +L  LN+      N     + 
Sbjct: 361 KELSKIAEMTTQMKSLQQLDISQNSVSYDEKKGDCSWTKSLLSLNMSS----NILTDTIF 416

Query: 609 SAF-SKLQVLRMFDCGGSKIERL 630
                +++VL   D   +KI+ +
Sbjct: 417 RCLPPRIKVL---DLHSNKIKSI 436

>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 = 63.0 bits (153), Expect = 2e-10
 Identities = 30/131 (22%), Positives = 54/131 (41%), Gaps = 11/131 (8%)

Query: 494 RNVRRMSLMKNKIENLSET--PTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNH 551
           +    +++ +N I  L  +   +   L  L +S N ++      F+    L   ++S+N 
Sbjct: 21  QKTTILNISQNYISELWTSDILSLSKLRILIISHNRIQYLDISVFKFNQELEYLDLSHNK 80

Query: 552 LLWKLPSGISTLVSLEHLDLSSTAITHLPI--ELQKLVNLKCLNLEYMNNLNQFPRLVIS 609
            L K+       V+L+HLDLS  A   LPI  E   +  LK L L          +  + 
Sbjct: 81  -LVKISCH--PTVNLKHLDLSFNAFDALPICKEFGNMSQLKFLGLST----THLEKSSVL 133

Query: 610 AFSKLQVLRMF 620
             + L + ++ 
Sbjct: 134 PIAHLNISKVL 144

>2z7x_B TOLL-like receptor 1, variable lymphocyte recepto; TLR2, TLR1, lipopeptide, innate immunity, glycoPro immune response, inflammatory response, leucine-rich repeat membrane, receptor; HET: NAG NDG MAN BMA PCJ; 2.10A {Homo sapiens} Length = 520

 Score = 46.0 bits (109), Expect = 3e-05
 Identities = 13/140 (9%), Positives = 40/140 (28%), Gaps = 10/140 (7%)

Query: 497 RRMSLMKNKIENLSETPTCPHLLSLFLSDNSLK-----MSTDDFFQSMPSLRVFNMSNNH 551
             +    N    + +      +    +S+  L+        D    S+ +L +  + ++ 
Sbjct: 228 NNIETTWNSFIRILQLVWHTTVWYFSISNVKLQGQLDFRDFDYSGTSLKALSIHQVVSDV 287

Query: 552 LLWKLPSGISTLVSLEHLDLSSTAITHLPIEL-QKLVNLKCLNLEYMNNLNQFPRLVISA 610
             +          ++   + + +    + +    K+     L+       N     V   
Sbjct: 288 FGFPQSYIYEIFSNMNIKNFTVSGTRMVHMLCPSKISPFLHLDFSN----NLLTDTVFEN 343

Query: 611 FSKLQVLRMFDCGGSKIERL 630
              L  L       ++++ L
Sbjct: 344 CGHLTELETLILQMNQLKEL 363

>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 = 73.5 bits (181), Expect = 3e-14
 Identities = 19/135 (14%), Positives = 47/135 (34%), Gaps = 10/135 (7%)

Query: 494 RNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLL 553
           + +  + +    I  + +    P L  L L  N +        + + +L    +S N + 
Sbjct: 171 KKLSYIRIADTNITTIPQG-LPPSLTELHLDGNKITKVDAASLKGLNNLAKLGLSFNSIS 229

Query: 554 WKLPSGI-STLVSLEHLDLSSTAITHLPIELQKLVNLKCLNLEYMNNLNQFPR------L 606
             + +G  +    L  L L++  +  +P  L     ++ + L   NN++           
Sbjct: 230 -AVDNGSLANTPHLRELHLNNNKLVKVPGGLADHKYIQVVYLHN-NNISAIGSNDFCPPG 287

Query: 607 VISAFSKLQVLRMFD 621
             +  +    + +F 
Sbjct: 288 YNTKKASYSGVSLFS 302

>1xku_A Decorin; proteoglycan, leucine-rich repeat, structural protein; HET: NAG; 2.15A {Bos taurus} SCOP: c.10.2.7 PDB: 1xec_A* 1xcd_A* Length = 330

 Score = 70.0 bits (172), Expect = 4e-13
 Identities = 26/129 (20%), Positives = 54/129 (41%), Gaps = 8/129 (6%)

Query: 494 RNVRRMSLMKNKIENL-SETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHL 552
             + R+ L KN+++ L  + P    L  L + +N +       F  +  + V  +  N L
Sbjct: 100 VKLERLYLSKNQLKELPEKMP--KTLQELRVHENEITKVRKSVFNGLNQMIVVELGTNPL 157

Query: 553 -LWKLPSGI-STLVSLEHLDLSSTAITHLPIELQKLVNLKCLNLEYMNNLNQFPRLVISA 610
               + +G    +  L ++ ++ T IT +P  L    +L  L+L+  N + +     +  
Sbjct: 158 KSSGIENGAFQGMKKLSYIRIADTNITTIPQGL--PPSLTELHLDG-NKITKVDAASLKG 214

Query: 611 FSKLQVLRM 619
            + L  L +
Sbjct: 215 LNNLAKLGL 223

>1xku_A Decorin; proteoglycan, leucine-rich repeat, structural protein; HET: NAG; 2.15A {Bos taurus} SCOP: c.10.2.7 PDB: 1xec_A* 1xcd_A* Length = 330

 Score = 69.3 bits (170), Expect = 7e-13
 Identities = 31/156 (19%), Positives = 56/156 (35%), Gaps = 15/156 (9%)

Query: 481 GLGLTEAPE-IQNWRNVRRMSLMKNKIENLSET--PTCPHLLSLFLSDNSLKMSTDDFFQ 537
            LGL + P+ +    +   + L  NKI  + +       +L +L L +N +   +   F 
Sbjct: 40  DLGLEKVPKDLP--PDTALLDLQNNKITEIKDGDFKNLKNLHTLILINNKISKISPGAFA 97

Query: 538 SMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSSTAITHLPIE-LQKLVNLKCLNLEY 596
            +  L    +S N L  +LP       +L+ L +    IT +       L  +  + L  
Sbjct: 98  PLVKLERLYLSKNQLK-ELPEK--MPKTLQELRVHENEITKVRKSVFNGLNQMIVVELGT 154

Query: 597 MNNLNQFPRLVIS--AFSKLQVLRMFDCGGSKIERL 630
               N      I   AF  ++ L       + I  +
Sbjct: 155 ----NPLKSSGIENGAFQGMKKLSYIRIADTNITTI 186

>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 = 56.9 bits (138), Expect = 7e-09
 Identities = 21/117 (17%), Positives = 41/117 (35%), Gaps = 14/117 (11%)

Query: 494 RNVRRMSLMKNKIENLSET--PTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNH 551
            N+ ++ L  N I  +        PHL  L L++N L             ++V  + NN+
Sbjct: 216 NNLAKLGLSFNSISAVDNGSLANTPHLRELHLNNNKLVKVPGGLA-DHKYIQVVYLHNNN 274

Query: 552 L------LWKLPSGISTLVSLEHLDLSSTAITHLPIE---LQKLVNLKCLNLEYMNN 599
           +       +  P   +   S   + L S  + +  I+    + +     + L   N 
Sbjct: 275 ISAIGSNDFCPPGYNTKKASYSGVSLFSNPVQYWEIQPSTFRCVYVRAAVQLG--NY 329

>3zyj_A Leucine-rich repeat-containing protein 4C; cell adhesion, synapse; HET: NAG BMA MAN; 3.25A {Homo sapiens} Length = 440

 Score = 74.0 bits (182), Expect = 4e-14
 Identities = 36/152 (23%), Positives = 65/152 (42%), Gaps = 12/152 (7%)

Query: 491 QNWRNVRRMSLMKNKIENLSET--PTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMS 548
           ++ R++  + L +N I  +         +L +L L DN L    +  F  +  L+   + 
Sbjct: 85  KHLRHLEILQLSRNHIRTIEIGAFNGLANLNTLELFDNRLTTIPNGAFVYLSKLKELWLR 144

Query: 549 NNHLLWKLPSGI-STLVSLEHLDLSST-AITHLPIE-LQKLVNLKCLNLEYMNNLNQFPR 605
           NN  +  +PS   + + SL  LDL     ++++     + L NL+ LNL  M NL + P 
Sbjct: 145 NNP-IESIPSYAFNRIPSLRRLDLGELKRLSYISEGAFEGLSNLRYLNL-AMCNLREIP- 201

Query: 606 LVISAFSKLQVLRMFDCGGSKIERLKINVLFG 637
                 + L  L   D  G+ +  ++     G
Sbjct: 202 ----NLTPLIKLDELDLSGNHLSAIRPGSFQG 229

>3zyj_A Leucine-rich repeat-containing protein 4C; cell adhesion, synapse; HET: NAG BMA MAN; 3.25A {Homo sapiens} Length = 440

 Score = 65.9 bits (161), Expect = 2e-11
 Identities = 38/202 (18%), Positives = 73/202 (36%), Gaps = 28/202 (13%)

Query: 516 PHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGI-STLVSLEHLDLSST 574
            +   L L +N +++   + F+ +  L +  +S NH +  +  G  + L +L  L+L   
Sbjct: 64  TNTRLLNLHENQIQIIKVNSFKHLRHLEILQLSRNH-IRTIEIGAFNGLANLNTLELFDN 122

Query: 575 AITHLPIE-LQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKIN 633
            +T +P      L  LK L L   N +   P    +    L+ L + +    ++  +   
Sbjct: 123 RLTTIPNGAFVYLSKLKELWLRN-NPIESIPSYAFNRIPSLRRLDLGELK--RLSYISEG 179

Query: 634 VLFGGHQFLVEELMGMKHLMVLTIT---LKSWQALKELLISQELQRSTQSLFLRCFNDSK 690
                         G+ +L  L +    L+    L  L            L L   N   
Sbjct: 180 A-----------FEGLSNLRYLNLAMCNLREIPNLTPL-------IKLDELDLS-GNHLS 220

Query: 691 SLDIFCLAGLRNLNKLYVAGCK 712
           ++      GL +L KL++   +
Sbjct: 221 AIRPGSFQGLMHLQKLWMIQSQ 242

>3zyj_A Leucine-rich repeat-containing protein 4C; cell adhesion, synapse; HET: NAG BMA MAN; 3.25A {Homo sapiens} Length = 440

 Score = 63.2 bits (154), Expect = 1e-10
 Identities = 23/102 (22%), Positives = 42/102 (41%), Gaps = 1/102 (0%)

Query: 494 RNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLL 553
            N+R ++L    +  +        L  L LS N L       FQ +  L+   M  + + 
Sbjct: 185 SNLRYLNLAMCNLREIPNLTPLIKLDELDLSGNHLSAIRPGSFQGLMHLQKLWMIQSQIQ 244

Query: 554 WKLPSGISTLVSLEHLDLSSTAITHLPIE-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 = 45.1 bits (107), Expect = 6e-05
 Identities = 12/72 (16%), Positives = 34/72 (47%), Gaps = 8/72 (11%)

Query: 491 QNWRNVRRMSLMKNKIENLSETP--TCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMS 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

>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 = 74.6 bits (184), Expect = 5e-14
 Identities = 30/138 (21%), Positives = 54/138 (39%), Gaps = 14/138 (10%)

Query: 488 PEIQNWRNVRRMSLMKNKI-----ENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSL 542
           P + +   ++ + +  NK+       +S   TC  L  L +S N            + SL
Sbjct: 217 PFLGDCSALQHLDISGNKLSGDFSRAIS---TCTELKLLNISSNQFVGPIPPL--PLKSL 271

Query: 543 RVFNMSNNHLLWKLPSGIST-LVSLEHLDLSSTAIT-HLPIELQKLVNLKCLNLEYMNNL 600
           +  +++ N    ++P  +S    +L  LDLS       +P        L+ L L   NN 
Sbjct: 272 QYLSLAENKFTGEIPDFLSGACDTLTGLDLSGNHFYGAVPPFFGSCSLLESLAL-SSNNF 330

Query: 601 N-QFPRLVISAFSKLQVL 617
           + + P   +     L+VL
Sbjct: 331 SGELPMDTLLKMRGLKVL 348

>3rgz_A Protein brassinosteroid insensitive 1; phytohormone, leucine-rich RE receptor-like kinases, leucine-rich repeat; HET: NAG BLD; 2.28A {Arabidopsis thaliana} PDB: 3rgx_A* 3riz_A* 3rj0_A* Length = 768

 Score = 71.5 bits (176), Expect = 6e-13
 Identities = 33/139 (23%), Positives = 55/139 (39%), Gaps = 12/139 (8%)

Query: 488 PEIQNWRNVRRMSLMKNKIENLS-ETPTC----PHLLSLFLSDNSLKMSTDDFFQSMPSL 542
           P + N   +  + L  N    LS   P+       L  L L  N L+         + +L
Sbjct: 412 PTLSNCSELVSLHLSFN---YLSGTIPSSLGSLSKLRDLKLWLNMLEGEIPQELMYVKTL 468

Query: 543 RVFNMSNNHLLWKLPSGISTLVSLEHLDLSSTAIT-HLPIELQKLVNLKCLNLEYMNNLN 601
               +  N L  ++PSG+S   +L  + LS+  +T  +P  + +L NL  L L   N+ +
Sbjct: 469 ETLILDFNDLTGEIPSGLSNCTNLNWISLSNNRLTGEIPKWIGRLENLAILKLSN-NSFS 527

Query: 602 -QFPRLVISAFSKLQVLRM 619
              P   +     L  L +
Sbjct: 528 GNIPA-ELGDCRSLIWLDL 545

>3rgz_A Protein brassinosteroid insensitive 1; phytohormone, leucine-rich RE receptor-like kinases, leucine-rich repeat; HET: NAG BLD; 2.28A {Arabidopsis thaliana} PDB: 3rgx_A* 3riz_A* 3rj0_A* Length = 768

 Score = 68.4 bits (168), Expect = 5e-12
 Identities = 31/140 (22%), Positives = 58/140 (41%), Gaps = 7/140 (5%)

Query: 488 PEIQNWRNVRRMSLMKNKIE-NLSETPTCPHLLSLFLSDNSLKMS-TDDFFQSMPSLRVF 545
             I     ++ +++  N+    +   P    L  L L++N       D    +  +L   
Sbjct: 241 RAISTCTELKLLNISSNQFVGPIPPLP-LKSLQYLSLAENKFTGEIPDFLSGACDTLTGL 299

Query: 546 NMSNNHLLWKLPSGISTLVSLEHLDLSSTAIT-HLPIE-LQKLVNLKCLNLEYMNNLN-Q 602
           ++S NH    +P    +   LE L LSS   +  LP++ L K+  LK L+L + N  + +
Sbjct: 300 DLSGNHFYGAVPPFFGSCSLLESLALSSNNFSGELPMDTLLKMRGLKVLDLSF-NEFSGE 358

Query: 603 FPRLVISAFSKLQVLRMFDC 622
            P  + +  + L  L +   
Sbjct: 359 LPESLTNLSASLLTLDLSSN 378

>3rgz_A Protein brassinosteroid insensitive 1; phytohormone, leucine-rich RE receptor-like kinases, leucine-rich repeat; HET: NAG BLD; 2.28A {Arabidopsis thaliana} PDB: 3rgx_A* 3riz_A* 3rj0_A* Length = 768

 Score = 67.6 bits (166), Expect = 8e-12
 Identities = 32/144 (22%), Positives = 55/144 (38%), Gaps = 22/144 (15%)

Query: 490 IQNWRNVRRMSLMKNKIE--------NLSETPTCPHLLSLFLSDNSL--KMSTDDFFQSM 539
           +   R ++ + L  N+          NLS       LL+L LS N+    +  +      
Sbjct: 339 LLKMRGLKVLDLSFNEFSGELPESLTNLS-----ASLLTLDLSSNNFSGPILPNLCQNPK 393

Query: 540 PSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSSTAIT-HLPIELQKLVNLKCLNLEYMN 598
            +L+   + NN    K+P  +S    L  L LS   ++  +P  L  L  L+ L L ++N
Sbjct: 394 NTLQELYLQNNGFTGKIPPTLSNCSELVSLHLSFNYLSGTIPSSLGSLSKLRDLKL-WLN 452

Query: 599 NLN-QFPRLVISAFSKLQVLRMFD 621
            L  + P         ++ L    
Sbjct: 453 MLEGEIP----QELMYVKTLETLI 472

>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 = 66.9 bits (164), Expect = 2e-11
 Identities = 36/144 (25%), Positives = 59/144 (40%), Gaps = 13/144 (9%)

Query: 488 PEIQNWRNVRRMSLMKNKIE-NLSETPTCPHLLSLFLSDNSL--KMSTDDFFQSMPSLRV 544
             + +   +  + L  + I  ++S       L SL LS NSL   ++T     S   L+ 
Sbjct: 71  SSLLSLTGLESLFLSNSHINGSVSGFKCSASLTSLDLSRNSLSGPVTTLTSLGSCSGLKF 130

Query: 545 FNMSNNHLLWKLP-SGISTLVSLEHLDLSSTAIT-HLPIELQ---KLVNLKCLNLEYMNN 599
            N+S+N L +    SG   L SLE LDLS+ +I+    +          LK L +   N 
Sbjct: 131 LNVSSNTLDFPGKVSGGLKLNSLEVLDLSANSISGANVVGWVLSDGCGELKHLAISG-NK 189

Query: 600 LN-QFPRLVISAFSKLQVLRMFDC 622
           ++       +S    L+ L +   
Sbjct: 190 ISGDVD---VSRCVNLEFLDVSSN 210

>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 = 66.5 bits (163), Expect = 2e-11
 Identities = 31/145 (21%), Positives = 58/145 (40%), Gaps = 13/145 (8%)

Query: 488 PEIQNWRNVRRMSLMKN----KIENLSETPTCPHLLSLFLSDNSLKMS-TDDFFQSMPSL 542
              +   ++  + L +N     +  L+   +C  L  L +S N+L           + SL
Sbjct: 94  SGFKCSASLTSLDLSRNSLSGPVTTLTSLGSCSGLKFLNVSSNTLDFPGKVSGGLKLNSL 153

Query: 543 RVFNMSNNHLLWKLPSGI---STLVSLEHLDLSSTAITHLPIELQKLVNLKCLNLEYMNN 599
            V ++S N +      G         L+HL +S   I+   +++ + VNL+ L++   NN
Sbjct: 154 EVLDLSANSISGANVVGWVLSDGCGELKHLAISGNKISG-DVDVSRCVNLEFLDV-SSNN 211

Query: 600 LN-QFPRLVISAFSKLQVLRMFDCG 623
            +   P   +   S LQ L +    
Sbjct: 212 FSTGIP--FLGDCSALQHLDISGNK 234

>3rgz_A Protein brassinosteroid insensitive 1; phytohormone, leucine-rich RE receptor-like kinases, leucine-rich repeat; HET: NAG BLD; 2.28A {Arabidopsis thaliana} PDB: 3rgx_A* 3riz_A* 3rj0_A* Length = 768

 Score = 64.9 bits (159), Expect = 5e-11
 Identities = 26/105 (24%), Positives = 42/105 (40%), Gaps = 6/105 (5%)

Query: 515 CPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSST 574
           C +L  L +S N+             +L+  ++S N L       IST   L+ L++SS 
Sbjct: 199 CVNLEFLDVSSNNFSTGIPFLG-DCSALQHLDISGNKLSGDFSRAISTCTELKLLNISSN 257

Query: 575 AIT-HLPIELQKLVNLKCLNLEYMNNLN-QFPRLVISAFSKLQVL 617
                +P     L +L+ L+L   N    + P  +  A   L  L
Sbjct: 258 QFVGPIPPL--PLKSLQYLSL-AENKFTGEIPDFLSGACDTLTGL 299

>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 = 61.8 bits (151), Expect = 6e-10
 Identities = 31/140 (22%), Positives = 50/140 (35%), Gaps = 11/140 (7%)

Query: 488 PEIQNWRNVRRMSLMKNKIENLSETP----TCPHLLSLFLSDNSLKMSTDDFFQSMPSLR 543
             I+N    +      N +E                   ++       T   F +  S+ 
Sbjct: 576 VYIKNDGMKKECHGAGNLLEFQGIRSEQLNRLSTRNPCNITSRVYGGHTSPTFDNNGSMM 635

Query: 544 VFNMSNNHLLWKLPSGISTLVSLEHLDLSSTAIT-HLPIELQKLVNLKCLNLEYMNNLN- 601
             +MS N L   +P  I ++  L  L+L    I+  +P E+  L  L  L+L   N L+ 
Sbjct: 636 FLDMSYNMLSGYIPKEIGSMPYLFILNLGHNDISGSIPDEVGDLRGLNILDLSS-NKLDG 694

Query: 602 QFPRLVISAFSKLQVLRMFD 621
           + P     A S L +L   D
Sbjct: 695 RIP----QAMSALTMLTEID 710

>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 = 57.6 bits (140), Expect = 1e-08
 Identities = 25/113 (22%), Positives = 42/113 (37%), Gaps = 9/113 (7%)

Query: 517 HLLSLFLSDNSLKMSTD---DFFQSMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSS 573
            + S+ LS   L +          S+  L    +SN+H+   +        SL  LDLS 
Sbjct: 51  KVTSIDLSSKPLNVGFSAVSSSLLSLTGLESLFLSNSHINGSVSG-FKCSASLTSLDLSR 109

Query: 574 TAIT-HLP--IELQKLVNLKCLNLEYMNNLN-QFPRLVISAFSKLQVLRMFDC 622
            +++  +     L     LK LN+   N L+           + L+VL +   
Sbjct: 110 NSLSGPVTTLTSLGSCSGLKFLNV-SSNTLDFPGKVSGGLKLNSLEVLDLSAN 161

>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 = 56.8 bits (138), Expect = 2e-08
 Identities = 20/127 (15%), Positives = 43/127 (33%), Gaps = 11/127 (8%)

Query: 501 LMKNKIEN--LSETPTCPHLLSLFLSDNSLKMSTD--DFFQSMPSLRVFNMSNNHLLWKL 556
           +  N I                   + N L+      +    + +    N+++       
Sbjct: 565 IAANFIAGKRYVYIKNDGMKKECHGAGNLLEFQGIRSEQLNRLSTRNPCNITSRVYGGHT 624

Query: 557 PSGISTLVSLEHLDLSSTAIT-HLPIELQKLVNLKCLNLEYMNNLN-QFPRLVISAFSKL 614
                   S+  LD+S   ++ ++P E+  +  L  LNL + N+++   P         L
Sbjct: 625 SPTFDNNGSMMFLDMSYNMLSGYIPKEIGSMPYLFILNLGH-NDISGSIP----DEVGDL 679

Query: 615 QVLRMFD 621
           + L + D
Sbjct: 680 RGLNILD 686

>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 = 52.6 bits (127), Expect = 3e-07
 Identities = 24/129 (18%), Positives = 44/129 (34%), Gaps = 25/129 (19%)

Query: 515 CPHLLSLFLSDNSLKMSTDDF---FQSMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDL 571
           C +L  + LS+N L   T +       + +L +  +SNN     +P+ +    SL  LDL
Sbjct: 489 CTNLNWISLSNNRL---TGEIPKWIGRLENLAILKLSNNSFSGNIPAELGDCRSLIWLDL 545

Query: 572 SSTAIT-HLPIELQKLVNLKCLN------------------LEYMNNLNQFPRLVISAFS 612
           ++      +P  + K       N                       NL +F  +     +
Sbjct: 546 NTNLFNGTIPAAMFKQSGKIAANFIAGKRYVYIKNDGMKKECHGAGNLLEFQGIRSEQLN 605

Query: 613 KLQVLRMFD 621
           +L      +
Sbjct: 606 RLSTRNPCN 614

>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 = 48.0 bits (115), Expect = 8e-06
 Identities = 19/87 (21%), Positives = 36/87 (41%), Gaps = 3/87 (3%)

Query: 541 SLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSSTAITHLPIELQKLVNLKCLNLEYMNNL 600
           S+ + +   N     + S + +L  LE L LS++ I       +   +L  L+L   N+L
Sbjct: 54  SIDLSSKPLNVGFSAVSSSLLSLTGLESLFLSNSHINGSVSGFKCSASLTSLDL-SRNSL 112

Query: 601 N-QFPRLV-ISAFSKLQVLRMFDCGGS 625
           +     L  + + S L+ L +      
Sbjct: 113 SGPVTTLTSLGSCSGLKFLNVSSNTLD 139

>3rgz_A Protein brassinosteroid insensitive 1; phytohormone, leucine-rich RE receptor-like kinases, leucine-rich repeat; HET: NAG BLD; 2.28A {Arabidopsis thaliana} PDB: 3rgx_A* 3riz_A* 3rj0_A* Length = 768

 Score = 43.0 bits (102), Expect = 4e-04
 Identities = 18/58 (31%), Positives = 29/58 (50%)

Query: 515 CPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLS 572
            P+L  L L  N +  S  D    +  L + ++S+N L  ++P  +S L  L  +DLS
Sbjct: 655 MPYLFILNLGHNDISGSIPDEVGDLRGLNILDLSSNKLDGRIPQAMSALTMLTEIDLS 712

>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 = 72.5 bits (178), Expect = 1e-13
 Identities = 37/215 (17%), Positives = 66/215 (30%), Gaps = 22/215 (10%)

Query: 508 NLSETPTCP-HLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGI-STLVS 565
            L + P  P H+  + LS NS+    +  F  +  L+   +        + +     L S
Sbjct: 21  GLHQVPELPAHVNYVDLSLNSIAELNETSFSRLQDLQFLKVEQQTPGLVIRNNTFRGLSS 80

Query: 566 LEHLDLSSTAITHLPIE-LQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFDCGG 624
           L  L L       L       L NL+ L L           L  + F  L  L M     
Sbjct: 81  LIILKLDYNQFLQLETGAFNGLANLEVLTL--TQCNLDGAVLSGNFFKPLTSLEMLVLRD 138

Query: 625 SKIERLKINVLFGGHQFLVEELMGMKHLMVLTITLKSWQALKELLISQELQRSTQSLFLR 684
           + I++++    F          + M+   VL +T    +++ E  +     +    L L 
Sbjct: 139 NNIKKIQPASFF----------LNMRRFHVLDLTFNKVKSICEEDLLNFQGKHFTLLRLS 188

Query: 685 CF-------NDSKSLDIFCLAGLRNLNKLYVAGCK 712
                                   ++  L ++G  
Sbjct: 189 SITLQDMNEYWLGWEKCGNPFKNTSITTLDLSGNG 223

>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 = 69.4 bits (170), Expect = 1e-12
 Identities = 40/136 (29%), Positives = 57/136 (41%), Gaps = 10/136 (7%)

Query: 495 NVRRMSLMKNKIENLSET--PTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHL 552
            V+   L K+KI  L ++       L  L L+ N +    D+ F  +  L   N+S N  
Sbjct: 276 GVKTCDLSKSKIFALLKSVFSHFTDLEQLTLAQNEINKIDDNAFWGLTHLLKLNLSQNF- 334

Query: 553 LWKLPSGI-STLVSLEHLDLSSTAITHLPIEL-QKLVNLKCLNLEYMNNLNQFPRLVISA 610
           L  + S +   L  LE LDLS   I  L  +    L NLK L L   N L   P  +   
Sbjct: 335 LGSIDSRMFENLDKLEVLDLSYNHIRALGDQSFLGLPNLKELAL-DTNQLKSVPDGIFDR 393

Query: 611 FSKLQVLRM----FDC 622
            + LQ + +    +DC
Sbjct: 394 LTSLQKIWLHTNPWDC 409

>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 = 64.8 bits (158), Expect = 4e-11
 Identities = 20/136 (14%), Positives = 42/136 (30%), Gaps = 8/136 (5%)

Query: 492 NWRNVRRMSLMKNKIENLSETP----TCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNM 547
           +       S      ++             + +  LS + +       F     L    +
Sbjct: 247 SNSYNMGSSFGHTNFKDPDNFTFKGLEASGVKTCDLSKSKIFALLKSVFSHFTDLEQLTL 306

Query: 548 SNNHLLWKLPSGI-STLVSLEHLDLSSTAITHLPIEL-QKLVNLKCLNLEYMNNLNQFPR 605
           + N +  K+       L  L  L+LS   +  +   + + L  L+ L+L Y N++     
Sbjct: 307 AQNEIN-KIDDNAFWGLTHLLKLNLSQNFLGSIDSRMFENLDKLEVLDLSY-NHIRALGD 364

Query: 606 LVISAFSKLQVLRMFD 621
                   L+ L +  
Sbjct: 365 QSFLGLPNLKELALDT 380

>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 = 41.7 bits (98), Expect = 7e-04
 Identities = 26/181 (14%), Positives = 50/181 (27%), Gaps = 53/181 (29%)

Query: 491 QNWRNVRRMSLMKNKIENLSE----TPTCPHLLSLFLSDNSLKMSTDDFFQSMP------ 540
            N R    + L  NK++++ E         H   L LS  +L+   + +           
Sbjct: 151 LNMRRFHVLDLTFNKVKSICEEDLLNFQGKHFTLLRLSSITLQDMNEYWLGWEKCGNPFK 210

Query: 541 --SLRVFNMSNNHLLWKLPSGISTLV---------------------------------- 564
             S+   ++S N     +       +                                  
Sbjct: 211 NTSITTLDLSGNGFKESMAKRFFDAIAGTKIQSLILSNSYNMGSSFGHTNFKDPDNFTFK 270

Query: 565 -----SLEHLDLSSTAITHLPIEL-QKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLR 618
                 ++  DLS + I  L   +     +L+ L L   N +N+         + L  L 
Sbjct: 271 GLEASGVKTCDLSKSKIFALLKSVFSHFTDLEQLTLAQ-NEINKIDDNAFWGLTHLLKLN 329

Query: 619 M 619
           +
Sbjct: 330 L 330

>2ft3_A Biglycan; proteoglycan, dimer interface, structural protein, signaling; HET: NAG FLC; 3.40A {Bos taurus} Length = 332

 Score = 71.6 bits (176), Expect = 1e-13
 Identities = 27/128 (21%), Positives = 54/128 (42%), Gaps = 7/128 (5%)

Query: 494 RNVRRMSLMKNKIENL-SETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHL 552
           R ++++ + KN +  +    P    L+ L + DN ++      F  + ++    M  N L
Sbjct: 102 RKLQKLYISKNHLVEIPPNLP--SSLVELRIHDNRIRKVPKGVFSGLRNMNCIEMGGNPL 159

Query: 553 -LWKLPSGISTLVSLEHLDLSSTAITHLPIELQKLVNLKCLNLEYMNNLNQFPRLVISAF 611
                  G    + L +L +S   +T +P +L     L  L+L++ N +       +  +
Sbjct: 160 ENSGFEPGAFDGLKLNYLRISEAKLTGIPKDL--PETLNELHLDH-NKIQAIELEDLLRY 216

Query: 612 SKLQVLRM 619
           SKL  L +
Sbjct: 217 SKLYRLGL 224

>2ft3_A Biglycan; proteoglycan, dimer interface, structural protein, signaling; HET: NAG FLC; 3.40A {Bos taurus} Length = 332

 Score = 71.6 bits (176), Expect = 1e-13
 Identities = 21/134 (15%), Positives = 49/134 (36%), Gaps = 10/134 (7%)

Query: 495 NVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLW 554
            +  + + + K+  + +      L  L L  N ++    +       L    + +N +  
Sbjct: 173 KLNYLRISEAKLTGIPKD-LPETLNELHLDHNKIQAIELEDLLRYSKLYRLGLGHNQI-R 230

Query: 555 KLPSGI-STLVSLEHLDLSSTAITHLPIELQKLVNLKCLNLEYMNNLNQFPRLVIS---- 609
            + +G  S L +L  L L +  ++ +P  L  L  L+ + L   NN+ +           
Sbjct: 231 MIENGSLSFLPTLRELHLDNNKLSRVPAGLPDLKLLQVVYLHT-NNITKVGVNDFCPVGF 289

Query: 610 --AFSKLQVLRMFD 621
               +    + +F+
Sbjct: 290 GVKRAYYNGISLFN 303

>2ft3_A Biglycan; proteoglycan, dimer interface, structural protein, signaling; HET: NAG FLC; 3.40A {Bos taurus} Length = 332

 Score = 70.0 bits (172), Expect = 4e-13
 Identities = 37/155 (23%), Positives = 59/155 (38%), Gaps = 17/155 (10%)

Query: 481 GLGLTEAPE-IQNWRNVRRMSLMKNKIENLSET--PTCPHLLSLFLSDNSLKMSTDDFFQ 537
            LGL   P+ I    +   + L  N I  L +       HL +L L +N +    +  F 
Sbjct: 42  DLGLKAVPKEIS--PDTTLLDLQNNDISELRKDDFKGLQHLYALVLVNNKISKIHEKAFS 99

Query: 538 SMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSSTAITHLPIE-LQKLVNLKCLNLEY 596
            +  L+   +S NHL+ ++P       SL  L +    I  +P      L N+ C+ +  
Sbjct: 100 PLRKLQKLYISKNHLV-EIPPN--LPSSLVELRIHDNRIRKVPKGVFSGLRNMNCIEMGG 156

Query: 597 MNNLNQFPRLVIS--AFS--KLQVLRMFDCGGSKI 627
               N          AF   KL  LR+ +   + I
Sbjct: 157 ----NPLENSGFEPGAFDGLKLNYLRISEAKLTGI 187

>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 = 72.5 bits (177), Expect = 2e-13
 Identities = 27/134 (20%), Positives = 48/134 (35%), Gaps = 9/134 (6%)

Query: 489 EIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMS 548
               + +VR + L    +  L        +  L LS N L+ +      ++  L V   S
Sbjct: 436 LKMEYADVRVLHLAHKDLTVLCHLEQLLLVTHLDLSHNRLR-ALPPALAALRCLEVLQAS 494

Query: 549 NNHLLWKLPSGISTLVSLEHLDLSSTAITHLP--IELQKLVNLKCLNLEYMNNLNQFP-- 604
           +N L  +   G++ L  L+ L L +  +        L     L  LNL+  N+L Q    
Sbjct: 495 DNAL--ENVDGVANLPRLQELLLCNNRLQQSAAIQPLVSCPRLVLLNLQG-NSLCQEEGI 551

Query: 605 -RLVISAFSKLQVL 617
              +      +  +
Sbjct: 552 QERLAEMLPSVSSI 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 = 58.2 bits (140), Expect = 6e-09
 Identities = 26/166 (15%), Positives = 58/166 (34%), Gaps = 20/166 (12%)

Query: 494 RNVRRMSLMKNKIENLS--ETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNH 551
           R +  +   K  ++  S  +         L    +   +           +RV ++++  
Sbjct: 393 RALDPLLYEKETLQYFSTLKAVDPMRAAYLDDLRSKFLLENSVLKMEYADVRVLHLAHKD 452

Query: 552 LLWKLPSGISTLVSLEHLDLSSTAITHLPIELQKLVNLKCLNLEYMNNLNQFPRLVISAF 611
           L   +   +  L+ + HLDLS   +  LP  L  L  L+ L     N L       +   
Sbjct: 453 L--TVLCHLEQLLLVTHLDLSHNRLRALPPALAALRCLEVLQASD-NALEN-----VDGV 504

Query: 612 SKLQVLRMFDCGGSKIERLKINVLFGGHQFLVEELMGMKHLMVLTI 657
           + L  L+      +++++             ++ L+    L++L +
Sbjct: 505 ANLPRLQELLLCNNRLQQSAA----------IQPLVSCPRLVLLNL 540

>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 = 45.5 bits (107), Expect = 5e-05
 Identities = 17/66 (25%), Positives = 27/66 (40%), Gaps = 1/66 (1%)

Query: 488 PEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLK-MSTDDFFQSMPSLRVFN 546
           P +   R +  +    N +EN+      P L  L L +N L+  +      S P L + N
Sbjct: 480 PALAALRCLEVLQASDNALENVDGVANLPRLQELLLCNNRLQQSAAIQPLVSCPRLVLLN 539

Query: 547 MSNNHL 552
           +  N L
Sbjct: 540 LQGNSL 545

>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 = 71.6 bits (176), Expect = 3e-13
 Identities = 36/248 (14%), Positives = 70/248 (28%), Gaps = 53/248 (21%)

Query: 473 KENFLVHAGLGLTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMST 532
                    +  T+    +    +  +    + I +++       L  L  + N++   T
Sbjct: 21  ASEVAAAFEMQATDTISEEQLATLTSLDCHNSSITDMTGIEKLTGLTKLICTSNNI---T 77

Query: 533 DDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSSTAITHLPIELQKLVNLKCL 592
                   +L      +N L   L   ++ L  L +L+  +  +T L +   +   L  L
Sbjct: 78  TLDLSQNTNLTYLACDSNKLT-NLD--VTPLTKLTYLNCDTNKLTKLDV--SQNPLLTYL 132

Query: 593 NLEYMNNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKINVLFGGHQFLVEELMGMKHL 652
           N       N    + +S  ++L  L   DC  +K                  ++     L
Sbjct: 133 NCAR----NTLTEIDVSHNTQLTEL---DCHLNKKITKL-------------DVTPQTQL 172

Query: 653 MVL--------TITLKSWQALKELLISQELQRSTQSLFLRCFNDSKSLDIFCLAGLRNLN 704
             L         + +   + L  L                  N+   LD   L     L 
Sbjct: 173 TTLDCSFNKITELDVSQNKLLNRLNCDT--------------NNITKLD---LNQNIQLT 215

Query: 705 KLYVAGCK 712
            L  +  K
Sbjct: 216 FLDCSSNK 223

>3bz5_A Internalin-J, INLJ; leucine rich repeat (LRR), cysteine ladder, asparagine ladder, virulence factor, solenoid, cell WALL; 2.70A {Listeria monocytogenes} Length = 457

 Score = 68.6 bits (168), Expect = 2e-12
 Identities = 31/172 (18%), Positives = 57/172 (33%), Gaps = 20/172 (11%)

Query: 475 NFLVHAGLGLTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDD 534
             L           ++     +  +    NKI  L  +     L  L    N++    D 
Sbjct: 151 TELDCHLNKKITKLDVTPQTQLTTLDCSFNKITELDVSQ-NKLLNRLNCDTNNIT-KLD- 207

Query: 535 FFQSMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSSTAITHLPIE-LQKLVNLKC-- 591
                  L   + S+N L  ++   ++ L  L + D S   +T L +  L KL  L C  
Sbjct: 208 -LNQNIQLTFLDCSSNKLT-EID--VTPLTQLTYFDCSVNPLTELDVSTLSKLTTLHCIQ 263

Query: 592 -----LNLEYMNNL-----NQFPRLVISAFSKLQVLRMFDCGGSKIERLKIN 633
                ++L +   L         ++     +    L + DC  + I  L ++
Sbjct: 264 TDLLEIDLTHNTQLIYFQAEGCRKIKELDVTHNTQLYLLDCQAAGITELDLS 315

>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 = 62.4 bits (152), Expect = 2e-10
 Identities = 22/166 (13%), Positives = 46/166 (27%), Gaps = 31/166 (18%)

Query: 489 EIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLK------------------- 529
           ++     +       N +  L  + T   L +L      L                    
Sbjct: 228 DVTPLTQLTYFDCSVNPLTELDVS-TLSKLTTLHCIQTDLLEIDLTHNTQLIYFQAEGCR 286

Query: 530 MSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSSTAITHLPIELQKLVNL 589
              +        L + +     +  +L   +S    L +L L++T +T L +       L
Sbjct: 287 KIKELDVTHNTQLYLLDCQAAGIT-ELD--LSQNPKLVYLYLNNTELTELDVS--HNTKL 341

Query: 590 KCLNLEYMNNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKINVL 635
           K L+     ++        S+  K+  L        +   +    L
Sbjct: 342 KSLSCVN-AHIQD-----FSSVGKIPALNNNFEAEGQTITMPKETL 381

>1xeu_A Internalin C; cellular invasion, leucine-rich repeat, cell invasion; 2.05A {Listeria monocytogenes} Length = 263

 Score = 69.7 bits (171), Expect = 3e-13
 Identities = 37/198 (18%), Positives = 72/198 (36%), Gaps = 30/198 (15%)

Query: 483 GLTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSL 542
            +T+    +    V+  +   + I++L+      +L  L LS N  ++S     + +  L
Sbjct: 30  SVTDLVSQKELSGVQNFNGDNSNIQSLAGMQFFTNLKELHLSHN--QISDLSPLKDLTKL 87

Query: 543 RVFNMSNNHLLWKLPSGISTLVSLEHLDLSSTAITHLPIELQKLVNLKCLNLEYMNNLNQ 602
              +++ N L  K  +GI +   L  L L +  +      L  L NL+ L++   N L  
Sbjct: 88  EELSVNRNRL--KNLNGIPSA-CLSRLFLDNNELRDTD-SLIHLKNLEILSIRN-NKLKS 142

Query: 603 FPRLVISAFSKLQVLRMFDCGGSKIERLKINVLFGGHQFLVEELMGMKHLMVL-----TI 657
                I     L  L + D  G++I                  L  +K +  +       
Sbjct: 143 -----IVMLGFLSKLEVLDLHGNEITNT-------------GGLTRLKKVNWIDLTGQKC 184

Query: 658 TLKSWQALKELLISQELQ 675
             +  +   EL I+  ++
Sbjct: 185 VNEPVKYQPELYITNTVK 202

>1xeu_A Internalin C; cellular invasion, leucine-rich repeat, cell invasion; 2.05A {Listeria monocytogenes} Length = 263

 Score = 67.0 bits (164), Expect = 2e-12
 Identities = 35/218 (16%), Positives = 76/218 (34%), Gaps = 50/218 (22%)

Query: 504 NKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTL 563
             I  +   P   + +   L   S+  +     + +  ++ FN  N+++  +  +G+   
Sbjct: 7   TPINQVFPDPGLANAVKQNLGKQSV--TDLVSQKELSGVQNFNGDNSNI--QSLAGMQFF 62

Query: 564 VSLEHLDLSSTAITHLPIELQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFDCG 623
            +L+ L LS   I+ L   L+ L  L+ L++   N L       ++       L      
Sbjct: 63  TNLKELHLSHNQISDLS-PLKDLTKLEELSVNR-NRLKN-----LNGIPSAC-LSRLFLD 114

Query: 624 GSKIERLKINVLFGGHQFLVEELMGMKHLMVLTIT---------LKSWQALKELLISQEL 674
            +++                + L+ +K+L +L+I          L     L+ L +    
Sbjct: 115 NNELRDT-------------DSLIHLKNLEILSIRNNKLKSIVMLGFLSKLEVLDLH--- 158

Query: 675 QRSTQSLFLRCFNDSKSLDIFCLAGLRNLNKLYVAGCK 712
                       N+  +     L  L+ +N + + G K
Sbjct: 159 -----------GNEITNTGG--LTRLKKVNWIDLTGQK 183

>1xeu_A Internalin C; cellular invasion, leucine-rich repeat, cell invasion; 2.05A {Listeria monocytogenes} Length = 263

 Score = 44.6 bits (106), Expect = 4e-05
 Identities = 18/126 (14%), Positives = 42/126 (33%), Gaps = 28/126 (22%)

Query: 484 LTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLR 543
           L +   + + +N+  +S+  NK++++                             +  L 
Sbjct: 118 LRDTDSLIHLKNLEILSIRNNKLKSIV------------------------MLGFLSKLE 153

Query: 544 VFNMSNNHLLWKLPSGISTLVSLEHLDLSSTAITHLPIELQKLVNLKCLNLEYMNNLNQF 603
           V ++  N +      G++ L  +  +DL+     + P++ Q    L   N     +    
Sbjct: 154 VLDLHGNEI--TNTGGLTRLKKVNWIDLTGQKCVNEPVKYQP--ELYITNTVKDPDGRWI 209

Query: 604 PRLVIS 609
               IS
Sbjct: 210 SPYYIS 215

>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 = 71.3 bits (175), Expect = 4e-13
 Identities = 32/139 (23%), Positives = 57/139 (41%), Gaps = 5/139 (3%)

Query: 494 RNVRRMSLMKNKIENL-SETPTC-PHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNH 551
            ++  + L  N +  + S        L  L+L +N ++      F  +PSL   ++    
Sbjct: 123 ASLNTLELFDNWLTVIPSGAFEYLSKLRELWLRNNPIESIPSYAFNRVPSLMRLDLGELK 182

Query: 552 LLWKLPSGI-STLVSLEHLDLSSTAITHLPIELQKLVNLKCLNLEYMNNLNQFPRLVISA 610
            L  +  G    L +L++L+L    I  +P  L  LV L+ L +   N+  +        
Sbjct: 183 KLEYISEGAFEGLFNLKYLNLGMCNIKDMP-NLTPLVGLEELEMSG-NHFPEIRPGSFHG 240

Query: 611 FSKLQVLRMFDCGGSKIER 629
            S L+ L + +   S IER
Sbjct: 241 LSSLKKLWVMNSQVSLIER 259

>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 = 66.7 bits (163), Expect = 9e-12
 Identities = 40/199 (20%), Positives = 76/199 (38%), Gaps = 22/199 (11%)

Query: 516 PHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGI-STLVSLEHLDLSST 574
            +   L L +N+++M   D F+ +  L V  +  N  + ++  G  + L SL  L+L   
Sbjct: 75  SNTRYLNLMENNIQMIQADTFRHLHHLEVLQLGRNS-IRQIEVGAFNGLASLNTLELFDN 133

Query: 575 AITHLPIE-LQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKIN 633
            +T +P    + L  L+ L L   N +   P    +    L  L + +    K+E +   
Sbjct: 134 WLTVIPSGAFEYLSKLRELWLRN-NPIESIPSYAFNRVPSLMRLDLGELK--KLEYISEG 190

Query: 634 VLFGGHQFLVEELMGMKHLMVLTITLKSWQALKELLISQELQRSTQSLFLRCFNDSKSLD 693
                         G+ +L  L + + + + +  L     L+     L +   N    + 
Sbjct: 191 A-----------FEGLFNLKYLNLGMCNIKDMPNLTPLVGLEE----LEMS-GNHFPEIR 234

Query: 694 IFCLAGLRNLNKLYVAGCK 712
                GL +L KL+V   +
Sbjct: 235 PGSFHGLSSLKKLWVMNSQ 253

>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 = 60.9 bits (148), Expect = 6e-10
 Identities = 22/101 (21%), Positives = 42/101 (41%), Gaps = 1/101 (0%)

Query: 495 NVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLW 554
           N++ ++L    I+++        L  L +S N         F  + SL+   + N+ +  
Sbjct: 197 NLKYLNLGMCNIKDMPNLTPLVGLEELEMSGNHFPEIRPGSFHGLSSLKKLWVMNSQVSL 256

Query: 555 KLPSGISTLVSLEHLDLSSTAITHLPIE-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 = 45.5 bits (108), Expect = 4e-05
 Identities = 12/72 (16%), Positives = 30/72 (41%), Gaps = 8/72 (11%)

Query: 491 QNWRNVRRMSLMKNKIENLSETP--TCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMS 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

>1wwl_A Monocyte differentiation antigen CD14; LPS, immune system; HET: NAG; 2.50A {Mus musculus} Length = 312

 Score = 69.9 bits (171), Expect = 4e-13
 Identities = 34/143 (23%), Positives = 55/143 (38%), Gaps = 17/143 (11%)

Query: 488 PEIQNW--RNVRRMSLMKNKIENLS--ETPTCPHLLSLFLSDNSL----KMSTDDFFQSM 539
            E+Q W    ++ +S+ +    N S  +    P L +L LSDN       + +       
Sbjct: 141 AELQQWLKPGLKVLSIAQAHSLNFSCEQVRVFPALSTLDLSDNPELGERGLISALCPLKF 200

Query: 540 PSLRVFNMSNNH---LLWKLPSGISTLVSLEHLDLSSTAITHLPIEL--QKLVNLKCLNL 594
           P+L+V  + N           +  +  V L+ LDLS  ++              L  LNL
Sbjct: 201 PTLQVLALRNAGMETPSGVCSALAAARVQLQGLDLSHNSLRDAAGAPSCDWPSQLNSLNL 260

Query: 595 EYMNNLNQFPRLVISAFSKLQVL 617
            +   L Q P+      +KL VL
Sbjct: 261 SF-TGLKQVPK---GLPAKLSVL 279

>1wwl_A Monocyte differentiation antigen CD14; LPS, immune system; HET: NAG; 2.50A {Mus musculus} Length = 312

 Score = 64.9 bits (158), Expect = 2e-11
 Identities = 30/133 (22%), Positives = 49/133 (36%), Gaps = 12/133 (9%)

Query: 474 ENFLVHAGLGLTEAPEIQNWRNVRRMSLMKNKIENLSETP-----TCPHLLSLFLSDNSL 528
           +N  +    GL  A     +  ++ ++L    +E  S            L  L LS NSL
Sbjct: 182 DNPEL-GERGLISALCPLKFPTLQVLALRNAGMETPSGVCSALAAARVQLQGLDLSHNSL 240

Query: 529 K-MSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSSTAITHLPIELQKLV 587
           +  +          L   N+S   L  ++P G+     L  LDLS   +   P   + L 
Sbjct: 241 RDAAGAPSCDWPSQLNSLNLSFTGL-KQVPKGLPA--KLSVLDLSYNRLDRNPSPDE-LP 296

Query: 588 NLKCLNLEYMNNL 600
            +  L+L+  N  
Sbjct: 297 QVGNLSLKG-NPF 308

>1wwl_A Monocyte differentiation antigen CD14; LPS, immune system; HET: NAG; 2.50A {Mus musculus} Length = 312

 Score = 53.0 bits (127), Expect = 2e-07
 Identities = 31/150 (20%), Positives = 52/150 (34%), Gaps = 15/150 (10%)

Query: 483 GLTEAPEIQNWRNVRRMSLMKNKIENLSETP----TCPHLLSLFLSDNSL----KMSTDD 534
            L  A  +     ++ ++L   ++   +  P    T P L  L L + S         + 
Sbjct: 84  ILFGALRVLGISGLQELTLENLEVTGTAPPPLLEATGPDLNILNLRNVSWATRDAWLAEL 143

Query: 535 FFQSMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSS---TAITHLPIEL--QKLVNL 589
                P L+V +++  H L      +    +L  LDLS         L   L   K   L
Sbjct: 144 QQWLKPGLKVLSIAQAHSLNFSCEQVRVFPALSTLDLSDNPELGERGLISALCPLKFPTL 203

Query: 590 KCLNLEY--MNNLNQFPRLVISAFSKLQVL 617
           + L L    M   +     + +A  +LQ L
Sbjct: 204 QVLALRNAGMETPSGVCSALAAARVQLQGL 233

>1wwl_A Monocyte differentiation antigen CD14; LPS, immune system; HET: NAG; 2.50A {Mus musculus} Length = 312

 Score = 51.8 bits (124), Expect = 4e-07
 Identities = 23/154 (14%), Positives = 44/154 (28%), Gaps = 12/154 (7%)

Query: 493 WRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSL--KMSTDDFFQSMPSLRVFNMSNN 550
              VR   +    +           L  L L +  +           + P L + N+ N 
Sbjct: 72  RLTVRAARIPSRILFGALRVLGISGLQELTLENLEVTGTAPPPLLEATGPDLNILNLRNV 131

Query: 551 HLLWKLPSGISTLV-----SLEHLDLSSTAITHLPIEL-QKLVNLKCLNLEY---MNNLN 601
                  + ++ L       L+ L ++     +   E  +    L  L+L     +    
Sbjct: 132 SWA-TRDAWLAELQQWLKPGLKVLSIAQAHSLNFSCEQVRVFPALSTLDLSDNPELGERG 190

Query: 602 QFPRLVISAFSKLQVLRMFDCGGSKIERLKINVL 635
               L    F  LQVL + + G      +   + 
Sbjct: 191 LISALCPLKFPTLQVLALRNAGMETPSGVCSALA 224

>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 = 71.1 bits (174), Expect = 5e-13
 Identities = 32/142 (22%), Positives = 59/142 (41%), Gaps = 16/142 (11%)

Query: 492 NWRNVRRMSLMKNKIENLSETPTCP-HLLSLFLSDNSLK----MSTDDFFQSMPSLRVFN 546
             + ++ + L +N ++N  +      ++ SL   D SL      + D       S+ V N
Sbjct: 375 TLKRLQTLILQRNGLKNFFKVALMTKNMSSLETLDVSLNSLNSHAYDRTCAWAESILVLN 434

Query: 547 MSNNHLLWKLPSGI--STLVSLEHLDLSSTAITHLPIELQKLVNLKCLNLEYMNNLNQFP 604
           +S+N     L   +       ++ LDL +  I  +P ++  L  L+ LN+   N L   P
Sbjct: 435 LSSN----MLTGSVFRCLPPKVKVLDLHNNRIMSIPKDVTHLQALQELNV-ASNQLKSVP 489

Query: 605 RLVISAFSKLQVLRM----FDC 622
             V    + LQ + +    +DC
Sbjct: 490 DGVFDRLTSLQYIWLHDNPWDC 511

>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 = 60.3 bits (146), Expect = 1e-09
 Identities = 43/206 (20%), Positives = 74/206 (35%), Gaps = 19/206 (9%)

Query: 495 NVRRMSLMKNKIENLSET--PTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHL 552
             + +SL +N I  L          L  L LS N ++      F     L   ++S+N  
Sbjct: 53  RTKALSLSQNSISELRMPDISFLSELRVLRLSHNRIRSLDFHVFLFNQDLEYLDVSHNR- 111

Query: 553 LWKLPSGISTLVSLEHLDLSSTAITHLPI--ELQKLVNLKCLNLEYMNNLNQFPRLVISA 610
           L  +      + SL HLDLS      LP+  E   L  L  L L       +F +L +  
Sbjct: 112 LQNISCC--PMASLRHLDLSFNDFDVLPVCKEFGNLTKLTFLGLSA----AKFRQLDLLP 165

Query: 611 FSKLQVLRMFDCGGSKIERLKINVLFGGHQFLVEELMGMKHLMVLTITLKSWQALKELLI 670
            + L +  +       ++ +  ++  G  + L      + HL+    +L S Q    +  
Sbjct: 166 VAHLHLSCIL------LDLVSYHIKGGETESLQIPNTTVLHLVFHPNSLFSVQVNMSVNA 219

Query: 671 SQELQRSTQSLFLRCFNDSKSLDIFC 696
              LQ    ++ L   N  + +    
Sbjct: 220 LGHLQ--LSNIKLNDENCQRLMTFLS 243

>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 = 7e-09
 Identities = 23/130 (17%), Positives = 38/130 (29%), Gaps = 14/130 (10%)

Query: 517 HLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSSTAI 576
            +    LS +           S  S    N + N     +  G STL  L+ L L    +
Sbjct: 330 EMNIKMLSISDTPFIHMVCPPSPSSFTFLNFTQNVFTDSVFQGCSTLKRLQTLILQRNGL 389

Query: 577 THLPIELQKLVNLKCLNLEYMNNLNQFPRLVISAF----SKLQVLRM---------FDCG 623
            +         N+  L      +LN                + VL +         F C 
Sbjct: 390 KNFFKVALMTKNMSSLETLD-VSLNSLNSHAYDRTCAWAESILVLNLSSNMLTGSVFRCL 448

Query: 624 GSKIERLKIN 633
             K++ L ++
Sbjct: 449 PPKVKVLDLH 458

>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 = 47.2 bits (112), Expect = 1e-05
 Identities = 25/193 (12%), Positives = 55/193 (28%), Gaps = 20/193 (10%)

Query: 497 RRMSLMKNKIENLSETPTCPHLLSLFLSDNSL-----KMSTDDFFQSMPSLRVFNMSNNH 551
           + +         L +      +  L + + ++     +        ++ SL + ++ N  
Sbjct: 257 QHIETTWKCSVKLFQFFWPRPVEYLNIYNLTITERIDREEFTYSETALKSLMIEHVKNQV 316

Query: 552 LLWKLPSGISTLVSLEHLDLSSTAITHLPIE-LQKLVNLKCLNLEYMNNLNQFPRLVISA 610
            L+   +  S    +    LS +    + +       +   LN       N F   V   
Sbjct: 317 FLFSKEALYSVFAEMNIKMLSISDTPFIHMVCPPSPSSFTFLNFTQ----NVFTDSVFQG 372

Query: 611 FSKLQVLRMFDCGGSKIERLKINVLFGGHQFLVEELMGMKHLMVLTITLKSWQALKELLI 670
            S L+ L+      + ++             +      M  L  L ++L S  +      
Sbjct: 373 CSTLKRLQTLILQRNGLKNFFK---------VALMTKNMSSLETLDVSLNSLNSHAYDRT 423

Query: 671 SQELQRSTQSLFL 683
                 S   L L
Sbjct: 424 CA-WAESILVLNL 435

>2xot_A Amphoterin-induced protein 1; cell adhesion, neuronal protein, neurite growth regulation; HET: NAG BMA; 2.00A {Mus musculus} Length = 361

 Score = 69.5 bits (170), Expect = 9e-13
 Identities = 33/132 (25%), Positives = 54/132 (40%), Gaps = 12/132 (9%)

Query: 494 RNVRRMSLMKNKIENLSET--PTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNH 551
            N+  + L  N +  +S       P+L  L LS N L    +  F  + +L V  + NNH
Sbjct: 64  TNLHSLLLSHNHLNFISSEAFVPVPNLRYLDLSSNHLHTLDEFLFSDLQALEVLLLYNNH 123

Query: 552 LLWKLPSGI-STLVSLEHLDLSSTAITHLPIE----LQKLVNLKCLNLEYMNNLNQFPRL 606
            +  +       +  L+ L LS   I+  P+E      KL  L  L+L    + N+  +L
Sbjct: 124 -IVVVDRNAFEDMAQLQKLYLSQNQISRFPVELIKDGNKLPKLMLLDL----SSNKLKKL 178

Query: 607 VISAFSKLQVLR 618
            ++   KL    
Sbjct: 179 PLTDLQKLPAWV 190

>2xot_A Amphoterin-induced protein 1; cell adhesion, neuronal protein, neurite growth regulation; HET: NAG BMA; 2.00A {Mus musculus} Length = 361

 Score = 61.0 bits (148), Expect = 5e-10
 Identities = 30/125 (24%), Positives = 53/125 (42%), Gaps = 9/125 (7%)

Query: 521 LFLSDNSL-KMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGI-STLVSLEHLDLSSTAITH 578
           L LS N+L ++  +     + +L    +S+NH L  + S     + +L +LDLSS  +  
Sbjct: 44  LDLSHNNLSRLRAEWTPTRLTNLHSLLLSHNH-LNFISSEAFVPVPNLRYLDLSSNHLHT 102

Query: 579 LPIE-LQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKINVLFG 637
           L       L  L+ L L   N++    R   +AF  +  L+      ++I R  + +   
Sbjct: 103 LDEFLFSDLQALEVLLLYN-NHIVVVDR---NAFEDMAQLQKLYLSQNQISRFPVEL-IK 157

Query: 638 GHQFL 642
               L
Sbjct: 158 DGNKL 162

>2xot_A Amphoterin-induced protein 1; cell adhesion, neuronal protein, neurite growth regulation; HET: NAG BMA; 2.00A {Mus musculus} Length = 361

 Score = 47.5 bits (113), Expect = 9e-06
 Identities = 22/94 (23%), Positives = 41/94 (43%), Gaps = 8/94 (8%)

Query: 540 PSLRVFNMSNNHLLWKLPSGI--STLVSLEHLDLSSTAITHLPIE-LQKLVNLKCLNLEY 596
               + ++S+N+L  +L +    + L +L  L LS   +  +  E    + NL+ L+L  
Sbjct: 39  SYTALLDLSHNNLS-RLRAEWTPTRLTNLHSLLLSHNHLNFISSEAFVPVPNLRYLDLSS 97

Query: 597 MNNLNQFPRLVISAFSKLQVLRMFDCGGSKIERL 630
            N+L+         FS LQ L +     + I  +
Sbjct: 98  -NHLHTLDE---FLFSDLQALEVLLLYNNHIVVV 127

>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 = 68.2 bits (167), Expect = 1e-12
 Identities = 35/130 (26%), Positives = 55/130 (42%), Gaps = 8/130 (6%)

Query: 494 RNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLL 553
             + +++L + ++  L    T P L +L LS N L+ S     Q++P+L V ++S N L 
Sbjct: 55  TRLTQLNLDRAELTKLQVDGTLPVLGTLDLSHNQLQ-SLPLLGQTLPALTVLDVSFNRLT 113

Query: 554 WKLPSGI-STLVSLEHLDLSSTAITHLPIEL-QKLVNLKCLNLEYMNNLNQFPRLVISAF 611
             LP G    L  L+ L L    +  LP  L      L+ L+L      N    L     
Sbjct: 114 -SLPLGALRGLGELQELYLKGNELKTLPPGLLTPTPKLEKLSLAN----NNLTELPAGLL 168

Query: 612 SKLQVLRMFD 621
           + L+ L    
Sbjct: 169 NGLENLDTLL 178

>1p9a_G Platelet glycoprotein IB alpha chain precursor; platelet receptors, glycocalicin, leucine rich repeats, BLOO clotting; HET: NAG BMA; 1.70A {Homo sapiens} SCOP: c.10.2.7 PDB: 1ook_G* 1qyy_A* 3pmh_G* 1m0z_A 1m10_B 1sq0_B 1gwb_A* 1p8v_A* 1u0n_D 3p72_A Length = 290

 Score = 61.3 bits (149), Expect = 2e-10
 Identities = 36/148 (24%), Positives = 56/148 (37%), Gaps = 14/148 (9%)

Query: 484 LTEAPEIQNWRNVRRMSLMKNKIENLSETPT-CPHLLSLFLSDNSLKMSTDDFFQSMPSL 542
           LT+         +  + L  N++++L       P L  L +S N L        + +  L
Sbjct: 67  LTKLQVDGTLPVLGTLDLSHNQLQSLPLLGQTLPALTVLDVSFNRLTSLPLGALRGLGEL 126

Query: 543 RVFNMSNNHLLWKLPSGI-STLVSLEHLDLSSTAITHLPIEL-QKLVNLKCLNLEYMNNL 600
           +   +  N L   LP G+ +    LE L L++  +T LP  L   L NL  L L   N+L
Sbjct: 127 QELYLKGNELK-TLPPGLLTPTPKLEKLSLANNNLTELPAGLLNGLENLDTLLL-QENSL 184

Query: 601 NQFPRLVISAF--SKLQVLRMF----DC 622
              P+     F    L    +      C
Sbjct: 185 YTIPK---GFFGSHLLPFAFLHGNPWLC 209

>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 = 55.1 bits (133), Expect = 2e-08
 Identities = 29/99 (29%), Positives = 40/99 (40%), Gaps = 3/99 (3%)

Query: 521 LFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSSTAITHLP 580
           L LS+N L   +         L   N+    L  KL     TL  L  LDLS   +  LP
Sbjct: 36  LHLSENLLYTFSLATLMPYTRLTQLNLDRAELT-KLQVD-GTLPVLGTLDLSHNQLQSLP 93

Query: 581 IELQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRM 619
           +  Q L  L  L++ + N L   P   +    +LQ L +
Sbjct: 94  LLGQTLPALTVLDVSF-NRLTSLPLGALRGLGELQELYL 131

>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 = 44.3 bits (105), Expect = 6e-05
 Identities = 24/121 (19%), Positives = 39/121 (32%), Gaps = 23/121 (19%)

Query: 513 PTCP-----HLLSLFLSDNSLKMSTDDFFQSMPS-----LRVFNMSNNHLLWKLPSGI-S 561
           P C        L +     +L         ++P        + ++S N L          
Sbjct: 2   PICEVSKVASHLEVNCDKRNL--------TALPPDLPKDTTILHLSENLLY-TFSLATLM 52

Query: 562 TLVSLEHLDLSSTAITHLPIELQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFD 621
               L  L+L    +T L ++   L  L  L+L + N L   P L+      L VL +  
Sbjct: 53  PYTRLTQLNLDRAELTKLQVD-GTLPVLGTLDLSH-NQLQSLP-LLGQTLPALTVLDVSF 109

Query: 622 C 622
            
Sbjct: 110 N 110

>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 = 66.8 bits (163), Expect = 1e-11
 Identities = 36/191 (18%), Positives = 59/191 (30%), Gaps = 21/191 (10%)

Query: 495 NVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLW 554
            + ++    N++ +L   P+   L  L +S N L             L+   +S N L  
Sbjct: 202 ELYKLWAYNNRLTSLPALPS--GLKELIVSGNRLT----SLPVLPSELKELMVSGNRLT- 254

Query: 555 KLPSGISTLVSLEHLDLSSTAITHLPIELQKLVNLKCLNLEYMNNLNQFPRLVISAFSKL 614
            LP   S    L  L +    +T LP  L  L +   +NLE  N L++     +   +  
Sbjct: 255 SLPMLPS---GLLSLSVYRNQLTRLPESLIHLSSETTVNLEG-NPLSERTLQALREITSA 310

Query: 615 QVLRM----FDCGGSKIERLKINVLFGGHQFLVEELMGMKHLMVLTITLKSWQALKELLI 670
                    FD  G+   R    +      +LV    G             W    +   
Sbjct: 311 PGYSGPIIRFDMAGASAPRETRALHLAAADWLVPAREG------EPAPADRWHMFGQEDN 364

Query: 671 SQELQRSTQSL 681
           +         L
Sbjct: 365 ADAFSLFLDRL 375

>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 = 63.8 bits (155), Expect = 1e-10
 Identities = 38/154 (24%), Positives = 56/154 (36%), Gaps = 23/154 (14%)

Query: 477 LVHAGLGLTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFF 536
           L      LT  P + +   + ++ +  N++ +L   P  P L  L +SDN L        
Sbjct: 106 LSIFSNPLTHLPALPS--GLCKLWIFGNQLTSLPVLP--PGLQELSVSDNQL----ASLP 157

Query: 537 QSMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSSTAITHLPIELQKLVNLKCLNLEY 596
                L      NN L   LP   S    L+ L +S   +  LP    +L  L   N   
Sbjct: 158 ALPSELCKLWAYNNQL-TSLPMLPS---GLQELSVSDNQLASLPTLPSELYKLWAYN--- 210

Query: 597 MNNLNQFPRLVISAFSKLQVLRMFDCGGSKIERL 630
            N L   P L     S L+ L      G+++  L
Sbjct: 211 -NRLTSLPALP----SGLKEL---IVSGNRLTSL 236

>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 = 58.8 bits (142), Expect = 4e-09
 Identities = 27/142 (19%), Positives = 48/142 (33%), Gaps = 20/142 (14%)

Query: 491 QNWRNVRRMSLMKNKIENLSETPTC--PHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMS 548
             WR        + +   + +   C       L + ++ L    D        +    + 
Sbjct: 13  SAWRRAAPAEESRGRAAVVQKMRACLNNGNAVLNVGESGLTTLPDCLPAH---ITTLVIP 69

Query: 549 NNHLLWKLPSGISTLVSLEHLDLSSTAITHLPIELQKLVNLKCLNLEYMNNLNQFPRLVI 608
           +N+L   LP+       L  L++S   +T LP+    L+ L   +    N L   P L  
Sbjct: 70  DNNLT-SLPALPP---ELRTLEVSGNQLTSLPVLPPGLLELSIFS----NPLTHLPAL-- 119

Query: 609 SAFSKLQVLRMFDCGGSKIERL 630
              S L  L      G+++  L
Sbjct: 120 --PSGLCKL---WIFGNQLTSL 136

>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 = 64.2 bits (157), Expect = 2e-11
 Identities = 30/126 (23%), Positives = 55/126 (43%), Gaps = 6/126 (4%)

Query: 495 NVRRMSLMKNKIENL-SETPT-CPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHL 552
           ++  + L  N I++L     +    L  L   + +L    +     + +L+  N+++N +
Sbjct: 77  HLSTLILTGNPIQSLALGAFSGLSSLQKLVAVETNLASLENFPIGHLKTLKELNVAHNLI 136

Query: 553 LWKLPS-GI-STLVSLEHLDLSSTAITHLPIE-LQKLVNLKCLNLEYMNNLNQFPRLVIS 609
                     S L +LEHLDLSS  I  +    L+ L  +  LNL    +LN    +   
Sbjct: 137 Q-SFKLPEYFSNLTNLEHLDLSSNKIQSIYCTDLRVLHQMPLLNLSLDLSLNPMNFIQPG 195

Query: 610 AFSKLQ 615
           AF +++
Sbjct: 196 AFKEIR 201

>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 = 62.7 bits (153), Expect = 7e-11
 Identities = 37/145 (25%), Positives = 59/145 (40%), Gaps = 8/145 (5%)

Query: 495 NVRRMSLMKNKIENLSET--PTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHL 552
           + + + L  N + +L      + P L  L LS   ++   D  +QS+  L    ++ N +
Sbjct: 29  STKNLDLSFNPLRHLGSYSFFSFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNPI 88

Query: 553 LWKLPSGI-STLVSLEHLDLSSTAITHLPIEL-QKLVNLKCLNLEYMNNLNQFPRLVISA 610
              L  G  S L SL+ L    T +  L       L  LK LN+ + N +  F   +   
Sbjct: 89  Q-SLALGAFSGLSSLQKLVAVETNLASLENFPIGHLKTLKELNVAH-NLIQSFK--LPEY 144

Query: 611 FSKLQVLRMFDCGGSKIERLKINVL 635
           FS L  L   D   +KI+ +    L
Sbjct: 145 FSNLTNLEHLDLSSNKIQSIYCTDL 169

>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 = 57.7 bits (140), Expect = 3e-09
 Identities = 21/107 (19%), Positives = 43/107 (40%), Gaps = 5/107 (4%)

Query: 516 PHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGI-STLVSLEHLDLSST 574
            HL +L L+ N ++      F  + SL+       +L   L +     L +L+ L+++  
Sbjct: 76  SHLSTLILTGNPIQSLALGAFSGLSSLQKLVAVETNLA-SLENFPIGHLKTLKELNVAHN 134

Query: 575 AITHLPIE--LQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRM 619
            I    +      L NL+ L+L   N +       +    ++ +L +
Sbjct: 135 LIQSFKLPEYFSNLTNLEHLDL-SSNKIQSIYCTDLRVLHQMPLLNL 180

>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 = 46.9 bits (112), Expect = 1e-05
 Identities = 18/108 (16%), Positives = 46/108 (42%), Gaps = 9/108 (8%)

Query: 495 NVRRMSLMKNKIENLSETPTCPHLLSL---FLSDNSLKMSTDDFFQSMPSLRVFN----M 547
            ++ +++  N I++        +L +L    LS N ++       + +  + + N    +
Sbjct: 125 TLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNKIQSIYCTDLRVLHQMPLLNLSLDL 184

Query: 548 SNNHLLWKLPSGISTLVSLEHLDLSSTAITHLPIE-LQKLVNLKCLNL 594
           S N + + +  G    + L+ L L +  +  +P     +L +L+ + L
Sbjct: 185 SLNPMNF-IQPGAFKEIRLKELALDTNQLKSVPDGIFDRLTSLQKIWL 231

>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 = 62.0 bits (151), Expect = 4e-11
 Identities = 40/163 (24%), Positives = 66/163 (40%), Gaps = 22/163 (13%)

Query: 490 IQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSN 549
           +   +  + ++L  N IE +S      +L  L L  N +K   ++      +L    +S 
Sbjct: 44  LSTLKACKHLALSTNNIEKISSLSGMENLRILSLGRNLIK-KIENLDAVADTLEELWISY 102

Query: 550 NHLLWKLPSGISTLVSLEHLDLSSTAITHLPI--ELQKLVNLKCLNLE---------YMN 598
           N +     SGI  LV+L  L +S+  IT+     +L  L  L+ L L            N
Sbjct: 103 NQI--ASLSGIEKLVNLRVLYMSNNKITNWGEIDKLAALDKLEDLLLAGNPLYNDYKENN 160

Query: 599 NLNQFPRLVISAFSKLQVLRMFDCGGSKI---ERLKINVLFGG 638
             +++   V+     L+ L   D  G  +   ER + NV  GG
Sbjct: 161 ATSEYRIEVVKRLPNLKKL---D--GMPVDVDEREQANVARGG 198

>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 = 50.8 bits (122), Expect = 3e-07
 Identities = 30/168 (17%), Positives = 63/168 (37%), Gaps = 25/168 (14%)

Query: 496 VRRMSLMKNKIENLSE----TPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNH 551
           + + + +K+ I    E      T    + L      ++   D    ++ + +   +S N+
Sbjct: 1   MAKATTIKDAIRIFEERKSVVATEAEKVELHGMIPPIE-KMDATLSTLKACKHLALSTNN 59

Query: 552 LLWKLPSGISTLVSLEHLDLSSTAITHLPIELQKLVN-LKCLNLEYMNNLNQFPRLVISA 610
           +  K+ S +S + +L  L L    I  +   L  + + L+ L + Y N +       +S 
Sbjct: 60  IE-KI-SSLSGMENLRILSLGRNLIKKIE-NLDAVADTLEELWISY-NQIAS-----LSG 110

Query: 611 FSKLQVLRMFDCGGSKIERLKINVLFGGHQFLVEELMGMKHLMVLTIT 658
             KL  LR+     +KI               +++L  +  L  L + 
Sbjct: 111 IEKLVNLRVLYMSNNKITNWGE----------IDKLAALDKLEDLLLA 148

>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 = 64.1 bits (156), Expect = 4e-11
 Identities = 35/207 (16%), Positives = 71/207 (34%), Gaps = 23/207 (11%)

Query: 508 NLSETPTC--PHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGI-STLV 564
            ++E P+    + + L      L++     F     L    +S N +L  + + + S L 
Sbjct: 20  KVTEIPSDLPRNAIELRFVLTKLRVIQKGAFSGFGDLEKIEISQNDVLEVIEADVFSNLP 79

Query: 565 SLEHLDLS-STAITHLPIE-LQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFDC 622
            L  + +  +  + ++  E  Q L NL+ L +     +   P +      +  +L + D 
Sbjct: 80  KLHEIRIEKANNLLYINPEAFQNLPNLQYLLISN-TGIKHLPDVHKIHSLQKVLLDIQD- 137

Query: 623 GGSKIERLKINVLFGGHQFLVEEL-MGMKHLMVLTITLKSWQALKELLISQELQRSTQSL 681
               I  ++ N  F G  F    L +    +  +  +  +   L EL +S          
Sbjct: 138 -NINIHTIERNS-FVGLSFESVILWLNKNGIQEIHNSAFNGTQLDELNLSDN-------- 187

Query: 682 FLRCFNDSKSLDIFCLAGLRNLNKLYV 708
                N+ + L      G      L +
Sbjct: 188 -----NNLEELPNDVFHGASGPVILDI 209

>4ay9_X Follicle-stimulating hormone receptor; hormone-receptor complex, leucine-rich repeats, LRR, GPCR; HET: TYS NAG; 2.50A {Homo sapiens} PDB: 1xwd_C* Length = 350

 Score = 56.8 bits (137), Expect = 1e-08
 Identities = 24/136 (17%), Positives = 43/136 (31%), Gaps = 7/136 (5%)

Query: 504 NKIENLSET--PTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGIS 561
           N +  ++       P+L  L +S+  +K   D          + ++ +N  +  +     
Sbjct: 90  NNLLYINPEAFQNLPNLQYLLISNTGIKHLPDVHKIHSLQKVLLDIQDNINIHTIERNSF 149

Query: 562 T--LVSLEHLDLSSTAITHLPIELQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRM 619
                    L L+   I  +         L  LNL   NNL + P      F       +
Sbjct: 150 VGLSFESVILWLNKNGIQEIHNSAFNGTQLDELNLSDNNNLEELPN---DVFHGASGPVI 206

Query: 620 FDCGGSKIERLKINVL 635
            D   ++I  L    L
Sbjct: 207 LDISRTRIHSLPSYGL 222

>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 = 62.0 bits (151), Expect = 5e-11
 Identities = 35/136 (25%), Positives = 58/136 (42%), Gaps = 10/136 (7%)

Query: 495 NVRRMSLMKNKIENLSET--PTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHL 552
            +  + L +N I+ +          L  + LS+N +     D FQ + SL    +  N +
Sbjct: 33  TITEIRLEQNTIKVIPPGAFSPYKKLRRIDLSNNQISELAPDAFQGLRSLNSLVLYGNKI 92

Query: 553 LWKLPSGI-STLVSLEHLDLSSTAITHLPIEL-QKLVNLKCLNLEYMNNLNQFPRLVISA 610
             +LP  +   L SL+ L L++  I  L ++  Q L NL  L+L Y N L    +   S 
Sbjct: 93  T-ELPKSLFEGLFSLQLLLLNANKINCLRVDAFQDLHNLNLLSL-YDNKLQTIAKGTFSP 150

Query: 611 FSKLQVLRM----FDC 622
              +Q + +    F C
Sbjct: 151 LRAIQTMHLAQNPFIC 166

>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 = 59.3 bits (144), Expect = 5e-10
 Identities = 31/112 (27%), Positives = 48/112 (42%), Gaps = 7/112 (6%)

Query: 521 LFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGI-STLVSLEHLDLSSTAITHL 579
           + L  N++K+     F     LR  ++SNN  + +L       L SL  L L    IT L
Sbjct: 37  IRLEQNTIKVIPPGAFSPYKKLRRIDLSNNQ-ISELAPDAFQGLRSLNSLVLYGNKITEL 95

Query: 580 PIEL-QKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFDCGGSKIERL 630
           P  L + L +L+ L L   N +N        AF  L  L +     +K++ +
Sbjct: 96  PKSLFEGLFSLQLLLLNA-NKINCLRV---DAFQDLHNLNLLSLYDNKLQTI 143

>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 = 48.1 bits (115), Expect = 3e-06
 Identities = 22/105 (20%), Positives = 42/105 (40%), Gaps = 5/105 (4%)

Query: 494 RNVRRMSLMKNKIENLSET--PTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNH 551
           + +RR+ L  N+I  L+         L SL L  N +       F+ + SL++  ++ N 
Sbjct: 56  KKLRRIDLSNNQISELAPDAFQGLRSLNSLVLYGNKITELPKSLFEGLFSLQLLLLNANK 115

Query: 552 LLWKLPSGI-STLVSLEHLDLSSTAITHLPIE-LQKLVNLKCLNL 594
            +  L       L +L  L L    +  +       L  ++ ++L
Sbjct: 116 -INCLRVDAFQDLHNLNLLSLYDNKLQTIAKGTFSPLRAIQTMHL 159

>2xwt_C Thyrotropin receptor; signaling protein-immune system complex, GPCR, graves' disea autoimmunity, receptor-autoantibody complex; HET: NAG BMA MAN; 1.90A {Homo sapiens} PDB: 3g04_C* Length = 239

 Score = 61.2 bits (149), Expect = 1e-10
 Identities = 28/144 (19%), Positives = 60/144 (41%), Gaps = 9/144 (6%)

Query: 508 NLSETPTCP-HLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGI-STLVS 565
           ++   P+ P    +L L +  L+      F ++P++    +S +  L +L S     L  
Sbjct: 22  DIQRIPSLPPSTQTLKLIETHLRTIPSHAFSNLPNISRIYVSIDVTLQQLESHSFYNLSK 81

Query: 566 LEHLDLSST-AITHLPIE-LQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFD-C 622
           + H+++ +T  +T++  + L++L  LK L +     L  FP L  +      +  + +  
Sbjct: 82  VTHIEIRNTRNLTYIDPDALKELPLLKFLGIFN-TGLKMFPDL--TKVYSTDIFFILEIT 138

Query: 623 GGSKIERLKINVLFGGHQFLVEEL 646
               +  + +N  F G       L
Sbjct: 139 DNPYMTSIPVNA-FQGLCNETLTL 161

>2xwt_C Thyrotropin receptor; signaling protein-immune system complex, GPCR, graves' disea autoimmunity, receptor-autoantibody complex; HET: NAG BMA MAN; 1.90A {Homo sapiens} PDB: 3g04_C* Length = 239

 Score = 48.8 bits (117), Expect = 2e-06
 Identities = 21/97 (21%), Positives = 35/97 (36%), Gaps = 7/97 (7%)

Query: 504 NKIENLSE---TPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGI 560
             + ++        C   L+L L +N         F     L    ++ N  L  +    
Sbjct: 141 PYMTSIPVNAFQGLCNETLTLKLYNNGFTSVQGYAFNG-TKLDAVYLNKNKYLTVIDKDA 199

Query: 561 -STLVS-LEHLDLSSTAITHLPIE-LQKLVNLKCLNL 594
              + S    LD+S T++T LP + L+ L  L   N 
Sbjct: 200 FGGVYSGPSLLDVSQTSVTALPSKGLEHLKELIARNT 236

>2o6q_A Variable lymphocyte receptor A; leucine-rich repeat protein, LRR, immune system; 2.50A {Eptatretus burgeri} Length = 270

 Score = 59.6 bits (145), Expect = 6e-10
 Identities = 36/144 (25%), Positives = 63/144 (43%), Gaps = 9/144 (6%)

Query: 495 NVRRMSLMKNKIENLSET--PTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHL 552
           + +++ L  NK+ +L          L  L+L+DN L+      F+ + +L    +++N  
Sbjct: 38  DTKKLDLQSNKLSSLPSKAFHRLTKLRLLYLNDNKLQTLPAGIFKELKNLETLWVTDNK- 96

Query: 553 LWKLPSGI-STLVSLEHLDLSSTAITHLPIEL-QKLVNLKCLNLEYMNNLNQFPRLVISA 610
           L  LP G+   LV+L  L L    +  LP  +   L  L  L+L Y    N+   L    
Sbjct: 97  LQALPIGVFDQLVNLAELRLDRNQLKSLPPRVFDSLTKLTYLSLGY----NELQSLPKGV 152

Query: 611 FSKLQVLRMFDCGGSKIERLKINV 634
           F KL  L+      ++++R+    
Sbjct: 153 FDKLTSLKELRLYNNQLKRVPEGA 176

>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 = 57.0 bits (138), Expect = 1e-09
 Identities = 24/126 (19%), Positives = 47/126 (37%), Gaps = 6/126 (4%)

Query: 499 MSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPS 558
           + L    IE  ++         L L    +    ++   ++      + S+N +  KL  
Sbjct: 2   VKLTAELIEQAAQYTNAVRDRELDLRGYKIP-VIENLGATLDQFDAIDFSDNEIR-KL-D 58

Query: 559 GISTLVSLEHLDLSSTAITHL-PIELQKLVNLKCLNLEYMNNLNQFPRL-VISAFSKLQV 616
           G   L  L+ L +++  I  +     Q L +L  L L   N+L +   L  +++   L  
Sbjct: 59  GFPLLRRLKTLLVNNNRICRIGEGLDQALPDLTELILTN-NSLVELGDLDPLASLKSLTY 117

Query: 617 LRMFDC 622
           L +   
Sbjct: 118 LCILRN 123

>1a9n_A U2A', U2A'; complex (nuclear protein/RNA), RNA, snRNP, ribonucleoprotein, RNA binding protein/RNA complex; 2.38A {Homo sapiens} SCOP: c.10.2.4 Length = 176

 Score = 53.9 bits (130), Expect = 2e-08
 Identities = 27/150 (18%), Positives = 52/150 (34%), Gaps = 28/150 (18%)

Query: 494 RNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLL 553
                +    N+I  L   P    L +L +++N +    +   Q++P L    ++NN   
Sbjct: 42  DQFDAIDFSDNEIRKLDGFPLLRRLKTLLVNNNRICRIGEGLDQALPDLTELILTNNS-- 99

Query: 554 WKLPSGISTLVSLEHLDLSSTAITHLPIELQKLVNLKCLNLEYMNNLNQFPRLVISAFSK 613
                 +  L  L+               L  L +L  L +   N +       +    K
Sbjct: 100 ------LVELGDLDP--------------LASLKSLTYLCILR-NPVTNKKHYRLYVIYK 138

Query: 614 LQVLRMFDCGGSKI---ERLKINVLFGGHQ 640
           +  +R+ D    K+   ER +   +F G +
Sbjct: 139 VPQVRVLD--FQKVKLKERQEAEKMFKGKR 166

>3cvr_A Invasion plasmid antigen; leucine rich repeat and alpha fold, ligase; 2.80A {Shigella flexneri 2A} Length = 571

 Score = 60.0 bits (145), Expect = 2e-09
 Identities = 32/205 (15%), Positives = 68/205 (33%), Gaps = 14/205 (6%)

Query: 484 LTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLR 543
           L+  PE     +++ + +  N++  L E P    L  +   +N L M  +       SL 
Sbjct: 112 LSTLPE--LPASLKHLDVDNNQLTMLPELPA--LLEYINADNNQLTMLPE----LPTSLE 163

Query: 544 VFNMSNNHLLWKLPSGISTLVSLEHLDLSSTAITHLPIELQKLVNLKCLNLEYMNNLNQF 603
           V ++ NN L   LP       SLE LD+S+  +  LP    +  + +   + +    N+ 
Sbjct: 164 VLSVRNNQL-TFLPELPE---SLEALDVSTNLLESLPAVPVRNHHSEETEIFFRCRENRI 219

Query: 604 PRLVISAFSKLQVLRMFDCGGSKIERLKINVLFGGHQFLVEELMGMKHLMVLTITLKSWQ 663
             +  +    L          + +    I           +      +  +      +  
Sbjct: 220 THIPEN-ILSLDPTCTIILEDNPLSSR-IRESLSQQTAQPDYHGPRIYFSMSDGQQNTLH 277

Query: 664 ALKELLISQELQRSTQSLFLRCFND 688
                 ++     + QS   + ++ 
Sbjct: 278 RPLADAVTAWFPENKQSDVSQIWHA 302

>3cvr_A Invasion plasmid antigen; leucine rich repeat and alpha fold, ligase; 2.80A {Shigella flexneri 2A} Length = 571

 Score = 48.8 bits (116), Expect = 5e-06
 Identities = 21/152 (13%), Positives = 40/152 (26%), Gaps = 43/152 (28%)

Query: 484 LTEAPE--IQNWRNVRRMSLMKNKIENLSETP---TCPHLLSLFLSDNSLKMSTDDFFQS 538
           ++         W    + +L                      L L+  +L          
Sbjct: 22  ISGTYADYFSAWDKWEKQALPGENRNEAVSLLKECLINQFSELQLNRLNLS--------- 72

Query: 539 MPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSSTAITHLPIELQKLVNLKCLNLEYMN 598
                            LP  +     +  L+++  A+  LP     L  L   +    N
Sbjct: 73  ----------------SLPDNLPP--QITVLEITQNALISLPELPASLEYLDACD----N 110

Query: 599 NLNQFPRLVISAFSKLQVLRMFDCGGSKIERL 630
            L+  P L     + L+ L   D   +++  L
Sbjct: 111 RLSTLPEL----PASLKHL---DVDNNQLTML 135

>1ogq_A PGIP-2, polygalacturonase inhibiting protein; inhibitor; HET: NAG; 1.7A {Phaseolus vulgaris} SCOP: c.10.2.8 Length = 313

 Score = 58.7 bits (143), Expect = 2e-09
 Identities = 29/114 (25%), Positives = 48/114 (42%), Gaps = 10/114 (8%)

Query: 517 HLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSSTAI 576
           +L  + LS N L+      F S  + +  +++ N L + L   +    +L  LDL +  I
Sbjct: 198 NLAFVDLSRNMLEGDASVLFGSDKNTQKIHLAKNSLAFDLGK-VGLSKNLNGLDLRNNRI 256

Query: 577 T-HLPIELQKLVNLKCLNLEYMNNLN-QFPRLVISAFSKLQVLRMFD----CGG 624
              LP  L +L  L  LN+ + NNL  + P+       +  V    +    CG 
Sbjct: 257 YGTLPQGLTQLKFLHSLNVSF-NNLCGEIPQ--GGNLQRFDVSAYANNKCLCGS 307

>1ogq_A PGIP-2, polygalacturonase inhibiting protein; inhibitor; HET: NAG; 1.7A {Phaseolus vulgaris} SCOP: c.10.2.8 Length = 313

 Score = 56.4 bits (137), Expect = 1e-08
 Identities = 25/110 (22%), Positives = 47/110 (42%), Gaps = 7/110 (6%)

Query: 515 CPHLLSLFLSDNSLKMSTD--DFFQSMPSLRVFNMSN-NHLLWKLPSGISTLVSLEHLDL 571
              + +L LS  +L           ++P L    +   N+L+  +P  I+ L  L +L +
Sbjct: 49  TYRVNNLDLSGLNLPKPYPIPSSLANLPYLNFLYIGGINNLVGPIPPAIAKLTQLHYLYI 108

Query: 572 SSTAIT-HLPIELQKLVNLKCLNLEYMNNLN-QFPRLVISAFSKLQVLRM 619
           + T ++  +P  L ++  L  L+  Y N L+   P   IS+   L  +  
Sbjct: 109 THTNVSGAIPDFLSQIKTLVTLDFSY-NALSGTLPP-SISSLPNLVGITF 156

>1ogq_A PGIP-2, polygalacturonase inhibiting protein; inhibitor; HET: NAG; 1.7A {Phaseolus vulgaris} SCOP: c.10.2.8 Length = 313

 Score = 52.2 bits (126), Expect = 2e-07
 Identities = 25/140 (17%), Positives = 53/140 (37%), Gaps = 19/140 (13%)

Query: 488 PEIQNWRNVRRMSLMKNK--------IENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSM 539
           P I +  N+  ++   N+          + S+  T     S+ +S N L       F ++
Sbjct: 143 PSISSLPNLVGITFDGNRISGAIPDSYGSFSKLFT-----SMTISRNRLTGKIPPTFANL 197

Query: 540 PSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSSTAIT-HLPIELQKLVNLKCLNLEYMN 598
            +L   ++S N L         +  + + + L+  ++   L  ++    NL  L+L   N
Sbjct: 198 -NLAFVDLSRNMLEGDASVLFGSDKNTQKIHLAKNSLAFDLG-KVGLSKNLNGLDL-RNN 254

Query: 599 NLN-QFPRLVISAFSKLQVL 617
            +    P+  ++    L  L
Sbjct: 255 RIYGTLPQ-GLTQLKFLHSL 273

>1ogq_A PGIP-2, polygalacturonase inhibiting protein; inhibitor; HET: NAG; 1.7A {Phaseolus vulgaris} SCOP: c.10.2.8 Length = 313

 Score = 51.8 bits (125), Expect = 3e-07
 Identities = 19/89 (21%), Positives = 35/89 (39%), Gaps = 3/89 (3%)

Query: 515 CPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSST 574
              L  L+++  ++  +  DF   + +L   + S N L   LP  IS+L +L  +     
Sbjct: 100 LTQLHYLYITHTNVSGAIPDFLSQIKTLVTLDFSYNALSGTLPPSISSLPNLVGITFDGN 159

Query: 575 AIT-HLPIELQKLVNL-KCLNLEYMNNLN 601
            I+  +P        L   + +   N L 
Sbjct: 160 RISGAIPDSYGSFSKLFTSMTISR-NRLT 187

>1ogq_A PGIP-2, polygalacturonase inhibiting protein; inhibitor; HET: NAG; 1.7A {Phaseolus vulgaris} SCOP: c.10.2.8 Length = 313

 Score = 42.9 bits (102), Expect = 2e-04
 Identities = 18/89 (20%), Positives = 35/89 (39%), Gaps = 7/89 (7%)

Query: 534 DFFQSMPSLRVFNMSNNHL--LWKLPSGISTLVSLEHLDLSST-AIT-HLPIELQKLVNL 589
           D       +   ++S  +L   + +PS ++ L  L  L +     +   +P  + KL  L
Sbjct: 44  DTDTQTYRVNNLDLSGLNLPKPYPIPSSLANLPYLNFLYIGGINNLVGPIPPAIAKLTQL 103

Query: 590 KCLNLEYMNNLN-QFPRLVISAFSKLQVL 617
             L + +  N++   P   +S    L  L
Sbjct: 104 HYLYITH-TNVSGAIPD-FLSQIKTLVTL 130

>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 = 8e-09
 Identities = 32/119 (26%), Positives = 48/119 (40%), Gaps = 12/119 (10%)

Query: 505 KIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLV 564
           KIE L+      +L  L L +  L   +      +P L+   +S N +   L      L 
Sbjct: 40  KIEGLTAE--FVNLEFLSLINVGLI--SVSNLPKLPKLKKLELSENRIFGGLDMLAEKLP 95

Query: 565 SLEHLDLSSTAITHLP--IELQKLVNLKCLNLEYMNN----LNQFPRLVISAFSKLQVL 617
           +L HL+LS   +  +     L+KL  LK L+L   N     LN +   V     +L  L
Sbjct: 96  NLTHLNLSGNKLKDISTLEPLKKLECLKSLDL--FNCEVTNLNDYRESVFKLLPQLTYL 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 = 42.4 bits (100), Expect = 1e-04
 Identities = 22/104 (21%), Positives = 40/104 (38%), Gaps = 15/104 (14%)

Query: 555 KLPSGISTLVSLEHLDLSSTAITHLPIELQKLVNLKCLNLEYMNNLNQFPRLVISAFSKL 614
           K+    +  V+LE L L +  +  +   L KL  LK L L   N +     ++      L
Sbjct: 40  KIEGLTAEFVNLEFLSLINVGLISVSN-LPKLPKLKKLELSE-NRIFGGLDMLAEKLPNL 97

Query: 615 QVLRMFDCGGSKIERLKINVLFGGHQFLVEELMGMKHLMVLTIT 658
             L   +  G+K++ +            +E L  ++ L  L + 
Sbjct: 98  THL---NLSGNKLKDIST----------LEPLKKLECLKSLDLF 128

>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 = 56.3 bits (135), Expect = 1e-08
 Identities = 18/94 (19%), Positives = 38/94 (40%), Gaps = 1/94 (1%)

Query: 503 KNKIENLSETPTCPHLLSLFLSDN-SLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGIS 561
              +++L   P   +L  L++ +   L+       + +  LR   +  + L +  P    
Sbjct: 18  DGALDSLHHLPGAENLTELYIENQQHLQHLELRDLRGLGELRNLTIVKSGLRFVAPDAFH 77

Query: 562 TLVSLEHLDLSSTAITHLPIELQKLVNLKCLNLE 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 = 42.8 bits (100), Expect = 3e-04
 Identities = 20/95 (21%), Positives = 37/95 (38%), Gaps = 5/95 (5%)

Query: 483 GLTEAPE-IQNWRNVRRMSLMKNK-IENLSET--PTCPHLLSLFLSDNSLKMSTDDFFQS 538
           G  ++   +    N+  + +   + +++L          L +L +  + L+    D F  
Sbjct: 19  GALDSLHHLPGAENLTELYIENQQHLQHLELRDLRGLGELRNLTIVKSGLRFVAPDAFHF 78

Query: 539 MPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSS 573
            P L   N+S N L   L       +SL+ L LS 
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 = 49.7 bits (119), Expect = 2e-07
 Identities = 23/113 (20%), Positives = 47/113 (41%), Gaps = 2/113 (1%)

Query: 470 EKEKENFLVHAGLGLTEAPEIQNW-RNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSL 528
              KE  L ++     +   + +    +  +S +   + +++  P    L  L LSDN +
Sbjct: 17  SDVKELVLDNSRSNEGKLEGLTDEFEELEFLSTINVGLTSIANLPKLNKLKKLELSDNRV 76

Query: 529 KMSTDDFFQSMPSLRVFNMSNNHL-LWKLPSGISTLVSLEHLDLSSTAITHLP 580
               +   +  P+L   N+S N +        +  L +L+ LDL +  +T+L 
Sbjct: 77  SGGLEVLAEKCPNLTHLNLSGNKIKDLSTIEPLKKLENLKSLDLFNCEVTNLN 129

>3rfs_A Internalin B, repeat modules, variable lymphocyte B; LRR, protein binding, plasma; 1.70A {Listeria monocytogenes} PDB: 3rfj_A Length = 272

 Score = 49.2 bits (118), Expect = 2e-06
 Identities = 33/139 (23%), Positives = 59/139 (42%), Gaps = 6/139 (4%)

Query: 483 GLTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSL 542
            +T+A       ++ ++    + I+++      P++  L L  N L        + + +L
Sbjct: 30  SVTDAVTQNELNSIDQIIANNSDIKSVQGIQYLPNVRYLALGGNKLH--DISALKELTNL 87

Query: 543 RVFNMSNNHLLWKLPSGI-STLVSLEHLDLSSTAITHLPIEL-QKLVNLKCLNLEYMNNL 600
               ++ N L   LP+G+   L +L+ L L    +  LP  +  KL NL  LNL   N L
Sbjct: 88  TYLILTGNQLQ-SLPNGVFDKLTNLKELVLVENQLQSLPDGVFDKLTNLTYLNL-AHNQL 145

Query: 601 NQFPRLVISAFSKLQVLRM 619
              P+ V    + L  L +
Sbjct: 146 QSLPKGVFDKLTNLTELDL 164

>3m19_A Variable lymphocyte receptor A diversity region; adaptive immunity, antibody, T cell, leucine-rich repeat, immune system; 1.70A {Petromyzon marinus} PDB: 3m18_A Length = 251

 Score = 48.2 bits (115), Expect = 3e-06
 Identities = 39/143 (27%), Positives = 61/143 (42%), Gaps = 14/143 (9%)

Query: 495 NVRRMSLMKNKIENLSE----TPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNN 550
            +  ++L  N+++ LS       T   L +L L++N L       F  +  L    +  N
Sbjct: 60  KLTWLNLDYNQLQTLSAGVFDDLT--ELGTLGLANNQLASLPLGVFDHLTQLDKLYLGGN 117

Query: 551 HLLWKLPSGI-STLVSLEHLDLSSTAITHLPIEL-QKLVNLKCLNLEYMNNLNQFPRLVI 608
            L   LPSG+   L  L+ L L++  +  +P     KL NL+ L+L   N L   P    
Sbjct: 118 QLK-SLPSGVFDRLTKLKELRLNTNQLQSIPAGAFDKLTNLQTLSL-STNQLQSVPHGAF 175

Query: 609 SAFSKLQVLRMF----DCGGSKI 627
               KLQ + +F    DC   +I
Sbjct: 176 DRLGKLQTITLFGNQFDCSRCEI 198

>3m19_A Variable lymphocyte receptor A diversity region; adaptive immunity, antibody, T cell, leucine-rich repeat, immune system; 1.70A {Petromyzon marinus} PDB: 3m18_A Length = 251

 Score = 47.4 bits (113), Expect = 6e-06
 Identities = 26/97 (26%), Positives = 38/97 (39%), Gaps = 7/97 (7%)

Query: 520 SLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGI-STLVSLEHLDLSSTAITH 578
            L L    L   +D  F+ +  L   N+  N L   L +G+   L  L  L L++  +  
Sbjct: 39  KLDLQSTGLATLSDATFRGLTKLTWLNLDYNQLQ-TLSAGVFDDLTELGTLGLANNQLAS 97

Query: 579 LPIEL-QKLVNLKCLNLEYMNNLNQFPRLVISAFSKL 614
           LP+ +   L  L  L L      NQ   L    F +L
Sbjct: 98  LPLGVFDHLTQLDKLYLGG----NQLKSLPSGVFDRL 130

>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 = 48.1 bits (115), Expect = 3e-06
 Identities = 23/108 (21%), Positives = 45/108 (41%), Gaps = 5/108 (4%)

Query: 491 QNWRNVRRMSLMKNKIENLSET--PTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMS 548
           +    +R+++   NKI ++ E        +  + L+ N L+      F+ + SL+   + 
Sbjct: 54  KKLPQLRKINFSNNKITDIEEGAFEGASGVNEILLTSNRLENVQHKMFKGLESLKTLMLR 113

Query: 549 NNHLLWKLPSGI-STLVSLEHLDLSSTAITHLPIE-LQKLVNLKCLNL 594
           +N  +  + +     L S+  L L    IT +       L +L  LNL
Sbjct: 114 SNR-ITCVGNDSFIGLSSVRLLSLYDNQITTVAPGAFDTLHSLSTLNL 160

>2o6s_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 1.50A {Eptatretus burgeri} Length = 208

 Score = 47.0 bits (112), Expect = 5e-06
 Identities = 40/139 (28%), Positives = 59/139 (42%), Gaps = 10/139 (7%)

Query: 497 RRMSLMKNKIENLSETP--TCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLW 554
             + L  N +++L          L  L+L  N L+   +  F  + SL   N+S N L  
Sbjct: 31  TYLDLETNSLKSLPNGVFDELTSLTQLYLGGNKLQSLPNGVFNKLTSLTYLNLSTNQLQ- 89

Query: 555 KLPSGI-STLVSLEHLDLSSTAITHLPIEL-QKLVNLKCLNLEYMNNLNQFPRLVISAFS 612
            LP+G+   L  L+ L L++  +  LP  +  KL  LK L L Y N L   P  V    +
Sbjct: 90  SLPNGVFDKLTQLKELALNTNQLQSLPDGVFDKLTQLKDLRL-YQNQLKSVPDGVFDRLT 148

Query: 613 KLQVLRMF----DCGGSKI 627
            LQ + +     DC    I
Sbjct: 149 SLQYIWLHDNPWDCTCPGI 167

>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 = 45.5 bits (108), Expect = 2e-05
 Identities = 29/88 (32%), Positives = 45/88 (51%), Gaps = 4/88 (4%)

Query: 520 SLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGI-STLVSLEHLDLSSTAITH 578
            L+L DN +       F S+ +L+   + +N L   LP G+  +L  L  LDL +  +T 
Sbjct: 44  ILYLHDNQITKLEPGVFDSLINLKELYLGSNQLG-ALPVGVFDSLTQLTVLDLGTNQLTV 102

Query: 579 LPIEL-QKLVNLKCLNLEYMNNLNQFPR 605
           LP  +  +LV+LK L +   N L + PR
Sbjct: 103 LPSAVFDRLVHLKELFMCC-NKLTELPR 129

>2o6r_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 2.30A {Eptatretus burgeri} Length = 177

 Score = 44.6 bits (106), Expect = 2e-05
 Identities = 31/114 (27%), Positives = 44/114 (38%), Gaps = 8/114 (7%)

Query: 520 SLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGI-STLVSLEHLDLSSTAITH 578
            L L  N L+      F  +  L   ++S N +   LP G+   L  L  L L    +  
Sbjct: 32  RLELESNKLQSLPHGVFDKLTQLTKLSLSQNQIQ-SLPDGVFDKLTKLTILYLHENKLQS 90

Query: 579 LPIEL-QKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMF----DCGGSKI 627
           LP  +  KL  LK L L   N L   P  +    + LQ + +     DC   +I
Sbjct: 91  LPNGVFDKLTQLKELAL-DTNQLKSVPDGIFDRLTSLQKIWLHTNPWDCSCPRI 143

>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 = 43.8 bits (103), Expect = 2e-04
 Identities = 36/222 (16%), Positives = 76/222 (34%), Gaps = 33/222 (14%)

Query: 515 CPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSS- 573
           C  L+S+ + D  + +    FF++  +L  F   + +    +P     LV    L     
Sbjct: 219 CRSLVSVKVGDFEI-LELVGFFKAAANLEEFCGGSLNEDIGMPEKYMNLVFPRKLCRLGL 277

Query: 574 TAIT--HLPIELQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLK 631
           + +    +PI       ++ L+L Y     +    +I     L+VL   +  G +     
Sbjct: 278 SYMGPNEMPILFPFAAQIRKLDLLYALLETEDHCTLIQKCPNLEVLETRNVIGDR----- 332

Query: 632 INVLFGGHQFLVEELMGMKHLMVLTITLKSWQALKELLISQELQRSTQSLFLRCFNDSKS 691
                 G + L +    +K L +     +     +E L+S   QR   +L   C    + 
Sbjct: 333 ------GLEVLAQYCKQLKRLRIERGADEQGMEDEEGLVS---QRGLIALAQGCQE-LEY 382

Query: 692 LDIFC--------------LAGLRNLNKLYVAGCKHLEDSQM 719
           + ++               L  L +   + +   + + D  +
Sbjct: 383 MAVYVSDITNESLESIGTYLKNLCDFRLVLLDREERITDLPL 424

>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 = 41.7 bits (98), Expect = 2e-04
 Identities = 18/112 (16%), Positives = 43/112 (38%), Gaps = 7/112 (6%)

Query: 515 CPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHL-----LWKLPSGISTLVSLEHL 569
              + ++  +D+ +     D  + +  +    +   H      L +L    +   S+  +
Sbjct: 60  KYKIQAIDATDSCIMSIGFDHMEGLQYVEKIRLCKCHYIEDGCLERLSQLENLQKSMLEM 119

Query: 570 DLSS-TAITHLPIE-LQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRM 619
           ++ S   +T   I  L    NLK L L  +  + +  ++V +  + L  L +
Sbjct: 120 EIISCGNVTDKGIIALHHFRNLKYLFLSDLPGVKEKEKIVQAFKTSLPSLEL 171

>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 = 42.6 bits (100), Expect = 4e-04
 Identities = 45/269 (16%), Positives = 89/269 (33%), Gaps = 50/269 (18%)

Query: 494 RNVRRMSLMKNKIENLSE------TPTCPHLLSLFLSDNSLKMSTDD---FFQSMPSLRV 544
           RN++ + L ++ ++++S         T   L+SL +S  + ++S           P+L+ 
Sbjct: 156 RNLKELDLRESDVDDVSGHWLSHFPDTYTSLVSLNISCLASEVSFSALERLVTRCPNLKS 215

Query: 545 FNMSNNHLLWKLPSGISTLVSLEHLDLSS-TAITH------------------------- 578
             ++    L KL + +     LE L     TA                            
Sbjct: 216 LKLNRAVPLEKLATLLQRAPQLEELGTGGYTAEVRPDVYSGLSVALSGCKELRCLSGFWD 275

Query: 579 -----LPIELQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKIN 633
                LP        L  LNL Y    +     ++    KLQ L + D     IE   + 
Sbjct: 276 AVPAYLPAVYSVCSRLTTLNLSYATVQSYDLVKLLCQCPKLQRLWVLDY----IEDAGLE 331

Query: 634 VLFGGHQFLVE-ELMGMKHLMVLTITLKSWQALKELLISQELQRSTQSLFLRCFNDSKSL 692
           VL    + L E  +   +  ++      + Q L  + +        +S+   C   + + 
Sbjct: 332 VLASTCKDLRELRVFPSEPFVMEPNVALTEQGLVSVSMG---CPKLESVLYFCRQMTNA- 387

Query: 693 DIFCLA-GLRNLNKLYVAGCKHLEDSQMT 720
            +  +A    N+ +  +   +      +T
Sbjct: 388 ALITIARNRPNMTRFRLCIIEPKAPDYLT 416

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	720
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
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	99.79
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	99.77
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	99.74
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	99.74
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	99.74
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	99.73
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	99.72
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	99.72
2qen_A	350	Walker-type ATPase; unknown function; HET: ADP; 2.	99.71
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	99.7
2o6q_A	270	Variable lymphocyte receptor A; leucine-rich repea	99.69
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	99.69
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	99.69
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	99.69
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	99.68
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	99.68
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	99.68
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	99.68
2fna_A	357	Conserved hypothetical protein; structural genomic	99.67
1w5s_A	412	Origin recognition complex subunit 2 ORC2; replica	99.67
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	99.67
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	99.66
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	99.66
3rfs_A	272	Internalin B, repeat modules, variable lymphocyte	99.66
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	99.66
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	99.65
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	99.65
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	99.65
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	99.64
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	99.64
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	99.64
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	99.64
3rfs_A	272	Internalin B, repeat modules, variable lymphocyte	99.64
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	99.64
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	99.63
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	99.63
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	99.63
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	99.62
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	99.62
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	99.62
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	99.62
1o6v_A	466	Internalin A; bacterial infection, extracellular r	99.62
1wwl_A	312	Monocyte differentiation antigen CD14; LPS, immune	99.62
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	99.62
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	99.62
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	99.62
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	99.62
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	99.62
2o6q_A	270	Variable lymphocyte receptor A; leucine-rich repea	99.61
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	99.61
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	99.61
3m19_A	251	Variable lymphocyte receptor A diversity region; a	99.6
1o6v_A	466	Internalin A; bacterial infection, extracellular r	99.6
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	99.6
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	99.59
2ast_B	336	S-phase kinase-associated protein 2; SCF-substrate	99.59
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	99.59
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	99.59
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	99.59
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	99.59
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	99.59
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	99.58
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	99.58
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	99.57
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	99.57
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	99.57
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	99.57
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	99.57
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	99.57
4glp_A	310	Monocyte differentiation antigen CD14; alpha beta	99.56
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	99.56
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	99.56
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	99.55
3m19_A	251	Variable lymphocyte receptor A diversity region; a	99.55
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	99.55
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	99.55
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	99.55
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	99.55
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	99.54
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	99.52
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	99.52
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	99.52
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	99.52
3e6j_A	229	Variable lymphocyte receptor diversity region; var	99.51
2ast_B	336	S-phase kinase-associated protein 2; SCF-substrate	99.51
1wwl_A	312	Monocyte differentiation antigen CD14; LPS, immune	99.51
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	99.51
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	99.49
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	99.48
2o6s_A	208	Variable lymphocyte receptor B; leucine-rich repea	99.48
2xot_A	361	Amphoterin-induced protein 1; cell adhesion, neuro	99.47
2ca6_A	386	RAN GTPase-activating protein 1; GAP, GTPase activ	99.47
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	99.47
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	99.47
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	99.47
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	99.46
2v9t_B	220	SLIT homolog 2 protein N-product; structural prote	99.46
2v9t_B	220	SLIT homolog 2 protein N-product; structural prote	99.46
2v1u_A	387	Cell division control protein 6 homolog; DNA repli	99.46
2qby_B	384	CDC6 homolog 3, cell division control protein 6 ho	99.45
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	99.45
2o6s_A	208	Variable lymphocyte receptor B; leucine-rich repea	99.44
2v70_A	220	SLIT-2, SLIT homolog 2 protein N-product; neurogen	99.43
2je0_A	149	Acidic leucine-rich nuclear phosphoprotein 32 FAM	99.43
2ca6_A	386	RAN GTPase-activating protein 1; GAP, GTPase activ	99.43
2ell_A	168	Acidic leucine-rich nuclear phosphoprotein 32 FAM	99.43
2v70_A	220	SLIT-2, SLIT homolog 2 protein N-product; neurogen	99.42
4g8a_A	635	TOLL-like receptor 4; leucine rich repeat MD-2 rel	99.41
3e6j_A	229	Variable lymphocyte receptor diversity region; var	99.41
1a9n_A	176	U2A', U2A'; complex (nuclear protein/RNA), RNA, sn	99.41
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	99.41
2xot_A	361	Amphoterin-induced protein 1; cell adhesion, neuro	99.41
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	99.39
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	99.39
4g8a_A	635	TOLL-like receptor 4; leucine rich repeat MD-2 rel	99.38
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	99.37
4glp_A	310	Monocyte differentiation antigen CD14; alpha beta	99.36
3goz_A	362	Leucine-rich repeat-containing protein; LEGL7, NES	99.35
3goz_A	362	Leucine-rich repeat-containing protein; LEGL7, NES	99.33
2wfh_A	193	SLIT homolog 2 protein C-product; developmental pr	99.31
1w8a_A	192	SLIT protein; signaling protein, secreted protein,	99.29
2ell_A	168	Acidic leucine-rich nuclear phosphoprotein 32 FAM	99.29
2o6r_A	177	Variable lymphocyte receptor B; leucine-rich repea	99.29
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	99.29
1njg_A	250	DNA polymerase III subunit gamma; rossman-like fol	99.28
1z7x_W	461	Ribonuclease inhibitor; leucine-rich repeat, enzym	99.27
4b8c_D	727	Glucose-repressible alcohol dehydrogenase transcr	99.27
1a9n_A	176	U2A', U2A'; complex (nuclear protein/RNA), RNA, sn	99.26
2chg_A	226	Replication factor C small subunit; DNA-binding pr	99.25
1z7x_W	461	Ribonuclease inhibitor; leucine-rich repeat, enzym	99.24
2je0_A	149	Acidic leucine-rich nuclear phosphoprotein 32 FAM	99.23
2wfh_A	193	SLIT homolog 2 protein C-product; developmental pr	99.23
1w8a_A	192	SLIT protein; signaling protein, secreted protein,	99.22
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	99.22
2o6r_A	177	Variable lymphocyte receptor B; leucine-rich repea	99.19
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	99.15
2r9u_A	174	Variable lymphocyte receptor; adaptive immunity, V	99.15
3g39_A	170	Variable lymphocyte receptor VLRB.2D; antibody, X-	99.12
1sxj_B	323	Activator 1 37 kDa subunit; clamp loader, processi	99.11
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	99.1
4b8c_D	727	Glucose-repressible alcohol dehydrogenase transcr	99.1
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	99.09
1hqc_A	324	RUVB; extended AAA-ATPase domain, complex with nuc	99.03
2r9u_A	174	Variable lymphocyte receptor; adaptive immunity, V	99.0
3g39_A	170	Variable lymphocyte receptor VLRB.2D; antibody, X-	98.99
1ds9_A	198	Outer arm dynein; leucine-rich repeat, beta-BETA-a	98.97
3sb4_A	329	Hypothetical leucine rich repeat protein; LRR, rig	98.97
1ds9_A	198	Outer arm dynein; leucine-rich repeat, beta-BETA-a	98.95
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	98.95
1iqp_A	327	RFCS; clamp loader, extended AAA-ATPase domain, co	98.94
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	98.93
2ifg_A	347	High affinity nerve growth factor receptor; TRK, T	98.87
3qfl_A	115	MLA10; coiled-coil, (CC) domain, NLRS, nucleotide-	98.85
2chq_A	319	Replication factor C small subunit; DNA-binding pr	98.81
3te6_A	318	Regulatory protein SIR3; heterochromatin, gene sil	98.8
1jr3_A	373	DNA polymerase III subunit gamma; processivity, pr	98.74
1jbk_A	195	CLPB protein; beta barrel, chaperone; 1.80A {Esche	98.68
3bos_A	242	Putative DNA replication factor; P-loop containing	98.67
2ifg_A	347	High affinity nerve growth factor receptor; TRK, T	98.66
3sb4_A	329	Hypothetical leucine rich repeat protein; LRR, rig	98.66
3un9_A	372	NLR family member X1; leucine rich repeat (LRR), a	98.6
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	98.59
1sxj_D	353	Activator 1 41 kDa subunit; clamp loader, processi	98.56
3pvs_A	447	Replication-associated recombination protein A; ma	98.54
4fdw_A	401	Leucine rich hypothetical protein; putative cell s	98.54
1sxj_A	516	Activator 1 95 kDa subunit; clamp loader, processi	98.54
4fdw_A	401	Leucine rich hypothetical protein; putative cell s	98.53
3un9_A	372	NLR family member X1; leucine rich repeat (LRR), a	98.5
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	98.47
3pfi_A	338	Holliday junction ATP-dependent DNA helicase RUVB;	98.46
2z4s_A	440	Chromosomal replication initiator protein DNAA; AA	98.41
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	98.41
1sxj_E	354	Activator 1 40 kDa subunit; clamp loader, processi	98.38
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	98.36
3d8b_A	357	Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, s	98.36
3uk6_A	368	RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding	98.34
3syl_A	309	Protein CBBX; photosynthesis, rubisco activase, AA	98.33
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	98.32
3u61_B	324	DNA polymerase accessory protein 44; AAA+, ATP hyd	98.32
1sxj_C	340	Activator 1 40 kDa subunit; clamp loader, processi	98.29
2qp9_X	355	Vacuolar protein sorting-associated protein 4; ATP	98.27
3vfd_A	389	Spastin; ATPase, microtubule severing, hydrolase;	98.26
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	98.25
2p65_A	187	Hypothetical protein PF08_0063; CLPB, malaria, str	98.24
2zan_A	444	Vacuolar protein sorting-associating protein 4B; S	98.23
1l8q_A	324	Chromosomal replication initiator protein DNAA; AA	98.2
3e4g_A	176	ATP synthase subunit S, mitochondrial; leucine-ric	98.2
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	98.16
1a5t_A	334	Delta prime, HOLB; zinc finger, DNA replication; 2	98.16
2ra8_A	362	Uncharacterized protein Q64V53_bacfr; WGR domain,	98.14
3pxg_A	468	Negative regulator of genetic competence CLPC/MEC;	98.13
4b4t_J	405	26S protease regulatory subunit 8 homolog; hydrola	98.12
2ra8_A	362	Uncharacterized protein Q64V53_bacfr; WGR domain,	98.07
2r62_A	268	Cell division protease FTSH homolog; ATPase domain	98.03
4b4t_L	437	26S protease subunit RPT4; hydrolase, AAA-atpases,	98.01
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	97.99
4b4t_M	434	26S protease regulatory subunit 6A; hydrolase, AAA	97.97
3rw6_A	267	Nuclear RNA export factor 1; retroviral constituti	97.96
2gno_A	305	DNA polymerase III, gamma subunit-related protein;	97.95
4b4t_H	467	26S protease regulatory subunit 7 homolog; hydrola	97.91
2w58_A	202	DNAI, primosome component (helicase loader); ATP-b	97.9
3n70_A	145	Transport activator; sigma-54, ntpase, PSI, MCSG,	97.86
3hu3_A	489	Transitional endoplasmic reticulum ATPase; VCP, tr	97.86
4b4t_I	437	26S protease regulatory subunit 4 homolog; hydrola	97.86
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	97.83
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	97.82
1io0_A	185	Tropomodulin; LRR protein, right-handed super-heli	97.81
4b4t_K	428	26S protease regulatory subunit 6B homolog; hydrol	97.81
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	97.81
3e4g_A	176	ATP synthase subunit S, mitochondrial; leucine-ric	97.79
1in4_A	334	RUVB, holliday junction DNA helicase RUVB; AAA+-cl	97.74
2ce7_A	476	Cell division protein FTSH; metalloprotease; HET:	97.72
1ofh_A	310	ATP-dependent HSL protease ATP-binding subunit HSL	97.72
3rw6_A	267	Nuclear RNA export factor 1; retroviral constituti	97.69
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	97.63
4fcw_A	311	Chaperone protein CLPB; AAA domain; HET: ADP; 2.35	97.62
2c9o_A	456	RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-	97.55
2bjv_A	265	PSP operon transcriptional activator; AAA, transcr	97.52
1io0_A	185	Tropomodulin; LRR protein, right-handed super-heli	97.51
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	97.45
1ojl_A	304	Transcriptional regulatory protein ZRAR; response	97.42
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	97.39
2dhr_A	499	FTSH; AAA+ protein, hexameric Zn metalloprotease,	97.38
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	97.37
4fs7_A	394	Uncharacterized protein; leucine-rich repeats, pro	97.33
4fs7_A	394	Uncharacterized protein; leucine-rich repeats, pro	97.32
2kjq_A	149	DNAA-related protein; solution structure, NESG, st	97.31
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	97.26
3m6a_A	543	ATP-dependent protease LA 1; alpha, beta, ATP-bind	97.25
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	97.2
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	97.18
3co5_A	143	Putative two-component system transcriptional RES	97.17
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	97.13
2cvh_A	220	DNA repair and recombination protein RADB; filamen	96.9
2vhj_A	331	Ntpase P4, P4; non- hydrolysable ATP analogue, hyd	96.89
1n0w_A	243	DNA repair protein RAD51 homolog 1; DNA repair, ho	96.66
3hr8_A	356	Protein RECA; alpha and beta proteins (A/B, A+B),	96.65
4h09_A	379	Hypothetical leucine rich repeat protein; two LRR_	96.52
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	96.46
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	96.46
2qgz_A	308	Helicase loader, putative primosome component; str	96.45
2zr9_A	349	Protein RECA, recombinase A; recombination, RECA m	96.44
1v5w_A	343	DMC1, meiotic recombination protein DMC1/LIM15 hom	96.4
2z43_A	324	DNA repair and recombination protein RADA; archaea	96.4
4gt6_A	394	Cell surface protein; leucine rich repeats, putati	96.38
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	96.36
2b8t_A	223	Thymidine kinase; deoxyribonucleoside kinase, zinc	96.36
1g5t_A	196	COB(I)alamin adenosyltransferase; P-loop protein,	96.35
1xp8_A	366	RECA protein, recombinase A; recombination, radior	96.28
1u94_A	356	RECA protein, recombinase A; homologous recombinat	96.28
3io5_A	333	Recombination and repair protein; storage dimer, i	96.26
1rz3_A	201	Hypothetical protein rbstp0775; MCSG, structural g	96.26
4gt6_A	394	Cell surface protein; leucine rich repeats, putati	96.24
1jr3_D	343	DNA polymerase III, delta subunit; processivity, p	96.2
2w0m_A	235	SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus	96.1
3c8u_A	208	Fructokinase; YP_612366.1, putative fructose trans	96.05
2i1q_A	322	DNA repair and recombination protein RADA; ATPase,	95.89
3dm5_A	443	SRP54, signal recognition 54 kDa protein; protein-	95.88
2r44_A	331	Uncharacterized protein; putative ATPase, structur	95.8
3kb2_A	173	SPBC2 prophage-derived uncharacterized protein YOR	95.76
1qhx_A	178	CPT, protein (chloramphenicol phosphotransferase);	95.75
1g8p_A	350	Magnesium-chelatase 38 kDa subunit; parallel beta	95.7
3sr0_A	206	Adenylate kinase; phosphoryl transfer analogue, AL	95.7
3lw7_A	179	Adenylate kinase related protein (ADKA-like); AMP,	95.64
3lda_A	400	DNA repair protein RAD51; DNA binding protein, ATP	95.61
3nbx_X	500	ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structu	95.58
3hws_A	363	ATP-dependent CLP protease ATP-binding subunit CL;	95.57
1pzn_A	349	RAD51, DNA repair and recombination protein RAD51,	95.56
3vaa_A	199	Shikimate kinase, SK; structural genomics, center	95.53
4h09_A	379	Hypothetical leucine rich repeat protein; two LRR_	95.53
3ice_A	422	Transcription termination factor RHO; transcriptio	95.49
1zp6_A	191	Hypothetical protein ATU3015; alpha-beta protein.,	95.48
2ga8_A	359	Hypothetical 39.9 kDa protein; YFR007W, YFH7, unkn	95.46
1kgd_A	180	CASK, peripheral plasma membrane CASK; maguk, guan	95.46
2orw_A	184	Thymidine kinase; TMTK, TP4A, transferase; HET: 4T	95.44
2px0_A	296	Flagellar biosynthesis protein FLHF; SRP GTPase, f	95.43
3bh0_A	315	DNAB-like replicative helicase; ATPase, replicatio	95.43
1ly1_A	181	Polynucleotide kinase; PNK, phosphatase, transfera	95.42
1um8_A	376	ATP-dependent CLP protease ATP-binding subunit CL;	95.41
1kag_A	173	SKI, shikimate kinase I; transferase, structural g	95.41
3trf_A	185	Shikimate kinase, SK; amino acid biosynthesis, tra	95.41
1zuh_A	168	Shikimate kinase; alpha-beta protein, transferase;	95.32
3uie_A	200	Adenylyl-sulfate kinase 1, chloroplastic; rossmann	95.28
2ck3_D	482	ATP synthase subunit beta\, mitochondrial; hydrola	95.27
3rfe_A	130	Platelet glycoprotein IB beta chain; platelet surf	95.24
1nks_A	194	Adenylate kinase; thermophilic, transferase; HET:	95.21
3kl4_A	433	SRP54, signal recognition 54 kDa protein; signal r	95.2
1ex7_A	186	Guanylate kinase; substrate-induced FIT, domain mo	95.19
1vma_A	306	Cell division protein FTSY; TM0570, structural gen	95.18
3t61_A	202	Gluconokinase; PSI-biology, structural genomics, p	95.18
4eun_A	200	Thermoresistant glucokinase; putative sugar kinase	95.18
2hf9_A	226	Probable hydrogenase nickel incorporation protein	95.17
3e70_C	328	DPA, signal recognition particle receptor; FTSY, S	95.14
2yvu_A	186	Probable adenylyl-sulfate kinase; transferase, str	95.13
2rhm_A	193	Putative kinase; P-loop containing nucleoside trip	95.12
3iij_A	180	Coilin-interacting nuclear ATPase protein; alpha a	95.1
1kht_A	192	Adenylate kinase; phosphotransferase, signaling pr	95.1
1sky_E	473	F1-ATPase, F1-ATP synthase; F1FO ATP synthase, alp	95.08
1knq_A	175	Gluconate kinase; ALFA/beta structure, transferase	95.08
3tr0_A	205	Guanylate kinase, GMP kinase; purines, pyrimidines	95.07
2ze6_A	253	Isopentenyl transferase; crown GALL tumor, cytokin	95.06
1via_A	175	Shikimate kinase; structural genomics, transferase	95.04
2dr3_A	247	UPF0273 protein PH0284; RECA superfamily ATPase, h	95.02
3umf_A	217	Adenylate kinase; rossmann fold, transferase; 2.05	95.01
3tau_A	208	Guanylate kinase, GMP kinase; structural genomics,	95.0
1odf_A	290	YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser	94.99
2bdt_A	189	BH3686; alpha-beta protein, structural genomics, P	94.98
3a00_A	186	Guanylate kinase, GMP kinase; domain movement, dim	94.98
1ye8_A	178	Protein THEP1, hypothetical UPF0334 kinase-like pr	94.98
2qor_A	204	Guanylate kinase; phosphotransferase, purine metab	94.95
2c95_A	196	Adenylate kinase 1; transferase, AP4A, nucleotide	94.94
2wsm_A	221	Hydrogenase expression/formation protein (HYPB); m	94.94
1y63_A	184	LMAJ004144AAA protein; structural genomics, protei	94.93
1tev_A	196	UMP-CMP kinase; ploop, NMP binding region, LID reg	94.93
2bbw_A	246	Adenylate kinase 4, AK4; nucleotide kinase, nucleo	94.92
3rfe_A	130	Platelet glycoprotein IB beta chain; platelet surf	94.92
2jaq_A	205	Deoxyguanosine kinase; transferase, deoxyribonucle	94.91
1gvn_B	287	Zeta; postsegregational killing system, plasmid; 1	94.9
1ukz_A	203	Uridylate kinase; transferase; HET: ADP AMP; 1.90A	94.88
1cke_A	227	CK, MSSA, protein (cytidine monophosphate kinase);	94.88
2iyv_A	184	Shikimate kinase, SK; transferase, aromatic amino	94.86
3jvv_A	356	Twitching mobility protein; hexameric P-loop ATPas	94.85
1g41_A	444	Heat shock protein HSLU; AAA-ATPase, CLPY, ATP-dep	94.84
1uf9_A	203	TT1252 protein; P-loop, nucleotide binding domain,	94.82
3asz_A	211	Uridine kinase; cytidine phosphorylation, transfer	94.82
2if2_A	204	Dephospho-COA kinase; alpha-beta protein, structur	94.82
2ffh_A	425	Protein (FFH); SRP54, signal recognition particle,	94.82
3cm0_A	186	Adenylate kinase; ATP-binding, cytoplasm, nucleoti	94.81
4a1f_A	338	DNAB helicase, replicative DNA helicase; hydrolase	94.81
2j41_A	207	Guanylate kinase; GMP, GMK, transferase, ATP-bindi	94.79
2bwj_A	199	Adenylate kinase 5; phosphoryl transfer reaction,	94.76
1fx0_B	498	ATP synthase beta chain; latent ATPase, thermal st	94.76
1j8m_F	297	SRP54, signal recognition 54 kDa protein; signalin	94.74
1lvg_A	198	Guanylate kinase, GMP kinase; transferase; HET: AD	94.73
4gp7_A	171	Metallophosphoesterase; polynucleotide kinase phos	94.71
1e6c_A	173	Shikimate kinase; phosphoryl transfer, ADP, shikim	94.7
2qt1_A	207	Nicotinamide riboside kinase 1; non-protein kinase	94.69
1jjv_A	206	Dephospho-COA kinase; P-loop nucleotide-binding fo	94.69
2vli_A	183	Antibiotic resistance protein; transferase, tunica	94.66
3ney_A	197	55 kDa erythrocyte membrane protein; structural ge	94.62
1qf9_A	194	UMP/CMP kinase, protein (uridylmonophosphate/cytid	94.62
1tue_A	212	Replication protein E1; helicase, replication, E1E	94.61
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	94.61
2plr_A	213	DTMP kinase, probable thymidylate kinase; TMP-bind	94.61
2pt5_A	168	Shikimate kinase, SK; aromatic amino acid biosynth	94.61
2p5t_B	253	PEZT; postsegregational killing system, phosphoryl	94.58
2cdn_A	201	Adenylate kinase; phosphoryl transfer, associative	94.58
2grj_A	192	Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosp	94.55
3a4m_A	260	L-seryl-tRNA(SEC) kinase; P-loop motif, walker A m	94.55
1xjc_A	169	MOBB protein homolog; structural genomics, midwest	94.52
4akg_A	2695	Glutathione S-transferase class-MU 26 kDa isozyme	94.51
2xxa_A	433	Signal recognition particle protein; protein trans	94.51
3tlx_A	243	Adenylate kinase 2; structural genomics, structura	94.51
1znw_A	207	Guanylate kinase, GMP kinase; ATP:GMP-phosphotrans	94.48
2pbr_A	195	DTMP kinase, thymidylate kinase; transferase, nucl	94.48
3fb4_A	216	Adenylate kinase; psychrophIle, phosphotransferase	94.44
1uj2_A	252	Uridine-cytidine kinase 2; alpha/beta mononucleoti	94.4
4e22_A	252	Cytidylate kinase; P-loop, CMP/ATP binding, transf	94.39
4a74_A	231	DNA repair and recombination protein RADA; hydrola	94.38
1htw_A	158	HI0065; nucleotide-binding fold, structural genomi	94.36
3aez_A	312	Pantothenate kinase; transferase, homodimer, COA b	94.34
1zd8_A	227	GTP:AMP phosphotransferase mitochondrial; ATP:AMP	94.34
2wwf_A	212	Thymidilate kinase, putative; transferase, malaria	94.33
3dl0_A	216	Adenylate kinase; phosphotransferase, zinc coordin	94.33
3tqc_A	321	Pantothenate kinase; biosynthesis of cofactors, pr	94.32
1z6g_A	218	Guanylate kinase; structural genomics, SGC, struct	94.29
1aky_A	220	Adenylate kinase; ATP:AMP phosphotransferase, myok	94.28
2jeo_A	245	Uridine-cytidine kinase 1; UCK, transferase, ATP-b	94.26
1nn5_A	215	Similar to deoxythymidylate kinase (thymidylate K;	94.24
3fwy_A	314	Light-independent protochlorophyllide reductase I	94.24
2z0h_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	94.2
1s96_A	219	Guanylate kinase, GMP kinase; E.coli, dimer, SAD,	94.15
1zak_A	222	Adenylate kinase; ATP:AMP-phosphotransferase, tran	94.1
2v54_A	204	DTMP kinase, thymidylate kinase; nucleotide biosyn	94.03
3k1j_A	604	LON protease, ATP-dependent protease LON; ATP-bind	94.01
2f1r_A	171	Molybdopterin-guanine dinucleotide biosynthesis pr	93.99
1gtv_A	214	TMK, thymidylate kinase; transferase, transferase	93.97
2pez_A	179	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	93.87
3r20_A	233	Cytidylate kinase; structural genomics, seattle st	93.86
1ls1_A	295	Signal recognition particle protein; FFH, SRP54, S	93.8
2i3b_A	189	HCR-ntpase, human cancer-related ntpase; AAA, ross	93.78
1m7g_A	211	Adenylylsulfate kinase; APS kinase, transferase, s	93.75
1rj9_A	304	FTSY, signal recognition protein; SRP-GTPase domai	93.73
2onk_A	240	Molybdate/tungstate ABC transporter, ATP-binding p	93.73
2j37_W	504	Signal recognition particle 54 kDa protein (SRP54)	93.73
3ake_A	208	Cytidylate kinase; CMP kinase, CMP complex, open c	93.72
2ehv_A	251	Hypothetical protein PH0186; KAIC, RECA ATPase, un	93.72
2f6r_A	281	COA synthase, bifunctional coenzyme A synthase; 18	93.68
1np6_A	174	Molybdopterin-guanine dinucleotide biosynthesis pr	93.67
3nwj_A	250	ATSK2; P loop, shikimate, nucleoside monophosphate	93.67
3d3q_A	340	TRNA delta(2)-isopentenylpyrophosphate transferase	93.67
1e4v_A	214	Adenylate kinase; transferase(phosphotransferase);	93.65
3lnc_A	231	Guanylate kinase, GMP kinase; ALS collaborative cr	93.64
1vht_A	218	Dephospho-COA kinase; structural genomics, transfe	93.64
3be4_A	217	Adenylate kinase; malaria, cryptosporidium parvum	93.64
2xb4_A	223	Adenylate kinase; ATP-binding, nucleotide-binding,	93.6
1sq5_A	308	Pantothenate kinase; P-loop, transferase; HET: PAU	93.59
3tif_A	235	Uncharacterized ABC transporter ATP-binding prote;	93.49
3b85_A	208	Phosphate starvation-inducible protein; PHOH2, ATP	93.48
2pcj_A	224	ABC transporter, lipoprotein-releasing system ATP-	93.47
1ak2_A	233	Adenylate kinase isoenzyme-2; nucleoside monophosp	93.42
1a7j_A	290	Phosphoribulokinase; transferase, calvin cycle; 2.	93.36
1pgv_A	197	TMD-1, tropomodulin TMD-1; structural genomics, PS	93.35
3crm_A	323	TRNA delta(2)-isopentenylpyrophosphate transferase	93.33
2q6t_A	444	DNAB replication FORK helicase; hydrolase; 2.90A {	93.26
2cbz_A	237	Multidrug resistance-associated protein 1; ABC pro	93.15
3exa_A	322	TRNA delta(2)-isopentenylpyrophosphate transferase	93.14
3b9q_A	302	Chloroplast SRP receptor homolog, alpha subunit CP	93.14
3p32_A	355	Probable GTPase RV1496/MT1543; structural genomics	93.13
3gfo_A	275	Cobalt import ATP-binding protein CBIO 1; structur	93.1
1q57_A	503	DNA primase/helicase; dntpase, DNA replication, tr	93.07
1b0u_A	262	Histidine permease; ABC transporter, transport pro	93.06
3vr4_D	465	V-type sodium ATPase subunit D; V-ATPase, rotary m	93.04
2d2e_A	250	SUFC protein; ABC-ATPase, SUF protein, 310-helix,	93.02
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	93.02
3a8t_A	339	Adenylate isopentenyltransferase; rossmann fold pr	92.93
1sgw_A	214	Putative ABC transporter; structural genomics, P p	92.93
4g1u_C	266	Hemin import ATP-binding protein HMUV; membrane tr	92.92
2zu0_C	267	Probable ATP-dependent transporter SUFC; iron-sulf	92.91
2pze_A	229	Cystic fibrosis transmembrane conductance regulat;	92.9
2olj_A	263	Amino acid ABC transporter; ABC domain, ATPase, hy	92.89
4eaq_A	229	DTMP kinase, thymidylate kinase; structural genomi	92.89
1ji0_A	240	ABC transporter; ATP binding protein, structural g	92.87
3upu_A	459	ATP-dependent DNA helicase DDA; RECA-like domain,	92.86
1g6h_A	257	High-affinity branched-chain amino acid transport	92.83
1mv5_A	243	LMRA, multidrug resistance ABC transporter ATP-bin	92.82
2yhs_A	503	FTSY, cell division protein FTSY; cell cycle, prot	92.82
2ff7_A	247	Alpha-hemolysin translocation ATP-binding protein	92.78
3l0o_A	427	Transcription termination factor RHO; helicase, RH	92.77
2eyu_A	261	Twitching motility protein PILT; pilus retraction	92.74
3foz_A	316	TRNA delta(2)-isopentenylpyrophosphate transferas;	92.72
3f9v_A	595	Minichromosome maintenance protein MCM; replicativ	92.71
2v9p_A	305	Replication protein E1; AAA+ molecular motor, DNA	92.71
3end_A	307	Light-independent protochlorophyllide reductase ir	92.7
1vpl_A	256	ABC transporter, ATP-binding protein; TM0544, stru	92.7
2dyk_A	161	GTP-binding protein; GTPase, ribosome-binding prot	92.68
1ltq_A	301	Polynucleotide kinase; phosphatase, alpha/beta, P-	92.6
2ghi_A	260	Transport protein; multidrug resistance protein, M	92.6
2qi9_C	249	Vitamin B12 import ATP-binding protein BTUD; inner	92.55
2ixe_A	271	Antigen peptide transporter 1; ABC ATPase, hydrola	92.54
2qmh_A	205	HPR kinase/phosphorylase; V267F mutation, ATP-bind	92.52
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	92.51
2wji_A	165	Ferrous iron transport protein B homolog; membrane	92.47
3zvl_A	416	Bifunctional polynucleotide phosphatase/kinase; hy	92.47
1g8f_A	511	Sulfate adenylyltransferase; alpha-beta protein, b	92.42
2og2_A	359	Putative signal recognition particle receptor; nuc	92.42
2nq2_C	253	Hypothetical ABC transporter ATP-binding protein H	92.42
2ihy_A	279	ABC transporter, ATP-binding protein; ATPase, ABC	92.4
2yz2_A	266	Putative ABC transporter ATP-binding protein TM_0;	92.39
1q3t_A	236	Cytidylate kinase; nucleotide monophosphate kinase	92.32
3sop_A	270	Neuronal-specific septin-3; hydrolase; HET: GDP; 2	92.29
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	92.29
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	92.26
2ged_A	193	SR-beta, signal recognition particle receptor beta	92.25
3bgw_A	444	DNAB-like replicative helicase; ATPase, replicatio	92.19
2qe7_A	502	ATP synthase subunit alpha; blockage of ATP hydrol	92.12
1nlf_A	279	Regulatory protein REPA; replicative DNA helicase	92.11
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	92.1
4gzl_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	92.07
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	92.05
1svm_A	377	Large T antigen; AAA+ fold, viral protein; HET: AT	92.03
1p9r_A	418	General secretion pathway protein E; bacterial typ	92.02
1yrb_A	262	ATP(GTP)binding protein; GTPase, P-loop, rossman f	91.99
2r6a_A	454	DNAB helicase, replicative helicase; replication,	91.93
1zu4_A	320	FTSY; GTPase, signal recognition particle, SRP, re	91.93
1u0j_A	267	DNA replication protein; AAA+ protein, P-loop atpa	91.9
2ocp_A	241	DGK, deoxyguanosine kinase; protein-nucleotide com	91.87
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	91.86
2pjz_A	263	Hypothetical protein ST1066; ATP binding protein,	91.84
1cr0_A	296	DNA primase/helicase; RECA-type protein fold, tran	91.84
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	91.82
1pgv_A	197	TMD-1, tropomodulin TMD-1; structural genomics, PS	91.81
3fvq_A	359	Fe(3+) IONS import ATP-binding protein FBPC; nucle	91.81
2wjg_A	188	FEOB, ferrous iron transport protein B homolog; me	91.79
3oaa_A	513	ATP synthase subunit alpha; rossmann fold, hydrola	91.73
3gmt_A	230	Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucle	91.71
3nh6_A	306	ATP-binding cassette SUB-family B member 6, mitoc;	91.7
4edh_A	213	DTMP kinase, thymidylate kinase; structural genomi	91.7
3eph_A	409	TRNA isopentenyltransferase; transferase, alternat	91.69
3gqb_B	464	V-type ATP synthase beta chain; A3B3, V-ATPase, AT	91.69
3iqw_A	334	Tail-anchored protein targeting factor GET3; ATPas	91.63
3mfy_A	588	V-type ATP synthase alpha chain; A-type ATP syntha	91.63
3io3_A	348	DEHA2D07832P; chaperone, membrane traffic, ATPase;	91.62
3lv8_A	236	DTMP kinase, thymidylate kinase; structural genomi	91.62
3tui_C	366	Methionine import ATP-binding protein METN; ABC-tr	91.58
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	91.54
1zj6_A	187	ADP-ribosylation factor-like protein 5; ARL, GTP-b	91.51
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	91.49
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	91.45
1tq4_A	413	IIGP1, interferon-inducible GTPase; interferon gam	91.43
2vp4_A	230	Deoxynucleoside kinase; ATP-binding, DNA synthesis	91.43
2bbs_A	290	Cystic fibrosis transmembrane conductance regulato	91.42
4tmk_A	213	Protein (thymidylate kinase); ATP:DTMP phosphotran	91.38
2lkc_A	178	Translation initiation factor IF-2; NMR {Geobacill	91.35
2gj8_A	172	MNME, tRNA modification GTPase TRME; G-domain dime	91.31
1z47_A	355	CYSA, putative ABC-transporter ATP-binding protein	91.31

>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=4e-48  Score=431.67  Aligned_cols=313  Identities=15%  Similarity=0.124  Sum_probs=251.3

Q ss_pred             cCchHHHHHHHHHhcCC---CceEEEEEcCCCChHHHHHHHHHh--hhcCCCCCcCEEEEEEecCcC--CHHHHHHHHHH
Q 038398          129 VGLESTFDKVWRCLGEE---QVGIIGLYGMGGVGKTTLLTKINN--KLLGAPNVFDVVIWVVVSKDL--QLEKIQEKIGR  201 (720)
Q Consensus       129 vGr~~~~~~l~~~L~~~---~~~vi~I~G~gGiGKTtLa~~v~~--~~~~~~~~f~~~~wv~v~~~~--~~~~~~~~i~~  201 (720)
                      |||++++++|.++|..+   ..++|+|+||||+||||||+++|+  +. .++.+|+.++||++++.+  +...++..|+.
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            69999999999999643   579999999999999999999998  44 568899999999999985  78999999999


Q ss_pred             HhCCCCC-----ccCCCChhHHHHHHHHHhccC-cEEEEEeccccccccccccccCCCCCCCcEEEEEcCChhHhhhhc-
Q 038398          202 RIGFFDE-----SWKNGSLEDKTSDILRILGKK-KFLLLLDDIWERVDLTKVGIPFPDPENKSKIVFTTHFLEICGALK-  274 (720)
Q Consensus       202 ~l~~~~~-----~~~~~~~~~~~~~l~~~l~~k-~~LlVlDdv~~~~~~~~l~~~~~~~~~gs~iiiTtR~~~v~~~~~-  274 (720)
                      +++....     .....+.+.....+++.|.++ |+||||||||+..++ .+    + ..+||+||||||+..++..++ 
T Consensus       210 ~l~~~~~~~~~~~~~~~~~~~l~~~l~~~L~~~kr~LlVLDdv~~~~~~-~~----~-~~~gs~ilvTTR~~~v~~~~~~  283 (549)
T 2a5y_B          210 MLKSEDDLLNFPSVEHVTSVVLKRMICNALIDRPNTLFVFDDVVQEETI-RW----A-QELRLRCLVTTRDVEISNAASQ  283 (549)
T ss_dssp             HHTTTSCCTTCCCCTTCCHHHHHHHHHHHHTTSTTEEEEEEEECCHHHH-HH----H-HHTTCEEEEEESBGGGGGGCCS
T ss_pred             HHhcCcccccccccccccHHHHHHHHHHHHcCCCcEEEEEECCCCchhh-cc----c-ccCCCEEEEEcCCHHHHHHcCC
Confidence            9986532     112234456788999999996 999999999997654 11    1 127999999999999988775 


Q ss_pred             cCceeeccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCcchHHHHHHHHHhcCCChhHHHHHHHHHhcccC
Q 038398          275 AHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGLPLALITIGRAMACKKTPQEWHYAIQVLRRSAS  354 (720)
Q Consensus       275 ~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~GlPLai~~~~~~l~~~~~~~~w~~~l~~l~~~~~  354 (720)
                      ...+|++++|+++|||+||.++++...  .++.+.+++.+|+++|+|+||||+++|+.++.+    .|+.+ +.+....+
T Consensus       284 ~~~~~~l~~L~~~ea~~Lf~~~a~~~~--~~~~~~~~~~~I~~~c~GlPLAl~~~g~~l~~~----~w~~~-~~l~~~l~  356 (549)
T 2a5y_B          284 TCEFIEVTSLEIDECYDFLEAYGMPMP--VGEKEEDVLNKTIELSSGNPATLMMFFKSCEPK----TFEKM-AQLNNKLE  356 (549)
T ss_dssp             CEEEEECCCCCHHHHHHHHHHTSCCCC----CHHHHHHHHHHHHHTTCHHHHHHHHTTCCSS----SHHHH-HHHHHHHH
T ss_pred             CCeEEECCCCCHHHHHHHHHHHhcCCC--CchhHHHHHHHHHHHhCCChHHHHHHHHHhccc----hHHHH-HHhHHHhh
Confidence            346799999999999999999987643  246788899999999999999999999998764    25443 44443322


Q ss_pred             CCCCCCccchhhHHhhcCCCCCcchhHHHH-----------hhcCCCCCcccChHHHHHHHHhh--CCCCccc-chhhHH
Q 038398          355 EFPGMGKEVYPLLKFSYDSLPDDTIRSYLL-----------YCGLFPEDYRIRKSELIDCWIGE--GFLDQYD-RSGAYN  420 (720)
Q Consensus       355 ~~~~~~~~~~~~l~~sy~~L~~~~~k~~fl-----------~~~~fp~~~~i~~~~li~~Wiae--g~~~~~~-~~~~~~  420 (720)
                      ...  ...+..++.+||+.||. ++|.||+           |||+||+++.|+    +.+|+|+  ||+...+ ....++
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            211  24788999999999999 8999999           999999999999    8999999  9998766 555666


Q ss_pred             hHHHHHHHHHHhccccccCCCCCcccCCceEEEehHHHHHHHHHHHhhh
Q 038398          421 EGYYIIGILLHACLLEEEGGDIGEEESGEHVVKMHDVIRDMVLWIACKI  469 (720)
Q Consensus       421 ~~~~~~~~L~~~sll~~~~~~~~~~~~~~~~~~mHdlv~~~a~~~~~~~  469 (720)
                      .++ ++++|+++||++....      +...+|+|||+||++|++++.+.
T Consensus       430 ~~~-~l~~L~~rsLl~~~~~------~~~~~~~mHdlv~~~a~~~~~~~  471 (549)
T 2a5y_B          430 VAD-RLKRLSKRGALLSGKR------MPVLTFKIDHIIHMFLKHVVDAQ  471 (549)
T ss_dssp             HHH-HHHHTTTBSSCSEEEC------SSSCEEECCHHHHHHHHTTSCTH
T ss_pred             HHH-HHHHHHHcCCeeEecC------CCceEEEeChHHHHHHHHHHHHH
Confidence            676 9999999999998752      13578999999999999888653

>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=5.1e-40  Score=369.06  Aligned_cols=285  Identities=18%  Similarity=0.241  Sum_probs=228.9

Q ss_pred             CcCchHHHHHHHHHhcC-CCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCE-EEEEEecCcCCHHHHHHHHHHHhCC
Q 038398          128 TVGLESTFDKVWRCLGE-EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDV-VIWVVVSKDLQLEKIQEKIGRRIGF  205 (720)
Q Consensus       128 ~vGr~~~~~~l~~~L~~-~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~-~~wv~v~~~~~~~~~~~~i~~~l~~  205 (720)
                      .|||++++++|.++|.. +..++|+|+||||+||||||+++|++. ++..+|+. ++|+++++.++...++..++..++.
T Consensus       130 ~VGRe~eLeeL~elL~~~d~~RVV~IvGmGGIGKTTLAk~Vy~d~-rV~~~Fd~gV~WVsVs~~~d~~~IL~~Ll~lL~~  208 (1221)
T 1vt4_I          130 NVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSY-KVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQ  208 (1221)
T ss_dssp             CCCCHHHHHHHHHHHHHCCSSCEEEECCSTTSSHHHHHHHHHHHC-HHHHHHSSCEEEEECCCSSSHHHHHHHHHHHHHH
T ss_pred             CCCcHHHHHHHHHHHhccCCCeEEEEEcCCCccHHHHHHHHHHhh-HHHHhCCCcEEEEEeCCCCCHHHHHHHHHHHHhh
Confidence            49999999999999965 567999999999999999999999875 45678985 9999999999988888887775432


Q ss_pred             CCCcc---C------CCChhHHHHHHHHHh---ccCcEEEEEeccccccccccccccCCCCCCCcEEEEEcCChhHhhhh
Q 038398          206 FDESW---K------NGSLEDKTSDILRIL---GKKKFLLLLDDIWERVDLTKVGIPFPDPENKSKIVFTTHFLEICGAL  273 (720)
Q Consensus       206 ~~~~~---~------~~~~~~~~~~l~~~l---~~k~~LlVlDdv~~~~~~~~l~~~~~~~~~gs~iiiTtR~~~v~~~~  273 (720)
                      .....   .      ..+.+.....+++.+   .++|+||||||||+...|+.+       ..||+||||||+..++..+
T Consensus       209 i~~~~~~~~d~~~~ip~~leeL~e~Lr~lL~~l~~KRvLLVLDDVwd~eqLe~f-------~pGSRILVTTRd~~Va~~l  281 (1221)
T 1vt4_I          209 IDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAF-------NLSCKILLTTRFKQVTDFL  281 (1221)
T ss_dssp             HCSSSTTTSCCCSSHHHHHHHHHHHHHHHHHHSTTSSCEEEEESCCCHHHHHHH-------HSSCCEEEECSCSHHHHHH
T ss_pred             cCcccccccccccCCCCCHHHHHHHHHHHHHhhcCCCEEEEEeCcChHHHHHhh-------CCCeEEEEeccChHHHHhc
Confidence            11000   0      012334556677766   679999999999998888764       2689999999999988655


Q ss_pred             ccCceeecc------CCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCcchHHHHHHHHHhcC-CChhHHHHHH
Q 038398          274 KAHEFLKVE------CLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGLPLALITIGRAMACK-KTPQEWHYAI  346 (720)
Q Consensus       274 ~~~~~~~l~------~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~GlPLai~~~~~~l~~~-~~~~~w~~~l  346 (720)
                      .....|.++      +|+.+|||+||++.+...       ..++..+|   |+|+||||+++|+.|+.+ .+..+|+.. 
T Consensus       282 ~g~~vy~LeL~d~dL~LS~eEA~eLF~~~~g~~-------~eeL~~eI---CgGLPLALkLaGs~Lr~k~~s~eeW~~~-  350 (1221)
T 1vt4_I          282 SAATTTHISLDHHSMTLTPDEVKSLLLKYLDCR-------PQDLPREV---LTTNPRRLSIIAESIRDGLATWDNWKHV-  350 (1221)
T ss_dssp             HHHSSCEEEECSSSSCCCHHHHHHHHHHHHCCC-------TTTHHHHH---CCCCHHHHHHHHHHHHHSCSSHHHHHHC-
T ss_pred             CCCeEEEecCccccCCcCHHHHHHHHHHHcCCC-------HHHHHHHH---hCCCHHHHHHHHHHHhCCCCCHHHHhcC-
Confidence            544567777      999999999999985321       12334444   999999999999999986 367788652 


Q ss_pred             HHHhcccCCCCCCCccchhhHHhhcCCCCCcch-hHHHHhhcCCCCCcccChHHHHHHHHhhCCCCcccchhhHHhHHHH
Q 038398          347 QVLRRSASEFPGMGKEVYPLLKFSYDSLPDDTI-RSYLLYCGLFPEDYRIRKSELIDCWIGEGFLDQYDRSGAYNEGYYI  425 (720)
Q Consensus       347 ~~l~~~~~~~~~~~~~~~~~l~~sy~~L~~~~~-k~~fl~~~~fp~~~~i~~~~li~~Wiaeg~~~~~~~~~~~~~~~~~  425 (720)
                                  ....+..+|.+||+.||+ +. |.||++||+||+++.|+.+.++.+|+++|          ++.+..+
T Consensus       351 ------------~~~~I~aaLelSYd~Lp~-eelK~cFL~LAIFPed~~I~~elLa~LW~aeG----------eedAe~~  407 (1221)
T 1vt4_I          351 ------------NCDKLTTIIESSLNVLEP-AEYRKMFDRLSVFPPSAHIPTILLSLIWFDVI----------KSDVMVV  407 (1221)
T ss_dssp             ------------SCHHHHHHHHHHHHHSCT-THHHHHHHHTTSSCTTSCEEHHHHHHHHCSSC----------SHHHHHH
T ss_pred             ------------ChhHHHHHHHHHHHhCCH-HHHHHHHHHHhCCCCCCCCCHHHHHHHhcCCC----------HHHHHHH
Confidence                        125899999999999999 78 99999999999999999999999999887          1357889


Q ss_pred             HHHHHHhccccccCCCCCcccCCceEEEehHHHHHHH
Q 038398          426 IGILLHACLLEEEGGDIGEEESGEHVVKMHDVIRDMV  462 (720)
Q Consensus       426 ~~~L~~~sll~~~~~~~~~~~~~~~~~~mHdlv~~~a  462 (720)
                      +++|+++||++....        ...|+|||++++++
T Consensus       408 L~eLvdRSLLq~d~~--------~~rYrMHDLllELr  436 (1221)
T 1vt4_I          408 VNKLHKYSLVEKQPK--------ESTISIPSIYLELK  436 (1221)
T ss_dssp             HHHHHTSSSSSBCSS--------SSEEBCCCHHHHHH
T ss_pred             HHHHHhhCCEEEeCC--------CCEEEehHHHHHHh
Confidence            999999999988532        56899999999965

>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=1.2e-38  Score=393.39  Aligned_cols=315  Identities=20%  Similarity=0.274  Sum_probs=255.0

Q ss_pred             CCCCCCcCchHHHHHHHHHhc--CCCceEEEEEcCCCChHHHHHHHHHhhhcCCCC-CcCEEEEEEecCcCC--HHHHHH
Q 038398          123 RPCEPTVGLESTFDKVWRCLG--EEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPN-VFDVVIWVVVSKDLQ--LEKIQE  197 (720)
Q Consensus       123 ~~~~~~vGr~~~~~~l~~~L~--~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~-~f~~~~wv~v~~~~~--~~~~~~  197 (720)
                      .+...||||++++++|.++|.  +++.++|+|+||||+||||||++++++...... .|+.++||++++...  ....+.
T Consensus       121 ~~~~~~vgR~~~~~~l~~~l~~~~~~~~~v~i~G~gG~GKTtLa~~~~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~  200 (1249)
T 3sfz_A          121 QRPVIFVTRKKLVHAIQQKLWKLNGEPGWVTIYGMAGCGKSVLAAEAVRDHSLLEGCFSGGVHWVSIGKQDKSGLLMKLQ  200 (1249)
T ss_dssp             CCCSSCCCCHHHHHHHHHHHHTTTTSCEEEEEECSTTSSHHHHHHHHTCCHHHHTTTSTTCEEEEECCSCCHHHHHHHHH
T ss_pred             CCCceeccHHHHHHHHHHHHhhccCCCCEEEEEeCCCCCHHHHHHHHhcChhHHHhhCCCeEEEEEECCcCchHHHHHHH
Confidence            344679999999999999995  356899999999999999999999988522234 456899999988543  445567


Q ss_pred             HHHHHhCCCCC--ccCCCChhHHHHHHHHHhccC--cEEEEEeccccccccccccccCCCCCCCcEEEEEcCChhHhhh-
Q 038398          198 KIGRRIGFFDE--SWKNGSLEDKTSDILRILGKK--KFLLLLDDIWERVDLTKVGIPFPDPENKSKIVFTTHFLEICGA-  272 (720)
Q Consensus       198 ~i~~~l~~~~~--~~~~~~~~~~~~~l~~~l~~k--~~LlVlDdv~~~~~~~~l~~~~~~~~~gs~iiiTtR~~~v~~~-  272 (720)
                      .++..+.....  .....+.++....++..+.++  |+||||||||+..+|..+       .+||+||||||++.++.. 
T Consensus       201 ~~~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~LlvlDd~~~~~~~~~~-------~~~~~ilvTtR~~~~~~~~  273 (1249)
T 3sfz_A          201 NLCMRLDQEESFSQRLPLNIEEAKDRLRVLMLRKHPRSLLILDDVWDPWVLKAF-------DNQCQILLTTRDKSVTDSV  273 (1249)
T ss_dssp             HHHHHHTTTCTTCSSCCSSHHHHHHHHHHHTSSSSCSCEEEEESCCCHHHHTTT-------CSSCEEEEEESSTTTTTTC
T ss_pred             HHHHHhhhhcccccCCCCCHHHHHHHHHHHHhccCCCEEEEEecCCCHHHHHhh-------cCCCEEEEEcCCHHHHHhh
Confidence            77777765432  113456677888888888877  999999999998777654       568999999999999854 


Q ss_pred             hccCceeeccC-CChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCcchHHHHHHHHHhcCCChhHHHHHHHHHhc
Q 038398          273 LKAHEFLKVEC-LGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGLPLALITIGRAMACKKTPQEWHYAIQVLRR  351 (720)
Q Consensus       273 ~~~~~~~~l~~-L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~GlPLai~~~~~~l~~~~~~~~w~~~l~~l~~  351 (720)
                      +.....+++++ |+++||++||...++..    .+...+++++|+++|+|+||||+++|+.|+.+.  ..|+..++.+..
T Consensus       274 ~~~~~~~~~~~~l~~~~a~~l~~~~~~~~----~~~~~~~~~~i~~~~~glPLal~~~~~~l~~~~--~~~~~~l~~l~~  347 (1249)
T 3sfz_A          274 MGPKHVVPVESGLGREKGLEILSLFVNMK----KEDLPAEAHSIIKECKGSPLVVSLIGALLRDFP--NRWAYYLRQLQN  347 (1249)
T ss_dssp             CSCBCCEECCSSCCHHHHHHHHHHHHTSC----STTCCTHHHHHHHHTTTCHHHHHHHHHHHHHSS--SCHHHHHHHHHS
T ss_pred             cCCceEEEecCCCCHHHHHHHHHHhhCCC----hhhCcHHHHHHHHHhCCCHHHHHHHHHHhhcCh--hHHHHHHHHHhh
Confidence            45567889996 99999999999988543    344567899999999999999999999998743  579999999877


Q ss_pred             ccCCCC-----CCCccchhhHHhhcCCCCCcchhHHHHhhcCCCCCcccChHHHHHHHHhhCCCCcccchhhHHhHHHHH
Q 038398          352 SASEFP-----GMGKEVYPLLKFSYDSLPDDTIRSYLLYCGLFPEDYRIRKSELIDCWIGEGFLDQYDRSGAYNEGYYII  426 (720)
Q Consensus       352 ~~~~~~-----~~~~~~~~~l~~sy~~L~~~~~k~~fl~~~~fp~~~~i~~~~li~~Wiaeg~~~~~~~~~~~~~~~~~~  426 (720)
                      ..+..-     ...+.+..++.+||+.||+ +.|.||++||+||+++.|++..++.+|.++           .+.++.++
T Consensus       348 ~~~~~~~~~~~~~~~~~~~~l~~s~~~L~~-~~~~~~~~l~~f~~~~~i~~~~~~~~~~~~-----------~~~~~~~l  415 (1249)
T 3sfz_A          348 KQFKRIRKSSSYDYEALDEAMSISVEMLRE-DIKDYYTDLSILQKDVKVPTKVLCVLWDLE-----------TEEVEDIL  415 (1249)
T ss_dssp             CCCCCSSCTTCTTHHHHHHHHHHHHHTSCT-TTHHHHHHGGGSCTTCCEEHHHHHHHHTCC-----------HHHHHHHH
T ss_pred             hhhhhcccccccchHHHHHHHHHHHHhCCH-HHHHHHHHhCccCCCCeeCHHHHHHHhCCC-----------HHHHHHHH
Confidence            643321     1113689999999999999 899999999999999999999999999654           36788999


Q ss_pred             HHHHHhccccccCCCCCcccCCceEEEehHHHHHHHHHHHhh
Q 038398          427 GILLHACLLEEEGGDIGEEESGEHVVKMHDVIRDMVLWIACK  468 (720)
Q Consensus       427 ~~L~~~sll~~~~~~~~~~~~~~~~~~mHdlv~~~a~~~~~~  468 (720)
                      ++|+++||++...      .+....|+|||+||++|+..+.+
T Consensus       416 ~~L~~~sl~~~~~------~~~~~~~~~h~l~~~~~~~~~~~  451 (1249)
T 3sfz_A          416 QEFVNKSLLFCNR------NGKSFCYYLHDLQVDFLTEKNRS  451 (1249)
T ss_dssp             HHHHHTTSCEEEE------SSSSEEEECCHHHHHHHHHHTGG
T ss_pred             HHHHhccceEEec------CCCceEEEecHHHHHHHHhhhhH
Confidence            9999999998764      23356799999999999998755

>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=1.1e-35  Score=336.53  Aligned_cols=309  Identities=20%  Similarity=0.293  Sum_probs=239.8

Q ss_pred             CCCCCcCchHHHHHHHHHhcC--CCceEEEEEcCCCChHHHHHHHHHhhhcCC-CCCc-CEEEEEEecCcCCHHHHHH--
Q 038398          124 PCEPTVGLESTFDKVWRCLGE--EQVGIIGLYGMGGVGKTTLLTKINNKLLGA-PNVF-DVVIWVVVSKDLQLEKIQE--  197 (720)
Q Consensus       124 ~~~~~vGr~~~~~~l~~~L~~--~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~-~~~f-~~~~wv~v~~~~~~~~~~~--  197 (720)
                      +.+.||||+.++++|.++|..  ++.++|+|+||||+||||||+.++++. .+ ..+| +.++|++++.. +...+..  
T Consensus       122 ~~~~~vGR~~~l~~L~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~-~~~~~~f~~~v~wv~~~~~-~~~~~~~~l  199 (591)
T 1z6t_A          122 RPVVFVTRKKLVNAIQQKLSKLKGEPGWVTIHGMAGCGKSVLAAEAVRDH-SLLEGCFPGGVHWVSVGKQ-DKSGLLMKL  199 (591)
T ss_dssp             CCSSCCCCHHHHHHHHHHHTTSTTSCEEEEEECCTTSSHHHHHHHHHCCH-HHHHHHCTTCEEEEEEESC-CHHHHHHHH
T ss_pred             CCCeecccHHHHHHHHHHHhcccCCCceEEEEcCCCCCHHHHHHHHHhch-hHHHhhCCCceEEEECCCC-chHHHHHHH
Confidence            346799999999999999974  467899999999999999999999875 33 4678 58999999876 3333333  


Q ss_pred             -HHHHHhCCCC--CccCCCChhHHHHHHHHHhcc--CcEEEEEeccccccccccccccCCCCCCCcEEEEEcCChhHhhh
Q 038398          198 -KIGRRIGFFD--ESWKNGSLEDKTSDILRILGK--KKFLLLLDDIWERVDLTKVGIPFPDPENKSKIVFTTHFLEICGA  272 (720)
Q Consensus       198 -~i~~~l~~~~--~~~~~~~~~~~~~~l~~~l~~--k~~LlVlDdv~~~~~~~~l~~~~~~~~~gs~iiiTtR~~~v~~~  272 (720)
                       .++..++...  ......+.+.....+...+.+  +++||||||+|+...+..+       ..|++||||||+..++..
T Consensus       200 ~~l~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~LLVLDdv~~~~~l~~l-------~~~~~ilvTsR~~~~~~~  272 (591)
T 1z6t_A          200 QNLCTRLDQDESFSQRLPLNIEEAKDRLRILMLRKHPRSLLILDDVWDSWVLKAF-------DSQCQILLTTRDKSVTDS  272 (591)
T ss_dssp             HHHHHHHCSSCCSCSSCCCSHHHHHHHHHHHHHHTCTTCEEEEEEECCHHHHHTT-------CSSCEEEEEESCGGGGTT
T ss_pred             HHHHHHhccccccccCCCCCHHHHHHHHHHHHccCCCCeEEEEeCCCCHHHHHHh-------cCCCeEEEECCCcHHHHh
Confidence             3344554211  111345566777888888877  7899999999987665533       468999999999988765


Q ss_pred             hccCceeec---cCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCcchHHHHHHHHHhcCCChhHHHHHHHHH
Q 038398          273 LKAHEFLKV---ECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGLPLALITIGRAMACKKTPQEWHYAIQVL  349 (720)
Q Consensus       273 ~~~~~~~~l---~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~GlPLai~~~~~~l~~~~~~~~w~~~l~~l  349 (720)
                      +. ...+++   ++|+.+|+++||...++...    ....+.+.+|+++|+|+||||+.+|+.++..  ..+|...++.+
T Consensus       273 ~~-~~~~~v~~l~~L~~~ea~~L~~~~~~~~~----~~~~~~~~~i~~~~~G~PLal~~~a~~l~~~--~~~w~~~l~~l  345 (591)
T 1z6t_A          273 VM-GPKYVVPVESSLGKEKGLEILSLFVNMKK----ADLPEQAHSIIKECKGSPLVVSLIGALLRDF--PNRWEYYLKQL  345 (591)
T ss_dssp             CC-SCEEEEECCSSCCHHHHHHHHHHHHTSCG----GGSCTHHHHHHHHHTTCHHHHHHHHHHHHHS--TTCHHHHHHHH
T ss_pred             cC-CCceEeecCCCCCHHHHHHHHHHHhCCCc----ccccHHHHHHHHHhCCCcHHHHHHHHHHhcC--chhHHHHHHHH
Confidence            43 334554   58999999999999987532    1224578999999999999999999999874  34799988888


Q ss_pred             hcccCCC-----CCCCccchhhHHhhcCCCCCcchhHHHHhhcCCCCCcccChHHHHHHHHhhCCCCcccchhhHHhHHH
Q 038398          350 RRSASEF-----PGMGKEVYPLLKFSYDSLPDDTIRSYLLYCGLFPEDYRIRKSELIDCWIGEGFLDQYDRSGAYNEGYY  424 (720)
Q Consensus       350 ~~~~~~~-----~~~~~~~~~~l~~sy~~L~~~~~k~~fl~~~~fp~~~~i~~~~li~~Wiaeg~~~~~~~~~~~~~~~~  424 (720)
                      .......     ......+..++..||+.||+ +.|.||++||+||+++.|+...+...|.++           .+.+..
T Consensus       346 ~~~~~~~~~~~~~~~~~~l~~~l~~s~~~L~~-~~~~~l~~la~f~~~~~i~~~~l~~l~~~~-----------~~~~~~  413 (591)
T 1z6t_A          346 QNKQFKRIRKSSSYDYEALDEAMSISVEMLRE-DIKDYYTDLSILQKDVKVPTKVLCILWDME-----------TEEVED  413 (591)
T ss_dssp             HSCCCCCSSCCCSSCCHHHHHHHHHHHHTSCT-TTHHHHHHGGGCCTTCCEEHHHHHHHHTCC-----------HHHHHH
T ss_pred             HHhHHHHhhhccccchHHHHHHHHHHHHhCCH-HHHHHHHHccccCCCCccCHHHHHHHhccC-----------HHHHHH
Confidence            7654221     11224788999999999999 899999999999999999999999999543           245778


Q ss_pred             HHHHHHHhccccccCCCCCcccCCceEEEehHHHHHHHHHHH
Q 038398          425 IIGILLHACLLEEEGGDIGEEESGEHVVKMHDVIRDMVLWIA  466 (720)
Q Consensus       425 ~~~~L~~~sll~~~~~~~~~~~~~~~~~~mHdlv~~~a~~~~  466 (720)
                      ++++|+++||++...      ++....|+||+++|++++...
T Consensus       414 ~l~~L~~~~Ll~~~~------~~~~~~~~~H~lv~~~~~~~~  449 (591)
T 1z6t_A          414 ILQEFVNKSLLFCDR------NGKSFRYYLHDLQVDFLTEKN  449 (591)
T ss_dssp             HHHHHHHTTSSEEEE------ETTEEEEECCHHHHHHHHHHT
T ss_pred             HHHHHHhCcCeEEec------CCCccEEEEcHHHHHHHHhhh
Confidence            899999999998653      223568999999999999874

>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=99.79  E-value=4.7e-19  Score=184.23  Aligned_cols=217  Identities=22%  Similarity=0.232  Sum_probs=177.3

Q ss_pred             EEEEcCCCCccCc-ccccccceeEEEecccccccCCC-CCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCC
Q 038398          476 FLVHAGLGLTEAP-EIQNWRNVRRMSLMKNKIENLSE-TPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLL  553 (720)
Q Consensus       476 ~~~~~~~~~~~~~-~~~~~~~l~~L~l~~~~~~~~~~-~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~  553 (720)
                      .+...+.....+| .+..+++|++|++++|.+..+|. +..+++|++|++++|.+..+|.. +.++++|++|+|++|+..
T Consensus        85 ~L~L~~n~l~~lp~~l~~l~~L~~L~L~~n~l~~lp~~~~~l~~L~~L~Ls~n~l~~lp~~-l~~l~~L~~L~L~~n~~~  163 (328)
T 4fcg_A           85 ALELRSVPLPQFPDQAFRLSHLQHMTIDAAGLMELPDTMQQFAGLETLTLARNPLRALPAS-IASLNRLRELSIRACPEL  163 (328)
T ss_dssp             EEEEESSCCSSCCSCGGGGTTCSEEEEESSCCCCCCSCGGGGTTCSEEEEESCCCCCCCGG-GGGCTTCCEEEEEEETTC
T ss_pred             EEEccCCCchhcChhhhhCCCCCEEECCCCCccchhHHHhccCCCCEEECCCCccccCcHH-HhcCcCCCEEECCCCCCc
Confidence            3444444544544 47778999999999999988876 47899999999999999877765 899999999999998889


Q ss_pred             ccCCccccC---------CCCCCEEeccCCCCcccchhhhcCCCCCEEeccCCcCCCCCchhhhhccccCceeeccccCC
Q 038398          554 WKLPSGIST---------LVSLEHLDLSSTAITHLPIELQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFDCGG  624 (720)
Q Consensus       554 ~~lp~~i~~---------l~~L~~L~L~~~~i~~lp~~i~~l~~L~~L~l~~~~~l~~lp~~~~~~l~~L~~L~~~~~~~  624 (720)
                      +.+|..++.         +++|++|++++|.++.+|..++++++|++|++++ +.+..+|.. ++.+++|+.|++.+|..
T Consensus       164 ~~~p~~~~~~~~~~~~~~l~~L~~L~L~~n~l~~lp~~l~~l~~L~~L~L~~-N~l~~l~~~-l~~l~~L~~L~Ls~n~~  241 (328)
T 4fcg_A          164 TELPEPLASTDASGEHQGLVNLQSLRLEWTGIRSLPASIANLQNLKSLKIRN-SPLSALGPA-IHHLPKLEELDLRGCTA  241 (328)
T ss_dssp             CCCCSCSEEEC-CCCEEESTTCCEEEEEEECCCCCCGGGGGCTTCCEEEEES-SCCCCCCGG-GGGCTTCCEEECTTCTT
T ss_pred             cccChhHhhccchhhhccCCCCCEEECcCCCcCcchHhhcCCCCCCEEEccC-CCCCcCchh-hccCCCCCEEECcCCcc
Confidence            999988765         9999999999999999999999999999999999 467788875 88999999999887543


Q ss_pred             CcccchhcccccCCccccHHHhcCCCCCceeEEEecchhhHHHHhhhhhhhhhccccccccccCCCccccccccccCCcc
Q 038398          625 SKIERLKINVLFGGHQFLVEELMGMKHLMVLTITLKSWQALKELLISQELQRSTQSLFLRCFNDSKSLDIFCLAGLRNLN  704 (720)
Q Consensus       625 ~~l~~l~~~~~~~~~~~~~~~l~~l~~L~~L~~~~~~~~~l~~l~~~~~~~~~L~~L~l~~~~~l~~l~~~~l~~l~~L~  704 (720)
                      ..              ..+..+..+++|+.|.++.|...  ..++.....+++|+.|+|++|+.+..+| ..+.++++|+
T Consensus       242 ~~--------------~~p~~~~~l~~L~~L~L~~n~~~--~~~p~~~~~l~~L~~L~L~~n~~~~~iP-~~l~~L~~L~  304 (328)
T 4fcg_A          242 LR--------------NYPPIFGGRAPLKRLILKDCSNL--LTLPLDIHRLTQLEKLDLRGCVNLSRLP-SLIAQLPANC  304 (328)
T ss_dssp             CC--------------BCCCCTTCCCCCCEEECTTCTTC--CBCCTTGGGCTTCCEEECTTCTTCCCCC-GGGGGSCTTC
T ss_pred             hh--------------hhHHHhcCCCCCCEEECCCCCch--hhcchhhhcCCCCCEEeCCCCCchhhcc-HHHhhccCce
Confidence            32              12334677899999999876553  2334455667899999999999888888 7899999999


Q ss_pred             eeeecCCC
Q 038398          705 KLYVAGCK  712 (720)
Q Consensus       705 ~L~l~~c~  712 (720)
                      .+++..+.
T Consensus       305 ~l~l~~~~  312 (328)
T 4fcg_A          305 IILVPPHL  312 (328)
T ss_dssp             EEECCGGG
T ss_pred             EEeCCHHH
Confidence            99987543

>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=99.77  E-value=6.2e-19  Score=183.34  Aligned_cols=203  Identities=21%  Similarity=0.308  Sum_probs=169.6

Q ss_pred             cceeEEEecccccccCCC-CCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCccCCccccCCCCCCEEecc
Q 038398          494 RNVRRMSLMKNKIENLSE-TPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLS  572 (720)
Q Consensus       494 ~~l~~L~l~~~~~~~~~~-~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~  572 (720)
                      .+++.|++++|.+..+|. +..+++|++|++++|.++.+|.. +.++++|++|+|++|.+. .+|..++++++|++|+++
T Consensus        81 ~~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~L~  158 (328)
T 4fcg_A           81 PGRVALELRSVPLPQFPDQAFRLSHLQHMTIDAAGLMELPDT-MQQFAGLETLTLARNPLR-ALPASIASLNRLRELSIR  158 (328)
T ss_dssp             TTCCEEEEESSCCSSCCSCGGGGTTCSEEEEESSCCCCCCSC-GGGGTTCSEEEEESCCCC-CCCGGGGGCTTCCEEEEE
T ss_pred             cceeEEEccCCCchhcChhhhhCCCCCEEECCCCCccchhHH-HhccCCCCEEECCCCccc-cCcHHHhcCcCCCEEECC
Confidence            578999999999998876 46799999999999999877755 799999999999999655 889999999999999999


Q ss_pred             CC-CCcccchhhhc---------CCCCCEEeccCCcCCCCCchhhhhccccCceeeccccCCCcccchhcccccCCcccc
Q 038398          573 ST-AITHLPIELQK---------LVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKINVLFGGHQFL  642 (720)
Q Consensus       573 ~~-~i~~lp~~i~~---------l~~L~~L~l~~~~~l~~lp~~~~~~l~~L~~L~~~~~~~~~l~~l~~~~~~~~~~~~  642 (720)
                      +| .+..+|..+..         +++|++|++++ +.+..+|.. ++.+++|++|++.++.   +..+            
T Consensus       159 ~n~~~~~~p~~~~~~~~~~~~~~l~~L~~L~L~~-n~l~~lp~~-l~~l~~L~~L~L~~N~---l~~l------------  221 (328)
T 4fcg_A          159 ACPELTELPEPLASTDASGEHQGLVNLQSLRLEW-TGIRSLPAS-IANLQNLKSLKIRNSP---LSAL------------  221 (328)
T ss_dssp             EETTCCCCCSCSEEEC-CCCEEESTTCCEEEEEE-ECCCCCCGG-GGGCTTCCEEEEESSC---CCCC------------
T ss_pred             CCCCccccChhHhhccchhhhccCCCCCEEECcC-CCcCcchHh-hcCCCCCCEEEccCCC---CCcC------------
Confidence            97 56688887664         99999999999 467789976 8899999999988653   3222            


Q ss_pred             HHHhcCCCCCceeEEEecchhhHHHHhhhhhhhhhccccccccccCCCccccccccccCCcceeeecCCCCCcccc
Q 038398          643 VEELMGMKHLMVLTITLKSWQALKELLISQELQRSTQSLFLRCFNDSKSLDIFCLAGLRNLNKLYVAGCKHLEDSQ  718 (720)
Q Consensus       643 ~~~l~~l~~L~~L~~~~~~~~~l~~l~~~~~~~~~L~~L~l~~~~~l~~l~~~~l~~l~~L~~L~l~~c~~l~~i~  718 (720)
                      +..+..+++|+.|++++|....  .++.....+++|+.|++++|+....+| ..+.++++|+.|+|++|+.+..+|
T Consensus       222 ~~~l~~l~~L~~L~Ls~n~~~~--~~p~~~~~l~~L~~L~L~~n~~~~~~p-~~~~~l~~L~~L~L~~n~~~~~iP  294 (328)
T 4fcg_A          222 GPAIHHLPKLEELDLRGCTALR--NYPPIFGGRAPLKRLILKDCSNLLTLP-LDIHRLTQLEKLDLRGCVNLSRLP  294 (328)
T ss_dssp             CGGGGGCTTCCEEECTTCTTCC--BCCCCTTCCCCCCEEECTTCTTCCBCC-TTGGGCTTCCEEECTTCTTCCCCC
T ss_pred             chhhccCCCCCEEECcCCcchh--hhHHHhcCCCCCCEEECCCCCchhhcc-hhhhcCCCCCEEeCCCCCchhhcc
Confidence            2247788999999999876543  234455566799999999988888887 668999999999999999988776

>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=99.74  E-value=9.5e-18  Score=176.71  Aligned_cols=233  Identities=20%  Similarity=0.194  Sum_probs=154.4

Q ss_pred             EEEcCCCCccCcccccccceeEEEecccccccCCC--CCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCc
Q 038398          477 LVHAGLGLTEAPEIQNWRNVRRMSLMKNKIENLSE--TPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLW  554 (720)
Q Consensus       477 ~~~~~~~~~~~~~~~~~~~l~~L~l~~~~~~~~~~--~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~  554 (720)
                      +...+.....+|. .-.+++++|++++|.+..++.  +..+++|++|++++|.++.+++..|.++++|++|+|++|.+. 
T Consensus        36 c~~~~~~l~~iP~-~~~~~L~~L~l~~n~i~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~-  113 (353)
T 2z80_A           36 CKGSSGSLNSIPS-GLTEAVKSLDLSNNRITYISNSDLQRCVNLQALVLTSNGINTIEEDSFSSLGSLEHLDLSYNYLS-  113 (353)
T ss_dssp             EECCSTTCSSCCT-TCCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECCSSCCS-
T ss_pred             eeCCCCCcccccc-cccccCcEEECCCCcCcccCHHHhccCCCCCEEECCCCccCccCHhhcCCCCCCCEEECCCCcCC-
Confidence            3344444555553 223578888888888877655  577888888888888888777766888888888888888554 


Q ss_pred             cCCcc-ccCCCCCCEEeccCCCCcccch--hhhcCCCCCEEeccCCcCCCCCchhhhhccccCceeeccccCCCcccchh
Q 038398          555 KLPSG-ISTLVSLEHLDLSSTAITHLPI--ELQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLK  631 (720)
Q Consensus       555 ~lp~~-i~~l~~L~~L~L~~~~i~~lp~--~i~~l~~L~~L~l~~~~~l~~lp~~~~~~l~~L~~L~~~~~~~~~l~~l~  631 (720)
                      .+|.. ++++++|++|++++|.++.+|.  .+.++++|++|++++|+.+..++...++.+++|+.|++.++...   .+.
T Consensus       114 ~~~~~~~~~l~~L~~L~L~~n~l~~l~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~l~~L~~L~l~~n~l~---~~~  190 (353)
T 2z80_A          114 NLSSSWFKPLSSLTFLNLLGNPYKTLGETSLFSHLTKLQILRVGNMDTFTKIQRKDFAGLTFLEELEIDASDLQ---SYE  190 (353)
T ss_dssp             SCCHHHHTTCTTCSEEECTTCCCSSSCSSCSCTTCTTCCEEEEEESSSCCEECTTTTTTCCEEEEEEEEETTCC---EEC
T ss_pred             cCCHhHhCCCccCCEEECCCCCCcccCchhhhccCCCCcEEECCCCccccccCHHHccCCCCCCEEECCCCCcC---ccC
Confidence            44443 7788888888888888888876  57788888888888865666666545667777777776654322   211


Q ss_pred             cccccC-------------CccccHHHhcCCCCCceeEEEecchhh-----------------------------HHHHh
Q 038398          632 INVLFG-------------GHQFLVEELMGMKHLMVLTITLKSWQA-----------------------------LKELL  669 (720)
Q Consensus       632 ~~~~~~-------------~~~~~~~~l~~l~~L~~L~~~~~~~~~-----------------------------l~~l~  669 (720)
                      ...+..             ........+..+++|+.|+++.|.+..                             +..++
T Consensus       191 ~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~l~~~~~~~~l~~l~L~~~~l~~~~l~~l~  270 (353)
T 2z80_A          191 PKSLKSIQNVSHLILHMKQHILLLEIFVDVTSSVECLELRDTDLDTFHFSELSTGETNSLIKKFTFRNVKITDESLFQVM  270 (353)
T ss_dssp             TTTTTTCSEEEEEEEECSCSTTHHHHHHHHTTTEEEEEEESCBCTTCCCC------CCCCCCEEEEESCBCCHHHHHHHH
T ss_pred             HHHHhccccCCeecCCCCccccchhhhhhhcccccEEECCCCccccccccccccccccchhhccccccccccCcchhhhH
Confidence            111100             001111123345667777776665433                             12334


Q ss_pred             hhhhhhhhccccccccccCCCccccccccccCCcceeeecCCCCCc
Q 038398          670 ISQELQRSTQSLFLRCFNDSKSLDIFCLAGLRNLNKLYVAGCKHLE  715 (720)
Q Consensus       670 ~~~~~~~~L~~L~l~~~~~l~~l~~~~l~~l~~L~~L~l~~c~~l~  715 (720)
                      .....+++|+.|++++ +.++.++...|.++++|+.|+|++|+-.-
T Consensus       271 ~~l~~l~~L~~L~Ls~-N~l~~i~~~~~~~l~~L~~L~L~~N~~~~  315 (353)
T 2z80_A          271 KLLNQISGLLELEFSR-NQLKSVPDGIFDRLTSLQKIWLHTNPWDC  315 (353)
T ss_dssp             HHHHTCTTCCEEECCS-SCCCCCCTTTTTTCTTCCEEECCSSCBCC
T ss_pred             HHHhcccCCCEEECCC-CCCCccCHHHHhcCCCCCEEEeeCCCccC
Confidence            4445567899999998 56778885557889999999999997543

>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=1.6e-17  Score=181.24  Aligned_cols=232  Identities=21%  Similarity=0.203  Sum_probs=165.4

Q ss_pred             EEEcCCCCccCcccccccceeEEEecccccccCC--CCCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCc
Q 038398          477 LVHAGLGLTEAPEIQNWRNVRRMSLMKNKIENLS--ETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLW  554 (720)
Q Consensus       477 ~~~~~~~~~~~~~~~~~~~l~~L~l~~~~~~~~~--~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~  554 (720)
                      +...+.+...+|. .-.++++.|++++|.+..++  .+..+++|++|++++|.+..+++..|.++++|++|+|++|.+..
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 VVCTRRGLSEVPQ-GIPSNTRYLNLMENNIQMIQADTFRHLHHLEVLQLGRNSIRQIEVGAFNGLASLNTLELFDNWLTV  137 (452)
T ss_dssp             EECCSSCCSSCCS-CCCTTCSEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCSB
T ss_pred             EEECCCCcCccCC-CCCCCccEEECcCCcCceECHHHcCCCCCCCEEECCCCccCCcChhhccCcccCCEEECCCCcCCc
Confidence            3444445555553 22368999999999988763  35788999999999999988888889999999999999996665


Q ss_pred             cCCccccCCCCCCEEeccCCCCcccch-hhhcCCCCCEEeccCCcCCCCCchhhhhccccCceeeccccCCCcccchh--
Q 038398          555 KLPSGISTLVSLEHLDLSSTAITHLPI-ELQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLK--  631 (720)
Q Consensus       555 ~lp~~i~~l~~L~~L~L~~~~i~~lp~-~i~~l~~L~~L~l~~~~~l~~lp~~~~~~l~~L~~L~~~~~~~~~l~~l~--  631 (720)
                      ..+..+..+++|++|+|++|.++.+|. .+.++++|+.|++++|+.+..+|...+..+++|+.|++.++....+..+.  
T Consensus       138 ~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~l~~L~~L~L~~n~l~~~~~~~~l  217 (452)
T 3zyi_A          138 IPSGAFEYLSKLRELWLRNNPIESIPSYAFNRVPSLMRLDLGELKKLEYISEGAFEGLFNLKYLNLGMCNIKDMPNLTPL  217 (452)
T ss_dssp             CCTTTSSSCTTCCEEECCSCCCCEECTTTTTTCTTCCEEECCCCTTCCEECTTTTTTCTTCCEEECTTSCCSSCCCCTTC
T ss_pred             cChhhhcccCCCCEEECCCCCcceeCHhHHhcCCcccEEeCCCCCCccccChhhccCCCCCCEEECCCCccccccccccc
Confidence            555568889999999999999998876 58889999999999988888888776788888888887765433221100  


Q ss_pred             ----cccc--cCCccccHHHhcCCCCCceeEEEecchhhHHHHhhhhhhhhhccccccccccCCCccccccccccCCcce
Q 038398          632 ----INVL--FGGHQFLVEELMGMKHLMVLTITLKSWQALKELLISQELQRSTQSLFLRCFNDSKSLDIFCLAGLRNLNK  705 (720)
Q Consensus       632 ----~~~~--~~~~~~~~~~l~~l~~L~~L~~~~~~~~~l~~l~~~~~~~~~L~~L~l~~~~~l~~l~~~~l~~l~~L~~  705 (720)
                          .-..  ..........+..+++|+.|.++.|.+..+.  ...+..+++|+.|+|++ |.++.++...+..+++|+.
T Consensus       218 ~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~--~~~~~~l~~L~~L~L~~-N~l~~~~~~~~~~l~~L~~  294 (452)
T 3zyi_A          218 VGLEELEMSGNHFPEIRPGSFHGLSSLKKLWVMNSQVSLIE--RNAFDGLASLVELNLAH-NNLSSLPHDLFTPLRYLVE  294 (452)
T ss_dssp             TTCCEEECTTSCCSEECGGGGTTCTTCCEEECTTSCCCEEC--TTTTTTCTTCCEEECCS-SCCSCCCTTSSTTCTTCCE
T ss_pred             ccccEEECcCCcCcccCcccccCccCCCEEEeCCCcCceEC--HHHhcCCCCCCEEECCC-CcCCccChHHhccccCCCE
Confidence                0000  0112223445667777777777766654432  12334456788888877 4567777666777888888


Q ss_pred             eeecCCC
Q 038398          706 LYVAGCK  712 (720)
Q Consensus       706 L~l~~c~  712 (720)
                      |+|++|+
T Consensus       295 L~L~~Np  301 (452)
T 3zyi_A          295 LHLHHNP  301 (452)
T ss_dssp             EECCSSC
T ss_pred             EEccCCC
Confidence            8888776

>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=99.74  E-value=1.5e-17  Score=169.67  Aligned_cols=219  Identities=22%  Similarity=0.272  Sum_probs=173.8

Q ss_pred             EEEcCCCCccCcccccccceeEEEecccccccCCC--CCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCc
Q 038398          477 LVHAGLGLTEAPEIQNWRNVRRMSLMKNKIENLSE--TPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLW  554 (720)
Q Consensus       477 ~~~~~~~~~~~~~~~~~~~l~~L~l~~~~~~~~~~--~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~  554 (720)
                      +...+.+...+|. ...+++++|++++|.+..++.  +..+++|++|++++|.++.+.+..|.++++|++|++++|..+.
T Consensus        16 ~~c~~~~l~~ip~-~~~~~l~~L~l~~n~i~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~~l~   94 (285)
T 1ozn_A           16 TSCPQQGLQAVPV-GIPAASQRIFLHGNRISHVPAASFRACRNLTILWLHSNVLARIDAAAFTGLALLEQLDLSDNAQLR   94 (285)
T ss_dssp             EECCSSCCSSCCT-TCCTTCSEEECTTSCCCEECTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSCTTCC
T ss_pred             EEcCcCCcccCCc-CCCCCceEEEeeCCcCCccCHHHcccCCCCCEEECCCCccceeCHhhcCCccCCCEEeCCCCCCcc
Confidence            3344444555553 335789999999999988764  5789999999999999999877779999999999999997344


Q ss_pred             cC-CccccCCCCCCEEeccCCCCccc-chhhhcCCCCCEEeccCCcCCCCCchhhhhccccCceeeccccCCCcccchhc
Q 038398          555 KL-PSGISTLVSLEHLDLSSTAITHL-PIELQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKI  632 (720)
Q Consensus       555 ~l-p~~i~~l~~L~~L~L~~~~i~~l-p~~i~~l~~L~~L~l~~~~~l~~lp~~~~~~l~~L~~L~~~~~~~~~l~~l~~  632 (720)
                      .+ |..+..+++|++|++++|.++.+ |..+.++++|++|++++ +.+..+|...++.+++|+.|++.+   |.+..++.
T Consensus        95 ~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~-n~l~~~~~~~~~~l~~L~~L~l~~---n~l~~~~~  170 (285)
T 1ozn_A           95 SVDPATFHGLGRLHTLHLDRCGLQELGPGLFRGLAALQYLYLQD-NALQALPDDTFRDLGNLTHLFLHG---NRISSVPE  170 (285)
T ss_dssp             CCCTTTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECCS-SCCCCCCTTTTTTCTTCCEEECCS---SCCCEECT
T ss_pred             ccCHHHhcCCcCCCEEECCCCcCCEECHhHhhCCcCCCEEECCC-CcccccCHhHhccCCCccEEECCC---CcccccCH
Confidence            54 78899999999999999999988 55689999999999999 467788876678888988888776   44433322


Q ss_pred             ccccCCccccHHHhcCCCCCceeEEEecchhhHHHHhhhhhhhhhccccccccccCCCccccccccccCCcceeeecCCC
Q 038398          633 NVLFGGHQFLVEELMGMKHLMVLTITLKSWQALKELLISQELQRSTQSLFLRCFNDSKSLDIFCLAGLRNLNKLYVAGCK  712 (720)
Q Consensus       633 ~~~~~~~~~~~~~l~~l~~L~~L~~~~~~~~~l~~l~~~~~~~~~L~~L~l~~~~~l~~l~~~~l~~l~~L~~L~l~~c~  712 (720)
                                 ..+..+++|+.|.++.|.+..+.  +.....+++|+.|++++ +.+..++...+..+++|+.|+|++|+
T Consensus       171 -----------~~~~~l~~L~~L~l~~n~l~~~~--~~~~~~l~~L~~L~l~~-n~l~~~~~~~~~~l~~L~~L~l~~N~  236 (285)
T 1ozn_A          171 -----------RAFRGLHSLDRLLLHQNRVAHVH--PHAFRDLGRLMTLYLFA-NNLSALPTEALAPLRALQYLRLNDNP  236 (285)
T ss_dssp             -----------TTTTTCTTCCEEECCSSCCCEEC--TTTTTTCTTCCEEECCS-SCCSCCCHHHHTTCTTCCEEECCSSC
T ss_pred             -----------HHhcCccccCEEECCCCcccccC--HhHccCcccccEeeCCC-CcCCcCCHHHcccCcccCEEeccCCC
Confidence                       23567889999999988876542  23344567999999998 56777876779999999999999997


Q ss_pred             CC
Q 038398          713 HL  714 (720)
Q Consensus       713 ~l  714 (720)
                      -.
T Consensus       237 ~~  238 (285)
T 1ozn_A          237 WV  238 (285)
T ss_dssp             EE
T ss_pred             cc
Confidence            43

>3zyj_A Leucine-rich repeat-containing protein 4C; cell adhesion, synapse; HET: NAG BMA MAN; 3.25A {Homo sapiens}

Probab=99.73  E-value=2e-17  Score=179.74  Aligned_cols=229  Identities=19%  Similarity=0.210  Sum_probs=162.9

Q ss_pred             EEEcCCCCccCcccccccceeEEEecccccccCC--CCCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCc
Q 038398          477 LVHAGLGLTEAPEIQNWRNVRRMSLMKNKIENLS--ETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLW  554 (720)
Q Consensus       477 ~~~~~~~~~~~~~~~~~~~l~~L~l~~~~~~~~~--~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~  554 (720)
                      +...+.....+|.. -.++++.|++++|.+..++  .+..+++|++|++++|.+..+++..|.++++|++|+|++|.+..
T Consensus        48 v~c~~~~l~~iP~~-~~~~l~~L~L~~n~i~~~~~~~~~~l~~L~~L~Ls~n~i~~i~~~~~~~l~~L~~L~L~~n~l~~  126 (440)
T 3zyj_A           48 VICVRKNLREVPDG-ISTNTRLLNLHENQIQIIKVNSFKHLRHLEILQLSRNHIRTIEIGAFNGLANLNTLELFDNRLTT  126 (440)
T ss_dssp             EECCSCCCSSCCSC-CCTTCSEEECCSCCCCEECTTTTSSCSSCCEEECCSSCCCEECGGGGTTCSSCCEEECCSSCCSS
T ss_pred             EEeCCCCcCcCCCC-CCCCCcEEEccCCcCCeeCHHHhhCCCCCCEEECCCCcCCccChhhccCCccCCEEECCCCcCCe
Confidence            44445555555542 2368899999999988765  35788999999999999988888889999999999999996654


Q ss_pred             cCCccccCCCCCCEEeccCCCCcccch-hhhcCCCCCEEeccCCcCCCCCchhhhhccccCceeeccccCCCcccchhcc
Q 038398          555 KLPSGISTLVSLEHLDLSSTAITHLPI-ELQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKIN  633 (720)
Q Consensus       555 ~lp~~i~~l~~L~~L~L~~~~i~~lp~-~i~~l~~L~~L~l~~~~~l~~lp~~~~~~l~~L~~L~~~~~~~~~l~~l~~~  633 (720)
                      ..+..+..+++|++|+|++|.++.+|. .+.++++|++|++++|+.+..++...+..+++|+.|++.++..   ..++.-
T Consensus       127 ~~~~~~~~l~~L~~L~L~~N~i~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~l~~L~~L~L~~n~l---~~~~~~  203 (440)
T 3zyj_A          127 IPNGAFVYLSKLKELWLRNNPIESIPSYAFNRIPSLRRLDLGELKRLSYISEGAFEGLSNLRYLNLAMCNL---REIPNL  203 (440)
T ss_dssp             CCTTTSCSCSSCCEEECCSCCCCEECTTTTTTCTTCCEEECCCCTTCCEECTTTTTTCSSCCEEECTTSCC---SSCCCC
T ss_pred             eCHhHhhccccCceeeCCCCcccccCHHHhhhCcccCEeCCCCCCCcceeCcchhhcccccCeecCCCCcC---cccccc
Confidence            445578899999999999999998875 5888999999999998888888876678888888888776533   322210


Q ss_pred             ---------cc--cCCccccHHHhcCCCCCceeEEEecchhhHHHHhhhhhhhhhccccccccccCCCccccccccccCC
Q 038398          634 ---------VL--FGGHQFLVEELMGMKHLMVLTITLKSWQALKELLISQELQRSTQSLFLRCFNDSKSLDIFCLAGLRN  702 (720)
Q Consensus       634 ---------~~--~~~~~~~~~~l~~l~~L~~L~~~~~~~~~l~~l~~~~~~~~~L~~L~l~~~~~l~~l~~~~l~~l~~  702 (720)
                               ..  ..........+..+++|+.|.++.|.+..+..  ..+..+++|+.|+|++ |.++.++...+..+++
T Consensus       204 ~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~--~~~~~l~~L~~L~L~~-N~l~~~~~~~~~~l~~  280 (440)
T 3zyj_A          204 TPLIKLDELDLSGNHLSAIRPGSFQGLMHLQKLWMIQSQIQVIER--NAFDNLQSLVEINLAH-NNLTLLPHDLFTPLHH  280 (440)
T ss_dssp             TTCSSCCEEECTTSCCCEECTTTTTTCTTCCEEECTTCCCCEECT--TSSTTCTTCCEEECTT-SCCCCCCTTTTSSCTT
T ss_pred             CCCcccCEEECCCCccCccChhhhccCccCCEEECCCCceeEECh--hhhcCCCCCCEEECCC-CCCCccChhHhccccC
Confidence                     00  01111223445566677777776666544321  2233446777777777 4566777666777778


Q ss_pred             cceeeecCCC
Q 038398          703 LNKLYVAGCK  712 (720)
Q Consensus       703 L~~L~l~~c~  712 (720)
                      |+.|+|++|+
T Consensus       281 L~~L~L~~Np  290 (440)
T 3zyj_A          281 LERIHLHHNP  290 (440)
T ss_dssp             CCEEECCSSC
T ss_pred             CCEEEcCCCC
Confidence            8888887776

>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=99.72  E-value=3.1e-17  Score=168.96  Aligned_cols=194  Identities=20%  Similarity=0.274  Sum_probs=159.1

Q ss_pred             cccccccceeEEEecccccccCCCCCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCccCCccccCCCCCC
Q 038398          488 PEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVSLE  567 (720)
Q Consensus       488 ~~~~~~~~l~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~  567 (720)
                      .....++++++|++.+|.+..++.+..+++|++|++++|.+..+++  +..+++|++|+|++|.+ ..+| .+..+++|+
T Consensus        35 ~~~~~l~~L~~L~l~~~~i~~l~~~~~l~~L~~L~L~~n~i~~~~~--~~~l~~L~~L~L~~n~l-~~~~-~~~~l~~L~  110 (308)
T 1h6u_A           35 VTQADLDGITTLSAFGTGVTTIEGVQYLNNLIGLELKDNQITDLAP--LKNLTKITELELSGNPL-KNVS-AIAGLQSIK  110 (308)
T ss_dssp             ECHHHHHTCCEEECTTSCCCCCTTGGGCTTCCEEECCSSCCCCCGG--GTTCCSCCEEECCSCCC-SCCG-GGTTCTTCC
T ss_pred             ecHHHcCCcCEEEeeCCCccCchhhhccCCCCEEEccCCcCCCChh--HccCCCCCEEEccCCcC-CCch-hhcCCCCCC
Confidence            3456678999999999999888888889999999999999988877  88999999999999964 4555 688999999


Q ss_pred             EEeccCCCCcccchhhhcCCCCCEEeccCCcCCCCCchhhhhccccCceeeccccCCCcccchhcccccCCccccHHHhc
Q 038398          568 HLDLSSTAITHLPIELQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKINVLFGGHQFLVEELM  647 (720)
Q Consensus       568 ~L~L~~~~i~~lp~~i~~l~~L~~L~l~~~~~l~~lp~~~~~~l~~L~~L~~~~~~~~~l~~l~~~~~~~~~~~~~~~l~  647 (720)
                      +|++++|.++.+|. +..+++|++|++++| .+..++.  ++.+++|+.|++.++   .+..++             .+.
T Consensus       111 ~L~l~~n~l~~~~~-l~~l~~L~~L~l~~n-~l~~~~~--l~~l~~L~~L~l~~n---~l~~~~-------------~l~  170 (308)
T 1h6u_A          111 TLDLTSTQITDVTP-LAGLSNLQVLYLDLN-QITNISP--LAGLTNLQYLSIGNA---QVSDLT-------------PLA  170 (308)
T ss_dssp             EEECTTSCCCCCGG-GTTCTTCCEEECCSS-CCCCCGG--GGGCTTCCEEECCSS---CCCCCG-------------GGT
T ss_pred             EEECCCCCCCCchh-hcCCCCCCEEECCCC-ccCcCcc--ccCCCCccEEEccCC---cCCCCh-------------hhc
Confidence            99999999999875 899999999999984 6777876  788888888888764   332211             167


Q ss_pred             CCCCCceeEEEecchhhHHHHhhhhhhhhhccccccccccCCCccccccccccCCcceeeecCCC
Q 038398          648 GMKHLMVLTITLKSWQALKELLISQELQRSTQSLFLRCFNDSKSLDIFCLAGLRNLNKLYVAGCK  712 (720)
Q Consensus       648 ~l~~L~~L~~~~~~~~~l~~l~~~~~~~~~L~~L~l~~~~~l~~l~~~~l~~l~~L~~L~l~~c~  712 (720)
                      .+++|+.|.++.|.+..+..    ...+++|+.|++++ +.+..++  .+..+++|+.|++++|+
T Consensus       171 ~l~~L~~L~l~~n~l~~~~~----l~~l~~L~~L~L~~-N~l~~~~--~l~~l~~L~~L~l~~N~  228 (308)
T 1h6u_A          171 NLSKLTTLKADDNKISDISP----LASLPNLIEVHLKN-NQISDVS--PLANTSNLFIVTLTNQT  228 (308)
T ss_dssp             TCTTCCEEECCSSCCCCCGG----GGGCTTCCEEECTT-SCCCBCG--GGTTCTTCCEEEEEEEE
T ss_pred             CCCCCCEEECCCCccCcChh----hcCCCCCCEEEccC-CccCccc--cccCCCCCCEEEccCCe
Confidence            78999999999888876543    34556899999998 4566666  58889999999999887

>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=99.72  E-value=6.4e-17  Score=164.04  Aligned_cols=218  Identities=21%  Similarity=0.214  Sum_probs=167.0

Q ss_pred             EEEcCCCCccCcccccccceeEEEecccccccCC--CCCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCc
Q 038398          477 LVHAGLGLTEAPEIQNWRNVRRMSLMKNKIENLS--ETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLW  554 (720)
Q Consensus       477 ~~~~~~~~~~~~~~~~~~~l~~L~l~~~~~~~~~--~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~  554 (720)
                      +...+.....+|.. -.+++++|++++|.+..++  .+..+++|++|++++|.+..+++..|.++++|++|+|++|.+.+
T Consensus        12 ~~c~~~~l~~ip~~-l~~~l~~L~ls~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~   90 (276)
T 2z62_A           12 YQCMELNFYKIPDN-LPFSTKNLDLSFNPLRHLGSYSFFSFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNPIQS   90 (276)
T ss_dssp             EECTTSCCSSCCSS-SCTTCCEEECTTCCCCEECTTTTTTCTTCSEEECTTCCCCEECTTTTTTCTTCCEEECTTCCCCE
T ss_pred             EEecCCCccccCCC-CCCCccEEECCCCcccccCHhHhccccCCcEEECCCCcCCccCHHHccCCcCCCEEECCCCccCc
Confidence            33444445555542 2357999999999998876  35789999999999999999988779999999999999997776


Q ss_pred             cCCccccCCCCCCEEeccCCCCcccch-hhhcCCCCCEEeccCCcCCCC--CchhhhhccccCceeeccccCCCcccchh
Q 038398          555 KLPSGISTLVSLEHLDLSSTAITHLPI-ELQKLVNLKCLNLEYMNNLNQ--FPRLVISAFSKLQVLRMFDCGGSKIERLK  631 (720)
Q Consensus       555 ~lp~~i~~l~~L~~L~L~~~~i~~lp~-~i~~l~~L~~L~l~~~~~l~~--lp~~~~~~l~~L~~L~~~~~~~~~l~~l~  631 (720)
                      ..|..+.++++|++|++++|.++.++. .+.++++|++|++++| .+..  +|.. ++.+++|++|++.++   .+..++
T Consensus        91 ~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n-~l~~~~l~~~-~~~l~~L~~L~Ls~N---~l~~~~  165 (276)
T 2z62_A           91 LALGAFSGLSSLQKLVAVETNLASLENFPIGHLKTLKELNVAHN-LIQSFKLPEY-FSNLTNLEHLDLSSN---KIQSIY  165 (276)
T ss_dssp             ECTTTTTTCTTCCEEECTTSCCCCSTTCCCTTCTTCCEEECCSS-CCCCCCCCGG-GGGCTTCCEEECCSS---CCCEEC
T ss_pred             cChhhhcCCccccEEECCCCCccccCchhcccCCCCCEEECcCC-ccceecCchh-hccCCCCCEEECCCC---CCCcCC
Confidence            677889999999999999999998876 5899999999999994 5555  5654 788899998887764   444332


Q ss_pred             cccccCCccccHHHhcCCCCCc-eeEEEecchhhHHHHhhhhhhhhhccccccccccCCCccccccccccCCcceeeecC
Q 038398          632 INVLFGGHQFLVEELMGMKHLM-VLTITLKSWQALKELLISQELQRSTQSLFLRCFNDSKSLDIFCLAGLRNLNKLYVAG  710 (720)
Q Consensus       632 ~~~~~~~~~~~~~~l~~l~~L~-~L~~~~~~~~~l~~l~~~~~~~~~L~~L~l~~~~~l~~l~~~~l~~l~~L~~L~l~~  710 (720)
                      .        ..+..+..++.|. .|.++.|.+..+..  .... ..+|+.|++++ +.++.++...+.++++|+.|+|++
T Consensus       166 ~--------~~~~~l~~L~~l~l~L~ls~n~l~~~~~--~~~~-~~~L~~L~L~~-n~l~~~~~~~~~~l~~L~~L~l~~  233 (276)
T 2z62_A          166 C--------TDLRVLHQMPLLNLSLDLSLNPMNFIQP--GAFK-EIRLKELALDT-NQLKSVPDGIFDRLTSLQKIWLHT  233 (276)
T ss_dssp             G--------GGGHHHHTCTTCCEEEECCSSCCCEECT--TSSC-SCCEEEEECCS-SCCSCCCTTTTTTCCSCCEEECCS
T ss_pred             H--------HHhhhhhhccccceeeecCCCcccccCc--cccC-CCcccEEECCC-CceeecCHhHhcccccccEEEccC
Confidence            2        1233455555555 78888777765432  1112 23899999998 558888867789999999999997


Q ss_pred             CC
Q 038398          711 CK  712 (720)
Q Consensus       711 c~  712 (720)
                      |+
T Consensus       234 N~  235 (276)
T 2z62_A          234 NP  235 (276)
T ss_dssp             SC
T ss_pred             Cc
Confidence            65

>2qen_A Walker-type ATPase; unknown function; HET: ADP; 2.25A {Pyrococcus abyssi}

Probab=99.71  E-value=5.1e-16  Score=163.25  Aligned_cols=292  Identities=16%  Similarity=0.110  Sum_probs=177.6

Q ss_pred             CCCcCchHHHHHHHHHhcCCCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcC------CHHHHHHHH
Q 038398          126 EPTVGLESTFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDL------QLEKIQEKI  199 (720)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~------~~~~~~~~i  199 (720)
                      +.||||+++++++.+++..+  +++.|+|++|+|||||++++++..   .     .+|+++....      +...+.+.+
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            57899999999999998654  799999999999999999999875   1     6788765442      556666666


Q ss_pred             HHHhCCC--------------CC--ccCCCChhHHHHHHHHHhcc-CcEEEEEeccccccc---------cccccccCCC
Q 038398          200 GRRIGFF--------------DE--SWKNGSLEDKTSDILRILGK-KKFLLLLDDIWERVD---------LTKVGIPFPD  253 (720)
Q Consensus       200 ~~~l~~~--------------~~--~~~~~~~~~~~~~l~~~l~~-k~~LlVlDdv~~~~~---------~~~l~~~~~~  253 (720)
                      ...+...              ..  .....+..+....+.+.... ++++|||||++....         +..+.... .
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              00  00113445555556555543 499999999976432         11111111 1


Q ss_pred             CCCCcEEEEEcCChhHhhhh------------ccCceeeccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCC
Q 038398          254 PENKSKIVFTTHFLEICGAL------------KAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAG  321 (720)
Q Consensus       254 ~~~gs~iiiTtR~~~v~~~~------------~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~G  321 (720)
                      ...+.++|+|++.......+            .....+++.+|+.+|+.+++...+......   .-.+.+..|++.|+|
T Consensus       161 ~~~~~~~il~g~~~~~l~~~l~~~~~~~~l~~~~~~~i~l~pl~~~e~~~~l~~~~~~~~~~---~~~~~~~~i~~~tgG  237 (350)
T 2qen_A          161 SLPNLKIILTGSEVGLLHDFLKITDYESPLYGRIAGEVLVKPFDKDTSVEFLKRGFREVNLD---VPENEIEEAVELLDG  237 (350)
T ss_dssp             HCTTEEEEEEESSHHHHHHHHCTTCTTSTTTTCCCEEEECCCCCHHHHHHHHHHHHHTTTCC---CCHHHHHHHHHHHTT
T ss_pred             hcCCeEEEEECCcHHHHHHHHhhcCCCCccccCccceeeCCCCCHHHHHHHHHHHHHHcCCC---CCHHHHHHHHHHhCC
Confidence            12467899998876532211            112478999999999999998765322211   125678899999999


Q ss_pred             cchHHHHHHHHHhcCCChhHHHH-HHHHHhcccCCCCCCCccchhhH-HhhcCCCCCcchhHHHHhhcCCCCCcccChHH
Q 038398          322 LPLALITIGRAMACKKTPQEWHY-AIQVLRRSASEFPGMGKEVYPLL-KFSYDSLPDDTIRSYLLYCGLFPEDYRIRKSE  399 (720)
Q Consensus       322 lPLai~~~~~~l~~~~~~~~w~~-~l~~l~~~~~~~~~~~~~~~~~l-~~sy~~L~~~~~k~~fl~~~~fp~~~~i~~~~  399 (720)
                      +|+++..++..+....+...+.. ..+....          .+...+ .+.+ + ++ ..+..+..+|.   + ..+...
T Consensus       238 ~P~~l~~~~~~~~~~~~~~~~~~~~~~~~~~----------~~~~~l~~l~~-~-~~-~~~~~l~~la~---g-~~~~~~  300 (350)
T 2qen_A          238 IPGWLVVFGVEYLRNGDFGRAMKRTLEVAKG----------LIMGELEELRR-R-SP-RYVDILRAIAL---G-YNRWSL  300 (350)
T ss_dssp             CHHHHHHHHHHHHHHCCHHHHHHHHHHHHHH----------HHHHHHHHHHH-H-CH-HHHHHHHHHHT---T-CCSHHH
T ss_pred             CHHHHHHHHHHHhccccHhHHHHHHHHHHHH----------HHHHHHHHHHh-C-Ch-hHHHHHHHHHh---C-CCCHHH
Confidence            99999999876432222222211 1111100          011111 1111 1 55 68888888887   2 234444


Q ss_pred             HHHHHHhhCCCCcccchhhHHhHHHHHHHHHHhccccccCCCCCcccCCceEEEehHHHHHHHH
Q 038398          400 LIDCWIGEGFLDQYDRSGAYNEGYYIIGILLHACLLEEEGGDIGEEESGEHVVKMHDVIRDMVL  463 (720)
Q Consensus       400 li~~Wiaeg~~~~~~~~~~~~~~~~~~~~L~~~sll~~~~~~~~~~~~~~~~~~mHdlv~~~a~  463 (720)
                      +.....+. .- .    ........+++.|.+.+++...+         ..+..-|++++++.+
T Consensus       301 l~~~~~~~-~~-~----~~~~~~~~~l~~L~~~gli~~~~---------~~y~~~~p~~~~~~~  349 (350)
T 2qen_A          301 IRDYLAVK-GT-K----IPEPRLYALLENLKKMNWIVEED---------NTYKIADPVVATVLR  349 (350)
T ss_dssp             HHHHHHHT-TC-C----CCHHHHHHHHHHHHHTTSEEEET---------TEEEESSHHHHHHHT
T ss_pred             HHHHHHHH-hC-C----CCHHHHHHHHHHHHhCCCEEecC---------CEEEEecHHHHHHHc
Confidence            44432111 10 0    11245678899999999998753         333445888887653

>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=99.70  E-value=5.1e-17  Score=165.60  Aligned_cols=202  Identities=21%  Similarity=0.210  Sum_probs=157.2

Q ss_pred             cccccceeEEEecccccccCCCCCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCccCCccccCCCCCCEE
Q 038398          490 IQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVSLEHL  569 (720)
Q Consensus       490 ~~~~~~l~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L  569 (720)
                      +..+++++.+++.++.+..+|... .++++.|++++|.++.+++..|.++++|++|+|++|.+. .+|.. +.+++|++|
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-PKDTTILHLSENLLYTFSLATLMPYTRLTQLNLDRAELT-KLQVD-GTLPVLGTL   82 (290)
T ss_dssp             EECSTTCCEEECTTSCCSSCCSCC-CTTCCEEECTTSCCSEEEGGGGTTCTTCCEEECTTSCCC-EEECC-SCCTTCCEE
T ss_pred             ccccCCccEEECCCCCCCcCCCCC-CCCCCEEEcCCCcCCccCHHHhhcCCCCCEEECCCCccC-cccCC-CCCCcCCEE
Confidence            456678899999999988887532 368999999999998888878899999999999999554 45543 788999999


Q ss_pred             eccCCCCcccchhhhcCCCCCEEeccCCcCCCCCchhhhhccccCceeeccccCCCcccchhcccccCCccccHHHhcCC
Q 038398          570 DLSSTAITHLPIELQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKINVLFGGHQFLVEELMGM  649 (720)
Q Consensus       570 ~L~~~~i~~lp~~i~~l~~L~~L~l~~~~~l~~lp~~~~~~l~~L~~L~~~~~~~~~l~~l~~~~~~~~~~~~~~~l~~l  649 (720)
                      ++++|.++.+|..+..+++|++|++++ +.+..+|...+..+++|+.|++.+   |.+..++.           ..+..+
T Consensus        83 ~Ls~N~l~~l~~~~~~l~~L~~L~l~~-N~l~~l~~~~~~~l~~L~~L~L~~---N~l~~~~~-----------~~~~~l  147 (290)
T 1p9a_G           83 DLSHNQLQSLPLLGQTLPALTVLDVSF-NRLTSLPLGALRGLGELQELYLKG---NELKTLPP-----------GLLTPT  147 (290)
T ss_dssp             ECCSSCCSSCCCCTTTCTTCCEEECCS-SCCCCCCSSTTTTCTTCCEEECTT---SCCCCCCT-----------TTTTTC
T ss_pred             ECCCCcCCcCchhhccCCCCCEEECCC-CcCcccCHHHHcCCCCCCEEECCC---CCCCccCh-----------hhcccc
Confidence            999999999998888999999999998 577888866678888888887765   44443332           224567


Q ss_pred             CCCceeEEEecchhhHHHHhhhhhhhhhccccccccccCCCccccccccccCCcceeeecCCCC
Q 038398          650 KHLMVLTITLKSWQALKELLISQELQRSTQSLFLRCFNDSKSLDIFCLAGLRNLNKLYVAGCKH  713 (720)
Q Consensus       650 ~~L~~L~~~~~~~~~l~~l~~~~~~~~~L~~L~l~~~~~l~~l~~~~l~~l~~L~~L~l~~c~~  713 (720)
                      ++|+.|.++.|.+..++.  ..+..+++|+.|++++ +.++.+| ..+..+++|+.|+|++|+-
T Consensus       148 ~~L~~L~L~~N~l~~l~~--~~~~~l~~L~~L~L~~-N~l~~ip-~~~~~~~~L~~l~L~~Np~  207 (290)
T 1p9a_G          148 PKLEKLSLANNNLTELPA--GLLNGLENLDTLLLQE-NSLYTIP-KGFFGSHLLPFAFLHGNPW  207 (290)
T ss_dssp             TTCCEEECTTSCCSCCCT--TTTTTCTTCCEEECCS-SCCCCCC-TTTTTTCCCSEEECCSCCB
T ss_pred             cCCCEEECCCCcCCccCH--HHhcCcCCCCEEECCC-CcCCccC-hhhcccccCCeEEeCCCCc
Confidence            889999998887765432  2234557899999997 6677887 4566677899999998873

>2o6q_A Variable lymphocyte receptor A; leucine-rich repeat protein, LRR, immune system; 2.50A {Eptatretus burgeri}

Probab=99.69  E-value=1.3e-16  Score=161.17  Aligned_cols=198  Identities=21%  Similarity=0.231  Sum_probs=93.3

Q ss_pred             eeEEEecccccccCCCCCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCccCCccccCCCCCCEEeccCCC
Q 038398          496 VRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSSTA  575 (720)
Q Consensus       496 l~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~~~  575 (720)
                      .+.++++++.+..+|... .++|+.|++++|.++.+++..|.++++|++|+|++|.+....+..+..+++|++|++++|.
T Consensus        18 ~~~l~~~~~~l~~ip~~~-~~~l~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~i~~~~~~~l~~L~~L~l~~n~   96 (270)
T 2o6q_A           18 KNSVDCSSKKLTAIPSNI-PADTKKLDLQSNKLSSLPSKAFHRLTKLRLLYLNDNKLQTLPAGIFKELKNLETLWVTDNK   96 (270)
T ss_dssp             TTEEECTTSCCSSCCSCC-CTTCSEEECCSSCCSCCCTTSSSSCTTCCEEECCSSCCSCCCTTTTSSCTTCCEEECCSSC
T ss_pred             CCEEEccCCCCCccCCCC-CCCCCEEECcCCCCCeeCHHHhcCCCCCCEEECCCCccCeeChhhhcCCCCCCEEECCCCc
Confidence            344555555555444321 1345555555555555554445555555555555553332222223455555555555555


Q ss_pred             Ccccchh-hhcCCCCCEEeccCCcCCCCCchhhhhccccCceeeccccCCCcccchhcccccCCccccHHHhcCCCCCce
Q 038398          576 ITHLPIE-LQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKINVLFGGHQFLVEELMGMKHLMV  654 (720)
Q Consensus       576 i~~lp~~-i~~l~~L~~L~l~~~~~l~~lp~~~~~~l~~L~~L~~~~~~~~~l~~l~~~~~~~~~~~~~~~l~~l~~L~~  654 (720)
                      ++.+|.. +.++++|++|++++ +.+..+|...++.+++|++|++.++   .+..++.           ..+..+++|+.
T Consensus        97 l~~~~~~~~~~l~~L~~L~l~~-n~l~~~~~~~~~~l~~L~~L~Ls~n---~l~~~~~-----------~~~~~l~~L~~  161 (270)
T 2o6q_A           97 LQALPIGVFDQLVNLAELRLDR-NQLKSLPPRVFDSLTKLTYLSLGYN---ELQSLPK-----------GVFDKLTSLKE  161 (270)
T ss_dssp             CCCCCTTTTTTCSSCCEEECCS-SCCCCCCTTTTTTCTTCCEEECCSS---CCCCCCT-----------TTTTTCTTCCE
T ss_pred             CCcCCHhHcccccCCCEEECCC-CccCeeCHHHhCcCcCCCEEECCCC---cCCccCH-----------hHccCCcccce
Confidence            5555432 34555555555555 3344444433444555555544432   2221111           11334455555


Q ss_pred             eEEEecchhhHHHHhhhhhhhhhccccccccccCCCccccccccccCCcceeeecCCC
Q 038398          655 LTITLKSWQALKELLISQELQRSTQSLFLRCFNDSKSLDIFCLAGLRNLNKLYVAGCK  712 (720)
Q Consensus       655 L~~~~~~~~~l~~l~~~~~~~~~L~~L~l~~~~~l~~l~~~~l~~l~~L~~L~l~~c~  712 (720)
                      |.++.|.+..+..  ..+..+++|+.|++++ +.++.++...+..+++|+.|+|++|+
T Consensus       162 L~L~~n~l~~~~~--~~~~~l~~L~~L~L~~-N~l~~~~~~~~~~l~~L~~L~l~~N~  216 (270)
T 2o6q_A          162 LRLYNNQLKRVPE--GAFDKLTELKTLKLDN-NQLKRVPEGAFDSLEKLKMLQLQENP  216 (270)
T ss_dssp             EECCSSCCSCCCT--TTTTTCTTCCEEECCS-SCCSCCCTTTTTTCTTCCEEECCSSC
T ss_pred             eEecCCcCcEeCh--hHhccCCCcCEEECCC-CcCCcCCHHHhccccCCCEEEecCCC
Confidence            5555544433211  1122334566666665 34555554455666666666666655

>3o6n_A APL1; leucine-rich repeat, protein binding; HET: NAG; 1.85A {Anopheles gambiae}

Probab=99.69  E-value=8.1e-17  Score=172.08  Aligned_cols=125  Identities=22%  Similarity=0.357  Sum_probs=82.1

Q ss_pred             cccccceeEEEecccccccCCC--CCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCccCCcc-ccCCCCC
Q 038398          490 IQNWRNVRRMSLMKNKIENLSE--TPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSG-ISTLVSL  566 (720)
Q Consensus       490 ~~~~~~l~~L~l~~~~~~~~~~--~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~-i~~l~~L  566 (720)
                      +..+++|+.|++++|.+..++.  +..+++|++|++++|.++.+++..|.++++|++|+|++|.+. .+|.. ++++++|
T Consensus        65 ~~~l~~L~~L~L~~n~i~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~-~l~~~~~~~l~~L  143 (390)
T 3o6n_A           65 LDSFRQVELLNLNDLQIEEIDTYAFAYAHTIQKLYMGFNAIRYLPPHVFQNVPLLTVLVLERNDLS-SLPRGIFHNTPKL  143 (390)
T ss_dssp             HHHCCCCSEEECTTSCCCEECTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCC-CCCTTTTTTCTTC
T ss_pred             hcccccCcEEECCCCcccccChhhccCCCCcCEEECCCCCCCcCCHHHhcCCCCCCEEECCCCccC-cCCHHHhcCCCCC
Confidence            4566777777777777766543  466777777777777777777666777777777777777443 55544 4677777


Q ss_pred             CEEeccCCCCcccch-hhhcCCCCCEEeccCCcCCCCCchhhhhccccCceeec
Q 038398          567 EHLDLSSTAITHLPI-ELQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRM  619 (720)
Q Consensus       567 ~~L~L~~~~i~~lp~-~i~~l~~L~~L~l~~~~~l~~lp~~~~~~l~~L~~L~~  619 (720)
                      ++|++++|.++.+|. .+.++++|++|++++| .+..++   ++.+++|+.|++
T Consensus       144 ~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~n-~l~~~~---~~~l~~L~~L~l  193 (390)
T 3o6n_A          144 TTLSMSNNNLERIEDDTFQATTSLQNLQLSSN-RLTHVD---LSLIPSLFHANV  193 (390)
T ss_dssp             CEEECCSSCCCBCCTTTTSSCTTCCEEECCSS-CCSBCC---GGGCTTCSEEEC
T ss_pred             cEEECCCCccCccChhhccCCCCCCEEECCCC-cCCccc---cccccccceeec
Confidence            777777777776643 4777777777777773 444443   334444444433

>1ogq_A PGIP-2, polygalacturonase inhibiting protein; inhibitor; HET: NAG; 1.7A {Phaseolus vulgaris} SCOP: c.10.2.8

Probab=99.69  E-value=2.5e-17  Score=170.15  Aligned_cols=133  Identities=15%  Similarity=0.273  Sum_probs=89.6

Q ss_pred             CcccccccceeEEEecc-ccccc-CC-CCCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCccCCccccCC
Q 038398          487 APEIQNWRNVRRMSLMK-NKIEN-LS-ETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTL  563 (720)
Q Consensus       487 ~~~~~~~~~l~~L~l~~-~~~~~-~~-~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l  563 (720)
                      ++.+..+++|++|++++ |.+.. +| .+..+++|++|++++|.+....+..|.++++|++|+|++|.+.+.+|..++.+
T Consensus        69 ~~~l~~l~~L~~L~L~~~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~~~p~~~~~l~~L~~L~Ls~N~l~~~~p~~~~~l  148 (313)
T 1ogq_A           69 PSSLANLPYLNFLYIGGINNLVGPIPPAIAKLTQLHYLYITHTNVSGAIPDFLSQIKTLVTLDFSYNALSGTLPPSISSL  148 (313)
T ss_dssp             CGGGGGCTTCSEEEEEEETTEESCCCGGGGGCTTCSEEEEEEECCEEECCGGGGGCTTCCEEECCSSEEESCCCGGGGGC
T ss_pred             ChhHhCCCCCCeeeCCCCCcccccCChhHhcCCCCCEEECcCCeeCCcCCHHHhCCCCCCEEeCCCCccCCcCChHHhcC
Confidence            34566777788888874 66542 33 24667778888888777765545557777788888888776666777777777


Q ss_pred             CCCCEEeccCCCCc-ccchhhhcCC-CCCEEeccCCcCCCCCchhhhhccccCceeeccc
Q 038398          564 VSLEHLDLSSTAIT-HLPIELQKLV-NLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFD  621 (720)
Q Consensus       564 ~~L~~L~L~~~~i~-~lp~~i~~l~-~L~~L~l~~~~~l~~lp~~~~~~l~~L~~L~~~~  621 (720)
                      ++|++|++++|.++ .+|..+..++ +|++|++++|.....+|.. ++.++ |+.|++.+
T Consensus       149 ~~L~~L~L~~N~l~~~~p~~l~~l~~~L~~L~L~~N~l~~~~~~~-~~~l~-L~~L~Ls~  206 (313)
T 1ogq_A          149 PNLVGITFDGNRISGAIPDSYGSFSKLFTSMTISRNRLTGKIPPT-FANLN-LAFVDLSR  206 (313)
T ss_dssp             TTCCEEECCSSCCEEECCGGGGCCCTTCCEEECCSSEEEEECCGG-GGGCC-CSEEECCS
T ss_pred             CCCCeEECcCCcccCcCCHHHhhhhhcCcEEECcCCeeeccCChH-HhCCc-ccEEECcC
Confidence            88888888877777 6777777776 7788887774322244543 55554 55555543

>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=99.69  E-value=6.8e-17  Score=166.55  Aligned_cols=227  Identities=21%  Similarity=0.201  Sum_probs=144.1

Q ss_pred             EEEcCCCCccCcccccccceeEEEecccccccCCC--CCCCCcccEEEccCCCCcCcc--hHHhccCCcccEEEccCCCC
Q 038398          477 LVHAGLGLTEAPEIQNWRNVRRMSLMKNKIENLSE--TPTCPHLLSLFLSDNSLKMST--DDFFQSMPSLRVFNMSNNHL  552 (720)
Q Consensus       477 ~~~~~~~~~~~~~~~~~~~l~~L~l~~~~~~~~~~--~~~~~~L~~L~l~~~~~~~~~--~~~~~~l~~L~~L~L~~~~~  552 (720)
                      +...+.+...+|. .-.+++++|++++|.+..++.  +..+++|++|++++|.+....  +..+..+++|++|+|++|. 
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-GIPSSATRLELESNKLQSLPHGVFDKLTQLTKLSLSSNGLSFKGCCSQSDFGTTSLKYLDLSFNG-   89 (306)
T ss_dssp             EECCSSCCSSCCS-CCCTTCCEEECCSSCCCCCCTTTTTTCTTCSEEECCSSCCCEEEEEEHHHHSCSCCCEEECCSCS-
T ss_pred             EEcCCCCcccCCC-CCCCCCCEEECCCCccCccCHhHhhccccCCEEECCCCccCcccCcccccccccccCEEECCCCc-
Confidence            3444445555554 234689999999999988876  478899999999999887552  3346678999999999994 


Q ss_pred             CccCCccccCCCCCCEEeccCCCCcccch--hhhcCCCCCEEeccCCcCCCCCchhhhhccccCceeeccccCCCcccc-
Q 038398          553 LWKLPSGISTLVSLEHLDLSSTAITHLPI--ELQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFDCGGSKIER-  629 (720)
Q Consensus       553 ~~~lp~~i~~l~~L~~L~L~~~~i~~lp~--~i~~l~~L~~L~l~~~~~l~~lp~~~~~~l~~L~~L~~~~~~~~~l~~-  629 (720)
                      +..+|..+..+++|++|++++|.++.+|.  .+..+++|++|++++| .+..++...++.+++|+.|++.++   .+.. 
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 VITMSSNFLGLEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDISHT-HTRVAFNGIFNGLSSLEVLKMAGN---SFQEN  165 (306)
T ss_dssp             EEEEEEEEETCTTCCEEECTTSEEESSTTTTTTTTCTTCCEEECTTS-CCEECSTTTTTTCTTCCEEECTTC---EEGGG
T ss_pred             cccChhhcCCCCCCCEEECCCCcccccccchhhhhccCCCEEECCCC-cCCccchhhcccCcCCCEEECCCC---ccccc
Confidence            45788889999999999999999988874  6888999999999985 444444445777888888877654   3321 


Q ss_pred             -hhcc----------ccc--CCccccHHHhcCCCCCceeEEEecchhhHHHHhhhhhhhhhccccccccccCCCcccccc
Q 038398          630 -LKIN----------VLF--GGHQFLVEELMGMKHLMVLTITLKSWQALKELLISQELQRSTQSLFLRCFNDSKSLDIFC  696 (720)
Q Consensus       630 -l~~~----------~~~--~~~~~~~~~l~~l~~L~~L~~~~~~~~~l~~l~~~~~~~~~L~~L~l~~~~~l~~l~~~~  696 (720)
                       ++..          ...  ......+..+..+++|+.|.+++|.+..+...  ....+++|+.|+++++ .+...+...
T Consensus       166 ~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~--~~~~l~~L~~L~L~~N-~l~~~~~~~  242 (306)
T 2z66_A          166 FLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMSHNNFFSLDTF--PYKCLNSLQVLDYSLN-HIMTSKKQE  242 (306)
T ss_dssp             EECSCCTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECTTSCCSBCCSG--GGTTCTTCCEEECTTS-CCCBCSSSS
T ss_pred             cchhHHhhCcCCCEEECCCCCcCCcCHHHhcCCCCCCEEECCCCccCccChh--hccCcccCCEeECCCC-CCcccCHHH
Confidence             1100          000  01111123344555555555555554432211  1223345566666553 333333344


Q ss_pred             ccccC-CcceeeecCCC
Q 038398          697 LAGLR-NLNKLYVAGCK  712 (720)
Q Consensus       697 l~~l~-~L~~L~l~~c~  712 (720)
                      +..++ +|+.|+|++|+
T Consensus       243 ~~~~~~~L~~L~L~~N~  259 (306)
T 2z66_A          243 LQHFPSSLAFLNLTQND  259 (306)
T ss_dssp             CCCCCTTCCEEECTTCC
T ss_pred             HHhhhccCCEEEccCCC
Confidence            55553 56666666554

>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=99.68  E-value=8.5e-16  Score=161.36  Aligned_cols=219  Identities=15%  Similarity=0.260  Sum_probs=104.3

Q ss_pred             CCCCccCcccccccceeEEEecccccccCCCCCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCccCCc--
Q 038398          481 GLGLTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPS--  558 (720)
Q Consensus       481 ~~~~~~~~~~~~~~~l~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~--  558 (720)
                      +.....++.+..+++|++|++++|.+..++.+..+++|++|++++|.++.++.  +.++++|++|++++|.+. .+|.  
T Consensus        53 ~~~i~~~~~~~~~~~L~~L~l~~n~i~~~~~~~~l~~L~~L~L~~n~i~~~~~--~~~l~~L~~L~l~~n~i~-~~~~~~  129 (347)
T 4fmz_A           53 GEKVASIQGIEYLTNLEYLNLNGNQITDISPLSNLVKLTNLYIGTNKITDISA--LQNLTNLRELYLNEDNIS-DISPLA  129 (347)
T ss_dssp             SSCCCCCTTGGGCTTCCEEECCSSCCCCCGGGTTCTTCCEEECCSSCCCCCGG--GTTCTTCSEEECTTSCCC-CCGGGT
T ss_pred             CCccccchhhhhcCCccEEEccCCccccchhhhcCCcCCEEEccCCcccCchH--HcCCCcCCEEECcCCccc-Cchhhc
Confidence            33334444455555555555555555555444555555555555555544431  455555555555555322 2222  


Q ss_pred             --------------------cccCCCCCCEEeccCCCCcccchhhhcCCCCCEEeccCCcCCCCCchhhhhccccCceee
Q 038398          559 --------------------GISTLVSLEHLDLSSTAITHLPIELQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLR  618 (720)
Q Consensus       559 --------------------~i~~l~~L~~L~L~~~~i~~lp~~i~~l~~L~~L~l~~~~~l~~lp~~~~~~l~~L~~L~  618 (720)
                                          .+..+++|++|++++|.+..++. +..+++|+.|++++| .+..++.  +..+++|+.|.
T Consensus       130 ~l~~L~~L~l~~n~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~-~~~l~~L~~L~l~~n-~l~~~~~--~~~l~~L~~L~  205 (347)
T 4fmz_A          130 NLTKMYSLNLGANHNLSDLSPLSNMTGLNYLTVTESKVKDVTP-IANLTDLYSLSLNYN-QIEDISP--LASLTSLHYFT  205 (347)
T ss_dssp             TCTTCCEEECTTCTTCCCCGGGTTCTTCCEEECCSSCCCCCGG-GGGCTTCSEEECTTS-CCCCCGG--GGGCTTCCEEE
T ss_pred             cCCceeEEECCCCCCcccccchhhCCCCcEEEecCCCcCCchh-hccCCCCCEEEccCC-ccccccc--ccCCCccceee
Confidence                                24444444555554444444443 444555555555542 3344443  34444444444


Q ss_pred             ccccCCCcccchh------cccccCCccccHHHhcCCCCCceeEEEecchhhHHHHhhhhhhhhhccccccccccCCCcc
Q 038398          619 MFDCGGSKIERLK------INVLFGGHQFLVEELMGMKHLMVLTITLKSWQALKELLISQELQRSTQSLFLRCFNDSKSL  692 (720)
Q Consensus       619 ~~~~~~~~l~~l~------~~~~~~~~~~~~~~l~~l~~L~~L~~~~~~~~~l~~l~~~~~~~~~L~~L~l~~~~~l~~l  692 (720)
                      +.++....+..+.      .-...+..-.....+..+++|+.|.++.|.+..++    ....+++|+.|++++| .+..+
T Consensus       206 l~~n~l~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~l~~L~~L~l~~n~l~~~~----~~~~l~~L~~L~l~~n-~l~~~  280 (347)
T 4fmz_A          206 AYVNQITDITPVANMTRLNSLKIGNNKITDLSPLANLSQLTWLEIGTNQISDIN----AVKDLTKLKMLNVGSN-QISDI  280 (347)
T ss_dssp             CCSSCCCCCGGGGGCTTCCEEECCSSCCCCCGGGTTCTTCCEEECCSSCCCCCG----GGTTCTTCCEEECCSS-CCCCC
T ss_pred             cccCCCCCCchhhcCCcCCEEEccCCccCCCcchhcCCCCCEEECCCCccCCCh----hHhcCCCcCEEEccCC-ccCCC
Confidence            4433221111000      00000000001111556666666666666555432    2334457777777764 45555


Q ss_pred             ccccccccCCcceeeecCCCC
Q 038398          693 DIFCLAGLRNLNKLYVAGCKH  713 (720)
Q Consensus       693 ~~~~l~~l~~L~~L~l~~c~~  713 (720)
                      +  .+..+++|+.|++++|+.
T Consensus       281 ~--~~~~l~~L~~L~L~~n~l  299 (347)
T 4fmz_A          281 S--VLNNLSQLNSLFLNNNQL  299 (347)
T ss_dssp             G--GGGGCTTCSEEECCSSCC
T ss_pred             h--hhcCCCCCCEEECcCCcC
Confidence            4  567777777777777753

>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=99.68  E-value=1.9e-16  Score=174.12  Aligned_cols=220  Identities=20%  Similarity=0.243  Sum_probs=123.9

Q ss_pred             ccccccceeEEEecccccccCC--CCCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCccCCccccCCCCC
Q 038398          489 EIQNWRNVRRMSLMKNKIENLS--ETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVSL  566 (720)
Q Consensus       489 ~~~~~~~l~~L~l~~~~~~~~~--~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L  566 (720)
                      .+..+++|+.|++++|.+..+.  .+.++++|++|++++|.++.+++..|.++++|++|+|++|.+....|..+..+++|
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            3555666666666666665542  23566666777776666666666556666667777776665555556666666666


Q ss_pred             CEEeccCCCCcccc-hhhhcCCCCCEEeccCCcCCCCCchhhhhccccCceeeccccCCCcccc----------------
Q 038398          567 EHLDLSSTAITHLP-IELQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFDCGGSKIER----------------  629 (720)
Q Consensus       567 ~~L~L~~~~i~~lp-~~i~~l~~L~~L~l~~~~~l~~lp~~~~~~l~~L~~L~~~~~~~~~l~~----------------  629 (720)
                      ++|++++|.++.++ ..+.++++|+.|++++| .+..+|...+..+++|+.|++.++....+..                
T Consensus       131 ~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n-~l~~~~~~~l~~l~~L~~L~l~~n~i~~~~~~~~~~l~~L~~L~l~~  209 (477)
T 2id5_A          131 KSLEVGDNDLVYISHRAFSGLNSLEQLTLEKC-NLTSIPTEALSHLHGLIVLRLRHLNINAIRDYSFKRLYRLKVLEISH  209 (477)
T ss_dssp             CEEEECCTTCCEECTTSSTTCTTCCEEEEESC-CCSSCCHHHHTTCTTCCEEEEESCCCCEECTTCSCSCTTCCEEEEEC
T ss_pred             CEEECCCCccceeChhhccCCCCCCEEECCCC-cCcccChhHhcccCCCcEEeCCCCcCcEeChhhcccCcccceeeCCC
Confidence            66666666666553 34666666666666663 4555665555666666666655433221110                


Q ss_pred             ------hhcccc------------cCCccccHHHhcCCCCCceeEEEecchhhHHHHhhhhhhhhhccccccccccCCCc
Q 038398          630 ------LKINVL------------FGGHQFLVEELMGMKHLMVLTITLKSWQALKELLISQELQRSTQSLFLRCFNDSKS  691 (720)
Q Consensus       630 ------l~~~~~------------~~~~~~~~~~l~~l~~L~~L~~~~~~~~~l~~l~~~~~~~~~L~~L~l~~~~~l~~  691 (720)
                            ++...+            ..........+..+++|+.|+++.|.+..+..  .....+++|+.|+|++ +.+..
T Consensus       210 ~~~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~--~~~~~l~~L~~L~L~~-n~l~~  286 (477)
T 2id5_A          210 WPYLDTMTPNCLYGLNLTSLSITHCNLTAVPYLAVRHLVYLRFLNLSYNPISTIEG--SMLHELLRLQEIQLVG-GQLAV  286 (477)
T ss_dssp             CTTCCEECTTTTTTCCCSEEEEESSCCCSCCHHHHTTCTTCCEEECCSSCCCEECT--TSCTTCTTCCEEECCS-SCCSE
T ss_pred             CccccccCcccccCccccEEECcCCcccccCHHHhcCccccCeeECCCCcCCccCh--hhccccccCCEEECCC-Cccce
Confidence                  000000            00111122345555666666666555443221  1223345667777766 44555


Q ss_pred             cccccccccCCcceeeecCCC
Q 038398          692 LDIFCLAGLRNLNKLYVAGCK  712 (720)
Q Consensus       692 l~~~~l~~l~~L~~L~l~~c~  712 (720)
                      ++...|.++++|+.|+|++|.
T Consensus       287 ~~~~~~~~l~~L~~L~L~~N~  307 (477)
T 2id5_A          287 VEPYAFRGLNYLRVLNVSGNQ  307 (477)
T ss_dssp             ECTTTBTTCTTCCEEECCSSC
T ss_pred             ECHHHhcCcccCCEEECCCCc
Confidence            554567777778888887764

>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=99.68  E-value=1.1e-15  Score=160.48  Aligned_cols=223  Identities=17%  Similarity=0.236  Sum_probs=155.5

Q ss_pred             cCCCCccCcccccccceeEEEecccccccCCCCCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCccCCcc
Q 038398          480 AGLGLTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSG  559 (720)
Q Consensus       480 ~~~~~~~~~~~~~~~~l~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~  559 (720)
                      .+.....++.+..+++|++|++++|.+..++.+..+++|++|++++|......+. +..+++|++|++++|... .++. 
T Consensus        96 ~~n~i~~~~~~~~l~~L~~L~l~~n~i~~~~~~~~l~~L~~L~l~~n~~~~~~~~-~~~l~~L~~L~l~~~~~~-~~~~-  172 (347)
T 4fmz_A           96 GTNKITDISALQNLTNLRELYLNEDNISDISPLANLTKMYSLNLGANHNLSDLSP-LSNMTGLNYLTVTESKVK-DVTP-  172 (347)
T ss_dssp             CSSCCCCCGGGTTCTTCSEEECTTSCCCCCGGGTTCTTCCEEECTTCTTCCCCGG-GTTCTTCCEEECCSSCCC-CCGG-
T ss_pred             cCCcccCchHHcCCCcCCEEECcCCcccCchhhccCCceeEEECCCCCCcccccc-hhhCCCCcEEEecCCCcC-Cchh-
Confidence            3334444455556666666666666666555556666666666666633333333 677778888888887543 4443 


Q ss_pred             ccCCCCCCEEeccCCCCcccchhhhcCCCCCEEeccCCcCCCCCchhhhhccccCceeeccccCCCcccchhc------c
Q 038398          560 ISTLVSLEHLDLSSTAITHLPIELQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKI------N  633 (720)
Q Consensus       560 i~~l~~L~~L~L~~~~i~~lp~~i~~l~~L~~L~l~~~~~l~~lp~~~~~~l~~L~~L~~~~~~~~~l~~l~~------~  633 (720)
                      +..+++|++|++++|.++.+|. +..+++|+.|++++| .+..++.  +..+++|+.|++.++....+..+..      -
T Consensus       173 ~~~l~~L~~L~l~~n~l~~~~~-~~~l~~L~~L~l~~n-~l~~~~~--~~~~~~L~~L~l~~n~l~~~~~~~~l~~L~~L  248 (347)
T 4fmz_A          173 IANLTDLYSLSLNYNQIEDISP-LASLTSLHYFTAYVN-QITDITP--VANMTRLNSLKIGNNKITDLSPLANLSQLTWL  248 (347)
T ss_dssp             GGGCTTCSEEECTTSCCCCCGG-GGGCTTCCEEECCSS-CCCCCGG--GGGCTTCCEEECCSSCCCCCGGGTTCTTCCEE
T ss_pred             hccCCCCCEEEccCCccccccc-ccCCCccceeecccC-CCCCCch--hhcCCcCCEEEccCCccCCCcchhcCCCCCEE
Confidence            8899999999999999999986 889999999999994 6677766  7889999999988765443222110      0


Q ss_pred             cccCCccccHHHhcCCCCCceeEEEecchhhHHHHhhhhhhhhhccccccccccCCCccccccccccCCcceeeecCCCC
Q 038398          634 VLFGGHQFLVEELMGMKHLMVLTITLKSWQALKELLISQELQRSTQSLFLRCFNDSKSLDIFCLAGLRNLNKLYVAGCKH  713 (720)
Q Consensus       634 ~~~~~~~~~~~~l~~l~~L~~L~~~~~~~~~l~~l~~~~~~~~~L~~L~l~~~~~l~~l~~~~l~~l~~L~~L~l~~c~~  713 (720)
                      ...+..-.....+..+++|+.|.+++|.+..++    ....+++|+.|++++| .+...+...+.++++|+.|++++|+.
T Consensus       249 ~l~~n~l~~~~~~~~l~~L~~L~l~~n~l~~~~----~~~~l~~L~~L~L~~n-~l~~~~~~~l~~l~~L~~L~L~~n~l  323 (347)
T 4fmz_A          249 EIGTNQISDINAVKDLTKLKMLNVGSNQISDIS----VLNNLSQLNSLFLNNN-QLGNEDMEVIGGLTNLTTLFLSQNHI  323 (347)
T ss_dssp             ECCSSCCCCCGGGTTCTTCCEEECCSSCCCCCG----GGGGCTTCSEEECCSS-CCCGGGHHHHHTCTTCSEEECCSSSC
T ss_pred             ECCCCccCCChhHhcCCCcCEEEccCCccCCCh----hhcCCCCCCEEECcCC-cCCCcChhHhhccccCCEEEccCCcc
Confidence            011111112345788999999999999887653    3445679999999985 46666667899999999999999984


Q ss_pred             C
Q 038398          714 L  714 (720)
Q Consensus       714 l  714 (720)
                      -
T Consensus       324 ~  324 (347)
T 4fmz_A          324 T  324 (347)
T ss_dssp             C
T ss_pred             c
Confidence            3

>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=99.68  E-value=1.9e-16  Score=174.14  Aligned_cols=222  Identities=19%  Similarity=0.228  Sum_probs=156.5

Q ss_pred             cccccccceeEEEecccccccCCC--CCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCccCCccccCCCC
Q 038398          488 PEIQNWRNVRRMSLMKNKIENLSE--TPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVS  565 (720)
Q Consensus       488 ~~~~~~~~l~~L~l~~~~~~~~~~--~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~  565 (720)
                      ..+..+++|++|++++|.+..++.  +..+++|++|++++|.+..+++..|.++++|++|+|++|.+....|..+.++++
T Consensus        74 ~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~  153 (477)
T 2id5_A           74 GAFNNLFNLRTLGLRSNRLKLIPLGVFTGLSNLTKLDISENKIVILLDYMFQDLYNLKSLEVGDNDLVYISHRAFSGLNS  153 (477)
T ss_dssp             TTTTTCTTCCEEECCSSCCCSCCTTSSTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEEECCTTCCEECTTSSTTCTT
T ss_pred             hhhhCCccCCEEECCCCcCCccCcccccCCCCCCEEECCCCccccCChhHccccccCCEEECCCCccceeChhhccCCCC
Confidence            356777888888888888877764  367888888888888887777777888888888888888766666777888888


Q ss_pred             CCEEeccCCCCcccchh-hhcCCCCCEEeccCCcCCCCCchhhhhccccCceeecccc---------------------C
Q 038398          566 LEHLDLSSTAITHLPIE-LQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFDC---------------------G  623 (720)
Q Consensus       566 L~~L~L~~~~i~~lp~~-i~~l~~L~~L~l~~~~~l~~lp~~~~~~l~~L~~L~~~~~---------------------~  623 (720)
                      |++|++++|.++.+|.. +.++++|+.|++++| .+..++...+..+++|+.|++.++                     +
T Consensus       154 L~~L~l~~n~l~~~~~~~l~~l~~L~~L~l~~n-~i~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~L~~L~l~  232 (477)
T 2id5_A          154 LEQLTLEKCNLTSIPTEALSHLHGLIVLRLRHL-NINAIRDYSFKRLYRLKVLEISHWPYLDTMTPNCLYGLNLTSLSIT  232 (477)
T ss_dssp             CCEEEEESCCCSSCCHHHHTTCTTCCEEEEESC-CCCEECTTCSCSCTTCCEEEEECCTTCCEECTTTTTTCCCSEEEEE
T ss_pred             CCEEECCCCcCcccChhHhcccCCCcEEeCCCC-cCcEeChhhcccCcccceeeCCCCccccccCcccccCccccEEECc
Confidence            88888888888877653 677777777777763 444454444555555555555432                     1


Q ss_pred             CCcccchhcccccC-------------CccccHHHhcCCCCCceeEEEecchhhHHHHhhhhhhhhhccccccccccCCC
Q 038398          624 GSKIERLKINVLFG-------------GHQFLVEELMGMKHLMVLTITLKSWQALKELLISQELQRSTQSLFLRCFNDSK  690 (720)
Q Consensus       624 ~~~l~~l~~~~~~~-------------~~~~~~~~l~~l~~L~~L~~~~~~~~~l~~l~~~~~~~~~L~~L~l~~~~~l~  690 (720)
                      .|.+..++...+..             ........+..+++|+.|.++.|.+..+.  +.....+++|+.|+|++ +.++
T Consensus       233 ~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~--~~~~~~l~~L~~L~L~~-N~l~  309 (477)
T 2id5_A          233 HCNLTAVPYLAVRHLVYLRFLNLSYNPISTIEGSMLHELLRLQEIQLVGGQLAVVE--PYAFRGLNYLRVLNVSG-NQLT  309 (477)
T ss_dssp             SSCCCSCCHHHHTTCTTCCEEECCSSCCCEECTTSCTTCTTCCEEECCSSCCSEEC--TTTBTTCTTCCEEECCS-SCCS
T ss_pred             CCcccccCHHHhcCccccCeeECCCCcCCccChhhccccccCCEEECCCCccceEC--HHHhcCcccCCEEECCC-CcCc
Confidence            23333333211111             11222334677899999999988876542  23445567999999998 5688


Q ss_pred             ccccccccccCCcceeeecCCCC
Q 038398          691 SLDIFCLAGLRNLNKLYVAGCKH  713 (720)
Q Consensus       691 ~l~~~~l~~l~~L~~L~l~~c~~  713 (720)
                      .++...|..+++|+.|+|++|+-
T Consensus       310 ~~~~~~~~~l~~L~~L~l~~N~l  332 (477)
T 2id5_A          310 TLEESVFHSVGNLETLILDSNPL  332 (477)
T ss_dssp             CCCGGGBSCGGGCCEEECCSSCE
T ss_pred             eeCHhHcCCCcccCEEEccCCCc
Confidence            88877889999999999999873

>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=99.67  E-value=3.8e-15  Score=157.02  Aligned_cols=290  Identities=14%  Similarity=0.116  Sum_probs=169.7

Q ss_pred             CCCcCchHHHHHHHHHhcCCCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCc-----CCHHHHHHHHH
Q 038398          126 EPTVGLESTFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKD-----LQLEKIQEKIG  200 (720)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~-----~~~~~~~~~i~  200 (720)
                      +.+|||+++++.+.+ +..   +++.|+|++|+|||||++.+.+..   ..   ..+|+.+...     .+...+...+.
T Consensus        13 ~~~~gR~~el~~L~~-l~~---~~v~i~G~~G~GKT~L~~~~~~~~---~~---~~~~~~~~~~~~~~~~~~~~~~~~l~   82 (357)
T 2fna_A           13 KDFFDREKEIEKLKG-LRA---PITLVLGLRRTGKSSIIKIGINEL---NL---PYIYLDLRKFEERNYISYKDFLLELQ   82 (357)
T ss_dssp             GGSCCCHHHHHHHHH-TCS---SEEEEEESTTSSHHHHHHHHHHHH---TC---CEEEEEGGGGTTCSCCCHHHHHHHHH
T ss_pred             HHhcChHHHHHHHHH-hcC---CcEEEECCCCCCHHHHHHHHHHhc---CC---CEEEEEchhhccccCCCHHHHHHHHH
Confidence            578999999999999 865   699999999999999999999886   22   2578887643     34444444444


Q ss_pred             HHhC--------------C----CCCc----c-----CCCChhHHHHHHHHHhccCcEEEEEecccccc-----cccccc
Q 038398          201 RRIG--------------F----FDES----W-----KNGSLEDKTSDILRILGKKKFLLLLDDIWERV-----DLTKVG  248 (720)
Q Consensus       201 ~~l~--------------~----~~~~----~-----~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~-----~~~~l~  248 (720)
                      ..+.              .    ..+.    .     ...........+.+... ++++|||||++...     ++..+.
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            3331              0    0000    0     01223333333333222 49999999996532     222221


Q ss_pred             ccCCCCCCCcEEEEEcCChhHhhh----------hc-c-CceeeccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHH
Q 038398          249 IPFPDPENKSKIVFTTHFLEICGA----------LK-A-HEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVA  316 (720)
Q Consensus       249 ~~~~~~~~gs~iiiTtR~~~v~~~----------~~-~-~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~  316 (720)
                      ..+.....+..+|+|++.......          .. . ...+++.+|+.+|+.+++...+.... .....    ...|+
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            111111246789999997653221          11 1 25789999999999999988653221 11112    28899


Q ss_pred             HHhCCcchHHHHHHHHHhcCCChhHHHHH-HHHHhcccCCCCCCCccchhhHH-hhcC--CCCCcchhHHHHhhcCCCCC
Q 038398          317 QECAGLPLALITIGRAMACKKTPQEWHYA-IQVLRRSASEFPGMGKEVYPLLK-FSYD--SLPDDTIRSYLLYCGLFPED  392 (720)
Q Consensus       317 ~~c~GlPLai~~~~~~l~~~~~~~~w~~~-l~~l~~~~~~~~~~~~~~~~~l~-~sy~--~L~~~~~k~~fl~~~~fp~~  392 (720)
                      +.|+|+|+++..++..+....+...|... .+....          .+...+. +.++  .+++ ..+..+..+|.-   
T Consensus       237 ~~t~G~P~~l~~~~~~~~~~~~~~~~~~~~~~~~~~----------~~~~~l~~~~~~~~~l~~-~~~~~l~~la~g---  302 (357)
T 2fna_A          237 EKIGGIPGWLTYFGFIYLDNKNLDFAINQTLEYAKK----------LILKEFENFLHGREIARK-RYLNIMRTLSKC---  302 (357)
T ss_dssp             HHHCSCHHHHHHHHHHHHHHCCHHHHHHHHHHHHHH----------HHHHHHHHHHTTCGGGHH-HHHHHHHHHTTC---
T ss_pred             HHhCCCHHHHHHHHHHHccccchHHHHHHHHHHHHH----------HHHHHHHHHhhccccccH-HHHHHHHHHHcC---
Confidence            99999999999998776533333333211 111000          1111111 1111  5666 788899888882   


Q ss_pred             cccChHHHHHHHH-hhCCCCcccchhhHHhHHHHHHHHHHhccccccCCCCCcccCCceEEEehHHHHHHH
Q 038398          393 YRIRKSELIDCWI-GEGFLDQYDRSGAYNEGYYIIGILLHACLLEEEGGDIGEEESGEHVVKMHDVIRDMV  462 (720)
Q Consensus       393 ~~i~~~~li~~Wi-aeg~~~~~~~~~~~~~~~~~~~~L~~~sll~~~~~~~~~~~~~~~~~~mHdlv~~~a  462 (720)
                      .  +...+....- ..|.      .........+++.|.+.+++...+         ..+..-|++++++.
T Consensus       303 ~--~~~~l~~~~~~~~g~------~~~~~~~~~~L~~L~~~gli~~~~---------~~y~f~~~~~~~~l  356 (357)
T 2fna_A          303 G--KWSDVKRALELEEGI------EISDSEIYNYLTQLTKHSWIIKEG---------EKYCPSEPLISLAF  356 (357)
T ss_dssp             B--CHHHHHHHHHHHHCS------CCCHHHHHHHHHHHHHTTSEEESS---------SCEEESSHHHHHHT
T ss_pred             C--CHHHHHHHHHHhcCC------CCCHHHHHHHHHHHHhCCCEEecC---------CEEEecCHHHHHhh
Confidence            1  3444432110 1121      011245667899999999997653         22333588888753

>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=99.67  E-value=7.5e-16  Score=165.89  Aligned_cols=296  Identities=13%  Similarity=0.080  Sum_probs=179.9

Q ss_pred             CCCcCchHHHHHHHHHh-c----C--CCceEEEE--EcCCCChHHHHHHHHHhhhcCC--CCCcC-EEEEEEecCcCCHH
Q 038398          126 EPTVGLESTFDKVWRCL-G----E--EQVGIIGL--YGMGGVGKTTLLTKINNKLLGA--PNVFD-VVIWVVVSKDLQLE  193 (720)
Q Consensus       126 ~~~vGr~~~~~~l~~~L-~----~--~~~~vi~I--~G~gGiGKTtLa~~v~~~~~~~--~~~f~-~~~wv~v~~~~~~~  193 (720)
                      +.++||+++++++.+++ .    .  ...+.+.|  +|++|+||||||+.+++.....  ...++ .++|+.+....+..
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            67999999999999888 3    1  24456667  9999999999999999876210  00122 46788877777888


Q ss_pred             HHHHHHHHHhCCCCCccCCCChhHHHHHHHHHhc--cCcEEEEEecccccc--------ccccccccC---CCCC--CCc
Q 038398          194 KIQEKIGRRIGFFDESWKNGSLEDKTSDILRILG--KKKFLLLLDDIWERV--------DLTKVGIPF---PDPE--NKS  258 (720)
Q Consensus       194 ~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~--~k~~LlVlDdv~~~~--------~~~~l~~~~---~~~~--~gs  258 (720)
                      .+...++.+++...+. ...+..+....+.+.+.  +++++|||||++...        .+..+...+   +..+  .+.
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 12344556667777665  679999999997632        122221111   1112  344


Q ss_pred             EEEEEcCChhHhhhhc---------cCceeeccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhC------Ccc
Q 038398          259 KIVFTTHFLEICGALK---------AHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECA------GLP  323 (720)
Q Consensus       259 ~iiiTtR~~~v~~~~~---------~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~------GlP  323 (720)
                      .+|+||+...+...+.         ....+.+++++.++++++|...+.... .....-.+....|++.|+      |.|
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            5777887554322111         122389999999999999987653221 111223567889999999      999


Q ss_pred             hHHHHHHHHH---h--cCC---ChhHHHHHHHHHhcccCCCCCCCccchhhHHhhcCCCCCcchhHHHHhhcCCC--CCc
Q 038398          324 LALITIGRAM---A--CKK---TPQEWHYAIQVLRRSASEFPGMGKEVYPLLKFSYDSLPDDTIRSYLLYCGLFP--EDY  393 (720)
Q Consensus       324 Lai~~~~~~l---~--~~~---~~~~w~~~l~~l~~~~~~~~~~~~~~~~~l~~sy~~L~~~~~k~~fl~~~~fp--~~~  393 (720)
                      ..+..+....   +  ...   +...+..++..   ...         ...+.-++..||+ ..+.++..++.+.  .+.
T Consensus       260 ~~~~~l~~~a~~~a~~~~~~~i~~~~v~~~~~~---~~~---------~~~~~~~l~~l~~-~~~~~l~aia~l~~~~~~  326 (412)
T 1w5s_A          260 RRAIVALKMACEMAEAMGRDSLSEDLVRKAVSE---NEA---------ASIQTHELEALSI-HELIILRLIAEATLGGME  326 (412)
T ss_dssp             HHHHHHHHHHHHHHHHTTCSSCCHHHHHHHHHH---C---------------CCSSSSSCH-HHHHHHHHHHHHHHTTCS
T ss_pred             HHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHH---Hhc---------cchHHHHHHcCCH-HHHHHHHHHHHHHhcCCC
Confidence            7665554321   1  111   22333332221   100         1234446778988 7888888888653  233


Q ss_pred             ccChHHHHHHHH--h-hCCCCcccchhhHHhHHHHHHHHHHhccccccC
Q 038398          394 RIRKSELIDCWI--G-EGFLDQYDRSGAYNEGYYIIGILLHACLLEEEG  439 (720)
Q Consensus       394 ~i~~~~li~~Wi--a-eg~~~~~~~~~~~~~~~~~~~~L~~~sll~~~~  439 (720)
                      .++...+...+.  + .-. ..  ..........+++.|...+++....
T Consensus       327 ~~~~~~~~~~~~~~~~~~~-~~--~~~~~~~~~~~l~~L~~~gli~~~~  372 (412)
T 1w5s_A          327 WINAGLLRQRYEDASLTMY-NV--KPRGYTQYHIYLKHLTSLGLVDAKP  372 (412)
T ss_dssp             SBCHHHHHHHHHHHHHHHS-CC--CCCCHHHHHHHHHHHHHTTSEEEEC
T ss_pred             CccHHHHHHHHHHHHHhhc-CC--CCCCHHHHHHHHHHHHhCCCEEeec
Confidence            555555554442  2 111 00  0112244567899999999998764

>1ogq_A PGIP-2, polygalacturonase inhibiting protein; inhibitor; HET: NAG; 1.7A {Phaseolus vulgaris} SCOP: c.10.2.8

Probab=99.67  E-value=4.9e-17  Score=167.91  Aligned_cols=211  Identities=15%  Similarity=0.153  Sum_probs=167.6

Q ss_pred             CcccccccceeEEEecccccc-cCCC-CCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCccCCccccCCC
Q 038398          487 APEIQNWRNVRRMSLMKNKIE-NLSE-TPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLV  564 (720)
Q Consensus       487 ~~~~~~~~~l~~L~l~~~~~~-~~~~-~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~  564 (720)
                      +..+..+++|++|++++|.+. .+|. +..+++|++|++++|.+....+..|.++++|++|+|++|.+.+.+|..++.++
T Consensus        94 p~~l~~l~~L~~L~Ls~n~l~~~~p~~~~~l~~L~~L~Ls~N~l~~~~p~~~~~l~~L~~L~L~~N~l~~~~p~~l~~l~  173 (313)
T 1ogq_A           94 PPAIAKLTQLHYLYITHTNVSGAIPDFLSQIKTLVTLDFSYNALSGTLPPSISSLPNLVGITFDGNRISGAIPDSYGSFS  173 (313)
T ss_dssp             CGGGGGCTTCSEEEEEEECCEEECCGGGGGCTTCCEEECCSSEEESCCCGGGGGCTTCCEEECCSSCCEEECCGGGGCCC
T ss_pred             ChhHhcCCCCCEEECcCCeeCCcCCHHHhCCCCCCEEeCCCCccCCcCChHHhcCCCCCeEECcCCcccCcCCHHHhhhh
Confidence            346888999999999999997 4444 57899999999999998866666699999999999999988779999999998


Q ss_pred             -CCCEEeccCCCCc-ccchhhhcCCCCCEEeccCCcCCCCCchhhhhccccCceeeccccCCCcccchhcccccCCcccc
Q 038398          565 -SLEHLDLSSTAIT-HLPIELQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKINVLFGGHQFL  642 (720)
Q Consensus       565 -~L~~L~L~~~~i~-~lp~~i~~l~~L~~L~l~~~~~l~~lp~~~~~~l~~L~~L~~~~~~~~~l~~l~~~~~~~~~~~~  642 (720)
                       +|++|++++|.++ .+|..+..++ |+.|++++| .+...+...++.+++|+.|++.+   |.+..            .
T Consensus       174 ~~L~~L~L~~N~l~~~~~~~~~~l~-L~~L~Ls~N-~l~~~~~~~~~~l~~L~~L~L~~---N~l~~------------~  236 (313)
T 1ogq_A          174 KLFTSMTISRNRLTGKIPPTFANLN-LAFVDLSRN-MLEGDASVLFGSDKNTQKIHLAK---NSLAF------------D  236 (313)
T ss_dssp             TTCCEEECCSSEEEEECCGGGGGCC-CSEEECCSS-EEEECCGGGCCTTSCCSEEECCS---SEECC------------B
T ss_pred             hcCcEEECcCCeeeccCChHHhCCc-ccEEECcCC-cccCcCCHHHhcCCCCCEEECCC---Cceee------------e
Confidence             9999999999988 7888899987 999999995 44444444578888888888765   44321            1


Q ss_pred             HHHhcCCCCCceeEEEecchhhHHHHhhhhhhhhhccccccccccCCCccccccccccCCcceeeecCCCCCcccc
Q 038398          643 VEELMGMKHLMVLTITLKSWQALKELLISQELQRSTQSLFLRCFNDSKSLDIFCLAGLRNLNKLYVAGCKHLEDSQ  718 (720)
Q Consensus       643 ~~~l~~l~~L~~L~~~~~~~~~l~~l~~~~~~~~~L~~L~l~~~~~l~~l~~~~l~~l~~L~~L~l~~c~~l~~i~  718 (720)
                      +..+..+++|+.|+++.|.+...  ++.....+++|+.|++++++-...+|  ....+++|+.|++++|+.+-..+
T Consensus       237 ~~~~~~l~~L~~L~Ls~N~l~~~--~p~~l~~l~~L~~L~Ls~N~l~~~ip--~~~~l~~L~~l~l~~N~~lc~~p  308 (313)
T 1ogq_A          237 LGKVGLSKNLNGLDLRNNRIYGT--LPQGLTQLKFLHSLNVSFNNLCGEIP--QGGNLQRFDVSAYANNKCLCGSP  308 (313)
T ss_dssp             GGGCCCCTTCCEEECCSSCCEEC--CCGGGGGCTTCCEEECCSSEEEEECC--CSTTGGGSCGGGTCSSSEEESTT
T ss_pred             cCcccccCCCCEEECcCCcccCc--CChHHhcCcCCCEEECcCCcccccCC--CCccccccChHHhcCCCCccCCC
Confidence            22256789999999999887632  33445566799999999865444666  34889999999999999775433

>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=99.66  E-value=2.1e-16  Score=178.53  Aligned_cols=126  Identities=21%  Similarity=0.347  Sum_probs=93.3

Q ss_pred             cccccceeEEEecccccccCC--CCCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCccCCcc-ccCCCCC
Q 038398          490 IQNWRNVRRMSLMKNKIENLS--ETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSG-ISTLVSL  566 (720)
Q Consensus       490 ~~~~~~l~~L~l~~~~~~~~~--~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~-i~~l~~L  566 (720)
                      +..+++|+.|++++|.+..++  .+..+++|++|++++|.++.+++..|+++++|++|+|++|.+. .+|.. ++++++|
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 LDSFRQVELLNLNDLQIEEIDTYAFAYAHTIQKLYMGFNAIRYLPPHVFQNVPLLTVLVLERNDLS-SLPRGIFHNTPKL  149 (597)
T ss_dssp             HHHCCCCSEEECTTSCCCEECTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCC-CCCTTTTTTCTTC
T ss_pred             HccCCCCcEEECCCCCCCCCChHHhcCCCCCCEEECCCCcCCCCCHHHHcCCCCCCEEEeeCCCCC-CCCHHHhccCCCC
Confidence            456778888888888887765  3577888888888888888888877888888888888888554 45444 5788888


Q ss_pred             CEEeccCCCCcccch-hhhcCCCCCEEeccCCcCCCCCchhhhhccccCceeecc
Q 038398          567 EHLDLSSTAITHLPI-ELQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMF  620 (720)
Q Consensus       567 ~~L~L~~~~i~~lp~-~i~~l~~L~~L~l~~~~~l~~lp~~~~~~l~~L~~L~~~  620 (720)
                      ++|+|++|.++.+|+ .++++++|++|++++| .+..++   ++.+++|+.|++.
T Consensus       150 ~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~N-~l~~~~---~~~l~~L~~L~l~  200 (597)
T 3oja_B          150 TTLSMSNNNLERIEDDTFQATTSLQNLQLSSN-RLTHVD---LSLIPSLFHANVS  200 (597)
T ss_dssp             CEEECCSSCCCBCCTTTTTTCTTCCEEECTTS-CCSBCC---GGGCTTCSEEECC
T ss_pred             CEEEeeCCcCCCCChhhhhcCCcCcEEECcCC-CCCCcC---hhhhhhhhhhhcc
Confidence            888888888887654 5888888888888884 455554   3455555555443

>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=99.66  E-value=1e-16  Score=158.82  Aligned_cols=207  Identities=14%  Similarity=0.228  Sum_probs=157.2

Q ss_pred             CccCcccccccceeEEEecccccccCCC--CCCCCcccEEEccCCC-CcCcchHHhccCCcccEEEccC-CCCCccCCcc
Q 038398          484 LTEAPEIQNWRNVRRMSLMKNKIENLSE--TPTCPHLLSLFLSDNS-LKMSTDDFFQSMPSLRVFNMSN-NHLLWKLPSG  559 (720)
Q Consensus       484 ~~~~~~~~~~~~l~~L~l~~~~~~~~~~--~~~~~~L~~L~l~~~~-~~~~~~~~~~~l~~L~~L~L~~-~~~~~~lp~~  559 (720)
                      ...+|.  -..+++.|++++|.+..++.  +..+++|++|++++|. ++.+++..|.++++|++|++++ |.+....|..
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            445555  33589999999999988765  5789999999999996 8888887799999999999998 7555444567


Q ss_pred             ccCCCCCCEEeccCCCCcccchhhhcCCCCC---EEeccCCcCCCCCchhhhhccccCc-eeeccccCCCcccchhcccc
Q 038398          560 ISTLVSLEHLDLSSTAITHLPIELQKLVNLK---CLNLEYMNNLNQFPRLVISAFSKLQ-VLRMFDCGGSKIERLKINVL  635 (720)
Q Consensus       560 i~~l~~L~~L~L~~~~i~~lp~~i~~l~~L~---~L~l~~~~~l~~lp~~~~~~l~~L~-~L~~~~~~~~~l~~l~~~~~  635 (720)
                      +.++++|++|++++|.++.+|. +..+++|+   +|++++|..+..+|...+..+++|+ .|++.+   |.+..++... 
T Consensus       101 f~~l~~L~~L~l~~n~l~~lp~-~~~l~~L~~L~~L~l~~N~~l~~i~~~~~~~l~~L~~~L~l~~---n~l~~i~~~~-  175 (239)
T 2xwt_C          101 LKELPLLKFLGIFNTGLKMFPD-LTKVYSTDIFFILEITDNPYMTSIPVNAFQGLCNETLTLKLYN---NGFTSVQGYA-  175 (239)
T ss_dssp             EECCTTCCEEEEEEECCCSCCC-CTTCCBCCSEEEEEEESCTTCCEECTTTTTTTBSSEEEEECCS---CCCCEECTTT-
T ss_pred             hCCCCCCCEEeCCCCCCccccc-cccccccccccEEECCCCcchhhcCcccccchhcceeEEEcCC---CCCcccCHhh-
Confidence            8899999999999999999997 88888888   9999996578888876677888888 877764   5554444322 


Q ss_pred             cCCccccHHHhcCCCCCceeEEEecc-hhhHHHHhhhhhhh-hhccccccccccCCCccccccccccCCcceeeecCCCC
Q 038398          636 FGGHQFLVEELMGMKHLMVLTITLKS-WQALKELLISQELQ-RSTQSLFLRCFNDSKSLDIFCLAGLRNLNKLYVAGCKH  713 (720)
Q Consensus       636 ~~~~~~~~~~l~~l~~L~~L~~~~~~-~~~l~~l~~~~~~~-~~L~~L~l~~~~~l~~l~~~~l~~l~~L~~L~l~~c~~  713 (720)
                                +.. ++|+.|.++.|. +..++.  ..+..+ ++|+.|++++ +.++.++..   .+++|+.|+++++..
T Consensus       176 ----------~~~-~~L~~L~L~~n~~l~~i~~--~~~~~l~~~L~~L~l~~-N~l~~l~~~---~~~~L~~L~l~~~~~  238 (239)
T 2xwt_C          176 ----------FNG-TKLDAVYLNKNKYLTVIDK--DAFGGVYSGPSLLDVSQ-TSVTALPSK---GLEHLKELIARNTWT  238 (239)
T ss_dssp             ----------TTT-CEEEEEECTTCTTCCEECT--TTTTTCSBCCSEEECTT-CCCCCCCCT---TCTTCSEEECTTC--
T ss_pred             ----------cCC-CCCCEEEcCCCCCcccCCH--HHhhccccCCcEEECCC-CccccCChh---HhccCceeeccCccC
Confidence                      122 578888888773 554321  223444 6899999998 667777733   678999999998875


Q ss_pred             C
Q 038398          714 L  714 (720)
Q Consensus       714 l  714 (720)
                      |
T Consensus       239 l  239 (239)
T 2xwt_C          239 L  239 (239)
T ss_dssp             -
T ss_pred             C
Confidence            4

>3rfs_A Internalin B, repeat modules, variable lymphocyte B; LRR, protein binding, plasma; 1.70A {Listeria monocytogenes} PDB: 3rfj_A

Probab=99.66  E-value=5.6e-16  Score=156.59  Aligned_cols=194  Identities=21%  Similarity=0.310  Sum_probs=146.7

Q ss_pred             EEEEcCCCCccCcccccccceeEEEecccccccCCCCCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCcc
Q 038398          476 FLVHAGLGLTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWK  555 (720)
Q Consensus       476 ~~~~~~~~~~~~~~~~~~~~l~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~  555 (720)
                      .+...+.....++.+..+++|++|++++|.+..++.+..+++|++|++++|.++.+++..|.++++|++|+|++|.+.+.
T Consensus        45 ~L~l~~~~i~~~~~l~~l~~L~~L~l~~n~l~~~~~l~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~  124 (272)
T 3rfs_A           45 QIIANNSDIKSVQGIQYLPNVRYLALGGNKLHDISALKELTNLTYLILTGNQLQSLPNGVFDKLTNLKELVLVENQLQSL  124 (272)
T ss_dssp             EEECTTSCCCCCTTGGGCTTCCEEECTTSCCCCCGGGTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECTTSCCCCC
T ss_pred             eeeeCCCCcccccccccCCCCcEEECCCCCCCCchhhcCCCCCCEEECCCCccCccChhHhcCCcCCCEEECCCCcCCcc
Confidence            34445555666777888899999999999998888788899999999999999888888788999999999999976655


Q ss_pred             CCccccCCCCCCEEeccCCCCcccchh-hhcCCCCCEEeccCCcCCCCCchhhhhccccCceeeccccCCCcccchhccc
Q 038398          556 LPSGISTLVSLEHLDLSSTAITHLPIE-LQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKINV  634 (720)
Q Consensus       556 lp~~i~~l~~L~~L~L~~~~i~~lp~~-i~~l~~L~~L~l~~~~~l~~lp~~~~~~l~~L~~L~~~~~~~~~l~~l~~~~  634 (720)
                      .|..++.+++|++|++++|.++.+|.. +.++++|++|++++| .+..+|...++.+++|+.|++.++   .+..++   
T Consensus       125 ~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~n-~l~~~~~~~~~~l~~L~~L~L~~N---~l~~~~---  197 (272)
T 3rfs_A          125 PDGVFDKLTNLTYLNLAHNQLQSLPKGVFDKLTNLTELDLSYN-QLQSLPEGVFDKLTQLKDLRLYQN---QLKSVP---  197 (272)
T ss_dssp             CTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSS-CCCCCCTTTTTTCTTCCEEECCSS---CCSCCC---
T ss_pred             CHHHhccCCCCCEEECCCCccCccCHHHhccCccCCEEECCCC-CcCccCHHHhcCCccCCEEECCCC---cCCccC---
Confidence            566688999999999999999988765 688999999999984 677777766678888888887764   333222   


Q ss_pred             ccCCccccHHHhcCCCCCceeEEEecchhhHHHHhhhhhhhhhccccccccccCCCccc
Q 038398          635 LFGGHQFLVEELMGMKHLMVLTITLKSWQALKELLISQELQRSTQSLFLRCFNDSKSLD  693 (720)
Q Consensus       635 ~~~~~~~~~~~l~~l~~L~~L~~~~~~~~~l~~l~~~~~~~~~L~~L~l~~~~~l~~l~  693 (720)
                              ...+..+++|+.|.++.|.+..         .+++|+.|++..++....+|
T Consensus       198 --------~~~~~~l~~L~~L~l~~N~~~~---------~~~~l~~l~~~~n~~~g~ip  239 (272)
T 3rfs_A          198 --------DGVFDRLTSLQYIWLHDNPWDC---------TCPGIRYLSEWINKHSGVVR  239 (272)
T ss_dssp             --------TTTTTTCTTCCEEECCSSCBCC---------CTTTTHHHHHHHHHTGGGBB
T ss_pred             --------HHHHhCCcCCCEEEccCCCccc---------cCcHHHHHHHHHHhCCCccc
Confidence                    2235678889999998876531         12355666665543333444

>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=99.66  E-value=6.2e-16  Score=174.60  Aligned_cols=105  Identities=27%  Similarity=0.341  Sum_probs=84.3

Q ss_pred             EEEEcCCCCccCc--ccccccceeEEEecccccccCCC--CCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCC
Q 038398          476 FLVHAGLGLTEAP--EIQNWRNVRRMSLMKNKIENLSE--TPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNH  551 (720)
Q Consensus       476 ~~~~~~~~~~~~~--~~~~~~~l~~L~l~~~~~~~~~~--~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~  551 (720)
                      .+...+......+  .+..+++|+.|++++|.+..++.  +..+++|++|++++|.++.+++..|.++++|++|+|++|.
T Consensus        79 ~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~l~~~~~~~l~~L~~L~Ls~N~  158 (597)
T 3oja_B           79 LLNLNDLQIEEIDTYAFAYAHTIQKLYMGFNAIRYLPPHVFQNVPLLTVLVLERNDLSSLPRGIFHNTPKLTTLSMSNNN  158 (597)
T ss_dssp             EEECTTSCCCEECTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSC
T ss_pred             EEECCCCCCCCCChHHhcCCCCCCEEECCCCcCCCCCHHHHcCCCCCCEEEeeCCCCCCCCHHHhccCCCCCEEEeeCCc
Confidence            3444444443332  57788899999999999888764  4788999999999999998888878899999999999997


Q ss_pred             CCccCCccccCCCCCCEEeccCCCCcccc
Q 038398          552 LLWKLPSGISTLVSLEHLDLSSTAITHLP  580 (720)
Q Consensus       552 ~~~~lp~~i~~l~~L~~L~L~~~~i~~lp  580 (720)
                      +.+..|..++.+++|++|++++|.++.+|
T Consensus       159 l~~~~~~~~~~l~~L~~L~L~~N~l~~~~  187 (597)
T 3oja_B          159 LERIEDDTFQATTSLQNLQLSSNRLTHVD  187 (597)
T ss_dssp             CCBCCTTTTTTCTTCCEEECTTSCCSBCC
T ss_pred             CCCCChhhhhcCCcCcEEECcCCCCCCcC
Confidence            77777778899999999999999888765

>3o6n_A APL1; leucine-rich repeat, protein binding; HET: NAG; 1.85A {Anopheles gambiae}

Probab=99.65  E-value=4.5e-16  Score=166.26  Aligned_cols=91  Identities=27%  Similarity=0.361  Sum_probs=52.4

Q ss_pred             ccccccceeEEEecccccccCCC--CCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCccCCccccCCCCC
Q 038398          489 EIQNWRNVRRMSLMKNKIENLSE--TPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVSL  566 (720)
Q Consensus       489 ~~~~~~~l~~L~l~~~~~~~~~~--~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L  566 (720)
                      .+..+++|++|++++|.+..++.  +..+++|++|++++|.++.+++..|.++++|++|++++|.+.+..|..++.+++|
T Consensus        88 ~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~l~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L  167 (390)
T 3o6n_A           88 AFAYAHTIQKLYMGFNAIRYLPPHVFQNVPLLTVLVLERNDLSSLPRGIFHNTPKLTTLSMSNNNLERIEDDTFQATTSL  167 (390)
T ss_dssp             TTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCBCCTTTTSSCTTC
T ss_pred             hccCCCCcCEEECCCCCCCcCCHHHhcCCCCCCEEECCCCccCcCCHHHhcCCCCCcEEECCCCccCccChhhccCCCCC
Confidence            34555566666666666555432  2455666666666666665555555566666666666665444444555666666


Q ss_pred             CEEeccCCCCccc
Q 038398          567 EHLDLSSTAITHL  579 (720)
Q Consensus       567 ~~L~L~~~~i~~l  579 (720)
                      ++|++++|.++.+
T Consensus       168 ~~L~l~~n~l~~~  180 (390)
T 3o6n_A          168 QNLQLSSNRLTHV  180 (390)
T ss_dssp             CEEECCSSCCSBC
T ss_pred             CEEECCCCcCCcc
Confidence            6666666655544

>2ft3_A Biglycan; proteoglycan, dimer interface, structural protein, signaling; HET: NAG FLC; 3.40A {Bos taurus}

Probab=99.65  E-value=9.6e-16  Score=159.84  Aligned_cols=223  Identities=21%  Similarity=0.322  Sum_probs=136.5

Q ss_pred             EEEcCCCCccCcccccccceeEEEecccccccCCC--CCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCc
Q 038398          477 LVHAGLGLTEAPEIQNWRNVRRMSLMKNKIENLSE--TPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLW  554 (720)
Q Consensus       477 ~~~~~~~~~~~~~~~~~~~l~~L~l~~~~~~~~~~--~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~  554 (720)
                      +...+.....+|.. -.++++.|++++|.+..++.  +..+++|++|++++|.++.+.+..|.++++|++|+|++|.+ .
T Consensus        38 l~~~~~~l~~ip~~-~~~~l~~L~l~~n~i~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l-~  115 (332)
T 2ft3_A           38 VQCSDLGLKAVPKE-ISPDTTLLDLQNNDISELRKDDFKGLQHLYALVLVNNKISKIHEKAFSPLRKLQKLYISKNHL-V  115 (332)
T ss_dssp             EECCSSCCSSCCSC-CCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCCEECGGGSTTCTTCCEEECCSSCC-C
T ss_pred             EECCCCCccccCCC-CCCCCeEEECCCCcCCccCHhHhhCCCCCcEEECCCCccCccCHhHhhCcCCCCEEECCCCcC-C
Confidence            33344444444432 24688999999998887643  57889999999999998888777789999999999999854 4


Q ss_pred             cCCccccCCCCCCEEeccCCCCcccchh-hhcCCCCCEEeccCCcCCCC--CchhhhhccccCceeeccccCCCcccchh
Q 038398          555 KLPSGISTLVSLEHLDLSSTAITHLPIE-LQKLVNLKCLNLEYMNNLNQ--FPRLVISAFSKLQVLRMFDCGGSKIERLK  631 (720)
Q Consensus       555 ~lp~~i~~l~~L~~L~L~~~~i~~lp~~-i~~l~~L~~L~l~~~~~l~~--lp~~~~~~l~~L~~L~~~~~~~~~l~~l~  631 (720)
                      .+|..+.  ++|++|++++|.++.+|.. +.++++|++|++++| .+..  ++...+..+ +|+.|++.+   |.+..++
T Consensus       116 ~l~~~~~--~~L~~L~l~~n~i~~~~~~~~~~l~~L~~L~l~~n-~l~~~~~~~~~~~~l-~L~~L~l~~---n~l~~l~  188 (332)
T 2ft3_A          116 EIPPNLP--SSLVELRIHDNRIRKVPKGVFSGLRNMNCIEMGGN-PLENSGFEPGAFDGL-KLNYLRISE---AKLTGIP  188 (332)
T ss_dssp             SCCSSCC--TTCCEEECCSSCCCCCCSGGGSSCSSCCEEECCSC-CCBGGGSCTTSSCSC-CCSCCBCCS---SBCSSCC
T ss_pred             ccCcccc--ccCCEEECCCCccCccCHhHhCCCccCCEEECCCC-ccccCCCCcccccCC-ccCEEECcC---CCCCccC
Confidence            7777665  7899999999998888754 888999999999884 3332  222223333 444444433   3333332


Q ss_pred             ccccc----------CCccccHHHhcCCCCCceeEEEecchhhHHHHhhhhhhhhhccccccccccCCCccccccccccC
Q 038398          632 INVLF----------GGHQFLVEELMGMKHLMVLTITLKSWQALKELLISQELQRSTQSLFLRCFNDSKSLDIFCLAGLR  701 (720)
Q Consensus       632 ~~~~~----------~~~~~~~~~l~~l~~L~~L~~~~~~~~~l~~l~~~~~~~~~L~~L~l~~~~~l~~l~~~~l~~l~  701 (720)
                      ...+.          .........+..+++|+.|.++.|.+..+..  .....+++|+.|++++ +.+..+| ..+..++
T Consensus       189 ~~~~~~L~~L~l~~n~i~~~~~~~l~~l~~L~~L~L~~N~l~~~~~--~~~~~l~~L~~L~L~~-N~l~~lp-~~l~~l~  264 (332)
T 2ft3_A          189 KDLPETLNELHLDHNKIQAIELEDLLRYSKLYRLGLGHNQIRMIEN--GSLSFLPTLRELHLDN-NKLSRVP-AGLPDLK  264 (332)
T ss_dssp             SSSCSSCSCCBCCSSCCCCCCTTSSTTCTTCSCCBCCSSCCCCCCT--TGGGGCTTCCEEECCS-SCCCBCC-TTGGGCT
T ss_pred             ccccCCCCEEECCCCcCCccCHHHhcCCCCCCEEECCCCcCCcCCh--hHhhCCCCCCEEECCC-CcCeecC-hhhhcCc
Confidence            21110          0011112334455666666666555443221  1223334566666665 3344554 3355566


Q ss_pred             CcceeeecCCC
Q 038398          702 NLNKLYVAGCK  712 (720)
Q Consensus       702 ~L~~L~l~~c~  712 (720)
                      +|+.|++++|+
T Consensus       265 ~L~~L~l~~N~  275 (332)
T 2ft3_A          265 LLQVVYLHTNN  275 (332)
T ss_dssp             TCCEEECCSSC
T ss_pred             cCCEEECCCCC
Confidence            66666666554

>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=99.65  E-value=5.5e-16  Score=168.99  Aligned_cols=216  Identities=18%  Similarity=0.207  Sum_probs=162.8

Q ss_pred             ceeEEEecccccccCCCCCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCccCCccccCCCCCCEEeccCC
Q 038398          495 NVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSST  574 (720)
Q Consensus       495 ~l~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~~  574 (720)
                      ..+.++..++.+..+|.. -.++|++|++++|.++.+++..|.++++|++|+|++|.+.+..|..|.++++|++|+|++|
T Consensus        55 ~~~~v~c~~~~l~~iP~~-~~~~l~~L~L~~n~i~~~~~~~~~~l~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~L~~n  133 (452)
T 3zyi_A           55 QFSKVVCTRRGLSEVPQG-IPSNTRYLNLMENNIQMIQADTFRHLHHLEVLQLGRNSIRQIEVGAFNGLASLNTLELFDN  133 (452)
T ss_dssp             SSCEEECCSSCCSSCCSC-CCTTCSEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSS
T ss_pred             CCcEEEECCCCcCccCCC-CCCCccEEECcCCcCceECHHHcCCCCCCCEEECCCCccCCcChhhccCcccCCEEECCCC
Confidence            346788888888887753 2378999999999999998888999999999999999877777789999999999999999


Q ss_pred             CCcccchh-hhcCCCCCEEeccCCcCCCCCchhhhhccccCceeeccccCCCcccchhcccccCC-----------cccc
Q 038398          575 AITHLPIE-LQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKINVLFGG-----------HQFL  642 (720)
Q Consensus       575 ~i~~lp~~-i~~l~~L~~L~l~~~~~l~~lp~~~~~~l~~L~~L~~~~~~~~~l~~l~~~~~~~~-----------~~~~  642 (720)
                      .++.+|.. +.++++|++|++++ +.+..+|...+..+++|+.|++.++..  +..++...+.+.           .-..
T Consensus       134 ~l~~~~~~~~~~l~~L~~L~L~~-N~l~~~~~~~~~~l~~L~~L~l~~~~~--l~~i~~~~~~~l~~L~~L~L~~n~l~~  210 (452)
T 3zyi_A          134 WLTVIPSGAFEYLSKLRELWLRN-NPIESIPSYAFNRVPSLMRLDLGELKK--LEYISEGAFEGLFNLKYLNLGMCNIKD  210 (452)
T ss_dssp             CCSBCCTTTSSSCTTCCEEECCS-CCCCEECTTTTTTCTTCCEEECCCCTT--CCEECTTTTTTCTTCCEEECTTSCCSS
T ss_pred             cCCccChhhhcccCCCCEEECCC-CCcceeCHhHHhcCCcccEEeCCCCCC--ccccChhhccCCCCCCEEECCCCcccc
Confidence            99999866 88899999999999 567888887788999999999887532  222222111110           0011


Q ss_pred             HHHhcCCCCCceeEEEecchhhHHHHhhhhhhhhhccccccccccCCCccccccccccCCcceeeecCCCCCcccc
Q 038398          643 VEELMGMKHLMVLTITLKSWQALKELLISQELQRSTQSLFLRCFNDSKSLDIFCLAGLRNLNKLYVAGCKHLEDSQ  718 (720)
Q Consensus       643 ~~~l~~l~~L~~L~~~~~~~~~l~~l~~~~~~~~~L~~L~l~~~~~l~~l~~~~l~~l~~L~~L~l~~c~~l~~i~  718 (720)
                      +..+..+++|+.|++++|.+..+.  +..+..+++|+.|++++ +.+..++...|.++++|+.|+|++|. ++.++
T Consensus       211 ~~~~~~l~~L~~L~Ls~N~l~~~~--~~~~~~l~~L~~L~L~~-n~l~~~~~~~~~~l~~L~~L~L~~N~-l~~~~  282 (452)
T 3zyi_A          211 MPNLTPLVGLEELEMSGNHFPEIR--PGSFHGLSSLKKLWVMN-SQVSLIERNAFDGLASLVELNLAHNN-LSSLP  282 (452)
T ss_dssp             CCCCTTCTTCCEEECTTSCCSEEC--GGGGTTCTTCCEEECTT-SCCCEECTTTTTTCTTCCEEECCSSC-CSCCC
T ss_pred             cccccccccccEEECcCCcCcccC--cccccCccCCCEEEeCC-CcCceECHHHhcCCCCCCEEECCCCc-CCccC
Confidence            223556677888888777665432  23344556888888887 55677766778889999999998884 44443

>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=99.64  E-value=8.6e-16  Score=156.50  Aligned_cols=197  Identities=19%  Similarity=0.230  Sum_probs=159.8

Q ss_pred             eEEEecccccccCCCCCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCccCCccccCCCCCCEEeccCCC-
Q 038398          497 RRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSSTA-  575 (720)
Q Consensus       497 ~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~~~-  575 (720)
                      +.++.+++.+..+|. ...++|++|++++|.++.+++..|.++++|++|+|++|.+.+..|..+..+++|++|++++|. 
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            578888888888765 335799999999999999998889999999999999997776668899999999999999997 


Q ss_pred             Cccc-chhhhcCCCCCEEeccCCcCCCCCchhhhhccccCceeeccccCCCcccchhcccccCCccccHHHhcCCCCCce
Q 038398          576 ITHL-PIELQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKINVLFGGHQFLVEELMGMKHLMV  654 (720)
Q Consensus       576 i~~l-p~~i~~l~~L~~L~l~~~~~l~~lp~~~~~~l~~L~~L~~~~~~~~~l~~l~~~~~~~~~~~~~~~l~~l~~L~~  654 (720)
                      ++.+ |..+..+++|++|++++| .+..++...+..+++|++|++.++   .+..++           ...+..+++|+.
T Consensus        93 l~~~~~~~~~~l~~L~~L~l~~n-~l~~~~~~~~~~l~~L~~L~l~~n---~l~~~~-----------~~~~~~l~~L~~  157 (285)
T 1ozn_A           93 LRSVDPATFHGLGRLHTLHLDRC-GLQELGPGLFRGLAALQYLYLQDN---ALQALP-----------DDTFRDLGNLTH  157 (285)
T ss_dssp             CCCCCTTTTTTCTTCCEEECTTS-CCCCCCTTTTTTCTTCCEEECCSS---CCCCCC-----------TTTTTTCTTCCE
T ss_pred             ccccCHHHhcCCcCCCEEECCCC-cCCEECHhHhhCCcCCCEEECCCC---cccccC-----------HhHhccCCCccE
Confidence            8888 667999999999999994 567776555788888888887764   443222           223567899999


Q ss_pred             eEEEecchhhHHHHhhhhhhhhhccccccccccCCCccccccccccCCcceeeecCCC
Q 038398          655 LTITLKSWQALKELLISQELQRSTQSLFLRCFNDSKSLDIFCLAGLRNLNKLYVAGCK  712 (720)
Q Consensus       655 L~~~~~~~~~l~~l~~~~~~~~~L~~L~l~~~~~l~~l~~~~l~~l~~L~~L~l~~c~  712 (720)
                      |.++.|.+..+..  .....+++|+.|++++ +.+..+....+.++++|+.|++++|.
T Consensus       158 L~l~~n~l~~~~~--~~~~~l~~L~~L~l~~-n~l~~~~~~~~~~l~~L~~L~l~~n~  212 (285)
T 1ozn_A          158 LFLHGNRISSVPE--RAFRGLHSLDRLLLHQ-NRVAHVHPHAFRDLGRLMTLYLFANN  212 (285)
T ss_dssp             EECCSSCCCEECT--TTTTTCTTCCEEECCS-SCCCEECTTTTTTCTTCCEEECCSSC
T ss_pred             EECCCCcccccCH--HHhcCccccCEEECCC-CcccccCHhHccCcccccEeeCCCCc
Confidence            9999988765432  1244567999999998 45677765789999999999999985

>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=99.64  E-value=7.2e-16  Score=160.67  Aligned_cols=215  Identities=21%  Similarity=0.247  Sum_probs=148.2

Q ss_pred             EEEcCCCCccCcccccccceeEEEecccccccCCC--CCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCc
Q 038398          477 LVHAGLGLTEAPEIQNWRNVRRMSLMKNKIENLSE--TPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLW  554 (720)
Q Consensus       477 ~~~~~~~~~~~~~~~~~~~l~~L~l~~~~~~~~~~--~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~  554 (720)
                      +...+.....+|.. -.++++.|++++|.+..++.  +..+++|++|++++|.++.+.+..|.++++|++|+|++|. +.
T Consensus        36 l~~~~~~l~~lp~~-~~~~l~~L~L~~n~i~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~Ls~n~-l~  113 (330)
T 1xku_A           36 VQCSDLGLEKVPKD-LPPDTALLDLQNNKITEIKDGDFKNLKNLHTLILINNKISKISPGAFAPLVKLERLYLSKNQ-LK  113 (330)
T ss_dssp             EECTTSCCCSCCCS-CCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSSC-CS
T ss_pred             EEecCCCccccCcc-CCCCCeEEECCCCcCCEeChhhhccCCCCCEEECCCCcCCeeCHHHhcCCCCCCEEECCCCc-CC
Confidence            34444444444431 23578888888888877654  5778888888888888888766668888888888888884 44


Q ss_pred             cCCccccCCCCCCEEeccCCCCcccchh-hhcCCCCCEEeccCCcCCCC--CchhhhhccccCceeeccccCCCcccchh
Q 038398          555 KLPSGISTLVSLEHLDLSSTAITHLPIE-LQKLVNLKCLNLEYMNNLNQ--FPRLVISAFSKLQVLRMFDCGGSKIERLK  631 (720)
Q Consensus       555 ~lp~~i~~l~~L~~L~L~~~~i~~lp~~-i~~l~~L~~L~l~~~~~l~~--lp~~~~~~l~~L~~L~~~~~~~~~l~~l~  631 (720)
                      .+|..+.  ++|++|++++|.++.+|.. +.++++|++|++++| .+..  +....+..+++|+.|++.++   .+..++
T Consensus       114 ~l~~~~~--~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n-~l~~~~~~~~~~~~l~~L~~L~l~~n---~l~~l~  187 (330)
T 1xku_A          114 ELPEKMP--KTLQELRVHENEITKVRKSVFNGLNQMIVVELGTN-PLKSSGIENGAFQGMKKLSYIRIADT---NITTIP  187 (330)
T ss_dssp             BCCSSCC--TTCCEEECCSSCCCBBCHHHHTTCTTCCEEECCSS-CCCGGGBCTTGGGGCTTCCEEECCSS---CCCSCC
T ss_pred             ccChhhc--ccccEEECCCCcccccCHhHhcCCccccEEECCCC-cCCccCcChhhccCCCCcCEEECCCC---ccccCC
Confidence            6776654  6888888888888877654 788888888888874 3332  22233667777777776653   333332


Q ss_pred             cccccCCccccHHHhcCCCCCceeEEEecchhhHHHHhhhhhhhhhccccccccccCCCccccccccccCCcceeeecCC
Q 038398          632 INVLFGGHQFLVEELMGMKHLMVLTITLKSWQALKELLISQELQRSTQSLFLRCFNDSKSLDIFCLAGLRNLNKLYVAGC  711 (720)
Q Consensus       632 ~~~~~~~~~~~~~~l~~l~~L~~L~~~~~~~~~l~~l~~~~~~~~~L~~L~l~~~~~l~~l~~~~l~~l~~L~~L~l~~c  711 (720)
                      ..            +  .++|+.|.++.|.+..+.  +.....+++|+.|++++ +.+..++...+.++++|+.|+|++|
T Consensus       188 ~~------------~--~~~L~~L~l~~n~l~~~~--~~~~~~l~~L~~L~Ls~-n~l~~~~~~~~~~l~~L~~L~L~~N  250 (330)
T 1xku_A          188 QG------------L--PPSLTELHLDGNKITKVD--AASLKGLNNLAKLGLSF-NSISAVDNGSLANTPHLRELHLNNN  250 (330)
T ss_dssp             SS------------C--CTTCSEEECTTSCCCEEC--TGGGTTCTTCCEEECCS-SCCCEECTTTGGGSTTCCEEECCSS
T ss_pred             cc------------c--cccCCEEECCCCcCCccC--HHHhcCCCCCCEEECCC-CcCceeChhhccCCCCCCEEECCCC
Confidence            21            1  267888888887765432  22344557899999998 5577777667899999999999998


Q ss_pred             CCCccc
Q 038398          712 KHLEDS  717 (720)
Q Consensus       712 ~~l~~i  717 (720)
                      . +..+
T Consensus       251 ~-l~~l  255 (330)
T 1xku_A          251 K-LVKV  255 (330)
T ss_dssp             C-CSSC
T ss_pred             c-CccC
Confidence            5 4444

>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=99.64  E-value=4.9e-16  Score=180.76  Aligned_cols=133  Identities=21%  Similarity=0.230  Sum_probs=90.2

Q ss_pred             ccccccceeEEEecccccccC-C-CCCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCccCCccccCCCCC
Q 038398          489 EIQNWRNVRRMSLMKNKIENL-S-ETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVSL  566 (720)
Q Consensus       489 ~~~~~~~l~~L~l~~~~~~~~-~-~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L  566 (720)
                      .+..+++|+.|++++|.+... | .+..+++|+.|++++|.+.+..+..+..+++|++|+|++|.+.+.+|..++++++|
T Consensus       413 ~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~L~~n~l~~~~p~~~~~l~~L~~L~L~~N~l~~~~p~~l~~l~~L  492 (768)
T 3rgz_A          413 TLSNCSELVSLHLSFNYLSGTIPSSLGSLSKLRDLKLWLNMLEGEIPQELMYVKTLETLILDFNDLTGEIPSGLSNCTNL  492 (768)
T ss_dssp             GGGGCTTCCEEECCSSEEESCCCGGGGGCTTCCEEECCSSCCCSCCCGGGGGCTTCCEEECCSSCCCSCCCGGGGGCTTC
T ss_pred             HHhcCCCCCEEECcCCcccCcccHHHhcCCCCCEEECCCCcccCcCCHHHcCCCCceEEEecCCcccCcCCHHHhcCCCC
Confidence            456677777777777776532 2 23566777777777777765555556777777777777776666777777777777


Q ss_pred             CEEeccCCCCc-ccchhhhcCCCCCEEeccCCcCCCCCchhhhhccccCceeecccc
Q 038398          567 EHLDLSSTAIT-HLPIELQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFDC  622 (720)
Q Consensus       567 ~~L~L~~~~i~-~lp~~i~~l~~L~~L~l~~~~~l~~lp~~~~~~l~~L~~L~~~~~  622 (720)
                      ++|++++|.++ .+|..++.+++|++|++++|.....+|.. ++.+++|+.|++.++
T Consensus       493 ~~L~L~~N~l~~~~p~~~~~l~~L~~L~L~~N~l~~~~p~~-l~~l~~L~~L~Ls~N  548 (768)
T 3rgz_A          493 NWISLSNNRLTGEIPKWIGRLENLAILKLSNNSFSGNIPAE-LGDCRSLIWLDLNTN  548 (768)
T ss_dssp             CEEECCSSCCCSCCCGGGGGCTTCCEEECCSSCCEEECCGG-GGGCTTCCEEECCSS
T ss_pred             CEEEccCCccCCcCChHHhcCCCCCEEECCCCcccCcCCHH-HcCCCCCCEEECCCC
Confidence            77777777766 56777777777777777775433355553 666777777666543

>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=99.64  E-value=1.3e-15  Score=166.27  Aligned_cols=141  Identities=21%  Similarity=0.280  Sum_probs=75.0

Q ss_pred             EEcCCCCccCcccccccceeEEEecccccccCC--CCCCCCcccEEEccCCCCc-CcchHHhccCCcccEEEccCCCCCc
Q 038398          478 VHAGLGLTEAPEIQNWRNVRRMSLMKNKIENLS--ETPTCPHLLSLFLSDNSLK-MSTDDFFQSMPSLRVFNMSNNHLLW  554 (720)
Q Consensus       478 ~~~~~~~~~~~~~~~~~~l~~L~l~~~~~~~~~--~~~~~~~L~~L~l~~~~~~-~~~~~~~~~l~~L~~L~L~~~~~~~  554 (720)
                      ...+.+...+|.  -.+++++|++++|.+..++  .+..+++|++|++++|.+. .+++..|.++++|++|+|++|.+.+
T Consensus        16 ~c~~~~l~~lp~--l~~~l~~L~Ls~n~i~~~~~~~~~~l~~L~~L~L~~n~~~~~i~~~~~~~l~~L~~L~Ls~n~l~~   93 (455)
T 3v47_A           16 ICINRGLHQVPE--LPAHVNYVDLSLNSIAELNETSFSRLQDLQFLKVEQQTPGLVIRNNTFRGLSSLIILKLDYNQFLQ   93 (455)
T ss_dssp             ECCSSCCSSCCC--CCTTCCEEECCSSCCCEECTTTTSSCTTCCEEECCCCSTTCEECTTTTTTCTTCCEEECTTCTTCE
T ss_pred             CcCCCCcccCCC--CCCccCEEEecCCccCcCChhHhccCccccEEECcCCcccceECcccccccccCCEEeCCCCccCc
Confidence            333444444444  2255666666666665542  2355666666666666543 3344445666666666666665554


Q ss_pred             cCCccccCCCCCCEEeccCCCCcc-cchh--hhcCCCCCEEeccCCcCCCCC-chhhhhccccCceeeccc
Q 038398          555 KLPSGISTLVSLEHLDLSSTAITH-LPIE--LQKLVNLKCLNLEYMNNLNQF-PRLVISAFSKLQVLRMFD  621 (720)
Q Consensus       555 ~lp~~i~~l~~L~~L~L~~~~i~~-lp~~--i~~l~~L~~L~l~~~~~l~~l-p~~~~~~l~~L~~L~~~~  621 (720)
                      ..|..++++++|++|++++|.++. +|..  +.++++|++|++++| .+..+ |...++.+++|+.|++.+
T Consensus        94 ~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~~~l~~L~~L~L~~n-~l~~~~~~~~~~~l~~L~~L~L~~  163 (455)
T 3v47_A           94 LETGAFNGLANLEVLTLTQCNLDGAVLSGNFFKPLTSLEMLVLRDN-NIKKIQPASFFLNMRRFHVLDLTF  163 (455)
T ss_dssp             ECTTTTTTCTTCCEEECTTSCCBTHHHHSSTTTTCTTCCEEECCSS-BCCSCCCCGGGGGCTTCCEEECTT
T ss_pred             cChhhccCcccCCEEeCCCCCCCccccCcccccCcccCCEEECCCC-ccCccCcccccCCCCcccEEeCCC
Confidence            455566666666666666666553 2333  555666666666553 33333 322244555555555443

>3rfs_A Internalin B, repeat modules, variable lymphocyte B; LRR, protein binding, plasma; 1.70A {Listeria monocytogenes} PDB: 3rfj_A

Probab=99.64  E-value=2.1e-15  Score=152.37  Aligned_cols=199  Identities=18%  Similarity=0.181  Sum_probs=151.6

Q ss_pred             cCcccccccceeEEEecccccccCCCCCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCccCCccccCCCC
Q 038398          486 EAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVS  565 (720)
Q Consensus       486 ~~~~~~~~~~l~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~  565 (720)
                      +......+++++.|++.+|.+..++.+..+++|++|++++|.+..++  .+..+++|++|+|++|.+.+..|..++.+++
T Consensus        33 ~~~~~~~l~~L~~L~l~~~~i~~~~~l~~l~~L~~L~l~~n~l~~~~--~l~~l~~L~~L~L~~n~l~~~~~~~~~~l~~  110 (272)
T 3rfs_A           33 DAVTQNELNSIDQIIANNSDIKSVQGIQYLPNVRYLALGGNKLHDIS--ALKELTNLTYLILTGNQLQSLPNGVFDKLTN  110 (272)
T ss_dssp             SEECHHHHTTCCEEECTTSCCCCCTTGGGCTTCCEEECTTSCCCCCG--GGTTCTTCCEEECTTSCCCCCCTTTTTTCTT
T ss_pred             cccccccccceeeeeeCCCCcccccccccCCCCcEEECCCCCCCCch--hhcCCCCCCEEECCCCccCccChhHhcCCcC
Confidence            34456678899999999999998888889999999999999988865  3889999999999999776666666899999


Q ss_pred             CCEEeccCCCCcccchh-hhcCCCCCEEeccCCcCCCCCchhhhhccccCceeeccccCCCcccchhcccccCCccccHH
Q 038398          566 LEHLDLSSTAITHLPIE-LQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKINVLFGGHQFLVE  644 (720)
Q Consensus       566 L~~L~L~~~~i~~lp~~-i~~l~~L~~L~l~~~~~l~~lp~~~~~~l~~L~~L~~~~~~~~~l~~l~~~~~~~~~~~~~~  644 (720)
                      |++|++++|.++.+|.. +.++++|++|++++| .+..+|...++.+++|+.|++.++   .+..++           ..
T Consensus       111 L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n-~l~~~~~~~~~~l~~L~~L~l~~n---~l~~~~-----------~~  175 (272)
T 3rfs_A          111 LKELVLVENQLQSLPDGVFDKLTNLTYLNLAHN-QLQSLPKGVFDKLTNLTELDLSYN---QLQSLP-----------EG  175 (272)
T ss_dssp             CCEEECTTSCCCCCCTTTTTTCTTCCEEECCSS-CCCCCCTTTTTTCTTCCEEECCSS---CCCCCC-----------TT
T ss_pred             CCEEECCCCcCCccCHHHhccCCCCCEEECCCC-ccCccCHHHhccCccCCEEECCCC---CcCccC-----------HH
Confidence            99999999999988765 789999999999995 678888766788889998888765   333222           12


Q ss_pred             HhcCCCCCceeEEEecchhhHHHHhhhhhhhhhccccccccccCCCccccccccccCCcceeeecCC
Q 038398          645 ELMGMKHLMVLTITLKSWQALKELLISQELQRSTQSLFLRCFNDSKSLDIFCLAGLRNLNKLYVAGC  711 (720)
Q Consensus       645 ~l~~l~~L~~L~~~~~~~~~l~~l~~~~~~~~~L~~L~l~~~~~l~~l~~~~l~~l~~L~~L~l~~c  711 (720)
                      .+..+++|+.|.++.|.+..+..  .....+++|+.|++++++-.        +.+++|+.|++..|
T Consensus       176 ~~~~l~~L~~L~L~~N~l~~~~~--~~~~~l~~L~~L~l~~N~~~--------~~~~~l~~l~~~~n  232 (272)
T 3rfs_A          176 VFDKLTQLKDLRLYQNQLKSVPD--GVFDRLTSLQYIWLHDNPWD--------CTCPGIRYLSEWIN  232 (272)
T ss_dssp             TTTTCTTCCEEECCSSCCSCCCT--TTTTTCTTCCEEECCSSCBC--------CCTTTTHHHHHHHH
T ss_pred             HhcCCccCCEEECCCCcCCccCH--HHHhCCcCCCEEEccCCCcc--------ccCcHHHHHHHHHH
Confidence            35667888888888877664322  22344567888888774321        23445555555444

>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=99.64  E-value=8.5e-16  Score=174.31  Aligned_cols=126  Identities=21%  Similarity=0.267  Sum_probs=67.5

Q ss_pred             cceeEEEecccccccCCC--CCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCccCCccccCCCCCCEEec
Q 038398          494 RNVRRMSLMKNKIENLSE--TPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDL  571 (720)
Q Consensus       494 ~~l~~L~l~~~~~~~~~~--~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L  571 (720)
                      +++++|++++|.+..++.  +.++++|++|++++|.++.+++..|.++++|++|+|++|.+.+..|..|+++++|++|++
T Consensus        32 ~~l~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~i~~~~~~~l~~L~~L~Ls~n~l~~~~p~~~~~l~~L~~L~L  111 (606)
T 3vq2_A           32 SSTKNIDLSFNPLKILKSYSFSNFSELQWLDLSRCEIETIEDKAWHGLHHLSNLILTGNPIQSFSPGSFSGLTSLENLVA  111 (606)
T ss_dssp             TTCCEEECTTSCCCEECTTTTTTCTTCCEEECTTCCCCEECTTTTTTCTTCCEEECTTCCCCCCCTTSSTTCTTCCEEEC
T ss_pred             CCcCEEECCCCCcCEeChhhccCCccCcEEeCCCCcccccCHHHhhchhhcCEeECCCCcccccChhhcCCcccCCEEEc
Confidence            455566666655554433  345555666666655555555544555555666666555444444555555555555555


Q ss_pred             cCCCCcccc-hhhhcCCCCCEEeccCCcCCC--CCchhhhhccccCceeeccc
Q 038398          572 SSTAITHLP-IELQKLVNLKCLNLEYMNNLN--QFPRLVISAFSKLQVLRMFD  621 (720)
Q Consensus       572 ~~~~i~~lp-~~i~~l~~L~~L~l~~~~~l~--~lp~~~~~~l~~L~~L~~~~  621 (720)
                      ++|.++.+| ..++++++|++|++++| .+.  .+|.. ++.+++|++|++.+
T Consensus       112 ~~n~l~~~~~~~~~~l~~L~~L~L~~n-~l~~~~lp~~-~~~l~~L~~L~Ls~  162 (606)
T 3vq2_A          112 VETKLASLESFPIGQLITLKKLNVAHN-FIHSCKLPAY-FSNLTNLVHVDLSY  162 (606)
T ss_dssp             TTSCCCCSSSSCCTTCTTCCEEECCSS-CCCCCCCCGG-GGTCTTCCEEECCS
T ss_pred             cCCccccccccccCCCCCCCEEeCCCC-cccceechHh-HhhcCCCCEEEccC
Confidence            555555544 34555555555555553 232  23432 45555555555443

>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=99.63  E-value=8.2e-16  Score=161.85  Aligned_cols=201  Identities=20%  Similarity=0.219  Sum_probs=141.5

Q ss_pred             cceeEEEecccccccCCCCCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCccCCccccCCCCCCEEeccC
Q 038398          494 RNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSS  573 (720)
Q Consensus       494 ~~l~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~  573 (720)
                      +.....+++++.+..+|.. -.++|++|++++|.++.+++..|.++++|++|+|++|.+.+..|..++++++|++|++++
T Consensus        31 ~~~~~c~~~~~~l~~iP~~-~~~~L~~L~l~~n~i~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~Ls~  109 (353)
T 2z80_A           31 DRNGICKGSSGSLNSIPSG-LTEAVKSLDLSNNRITYISNSDLQRCVNLQALVLTSNGINTIEEDSFSSLGSLEHLDLSY  109 (353)
T ss_dssp             CTTSEEECCSTTCSSCCTT-CCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECCS
T ss_pred             CCCeEeeCCCCCccccccc-ccccCcEEECCCCcCcccCHHHhccCCCCCEEECCCCccCccCHhhcCCCCCCCEEECCC
Confidence            3344578888889888763 336899999999999999887799999999999999977766678899999999999999


Q ss_pred             CCCcccchh-hhcCCCCCEEeccCCcCCCCCch-hhhhccccCceeeccccCCCcccchhcccccCCccccHHHhcCCCC
Q 038398          574 TAITHLPIE-LQKLVNLKCLNLEYMNNLNQFPR-LVISAFSKLQVLRMFDCGGSKIERLKINVLFGGHQFLVEELMGMKH  651 (720)
Q Consensus       574 ~~i~~lp~~-i~~l~~L~~L~l~~~~~l~~lp~-~~~~~l~~L~~L~~~~~~~~~l~~l~~~~~~~~~~~~~~~l~~l~~  651 (720)
                      |.++.+|.. +.++++|++|++++ +.+..+|. ..++.+++|++|++.++.  .+..++           ...+..+++
T Consensus       110 n~l~~~~~~~~~~l~~L~~L~L~~-n~l~~l~~~~~~~~l~~L~~L~l~~n~--~~~~~~-----------~~~~~~l~~  175 (353)
T 2z80_A          110 NYLSNLSSSWFKPLSSLTFLNLLG-NPYKTLGETSLFSHLTKLQILRVGNMD--TFTKIQ-----------RKDFAGLTF  175 (353)
T ss_dssp             SCCSSCCHHHHTTCTTCSEEECTT-CCCSSSCSSCSCTTCTTCCEEEEEESS--SCCEEC-----------TTTTTTCCE
T ss_pred             CcCCcCCHhHhCCCccCCEEECCC-CCCcccCchhhhccCCCCcEEECCCCc--cccccC-----------HHHccCCCC
Confidence            999999877 89999999999999 56778887 457889999999988753  122111           122344555


Q ss_pred             CceeEEEecchhhHHHHhhhhhhhhhccccccccccCCCccccccccccCCcceeeecCCC
Q 038398          652 LMVLTITLKSWQALKELLISQELQRSTQSLFLRCFNDSKSLDIFCLAGLRNLNKLYVAGCK  712 (720)
Q Consensus       652 L~~L~~~~~~~~~l~~l~~~~~~~~~L~~L~l~~~~~l~~l~~~~l~~l~~L~~L~l~~c~  712 (720)
                      |+.|.++.|.+....  +.....+++|+.|++++ +.+..++...+..+++|+.|++++|.
T Consensus       176 L~~L~l~~n~l~~~~--~~~l~~l~~L~~L~l~~-n~l~~~~~~~~~~~~~L~~L~L~~n~  233 (353)
T 2z80_A          176 LEELEIDASDLQSYE--PKSLKSIQNVSHLILHM-KQHILLLEIFVDVTSSVECLELRDTD  233 (353)
T ss_dssp             EEEEEEEETTCCEEC--TTTTTTCSEEEEEEEEC-SCSTTHHHHHHHHTTTEEEEEEESCB
T ss_pred             CCEEECCCCCcCccC--HHHHhccccCCeecCCC-CccccchhhhhhhcccccEEECCCCc
Confidence            555555555443321  12223334555555554 22444443334445555555555553

>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=99.63  E-value=2.1e-15  Score=157.13  Aligned_cols=203  Identities=16%  Similarity=0.178  Sum_probs=137.9

Q ss_pred             ccccccceeEEEecccccccCCCCCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCc--cCCccccCCCCC
Q 038398          489 EIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLW--KLPSGISTLVSL  566 (720)
Q Consensus       489 ~~~~~~~l~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~--~lp~~i~~l~~L  566 (720)
                      .+..+++|++|++++|.+..+|... .++|++|++++|.+..+++..|.++++|++|++++|.+..  ..|..+.++++|
T Consensus        95 ~~~~l~~L~~L~Ls~n~l~~l~~~~-~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~~l~~L  173 (330)
T 1xku_A           95 AFAPLVKLERLYLSKNQLKELPEKM-PKTLQELRVHENEITKVRKSVFNGLNQMIVVELGTNPLKSSGIENGAFQGMKKL  173 (330)
T ss_dssp             TTTTCTTCCEEECCSSCCSBCCSSC-CTTCCEEECCSSCCCBBCHHHHTTCTTCCEEECCSSCCCGGGBCTTGGGGCTTC
T ss_pred             HhcCCCCCCEEECCCCcCCccChhh-cccccEEECCCCcccccCHhHhcCCccccEEECCCCcCCccCcChhhccCCCCc
Confidence            4666777888888887777665432 2678888888888777777778888888888888886532  556777888888


Q ss_pred             CEEeccCCCCcccchhhhcCCCCCEEeccCCcCCCCCchhhhhccccCceeeccccCCCcccchhcccccCCccccHHHh
Q 038398          567 EHLDLSSTAITHLPIELQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKINVLFGGHQFLVEEL  646 (720)
Q Consensus       567 ~~L~L~~~~i~~lp~~i~~l~~L~~L~l~~~~~l~~lp~~~~~~l~~L~~L~~~~~~~~~l~~l~~~~~~~~~~~~~~~l  646 (720)
                      ++|++++|.++.+|..+.  ++|++|++++| .+..++...+..+++|+.|++.++   .+..++           ...+
T Consensus       174 ~~L~l~~n~l~~l~~~~~--~~L~~L~l~~n-~l~~~~~~~~~~l~~L~~L~Ls~n---~l~~~~-----------~~~~  236 (330)
T 1xku_A          174 SYIRIADTNITTIPQGLP--PSLTELHLDGN-KITKVDAASLKGLNNLAKLGLSFN---SISAVD-----------NGSL  236 (330)
T ss_dssp             CEEECCSSCCCSCCSSCC--TTCSEEECTTS-CCCEECTGGGTTCTTCCEEECCSS---CCCEEC-----------TTTG
T ss_pred             CEEECCCCccccCCcccc--ccCCEEECCCC-cCCccCHHHhcCCCCCCEEECCCC---cCceeC-----------hhhc
Confidence            888888888888876553  78888888874 455554444677777777776653   332221           1235


Q ss_pred             cCCCCCceeEEEecchhhHHHHhhhhhhhhhccccccccccCCCccccccccc------cCCcceeeecCCCC
Q 038398          647 MGMKHLMVLTITLKSWQALKELLISQELQRSTQSLFLRCFNDSKSLDIFCLAG------LRNLNKLYVAGCKH  713 (720)
Q Consensus       647 ~~l~~L~~L~~~~~~~~~l~~l~~~~~~~~~L~~L~l~~~~~l~~l~~~~l~~------l~~L~~L~l~~c~~  713 (720)
                      ..+++|+.|.+++|.+..+   +.....+++|+.|++++ +.++.++...|..      .+.|+.|++++|+.
T Consensus       237 ~~l~~L~~L~L~~N~l~~l---p~~l~~l~~L~~L~l~~-N~i~~~~~~~f~~~~~~~~~~~l~~l~l~~N~~  305 (330)
T 1xku_A          237 ANTPHLRELHLNNNKLVKV---PGGLADHKYIQVVYLHN-NNISAIGSNDFCPPGYNTKKASYSGVSLFSNPV  305 (330)
T ss_dssp             GGSTTCCEEECCSSCCSSC---CTTTTTCSSCCEEECCS-SCCCCCCTTSSSCSSCCTTSCCCSEEECCSSSS
T ss_pred             cCCCCCCEEECCCCcCccC---ChhhccCCCcCEEECCC-CcCCccChhhcCCcccccccccccceEeecCcc
Confidence            5667788888877766533   33344456778888876 4466666555532      36677777777764

>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=99.63  E-value=3.1e-15  Score=169.65  Aligned_cols=126  Identities=20%  Similarity=0.297  Sum_probs=108.8

Q ss_pred             ccccccceeEEEecccccccCCC--CCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCccCCccccCCCCC
Q 038398          489 EIQNWRNVRRMSLMKNKIENLSE--TPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVSL  566 (720)
Q Consensus       489 ~~~~~~~l~~L~l~~~~~~~~~~--~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L  566 (720)
                      .+..+++|++|++++|.+..++.  +.++++|++|++++|.++.+++..|.++++|++|+|++|.+.+..|..++++++|
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            57889999999999999988743  5789999999999999999988789999999999999997766666889999999


Q ss_pred             CEEeccCCCCc--ccchhhhcCCCCCEEeccCCcCCCCCchhhhhccccCc
Q 038398          567 EHLDLSSTAIT--HLPIELQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQ  615 (720)
Q Consensus       567 ~~L~L~~~~i~--~lp~~i~~l~~L~~L~l~~~~~l~~lp~~~~~~l~~L~  615 (720)
                      ++|++++|.++  .+|..++++++|++|++++| .+..++...++.+++|+
T Consensus       131 ~~L~L~~n~l~~~~lp~~~~~l~~L~~L~Ls~n-~l~~~~~~~~~~l~~L~  180 (606)
T 3vq2_A          131 KKLNVAHNFIHSCKLPAYFSNLTNLVHVDLSYN-YIQTITVNDLQFLRENP  180 (606)
T ss_dssp             CEEECCSSCCCCCCCCGGGGTCTTCCEEECCSS-CCCEECTTTTHHHHHCT
T ss_pred             CEEeCCCCcccceechHhHhhcCCCCEEEccCC-cceecChhhhhhhhccc
Confidence            99999999998  47999999999999999995 56666554466666654

>3zyj_A Leucine-rich repeat-containing protein 4C; cell adhesion, synapse; HET: NAG BMA MAN; 3.25A {Homo sapiens}

Probab=99.62  E-value=9.9e-16  Score=166.31  Aligned_cols=211  Identities=16%  Similarity=0.216  Sum_probs=159.7

Q ss_pred             ceeEEEecccccccCCCCCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCccCCccccCCCCCCEEeccCC
Q 038398          495 NVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSST  574 (720)
Q Consensus       495 ~l~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~~  574 (720)
                      ..+.++..++.+..+|.. -.++++.|++++|.++.+++..|.++++|++|+|++|.+....|..|.++++|++|+|++|
T Consensus        44 ~~~~v~c~~~~l~~iP~~-~~~~l~~L~L~~n~i~~~~~~~~~~l~~L~~L~Ls~n~i~~i~~~~~~~l~~L~~L~L~~n  122 (440)
T 3zyj_A           44 QFSKVICVRKNLREVPDG-ISTNTRLLNLHENQIQIIKVNSFKHLRHLEILQLSRNHIRTIEIGAFNGLANLNTLELFDN  122 (440)
T ss_dssp             TSCEEECCSCCCSSCCSC-CCTTCSEEECCSCCCCEECTTTTSSCSSCCEEECCSSCCCEECGGGGTTCSSCCEEECCSS
T ss_pred             CCCEEEeCCCCcCcCCCC-CCCCCcEEEccCCcCCeeCHHHhhCCCCCCEEECCCCcCCccChhhccCCccCCEEECCCC
Confidence            356788888888888763 2378999999999999998888999999999999999777666788999999999999999


Q ss_pred             CCcccch-hhhcCCCCCEEeccCCcCCCCCchhhhhccccCceeeccccCCCcccchhcccccCC-----------cccc
Q 038398          575 AITHLPI-ELQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKINVLFGG-----------HQFL  642 (720)
Q Consensus       575 ~i~~lp~-~i~~l~~L~~L~l~~~~~l~~lp~~~~~~l~~L~~L~~~~~~~~~l~~l~~~~~~~~-----------~~~~  642 (720)
                      .++.+|. .|..+++|++|++++ +.+..+|...+..+++|+.|++.++..  +..++...+.+.           .-..
T Consensus       123 ~l~~~~~~~~~~l~~L~~L~L~~-N~i~~~~~~~~~~l~~L~~L~l~~~~~--l~~i~~~~~~~l~~L~~L~L~~n~l~~  199 (440)
T 3zyj_A          123 RLTTIPNGAFVYLSKLKELWLRN-NPIESIPSYAFNRIPSLRRLDLGELKR--LSYISEGAFEGLSNLRYLNLAMCNLRE  199 (440)
T ss_dssp             CCSSCCTTTSCSCSSCCEEECCS-CCCCEECTTTTTTCTTCCEEECCCCTT--CCEECTTTTTTCSSCCEEECTTSCCSS
T ss_pred             cCCeeCHhHhhccccCceeeCCC-CcccccCHHHhhhCcccCEeCCCCCCC--cceeCcchhhcccccCeecCCCCcCcc
Confidence            9999986 489999999999999 567888877788999999999887532  222222111110           0111


Q ss_pred             HHHhcCCCCCceeEEEecchhhHHHHhhhhhhhhhccccccccccCCCccccccccccCCcceeeecCCC
Q 038398          643 VEELMGMKHLMVLTITLKSWQALKELLISQELQRSTQSLFLRCFNDSKSLDIFCLAGLRNLNKLYVAGCK  712 (720)
Q Consensus       643 ~~~l~~l~~L~~L~~~~~~~~~l~~l~~~~~~~~~L~~L~l~~~~~l~~l~~~~l~~l~~L~~L~l~~c~  712 (720)
                      +..+..+++|+.|+++.|.+..+.  +..+..+++|+.|++++ +.+..++...|.++++|+.|+|++|.
T Consensus       200 ~~~~~~l~~L~~L~Ls~N~l~~~~--~~~~~~l~~L~~L~L~~-n~l~~~~~~~~~~l~~L~~L~L~~N~  266 (440)
T 3zyj_A          200 IPNLTPLIKLDELDLSGNHLSAIR--PGSFQGLMHLQKLWMIQ-SQIQVIERNAFDNLQSLVEINLAHNN  266 (440)
T ss_dssp             CCCCTTCSSCCEEECTTSCCCEEC--TTTTTTCTTCCEEECTT-CCCCEECTTSSTTCTTCCEEECTTSC
T ss_pred             ccccCCCcccCEEECCCCccCccC--hhhhccCccCCEEECCC-CceeEEChhhhcCCCCCCEEECCCCC
Confidence            223556677777777777665432  23344556888888887 55677776778888899999998874

>4ecn_A Leucine-rich repeat protein; leucine-rich repeats, DUF4458 domain, protein binding, extra protein, structural genomics; 2.80A {Bacteroides thetaiotaomicron}

Probab=99.62  E-value=2.5e-16  Score=182.30  Aligned_cols=130  Identities=18%  Similarity=0.248  Sum_probs=88.6

Q ss_pred             ccccccceeEEEeccccccc------------------CCCC-C--CCCcccEEEccCCCCcCcchHHhccCCcccEEEc
Q 038398          489 EIQNWRNVRRMSLMKNKIEN------------------LSET-P--TCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNM  547 (720)
Q Consensus       489 ~~~~~~~l~~L~l~~~~~~~------------------~~~~-~--~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L  547 (720)
                      .+..+++|+.|++++|.+..                  +|.. .  .+++|++|++++|.+....|..|.++++|++|+|
T Consensus       443 ~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~L  522 (876)
T 4ecn_A          443 AIQRLTKLQIIYFANSPFTYDNIAVDWEDANSDYAKQYENEELSWSNLKDLTDVELYNCPNMTQLPDFLYDLPELQSLNI  522 (876)
T ss_dssp             GGGGCTTCCEEEEESCCCCGGGBSSSCSCTTSHHHHHHTTSCCCGGGCTTCCEEEEESCTTCCSCCGGGGGCSSCCEEEC
T ss_pred             HHhcCCCCCEEECcCCcCCCCcccccccccccccccccCChhhhhccCCCCCEEECcCCCCCccChHHHhCCCCCCEEEC
Confidence            46677778888888887776                  5553 3  6777888888877655555555777778888888


Q ss_pred             cCCC-CCc-cCCccccCCC-------CCCEEeccCCCCcccch--hhhcCCCCCEEeccCCcCCCCCchhhhhccccCce
Q 038398          548 SNNH-LLW-KLPSGISTLV-------SLEHLDLSSTAITHLPI--ELQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQV  616 (720)
Q Consensus       548 ~~~~-~~~-~lp~~i~~l~-------~L~~L~L~~~~i~~lp~--~i~~l~~L~~L~l~~~~~l~~lp~~~~~~l~~L~~  616 (720)
                      ++|+ +.+ .+|..++.+.       +|++|+|++|.++.+|.  .++++++|+.|++++| .+..+|.  ++.+++|+.
T Consensus       523 s~N~~lsg~~iP~~i~~L~~~~~~l~~L~~L~Ls~N~L~~ip~~~~l~~L~~L~~L~Ls~N-~l~~lp~--~~~L~~L~~  599 (876)
T 4ecn_A          523 ACNRGISAAQLKADWTRLADDEDTGPKIQIFYMGYNNLEEFPASASLQKMVKLGLLDCVHN-KVRHLEA--FGTNVKLTD  599 (876)
T ss_dssp             TTCTTSCHHHHHHHHHHHHHCTTTTTTCCEEECCSSCCCBCCCHHHHTTCTTCCEEECTTS-CCCBCCC--CCTTSEESE
T ss_pred             cCCCCcccccchHHHHhhhhcccccCCccEEEeeCCcCCccCChhhhhcCCCCCEEECCCC-Ccccchh--hcCCCcceE
Confidence            7776 555 5666555554       77777777777777776  6777777777777764 3446662  556666665


Q ss_pred             eeccc
Q 038398          617 LRMFD  621 (720)
Q Consensus       617 L~~~~  621 (720)
                      |++.+
T Consensus       600 L~Ls~  604 (876)
T 4ecn_A          600 LKLDY  604 (876)
T ss_dssp             EECCS
T ss_pred             EECcC
Confidence            55544

>3bz5_A Internalin-J, INLJ; leucine rich repeat (LRR), cysteine ladder, asparagine ladder, virulence factor, solenoid, cell WALL; 2.70A {Listeria monocytogenes}

Probab=99.62  E-value=4.4e-15  Score=161.36  Aligned_cols=221  Identities=17%  Similarity=0.146  Sum_probs=149.3

Q ss_pred             EEEEcCCCCccCcccccccceeEEEecccccccCCCCCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCcc
Q 038398          476 FLVHAGLGLTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWK  555 (720)
Q Consensus       476 ~~~~~~~~~~~~~~~~~~~~l~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~  555 (720)
                      .+...+......|.+..+++|++|++++|.+..++ +..+++|++|++++|.++.++   +.++++|++|++++|.+. .
T Consensus        46 ~L~Ls~n~l~~~~~l~~l~~L~~L~Ls~n~l~~~~-~~~l~~L~~L~Ls~N~l~~~~---~~~l~~L~~L~L~~N~l~-~  120 (457)
T 3bz5_A           46 SLDCHNSSITDMTGIEKLTGLTKLICTSNNITTLD-LSQNTNLTYLACDSNKLTNLD---VTPLTKLTYLNCDTNKLT-K  120 (457)
T ss_dssp             EEECCSSCCCCCTTGGGCTTCSEEECCSSCCSCCC-CTTCTTCSEEECCSSCCSCCC---CTTCTTCCEEECCSSCCS-C
T ss_pred             EEEccCCCcccChhhcccCCCCEEEccCCcCCeEc-cccCCCCCEEECcCCCCceee---cCCCCcCCEEECCCCcCC-e
Confidence            44445555556667888889999999999888875 778889999999999888874   788899999999998555 4


Q ss_pred             CCccccCCCCCCEEeccCCCCcccchhhhcCCCCCEEeccCCcCCCCCchhhhhccccCceeeccccCCCcccchhcccc
Q 038398          556 LPSGISTLVSLEHLDLSSTAITHLPIELQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKINVL  635 (720)
Q Consensus       556 lp~~i~~l~~L~~L~L~~~~i~~lp~~i~~l~~L~~L~l~~~~~l~~lp~~~~~~l~~L~~L~~~~~~~~~l~~l~~~~~  635 (720)
                      +|  ++.+++|++|++++|.++.+|  ++++++|+.|++++|..+..++   ++.+++|+.|++.++   .+..++....
T Consensus       121 l~--~~~l~~L~~L~l~~N~l~~l~--l~~l~~L~~L~l~~n~~~~~~~---~~~l~~L~~L~ls~n---~l~~l~l~~l  190 (457)
T 3bz5_A          121 LD--VSQNPLLTYLNCARNTLTEID--VSHNTQLTELDCHLNKKITKLD---VTPQTQLTTLDCSFN---KITELDVSQN  190 (457)
T ss_dssp             CC--CTTCTTCCEEECTTSCCSCCC--CTTCTTCCEEECTTCSCCCCCC---CTTCTTCCEEECCSS---CCCCCCCTTC
T ss_pred             ec--CCCCCcCCEEECCCCccceec--cccCCcCCEEECCCCCcccccc---cccCCcCCEEECCCC---ccceeccccC
Confidence            55  888899999999999888875  7888899999998876666663   567778887777654   3333332111


Q ss_pred             cCCc-------cccHHHhcCCCCCceeEEEecchhhHHHHhhhhhhhhhccccccccccCCCccccccccccC-------
Q 038398          636 FGGH-------QFLVEELMGMKHLMVLTITLKSWQALKELLISQELQRSTQSLFLRCFNDSKSLDIFCLAGLR-------  701 (720)
Q Consensus       636 ~~~~-------~~~~~~l~~l~~L~~L~~~~~~~~~l~~l~~~~~~~~~L~~L~l~~~~~l~~l~~~~l~~l~-------  701 (720)
                      ....       ...-..++.+++|+.|+++.|.+..++     ...+++|+.|++++ +.++.++...+.++.       
T Consensus       191 ~~L~~L~l~~N~l~~~~l~~l~~L~~L~Ls~N~l~~ip-----~~~l~~L~~L~l~~-N~l~~~~~~~l~~L~~L~l~~n  264 (457)
T 3bz5_A          191 KLLNRLNCDTNNITKLDLNQNIQLTFLDCSSNKLTEID-----VTPLTQLTYFDCSV-NPLTELDVSTLSKLTTLHCIQT  264 (457)
T ss_dssp             TTCCEEECCSSCCSCCCCTTCTTCSEEECCSSCCSCCC-----CTTCTTCSEEECCS-SCCSCCCCTTCTTCCEEECTTC
T ss_pred             CCCCEEECcCCcCCeeccccCCCCCEEECcCCcccccC-----ccccCCCCEEEeeC-CcCCCcCHHHCCCCCEEeccCC
Confidence            1000       000013556677777777777666532     33445777777776 445555544444433       


Q ss_pred             CcceeeecCCCCCccc
Q 038398          702 NLNKLYVAGCKHLEDS  717 (720)
Q Consensus       702 ~L~~L~l~~c~~l~~i  717 (720)
                      +|+.|++++|+.+..+
T Consensus       265 ~L~~L~l~~n~~~~~~  280 (457)
T 3bz5_A          265 DLLEIDLTHNTQLIYF  280 (457)
T ss_dssp             CCSCCCCTTCTTCCEE
T ss_pred             CCCEEECCCCccCCcc
Confidence            4556666666554443

>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=99.62  E-value=1.4e-15  Score=172.44  Aligned_cols=126  Identities=17%  Similarity=0.154  Sum_probs=69.7

Q ss_pred             ccccccceeEEEecccccccCCC--CCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCccCCccccCCCCC
Q 038398          489 EIQNWRNVRRMSLMKNKIENLSE--TPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVSL  566 (720)
Q Consensus       489 ~~~~~~~l~~L~l~~~~~~~~~~--~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L  566 (720)
                      .+..+++|++|++++|.+..+..  +.++++|++|++++|.+..+++..|.++++|++|++++|.+.+..|..++++++|
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            34555566666666665544321  3555666666666665555555555666666666666664443334555666666


Q ss_pred             CEEeccCCCCcccc-hhhhcCCCCCEEeccCCcCCCCCchhhhhccccCc
Q 038398          567 EHLDLSSTAITHLP-IELQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQ  615 (720)
Q Consensus       567 ~~L~L~~~~i~~lp-~~i~~l~~L~~L~l~~~~~l~~lp~~~~~~l~~L~  615 (720)
                      ++|++++|.++.++ +.+..+++|++|++++ +.+..++...++.+++|+
T Consensus       132 ~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~-n~l~~~~~~~~~~l~~L~  180 (606)
T 3t6q_A          132 ESLYLGSNHISSIKLPKGFPTEKLKVLDFQN-NAIHYLSKEDMSSLQQAT  180 (606)
T ss_dssp             CEEECCSSCCCCCCCCTTCCCTTCCEEECCS-SCCCEECHHHHHTTTTCC
T ss_pred             cEEECCCCcccccCcccccCCcccCEEEccc-CcccccChhhhhhhcccc
Confidence            66666666665542 2233366666666665 344444444456666666

>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=99.62  E-value=3.6e-15  Score=163.20  Aligned_cols=100  Identities=18%  Similarity=0.403  Sum_probs=64.9

Q ss_pred             EEEcCCCCccCcccccccceeEEEecccccccCCCCCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCccC
Q 038398          477 LVHAGLGLTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKL  556 (720)
Q Consensus       477 ~~~~~~~~~~~~~~~~~~~l~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~l  556 (720)
                      +...+.....++.+..+++|++|++++|.+..++.+..+++|++|++++|.+..+++  +.++++|++|++++|.+. .+
T Consensus        51 L~l~~~~i~~l~~~~~l~~L~~L~Ls~n~l~~~~~~~~l~~L~~L~l~~n~l~~~~~--~~~l~~L~~L~L~~n~l~-~~  127 (466)
T 1o6v_A           51 LQADRLGIKSIDGVEYLNNLTQINFSNNQLTDITPLKNLTKLVDILMNNNQIADITP--LANLTNLTGLTLFNNQIT-DI  127 (466)
T ss_dssp             EECCSSCCCCCTTGGGCTTCCEEECCSSCCCCCGGGTTCTTCCEEECCSSCCCCCGG--GTTCTTCCEEECCSSCCC-CC
T ss_pred             EecCCCCCccCcchhhhcCCCEEECCCCccCCchhhhccccCCEEECCCCccccChh--hcCCCCCCEEECCCCCCC-CC
Confidence            333444445556666777777777777777766666677777777777777766665  667777777777777433 34


Q ss_pred             CccccCCCCCCEEeccCCCCcccc
Q 038398          557 PSGISTLVSLEHLDLSSTAITHLP  580 (720)
Q Consensus       557 p~~i~~l~~L~~L~L~~~~i~~lp  580 (720)
                      |. +..+++|++|++++|.++.+|
T Consensus       128 ~~-~~~l~~L~~L~l~~n~l~~~~  150 (466)
T 1o6v_A          128 DP-LKNLTNLNRLELSSNTISDIS  150 (466)
T ss_dssp             GG-GTTCTTCSEEEEEEEEECCCG
T ss_pred             hH-HcCCCCCCEEECCCCccCCCh
Confidence            42 666666666666666655544

>1wwl_A Monocyte differentiation antigen CD14; LPS, immune system; HET: NAG; 2.50A {Mus musculus}

Probab=99.62  E-value=8.2e-16  Score=158.74  Aligned_cols=198  Identities=18%  Similarity=0.175  Sum_probs=153.6

Q ss_pred             cccceeEEEeccccccc-CCCC---CCCCcccEEEccCCCCcCcchHHhccC-----CcccEEEccCCCCCccCCccccC
Q 038398          492 NWRNVRRMSLMKNKIEN-LSET---PTCPHLLSLFLSDNSLKMSTDDFFQSM-----PSLRVFNMSNNHLLWKLPSGIST  562 (720)
Q Consensus       492 ~~~~l~~L~l~~~~~~~-~~~~---~~~~~L~~L~l~~~~~~~~~~~~~~~l-----~~L~~L~L~~~~~~~~lp~~i~~  562 (720)
                      .+++|++|++++|.+.. +|..   ..+++|++|++++|.++..+ ..+..+     ++|++|+|++|.+.+..|..++.
T Consensus        93 ~l~~L~~L~L~~n~l~~~~~~~~~~~~l~~L~~L~Ls~N~l~~~~-~~~~~l~~~~~~~L~~L~L~~N~l~~~~~~~~~~  171 (312)
T 1wwl_A           93 GISGLQELTLENLEVTGTAPPPLLEATGPDLNILNLRNVSWATRD-AWLAELQQWLKPGLKVLSIAQAHSLNFSCEQVRV  171 (312)
T ss_dssp             TTSCCCEEEEEEEBCBSCCCCCSSSCCSCCCSEEEEESCBCSSSS-SHHHHHHTTCCTTCCEEEEESCSCCCCCTTTCCC
T ss_pred             CcCCccEEEccCCcccchhHHHHHHhcCCCccEEEccCCCCcchh-HHHHHHHHhhcCCCcEEEeeCCCCccchHHHhcc
Confidence            46789999999999974 4442   67899999999999998885 447766     99999999999877767789999


Q ss_pred             CCCCCEEeccCCCCcc---cchhh--hcCCCCCEEeccCCcCCCCCch---hhhhccccCceeeccccCCCcccchhccc
Q 038398          563 LVSLEHLDLSSTAITH---LPIEL--QKLVNLKCLNLEYMNNLNQFPR---LVISAFSKLQVLRMFDCGGSKIERLKINV  634 (720)
Q Consensus       563 l~~L~~L~L~~~~i~~---lp~~i--~~l~~L~~L~l~~~~~l~~lp~---~~~~~l~~L~~L~~~~~~~~~l~~l~~~~  634 (720)
                      +++|++|++++|++..   +|..+  .++++|++|++++| .+..++.   ..+..+++|+.|++.+   |.+.....  
T Consensus       172 l~~L~~L~Ls~N~l~~~~~~~~~~~~~~l~~L~~L~L~~N-~l~~~~~~~~~~~~~l~~L~~L~Ls~---N~l~~~~~--  245 (312)
T 1wwl_A          172 FPALSTLDLSDNPELGERGLISALCPLKFPTLQVLALRNA-GMETPSGVCSALAAARVQLQGLDLSH---NSLRDAAG--  245 (312)
T ss_dssp             CSSCCEEECCSCTTCHHHHHHHHSCTTSCTTCCEEECTTS-CCCCHHHHHHHHHHTTCCCSEEECTT---SCCCSSCC--
T ss_pred             CCCCCEEECCCCCcCcchHHHHHHHhccCCCCCEEECCCC-cCcchHHHHHHHHhcCCCCCEEECCC---CcCCcccc--
Confidence            9999999999998753   45565  89999999999994 5664443   3345668888887775   44432210  


Q ss_pred             ccCCccccHHHhcCCCCCceeEEEecchhhHHHHhhhhhhhhhccccccccccCCCccccccccccCCcceeeecCCC
Q 038398          635 LFGGHQFLVEELMGMKHLMVLTITLKSWQALKELLISQELQRSTQSLFLRCFNDSKSLDIFCLAGLRNLNKLYVAGCK  712 (720)
Q Consensus       635 ~~~~~~~~~~~l~~l~~L~~L~~~~~~~~~l~~l~~~~~~~~~L~~L~l~~~~~l~~l~~~~l~~l~~L~~L~l~~c~  712 (720)
                              ...+..+++|+.|+++.|.+..++   ....  ++|+.|++++ +.++.+|  .+..+++|+.|+|++|+
T Consensus       246 --------~~~~~~l~~L~~L~Ls~N~l~~ip---~~~~--~~L~~L~Ls~-N~l~~~p--~~~~l~~L~~L~L~~N~  307 (312)
T 1wwl_A          246 --------APSCDWPSQLNSLNLSFTGLKQVP---KGLP--AKLSVLDLSY-NRLDRNP--SPDELPQVGNLSLKGNP  307 (312)
T ss_dssp             --------CSCCCCCTTCCEEECTTSCCSSCC---SSCC--SEEEEEECCS-SCCCSCC--CTTTSCEEEEEECTTCT
T ss_pred             --------hhhhhhcCCCCEEECCCCccChhh---hhcc--CCceEEECCC-CCCCCCh--hHhhCCCCCEEeccCCC
Confidence                    112345689999999999887443   2222  6999999998 6677776  38899999999999997

>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=99.62  E-value=3.4e-16  Score=154.97  Aligned_cols=196  Identities=14%  Similarity=0.240  Sum_probs=152.0

Q ss_pred             ccccccCCCCCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCccC-CccccCCCCCCEEeccC-CCCcccc
Q 038398          503 KNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKL-PSGISTLVSLEHLDLSS-TAITHLP  580 (720)
Q Consensus       503 ~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~l-p~~i~~l~~L~~L~L~~-~~i~~lp  580 (720)
                      .+.+..+|.  -.++|+.|++++|.++.+++..|.++++|++|++++|..+..+ +..+.++++|++|++++ |.++.+|
T Consensus        20 c~~l~~ip~--~~~~l~~L~l~~n~l~~i~~~~~~~l~~L~~L~l~~n~~l~~i~~~~f~~l~~L~~L~l~~~n~l~~i~   97 (239)
T 2xwt_C           20 CKDIQRIPS--LPPSTQTLKLIETHLRTIPSHAFSNLPNISRIYVSIDVTLQQLESHSFYNLSKVTHIEIRNTRNLTYID   97 (239)
T ss_dssp             ECSCSSCCC--CCTTCCEEEEESCCCSEECTTTTTTCTTCCEEEEECCSSCCEECTTTEESCTTCCEEEEEEETTCCEEC
T ss_pred             ccCccccCC--CCCcccEEEEeCCcceEECHHHccCCCCCcEEeCCCCCCcceeCHhHcCCCcCCcEEECCCCCCeeEcC
Confidence            334677776  3458999999999999999888999999999999999634455 45789999999999998 8999987


Q ss_pred             h-hhhcCCCCCEEeccCCcCCCCCchhhhhccccCceeeccccCCC-cccchhcccccCCccccHHHhcCCCCCc-eeEE
Q 038398          581 I-ELQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFDCGGS-KIERLKINVLFGGHQFLVEELMGMKHLM-VLTI  657 (720)
Q Consensus       581 ~-~i~~l~~L~~L~l~~~~~l~~lp~~~~~~l~~L~~L~~~~~~~~-~l~~l~~~~~~~~~~~~~~~l~~l~~L~-~L~~  657 (720)
                      . .|.++++|++|++++ +.+..+|.  ++.+++|+.|...+++.| .+..++.           ..+..+++|+ .|.+
T Consensus        98 ~~~f~~l~~L~~L~l~~-n~l~~lp~--~~~l~~L~~L~~L~l~~N~~l~~i~~-----------~~~~~l~~L~~~L~l  163 (239)
T 2xwt_C           98 PDALKELPLLKFLGIFN-TGLKMFPD--LTKVYSTDIFFILEITDNPYMTSIPV-----------NAFQGLCNETLTLKL  163 (239)
T ss_dssp             TTSEECCTTCCEEEEEE-ECCCSCCC--CTTCCBCCSEEEEEEESCTTCCEECT-----------TTTTTTBSSEEEEEC
T ss_pred             HHHhCCCCCCCEEeCCC-CCCccccc--cccccccccccEEECCCCcchhhcCc-----------ccccchhcceeEEEc
Confidence            5 588999999999999 46788887  788888883333444445 5544432           2356788999 9999


Q ss_pred             EecchhhHHHHhhhhhhhhhccccccccccCCCcccccccccc-CCcceeeecCCCCCcccc
Q 038398          658 TLKSWQALKELLISQELQRSTQSLFLRCFNDSKSLDIFCLAGL-RNLNKLYVAGCKHLEDSQ  718 (720)
Q Consensus       658 ~~~~~~~l~~l~~~~~~~~~L~~L~l~~~~~l~~l~~~~l~~l-~~L~~L~l~~c~~l~~i~  718 (720)
                      +.|.+..++..  .... ++|+.|+++++..++.++...|.++ ++|+.|++++|+ ++.++
T Consensus       164 ~~n~l~~i~~~--~~~~-~~L~~L~L~~n~~l~~i~~~~~~~l~~~L~~L~l~~N~-l~~l~  221 (239)
T 2xwt_C          164 YNNGFTSVQGY--AFNG-TKLDAVYLNKNKYLTVIDKDAFGGVYSGPSLLDVSQTS-VTALP  221 (239)
T ss_dssp             CSCCCCEECTT--TTTT-CEEEEEECTTCTTCCEECTTTTTTCSBCCSEEECTTCC-CCCCC
T ss_pred             CCCCCcccCHh--hcCC-CCCCEEEcCCCCCcccCCHHHhhccccCCcEEECCCCc-cccCC
Confidence            98887655431  2223 5899999998656888887789999 999999999976 44444

>4ecn_A Leucine-rich repeat protein; leucine-rich repeats, DUF4458 domain, protein binding, extra protein, structural genomics; 2.80A {Bacteroides thetaiotaomicron}

Probab=99.62  E-value=3.1e-15  Score=173.18  Aligned_cols=233  Identities=15%  Similarity=0.192  Sum_probs=139.8

Q ss_pred             cEEEEcCCCCccCcc---cccccceeEEEecccccccCCCCCCCCcccEEEccCCCCcCcchHHhccCCc-ccEEEccCC
Q 038398          475 NFLVHAGLGLTEAPE---IQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPS-LRVFNMSNN  550 (720)
Q Consensus       475 ~~~~~~~~~~~~~~~---~~~~~~l~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~-L~~L~L~~~  550 (720)
                      ..+...+.....+|.   +..+++|+.|++++|.+..+|.+..+++|+.|++++|.+..+|.. +.++++ |++|+|++|
T Consensus       551 ~~L~Ls~N~L~~ip~~~~l~~L~~L~~L~Ls~N~l~~lp~~~~L~~L~~L~Ls~N~l~~lp~~-l~~l~~~L~~L~Ls~N  629 (876)
T 4ecn_A          551 QIFYMGYNNLEEFPASASLQKMVKLGLLDCVHNKVRHLEAFGTNVKLTDLKLDYNQIEEIPED-FCAFTDQVEGLGFSHN  629 (876)
T ss_dssp             CEEECCSSCCCBCCCHHHHTTCTTCCEEECTTSCCCBCCCCCTTSEESEEECCSSCCSCCCTT-SCEECTTCCEEECCSS
T ss_pred             cEEEeeCCcCCccCChhhhhcCCCCCEEECCCCCcccchhhcCCCcceEEECcCCccccchHH-HhhccccCCEEECcCC
Confidence            344555555556655   778888888888888888888777888888888888888766655 777777 888888888


Q ss_pred             CCCccCCccccCCCC--CCEEeccCCCCcccch----hhh--cCCCCCEEeccCCcCCCCCchhhhhccccCceeecccc
Q 038398          551 HLLWKLPSGISTLVS--LEHLDLSSTAITHLPI----ELQ--KLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFDC  622 (720)
Q Consensus       551 ~~~~~lp~~i~~l~~--L~~L~L~~~~i~~lp~----~i~--~l~~L~~L~l~~~~~l~~lp~~~~~~l~~L~~L~~~~~  622 (720)
                      .+. .+|..++.+..  |++|++++|.++..++    .+.  .+++|+.|++++ +.+..+|...+..+++|+.|++.++
T Consensus       630 ~L~-~lp~~~~~~~~~~L~~L~Ls~N~l~g~ip~l~~~l~~~~~~~L~~L~Ls~-N~L~~lp~~~~~~l~~L~~L~Ls~N  707 (876)
T 4ecn_A          630 KLK-YIPNIFNAKSVYVMGSVDFSYNKIGSEGRNISCSMDDYKGINASTVTLSY-NEIQKFPTELFATGSPISTIILSNN  707 (876)
T ss_dssp             CCC-SCCSCCCTTCSSCEEEEECCSSCTTTTSSSCSSCTTTCCCCCEEEEECCS-SCCCSCCHHHHHTTCCCSEEECCSC
T ss_pred             CCC-cCchhhhccccCCCCEEECcCCcCCCccccchhhhccccCCCcCEEEccC-CcCCccCHHHHccCCCCCEEECCCC
Confidence            544 77766665543  6666666666543221    122  233566666665 3445566554445556665555443


Q ss_pred             CCCcccchhcccccCC-------------------ccccHHHhc--CCCCCceeEEEecchhhHHHHhhhhhhhhhcccc
Q 038398          623 GGSKIERLKINVLFGG-------------------HQFLVEELM--GMKHLMVLTITLKSWQALKELLISQELQRSTQSL  681 (720)
Q Consensus       623 ~~~~l~~l~~~~~~~~-------------------~~~~~~~l~--~l~~L~~L~~~~~~~~~l~~l~~~~~~~~~L~~L  681 (720)
                         .+..++...+...                   -..++..+.  .+++|+.|+++.|.+..   ++.....+++|+.|
T Consensus       708 ---~L~~ip~~~~~~~~~~l~nl~~L~~L~Ls~N~L~~lp~~l~~~~l~~L~~L~Ls~N~L~~---lp~~l~~L~~L~~L  781 (876)
T 4ecn_A          708 ---LMTSIPENSLKPKDGNYKNTYLLTTIDLRFNKLTSLSDDFRATTLPYLSNMDVSYNCFSS---FPTQPLNSSQLKAF  781 (876)
T ss_dssp             ---CCSCCCTTSSSCTTSCCTTGGGCCEEECCSSCCCCCCGGGSTTTCTTCCEEECCSSCCSS---CCCGGGGCTTCCEE
T ss_pred             ---cCCccChHHhccccccccccCCccEEECCCCCCccchHHhhhccCCCcCEEEeCCCCCCc---cchhhhcCCCCCEE
Confidence               2222222211100                   011233444  67777777777776665   33444455677777


Q ss_pred             ccccc------cCCCccccccccccCCcceeeecCCCCCcccc
Q 038398          682 FLRCF------NDSKSLDIFCLAGLRNLNKLYVAGCKHLEDSQ  718 (720)
Q Consensus       682 ~l~~~------~~l~~l~~~~l~~l~~L~~L~l~~c~~l~~i~  718 (720)
                      +|+++      +....+| ..+.++++|+.|+|++|.. ..||
T Consensus       782 ~Ls~N~~ls~N~l~~~ip-~~l~~L~~L~~L~Ls~N~L-~~Ip  822 (876)
T 4ecn_A          782 GIRHQRDAEGNRILRQWP-TGITTCPSLIQLQIGSNDI-RKVD  822 (876)
T ss_dssp             ECCCCBCTTCCBCCCCCC-TTGGGCSSCCEEECCSSCC-CBCC
T ss_pred             ECCCCCCcccccccccCh-HHHhcCCCCCEEECCCCCC-CccC
Confidence            77652      2223333 5566777777777777764 5554

>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=99.62  E-value=1.7e-15  Score=176.17  Aligned_cols=215  Identities=18%  Similarity=0.174  Sum_probs=141.1

Q ss_pred             cccccccceeEEEeccccccc-CCC-CCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCccCCccccCCCC
Q 038398          488 PEIQNWRNVRRMSLMKNKIEN-LSE-TPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVS  565 (720)
Q Consensus       488 ~~~~~~~~l~~L~l~~~~~~~-~~~-~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~  565 (720)
                      ..+..+++|+.|++++|.+.. +|. +..+++|++|++++|.+.+..+..+.++++|++|+|++|++.+.+|..++.+++
T Consensus       436 ~~l~~l~~L~~L~L~~n~l~~~~p~~~~~l~~L~~L~L~~N~l~~~~p~~l~~l~~L~~L~L~~N~l~~~~p~~~~~l~~  515 (768)
T 3rgz_A          436 SSLGSLSKLRDLKLWLNMLEGEIPQELMYVKTLETLILDFNDLTGEIPSGLSNCTNLNWISLSNNRLTGEIPKWIGRLEN  515 (768)
T ss_dssp             GGGGGCTTCCEEECCSSCCCSCCCGGGGGCTTCCEEECCSSCCCSCCCGGGGGCTTCCEEECCSSCCCSCCCGGGGGCTT
T ss_pred             HHHhcCCCCCEEECCCCcccCcCCHHHcCCCCceEEEecCCcccCcCCHHHhcCCCCCEEEccCCccCCcCChHHhcCCC
Confidence            356677788888888887763 332 356778888888888777666666788888888888888777778888888888


Q ss_pred             CCEEeccCCCCc-ccchhhhcCCCCCEEeccCCcCCCCCchhhhhccccCceeec-------------------------
Q 038398          566 LEHLDLSSTAIT-HLPIELQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRM-------------------------  619 (720)
Q Consensus       566 L~~L~L~~~~i~-~lp~~i~~l~~L~~L~l~~~~~l~~lp~~~~~~l~~L~~L~~-------------------------  619 (720)
                      |++|++++|.++ .+|..++++++|+.|++++|.....+|.. +..+..+..+..                         
T Consensus       516 L~~L~L~~N~l~~~~p~~l~~l~~L~~L~Ls~N~l~g~ip~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  594 (768)
T 3rgz_A          516 LAILKLSNNSFSGNIPAELGDCRSLIWLDLNTNLFNGTIPAA-MFKQSGKIAANFIAGKRYVYIKNDGMKKECHGAGNLL  594 (768)
T ss_dssp             CCEEECCSSCCEEECCGGGGGCTTCCEEECCSSEEESBCCGG-GGTTTTCBCCSTTCSCEEEEEECCSCCTTCCSSEEEE
T ss_pred             CCEEECCCCcccCcCCHHHcCCCCCCEEECCCCccCCcCChH-Hhcccchhhhhcccccccccccccccccccccccccc
Confidence            888888888776 67777888888888888886554467764 333222221111                         


Q ss_pred             ------------------------------------------cccCCCcccchhcccccCCccccHHHhcCCCCCceeEE
Q 038398          620 ------------------------------------------FDCGGSKIERLKINVLFGGHQFLVEELMGMKHLMVLTI  657 (720)
Q Consensus       620 ------------------------------------------~~~~~~~l~~l~~~~~~~~~~~~~~~l~~l~~L~~L~~  657 (720)
                                                                .+++.|.           .....+..++.++.|+.|++
T Consensus       595 ~~~~~~~~~~~~l~~~~~~~l~~~~~~g~~~~~~~~l~~L~~LdLs~N~-----------l~g~ip~~l~~l~~L~~L~L  663 (768)
T 3rgz_A          595 EFQGIRSEQLNRLSTRNPCNITSRVYGGHTSPTFDNNGSMMFLDMSYNM-----------LSGYIPKEIGSMPYLFILNL  663 (768)
T ss_dssp             ECTTCCGGGGGGGGGTCCSCTTSCEEEEECCCSCSSSBCCCEEECCSSC-----------CBSCCCGGGGGCTTCCEEEC
T ss_pred             ccccccchhhhccccccccccccceecccCchhhhccccccEEECcCCc-----------ccccCCHHHhccccCCEEeC
Confidence                                                      1111111           12234556677777777777


Q ss_pred             EecchhhHHHHhhhhhhhhhccccccccccCCCccccccccccCCcceeeecCCCCCccc
Q 038398          658 TLKSWQALKELLISQELQRSTQSLFLRCFNDSKSLDIFCLAGLRNLNKLYVAGCKHLEDS  717 (720)
Q Consensus       658 ~~~~~~~l~~l~~~~~~~~~L~~L~l~~~~~l~~l~~~~l~~l~~L~~L~l~~c~~l~~i  717 (720)
                      +.|.+..  .++.....+++|+.|+|++++-...+| ..+.++++|+.|+|++|+--..|
T Consensus       664 s~N~l~g--~ip~~l~~L~~L~~LdLs~N~l~g~ip-~~l~~l~~L~~L~ls~N~l~g~i  720 (768)
T 3rgz_A          664 GHNDISG--SIPDEVGDLRGLNILDLSSNKLDGRIP-QAMSALTMLTEIDLSNNNLSGPI  720 (768)
T ss_dssp             CSSCCCS--CCCGGGGGCTTCCEEECCSSCCEECCC-GGGGGCCCCSEEECCSSEEEEEC
T ss_pred             cCCccCC--CCChHHhCCCCCCEEECCCCcccCcCC-hHHhCCCCCCEEECcCCcccccC
Confidence            7776642  233445555677888887744333444 66777888888888877644333

>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=99.62  E-value=4.4e-16  Score=160.47  Aligned_cols=178  Identities=23%  Similarity=0.243  Sum_probs=111.5

Q ss_pred             ccceeEEEecccccccCCC-CCCCCcccEEEccCCCCcCcch-HHhccCCcccEEEccCCCCCccCCccccCCCCCCEEe
Q 038398          493 WRNVRRMSLMKNKIENLSE-TPTCPHLLSLFLSDNSLKMSTD-DFFQSMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLD  570 (720)
Q Consensus       493 ~~~l~~L~l~~~~~~~~~~-~~~~~~L~~L~l~~~~~~~~~~-~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~  570 (720)
                      +++|++|++++|.+..++. +..+++|++|++++|.++.+++ ..+..+++|++|++++|.+.+..|..+..+++|++|+
T Consensus        77 ~~~L~~L~Ls~n~i~~l~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~  156 (306)
T 2z66_A           77 TTSLKYLDLSFNGVITMSSNFLGLEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDISHTHTRVAFNGIFNGLSSLEVLK  156 (306)
T ss_dssp             CSCCCEEECCSCSEEEEEEEEETCTTCCEEECTTSEEESSTTTTTTTTCTTCCEEECTTSCCEECSTTTTTTCTTCCEEE
T ss_pred             ccccCEEECCCCccccChhhcCCCCCCCEEECCCCcccccccchhhhhccCCCEEECCCCcCCccchhhcccCcCCCEEE
Confidence            3444444444444443332 3456667777777766666554 3466777777777777766555666677777777777


Q ss_pred             ccCCCCcc--cchhhhcCCCCCEEeccCCcCCCCCchhhhhccccCceeeccccCCCcccchhcccccCCccccHHHhcC
Q 038398          571 LSSTAITH--LPIELQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKINVLFGGHQFLVEELMG  648 (720)
Q Consensus       571 L~~~~i~~--lp~~i~~l~~L~~L~l~~~~~l~~lp~~~~~~l~~L~~L~~~~~~~~~l~~l~~~~~~~~~~~~~~~l~~  648 (720)
                      +++|.++.  +|..+..+++|++|++++| .+..++...+..+++|+.|++.+   |.+..++           ...+..
T Consensus       157 l~~n~l~~~~~~~~~~~l~~L~~L~Ls~n-~l~~~~~~~~~~l~~L~~L~L~~---N~l~~~~-----------~~~~~~  221 (306)
T 2z66_A          157 MAGNSFQENFLPDIFTELRNLTFLDLSQC-QLEQLSPTAFNSLSSLQVLNMSH---NNFFSLD-----------TFPYKC  221 (306)
T ss_dssp             CTTCEEGGGEECSCCTTCTTCCEEECTTS-CCCEECTTTTTTCTTCCEEECTT---SCCSBCC-----------SGGGTT
T ss_pred             CCCCccccccchhHHhhCcCCCEEECCCC-CcCCcCHHHhcCCCCCCEEECCC---CccCccC-----------hhhccC
Confidence            77777664  5666777777777777773 45555443466666666666654   3332221           223677


Q ss_pred             CCCCceeEEEecchhhHHHHhhhhh-hhhhcccccccccc
Q 038398          649 MKHLMVLTITLKSWQALKELLISQE-LQRSTQSLFLRCFN  687 (720)
Q Consensus       649 l~~L~~L~~~~~~~~~l~~l~~~~~-~~~~L~~L~l~~~~  687 (720)
                      +++|+.|++++|.+....  +.... .+++|+.|++++++
T Consensus       222 l~~L~~L~L~~N~l~~~~--~~~~~~~~~~L~~L~L~~N~  259 (306)
T 2z66_A          222 LNSLQVLDYSLNHIMTSK--KQELQHFPSSLAFLNLTQND  259 (306)
T ss_dssp             CTTCCEEECTTSCCCBCS--SSSCCCCCTTCCEEECTTCC
T ss_pred             cccCCEeECCCCCCcccC--HHHHHhhhccCCEEEccCCC
Confidence            899999999988775432  11222 23589999999855

>2ft3_A Biglycan; proteoglycan, dimer interface, structural protein, signaling; HET: NAG FLC; 3.40A {Bos taurus}

Probab=99.62  E-value=1.4e-15  Score=158.59  Aligned_cols=214  Identities=19%  Similarity=0.179  Sum_probs=159.4

Q ss_pred             cceeEEEecccccccCCCCCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCccCCccccCCCCCCEEeccC
Q 038398          494 RNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSS  573 (720)
Q Consensus       494 ~~l~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~  573 (720)
                      .+++.++++++.+..+|... .++|++|++++|.+..+++..|.++++|++|+|++|.+.+..|..++++++|++|++++
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 CHLRVVQCSDLGLKAVPKEI-SPDTTLLDLQNNDISELRKDDFKGLQHLYALVLVNNKISKIHEKAFSPLRKLQKLYISK  111 (332)
T ss_dssp             EETTEEECCSSCCSSCCSCC-CTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCCEECGGGSTTCTTCCEEECCS
T ss_pred             ccCCEEECCCCCccccCCCC-CCCCeEEECCCCcCCccCHhHhhCCCCCcEEECCCCccCccCHhHhhCcCCCCEEECCC
Confidence            36889999999998887643 47999999999999999887799999999999999987777789999999999999999


Q ss_pred             CCCcccchhhhcCCCCCEEeccCCcCCCCCchhhhhccccCceeeccccCCCcccchhcccccCC-----------cccc
Q 038398          574 TAITHLPIELQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKINVLFGG-----------HQFL  642 (720)
Q Consensus       574 ~~i~~lp~~i~~l~~L~~L~l~~~~~l~~lp~~~~~~l~~L~~L~~~~~~~~~l~~l~~~~~~~~-----------~~~~  642 (720)
                      |.++.+|..+.  ++|++|++++ +.+..+|...+..+++|+.|++.++..... .+....+...           -...
T Consensus       112 n~l~~l~~~~~--~~L~~L~l~~-n~i~~~~~~~~~~l~~L~~L~l~~n~l~~~-~~~~~~~~~l~L~~L~l~~n~l~~l  187 (332)
T 2ft3_A          112 NHLVEIPPNLP--SSLVELRIHD-NRIRKVPKGVFSGLRNMNCIEMGGNPLENS-GFEPGAFDGLKLNYLRISEAKLTGI  187 (332)
T ss_dssp             SCCCSCCSSCC--TTCCEEECCS-SCCCCCCSGGGSSCSSCCEEECCSCCCBGG-GSCTTSSCSCCCSCCBCCSSBCSSC
T ss_pred             CcCCccCcccc--ccCCEEECCC-CccCccCHhHhCCCccCCEEECCCCccccC-CCCcccccCCccCEEECcCCCCCcc
Confidence            99999998765  8999999999 567888877688899999998876433210 0111111100           0000


Q ss_pred             HHHhcCCCCCceeEEEecchhhHHHHhhhhhhhhhccccccccccCCCccccccccccCCcceeeecCCCCCcccc
Q 038398          643 VEELMGMKHLMVLTITLKSWQALKELLISQELQRSTQSLFLRCFNDSKSLDIFCLAGLRNLNKLYVAGCKHLEDSQ  718 (720)
Q Consensus       643 ~~~l~~l~~L~~L~~~~~~~~~l~~l~~~~~~~~~L~~L~l~~~~~l~~l~~~~l~~l~~L~~L~l~~c~~l~~i~  718 (720)
                      +..+  .++|+.|.++.|.+..+.  ......+++|+.|++++ +.+..++...+..+++|+.|++++|. +..++
T Consensus       188 ~~~~--~~~L~~L~l~~n~i~~~~--~~~l~~l~~L~~L~L~~-N~l~~~~~~~~~~l~~L~~L~L~~N~-l~~lp  257 (332)
T 2ft3_A          188 PKDL--PETLNELHLDHNKIQAIE--LEDLLRYSKLYRLGLGH-NQIRMIENGSLSFLPTLRELHLDNNK-LSRVP  257 (332)
T ss_dssp             CSSS--CSSCSCCBCCSSCCCCCC--TTSSTTCTTCSCCBCCS-SCCCCCCTTGGGGCTTCCEEECCSSC-CCBCC
T ss_pred             Cccc--cCCCCEEECCCCcCCccC--HHHhcCCCCCCEEECCC-CcCCcCChhHhhCCCCCCEEECCCCc-CeecC
Confidence            1111  157778888777665432  12334556899999998 55777775678899999999999885 44443

>2o6q_A Variable lymphocyte receptor A; leucine-rich repeat protein, LRR, immune system; 2.50A {Eptatretus burgeri}

Probab=99.61  E-value=4.2e-15  Score=149.97  Aligned_cols=194  Identities=22%  Similarity=0.314  Sum_probs=141.0

Q ss_pred             EEEEcCCCCccCcccccccceeEEEecccccccCCC--CCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCC
Q 038398          476 FLVHAGLGLTEAPEIQNWRNVRRMSLMKNKIENLSE--TPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLL  553 (720)
Q Consensus       476 ~~~~~~~~~~~~~~~~~~~~l~~L~l~~~~~~~~~~--~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~  553 (720)
                      .+...+.....+|.. -.+++++|++++|.+..++.  +..+++|++|++++|.++.+++..|.++++|++|+|++|.+.
T Consensus        20 ~l~~~~~~l~~ip~~-~~~~l~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~i~~~~~~~l~~L~~L~l~~n~l~   98 (270)
T 2o6q_A           20 SVDCSSKKLTAIPSN-IPADTKKLDLQSNKLSSLPSKAFHRLTKLRLLYLNDNKLQTLPAGIFKELKNLETLWVTDNKLQ   98 (270)
T ss_dssp             EEECTTSCCSSCCSC-CCTTCSEEECCSSCCSCCCTTSSSSCTTCCEEECCSSCCSCCCTTTTSSCTTCCEEECCSSCCC
T ss_pred             EEEccCCCCCccCCC-CCCCCCEEECcCCCCCeeCHHHhcCCCCCCEEECCCCccCeeChhhhcCCCCCCEEECCCCcCC
Confidence            444455555555532 23578999999998887764  577889999999999888888887888999999999998665


Q ss_pred             ccCCccccCCCCCCEEeccCCCCcccchh-hhcCCCCCEEeccCCcCCCCCchhhhhccccCceeeccccCCCcccchhc
Q 038398          554 WKLPSGISTLVSLEHLDLSSTAITHLPIE-LQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKI  632 (720)
Q Consensus       554 ~~lp~~i~~l~~L~~L~L~~~~i~~lp~~-i~~l~~L~~L~l~~~~~l~~lp~~~~~~l~~L~~L~~~~~~~~~l~~l~~  632 (720)
                      ...+..+..+++|++|++++|.++.+|.. +.++++|++|++++ +.+..+|...++.+++|+.|++.++   .+..++.
T Consensus        99 ~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~Ls~-n~l~~~~~~~~~~l~~L~~L~L~~n---~l~~~~~  174 (270)
T 2o6q_A           99 ALPIGVFDQLVNLAELRLDRNQLKSLPPRVFDSLTKLTYLSLGY-NELQSLPKGVFDKLTSLKELRLYNN---QLKRVPE  174 (270)
T ss_dssp             CCCTTTTTTCSSCCEEECCSSCCCCCCTTTTTTCTTCCEEECCS-SCCCCCCTTTTTTCTTCCEEECCSS---CCSCCCT
T ss_pred             cCCHhHcccccCCCEEECCCCccCeeCHHHhCcCcCCCEEECCC-CcCCccCHhHccCCcccceeEecCC---cCcEeCh
Confidence            54455678889999999999998888654 78889999999988 4677788766778888888877654   3333222


Q ss_pred             ccccCCccccHHHhcCCCCCceeEEEecchhhHHHHhhhhhhhhhcccccccccc
Q 038398          633 NVLFGGHQFLVEELMGMKHLMVLTITLKSWQALKELLISQELQRSTQSLFLRCFN  687 (720)
Q Consensus       633 ~~~~~~~~~~~~~l~~l~~L~~L~~~~~~~~~l~~l~~~~~~~~~L~~L~l~~~~  687 (720)
                                 ..+..+++|+.|+++.|.+..++.  .....+++|+.|++++++
T Consensus       175 -----------~~~~~l~~L~~L~L~~N~l~~~~~--~~~~~l~~L~~L~l~~N~  216 (270)
T 2o6q_A          175 -----------GAFDKLTELKTLKLDNNQLKRVPE--GAFDSLEKLKMLQLQENP  216 (270)
T ss_dssp             -----------TTTTTCTTCCEEECCSSCCSCCCT--TTTTTCTTCCEEECCSSC
T ss_pred             -----------hHhccCCCcCEEECCCCcCCcCCH--HHhccccCCCEEEecCCC
Confidence                       224567788888888776654332  123345678888887754

>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=99.61  E-value=2.4e-15  Score=168.43  Aligned_cols=191  Identities=23%  Similarity=0.303  Sum_probs=147.0

Q ss_pred             cCCCCccCcccccccceeEEEecccccccCC--CCCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCccCC
Q 038398          480 AGLGLTEAPEIQNWRNVRRMSLMKNKIENLS--ETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLP  557 (720)
Q Consensus       480 ~~~~~~~~~~~~~~~~l~~L~l~~~~~~~~~--~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~lp  557 (720)
                      .+.....+|.. -.+++++|++++|.+..++  .+..+++|++|++++|.++.+++..|.++++|++|+|++|.+.+..|
T Consensus        13 ~~~~l~~ip~~-~~~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~   91 (549)
T 2z81_A           13 RSRSFTSIPSG-LTAAMKSLDLSFNKITYIGHGDLRACANLQVLILKSSRINTIEGDAFYSLGSLEHLDLSDNHLSSLSS   91 (549)
T ss_dssp             TTSCCSSCCSC-CCTTCCEEECCSSCCCEECSSTTSSCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECTTSCCCSCCH
T ss_pred             CCCcccccccc-CCCCccEEECcCCccCccChhhhhcCCcccEEECCCCCcCccChhhccccccCCEEECCCCccCccCH
Confidence            34445555542 2378999999999998764  35889999999999999999988889999999999999997776666


Q ss_pred             ccccCCCCCCEEeccCCCCcc--cchhhhcCCCCCEEeccCCcCCCCCchhhhhccccCceeeccccCCCcccchhcccc
Q 038398          558 SGISTLVSLEHLDLSSTAITH--LPIELQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKINVL  635 (720)
Q Consensus       558 ~~i~~l~~L~~L~L~~~~i~~--lp~~i~~l~~L~~L~l~~~~~l~~lp~~~~~~l~~L~~L~~~~~~~~~l~~l~~~~~  635 (720)
                      ..++++++|++|++++|.++.  .|..++++++|++|++++|..+..+|...++.+++|++|++.++....         
T Consensus        92 ~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~l~~L~~L~L~~n~~~~~~~~~~~~~l~~L~~L~L~~n~l~~---------  162 (549)
T 2z81_A           92 SWFGPLSSLKYLNLMGNPYQTLGVTSLFPNLTNLQTLRIGNVETFSEIRRIDFAGLTSLNELEIKALSLRN---------  162 (549)
T ss_dssp             HHHTTCTTCCEEECTTCCCSSSCSSCSCTTCTTCCEEEEEESSSCCEECTTTTTTCCEEEEEEEEETTCCE---------
T ss_pred             HHhccCCCCcEEECCCCcccccchhhhhhccCCccEEECCCCccccccCHhhhhcccccCeeeccCCcccc---------
Confidence            669999999999999999985  467799999999999999766777876557888888888887644221         


Q ss_pred             cCCccccHHHhcCCCCCceeEEEecchhhHHHHhhhhhhhhhcccccccccc
Q 038398          636 FGGHQFLVEELMGMKHLMVLTITLKSWQALKELLISQELQRSTQSLFLRCFN  687 (720)
Q Consensus       636 ~~~~~~~~~~l~~l~~L~~L~~~~~~~~~l~~l~~~~~~~~~L~~L~l~~~~  687 (720)
                           ..+..+..+++|+.|.+..+....++...  ...+++|+.|++++++
T Consensus       163 -----~~~~~l~~l~~L~~L~l~~n~~~~~~~~~--~~~l~~L~~L~L~~n~  207 (549)
T 2z81_A          163 -----YQSQSLKSIRDIHHLTLHLSESAFLLEIF--ADILSSVRYLELRDTN  207 (549)
T ss_dssp             -----ECTTTTTTCSEEEEEEEECSBSTTHHHHH--HHSTTTBSEEEEESCB
T ss_pred             -----cChhhhhccccCceEecccCcccccchhh--HhhcccccEEEccCCc
Confidence                 22334667778888888877765554432  2234678888887743

>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=99.61  E-value=2.3e-15  Score=164.32  Aligned_cols=72  Identities=19%  Similarity=0.098  Sum_probs=54.0

Q ss_pred             HHHhcCCCCCceeEEEecchhhHHHHhhhhhhhhhccccccccccCCCccccccccccCCcceeeecCCCCCccc
Q 038398          643 VEELMGMKHLMVLTITLKSWQALKELLISQELQRSTQSLFLRCFNDSKSLDIFCLAGLRNLNKLYVAGCKHLEDS  717 (720)
Q Consensus       643 ~~~l~~l~~L~~L~~~~~~~~~l~~l~~~~~~~~~L~~L~l~~~~~l~~l~~~~l~~l~~L~~L~l~~c~~l~~i  717 (720)
                      ...+..+++|+.|++++|.+..+.  +.....+++|+.|++++ +.++.++...+.++++|+.|+|++|+---++
T Consensus       340 ~~~~~~l~~L~~L~Ls~N~l~~~~--~~~~~~l~~L~~L~L~~-N~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~  411 (455)
T 3v47_A          340 SRMFENLDKLEVLDLSYNHIRALG--DQSFLGLPNLKELALDT-NQLKSVPDGIFDRLTSLQKIWLHTNPWDCSC  411 (455)
T ss_dssp             GGGGTTCTTCCEEECCSSCCCEEC--TTTTTTCTTCCEEECCS-SCCSCCCTTTTTTCTTCCEEECCSSCBCCCT
T ss_pred             hhHhcCcccCCEEECCCCcccccC--hhhccccccccEEECCC-CccccCCHhHhccCCcccEEEccCCCcccCC
Confidence            445677889999999988775442  23344567899999998 5677888667889999999999988754443

>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=99.60  E-value=9.4e-15  Score=145.66  Aligned_cols=175  Identities=18%  Similarity=0.251  Sum_probs=123.0

Q ss_pred             ceeEEEecccccccCCCCCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCccCCccccCCCCCCEEeccCC
Q 038398          495 NVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSST  574 (720)
Q Consensus       495 ~l~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~~  574 (720)
                      ..++++++++.+..+|... .++++.|++++|.+..+++..|.++++|++|+|++|.+.+..|..+..+++|++|++++|
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            4567888888888776532 267888888888888888777888888888888888776666667888888888888888


Q ss_pred             CCcccchh-hhcCCCCCEEeccCCcCCCCCchhhhhccccCceeeccccCCCcccchhcccccCCccccHHHhcCCCCCc
Q 038398          575 AITHLPIE-LQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKINVLFGGHQFLVEELMGMKHLM  653 (720)
Q Consensus       575 ~i~~lp~~-i~~l~~L~~L~l~~~~~l~~lp~~~~~~l~~L~~L~~~~~~~~~l~~l~~~~~~~~~~~~~~~l~~l~~L~  653 (720)
                      .++.+|.. +..+++|++|++++ +.+..+|...++.+++|+.|++.+   |.+..++.           ..+..+++|+
T Consensus        94 ~l~~~~~~~~~~l~~L~~L~L~~-N~l~~~~~~~~~~l~~L~~L~Ls~---N~l~~~~~-----------~~~~~l~~L~  158 (251)
T 3m19_A           94 QLASLPLGVFDHLTQLDKLYLGG-NQLKSLPSGVFDRLTKLKELRLNT---NQLQSIPA-----------GAFDKLTNLQ  158 (251)
T ss_dssp             CCCCCCTTTTTTCTTCCEEECCS-SCCCCCCTTTTTTCTTCCEEECCS---SCCCCCCT-----------TTTTTCTTCC
T ss_pred             cccccChhHhcccCCCCEEEcCC-CcCCCcChhHhccCCcccEEECcC---CcCCccCH-----------HHcCcCcCCC
Confidence            88887744 67888888888888 467777776567777777777665   44332221           1245566677


Q ss_pred             eeEEEecchhhHHHHhhhhhhhhhcccccccccc
Q 038398          654 VLTITLKSWQALKELLISQELQRSTQSLFLRCFN  687 (720)
Q Consensus       654 ~L~~~~~~~~~l~~l~~~~~~~~~L~~L~l~~~~  687 (720)
                      .|+++.|.+..+..  .....+++|+.|++++++
T Consensus       159 ~L~L~~N~l~~~~~--~~~~~l~~L~~L~l~~N~  190 (251)
T 3m19_A          159 TLSLSTNQLQSVPH--GAFDRLGKLQTITLFGNQ  190 (251)
T ss_dssp             EEECCSSCCSCCCT--TTTTTCTTCCEEECCSCC
T ss_pred             EEECCCCcCCccCH--HHHhCCCCCCEEEeeCCc
Confidence            77776665543321  122334566777776643

>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=99.60  E-value=9.9e-15  Score=159.66  Aligned_cols=199  Identities=20%  Similarity=0.230  Sum_probs=125.9

Q ss_pred             CCccCcccccccceeEEEecccccccCCCCCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCccCCccccC
Q 038398          483 GLTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGIST  562 (720)
Q Consensus       483 ~~~~~~~~~~~~~l~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~  562 (720)
                      .....+.+..+++|++|++++|.+..++....+++|+.|++++|.++.++.  +..+++|++|++++|.+.+..|  +..
T Consensus       188 ~l~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~l~~L~~L~l~~n~l~~~~~--l~~l~~L~~L~l~~n~l~~~~~--~~~  263 (466)
T 1o6v_A          188 KVSDISVLAKLTNLESLIATNNQISDITPLGILTNLDELSLNGNQLKDIGT--LASLTNLTDLDLANNQISNLAP--LSG  263 (466)
T ss_dssp             CCCCCGGGGGCTTCSEEECCSSCCCCCGGGGGCTTCCEEECCSSCCCCCGG--GGGCTTCSEEECCSSCCCCCGG--GTT
T ss_pred             cCCCChhhccCCCCCEEEecCCcccccccccccCCCCEEECCCCCcccchh--hhcCCCCCEEECCCCccccchh--hhc
Confidence            334444555666666666666666655555556667777777666655532  5666777777777764443322  666


Q ss_pred             CCCCCEEeccCCCCcccchhhhcCCCCCEEeccCCcCCCCCchhhhhccccCceeeccccCCCcccchhcccccCCcccc
Q 038398          563 LVSLEHLDLSSTAITHLPIELQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKINVLFGGHQFL  642 (720)
Q Consensus       563 l~~L~~L~L~~~~i~~lp~~i~~l~~L~~L~l~~~~~l~~lp~~~~~~l~~L~~L~~~~~~~~~l~~l~~~~~~~~~~~~  642 (720)
                      +++|++|++++|.++.+|. +..+++|+.|++++| .+..++.  ++.+++|+.|++.++....   +            
T Consensus       264 l~~L~~L~l~~n~l~~~~~-~~~l~~L~~L~L~~n-~l~~~~~--~~~l~~L~~L~L~~n~l~~---~------------  324 (466)
T 1o6v_A          264 LTKLTELKLGANQISNISP-LAGLTALTNLELNEN-QLEDISP--ISNLKNLTYLTLYFNNISD---I------------  324 (466)
T ss_dssp             CTTCSEEECCSSCCCCCGG-GTTCTTCSEEECCSS-CCSCCGG--GGGCTTCSEEECCSSCCSC---C------------
T ss_pred             CCCCCEEECCCCccCcccc-ccCCCccCeEEcCCC-cccCchh--hcCCCCCCEEECcCCcCCC---c------------
Confidence            6777777777777766665 666777777777663 4555554  5666666666665543221   1            


Q ss_pred             HHHhcCCCCCceeEEEecchhhHHHHhhhhhhhhhccccccccccCCCccccccccccCCcceeeecCCC
Q 038398          643 VEELMGMKHLMVLTITLKSWQALKELLISQELQRSTQSLFLRCFNDSKSLDIFCLAGLRNLNKLYVAGCK  712 (720)
Q Consensus       643 ~~~l~~l~~L~~L~~~~~~~~~l~~l~~~~~~~~~L~~L~l~~~~~l~~l~~~~l~~l~~L~~L~l~~c~  712 (720)
                       ..+..+++|+.|.++.|.+..+.    ....+++|+.|++++|+ +..++  .+..+++|+.|++++|+
T Consensus       325 -~~~~~l~~L~~L~l~~n~l~~~~----~l~~l~~L~~L~l~~n~-l~~~~--~~~~l~~L~~L~l~~n~  386 (466)
T 1o6v_A          325 -SPVSSLTKLQRLFFYNNKVSDVS----SLANLTNINWLSAGHNQ-ISDLT--PLANLTRITQLGLNDQA  386 (466)
T ss_dssp             -GGGGGCTTCCEEECCSSCCCCCG----GGTTCTTCCEEECCSSC-CCBCG--GGTTCTTCCEEECCCEE
T ss_pred             -hhhccCccCCEeECCCCccCCch----hhccCCCCCEEeCCCCc-cCccc--hhhcCCCCCEEeccCCc
Confidence             11556788888888887776652    33445688888888754 44444  37788888888888875

>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=99.60  E-value=4.3e-15  Score=168.49  Aligned_cols=221  Identities=18%  Similarity=0.147  Sum_probs=137.6

Q ss_pred             cccccccceeEEEecccccccC--CCCCCCCcccEEEccCCCCcCcchHHhccCCccc--EEEccCCCCCccC-------
Q 038398          488 PEIQNWRNVRRMSLMKNKIENL--SETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLR--VFNMSNNHLLWKL-------  556 (720)
Q Consensus       488 ~~~~~~~~l~~L~l~~~~~~~~--~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~--~L~L~~~~~~~~l-------  556 (720)
                      ..+..+++|++|++++|.+..+  +....+++|++|++++|.++.+++..|..+++|+  .|++++|.+.+..       
T Consensus       123 ~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~l~L~l~~n~l~~~~~~~~~~~  202 (606)
T 3t6q_A          123 IPLHNQKTLESLYLGSNHISSIKLPKGFPTEKLKVLDFQNNAIHYLSKEDMSSLQQATNLSLNLNGNDIAGIEPGAFDSA  202 (606)
T ss_dssp             SCCTTCTTCCEEECCSSCCCCCCCCTTCCCTTCCEEECCSSCCCEECHHHHHTTTTCCSEEEECTTCCCCEECTTTTTTC
T ss_pred             chhccCCcccEEECCCCcccccCcccccCCcccCEEEcccCcccccChhhhhhhcccceeEEecCCCccCccChhHhhhc
Confidence            3466777888888888887765  4555678888888888887777776677777777  6666666433322       


Q ss_pred             --------------------------------------------------------------------CccccCCCCCCE
Q 038398          557 --------------------------------------------------------------------PSGISTLVSLEH  568 (720)
Q Consensus       557 --------------------------------------------------------------------p~~i~~l~~L~~  568 (720)
                                                                                          |..++.+++|++
T Consensus       203 ~L~~L~l~~~~~~~~~~~~l~~~~l~~l~~~~~~~~~~~~i~~~~~~~l~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~  282 (606)
T 3t6q_A          203 VFQSLNFGGTQNLLVIFKGLKNSTIQSLWLGTFEDMDDEDISPAVFEGLCEMSVESINLQKHYFFNISSNTFHCFSGLQE  282 (606)
T ss_dssp             EEEEEECTTCSCHHHHHHHTTTCEEEEEECCCCTTSCCCCCCGGGGGGGGGSEEEEEECTTCCCSSCCTTTTTTCTTCSE
T ss_pred             cccccccCCchhHHHHhhhccccchhheechhhccccccccChhHhchhhcCceeEEEeecCccCccCHHHhccccCCCE
Confidence                                                                                223566777888


Q ss_pred             EeccCCCCcccchhhhcCCCCCEEeccCCcCCCCCchhhhhccccCceeeccccCCCcccchhcccc-----------c-
Q 038398          569 LDLSSTAITHLPIELQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKINVL-----------F-  636 (720)
Q Consensus       569 L~L~~~~i~~lp~~i~~l~~L~~L~l~~~~~l~~lp~~~~~~l~~L~~L~~~~~~~~~l~~l~~~~~-----------~-  636 (720)
                      |++++|.++.+|..+.++++|++|++++| .+..++...++.+++|++|++.++....  .++...+           . 
T Consensus       283 L~l~~n~l~~lp~~l~~l~~L~~L~l~~n-~l~~~~~~~~~~l~~L~~L~l~~n~~~~--~~~~~~~~~l~~L~~L~l~~  359 (606)
T 3t6q_A          283 LDLTATHLSELPSGLVGLSTLKKLVLSAN-KFENLCQISASNFPSLTHLSIKGNTKRL--ELGTGCLENLENLRELDLSH  359 (606)
T ss_dssp             EECTTSCCSCCCSSCCSCTTCCEEECTTC-CCSBGGGGCGGGCTTCSEEECCSCSSCC--BCCSSTTTTCTTCCEEECCS
T ss_pred             EeccCCccCCCChhhcccccCCEEECccC-CcCcCchhhhhccCcCCEEECCCCCccc--ccchhhhhccCcCCEEECCC
Confidence            88888877778777777788888888774 4555544446777777777776543220  1111000           0 


Q ss_pred             -CCcccc--HHHhcCCCCCceeEEEecchhhHHHHhhhhhhhhhccccccccccCCCccccccccccCCcceeeecCCCC
Q 038398          637 -GGHQFL--VEELMGMKHLMVLTITLKSWQALKELLISQELQRSTQSLFLRCFNDSKSLDIFCLAGLRNLNKLYVAGCKH  713 (720)
Q Consensus       637 -~~~~~~--~~~l~~l~~L~~L~~~~~~~~~l~~l~~~~~~~~~L~~L~l~~~~~l~~l~~~~l~~l~~L~~L~l~~c~~  713 (720)
                       ......  ...+..+++|+.|.++.|......  +.....+++|+.|+++++......+...+.++++|+.|++++|..
T Consensus       360 n~l~~~~~~~~~~~~l~~L~~L~l~~n~l~~~~--~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~l~~n~l  437 (606)
T 3t6q_A          360 DDIETSDCCNLQLRNLSHLQSLNLSYNEPLSLK--TEAFKECPQLELLDLAFTRLKVKDAQSPFQNLHLLKVLNLSHSLL  437 (606)
T ss_dssp             SCCCEEEESTTTTTTCTTCCEEECCSCSCEEEC--TTTTTTCTTCSEEECTTCCEECCTTCCTTTTCTTCCEEECTTCCC
T ss_pred             CccccccCcchhcccCCCCCEEECCCCcCCcCC--HHHhcCCccCCeEECCCCcCCCcccchhhhCcccCCEEECCCCcc
Confidence             001111  334566777777777766554321  223344567788888774432233333477788888888888753

>4eco_A Uncharacterized protein; leucine-rich repeats, protein binding, structural genomics, center for structural genomics, JCSG; 2.70A {Bacteroides eggerthii dsm 20697}

Probab=99.59  E-value=5e-16  Score=176.43  Aligned_cols=220  Identities=13%  Similarity=0.177  Sum_probs=143.8

Q ss_pred             ccccccceeEEEeccccccc------------------CCCC-C--CCCcccEEEccCCCCcCcchHHhccCCcccEEEc
Q 038398          489 EIQNWRNVRRMSLMKNKIEN------------------LSET-P--TCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNM  547 (720)
Q Consensus       489 ~~~~~~~l~~L~l~~~~~~~------------------~~~~-~--~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L  547 (720)
                      .+..+++|++|++++|.+..                  +|.. .  ++++|++|++++|.+....|..|.++++|++|+|
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            46677888888888888877                  6654 5  6888888888888766655556788888888888


Q ss_pred             cCCC-CCc-cCCccccCC------CCCCEEeccCCCCcccch--hhhcCCCCCEEeccCCcCCC-CCchhhhhccccCce
Q 038398          548 SNNH-LLW-KLPSGISTL------VSLEHLDLSSTAITHLPI--ELQKLVNLKCLNLEYMNNLN-QFPRLVISAFSKLQV  616 (720)
Q Consensus       548 ~~~~-~~~-~lp~~i~~l------~~L~~L~L~~~~i~~lp~--~i~~l~~L~~L~l~~~~~l~-~lp~~~~~~l~~L~~  616 (720)
                      ++|+ +.+ .+|..++.+      ++|++|++++|.++.+|.  .++++++|++|++++| .+. .+|  .++.+++|+.
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~~  357 (636)
T 4eco_A          281 ACNRGISGEQLKDDWQALADAPVGEKIQIIYIGYNNLKTFPVETSLQKMKKLGMLECLYN-QLEGKLP--AFGSEIKLAS  357 (636)
T ss_dssp             TTCTTSCHHHHHHHHHHHHHSGGGGTCCEEECCSSCCSSCCCHHHHTTCTTCCEEECCSC-CCEEECC--CCEEEEEESE
T ss_pred             cCCCCCccccchHHHHhhhccccCCCCCEEECCCCcCCccCchhhhccCCCCCEEeCcCC-cCccchh--hhCCCCCCCE
Confidence            8886 555 678777776      888888888888888887  7888888888888874 444 666  2666676666


Q ss_pred             eeccccCCCcccchhccccc--C-C---------ccccHHHhcC--CCCCceeEEEecchhhHHHHhhhhh-------hh
Q 038398          617 LRMFDCGGSKIERLKINVLF--G-G---------HQFLVEELMG--MKHLMVLTITLKSWQALKELLISQE-------LQ  675 (720)
Q Consensus       617 L~~~~~~~~~l~~l~~~~~~--~-~---------~~~~~~~l~~--l~~L~~L~~~~~~~~~l~~l~~~~~-------~~  675 (720)
                      |++.+   |.+..++.....  . +         -..++..+..  +++|+.|.++.|.+....  +....       .+
T Consensus       358 L~L~~---N~l~~lp~~l~~l~~~L~~L~Ls~N~l~~lp~~~~~~~l~~L~~L~Ls~N~l~~~~--p~~l~~~~~~~~~~  432 (636)
T 4eco_A          358 LNLAY---NQITEIPANFCGFTEQVENLSFAHNKLKYIPNIFDAKSVSVMSAIDFSYNEIGSVD--GKNFDPLDPTPFKG  432 (636)
T ss_dssp             EECCS---SEEEECCTTSEEECTTCCEEECCSSCCSSCCSCCCTTCSSCEEEEECCSSCTTTTT--TCSSCTTCSSCCCC
T ss_pred             EECCC---CccccccHhhhhhcccCcEEEccCCcCcccchhhhhcccCccCEEECcCCcCCCcc--hhhhcccccccccC
Confidence            66554   333333211000  0 0         0011112222  236777777766654321  11111       33


Q ss_pred             hhccccccccccCCCccccccccccCCcceeeecCCCCCcccc
Q 038398          676 RSTQSLFLRCFNDSKSLDIFCLAGLRNLNKLYVAGCKHLEDSQ  718 (720)
Q Consensus       676 ~~L~~L~l~~~~~l~~l~~~~l~~l~~L~~L~l~~c~~l~~i~  718 (720)
                      .+|+.|++++ +.+..++...+..+++|+.|+|++|..- .++
T Consensus       433 ~~L~~L~Ls~-N~l~~lp~~~~~~l~~L~~L~Ls~N~l~-~i~  473 (636)
T 4eco_A          433 INVSSINLSN-NQISKFPKELFSTGSPLSSINLMGNMLT-EIP  473 (636)
T ss_dssp             CCEEEEECCS-SCCCSCCTHHHHTTCCCSEEECCSSCCS-BCC
T ss_pred             CCCCEEECcC-CccCcCCHHHHccCCCCCEEECCCCCCC-CcC
Confidence            4788888887 4566777556777889999999988643 444

>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=99.59  E-value=1.4e-15  Score=158.87  Aligned_cols=103  Identities=17%  Similarity=0.183  Sum_probs=45.9

Q ss_pred             ceeEEEecccccccC-CCCCCCCcccEEEccCCCCcCc-chHHhccCCcccEEEccCCCCCccCCccccCCCCCCEEecc
Q 038398          495 NVRRMSLMKNKIENL-SETPTCPHLLSLFLSDNSLKMS-TDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLS  572 (720)
Q Consensus       495 ~l~~L~l~~~~~~~~-~~~~~~~~L~~L~l~~~~~~~~-~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~  572 (720)
                      +++.|++.+|.+... +....+++|++|++++|.+... .+..+..+++|++|+|++|.+....|..++.+++|++|+++
T Consensus        71 ~l~~L~l~~n~l~~~~~~~~~~~~L~~L~L~~~~l~~~~~~~~~~~~~~L~~L~L~~~~l~~~~~~~l~~~~~L~~L~L~  150 (336)
T 2ast_B           71 GVIAFRCPRSFMDQPLAEHFSPFRVQHMDLSNSVIEVSTLHGILSQCSKLQNLSLEGLRLSDPIVNTLAKNSNLVRLNLS  150 (336)
T ss_dssp             TCSEEECTTCEECSCCCSCCCCBCCCEEECTTCEECHHHHHHHHTTBCCCSEEECTTCBCCHHHHHHHTTCTTCSEEECT
T ss_pred             cceEEEcCCccccccchhhccCCCCCEEEccCCCcCHHHHHHHHhhCCCCCEEeCcCcccCHHHHHHHhcCCCCCEEECC
Confidence            344444444444332 1223344455555555443322 22234444555555555544333444444445555555555


Q ss_pred             CC-CCc--ccchhhhcCCCCCEEeccCC
Q 038398          573 ST-AIT--HLPIELQKLVNLKCLNLEYM  597 (720)
Q Consensus       573 ~~-~i~--~lp~~i~~l~~L~~L~l~~~  597 (720)
                      +| .++  .+|..+.++++|++|++++|
T Consensus       151 ~~~~l~~~~l~~~~~~~~~L~~L~l~~~  178 (336)
T 2ast_B          151 GCSGFSEFALQTLLSSCSRLDELNLSWC  178 (336)
T ss_dssp             TCBSCCHHHHHHHHHHCTTCCEEECCCC
T ss_pred             CCCCCCHHHHHHHHhcCCCCCEEcCCCC
Confidence            54 344  23444444555555555443

>3j0a_A TOLL-like receptor 5; membrane protein, leucine-rich repeat, asymmetric homodimer, glycoprotein, immune system; HET: NAG FUC; 26.00A {Homo sapiens}

Probab=99.59  E-value=8.8e-15  Score=171.97  Aligned_cols=143  Identities=17%  Similarity=0.274  Sum_probs=79.6

Q ss_pred             EEEEcCCCCccCcccccccceeEEEecccccccCC--CCCCCCcccEEEccCC-CCcCcchHHhccCCcccEEEccCCCC
Q 038398          476 FLVHAGLGLTEAPEIQNWRNVRRMSLMKNKIENLS--ETPTCPHLLSLFLSDN-SLKMSTDDFFQSMPSLRVFNMSNNHL  552 (720)
Q Consensus       476 ~~~~~~~~~~~~~~~~~~~~l~~L~l~~~~~~~~~--~~~~~~~L~~L~l~~~-~~~~~~~~~~~~l~~L~~L~L~~~~~  552 (720)
                      .+...+.+...+|.  .++++++|++++|.+..+.  .+.++++|++|++++| ....+++..|.++++|++|+|++|.+
T Consensus         8 ~~dcs~~~L~~vP~--lp~~l~~LdLs~N~i~~i~~~~~~~l~~L~~LdLs~n~~~~~i~~~~f~~L~~L~~L~Ls~N~l   85 (844)
T 3j0a_A            8 IAFYRFCNLTQVPQ--VLNTTERLLLSFNYIRTVTASSFPFLEQLQLLELGSQYTPLTIDKEAFRNLPNLRILDLGSSKI   85 (844)
T ss_dssp             EEEESCCCSSCCCS--SCTTCCEEEEESCCCCEECSSSCSSCCSCSEEEECTTCCCCEECTTTTSSCTTCCEEECTTCCC
T ss_pred             EEEccCCCCCCCCC--CCCCcCEEECCCCcCCccChhHCcccccCeEEeCCCCCCccccCHHHhcCCCCCCEEECCCCcC
Confidence            44445555555665  4466777777777665542  2355666666666666 33334444466666666666666655


Q ss_pred             CccCCccccCCCCCCEEeccCCCCcc-cchh--hhcCCCCCEEeccCCcCCCCC-chhhhhccccCceeeccc
Q 038398          553 LWKLPSGISTLVSLEHLDLSSTAITH-LPIE--LQKLVNLKCLNLEYMNNLNQF-PRLVISAFSKLQVLRMFD  621 (720)
Q Consensus       553 ~~~lp~~i~~l~~L~~L~L~~~~i~~-lp~~--i~~l~~L~~L~l~~~~~l~~l-p~~~~~~l~~L~~L~~~~  621 (720)
                      .+..|..|+++++|++|+|++|.++. +|..  +.++++|++|++++| .+..+ +...++.+++|++|++.+
T Consensus        86 ~~~~p~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~~L~~L~~L~Ls~N-~l~~~~~~~~~~~L~~L~~L~Ls~  157 (844)
T 3j0a_A           86 YFLHPDAFQGLFHLFELRLYFCGLSDAVLKDGYFRNLKALTRLDLSKN-QIRSLYLHPSFGKLNSLKSIDFSS  157 (844)
T ss_dssp             CEECTTSSCSCSSCCCEECTTCCCSSCCSTTCCCSSCSSCCEEEEESC-CCCCCCCCGGGGTCSSCCEEEEES
T ss_pred             cccCHhHccCCcccCEeeCcCCCCCcccccCccccccCCCCEEECCCC-cccccccchhHhhCCCCCEEECCC
Confidence            55556666666666666666666553 3333  556666666666653 23333 212245555555555543

>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=99.59  E-value=1.2e-14  Score=161.62  Aligned_cols=119  Identities=24%  Similarity=0.323  Sum_probs=93.9

Q ss_pred             cEEEEcCCCCccCcccccccceeEEEecccccccCCC--CCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCC
Q 038398          475 NFLVHAGLGLTEAPEIQNWRNVRRMSLMKNKIENLSE--TPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHL  552 (720)
Q Consensus       475 ~~~~~~~~~~~~~~~~~~~~~l~~L~l~~~~~~~~~~--~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~  552 (720)
                      +.+...+.....+|.... +++++|++++|.+..++.  +..+++|++|++++|.++.+++..|.++++|++|+|++|.+
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            344455555555554222 789999999999887753  57889999999999998888777789999999999999955


Q ss_pred             CccCCccccCCCCCCEEeccCCCCcc--cchhhhcCCCCCEEeccCC
Q 038398          553 LWKLPSGISTLVSLEHLDLSSTAITH--LPIELQKLVNLKCLNLEYM  597 (720)
Q Consensus       553 ~~~lp~~i~~l~~L~~L~L~~~~i~~--lp~~i~~l~~L~~L~l~~~  597 (720)
                      . .+|..  .+++|++|++++|.++.  +|..++++++|++|++++|
T Consensus        82 ~-~lp~~--~l~~L~~L~L~~N~l~~~~~p~~~~~l~~L~~L~L~~n  125 (520)
T 2z7x_B           82 V-KISCH--PTVNLKHLDLSFNAFDALPICKEFGNMSQLKFLGLSTT  125 (520)
T ss_dssp             C-EEECC--CCCCCSEEECCSSCCSSCCCCGGGGGCTTCCEEEEEES
T ss_pred             e-ecCcc--ccCCccEEeccCCccccccchhhhccCCcceEEEecCc
Confidence            4 67766  78999999999998885  5678899999999988874

>4eco_A Uncharacterized protein; leucine-rich repeats, protein binding, structural genomics, center for structural genomics, JCSG; 2.70A {Bacteroides eggerthii dsm 20697}

Probab=99.59  E-value=3.9e-15  Score=169.10  Aligned_cols=207  Identities=14%  Similarity=0.180  Sum_probs=109.8

Q ss_pred             cCcccccccceeEEEecccccccCCC-CCCCCc-ccEEEccCCCCcCcchHHhccCC--cccEEEccCCCCCccCCcccc
Q 038398          486 EAPEIQNWRNVRRMSLMKNKIENLSE-TPTCPH-LLSLFLSDNSLKMSTDDFFQSMP--SLRVFNMSNNHLLWKLPSGIS  561 (720)
Q Consensus       486 ~~~~~~~~~~l~~L~l~~~~~~~~~~-~~~~~~-L~~L~l~~~~~~~~~~~~~~~l~--~L~~L~L~~~~~~~~lp~~i~  561 (720)
                      .+|.+..+++|+.|++++|.+..+|. +..+++ |+.|++++|.++.+|.. +..++  +|++|++++|.+.+..|..++
T Consensus       345 ~ip~~~~l~~L~~L~L~~N~l~~lp~~l~~l~~~L~~L~Ls~N~l~~lp~~-~~~~~l~~L~~L~Ls~N~l~~~~p~~l~  423 (636)
T 4eco_A          345 KLPAFGSEIKLASLNLAYNQITEIPANFCGFTEQVENLSFAHNKLKYIPNI-FDAKSVSVMSAIDFSYNEIGSVDGKNFD  423 (636)
T ss_dssp             ECCCCEEEEEESEEECCSSEEEECCTTSEEECTTCCEEECCSSCCSSCCSC-CCTTCSSCEEEEECCSSCTTTTTTCSSC
T ss_pred             chhhhCCCCCCCEEECCCCccccccHhhhhhcccCcEEEccCCcCcccchh-hhhcccCccCEEECcCCcCCCcchhhhc
Confidence            34455555666666666666655543 244555 66666666666655442 33332  566666666666666666665


Q ss_pred             -------CCCCCCEEeccCCCCcccchhh-hcCCCCCEEeccCCcCCCCCchhhhhccc-------cCceeeccccCCCc
Q 038398          562 -------TLVSLEHLDLSSTAITHLPIEL-QKLVNLKCLNLEYMNNLNQFPRLVISAFS-------KLQVLRMFDCGGSK  626 (720)
Q Consensus       562 -------~l~~L~~L~L~~~~i~~lp~~i-~~l~~L~~L~l~~~~~l~~lp~~~~~~l~-------~L~~L~~~~~~~~~  626 (720)
                             .+++|++|++++|.++.+|..+ ..+++|++|++++| .+..+|...+..+.       +|+.|++.+   |.
T Consensus       424 ~~~~~~~~~~~L~~L~Ls~N~l~~lp~~~~~~l~~L~~L~Ls~N-~l~~i~~~~~~~~~~~~~~l~~L~~L~Ls~---N~  499 (636)
T 4eco_A          424 PLDPTPFKGINVSSINLSNNQISKFPKELFSTGSPLSSINLMGN-MLTEIPKNSLKDENENFKNTYLLTSIDLRF---NK  499 (636)
T ss_dssp             TTCSSCCCCCCEEEEECCSSCCCSCCTHHHHTTCCCSEEECCSS-CCSBCCSSSSEETTEECTTGGGCCEEECCS---SC
T ss_pred             ccccccccCCCCCEEECcCCccCcCCHHHHccCCCCCEEECCCC-CCCCcCHHHhccccccccccCCccEEECcC---Cc
Confidence                   5566666666666666666553 34666666666663 44556554332221       455554443   33


Q ss_pred             ccchhcccccCCccccHHHhc--CCCCCceeEEEecchhhHHHHhhhhhhhhhcccccccc------ccCCCcccccccc
Q 038398          627 IERLKINVLFGGHQFLVEELM--GMKHLMVLTITLKSWQALKELLISQELQRSTQSLFLRC------FNDSKSLDIFCLA  698 (720)
Q Consensus       627 l~~l~~~~~~~~~~~~~~~l~--~l~~L~~L~~~~~~~~~l~~l~~~~~~~~~L~~L~l~~------~~~l~~l~~~~l~  698 (720)
                      +..++            ..+.  .+++|+.|.++.|.+..   ++.....+++|+.|++++      ++....+| ..+.
T Consensus       500 l~~lp------------~~~~~~~l~~L~~L~Ls~N~l~~---ip~~~~~l~~L~~L~Ls~N~~ls~N~l~~~~p-~~l~  563 (636)
T 4eco_A          500 LTKLS------------DDFRATTLPYLVGIDLSYNSFSK---FPTQPLNSSTLKGFGIRNQRDAQGNRTLREWP-EGIT  563 (636)
T ss_dssp             CCBCC------------GGGSTTTCTTCCEEECCSSCCSS---CCCGGGGCSSCCEEECCSCBCTTCCBCCCCCC-TTGG
T ss_pred             CCccC------------hhhhhccCCCcCEEECCCCCCCC---cChhhhcCCCCCEEECCCCcccccCcccccCh-HHHh
Confidence            33322            2232  45566666666655543   233333445566666532      11122333 4455


Q ss_pred             ccCCcceeeecCCCC
Q 038398          699 GLRNLNKLYVAGCKH  713 (720)
Q Consensus       699 ~l~~L~~L~l~~c~~  713 (720)
                      ++++|+.|+|++|..
T Consensus       564 ~l~~L~~L~Ls~N~l  578 (636)
T 4eco_A          564 LCPSLTQLQIGSNDI  578 (636)
T ss_dssp             GCSSCCEEECCSSCC
T ss_pred             cCCCCCEEECCCCcC
Confidence            555666666655553

>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=99.59  E-value=8.8e-15  Score=139.99  Aligned_cols=154  Identities=13%  Similarity=0.198  Sum_probs=129.7

Q ss_pred             cccccceeEEEecccccccCCCCCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCccCCccccCCCCCCEE
Q 038398          490 IQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVSLEHL  569 (720)
Q Consensus       490 ~~~~~~l~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L  569 (720)
                      ...++++++|++++|.+..++.+..+++|++|++++|.+..++  .+..+++|++|++++|.+.+..|..++.+++|++|
T Consensus        40 ~~~l~~L~~L~l~~n~i~~l~~l~~l~~L~~L~l~~n~~~~~~--~l~~l~~L~~L~l~~n~l~~~~~~~l~~l~~L~~L  117 (197)
T 4ezg_A           40 EAQMNSLTYITLANINVTDLTGIEYAHNIKDLTINNIHATNYN--PISGLSNLERLRIMGKDVTSDKIPNLSGLTSLTLL  117 (197)
T ss_dssp             HHHHHTCCEEEEESSCCSCCTTGGGCTTCSEEEEESCCCSCCG--GGTTCTTCCEEEEECTTCBGGGSCCCTTCTTCCEE
T ss_pred             hhhcCCccEEeccCCCccChHHHhcCCCCCEEEccCCCCCcch--hhhcCCCCCEEEeECCccCcccChhhcCCCCCCEE
Confidence            3677899999999999998888889999999999999876665  38899999999999998877788899999999999


Q ss_pred             eccCCCCcc-cchhhhcCCCCCEEeccCCcCCCCCchhhhhccccCceeeccccCCCcccchhcccccCCccccHHHhcC
Q 038398          570 DLSSTAITH-LPIELQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKINVLFGGHQFLVEELMG  648 (720)
Q Consensus       570 ~L~~~~i~~-lp~~i~~l~~L~~L~l~~~~~l~~lp~~~~~~l~~L~~L~~~~~~~~~l~~l~~~~~~~~~~~~~~~l~~  648 (720)
                      ++++|.++. .|..+..+++|++|++++|..+..+|.  +..+++|+.|++.++.   +..++             .+..
T Consensus       118 ~Ls~n~i~~~~~~~l~~l~~L~~L~L~~n~~i~~~~~--l~~l~~L~~L~l~~n~---i~~~~-------------~l~~  179 (197)
T 4ezg_A          118 DISHSAHDDSILTKINTLPKVNSIDLSYNGAITDIMP--LKTLPELKSLNIQFDG---VHDYR-------------GIED  179 (197)
T ss_dssp             ECCSSBCBGGGHHHHTTCSSCCEEECCSCTBCCCCGG--GGGCSSCCEEECTTBC---CCCCT-------------TGGG
T ss_pred             EecCCccCcHhHHHHhhCCCCCEEEccCCCCccccHh--hcCCCCCCEEECCCCC---CcChH-------------Hhcc
Confidence            999999985 677899999999999999765888885  8899999999887654   32211             4667


Q ss_pred             CCCCceeEEEecchh
Q 038398          649 MKHLMVLTITLKSWQ  663 (720)
Q Consensus       649 l~~L~~L~~~~~~~~  663 (720)
                      +++|+.|.+++|.+.
T Consensus       180 l~~L~~L~l~~N~i~  194 (197)
T 4ezg_A          180 FPKLNQLYAFSQTIG  194 (197)
T ss_dssp             CSSCCEEEECBC---
T ss_pred             CCCCCEEEeeCcccC
Confidence            889999999988764

>3bz5_A Internalin-J, INLJ; leucine rich repeat (LRR), cysteine ladder, asparagine ladder, virulence factor, solenoid, cell WALL; 2.70A {Listeria monocytogenes}

Probab=99.59  E-value=4.9e-15  Score=160.97  Aligned_cols=203  Identities=15%  Similarity=0.142  Sum_probs=154.2

Q ss_pred             cCcccccccceeEEEecccccccCCCCCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCccCCccccCCCC
Q 038398          486 EAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVS  565 (720)
Q Consensus       486 ~~~~~~~~~~l~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~  565 (720)
                      ....+..++++++|++++|.+..+|.+..+++|++|++++|.++.++   +..+++|++|++++|.+. .+|  ++.+++
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---LSQNTNLTYLACDSNKLT-NLD--VTPLTK  107 (457)
T ss_dssp             SEEEHHHHTTCCEEECCSSCCCCCTTGGGCTTCSEEECCSSCCSCCC---CTTCTTCSEEECCSSCCS-CCC--CTTCTT
T ss_pred             cccChhHcCCCCEEEccCCCcccChhhcccCCCCEEEccCCcCCeEc---cccCCCCCEEECcCCCCc-eee--cCCCCc
Confidence            34467788999999999999999988889999999999999998885   789999999999999655 455  899999


Q ss_pred             CCEEeccCCCCcccchhhhcCCCCCEEeccCCcCCCCCchhhhhccccCceeeccccCCCcccchhccc--------ccC
Q 038398          566 LEHLDLSSTAITHLPIELQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKINV--------LFG  637 (720)
Q Consensus       566 L~~L~L~~~~i~~lp~~i~~l~~L~~L~l~~~~~l~~lp~~~~~~l~~L~~L~~~~~~~~~l~~l~~~~--------~~~  637 (720)
                      |++|++++|.++.+|  ++++++|++|++++ +.+..++   ++.+++|+.|++.++...  ..++...        ..+
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~ls~  179 (457)
T 3bz5_A          108 LTYLNCDTNKLTKLD--VSQNPLLTYLNCAR-NTLTEID---VSHNTQLTELDCHLNKKI--TKLDVTPQTQLTTLDCSF  179 (457)
T ss_dssp             CCEEECCSSCCSCCC--CTTCTTCCEEECTT-SCCSCCC---CTTCTTCCEEECTTCSCC--CCCCCTTCTTCCEEECCS
T ss_pred             CCEEECCCCcCCeec--CCCCCcCCEEECCC-Cccceec---cccCCcCCEEECCCCCcc--cccccccCCcCCEEECCC
Confidence            999999999999987  89999999999999 4667775   678999999988876321  1111100        000


Q ss_pred             CccccHHHhcCCCCCceeEEEecchhhHHHHhhhhhhhhhccccccccccCCCccccccccccCCcceeeecCCC
Q 038398          638 GHQFLVEELMGMKHLMVLTITLKSWQALKELLISQELQRSTQSLFLRCFNDSKSLDIFCLAGLRNLNKLYVAGCK  712 (720)
Q Consensus       638 ~~~~~~~~l~~l~~L~~L~~~~~~~~~l~~l~~~~~~~~~L~~L~l~~~~~l~~l~~~~l~~l~~L~~L~l~~c~  712 (720)
                      ..-..+ .+..+++|+.|.++.|.+..+     ....+++|+.|++++ +.++.+|   +..+++|+.|++++|.
T Consensus       180 n~l~~l-~l~~l~~L~~L~l~~N~l~~~-----~l~~l~~L~~L~Ls~-N~l~~ip---~~~l~~L~~L~l~~N~  244 (457)
T 3bz5_A          180 NKITEL-DVSQNKLLNRLNCDTNNITKL-----DLNQNIQLTFLDCSS-NKLTEID---VTPLTQLTYFDCSVNP  244 (457)
T ss_dssp             SCCCCC-CCTTCTTCCEEECCSSCCSCC-----CCTTCTTCSEEECCS-SCCSCCC---CTTCTTCSEEECCSSC
T ss_pred             Ccccee-ccccCCCCCEEECcCCcCCee-----ccccCCCCCEEECcC-CcccccC---ccccCCCCEEEeeCCc
Confidence            000001 156677778888777776654     234456888888887 4466665   6778888888888875

>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=99.58  E-value=1.4e-14  Score=148.99  Aligned_cols=190  Identities=20%  Similarity=0.283  Sum_probs=152.1

Q ss_pred             cEEEEcCCCCccCcccccccceeEEEecccccccCCCCCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCc
Q 038398          475 NFLVHAGLGLTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLW  554 (720)
Q Consensus       475 ~~~~~~~~~~~~~~~~~~~~~l~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~  554 (720)
                      ..+...+.....++.+..+++|+.|++++|.+..++.+..+++|++|++++|.++.++.  +..+++|++|++++|.+. 
T Consensus        44 ~~L~l~~~~i~~l~~~~~l~~L~~L~L~~n~i~~~~~~~~l~~L~~L~L~~n~l~~~~~--~~~l~~L~~L~l~~n~l~-  120 (308)
T 1h6u_A           44 TTLSAFGTGVTTIEGVQYLNNLIGLELKDNQITDLAPLKNLTKITELELSGNPLKNVSA--IAGLQSIKTLDLTSTQIT-  120 (308)
T ss_dssp             CEEECTTSCCCCCTTGGGCTTCCEEECCSSCCCCCGGGTTCCSCCEEECCSCCCSCCGG--GTTCTTCCEEECTTSCCC-
T ss_pred             CEEEeeCCCccCchhhhccCCCCEEEccCCcCCCChhHccCCCCCEEEccCCcCCCchh--hcCCCCCCEEECCCCCCC-
Confidence            34555566666677888999999999999999988888899999999999999888753  889999999999999654 


Q ss_pred             cCCccccCCCCCCEEeccCCCCcccchhhhcCCCCCEEeccCCcCCCCCchhhhhccccCceeeccccCCCcccchhccc
Q 038398          555 KLPSGISTLVSLEHLDLSSTAITHLPIELQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKINV  634 (720)
Q Consensus       555 ~lp~~i~~l~~L~~L~L~~~~i~~lp~~i~~l~~L~~L~l~~~~~l~~lp~~~~~~l~~L~~L~~~~~~~~~l~~l~~~~  634 (720)
                      .+|. +..+++|++|++++|.++.+|. +..+++|++|++++| .+..++.  +..+++|+.|++.++   .+..++   
T Consensus       121 ~~~~-l~~l~~L~~L~l~~n~l~~~~~-l~~l~~L~~L~l~~n-~l~~~~~--l~~l~~L~~L~l~~n---~l~~~~---  189 (308)
T 1h6u_A          121 DVTP-LAGLSNLQVLYLDLNQITNISP-LAGLTNLQYLSIGNA-QVSDLTP--LANLSKLTTLKADDN---KISDIS---  189 (308)
T ss_dssp             CCGG-GTTCTTCCEEECCSSCCCCCGG-GGGCTTCCEEECCSS-CCCCCGG--GTTCTTCCEEECCSS---CCCCCG---
T ss_pred             Cchh-hcCCCCCCEEECCCCccCcCcc-ccCCCCccEEEccCC-cCCCChh--hcCCCCCCEEECCCC---ccCcCh---
Confidence            5554 8999999999999999999886 899999999999995 6777876  788888888887764   333221   


Q ss_pred             ccCCccccHHHhcCCCCCceeEEEecchhhHHHHhhhhhhhhhccccccccccCCCccc
Q 038398          635 LFGGHQFLVEELMGMKHLMVLTITLKSWQALKELLISQELQRSTQSLFLRCFNDSKSLD  693 (720)
Q Consensus       635 ~~~~~~~~~~~l~~l~~L~~L~~~~~~~~~l~~l~~~~~~~~~L~~L~l~~~~~l~~l~  693 (720)
                                .+..+++|+.|+++.|.+..+..    ...+++|+.|++++++ +...+
T Consensus       190 ----------~l~~l~~L~~L~L~~N~l~~~~~----l~~l~~L~~L~l~~N~-i~~~~  233 (308)
T 1h6u_A          190 ----------PLASLPNLIEVHLKNNQISDVSP----LANTSNLFIVTLTNQT-ITNQP  233 (308)
T ss_dssp             ----------GGGGCTTCCEEECTTSCCCBCGG----GTTCTTCCEEEEEEEE-EECCC
T ss_pred             ----------hhcCCCCCCEEEccCCccCcccc----ccCCCCCCEEEccCCe-eecCC
Confidence                      16678889999998888776552    3445688999998844 44444

>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=99.58  E-value=6.2e-15  Score=169.58  Aligned_cols=144  Identities=24%  Similarity=0.269  Sum_probs=98.5

Q ss_pred             EEEEcCCCCccCcccccccceeEEEecccccccCCC--CCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCC
Q 038398          476 FLVHAGLGLTEAPEIQNWRNVRRMSLMKNKIENLSE--TPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLL  553 (720)
Q Consensus       476 ~~~~~~~~~~~~~~~~~~~~l~~L~l~~~~~~~~~~--~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~  553 (720)
                      .+...+.+...+|..- .+++++|++++|.+..++.  +..+++|++|++++|.+..+++..|.++++|++|+|++|.+.
T Consensus         8 ~~~cs~~~L~~ip~~~-~~~l~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~n~l~   86 (680)
T 1ziw_A            8 VADCSHLKLTQVPDDL-PTNITVLNLTHNQLRRLPAANFTRYSQLTSLDVGFNTISKLEPELCQKLPMLKVLNLQHNELS   86 (680)
T ss_dssp             EEECCSSCCSSCCSCS-CTTCSEEECCSSCCCCCCGGGGGGGTTCSEEECCSSCCCCCCTTHHHHCTTCCEEECCSSCCC
T ss_pred             eeECCCCCcccccccc-CCCCcEEECCCCCCCCcCHHHHhCCCcCcEEECCCCccCccCHHHHhcccCcCEEECCCCccC
Confidence            4444455555555322 2678888888888777654  466778888888888777777777778888888888887544


Q ss_pred             ccCCc-cccCCCCCCEEeccCCCCcccc-hhhhcCCCCCEEeccCCcCCCCCchhhhhccccCceeecccc
Q 038398          554 WKLPS-GISTLVSLEHLDLSSTAITHLP-IELQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFDC  622 (720)
Q Consensus       554 ~~lp~-~i~~l~~L~~L~L~~~~i~~lp-~~i~~l~~L~~L~l~~~~~l~~lp~~~~~~l~~L~~L~~~~~  622 (720)
                       .+|. .|+++++|++|++++|.++.+| ..|+++++|++|++++| .+..++...++.+++|++|++.++
T Consensus        87 -~l~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~Ls~n-~l~~~~~~~~~~l~~L~~L~L~~n  155 (680)
T 1ziw_A           87 -QLSDKTFAFCTNLTELHLMSNSIQKIKNNPFVKQKNLITLDLSHN-GLSSTKLGTQVQLENLQELLLSNN  155 (680)
T ss_dssp             -CCCTTTTTTCTTCSEEECCSSCCCCCCSCTTTTCTTCCEEECCSS-CCSCCCCCSSSCCTTCCEEECCSS
T ss_pred             -ccChhhhccCCCCCEEECCCCccCccChhHccccCCCCEEECCCC-cccccCchhhcccccCCEEEccCC
Confidence             4443 5778888888888888777775 45777888888888774 344444333566777777766553

>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=99.57  E-value=2.2e-14  Score=160.88  Aligned_cols=119  Identities=27%  Similarity=0.316  Sum_probs=100.5

Q ss_pred             cEEEEcCCCCccCcccccccceeEEEecccccccCC--CCCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCC
Q 038398          475 NFLVHAGLGLTEAPEIQNWRNVRRMSLMKNKIENLS--ETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHL  552 (720)
Q Consensus       475 ~~~~~~~~~~~~~~~~~~~~~l~~L~l~~~~~~~~~--~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~  552 (720)
                      ..+...+.....+|.. -.+++++|++++|.+..++  .+..+++|++|++++|.++.+++..|.++++|++|+|++|.+
T Consensus        34 ~~l~ls~~~L~~ip~~-~~~~L~~L~Ls~N~i~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls~N~l  112 (562)
T 3a79_B           34 SMVDYSNRNLTHVPKD-LPPRTKALSLSQNSISELRMPDISFLSELRVLRLSHNRIRSLDFHVFLFNQDLEYLDVSHNRL  112 (562)
T ss_dssp             CEEECTTSCCCSCCTT-SCTTCCEEECCSSCCCCCCGGGTTTCTTCCEEECCSCCCCEECTTTTTTCTTCCEEECTTSCC
T ss_pred             cEEEcCCCCCccCCCC-CCCCcCEEECCCCCccccChhhhccCCCccEEECCCCCCCcCCHHHhCCCCCCCEEECCCCcC
Confidence            4556666666666642 2378999999999998886  468899999999999999999888899999999999999965


Q ss_pred             CccCCccccCCCCCCEEeccCCCCcccc--hhhhcCCCCCEEeccCC
Q 038398          553 LWKLPSGISTLVSLEHLDLSSTAITHLP--IELQKLVNLKCLNLEYM  597 (720)
Q Consensus       553 ~~~lp~~i~~l~~L~~L~L~~~~i~~lp--~~i~~l~~L~~L~l~~~  597 (720)
                       ..+|..  .+++|++|++++|.++.+|  ..++++++|++|++++|
T Consensus       113 -~~lp~~--~l~~L~~L~Ls~N~l~~l~~p~~~~~l~~L~~L~L~~n  156 (562)
T 3a79_B          113 -QNISCC--PMASLRHLDLSFNDFDVLPVCKEFGNLTKLTFLGLSAA  156 (562)
T ss_dssp             -CEECSC--CCTTCSEEECCSSCCSBCCCCGGGGGCTTCCEEEEECS
T ss_pred             -CccCcc--ccccCCEEECCCCCccccCchHhhcccCcccEEecCCC
Confidence             478876  8999999999999998764  78999999999999984

>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=99.57  E-value=5.3e-15  Score=149.84  Aligned_cols=196  Identities=17%  Similarity=0.212  Sum_probs=147.3

Q ss_pred             EEEcCCCCccCc--ccccccceeEEEecccccccCCC--CCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCC
Q 038398          477 LVHAGLGLTEAP--EIQNWRNVRRMSLMKNKIENLSE--TPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHL  552 (720)
Q Consensus       477 ~~~~~~~~~~~~--~~~~~~~l~~L~l~~~~~~~~~~--~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~  552 (720)
                      +...+......+  .+..+++|++|++++|.+..++.  +..+++|++|++++|.++.+++..|.++++|++|++++|.+
T Consensus        33 L~ls~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~n~l  112 (276)
T 2z62_A           33 LDLSFNPLRHLGSYSFFSFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNPIQSLALGAFSGLSSLQKLVAVETNL  112 (276)
T ss_dssp             EECTTCCCCEECTTTTTTCTTCSEEECTTCCCCEECTTTTTTCTTCCEEECTTCCCCEECTTTTTTCTTCCEEECTTSCC
T ss_pred             EECCCCcccccCHhHhccccCCcEEECCCCcCCccCHHHccCCcCCCEEECCCCccCccChhhhcCCccccEEECCCCCc
Confidence            333344443333  57788999999999999988764  57899999999999999999888899999999999999977


Q ss_pred             CccCCccccCCCCCCEEeccCCCCcc--cchhhhcCCCCCEEeccCCcCCCCCchhhhhccccCceee-ccccCCCcccc
Q 038398          553 LWKLPSGISTLVSLEHLDLSSTAITH--LPIELQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLR-MFDCGGSKIER  629 (720)
Q Consensus       553 ~~~lp~~i~~l~~L~~L~L~~~~i~~--lp~~i~~l~~L~~L~l~~~~~l~~lp~~~~~~l~~L~~L~-~~~~~~~~l~~  629 (720)
                      ....+..++.+++|++|++++|.++.  +|..+.++++|++|++++ +.+..++...+..+++|+.|. ..+++.|.+..
T Consensus       113 ~~~~~~~~~~l~~L~~L~l~~n~l~~~~l~~~~~~l~~L~~L~Ls~-N~l~~~~~~~~~~l~~L~~l~l~L~ls~n~l~~  191 (276)
T 2z62_A          113 ASLENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSS-NKIQSIYCTDLRVLHQMPLLNLSLDLSLNPMNF  191 (276)
T ss_dssp             CCSTTCCCTTCTTCCEEECCSSCCCCCCCCGGGGGCTTCCEEECCS-SCCCEECGGGGHHHHTCTTCCEEEECCSSCCCE
T ss_pred             cccCchhcccCCCCCEEECcCCccceecCchhhccCCCCCEEECCC-CCCCcCCHHHhhhhhhccccceeeecCCCcccc
Confidence            66556679999999999999999986  688999999999999999 466777765677888888554 34555666655


Q ss_pred             hhcccccCCccccHHHhcCCCCCceeEEEecchhhHHHHhhhhhhhhhcccccccccc
Q 038398          630 LKINVLFGGHQFLVEELMGMKHLMVLTITLKSWQALKELLISQELQRSTQSLFLRCFN  687 (720)
Q Consensus       630 l~~~~~~~~~~~~~~~l~~l~~L~~L~~~~~~~~~l~~l~~~~~~~~~L~~L~l~~~~  687 (720)
                      ++...+            ...+|+.|++++|.+..++.  .....+++|+.|++++++
T Consensus       192 ~~~~~~------------~~~~L~~L~L~~n~l~~~~~--~~~~~l~~L~~L~l~~N~  235 (276)
T 2z62_A          192 IQPGAF------------KEIRLKELALDTNQLKSVPD--GIFDRLTSLQKIWLHTNP  235 (276)
T ss_dssp             ECTTSS------------CSCCEEEEECCSSCCSCCCT--TTTTTCCSCCEEECCSSC
T ss_pred             cCcccc------------CCCcccEEECCCCceeecCH--hHhcccccccEEEccCCc
Confidence            443222            22367778887777654421  122445678888887643

>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=99.57  E-value=1.2e-14  Score=162.77  Aligned_cols=206  Identities=22%  Similarity=0.179  Sum_probs=105.5

Q ss_pred             EEcCCCCccCcccccccceeEEEecccccccCCCCCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCccCC
Q 038398          478 VHAGLGLTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLP  557 (720)
Q Consensus       478 ~~~~~~~~~~~~~~~~~~l~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~lp  557 (720)
                      ...+.....+|.  .+++|+.|++++|.+..+|.  .+++|++|++++|.++.++.    .+++|++|++++|++ ..+|
T Consensus        67 ~L~~N~l~~lp~--~l~~L~~L~Ls~N~l~~lp~--~l~~L~~L~Ls~N~l~~l~~----~l~~L~~L~L~~N~l-~~lp  137 (622)
T 3g06_A           67 VIPDNNLTSLPA--LPPELRTLEVSGNQLTSLPV--LPPGLLELSIFSNPLTHLPA----LPSGLCKLWIFGNQL-TSLP  137 (622)
T ss_dssp             EECSCCCSCCCC--CCTTCCEEEECSCCCSCCCC--CCTTCCEEEECSCCCCCCCC----CCTTCCEEECCSSCC-SCCC
T ss_pred             EecCCCCCCCCC--cCCCCCEEEcCCCcCCcCCC--CCCCCCEEECcCCcCCCCCC----CCCCcCEEECCCCCC-CcCC
Confidence            333333444443  34556666666665555544  44555555555555555443    334455555555532 2344


Q ss_pred             ccccCCCCCCEEeccCCCCcccchhhh-----------------cCCCCCEEeccCCcCCCCCchhhhhccccCceeecc
Q 038398          558 SGISTLVSLEHLDLSSTAITHLPIELQ-----------------KLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMF  620 (720)
Q Consensus       558 ~~i~~l~~L~~L~L~~~~i~~lp~~i~-----------------~l~~L~~L~l~~~~~l~~lp~~~~~~l~~L~~L~~~  620 (720)
                      ..   +++|++|++++|.++.+|..+.                 .+++|+.|++++ +.+..+|.    .+++|+.|.+.
T Consensus       138 ~~---l~~L~~L~Ls~N~l~~l~~~~~~L~~L~L~~N~l~~l~~~~~~L~~L~Ls~-N~l~~l~~----~~~~L~~L~L~  209 (622)
T 3g06_A          138 VL---PPGLQELSVSDNQLASLPALPSELCKLWAYNNQLTSLPMLPSGLQELSVSD-NQLASLPT----LPSELYKLWAY  209 (622)
T ss_dssp             CC---CTTCCEEECCSSCCSCCCCCCTTCCEEECCSSCCSCCCCCCTTCCEEECCS-SCCSCCCC----CCTTCCEEECC
T ss_pred             CC---CCCCCEEECcCCcCCCcCCccCCCCEEECCCCCCCCCcccCCCCcEEECCC-CCCCCCCC----ccchhhEEECc
Confidence            32   2455555555555554443211                 124455555554 23344443    12344444433


Q ss_pred             ccCCCcccchhccc-------ccCC-ccccHHHhcCCCCCceeEEEecchhhHHHHhhhhhhhhhccccccccccCCCcc
Q 038398          621 DCGGSKIERLKINV-------LFGG-HQFLVEELMGMKHLMVLTITLKSWQALKELLISQELQRSTQSLFLRCFNDSKSL  692 (720)
Q Consensus       621 ~~~~~~l~~l~~~~-------~~~~-~~~~~~~l~~l~~L~~L~~~~~~~~~l~~l~~~~~~~~~L~~L~l~~~~~l~~l  692 (720)
                      ++.   +..++...       ..+. -..++   ..+++|+.|.+++|.+..++.      .+++|+.|+|++ |.++.+
T Consensus       210 ~N~---l~~l~~~~~~L~~L~Ls~N~L~~lp---~~l~~L~~L~Ls~N~L~~lp~------~~~~L~~L~Ls~-N~L~~l  276 (622)
T 3g06_A          210 NNR---LTSLPALPSGLKELIVSGNRLTSLP---VLPSELKELMVSGNRLTSLPM------LPSGLLSLSVYR-NQLTRL  276 (622)
T ss_dssp             SSC---CSSCCCCCTTCCEEECCSSCCSCCC---CCCTTCCEEECCSSCCSCCCC------CCTTCCEEECCS-SCCCSC
T ss_pred             CCc---ccccCCCCCCCCEEEccCCccCcCC---CCCCcCcEEECCCCCCCcCCc------ccccCcEEeCCC-CCCCcC
Confidence            322   22111100       0000 00001   345677788887777664432      446888999988 457777


Q ss_pred             ccccccccCCcceeeecCCCCC
Q 038398          693 DIFCLAGLRNLNKLYVAGCKHL  714 (720)
Q Consensus       693 ~~~~l~~l~~L~~L~l~~c~~l  714 (720)
                      | ..+.++++|+.|+|++|+.-
T Consensus       277 p-~~l~~l~~L~~L~L~~N~l~  297 (622)
T 3g06_A          277 P-ESLIHLSSETTVNLEGNPLS  297 (622)
T ss_dssp             C-GGGGGSCTTCEEECCSCCCC
T ss_pred             C-HHHhhccccCEEEecCCCCC
Confidence            7 56888999999999998743

>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=99.57  E-value=9.3e-15  Score=148.97  Aligned_cols=171  Identities=20%  Similarity=0.283  Sum_probs=123.8

Q ss_pred             cccccccceeEEEecccccccCCCCCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCccCCccccCCCCCC
Q 038398          488 PEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVSLE  567 (720)
Q Consensus       488 ~~~~~~~~l~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~  567 (720)
                      .....+++++.|++++|.+..++.+..+++|++|++++|.++.+++  +.++++|++|++++|.+. .+| .++.+++|+
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--LANLKNLGWLFLDENKVK-DLS-SLKDLKKLK  115 (291)
T ss_dssp             ECHHHHHTCCEEECTTSCCCCCTTGGGCTTCCEEECCSSCCCCCGG--GTTCTTCCEEECCSSCCC-CGG-GGTTCTTCC
T ss_pred             cchhhcCcccEEEccCCCcccChhHhcCCCCCEEEccCCccCCCcc--cccCCCCCEEECCCCcCC-CCh-hhccCCCCC
Confidence            3455677888888888888877777778888888888888877776  778888888888888543 444 478888888


Q ss_pred             EEeccCCCCcccchhhhcCCCCCEEeccCCcCCCCCchhhhhccccCceeeccccCCCcccchhcccccCCccccHHHhc
Q 038398          568 HLDLSSTAITHLPIELQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKINVLFGGHQFLVEELM  647 (720)
Q Consensus       568 ~L~L~~~~i~~lp~~i~~l~~L~~L~l~~~~~l~~lp~~~~~~l~~L~~L~~~~~~~~~l~~l~~~~~~~~~~~~~~~l~  647 (720)
                      +|++++|.++.+| .+..+++|++|++++ +.+..++.  ++.+++|+.|++.++.   +..++             .+.
T Consensus       116 ~L~L~~n~i~~~~-~l~~l~~L~~L~l~~-n~l~~~~~--l~~l~~L~~L~L~~N~---l~~~~-------------~l~  175 (291)
T 1h6t_A          116 SLSLEHNGISDIN-GLVHLPQLESLYLGN-NKITDITV--LSRLTKLDTLSLEDNQ---ISDIV-------------PLA  175 (291)
T ss_dssp             EEECTTSCCCCCG-GGGGCTTCCEEECCS-SCCCCCGG--GGGCTTCSEEECCSSC---CCCCG-------------GGT
T ss_pred             EEECCCCcCCCCh-hhcCCCCCCEEEccC-CcCCcchh--hccCCCCCEEEccCCc---cccch-------------hhc
Confidence            8888888888774 577888888888887 45666654  6778888887776543   32111             156


Q ss_pred             CCCCCceeEEEecchhhHHHHhhhhhhhhhccccccccc
Q 038398          648 GMKHLMVLTITLKSWQALKELLISQELQRSTQSLFLRCF  686 (720)
Q Consensus       648 ~l~~L~~L~~~~~~~~~l~~l~~~~~~~~~L~~L~l~~~  686 (720)
                      .+++|+.|.++.|.+..++.    ...+++|+.|+++++
T Consensus       176 ~l~~L~~L~L~~N~i~~l~~----l~~l~~L~~L~l~~n  210 (291)
T 1h6t_A          176 GLTKLQNLYLSKNHISDLRA----LAGLKNLDVLELFSQ  210 (291)
T ss_dssp             TCTTCCEEECCSSCCCBCGG----GTTCTTCSEEEEEEE
T ss_pred             CCCccCEEECCCCcCCCChh----hccCCCCCEEECcCC
Confidence            67788888888777766532    334457788887764

>3oja_A Leucine-rich immune molecule 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae}

Probab=99.57  E-value=3.9e-15  Score=163.25  Aligned_cols=196  Identities=15%  Similarity=0.131  Sum_probs=130.2

Q ss_pred             ccccccceeEEEecccccccCCCCCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCccCCccccCCCCCCE
Q 038398          489 EIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVSLEH  568 (720)
Q Consensus       489 ~~~~~~~l~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~  568 (720)
                      .+..+++|++|++++|.+...+++..+++|++|++++|.++.+++     .++|++|++++|.+.+..+   ..+++|++
T Consensus        53 ~~~~l~~L~~L~Ls~N~l~~~~~l~~l~~L~~L~Ls~N~l~~l~~-----~~~L~~L~L~~N~l~~~~~---~~l~~L~~  124 (487)
T 3oja_A           53 DLAPFTKLELLNLSSNVLYETLDLESLSTLRTLDLNNNYVQELLV-----GPSIETLHAANNNISRVSC---SRGQGKKN  124 (487)
T ss_dssp             GGTTCTTCCEEECTTSCCEEEEECTTCTTCCEEECCSSEEEEEEE-----CTTCCEEECCSSCCCCEEE---CCCSSCEE
T ss_pred             HHhCCCCCCEEEeeCCCCCCCcccccCCCCCEEEecCCcCCCCCC-----CCCcCEEECcCCcCCCCCc---cccCCCCE
Confidence            456666777777777776655556666777777777776655442     3667777777775443333   24577888


Q ss_pred             EeccCCCCccc-chhhhcCCCCCEEeccCCcCCCCC-chhhhhccccCceeeccccCCCcccchhcccccCCccccHHHh
Q 038398          569 LDLSSTAITHL-PIELQKLVNLKCLNLEYMNNLNQF-PRLVISAFSKLQVLRMFDCGGSKIERLKINVLFGGHQFLVEEL  646 (720)
Q Consensus       569 L~L~~~~i~~l-p~~i~~l~~L~~L~l~~~~~l~~l-p~~~~~~l~~L~~L~~~~~~~~~l~~l~~~~~~~~~~~~~~~l  646 (720)
                      |++++|.++.+ |..++++++|++|++++| .+..+ |....+.+++|+.|++.++   .+..++             ..
T Consensus       125 L~L~~N~l~~~~~~~~~~l~~L~~L~Ls~N-~l~~~~~~~l~~~l~~L~~L~Ls~N---~l~~~~-------------~~  187 (487)
T 3oja_A          125 IYLANNKITMLRDLDEGCRSRVQYLDLKLN-EIDTVNFAELAASSDTLEHLNLQYN---FIYDVK-------------GQ  187 (487)
T ss_dssp             EECCSSCCCSGGGBCGGGGSSEEEEECTTS-CCCEEEGGGGGGGTTTCCEEECTTS---CCCEEE-------------CC
T ss_pred             EECCCCCCCCCCchhhcCCCCCCEEECCCC-CCCCcChHHHhhhCCcccEEecCCC---cccccc-------------cc
Confidence            88888877766 445777888888888774 44443 3322235677777766653   333221             12


Q ss_pred             cCCCCCceeEEEecchhhHHHHhhhhhhhhhccccccccccCCCccccccccccCCcceeeecCCCCC
Q 038398          647 MGMKHLMVLTITLKSWQALKELLISQELQRSTQSLFLRCFNDSKSLDIFCLAGLRNLNKLYVAGCKHL  714 (720)
Q Consensus       647 ~~l~~L~~L~~~~~~~~~l~~l~~~~~~~~~L~~L~l~~~~~l~~l~~~~l~~l~~L~~L~l~~c~~l  714 (720)
                      ..+++|+.|++++|.+..++   .....+++|+.|++++ +.+..+| ..+..+++|+.|++++|+..
T Consensus       188 ~~l~~L~~L~Ls~N~l~~~~---~~~~~l~~L~~L~Ls~-N~l~~lp-~~l~~l~~L~~L~l~~N~l~  250 (487)
T 3oja_A          188 VVFAKLKTLDLSSNKLAFMG---PEFQSAAGVTWISLRN-NKLVLIE-KALRFSQNLEHFDLRGNGFH  250 (487)
T ss_dssp             CCCTTCCEEECCSSCCCEEC---GGGGGGTTCSEEECTT-SCCCEEC-TTCCCCTTCCEEECTTCCBC
T ss_pred             ccCCCCCEEECCCCCCCCCC---HhHcCCCCccEEEecC-CcCcccc-hhhccCCCCCEEEcCCCCCc
Confidence            35788999999988876543   2344567899999998 5577777 45788899999999998754

>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=99.57  E-value=5e-15  Score=150.99  Aligned_cols=185  Identities=21%  Similarity=0.286  Sum_probs=148.7

Q ss_pred             EEEecccccccCCCCCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCccCCccccCCCCCCEEeccCCCCc
Q 038398          498 RMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSSTAIT  577 (720)
Q Consensus       498 ~L~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~~~i~  577 (720)
                      .+.+..+.+..+.....+++|+.|++++|.+..++.  +..+++|++|+|++|.+. .+|. ++.+++|++|++++|.++
T Consensus        28 ~~~l~~~~~~~~~~~~~l~~L~~L~l~~~~i~~~~~--~~~l~~L~~L~L~~n~l~-~~~~-l~~l~~L~~L~l~~n~l~  103 (291)
T 1h6t_A           28 KDNLKKKSVTDAVTQNELNSIDQIIANNSDIKSVQG--IQYLPNVTKLFLNGNKLT-DIKP-LANLKNLGWLFLDENKVK  103 (291)
T ss_dssp             HHHTTCSCTTSEECHHHHHTCCEEECTTSCCCCCTT--GGGCTTCCEEECCSSCCC-CCGG-GTTCTTCCEEECCSSCCC
T ss_pred             HHHhcCCCcccccchhhcCcccEEEccCCCcccChh--HhcCCCCCEEEccCCccC-CCcc-cccCCCCCEEECCCCcCC
Confidence            344555555555455678899999999999988864  889999999999999655 4554 999999999999999999


Q ss_pred             ccchhhhcCCCCCEEeccCCcCCCCCchhhhhccccCceeeccccCCCcccchhcccccCCccccHHHhcCCCCCceeEE
Q 038398          578 HLPIELQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKINVLFGGHQFLVEELMGMKHLMVLTI  657 (720)
Q Consensus       578 ~lp~~i~~l~~L~~L~l~~~~~l~~lp~~~~~~l~~L~~L~~~~~~~~~l~~l~~~~~~~~~~~~~~~l~~l~~L~~L~~  657 (720)
                      .+|. +..+++|++|++++| .+..++.  +..+++|+.|++.++   .+..+             ..+..+++|+.|.+
T Consensus       104 ~~~~-l~~l~~L~~L~L~~n-~i~~~~~--l~~l~~L~~L~l~~n---~l~~~-------------~~l~~l~~L~~L~L  163 (291)
T 1h6t_A          104 DLSS-LKDLKKLKSLSLEHN-GISDING--LVHLPQLESLYLGNN---KITDI-------------TVLSRLTKLDTLSL  163 (291)
T ss_dssp             CGGG-GTTCTTCCEEECTTS-CCCCCGG--GGGCTTCCEEECCSS---CCCCC-------------GGGGGCTTCSEEEC
T ss_pred             CChh-hccCCCCCEEECCCC-cCCCChh--hcCCCCCCEEEccCC---cCCcc-------------hhhccCCCCCEEEc
Confidence            9875 999999999999994 6777765  788999999988764   33321             34778899999999


Q ss_pred             EecchhhHHHHhhhhhhhhhccccccccccCCCccccccccccCCcceeeecCCCC
Q 038398          658 TLKSWQALKELLISQELQRSTQSLFLRCFNDSKSLDIFCLAGLRNLNKLYVAGCKH  713 (720)
Q Consensus       658 ~~~~~~~l~~l~~~~~~~~~L~~L~l~~~~~l~~l~~~~l~~l~~L~~L~l~~c~~  713 (720)
                      +.|.+..+..    ...+++|+.|++++ +.++.++  .+.++++|+.|++++|+.
T Consensus       164 ~~N~l~~~~~----l~~l~~L~~L~L~~-N~i~~l~--~l~~l~~L~~L~l~~n~i  212 (291)
T 1h6t_A          164 EDNQISDIVP----LAGLTKLQNLYLSK-NHISDLR--ALAGLKNLDVLELFSQEC  212 (291)
T ss_dssp             CSSCCCCCGG----GTTCTTCCEEECCS-SCCCBCG--GGTTCTTCSEEEEEEEEE
T ss_pred             cCCccccchh----hcCCCccCEEECCC-CcCCCCh--hhccCCCCCEEECcCCcc
Confidence            9998876543    44557999999998 5677776  589999999999999863

>4glp_A Monocyte differentiation antigen CD14; alpha beta BENT solenoid, LRR, lipopolysaccharide, serum, CD leucine-rich repeat, pattern recognition; 4.00A {Homo sapiens}

Probab=99.56  E-value=5.2e-15  Score=152.60  Aligned_cols=201  Identities=16%  Similarity=0.119  Sum_probs=147.5

Q ss_pred             ccceeEEEecccccccCC-C-C--CCCCcccEEEccCCCCcCcch----HHhccCCcccEEEccCCCCCccCCccccCCC
Q 038398          493 WRNVRRMSLMKNKIENLS-E-T--PTCPHLLSLFLSDNSLKMSTD----DFFQSMPSLRVFNMSNNHLLWKLPSGISTLV  564 (720)
Q Consensus       493 ~~~l~~L~l~~~~~~~~~-~-~--~~~~~L~~L~l~~~~~~~~~~----~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~  564 (720)
                      ++++++|++++|.+.... . +  ..+++|++|++++|.+....+    ..+..+++|++|+|++|.+.+..|..++.++
T Consensus        90 ~~~L~~L~l~~n~l~~~~~~~~~~~~~~~L~~L~Ls~n~i~~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~~~~l~  169 (310)
T 4glp_A           90 YSRLKELTLEDLKITGTMPPLPLEATGLALSSLRLRNVSWATGRSWLAELQQWLKPGLKVLSIAQAHSPAFSCEQVRAFP  169 (310)
T ss_dssp             HSCCCEEEEESCCCBSCCCCCSSSCCCBCCSSCEEESCCCSSTTSSHHHHHTTBCSCCCEEEEECCSSCCCCTTSCCCCT
T ss_pred             cCceeEEEeeCCEeccchhhhhhhccCCCCCEEEeecccccchhhhhHHHHhhhccCCCEEEeeCCCcchhhHHHhccCC
Confidence            356999999999887543 2 2  678999999999998876322    3356799999999999988777778899999


Q ss_pred             CCCEEeccCCCCcc---cchh--hhcCCCCCEEeccCCcCCCCCchh---hhhccccCceeeccccCCCcccchhccccc
Q 038398          565 SLEHLDLSSTAITH---LPIE--LQKLVNLKCLNLEYMNNLNQFPRL---VISAFSKLQVLRMFDCGGSKIERLKINVLF  636 (720)
Q Consensus       565 ~L~~L~L~~~~i~~---lp~~--i~~l~~L~~L~l~~~~~l~~lp~~---~~~~l~~L~~L~~~~~~~~~l~~l~~~~~~  636 (720)
                      +|++|+|++|++..   +|..  +.++++|++|++++| .++.+|..   .++.+++|++|++.+   |.+..+....  
T Consensus       170 ~L~~L~Ls~N~l~~~~~~~~~~~~~~l~~L~~L~Ls~N-~l~~l~~~~~~l~~~l~~L~~L~Ls~---N~l~~~~p~~--  243 (310)
T 4glp_A          170 ALTSLDLSDNPGLGERGLMAALCPHKFPAIQNLALRNT-GMETPTGVCAALAAAGVQPHSLDLSH---NSLRATVNPS--  243 (310)
T ss_dssp             TCCEEECCSCTTCHHHHHHTTSCTTSSCCCCSCBCCSS-CCCCHHHHHHHHHHHTCCCSSEECTT---SCCCCCCCSC--
T ss_pred             CCCEEECCCCCCccchhhhHHHhhhcCCCCCEEECCCC-CCCchHHHHHHHHhcCCCCCEEECCC---CCCCccchhh--
Confidence            99999999998764   4333  468999999999994 56666653   245667777777765   5444321100  


Q ss_pred             CCccccHHHhcCCCCCceeEEEecchhhHHHHhhhhhhhhhccccccccccCCCccccccccccCCcceeeecCCCC
Q 038398          637 GGHQFLVEELMGMKHLMVLTITLKSWQALKELLISQELQRSTQSLFLRCFNDSKSLDIFCLAGLRNLNKLYVAGCKH  713 (720)
Q Consensus       637 ~~~~~~~~~l~~l~~L~~L~~~~~~~~~l~~l~~~~~~~~~L~~L~l~~~~~l~~l~~~~l~~l~~L~~L~l~~c~~  713 (720)
                            ...+..+++|+.|.++.|.+..++   ...  +++|+.|++++ |.++.++  .+..+++|+.|+|++|+-
T Consensus       244 ------~~~~~~~~~L~~L~Ls~N~l~~lp---~~~--~~~L~~L~Ls~-N~l~~~~--~~~~l~~L~~L~L~~N~l  306 (310)
T 4glp_A          244 ------APRCMWSSALNSLNLSFAGLEQVP---KGL--PAKLRVLDLSS-NRLNRAP--QPDELPEVDNLTLDGNPF  306 (310)
T ss_dssp             ------CSSCCCCTTCCCEECCSSCCCSCC---SCC--CSCCSCEECCS-CCCCSCC--CTTSCCCCSCEECSSTTT
T ss_pred             ------HHhccCcCcCCEEECCCCCCCchh---hhh--cCCCCEEECCC-CcCCCCc--hhhhCCCccEEECcCCCC
Confidence                  111223478999999998887543   222  36999999998 5677776  368899999999999974

>2z63_A TOLL-like receptor 4, variable lymphocyte recepto; TLR4, MD-2, LPS, immune system; HET: NAG FUL; 2.00A {Homo sapiens}

Probab=99.56  E-value=1.7e-14  Score=162.27  Aligned_cols=107  Identities=21%  Similarity=0.324  Sum_probs=50.4

Q ss_pred             cccccceeEEEecccccccCCC--CCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCccCCccccCCCCCC
Q 038398          490 IQNWRNVRRMSLMKNKIENLSE--TPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVSLE  567 (720)
Q Consensus       490 ~~~~~~l~~L~l~~~~~~~~~~--~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~  567 (720)
                      +..+++|++|++++|.+..++.  +..+++|++|++++|.++.+++..|.++++|++|++++|.+....+..++++++|+
T Consensus        48 ~~~l~~L~~L~Ls~n~i~~i~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~l~~~~~~~l~~L~  127 (570)
T 2z63_A           48 FFSFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNPIQSLALGAFSGLSSLQKLVAVETNLASLENFPIGHLKTLK  127 (570)
T ss_dssp             TTTCSSCCEEECTTCCCCEECTTTTTTCTTCCEEECTTCCCCEECTTTTTTCTTCCEEECTTSCCCCSTTCSCTTCTTCC
T ss_pred             hhCCCCceEEECCCCcCCccCcccccCchhCCEEeCcCCcCCccCHhhhcCccccccccccccccccCCCcccccccccc
Confidence            3444445555555554444322  24445555555555544444444445555555555555533222222345555555


Q ss_pred             EEeccCCCCcc--cchhhhcCCCCCEEeccC
Q 038398          568 HLDLSSTAITH--LPIELQKLVNLKCLNLEY  596 (720)
Q Consensus       568 ~L~L~~~~i~~--lp~~i~~l~~L~~L~l~~  596 (720)
                      +|++++|.++.  +|..++++++|++|++++
T Consensus       128 ~L~L~~n~l~~~~lp~~~~~l~~L~~L~l~~  158 (570)
T 2z63_A          128 ELNVAHNLIQSFKLPEYFSNLTNLEHLDLSS  158 (570)
T ss_dssp             EEECCSSCCCCCCCCGGGGGCTTCCEEECTT
T ss_pred             EEecCCCccceecChhhhcccCCCCEEeCcC
Confidence            55555554443  344455555555555554

>3o53_A Protein LRIM1, AGAP006348-PA; leucine-rich repeat, protein binding; HET: NAG; 2.00A {Anopheles gambiae}

Probab=99.56  E-value=3.9e-15  Score=154.04  Aligned_cols=208  Identities=16%  Similarity=0.133  Sum_probs=138.3

Q ss_pred             EEEcCCCCccCc--ccccccceeEEEecccccccCCCCCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCc
Q 038398          477 LVHAGLGLTEAP--EIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLW  554 (720)
Q Consensus       477 ~~~~~~~~~~~~--~~~~~~~l~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~  554 (720)
                      +...+......+  .+..+++|+.|++++|.+...+.+..+++|++|++++|.++.++     .+++|++|++++|.+.+
T Consensus        39 L~L~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~l~~L~~L~Ls~n~l~~l~-----~~~~L~~L~l~~n~l~~  113 (317)
T 3o53_A           39 LDLSGNPLSQISAADLAPFTKLELLNLSSNVLYETLDLESLSTLRTLDLNNNYVQELL-----VGPSIETLHAANNNISR  113 (317)
T ss_dssp             EECTTSCCCCCCHHHHTTCTTCCEEECTTSCCEEEEEETTCTTCCEEECCSSEEEEEE-----ECTTCCEEECCSSCCSE
T ss_pred             EECcCCccCcCCHHHhhCCCcCCEEECCCCcCCcchhhhhcCCCCEEECcCCcccccc-----CCCCcCEEECCCCccCC
Confidence            344444443332  45666777777777777765555666777777777777665544     23677777777775443


Q ss_pred             cCCccccCCCCCCEEeccCCCCcccch-hhhcCCCCCEEeccCCcCCCCCchhhh-hccccCceeeccccCCCcccchhc
Q 038398          555 KLPSGISTLVSLEHLDLSSTAITHLPI-ELQKLVNLKCLNLEYMNNLNQFPRLVI-SAFSKLQVLRMFDCGGSKIERLKI  632 (720)
Q Consensus       555 ~lp~~i~~l~~L~~L~L~~~~i~~lp~-~i~~l~~L~~L~l~~~~~l~~lp~~~~-~~l~~L~~L~~~~~~~~~l~~l~~  632 (720)
                      ..+   ..+++|++|++++|.++.++. .+..+++|++|++++| .+..++...+ ..+++|++|++.++   .+..++ 
T Consensus       114 ~~~---~~~~~L~~L~l~~N~l~~~~~~~~~~l~~L~~L~Ls~N-~l~~~~~~~~~~~l~~L~~L~L~~N---~l~~~~-  185 (317)
T 3o53_A          114 VSC---SRGQGKKNIYLANNKITMLRDLDEGCRSRVQYLDLKLN-EIDTVNFAELAASSDTLEHLNLQYN---FIYDVK-  185 (317)
T ss_dssp             EEE---CCCSSCEEEECCSSCCCSGGGBCTGGGSSEEEEECTTS-CCCEEEGGGGGGGTTTCCEEECTTS---CCCEEE-
T ss_pred             cCc---cccCCCCEEECCCCCCCCccchhhhccCCCCEEECCCC-CCCcccHHHHhhccCcCCEEECCCC---cCcccc-
Confidence            322   235778888888888887754 5777888888888874 4555443223 45677777776653   333221 


Q ss_pred             ccccCCccccHHHhcCCCCCceeEEEecchhhHHHHhhhhhhhhhccccccccccCCCccccccccccCCcceeeecCCC
Q 038398          633 NVLFGGHQFLVEELMGMKHLMVLTITLKSWQALKELLISQELQRSTQSLFLRCFNDSKSLDIFCLAGLRNLNKLYVAGCK  712 (720)
Q Consensus       633 ~~~~~~~~~~~~~l~~l~~L~~L~~~~~~~~~l~~l~~~~~~~~~L~~L~l~~~~~l~~l~~~~l~~l~~L~~L~l~~c~  712 (720)
                                  ....+++|+.|+++.|.+..++   .....+++|+.|++++ +.++.++ ..+..+++|+.|++++|+
T Consensus       186 ------------~~~~l~~L~~L~Ls~N~l~~l~---~~~~~l~~L~~L~L~~-N~l~~l~-~~~~~l~~L~~L~l~~N~  248 (317)
T 3o53_A          186 ------------GQVVFAKLKTLDLSSNKLAFMG---PEFQSAAGVTWISLRN-NKLVLIE-KALRFSQNLEHFDLRGNG  248 (317)
T ss_dssp             ------------CCCCCTTCCEEECCSSCCCEEC---GGGGGGTTCSEEECTT-SCCCEEC-TTCCCCTTCCEEECTTCC
T ss_pred             ------------cccccccCCEEECCCCcCCcch---hhhcccCcccEEECcC-Ccccchh-hHhhcCCCCCEEEccCCC
Confidence                        1224788999999988876543   2345567999999998 5677777 568889999999999998


Q ss_pred             CC
Q 038398          713 HL  714 (720)
Q Consensus       713 ~l  714 (720)
                      ..
T Consensus       249 ~~  250 (317)
T 3o53_A          249 FH  250 (317)
T ss_dssp             CB
T ss_pred             cc
Confidence            54

>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=99.55  E-value=1.9e-14  Score=161.15  Aligned_cols=212  Identities=23%  Similarity=0.199  Sum_probs=143.0

Q ss_pred             cEEEEcCCCCccCcccccccceeEEEecccccccCCCCCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCc
Q 038398          475 NFLVHAGLGLTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLW  554 (720)
Q Consensus       475 ~~~~~~~~~~~~~~~~~~~~~l~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~  554 (720)
                      ..+...+.....+|.... ++|+.|++++|.+..+|.  .+++|++|++++|.++.++.    .+++|++|+|++|+ +.
T Consensus        43 ~~L~ls~n~L~~lp~~l~-~~L~~L~L~~N~l~~lp~--~l~~L~~L~Ls~N~l~~lp~----~l~~L~~L~Ls~N~-l~  114 (622)
T 3g06_A           43 AVLNVGESGLTTLPDCLP-AHITTLVIPDNNLTSLPA--LPPELRTLEVSGNQLTSLPV----LPPGLLELSIFSNP-LT  114 (622)
T ss_dssp             CEEECCSSCCSCCCSCCC-TTCSEEEECSCCCSCCCC--CCTTCCEEEECSCCCSCCCC----CCTTCCEEEECSCC-CC
T ss_pred             cEEEecCCCcCccChhhC-CCCcEEEecCCCCCCCCC--cCCCCCEEEcCCCcCCcCCC----CCCCCCEEECcCCc-CC
Confidence            455566666666665322 799999999999998877  67999999999999988876    68999999999995 44


Q ss_pred             cCCccccCCCCCCEEeccCCCCcccchhhhcCCCCCEEeccCCcCCCCCchhhhhcc-----------------ccCcee
Q 038398          555 KLPSGISTLVSLEHLDLSSTAITHLPIELQKLVNLKCLNLEYMNNLNQFPRLVISAF-----------------SKLQVL  617 (720)
Q Consensus       555 ~lp~~i~~l~~L~~L~L~~~~i~~lp~~i~~l~~L~~L~l~~~~~l~~lp~~~~~~l-----------------~~L~~L  617 (720)
                      .+|.   .+.+|++|++++|+++.+|..   +++|++|++++| .+..+|.. +..+                 ++|+.|
T Consensus       115 ~l~~---~l~~L~~L~L~~N~l~~lp~~---l~~L~~L~Ls~N-~l~~l~~~-~~~L~~L~L~~N~l~~l~~~~~~L~~L  186 (622)
T 3g06_A          115 HLPA---LPSGLCKLWIFGNQLTSLPVL---PPGLQELSVSDN-QLASLPAL-PSELCKLWAYNNQLTSLPMLPSGLQEL  186 (622)
T ss_dssp             CCCC---CCTTCCEEECCSSCCSCCCCC---CTTCCEEECCSS-CCSCCCCC-CTTCCEEECCSSCCSCCCCCCTTCCEE
T ss_pred             CCCC---CCCCcCEEECCCCCCCcCCCC---CCCCCEEECcCC-cCCCcCCc-cCCCCEEECCCCCCCCCcccCCCCcEE
Confidence            6776   678999999999999999974   589999999985 66777652 3333                 333333


Q ss_pred             eccccCCCcccchhcccccCCc-----cccHHHh-cCCCCCceeEEEecchhhHHHHhhhhhhhhhccccccccccCCCc
Q 038398          618 RMFDCGGSKIERLKINVLFGGH-----QFLVEEL-MGMKHLMVLTITLKSWQALKELLISQELQRSTQSLFLRCFNDSKS  691 (720)
Q Consensus       618 ~~~~~~~~~l~~l~~~~~~~~~-----~~~~~~l-~~l~~L~~L~~~~~~~~~l~~l~~~~~~~~~L~~L~l~~~~~l~~  691 (720)
                      ++   +.|.+..++... ..+.     ...+..+ ..+++|+.|.+++|.+..++      ..+++|+.|++++ |.++.
T Consensus       187 ~L---s~N~l~~l~~~~-~~L~~L~L~~N~l~~l~~~~~~L~~L~Ls~N~L~~lp------~~l~~L~~L~Ls~-N~L~~  255 (622)
T 3g06_A          187 SV---SDNQLASLPTLP-SELYKLWAYNNRLTSLPALPSGLKELIVSGNRLTSLP------VLPSELKELMVSG-NRLTS  255 (622)
T ss_dssp             EC---CSSCCSCCCCCC-TTCCEEECCSSCCSSCCCCCTTCCEEECCSSCCSCCC------CCCTTCCEEECCS-SCCSC
T ss_pred             EC---CCCCCCCCCCcc-chhhEEECcCCcccccCCCCCCCCEEEccCCccCcCC------CCCCcCcEEECCC-CCCCc
Confidence            33   334443333110 0000     0000001 12356777777777665533      2346788888887 45667


Q ss_pred             cccccccccCCcceeeecCCCCCcccc
Q 038398          692 LDIFCLAGLRNLNKLYVAGCKHLEDSQ  718 (720)
Q Consensus       692 l~~~~l~~l~~L~~L~l~~c~~l~~i~  718 (720)
                      +|.    .+++|+.|+|++|. ++.++
T Consensus       256 lp~----~~~~L~~L~Ls~N~-L~~lp  277 (622)
T 3g06_A          256 LPM----LPSGLLSLSVYRNQ-LTRLP  277 (622)
T ss_dssp             CCC----CCTTCCEEECCSSC-CCSCC
T ss_pred             CCc----ccccCcEEeCCCCC-CCcCC
Confidence            762    56788888888874 44443

>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=99.55  E-value=4.3e-14  Score=140.89  Aligned_cols=172  Identities=20%  Similarity=0.280  Sum_probs=139.7

Q ss_pred             EEEEcCCCCccCcccccccceeEEEecccccccCCC--CCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCC
Q 038398          476 FLVHAGLGLTEAPEIQNWRNVRRMSLMKNKIENLSE--TPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLL  553 (720)
Q Consensus       476 ~~~~~~~~~~~~~~~~~~~~l~~L~l~~~~~~~~~~--~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~  553 (720)
                      .+...+.....+|... .++++.|++++|.+..++.  +..+++|++|++++|.+..+++..|.++++|++|+|++|.+.
T Consensus        18 ~l~~~~~~l~~~p~~~-~~~l~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~   96 (251)
T 3m19_A           18 EVDCQGKSLDSVPSGI-PADTEKLDLQSTGLATLSDATFRGLTKLTWLNLDYNQLQTLSAGVFDDLTELGTLGLANNQLA   96 (251)
T ss_dssp             EEECTTCCCSSCCSCC-CTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECTTSCCC
T ss_pred             EEecCCCCccccCCCC-CCCCCEEEccCCCcCccCHhHhcCcccCCEEECCCCcCCccCHhHhccCCcCCEEECCCCccc
Confidence            3455555566665422 3689999999999988764  578999999999999999999888999999999999999777


Q ss_pred             ccCCccccCCCCCCEEeccCCCCcccchh-hhcCCCCCEEeccCCcCCCCCchhhhhccccCceeeccccCCCcccchhc
Q 038398          554 WKLPSGISTLVSLEHLDLSSTAITHLPIE-LQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKI  632 (720)
Q Consensus       554 ~~lp~~i~~l~~L~~L~L~~~~i~~lp~~-i~~l~~L~~L~l~~~~~l~~lp~~~~~~l~~L~~L~~~~~~~~~l~~l~~  632 (720)
                      ...|..+..+++|++|+|++|.++.+|.. +.++++|++|++++ +.+..+|...++.+++|+.|++.+   |.+..++ 
T Consensus        97 ~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~Ls~-N~l~~~~~~~~~~l~~L~~L~L~~---N~l~~~~-  171 (251)
T 3m19_A           97 SLPLGVFDHLTQLDKLYLGGNQLKSLPSGVFDRLTKLKELRLNT-NQLQSIPAGAFDKLTNLQTLSLST---NQLQSVP-  171 (251)
T ss_dssp             CCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCS-SCCCCCCTTTTTTCTTCCEEECCS---SCCSCCC-
T ss_pred             ccChhHhcccCCCCEEEcCCCcCCCcChhHhccCCcccEEECcC-CcCCccCHHHcCcCcCCCEEECCC---CcCCccC-
Confidence            66667789999999999999999999876 68899999999999 578888876678888888888775   4443332 


Q ss_pred             ccccCCccccHHHhcCCCCCceeEEEecchh
Q 038398          633 NVLFGGHQFLVEELMGMKHLMVLTITLKSWQ  663 (720)
Q Consensus       633 ~~~~~~~~~~~~~l~~l~~L~~L~~~~~~~~  663 (720)
                                ...+..+++|+.|.+++|.+.
T Consensus       172 ----------~~~~~~l~~L~~L~l~~N~~~  192 (251)
T 3m19_A          172 ----------HGAFDRLGKLQTITLFGNQFD  192 (251)
T ss_dssp             ----------TTTTTTCTTCCEEECCSCCBC
T ss_pred             ----------HHHHhCCCCCCEEEeeCCcee
Confidence                      223567889999999988763

>3oja_A Leucine-rich immune molecule 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae}

Probab=99.55  E-value=5.4e-15  Score=162.10  Aligned_cols=191  Identities=20%  Similarity=0.207  Sum_probs=150.8

Q ss_pred             cccceeEEEecccccccCC--CCCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCccCCccccCCCCCCEE
Q 038398          492 NWRNVRRMSLMKNKIENLS--ETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVSLEHL  569 (720)
Q Consensus       492 ~~~~l~~L~l~~~~~~~~~--~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L  569 (720)
                      .+++|+.|++++|.+..++  .+..+++|++|++++|.++..++  |..+++|++|+|++|.+. .+|    ..++|++|
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--LESLSTLRTLDLNNNYVQ-ELL----VGPSIETL  104 (487)
T ss_dssp             TGGGCCEEECCSSCCCCCCGGGGTTCTTCCEEECTTSCCEEEEE--CTTCTTCCEEECCSSEEE-EEE----ECTTCCEE
T ss_pred             cCCCccEEEeeCCcCCCCCHHHHhCCCCCCEEEeeCCCCCCCcc--cccCCCCCEEEecCCcCC-CCC----CCCCcCEE
Confidence            4558999999999998875  35889999999999999987776  899999999999999543 444    33899999


Q ss_pred             eccCCCCcccchhhhcCCCCCEEeccCCcCCCCCchhhhhccccCceeeccccCCCcccchhcccccCCccccHHHhc-C
Q 038398          570 DLSSTAITHLPIELQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKINVLFGGHQFLVEELM-G  648 (720)
Q Consensus       570 ~L~~~~i~~lp~~i~~l~~L~~L~l~~~~~l~~lp~~~~~~l~~L~~L~~~~~~~~~l~~l~~~~~~~~~~~~~~~l~-~  648 (720)
                      ++++|.++.+|..  .+++|+.|++++| .+..+++..++.+++|+.|++.+   |.+..+           .+..+. .
T Consensus       105 ~L~~N~l~~~~~~--~l~~L~~L~L~~N-~l~~~~~~~~~~l~~L~~L~Ls~---N~l~~~-----------~~~~l~~~  167 (487)
T 3oja_A          105 HAANNNISRVSCS--RGQGKKNIYLANN-KITMLRDLDEGCRSRVQYLDLKL---NEIDTV-----------NFAELAAS  167 (487)
T ss_dssp             ECCSSCCCCEEEC--CCSSCEEEECCSS-CCCSGGGBCGGGGSSEEEEECTT---SCCCEE-----------EGGGGGGG
T ss_pred             ECcCCcCCCCCcc--ccCCCCEEECCCC-CCCCCCchhhcCCCCCCEEECCC---CCCCCc-----------ChHHHhhh
Confidence            9999999988753  5799999999994 56666654577788888887765   444322           222333 6


Q ss_pred             CCCCceeEEEecchhhHHHHhhhhhhhhhccccccccccCCCccccccccccCCcceeeecCCC
Q 038398          649 MKHLMVLTITLKSWQALKELLISQELQRSTQSLFLRCFNDSKSLDIFCLAGLRNLNKLYVAGCK  712 (720)
Q Consensus       649 l~~L~~L~~~~~~~~~l~~l~~~~~~~~~L~~L~l~~~~~l~~l~~~~l~~l~~L~~L~l~~c~  712 (720)
                      +++|+.|++++|.+..++.    ...+++|+.|+|++ +.++.++ ..+..+++|+.|+|++|.
T Consensus       168 l~~L~~L~Ls~N~l~~~~~----~~~l~~L~~L~Ls~-N~l~~~~-~~~~~l~~L~~L~Ls~N~  225 (487)
T 3oja_A          168 SDTLEHLNLQYNFIYDVKG----QVVFAKLKTLDLSS-NKLAFMG-PEFQSAAGVTWISLRNNK  225 (487)
T ss_dssp             TTTCCEEECTTSCCCEEEC----CCCCTTCCEEECCS-SCCCEEC-GGGGGGTTCSEEECTTSC
T ss_pred             CCcccEEecCCCccccccc----cccCCCCCEEECCC-CCCCCCC-HhHcCCCCccEEEecCCc
Confidence            7899999999998876522    22367999999998 5677777 358899999999999986

>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=99.55  E-value=1.3e-14  Score=162.28  Aligned_cols=184  Identities=19%  Similarity=0.263  Sum_probs=142.8

Q ss_pred             cCcccccccceeEEEecccccccCCCCCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCccCCccccCCCC
Q 038398          486 EAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVS  565 (720)
Q Consensus       486 ~~~~~~~~~~l~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~  565 (720)
                      +......+++|+.|++++|.+..++.+..+++|+.|+|++|.+..+++  +..+++|++|+|++|.+. .+| .++.+++
T Consensus        35 ~~~~~~~L~~L~~L~l~~n~i~~l~~l~~l~~L~~L~Ls~N~l~~~~~--l~~l~~L~~L~Ls~N~l~-~l~-~l~~l~~  110 (605)
T 1m9s_A           35 DAVTQNELNSIDQIIANNSDIKSVQGIQYLPNVTKLFLNGNKLTDIKP--LTNLKNLGWLFLDENKIK-DLS-SLKDLKK  110 (605)
T ss_dssp             SEECHHHHTTCCCCBCTTCCCCCCTTGGGCTTCCEEECTTSCCCCCGG--GGGCTTCCEEECCSSCCC-CCT-TSTTCTT
T ss_pred             cccchhcCCCCCEEECcCCCCCCChHHccCCCCCEEEeeCCCCCCChh--hccCCCCCEEECcCCCCC-CCh-hhccCCC
Confidence            344566778899999999999988888889999999999999988877  889999999999999554 455 7889999


Q ss_pred             CCEEeccCCCCcccchhhhcCCCCCEEeccCCcCCCCCchhhhhccccCceeeccccCCCcccchhcccccCCccccHHH
Q 038398          566 LEHLDLSSTAITHLPIELQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKINVLFGGHQFLVEE  645 (720)
Q Consensus       566 L~~L~L~~~~i~~lp~~i~~l~~L~~L~l~~~~~l~~lp~~~~~~l~~L~~L~~~~~~~~~l~~l~~~~~~~~~~~~~~~  645 (720)
                      |++|+|++|.++.+| .+..+++|+.|+|++| .+..++.  ++.+++|+.|++.++.   +..+           .+  
T Consensus       111 L~~L~Ls~N~l~~l~-~l~~l~~L~~L~Ls~N-~l~~l~~--l~~l~~L~~L~Ls~N~---l~~~-----------~~--  170 (605)
T 1m9s_A          111 LKSLSLEHNGISDIN-GLVHLPQLESLYLGNN-KITDITV--LSRLTKLDTLSLEDNQ---ISDI-----------VP--  170 (605)
T ss_dssp             CCEEECTTSCCCCCG-GGGGCTTCSEEECCSS-CCCCCGG--GGSCTTCSEEECCSSC---CCCC-----------GG--
T ss_pred             CCEEEecCCCCCCCc-cccCCCccCEEECCCC-ccCCchh--hcccCCCCEEECcCCc---CCCc-----------hh--
Confidence            999999999999875 5889999999999984 6677754  7888888888887643   3211           11  


Q ss_pred             hcCCCCCceeEEEecchhhHHHHhhhhhhhhhccccccccccCCCcccccccc
Q 038398          646 LMGMKHLMVLTITLKSWQALKELLISQELQRSTQSLFLRCFNDSKSLDIFCLA  698 (720)
Q Consensus       646 l~~l~~L~~L~~~~~~~~~l~~l~~~~~~~~~L~~L~l~~~~~l~~l~~~~l~  698 (720)
                      +..+++|+.|.++.|.+..++    ....+++|+.|+|++|+ +...|...+.
T Consensus       171 l~~l~~L~~L~Ls~N~i~~l~----~l~~l~~L~~L~L~~N~-l~~~p~~~~~  218 (605)
T 1m9s_A          171 LAGLTKLQNLYLSKNHISDLR----ALAGLKNLDVLELFSQE-CLNKPINHQS  218 (605)
T ss_dssp             GTTCTTCCEEECCSSCCCBCG----GGTTCTTCSEEECCSEE-EECCCCCCCS
T ss_pred             hccCCCCCEEECcCCCCCCCh----HHccCCCCCEEEccCCc-CcCCcccccc
Confidence            677889999999988887653    23445689999998754 4444433333

>3o53_A Protein LRIM1, AGAP006348-PA; leucine-rich repeat, protein binding; HET: NAG; 2.00A {Anopheles gambiae}

Probab=99.55  E-value=4.5e-15  Score=153.57  Aligned_cols=188  Identities=21%  Similarity=0.222  Sum_probs=91.5

Q ss_pred             cceeEEEecccccccCCC--CCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCccCCccccCCCCCCEEec
Q 038398          494 RNVRRMSLMKNKIENLSE--TPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDL  571 (720)
Q Consensus       494 ~~l~~L~l~~~~~~~~~~--~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L  571 (720)
                      +++++|++++|.+..++.  +..+++|++|++++|.++..++  +..+++|++|+|++|.+. .+|    .+++|++|++
T Consensus        34 ~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~--~~~l~~L~~L~Ls~n~l~-~l~----~~~~L~~L~l  106 (317)
T 3o53_A           34 WNVKELDLSGNPLSQISAADLAPFTKLELLNLSSNVLYETLD--LESLSTLRTLDLNNNYVQ-ELL----VGPSIETLHA  106 (317)
T ss_dssp             GGCSEEECTTSCCCCCCHHHHTTCTTCCEEECTTSCCEEEEE--ETTCTTCCEEECCSSEEE-EEE----ECTTCCEEEC
T ss_pred             CCCCEEECcCCccCcCCHHHhhCCCcCCEEECCCCcCCcchh--hhhcCCCCEEECcCCccc-ccc----CCCCcCEEEC
Confidence            455566666665555431  3455556666666665554443  555566666666655322 222    2255666666


Q ss_pred             cCCCCcccchhhhcCCCCCEEeccCCcCCCCCchhhhhccccCceeeccccCCCcccchhcccccCCccccHHHh-cCCC
Q 038398          572 SSTAITHLPIELQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKINVLFGGHQFLVEEL-MGMK  650 (720)
Q Consensus       572 ~~~~i~~lp~~i~~l~~L~~L~l~~~~~l~~lp~~~~~~l~~L~~L~~~~~~~~~l~~l~~~~~~~~~~~~~~~l-~~l~  650 (720)
                      ++|.++.+|..  .+++|++|++++ +.+..++...++.+++|+.|++.+   |.+..++           +..+ ..++
T Consensus       107 ~~n~l~~~~~~--~~~~L~~L~l~~-N~l~~~~~~~~~~l~~L~~L~Ls~---N~l~~~~-----------~~~~~~~l~  169 (317)
T 3o53_A          107 ANNNISRVSCS--RGQGKKNIYLAN-NKITMLRDLDEGCRSRVQYLDLKL---NEIDTVN-----------FAELAASSD  169 (317)
T ss_dssp             CSSCCSEEEEC--CCSSCEEEECCS-SCCCSGGGBCTGGGSSEEEEECTT---SCCCEEE-----------GGGGGGGTT
T ss_pred             CCCccCCcCcc--ccCCCCEEECCC-CCCCCccchhhhccCCCCEEECCC---CCCCccc-----------HHHHhhccC
Confidence            66655555432  245566666655 344444433344455555544443   2222111           1111 2345


Q ss_pred             CCceeEEEecchhhHHHHhhhhhhhhhccccccccccCCCccccccccccCCcceeeecCC
Q 038398          651 HLMVLTITLKSWQALKELLISQELQRSTQSLFLRCFNDSKSLDIFCLAGLRNLNKLYVAGC  711 (720)
Q Consensus       651 ~L~~L~~~~~~~~~l~~l~~~~~~~~~L~~L~l~~~~~l~~l~~~~l~~l~~L~~L~l~~c  711 (720)
                      +|+.|.++.|.+..++.    ...+++|+.|++++ +.++.++ ..+..+++|+.|++++|
T Consensus       170 ~L~~L~L~~N~l~~~~~----~~~l~~L~~L~Ls~-N~l~~l~-~~~~~l~~L~~L~L~~N  224 (317)
T 3o53_A          170 TLEHLNLQYNFIYDVKG----QVVFAKLKTLDLSS-NKLAFMG-PEFQSAAGVTWISLRNN  224 (317)
T ss_dssp             TCCEEECTTSCCCEEEC----CCCCTTCCEEECCS-SCCCEEC-GGGGGGTTCSEEECTTS
T ss_pred             cCCEEECCCCcCccccc----ccccccCCEEECCC-CcCCcch-hhhcccCcccEEECcCC
Confidence            55555555555443311    11234556666655 3344444 22555556666666555

>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=99.55  E-value=3e-14  Score=158.38  Aligned_cols=122  Identities=21%  Similarity=0.221  Sum_probs=106.9

Q ss_pred             eEEEecccccccCCCCCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCccCCccccCCCCCCEEeccCCCC
Q 038398          497 RRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSSTAI  576 (720)
Q Consensus       497 ~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~~~i  576 (720)
                      ++|++++|.+..+|.... ++|++|++++|.+..+++..|.++++|++|+|++|.+.+..|..|+++++|++|+|++|.+
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            579999999998886433 8999999999999999988899999999999999987777789999999999999999999


Q ss_pred             cccchhhhcCCCCCEEeccCCcCCCC--CchhhhhccccCceeeccccC
Q 038398          577 THLPIELQKLVNLKCLNLEYMNNLNQ--FPRLVISAFSKLQVLRMFDCG  623 (720)
Q Consensus       577 ~~lp~~i~~l~~L~~L~l~~~~~l~~--lp~~~~~~l~~L~~L~~~~~~  623 (720)
                      +.+|..  .+++|++|++++| .+..  +|.. ++.+++|++|++.++.
T Consensus        82 ~~lp~~--~l~~L~~L~L~~N-~l~~~~~p~~-~~~l~~L~~L~L~~n~  126 (520)
T 2z7x_B           82 VKISCH--PTVNLKHLDLSFN-AFDALPICKE-FGNMSQLKFLGLSTTH  126 (520)
T ss_dssp             CEEECC--CCCCCSEEECCSS-CCSSCCCCGG-GGGCTTCCEEEEEESS
T ss_pred             eecCcc--ccCCccEEeccCC-ccccccchhh-hccCCcceEEEecCcc
Confidence            999987  8999999999995 5554  4553 8899999999887643

>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=99.54  E-value=3.1e-15  Score=167.39  Aligned_cols=190  Identities=20%  Similarity=0.268  Sum_probs=152.7

Q ss_pred             cceeEEEecccccccCCCCCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCccCCccccCCCCCCEEeccC
Q 038398          494 RNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSS  573 (720)
Q Consensus       494 ~~l~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~  573 (720)
                      .++..+.+..+.+..+.....+++|+.|++++|.+..++.  +..|++|+.|+|++|.+. .+|. ++.+++|++|+|++
T Consensus        21 ~~l~~l~l~~~~i~~~~~~~~L~~L~~L~l~~n~i~~l~~--l~~l~~L~~L~Ls~N~l~-~~~~-l~~l~~L~~L~Ls~   96 (605)
T 1m9s_A           21 AETIKDNLKKKSVTDAVTQNELNSIDQIIANNSDIKSVQG--IQYLPNVTKLFLNGNKLT-DIKP-LTNLKNLGWLFLDE   96 (605)
T ss_dssp             HHHHHHHTTCSCTTSEECHHHHTTCCCCBCTTCCCCCCTT--GGGCTTCCEEECTTSCCC-CCGG-GGGCTTCCEEECCS
T ss_pred             HHHHHHhccCCCcccccchhcCCCCCEEECcCCCCCCChH--HccCCCCCEEEeeCCCCC-CChh-hccCCCCCEEECcC
Confidence            3444555666666665556678899999999999988864  899999999999999655 4554 89999999999999


Q ss_pred             CCCcccchhhhcCCCCCEEeccCCcCCCCCchhhhhccccCceeeccccCCCcccchhcccccCCccccHHHhcCCCCCc
Q 038398          574 TAITHLPIELQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKINVLFGGHQFLVEELMGMKHLM  653 (720)
Q Consensus       574 ~~i~~lp~~i~~l~~L~~L~l~~~~~l~~lp~~~~~~l~~L~~L~~~~~~~~~l~~l~~~~~~~~~~~~~~~l~~l~~L~  653 (720)
                      |.++.+| .+..+++|++|+|++| .+..+|.  +..+++|+.|++.++.   +..+             ..+..+++|+
T Consensus        97 N~l~~l~-~l~~l~~L~~L~Ls~N-~l~~l~~--l~~l~~L~~L~Ls~N~---l~~l-------------~~l~~l~~L~  156 (605)
T 1m9s_A           97 NKIKDLS-SLKDLKKLKSLSLEHN-GISDING--LVHLPQLESLYLGNNK---ITDI-------------TVLSRLTKLD  156 (605)
T ss_dssp             SCCCCCT-TSTTCTTCCEEECTTS-CCCCCGG--GGGCTTCSEEECCSSC---CCCC-------------GGGGSCTTCS
T ss_pred             CCCCCCh-hhccCCCCCEEEecCC-CCCCCcc--ccCCCccCEEECCCCc---cCCc-------------hhhcccCCCC
Confidence            9999987 6999999999999994 6777775  7889999999887653   3221             3477899999


Q ss_pred             eeEEEecchhhHHHHhhhhhhhhhccccccccccCCCccccccccccCCcceeeecCCCCC
Q 038398          654 VLTITLKSWQALKELLISQELQRSTQSLFLRCFNDSKSLDIFCLAGLRNLNKLYVAGCKHL  714 (720)
Q Consensus       654 ~L~~~~~~~~~l~~l~~~~~~~~~L~~L~l~~~~~l~~l~~~~l~~l~~L~~L~l~~c~~l  714 (720)
                      .|.++.|.+..+..    ...+++|+.|+|++| .+..++  .+..+++|+.|+|++|+..
T Consensus       157 ~L~Ls~N~l~~~~~----l~~l~~L~~L~Ls~N-~i~~l~--~l~~l~~L~~L~L~~N~l~  210 (605)
T 1m9s_A          157 TLSLEDNQISDIVP----LAGLTKLQNLYLSKN-HISDLR--ALAGLKNLDVLELFSQECL  210 (605)
T ss_dssp             EEECCSSCCCCCGG----GTTCTTCCEEECCSS-CCCBCG--GGTTCTTCSEEECCSEEEE
T ss_pred             EEECcCCcCCCchh----hccCCCCCEEECcCC-CCCCCh--HHccCCCCCEEEccCCcCc
Confidence            99999998876543    445579999999984 567765  7899999999999998743

>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=99.52  E-value=3e-14  Score=163.85  Aligned_cols=197  Identities=18%  Similarity=0.177  Sum_probs=151.0

Q ss_pred             eEEEecccccccCCCCCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCccCCccccCCCCCCEEeccCCCC
Q 038398          497 RRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSSTAI  576 (720)
Q Consensus       497 ~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~~~i  576 (720)
                      +.++.+++.+..+|... .+++++|++++|.++.+++..|.++++|++|+|++|.+.+..|..++++++|++|++++|.+
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            46788888888887632 27999999999999999988899999999999999988777788999999999999999999


Q ss_pred             cccch-hhhcCCCCCEEeccCCcCCCCCchhhhhccccCceeeccccCCCcccchhcccccCCccccHHHhcCCCCCcee
Q 038398          577 THLPI-ELQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKINVLFGGHQFLVEELMGMKHLMVL  655 (720)
Q Consensus       577 ~~lp~-~i~~l~~L~~L~l~~~~~l~~lp~~~~~~l~~L~~L~~~~~~~~~l~~l~~~~~~~~~~~~~~~l~~l~~L~~L  655 (720)
                      +.+|. .|+++++|++|++++| .+..+|...++.+++|++|++.++.   +..++           +..+..+++|+.|
T Consensus        86 ~~l~~~~~~~l~~L~~L~L~~n-~l~~~~~~~~~~l~~L~~L~Ls~n~---l~~~~-----------~~~~~~l~~L~~L  150 (680)
T 1ziw_A           86 SQLSDKTFAFCTNLTELHLMSN-SIQKIKNNPFVKQKNLITLDLSHNG---LSSTK-----------LGTQVQLENLQEL  150 (680)
T ss_dssp             CCCCTTTTTTCTTCSEEECCSS-CCCCCCSCTTTTCTTCCEEECCSSC---CSCCC-----------CCSSSCCTTCCEE
T ss_pred             CccChhhhccCCCCCEEECCCC-ccCccChhHccccCCCCEEECCCCc---ccccC-----------chhhcccccCCEE
Confidence            99987 4999999999999995 6678876568889999999887653   32211           2235678899999


Q ss_pred             EEEecchhhHHHHhhhhhhhhhccccccccccCCCccccccccccCCcceeeecC
Q 038398          656 TITLKSWQALKELLISQELQRSTQSLFLRCFNDSKSLDIFCLAGLRNLNKLYVAG  710 (720)
Q Consensus       656 ~~~~~~~~~l~~l~~~~~~~~~L~~L~l~~~~~l~~l~~~~l~~l~~L~~L~l~~  710 (720)
                      .++.|.+..+..-.......++|+.|+++++ .+..++...+..+++|+.|++.+
T Consensus       151 ~L~~n~l~~~~~~~~~~~~~~~L~~L~L~~n-~l~~~~~~~~~~l~~L~~L~l~~  204 (680)
T 1ziw_A          151 LLSNNKIQALKSEELDIFANSSLKKLELSSN-QIKEFSPGCFHAIGRLFGLFLNN  204 (680)
T ss_dssp             ECCSSCCCCBCHHHHGGGTTCEESEEECTTC-CCCCBCTTGGGGSSEECEEECTT
T ss_pred             EccCCcccccCHHHhhccccccccEEECCCC-cccccChhhhhhhhhhhhhhccc
Confidence            9998876554322222223368999999984 45555545565555544444433

>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=99.52  E-value=3.2e-14  Score=159.57  Aligned_cols=126  Identities=18%  Similarity=0.200  Sum_probs=107.8

Q ss_pred             ccceeEEEecccccccCCCCCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCccCCccccCCCCCCEEecc
Q 038398          493 WRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLS  572 (720)
Q Consensus       493 ~~~l~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~  572 (720)
                      +...+++++++|.+..+|... .++|++|++++|.++.+++..|.++++|++|+|++|.+.+..|..|+++++|++|+++
T Consensus        30 ~~~~~~l~ls~~~L~~ip~~~-~~~L~~L~Ls~N~i~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls  108 (562)
T 3a79_B           30 NELESMVDYSNRNLTHVPKDL-PPRTKALSLSQNSISELRMPDISFLSELRVLRLSHNRIRSLDFHVFLFNQDLEYLDVS  108 (562)
T ss_dssp             ---CCEEECTTSCCCSCCTTS-CTTCCEEECCSSCCCCCCGGGTTTCTTCCEEECCSCCCCEECTTTTTTCTTCCEEECT
T ss_pred             cCCCcEEEcCCCCCccCCCCC-CCCcCEEECCCCCccccChhhhccCCCccEEECCCCCCCcCCHHHhCCCCCCCEEECC
Confidence            344589999999999888632 3899999999999999998889999999999999998777778899999999999999


Q ss_pred             CCCCcccchhhhcCCCCCEEeccCCcCCCCCch-hhhhccccCceeecccc
Q 038398          573 STAITHLPIELQKLVNLKCLNLEYMNNLNQFPR-LVISAFSKLQVLRMFDC  622 (720)
Q Consensus       573 ~~~i~~lp~~i~~l~~L~~L~l~~~~~l~~lp~-~~~~~l~~L~~L~~~~~  622 (720)
                      +|.++.+|..  .+++|++|++++| .+..+|. ..++.+++|++|++.++
T Consensus       109 ~N~l~~lp~~--~l~~L~~L~Ls~N-~l~~l~~p~~~~~l~~L~~L~L~~n  156 (562)
T 3a79_B          109 HNRLQNISCC--PMASLRHLDLSFN-DFDVLPVCKEFGNLTKLTFLGLSAA  156 (562)
T ss_dssp             TSCCCEECSC--CCTTCSEEECCSS-CCSBCCCCGGGGGCTTCCEEEEECS
T ss_pred             CCcCCccCcc--ccccCCEEECCCC-CccccCchHhhcccCcccEEecCCC
Confidence            9999999987  8999999999994 5666652 34888999999988764

>2z63_A TOLL-like receptor 4, variable lymphocyte recepto; TLR4, MD-2, LPS, immune system; HET: NAG FUL; 2.00A {Homo sapiens}

Probab=99.52  E-value=2.5e-14  Score=160.96  Aligned_cols=207  Identities=21%  Similarity=0.234  Sum_probs=146.3

Q ss_pred             ccccceeEEEecccccccCCCCCCCCcccEEEccCCCCcCcc--hHHhccCCcccEEEccCCCCCccCCccccCCCCCCE
Q 038398          491 QNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMST--DDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVSLEH  568 (720)
Q Consensus       491 ~~~~~l~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~--~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~  568 (720)
                      ..+++++.|++.+|.+........+++|+.|++++|.+....  +..+.++++|++|++++|.+. .+|..+..+++|++
T Consensus       322 ~~l~~L~~L~l~~n~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~~L~~L~l~~n~l~-~~~~~~~~l~~L~~  400 (570)
T 2z63_A          322 LKLKSLKRLTFTSNKGGNAFSEVDLPSLEFLDLSRNGLSFKGCCSQSDFGTTSLKYLDLSFNGVI-TMSSNFLGLEQLEH  400 (570)
T ss_dssp             CBCSSCCEEEEESCBSCCBCCCCBCTTCCEEECCSSCCBEEEEEEHHHHTCSCCCEEECCSCSEE-EEEEEEETCTTCCE
T ss_pred             ccccccCEEeCcCCccccccccccCCCCCEEeCcCCccCccccccccccccCccCEEECCCCccc-cccccccccCCCCE
Confidence            355667777777776655444467788888888888776653  445778888888888888544 45555888888888


Q ss_pred             EeccCCCCcccch--hhhcCCCCCEEeccCCcCCCCCchhhhhccccCceeeccccCCCcccchhcccccCCccccHHHh
Q 038398          569 LDLSSTAITHLPI--ELQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKINVLFGGHQFLVEEL  646 (720)
Q Consensus       569 L~L~~~~i~~lp~--~i~~l~~L~~L~l~~~~~l~~lp~~~~~~l~~L~~L~~~~~~~~~l~~l~~~~~~~~~~~~~~~l  646 (720)
                      |++++|.++..+.  .+.++++|++|++++|. +...+...+..+++|+.|++.++.   +..          ...+..+
T Consensus       401 L~l~~n~l~~~~~~~~~~~l~~L~~L~l~~n~-l~~~~~~~~~~l~~L~~L~l~~n~---l~~----------~~~p~~~  466 (570)
T 2z63_A          401 LDFQHSNLKQMSEFSVFLSLRNLIYLDISHTH-TRVAFNGIFNGLSSLEVLKMAGNS---FQE----------NFLPDIF  466 (570)
T ss_dssp             EECTTSEEESCTTSCTTTTCTTCCEEECTTSC-CEECCTTTTTTCTTCCEEECTTCE---EGG----------GEECSCC
T ss_pred             EEccCCccccccchhhhhcCCCCCEEeCcCCc-ccccchhhhhcCCcCcEEECcCCc---Ccc----------ccchhhh
Confidence            8888888776643  57788888888888854 333333346777888887776543   220          1123346


Q ss_pred             cCCCCCceeEEEecchhhHHHHhhhhhhhhhccccccccccCCCccccccccccCCcceeeecCCCCCc
Q 038398          647 MGMKHLMVLTITLKSWQALKELLISQELQRSTQSLFLRCFNDSKSLDIFCLAGLRNLNKLYVAGCKHLE  715 (720)
Q Consensus       647 ~~l~~L~~L~~~~~~~~~l~~l~~~~~~~~~L~~L~l~~~~~l~~l~~~~l~~l~~L~~L~l~~c~~l~  715 (720)
                      ..+++|+.|+++.|.+..+.  +.....+++|+.|++++| .++.++...+.++++|+.|++++|+---
T Consensus       467 ~~l~~L~~L~l~~n~l~~~~--~~~~~~l~~L~~L~l~~n-~l~~~~~~~~~~l~~L~~L~l~~N~~~~  532 (570)
T 2z63_A          467 TELRNLTFLDLSQCQLEQLS--PTAFNSLSSLQVLNMASN-QLKSVPDGIFDRLTSLQKIWLHTNPWDC  532 (570)
T ss_dssp             TTCTTCCEEECTTSCCCEEC--TTTTTTCTTCCEEECCSS-CCSCCCTTTTTTCTTCCEEECCSSCBCC
T ss_pred             hcccCCCEEECCCCccccCC--hhhhhcccCCCEEeCCCC-cCCCCCHHHhhcccCCcEEEecCCcccC
Confidence            77899999999988776431  233445679999999984 5777776778999999999999987543

>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=99.52  E-value=3.2e-14  Score=159.25  Aligned_cols=197  Identities=20%  Similarity=0.168  Sum_probs=154.7

Q ss_pred             EEEecccccccCCCCCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCccCCccccCCCCCCEEeccCCCCc
Q 038398          498 RMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSSTAIT  577 (720)
Q Consensus       498 ~L~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~~~i~  577 (720)
                      ..+.+++.+..+|... .++|++|++++|.++.+++..|.++++|++|+|++|.+.+..|..|+++++|++|++++|.++
T Consensus         9 ~c~~~~~~l~~ip~~~-~~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~Ls~n~l~   87 (549)
T 2z81_A            9 VCDGRSRSFTSIPSGL-TAAMKSLDLSFNKITYIGHGDLRACANLQVLILKSSRINTIEGDAFYSLGSLEHLDLSDNHLS   87 (549)
T ss_dssp             EEECTTSCCSSCCSCC-CTTCCEEECCSSCCCEECSSTTSSCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECTTSCCC
T ss_pred             eEECCCCccccccccC-CCCccEEECcCCccCccChhhhhcCCcccEEECCCCCcCccChhhccccccCCEEECCCCccC
Confidence            3567778888887642 379999999999999988777999999999999999887777789999999999999999999


Q ss_pred             ccchh-hhcCCCCCEEeccCCcCCCCC--chhhhhccccCceeeccccCCCcccchhcccccCCccccHHHhcCCCCCce
Q 038398          578 HLPIE-LQKLVNLKCLNLEYMNNLNQF--PRLVISAFSKLQVLRMFDCGGSKIERLKINVLFGGHQFLVEELMGMKHLMV  654 (720)
Q Consensus       578 ~lp~~-i~~l~~L~~L~l~~~~~l~~l--p~~~~~~l~~L~~L~~~~~~~~~l~~l~~~~~~~~~~~~~~~l~~l~~L~~  654 (720)
                      .+|.. ++++++|++|++++| .+..+  |. .++.+++|++|++.++..  +..+           ....+..+++|+.
T Consensus        88 ~~~~~~~~~l~~L~~L~Ls~n-~l~~~~~~~-~~~~l~~L~~L~L~~n~~--~~~~-----------~~~~~~~l~~L~~  152 (549)
T 2z81_A           88 SLSSSWFGPLSSLKYLNLMGN-PYQTLGVTS-LFPNLTNLQTLRIGNVET--FSEI-----------RRIDFAGLTSLNE  152 (549)
T ss_dssp             SCCHHHHTTCTTCCEEECTTC-CCSSSCSSC-SCTTCTTCCEEEEEESSS--CCEE-----------CTTTTTTCCEEEE
T ss_pred             ccCHHHhccCCCCcEEECCCC-cccccchhh-hhhccCCccEEECCCCcc--cccc-----------CHhhhhcccccCe
Confidence            98876 999999999999995 55543  44 378899999999887541  1111           1234677899999


Q ss_pred             eEEEecchhhHHHHhhhhhhhhhccccccccccCCCccccccccccCCcceeeecCCCC
Q 038398          655 LTITLKSWQALKELLISQELQRSTQSLFLRCFNDSKSLDIFCLAGLRNLNKLYVAGCKH  713 (720)
Q Consensus       655 L~~~~~~~~~l~~l~~~~~~~~~L~~L~l~~~~~l~~l~~~~l~~l~~L~~L~l~~c~~  713 (720)
                      |.++.+.+...  .+.....+++|+.|+++.+ ....++...+..+++|+.|++++|..
T Consensus       153 L~L~~n~l~~~--~~~~l~~l~~L~~L~l~~n-~~~~~~~~~~~~l~~L~~L~L~~n~l  208 (549)
T 2z81_A          153 LEIKALSLRNY--QSQSLKSIRDIHHLTLHLS-ESAFLLEIFADILSSVRYLELRDTNL  208 (549)
T ss_dssp             EEEEETTCCEE--CTTTTTTCSEEEEEEEECS-BSTTHHHHHHHSTTTBSEEEEESCBC
T ss_pred             eeccCCccccc--ChhhhhccccCceEecccC-cccccchhhHhhcccccEEEccCCcc
Confidence            99999887542  2234455678999999974 45566644456789999999988763

>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=99.51  E-value=1.3e-13  Score=135.17  Aligned_cols=127  Identities=26%  Similarity=0.380  Sum_probs=79.5

Q ss_pred             cceeEEEecccccccCCC--CCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCccCCccccCCCCCCEEec
Q 038398          494 RNVRRMSLMKNKIENLSE--TPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDL  571 (720)
Q Consensus       494 ~~l~~L~l~~~~~~~~~~--~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L  571 (720)
                      ++++.|++++|.+..++.  +..+++|+.|++++|.+..+++..|.++++|++|+|++|.+....+..+..+++|++|+|
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            566666776666665532  355666667777766666666665666666777777666544333444566666777777


Q ss_pred             cCCCCcccchhhhcCCCCCEEeccCCcCCCCCchhhhhccccCceeeccc
Q 038398          572 SSTAITHLPIELQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFD  621 (720)
Q Consensus       572 ~~~~i~~lp~~i~~l~~L~~L~l~~~~~l~~lp~~~~~~l~~L~~L~~~~  621 (720)
                      ++|.++.+|..+.++++|++|++++ +.+..+|...+..+++|+.|++.+
T Consensus       120 s~N~l~~lp~~~~~l~~L~~L~L~~-N~l~~~~~~~~~~l~~L~~L~l~~  168 (229)
T 3e6j_A          120 CCNKLTELPRGIERLTHLTHLALDQ-NQLKSIPHGAFDRLSSLTHAYLFG  168 (229)
T ss_dssp             CSSCCCSCCTTGGGCTTCSEEECCS-SCCCCCCTTTTTTCTTCCEEECTT
T ss_pred             cCCcccccCcccccCCCCCEEECCC-CcCCccCHHHHhCCCCCCEEEeeC
Confidence            6666666666666666677777666 455566654455566666555543

>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=99.51  E-value=1e-14  Score=152.27  Aligned_cols=201  Identities=15%  Similarity=0.112  Sum_probs=133.7

Q ss_pred             eeEEEecccccccCCCCCCC--CcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCcc-CCccccCCCCCCEEecc
Q 038398          496 VRRMSLMKNKIENLSETPTC--PHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWK-LPSGISTLVSLEHLDLS  572 (720)
Q Consensus       496 l~~L~l~~~~~~~~~~~~~~--~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~-lp~~i~~l~~L~~L~L~  572 (720)
                      +++++++++.+.. .....+  ++++.|++++|.+...++. +..+++|++|+|++|.+... +|..+..+++|++|+++
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            5678888876642 112333  7899999999988887766 56799999999999976655 78889999999999999


Q ss_pred             CCCCc-ccchhhhcCCCCCEEeccCCcCCCC--CchhhhhccccCceeecccc-CCCcccchhcccccCCccccHHHhcC
Q 038398          573 STAIT-HLPIELQKLVNLKCLNLEYMNNLNQ--FPRLVISAFSKLQVLRMFDC-GGSKIERLKINVLFGGHQFLVEELMG  648 (720)
Q Consensus       573 ~~~i~-~lp~~i~~l~~L~~L~l~~~~~l~~--lp~~~~~~l~~L~~L~~~~~-~~~~l~~l~~~~~~~~~~~~~~~l~~  648 (720)
                      +|.++ ..|..+..+++|++|++++|..+..  +|. .+..+++|++|++.+| ....             ......+..
T Consensus       127 ~~~l~~~~~~~l~~~~~L~~L~L~~~~~l~~~~l~~-~~~~~~~L~~L~l~~~~~l~~-------------~~~~~~~~~  192 (336)
T 2ast_B          127 GLRLSDPIVNTLAKNSNLVRLNLSGCSGFSEFALQT-LLSSCSRLDELNLSWCFDFTE-------------KHVQVAVAH  192 (336)
T ss_dssp             TCBCCHHHHHHHTTCTTCSEEECTTCBSCCHHHHHH-HHHHCTTCCEEECCCCTTCCH-------------HHHHHHHHH
T ss_pred             CcccCHHHHHHHhcCCCCCEEECCCCCCCCHHHHHH-HHhcCCCCCEEcCCCCCCcCh-------------HHHHHHHHh
Confidence            99987 5678899999999999999855553  554 3788999999999887 3221             112233444


Q ss_pred             CC-CCceeEEEecch-hhHHHHhhhhhhhhhccccccccccCCCccccccccccCCcceeeecCCC
Q 038398          649 MK-HLMVLTITLKSW-QALKELLISQELQRSTQSLFLRCFNDSKSLDIFCLAGLRNLNKLYVAGCK  712 (720)
Q Consensus       649 l~-~L~~L~~~~~~~-~~l~~l~~~~~~~~~L~~L~l~~~~~l~~l~~~~l~~l~~L~~L~l~~c~  712 (720)
                      ++ +|+.|.++++.. -....++.....+++|+.|++++|..++......+.++++|+.|+|++|.
T Consensus       193 l~~~L~~L~l~~~~~~~~~~~l~~~~~~~~~L~~L~l~~~~~l~~~~~~~l~~l~~L~~L~l~~~~  258 (336)
T 2ast_B          193 VSETITQLNLSGYRKNLQKSDLSTLVRRCPNLVHLDLSDSVMLKNDCFQEFFQLNYLQHLSLSRCY  258 (336)
T ss_dssp             SCTTCCEEECCSCGGGSCHHHHHHHHHHCTTCSEEECTTCTTCCGGGGGGGGGCTTCCEEECTTCT
T ss_pred             cccCCCEEEeCCCcccCCHHHHHHHHhhCCCCCEEeCCCCCcCCHHHHHHHhCCCCCCEeeCCCCC
Confidence            55 566666655531 01122222233344555555555443333333345555555555555554

>1wwl_A Monocyte differentiation antigen CD14; LPS, immune system; HET: NAG; 2.50A {Mus musculus}

Probab=99.51  E-value=1.8e-15  Score=156.12  Aligned_cols=200  Identities=17%  Similarity=0.164  Sum_probs=130.7

Q ss_pred             eeEEEecccccccC--CCC-C-------CCCcccEEEccCCCCcCc-chHHh-ccCCcccEEEccCCCCCccCCccccCC
Q 038398          496 VRRMSLMKNKIENL--SET-P-------TCPHLLSLFLSDNSLKMS-TDDFF-QSMPSLRVFNMSNNHLLWKLPSGISTL  563 (720)
Q Consensus       496 l~~L~l~~~~~~~~--~~~-~-------~~~~L~~L~l~~~~~~~~-~~~~~-~~l~~L~~L~L~~~~~~~~lp~~i~~l  563 (720)
                      ++.|++++|.+...  +.. .       .+++|++|++++|.+++. +..+| ..+++|++|+|++|.+.+. |..++.+
T Consensus        65 L~~L~L~~n~l~~~~~~~~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~~~l~~L~~L~Ls~N~l~~~-~~~~~~l  143 (312)
T 1wwl_A           65 IKSLSLKRLTVRAARIPSRILFGALRVLGISGLQELTLENLEVTGTAPPPLLEATGPDLNILNLRNVSWATR-DAWLAEL  143 (312)
T ss_dssp             HHHCCCCEEEEEEEECBHHHHHHHHHHHTTSCCCEEEEEEEBCBSCCCCCSSSCCSCCCSEEEEESCBCSSS-SSHHHHH
T ss_pred             HhhcccccccccCCCcCHHHHHHHHHhcCcCCccEEEccCCcccchhHHHHHHhcCCCccEEEccCCCCcch-hHHHHHH
Confidence            67777777776432  221 1       578888888888888754 33322 7888888888888866544 7777776


Q ss_pred             -----CCCCEEeccCCCCcccc-hhhhcCCCCCEEeccCCcCCCC--Cchh-hhhccccCceeeccccCCCcccchhccc
Q 038398          564 -----VSLEHLDLSSTAITHLP-IELQKLVNLKCLNLEYMNNLNQ--FPRL-VISAFSKLQVLRMFDCGGSKIERLKINV  634 (720)
Q Consensus       564 -----~~L~~L~L~~~~i~~lp-~~i~~l~~L~~L~l~~~~~l~~--lp~~-~~~~l~~L~~L~~~~~~~~~l~~l~~~~  634 (720)
                           ++|++|++++|.++.+| ..++++++|++|++++|.....  +|.. .++.+++|++|++.++   .+..++   
T Consensus       144 ~~~~~~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~~~~~l~~L~~L~L~~N---~l~~~~---  217 (312)
T 1wwl_A          144 QQWLKPGLKVLSIAQAHSLNFSCEQVRVFPALSTLDLSDNPELGERGLISALCPLKFPTLQVLALRNA---GMETPS---  217 (312)
T ss_dssp             HTTCCTTCCEEEEESCSCCCCCTTTCCCCSSCCEEECCSCTTCHHHHHHHHSCTTSCTTCCEEECTTS---CCCCHH---
T ss_pred             HHhhcCCCcEEEeeCCCCccchHHHhccCCCCCEEECCCCCcCcchHHHHHHHhccCCCCCEEECCCC---cCcchH---
Confidence                 88888888888888776 5688888888888888532221  1222 1266777777776654   333211   


Q ss_pred             ccCCccccHHHhcCCCCCceeEEEecchhhHHHHhhhhhhhhhccccccccccCCCccccccccccCCcceeeecCCC
Q 038398          635 LFGGHQFLVEELMGMKHLMVLTITLKSWQALKELLISQELQRSTQSLFLRCFNDSKSLDIFCLAGLRNLNKLYVAGCK  712 (720)
Q Consensus       635 ~~~~~~~~~~~l~~l~~L~~L~~~~~~~~~l~~l~~~~~~~~~L~~L~l~~~~~l~~l~~~~l~~l~~L~~L~l~~c~  712 (720)
                           ......+..+++|+.|+++.|.+...... .....+++|+.|++++ +.++.+| ..+.  ++|+.|+|++|.
T Consensus       218 -----~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~-~~~~~l~~L~~L~Ls~-N~l~~ip-~~~~--~~L~~L~Ls~N~  285 (312)
T 1wwl_A          218 -----GVCSALAAARVQLQGLDLSHNSLRDAAGA-PSCDWPSQLNSLNLSF-TGLKQVP-KGLP--AKLSVLDLSYNR  285 (312)
T ss_dssp             -----HHHHHHHHTTCCCSEEECTTSCCCSSCCC-SCCCCCTTCCEEECTT-SCCSSCC-SSCC--SEEEEEECCSSC
T ss_pred             -----HHHHHHHhcCCCCCEEECCCCcCCcccch-hhhhhcCCCCEEECCC-CccChhh-hhcc--CCceEEECCCCC
Confidence                 11122345678888888888876653211 1222346888888887 4566776 2333  788888888875

>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=99.51  E-value=9.1e-14  Score=132.91  Aligned_cols=143  Identities=21%  Similarity=0.332  Sum_probs=124.5

Q ss_pred             cEEEEcCCCCccCcccccccceeEEEecccccccCCCCCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCc
Q 038398          475 NFLVHAGLGLTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLW  554 (720)
Q Consensus       475 ~~~~~~~~~~~~~~~~~~~~~l~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~  554 (720)
                      ..+...+.....++.+..+++|+.|++++|.+..++.+..+++|++|++++|.++...+..+.++++|++|++++|.+.+
T Consensus        47 ~~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~~  126 (197)
T 4ezg_A           47 TYITLANINVTDLTGIEYAHNIKDLTINNIHATNYNPISGLSNLERLRIMGKDVTSDKIPNLSGLTSLTLLDISHSAHDD  126 (197)
T ss_dssp             CEEEEESSCCSCCTTGGGCTTCSEEEEESCCCSCCGGGTTCTTCCEEEEECTTCBGGGSCCCTTCTTCCEEECCSSBCBG
T ss_pred             cEEeccCCCccChHHHhcCCCCCEEEccCCCCCcchhhhcCCCCCEEEeECCccCcccChhhcCCCCCCEEEecCCccCc
Confidence            34555566666777889999999999999999888888899999999999999987555558999999999999998877


Q ss_pred             cCCccccCCCCCCEEeccCCC-CcccchhhhcCCCCCEEeccCCcCCCCCchhhhhccccCceeeccc
Q 038398          555 KLPSGISTLVSLEHLDLSSTA-ITHLPIELQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFD  621 (720)
Q Consensus       555 ~lp~~i~~l~~L~~L~L~~~~-i~~lp~~i~~l~~L~~L~l~~~~~l~~lp~~~~~~l~~L~~L~~~~  621 (720)
                      ..|..++.+++|++|++++|. ++.+| .+..+++|++|++++| .+..++.  +..+++|+.|++.+
T Consensus       127 ~~~~~l~~l~~L~~L~L~~n~~i~~~~-~l~~l~~L~~L~l~~n-~i~~~~~--l~~l~~L~~L~l~~  190 (197)
T 4ezg_A          127 SILTKINTLPKVNSIDLSYNGAITDIM-PLKTLPELKSLNIQFD-GVHDYRG--IEDFPKLNQLYAFS  190 (197)
T ss_dssp             GGHHHHTTCSSCCEEECCSCTBCCCCG-GGGGCSSCCEEECTTB-CCCCCTT--GGGCSSCCEEEECB
T ss_pred             HhHHHHhhCCCCCEEEccCCCCccccH-hhcCCCCCCEEECCCC-CCcChHH--hccCCCCCEEEeeC
Confidence            788899999999999999997 99998 6999999999999994 6777874  78899999998875

>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=99.49  E-value=1.1e-13  Score=140.81  Aligned_cols=157  Identities=23%  Similarity=0.312  Sum_probs=111.2

Q ss_pred             ccccccceeEEEecccccccCCCCCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCccCCccccCCCCCCE
Q 038398          489 EIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVSLEH  568 (720)
Q Consensus       489 ~~~~~~~l~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~  568 (720)
                      .+..+++|+.|++++|.+..++....+++|++|++++|.++.++.. +.++++|++|+|++|++....|..|.++++|++
T Consensus        50 ~~~~l~~L~~L~L~~n~l~~~~~~~~l~~L~~L~Ls~N~l~~l~~~-~~~l~~L~~L~l~~N~l~~l~~~~~~~l~~L~~  128 (290)
T 1p9a_G           50 TLMPYTRLTQLNLDRAELTKLQVDGTLPVLGTLDLSHNQLQSLPLL-GQTLPALTVLDVSFNRLTSLPLGALRGLGELQE  128 (290)
T ss_dssp             GGTTCTTCCEEECTTSCCCEEECCSCCTTCCEEECCSSCCSSCCCC-TTTCTTCCEEECCSSCCCCCCSSTTTTCTTCCE
T ss_pred             HhhcCCCCCEEECCCCccCcccCCCCCCcCCEEECCCCcCCcCchh-hccCCCCCEEECCCCcCcccCHHHHcCCCCCCE
Confidence            4566777888888888777776667777888888888877776654 677788888888888655444566778888888


Q ss_pred             EeccCCCCcccchh-hhcCCCCCEEeccCCcCCCCCchhhhhccccCceeeccccCCCcccchhcccccCCccccHHHhc
Q 038398          569 LDLSSTAITHLPIE-LQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKINVLFGGHQFLVEELM  647 (720)
Q Consensus       569 L~L~~~~i~~lp~~-i~~l~~L~~L~l~~~~~l~~lp~~~~~~l~~L~~L~~~~~~~~~l~~l~~~~~~~~~~~~~~~l~  647 (720)
                      |+|++|.++.+|.. +..+++|+.|++++ +.+..+|...+..+++|+.|++.+   |.+..++.            .+.
T Consensus       129 L~L~~N~l~~~~~~~~~~l~~L~~L~L~~-N~l~~l~~~~~~~l~~L~~L~L~~---N~l~~ip~------------~~~  192 (290)
T 1p9a_G          129 LYLKGNELKTLPPGLLTPTPKLEKLSLAN-NNLTELPAGLLNGLENLDTLLLQE---NSLYTIPK------------GFF  192 (290)
T ss_dssp             EECTTSCCCCCCTTTTTTCTTCCEEECTT-SCCSCCCTTTTTTCTTCCEEECCS---SCCCCCCT------------TTT
T ss_pred             EECCCCCCCccChhhcccccCCCEEECCC-CcCCccCHHHhcCcCCCCEEECCC---CcCCccCh------------hhc
Confidence            88888888877655 56778888888877 466777776566677777776654   44443332            233


Q ss_pred             CCCCCceeEEEecch
Q 038398          648 GMKHLMVLTITLKSW  662 (720)
Q Consensus       648 ~l~~L~~L~~~~~~~  662 (720)
                      .+..|+.+.+.+|.+
T Consensus       193 ~~~~L~~l~L~~Np~  207 (290)
T 1p9a_G          193 GSHLLPFAFLHGNPW  207 (290)
T ss_dssp             TTCCCSEEECCSCCB
T ss_pred             ccccCCeEEeCCCCc
Confidence            455788888877654

>3j0a_A TOLL-like receptor 5; membrane protein, leucine-rich repeat, asymmetric homodimer, glycoprotein, immune system; HET: NAG FUC; 26.00A {Homo sapiens}

Probab=99.48  E-value=1.1e-13  Score=162.52  Aligned_cols=198  Identities=18%  Similarity=0.145  Sum_probs=150.2

Q ss_pred             eEEEecccccccCCCCCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCccC-CccccCCCCCCEEeccCCC
Q 038398          497 RRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKL-PSGISTLVSLEHLDLSSTA  575 (720)
Q Consensus       497 ~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~l-p~~i~~l~~L~~L~L~~~~  575 (720)
                      +..+.+++.+..+|.  -.++|++|++++|.++.+.+..|.++++|++|+|++|...+.+ |..|+++++|++|+|++|.
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            457788888998987  5689999999999999988777999999999999999777666 7889999999999999999


Q ss_pred             Cccc-chhhhcCCCCCEEeccCCcCCCCCch-hhhhccccCceeeccccCCCcccchhcccccCCccccHHHhcCCCCCc
Q 038398          576 ITHL-PIELQKLVNLKCLNLEYMNNLNQFPR-LVISAFSKLQVLRMFDCGGSKIERLKINVLFGGHQFLVEELMGMKHLM  653 (720)
Q Consensus       576 i~~l-p~~i~~l~~L~~L~l~~~~~l~~lp~-~~~~~l~~L~~L~~~~~~~~~l~~l~~~~~~~~~~~~~~~l~~l~~L~  653 (720)
                      ++.+ |..|.++++|++|++++|.....+|. ..++.+++|++|++.++.   +..+.          ....++++++|+
T Consensus        85 l~~~~p~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~~L~~L~~L~Ls~N~---l~~~~----------~~~~~~~L~~L~  151 (844)
T 3j0a_A           85 IYFLHPDAFQGLFHLFELRLYFCGLSDAVLKDGYFRNLKALTRLDLSKNQ---IRSLY----------LHPSFGKLNSLK  151 (844)
T ss_dssp             CCEECTTSSCSCSSCCCEECTTCCCSSCCSTTCCCSSCSSCCEEEEESCC---CCCCC----------CCGGGGTCSSCC
T ss_pred             CcccCHhHccCCcccCEeeCcCCCCCcccccCccccccCCCCEEECCCCc---ccccc----------cchhHhhCCCCC
Confidence            9977 77899999999999999643333443 236788888888887643   32211          123578899999


Q ss_pred             eeEEEecchhhHHHHhhhhhhh--hhccccccccccCCCccccccccccCC------cceeeecCCC
Q 038398          654 VLTITLKSWQALKELLISQELQ--RSTQSLFLRCFNDSKSLDIFCLAGLRN------LNKLYVAGCK  712 (720)
Q Consensus       654 ~L~~~~~~~~~l~~l~~~~~~~--~~L~~L~l~~~~~l~~l~~~~l~~l~~------L~~L~l~~c~  712 (720)
                      .|+++.|.+.....  .....+  ++|+.|++++++.....+ ..+..+++      |+.|++++|.
T Consensus       152 ~L~Ls~N~i~~~~~--~~l~~l~~~~L~~L~L~~n~l~~~~~-~~~~~~~~~~~~~~L~~L~Ls~n~  215 (844)
T 3j0a_A          152 SIDFSSNQIFLVCE--HELEPLQGKTLSFFSLAANSLYSRVS-VDWGKCMNPFRNMVLEILDVSGNG  215 (844)
T ss_dssp             EEEEESSCCCCCCS--GGGHHHHHCSSCCCEECCSBSCCCCC-CCCCSSSCTTTTCCBSEEBCSSCC
T ss_pred             EEECCCCcCCeeCH--HHcccccCCccceEECCCCccccccc-cchhhcCCccccCceeEEecCCCc
Confidence            99999887644311  111111  589999999865433333 34444444      9999999884

>2o6s_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 1.50A {Eptatretus burgeri}

Probab=99.48  E-value=1.8e-13  Score=132.18  Aligned_cols=125  Identities=26%  Similarity=0.378  Sum_probs=57.8

Q ss_pred             ceeEEEecccccccCCC--CCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCccCCccccCCCCCCEEecc
Q 038398          495 NVRRMSLMKNKIENLSE--TPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLS  572 (720)
Q Consensus       495 ~l~~L~l~~~~~~~~~~--~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~  572 (720)
                      ++++|++++|.+..++.  +..+++|++|++++|.++.+++..|..+++|++|+|++|.+....+..+..+++|++|+++
T Consensus        29 ~l~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~  108 (208)
T 2o6s_A           29 QTTYLDLETNSLKSLPNGVFDELTSLTQLYLGGNKLQSLPNGVFNKLTSLTYLNLSTNQLQSLPNGVFDKLTQLKELALN  108 (208)
T ss_dssp             TCSEEECCSSCCCCCCTTTTTTCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECC
T ss_pred             CCcEEEcCCCccCcCChhhhcccccCcEEECCCCccCccChhhcCCCCCcCEEECCCCcCCccCHhHhcCccCCCEEEcC
Confidence            45555555555444433  2344555555555555544444444455555555555553332222334445555555555


Q ss_pred             CCCCcccchh-hhcCCCCCEEeccCCcCCCCCchhhhhccccCceeecc
Q 038398          573 STAITHLPIE-LQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMF  620 (720)
Q Consensus       573 ~~~i~~lp~~-i~~l~~L~~L~l~~~~~l~~lp~~~~~~l~~L~~L~~~  620 (720)
                      +|.++.+|.. +.++++|++|++++ +.+..+|...+..+++|+.|++.
T Consensus       109 ~N~l~~~~~~~~~~l~~L~~L~l~~-N~l~~~~~~~~~~l~~L~~L~l~  156 (208)
T 2o6s_A          109 TNQLQSLPDGVFDKLTQLKDLRLYQ-NQLKSVPDGVFDRLTSLQYIWLH  156 (208)
T ss_dssp             SSCCCCCCTTTTTTCTTCCEEECCS-SCCSCCCTTTTTTCTTCCEEECC
T ss_pred             CCcCcccCHhHhccCCcCCEEECCC-CccceeCHHHhccCCCccEEEec
Confidence            5555544433 34455555555544 23344444333444444444433

>2xot_A Amphoterin-induced protein 1; cell adhesion, neuronal protein, neurite growth regulation; HET: NAG BMA; 2.00A {Mus musculus}

Probab=99.47  E-value=1.1e-13  Score=145.76  Aligned_cols=176  Identities=21%  Similarity=0.249  Sum_probs=108.7

Q ss_pred             eEEEecccccccCCCCCCCCcccEEEccCCCCcCcchHHhc-cCCcccEEEccCCCCCccCCccccCCCCCCEEeccCCC
Q 038398          497 RRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQ-SMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSSTA  575 (720)
Q Consensus       497 ~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~-~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~~~  575 (720)
                      +.++++++.+..+|.. -.+.++.|++++|.++.+++..|. ++++|++|+|++|.+....|..|.++++|++|+|++|.
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            4677777777766642 234577788888877777776666 77788888888876655555667778888888888887


Q ss_pred             Ccccch-hhhcCCCCCEEeccCCcCCCCCchhhhhccccCceeeccccCCCcccchhcccccCCccccHHHhcCCCCCce
Q 038398          576 ITHLPI-ELQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKINVLFGGHQFLVEELMGMKHLMV  654 (720)
Q Consensus       576 i~~lp~-~i~~l~~L~~L~l~~~~~l~~lp~~~~~~l~~L~~L~~~~~~~~~l~~l~~~~~~~~~~~~~~~l~~l~~L~~  654 (720)
                      ++.+|. .|.++++|+.|+|++ +.+..++...+..+++|+.|++.+   |.+..++...+.        .+..+++|+.
T Consensus       100 l~~~~~~~~~~l~~L~~L~L~~-N~i~~~~~~~~~~l~~L~~L~L~~---N~l~~l~~~~~~--------~~~~l~~L~~  167 (361)
T 2xot_A          100 LHTLDEFLFSDLQALEVLLLYN-NHIVVVDRNAFEDMAQLQKLYLSQ---NQISRFPVELIK--------DGNKLPKLML  167 (361)
T ss_dssp             CCEECTTTTTTCTTCCEEECCS-SCCCEECTTTTTTCTTCCEEECCS---SCCCSCCGGGTC------------CTTCCE
T ss_pred             CCcCCHHHhCCCcCCCEEECCC-CcccEECHHHhCCcccCCEEECCC---CcCCeeCHHHhc--------CcccCCcCCE
Confidence            777765 377778888888877 455666544466677766666554   444443332211        1245666777


Q ss_pred             eEEEecchhhHHHHhhhhhhhh--hcccccccccc
Q 038398          655 LTITLKSWQALKELLISQELQR--STQSLFLRCFN  687 (720)
Q Consensus       655 L~~~~~~~~~l~~l~~~~~~~~--~L~~L~l~~~~  687 (720)
                      |+++.|.+..++.-  ....++  .++.|+|.+++
T Consensus       168 L~L~~N~l~~l~~~--~~~~l~~~~l~~l~l~~N~  200 (361)
T 2xot_A          168 LDLSSNKLKKLPLT--DLQKLPAWVKNGLYLHNNP  200 (361)
T ss_dssp             EECCSSCCCCCCHH--HHHHSCHHHHTTEECCSSC
T ss_pred             EECCCCCCCccCHH--HhhhccHhhcceEEecCCC
Confidence            77776665543311  111111  24667777643

>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=99.47  E-value=3.7e-14  Score=151.15  Aligned_cols=213  Identities=16%  Similarity=0.142  Sum_probs=132.8

Q ss_pred             cccccceeEEEecccccccCCC------------CCCCCcccEEEccCCCCcC----cchHHhccCCcccEEEccCCCCC
Q 038398          490 IQNWRNVRRMSLMKNKIENLSE------------TPTCPHLLSLFLSDNSLKM----STDDFFQSMPSLRVFNMSNNHLL  553 (720)
Q Consensus       490 ~~~~~~l~~L~l~~~~~~~~~~------------~~~~~~L~~L~l~~~~~~~----~~~~~~~~l~~L~~L~L~~~~~~  553 (720)
                      +..+++|++|++++|.+..+..            +..+++|++|++++|.+..    ..+..+..+++|++|+|++|.+.
T Consensus        56 l~~~~~L~~L~Ls~~~~~~l~~~~~~~~~~l~~~l~~~~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~L~~L~L~~n~l~  135 (386)
T 2ca6_A           56 IASKKDLEIAEFSDIFTGRVKDEIPEALRLLLQALLKCPKLHTVRLSDNAFGPTAQEPLIDFLSKHTPLEHLYLHNNGLG  135 (386)
T ss_dssp             TTTCTTCCEEECCSCCTTSCGGGSHHHHHHHHHHHTTCTTCCEEECCSCCCCTTTHHHHHHHHHHCTTCCEEECCSSCCH
T ss_pred             HHhCCCccEEeCcccccCccccchhHHHHHHHHHHhhCCcccEEECCCCcCCHHHHHHHHHHHHhCCCCCEEECcCCCCC
Confidence            4456677888887765543221            1466788888888887766    23344677788888888887554


Q ss_pred             cc----CCccccCC---------CCCCEEeccCCCCc--ccc---hhhhcCCCCCEEeccCCcCCCC-----Cchhhhhc
Q 038398          554 WK----LPSGISTL---------VSLEHLDLSSTAIT--HLP---IELQKLVNLKCLNLEYMNNLNQ-----FPRLVISA  610 (720)
Q Consensus       554 ~~----lp~~i~~l---------~~L~~L~L~~~~i~--~lp---~~i~~l~~L~~L~l~~~~~l~~-----lp~~~~~~  610 (720)
                      ..    ++..+..+         ++|++|++++|.++  .+|   ..+..+++|++|++++| .+..     +....+..
T Consensus       136 ~~~~~~l~~~l~~l~~~~~~~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~L~~n-~l~~~g~~~l~~~~l~~  214 (386)
T 2ca6_A          136 PQAGAKIARALQELAVNKKAKNAPPLRSIICGRNRLENGSMKEWAKTFQSHRLLHTVKMVQN-GIRPEGIEHLLLEGLAY  214 (386)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHTCCCCCEEECCSSCCTGGGHHHHHHHHHHCTTCCEEECCSS-CCCHHHHHHHHHTTGGG
T ss_pred             HHHHHHHHHHHHHHhhhhhcccCCCCcEEECCCCCCCcHHHHHHHHHHHhCCCcCEEECcCC-CCCHhHHHHHHHHHhhc
Confidence            32    23333333         78888888888775  444   45667778888888774 3331     11112456


Q ss_pred             cccCceeeccccCCCcccchhcccccCCccccHHHhcCCCCCceeEEEecchhhHHH--Hhhhhhh--hhhccccccccc
Q 038398          611 FSKLQVLRMFDCGGSKIERLKINVLFGGHQFLVEELMGMKHLMVLTITLKSWQALKE--LLISQEL--QRSTQSLFLRCF  686 (720)
Q Consensus       611 l~~L~~L~~~~~~~~~l~~l~~~~~~~~~~~~~~~l~~l~~L~~L~~~~~~~~~l~~--l~~~~~~--~~~L~~L~l~~~  686 (720)
                      +++|+.|++.++   .+....       ...++..+..+++|+.|.++.|.+.....  ++.....  +++|+.|+|++|
T Consensus       215 ~~~L~~L~Ls~n---~l~~~g-------~~~l~~~l~~~~~L~~L~L~~n~i~~~~~~~l~~~l~~~~~~~L~~L~L~~n  284 (386)
T 2ca6_A          215 CQELKVLDLQDN---TFTHLG-------SSALAIALKSWPNLRELGLNDCLLSARGAAAVVDAFSKLENIGLQTLRLQYN  284 (386)
T ss_dssp             CTTCCEEECCSS---CCHHHH-------HHHHHHHGGGCTTCCEEECTTCCCCHHHHHHHHHHHHTCSSCCCCEEECCSS
T ss_pred             CCCccEEECcCC---CCCcHH-------HHHHHHHHccCCCcCEEECCCCCCchhhHHHHHHHHhhccCCCeEEEECcCC
Confidence            666777766543   332100       12234567788899999999888765422  3333322  578999999985


Q ss_pred             cCCCc-----cccccccccCCcceeeecCCCCC
Q 038398          687 NDSKS-----LDIFCLAGLRNLNKLYVAGCKHL  714 (720)
Q Consensus       687 ~~l~~-----l~~~~l~~l~~L~~L~l~~c~~l  714 (720)
                      . ++.     ++.....++++|+.|++++|+.-
T Consensus       285 ~-i~~~g~~~l~~~l~~~l~~L~~L~l~~N~l~  316 (386)
T 2ca6_A          285 E-IELDAVRTLKTVIDEKMPDLLFLELNGNRFS  316 (386)
T ss_dssp             C-CBHHHHHHHHHHHHHHCTTCCEEECTTSBSC
T ss_pred             c-CCHHHHHHHHHHHHhcCCCceEEEccCCcCC
Confidence            4 554     55222366899999999998744

>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=99.47  E-value=9.7e-14  Score=145.60  Aligned_cols=221  Identities=20%  Similarity=0.216  Sum_probs=144.6

Q ss_pred             EEEEcCCCCccCcccccccceeEEEecccccccCCC--CCCCCcccEEEccCCCCc-CcchHHhccCCcccE-EEccCCC
Q 038398          476 FLVHAGLGLTEAPEIQNWRNVRRMSLMKNKIENLSE--TPTCPHLLSLFLSDNSLK-MSTDDFFQSMPSLRV-FNMSNNH  551 (720)
Q Consensus       476 ~~~~~~~~~~~~~~~~~~~~l~~L~l~~~~~~~~~~--~~~~~~L~~L~l~~~~~~-~~~~~~~~~l~~L~~-L~L~~~~  551 (720)
                      .+...+.+..++|.-- .+++++|++++|.++.++.  +.++++|++|++++|.+. .+++..|.++++|.. +.+++|+
T Consensus        13 ~v~C~~~~Lt~iP~~l-~~~l~~L~Ls~N~i~~i~~~~f~~l~~L~~L~Ls~N~i~~~i~~~~f~~L~~l~~~l~~~~N~   91 (350)
T 4ay9_X           13 VFLCQESKVTEIPSDL-PRNAIELRFVLTKLRVIQKGAFSGFGDLEKIEISQNDVLEVIEADVFSNLPKLHEIRIEKANN   91 (350)
T ss_dssp             EEEEESTTCCSCCTTC-CTTCSEEEEESCCCSEECTTSSTTCTTCCEEEEECCTTCCEECTTSBCSCTTCCEEEEEEETT
T ss_pred             EEEecCCCCCccCcCc-CCCCCEEEccCCcCCCcCHHHHcCCCCCCEEECcCCCCCCccChhHhhcchhhhhhhcccCCc
Confidence            3455556666666421 3578888999888888765  477888999999888764 456666788887765 5556665


Q ss_pred             CCccCCccccCCCCCCEEeccCCCCcccchh-hhcCCCCCEEeccCCcCCCCCchhhhhccc-cCceeeccccCCCcccc
Q 038398          552 LLWKLPSGISTLVSLEHLDLSSTAITHLPIE-LQKLVNLKCLNLEYMNNLNQFPRLVISAFS-KLQVLRMFDCGGSKIER  629 (720)
Q Consensus       552 ~~~~lp~~i~~l~~L~~L~L~~~~i~~lp~~-i~~l~~L~~L~l~~~~~l~~lp~~~~~~l~-~L~~L~~~~~~~~~l~~  629 (720)
                      +....|..+..+++|++|++++|.++.+|.. +....++..|++.+++.+..+|...+..+. .++.|.+   +.|.+..
T Consensus        92 l~~l~~~~f~~l~~L~~L~l~~n~l~~~~~~~~~~~~~l~~l~l~~~~~i~~l~~~~f~~~~~~l~~L~L---~~N~i~~  168 (350)
T 4ay9_X           92 LLYINPEAFQNLPNLQYLLISNTGIKHLPDVHKIHSLQKVLLDIQDNINIHTIERNSFVGLSFESVILWL---NKNGIQE  168 (350)
T ss_dssp             CCEECTTSBCCCTTCCEEEEEEECCSSCCCCTTCCBSSCEEEEEESCTTCCEECTTSSTTSBSSCEEEEC---CSSCCCE
T ss_pred             ccccCchhhhhccccccccccccccccCCchhhcccchhhhhhhccccccccccccchhhcchhhhhhcc---ccccccC
Confidence            5555577788888999999988888877653 445667788888777777777765444443 3455544   4566665


Q ss_pred             hhcccccCCccccHHHhcCCCCCceeEEEe-cchhhHHHHhhhhhhhhhccccccccccCCCccccccccccCCcceeee
Q 038398          630 LKINVLFGGHQFLVEELMGMKHLMVLTITL-KSWQALKELLISQELQRSTQSLFLRCFNDSKSLDIFCLAGLRNLNKLYV  708 (720)
Q Consensus       630 l~~~~~~~~~~~~~~~l~~l~~L~~L~~~~-~~~~~l~~l~~~~~~~~~L~~L~l~~~~~l~~l~~~~l~~l~~L~~L~l  708 (720)
                      ++...+            ...+|+.+.+.. +.+..++.  ..+..+++|+.|++++ +.++.+|...   +.+|+.|.+
T Consensus       169 i~~~~f------------~~~~L~~l~l~~~n~l~~i~~--~~f~~l~~L~~LdLs~-N~l~~lp~~~---~~~L~~L~~  230 (350)
T 4ay9_X          169 IHNSAF------------NGTQLDELNLSDNNNLEELPN--DVFHGASGPVILDISR-TRIHSLPSYG---LENLKKLRA  230 (350)
T ss_dssp             ECTTSS------------TTEEEEEEECTTCTTCCCCCT--TTTTTEECCSEEECTT-SCCCCCCSSS---CTTCCEEEC
T ss_pred             CChhhc------------cccchhHHhhccCCcccCCCH--HHhccCcccchhhcCC-CCcCccChhh---hccchHhhh
Confidence            554332            234556666542 33333321  2345567899999987 5678887433   455666666


Q ss_pred             cCCCCCcccc
Q 038398          709 AGCKHLEDSQ  718 (720)
Q Consensus       709 ~~c~~l~~i~  718 (720)
                      .+|..++.+|
T Consensus       231 l~~~~l~~lP  240 (350)
T 4ay9_X          231 RSTYNLKKLP  240 (350)
T ss_dssp             TTCTTCCCCC
T ss_pred             ccCCCcCcCC
Confidence            6666666654

>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=99.47  E-value=6.6e-14  Score=146.90  Aligned_cols=213  Identities=17%  Similarity=0.160  Sum_probs=159.2

Q ss_pred             EEEEcCCCCccCc--ccccccceeEEEeccccccc-CCC--CCCCCcccE-EEccCCCCcCcchHHhccCCcccEEEccC
Q 038398          476 FLVHAGLGLTEAP--EIQNWRNVRRMSLMKNKIEN-LSE--TPTCPHLLS-LFLSDNSLKMSTDDFFQSMPSLRVFNMSN  549 (720)
Q Consensus       476 ~~~~~~~~~~~~~--~~~~~~~l~~L~l~~~~~~~-~~~--~~~~~~L~~-L~l~~~~~~~~~~~~~~~l~~L~~L~L~~  549 (720)
                      .+...+.....++  .+.++++|++|++++|.+.. ++.  +.+++++.. +.+.+|.+..+++..|.++++|++|++++
T Consensus        34 ~L~Ls~N~i~~i~~~~f~~l~~L~~L~Ls~N~i~~~i~~~~f~~L~~l~~~l~~~~N~l~~l~~~~f~~l~~L~~L~l~~  113 (350)
T 4ay9_X           34 ELRFVLTKLRVIQKGAFSGFGDLEKIEISQNDVLEVIEADVFSNLPKLHEIRIEKANNLLYINPEAFQNLPNLQYLLISN  113 (350)
T ss_dssp             EEEEESCCCSEECTTSSTTCTTCCEEEEECCTTCCEECTTSBCSCTTCCEEEEEEETTCCEECTTSBCCCTTCCEEEEEE
T ss_pred             EEEccCCcCCCcCHHHHcCCCCCCEEECcCCCCCCccChhHhhcchhhhhhhcccCCcccccCchhhhhccccccccccc
Confidence            3445555566555  47889999999999999744 443  367777765 66677899999988899999999999999


Q ss_pred             CCCCccCCccccCCCCCCEEeccC-CCCcccchh-hhcCC-CCCEEeccCCcCCCCCchhhhhccccCceeeccccCCCc
Q 038398          550 NHLLWKLPSGISTLVSLEHLDLSS-TAITHLPIE-LQKLV-NLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFDCGGSK  626 (720)
Q Consensus       550 ~~~~~~lp~~i~~l~~L~~L~L~~-~~i~~lp~~-i~~l~-~L~~L~l~~~~~l~~lp~~~~~~l~~L~~L~~~~~~~~~  626 (720)
                      |.+....+..+....++.+|++.+ +.++.+|.. +..+. .|+.|++++ +.++.+|.. .....+|+.|.+.++  |.
T Consensus       114 n~l~~~~~~~~~~~~~l~~l~l~~~~~i~~l~~~~f~~~~~~l~~L~L~~-N~i~~i~~~-~f~~~~L~~l~l~~~--n~  189 (350)
T 4ay9_X          114 TGIKHLPDVHKIHSLQKVLLDIQDNINIHTIERNSFVGLSFESVILWLNK-NGIQEIHNS-AFNGTQLDELNLSDN--NN  189 (350)
T ss_dssp             ECCSSCCCCTTCCBSSCEEEEEESCTTCCEECTTSSTTSBSSCEEEECCS-SCCCEECTT-SSTTEEEEEEECTTC--TT
T ss_pred             cccccCCchhhcccchhhhhhhccccccccccccchhhcchhhhhhcccc-ccccCCChh-hccccchhHHhhccC--Cc
Confidence            966655555666778889999976 478888764 55654 689999998 678888875 334556777766543  45


Q ss_pred             ccchhcccccCCccccHHHhcCCCCCceeEEEecchhhHHHHhhhhhhhhhccccccccccCCCccccccccccCCccee
Q 038398          627 IERLKINVLFGGHQFLVEELMGMKHLMVLTITLKSWQALKELLISQELQRSTQSLFLRCFNDSKSLDIFCLAGLRNLNKL  706 (720)
Q Consensus       627 l~~l~~~~~~~~~~~~~~~l~~l~~L~~L~~~~~~~~~l~~l~~~~~~~~~L~~L~l~~~~~l~~l~~~~l~~l~~L~~L  706 (720)
                      +..++..           .+..+++|+.|+++.|.++.++.     ..+.+|+.|.+.++++++.+|  .+.++++|+.+
T Consensus       190 l~~i~~~-----------~f~~l~~L~~LdLs~N~l~~lp~-----~~~~~L~~L~~l~~~~l~~lP--~l~~l~~L~~l  251 (350)
T 4ay9_X          190 LEELPND-----------VFHGASGPVILDISRTRIHSLPS-----YGLENLKKLRARSTYNLKKLP--TLEKLVALMEA  251 (350)
T ss_dssp             CCCCCTT-----------TTTTEECCSEEECTTSCCCCCCS-----SSCTTCCEEECTTCTTCCCCC--CTTTCCSCCEE
T ss_pred             ccCCCHH-----------HhccCcccchhhcCCCCcCccCh-----hhhccchHhhhccCCCcCcCC--CchhCcChhhC
Confidence            5444432           25677899999999998876532     234578888888888899988  68899999999


Q ss_pred             eecC
Q 038398          707 YVAG  710 (720)
Q Consensus       707 ~l~~  710 (720)
                      ++.+
T Consensus       252 ~l~~  255 (350)
T 4ay9_X          252 SLTY  255 (350)
T ss_dssp             ECSC
T ss_pred             cCCC
Confidence            9865

>3cvr_A Invasion plasmid antigen; leucine rich repeat and alpha fold, ligase; 2.80A {Shigella flexneri 2A}

Probab=99.47  E-value=2e-13  Score=150.99  Aligned_cols=182  Identities=20%  Similarity=0.276  Sum_probs=92.6

Q ss_pred             ceeEEEecccccccCCCCCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCccCCccccCCCCCCEEeccCC
Q 038398          495 NVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSST  574 (720)
Q Consensus       495 ~l~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~~  574 (720)
                      +++.|++++|.+..+|... +++|++|++++|.++.+|    ..+++|++|+|++|.+. .+|. +++  +|++|+|++|
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----ELPASLEYLDACDNRLS-TLPE-LPA--SLKHLDVDNN  130 (571)
T ss_dssp             TCSEEECCSSCCSCCCSCC-CTTCSEEECCSSCCSCCC----CCCTTCCEEECCSSCCS-CCCC-CCT--TCCEEECCSS
T ss_pred             CccEEEeCCCCCCccCHhH-cCCCCEEECcCCCCcccc----cccCCCCEEEccCCCCC-Ccch-hhc--CCCEEECCCC
Confidence            4556666666665554421 255666666666655554    23456666666666433 3554 443  6666666666


Q ss_pred             CCcccchhhhcCCCCCEEeccCCcCCCCCchhhhhccccCceeeccccCCCcccchhcccccCCccccHHHhcCCCCCce
Q 038398          575 AITHLPIELQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKINVLFGGHQFLVEELMGMKHLMV  654 (720)
Q Consensus       575 ~i~~lp~~i~~l~~L~~L~l~~~~~l~~lp~~~~~~l~~L~~L~~~~~~~~~l~~l~~~~~~~~~~~~~~~l~~l~~L~~  654 (720)
                      .++.+|.   .+++|+.|++++ +.+..+|.    .+++|+.|++.+   |.+..++.             +.  ++|+.
T Consensus       131 ~l~~lp~---~l~~L~~L~Ls~-N~l~~lp~----~l~~L~~L~Ls~---N~L~~lp~-------------l~--~~L~~  184 (571)
T 3cvr_A          131 QLTMLPE---LPALLEYINADN-NQLTMLPE----LPTSLEVLSVRN---NQLTFLPE-------------LP--ESLEA  184 (571)
T ss_dssp             CCSCCCC---CCTTCCEEECCS-SCCSCCCC----CCTTCCEEECCS---SCCSCCCC-------------CC--TTCCE
T ss_pred             cCCCCCC---cCccccEEeCCC-CccCcCCC----cCCCcCEEECCC---CCCCCcch-------------hh--CCCCE
Confidence            6666655   456666666665 34444553    344555555443   33322211             11  45666


Q ss_pred             eEEEecchhhHHHHhhh-hhhhhhccccccccccCCCccccccccccCCcceeeecCCCC
Q 038398          655 LTITLKSWQALKELLIS-QELQRSTQSLFLRCFNDSKSLDIFCLAGLRNLNKLYVAGCKH  713 (720)
Q Consensus       655 L~~~~~~~~~l~~l~~~-~~~~~~L~~L~l~~~~~l~~l~~~~l~~l~~L~~L~l~~c~~  713 (720)
                      |+++.|.+..++.+... ......|+.|+|++ |.++.+| ..+..+++|+.|+|++|+.
T Consensus       185 L~Ls~N~L~~lp~~~~~L~~~~~~L~~L~Ls~-N~l~~lp-~~l~~l~~L~~L~L~~N~l  242 (571)
T 3cvr_A          185 LDVSTNLLESLPAVPVRNHHSEETEIFFRCRE-NRITHIP-ENILSLDPTCTIILEDNPL  242 (571)
T ss_dssp             EECCSSCCSSCCCCC--------CCEEEECCS-SCCCCCC-GGGGGSCTTEEEECCSSSC
T ss_pred             EECcCCCCCchhhHHHhhhcccccceEEecCC-CcceecC-HHHhcCCCCCEEEeeCCcC
Confidence            66665555433321000 00011126666665 4455665 3344466777777766653

>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=99.46  E-value=6.2e-12  Score=134.03  Aligned_cols=320  Identities=12%  Similarity=0.065  Sum_probs=189.5

Q ss_pred             CCCcCchHHHHHHHHHhcC----CCce--EEEEEcCCCChHHHHHHHHHhhhcCCCCC-cCEEEEEEecCcCCHHHHHHH
Q 038398          126 EPTVGLESTFDKVWRCLGE----EQVG--IIGLYGMGGVGKTTLLTKINNKLLGAPNV-FDVVIWVVVSKDLQLEKIQEK  198 (720)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~----~~~~--vi~I~G~gGiGKTtLa~~v~~~~~~~~~~-f~~~~wv~v~~~~~~~~~~~~  198 (720)
                      +.++||+.+++++..++..    ....  .+.|+|++|+||||||+.+++..   ... -..++|++++...+...+...
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            6789999999999988854    2334  89999999999999999999887   222 135678887777788889999


Q ss_pred             HHHHhCCCCCccCCCChhHHHHHHHHHhc--cCcEEEEEeccccc--cccccccccCCCC-C---CCcEEEEEcCChhHh
Q 038398          199 IGRRIGFFDESWKNGSLEDKTSDILRILG--KKKFLLLLDDIWER--VDLTKVGIPFPDP-E---NKSKIVFTTHFLEIC  270 (720)
Q Consensus       199 i~~~l~~~~~~~~~~~~~~~~~~l~~~l~--~k~~LlVlDdv~~~--~~~~~l~~~~~~~-~---~gs~iiiTtR~~~v~  270 (720)
                      ++..++...+. ...........+...+.  +++.+|||||++..  ..+..+...+... .   .+..+|++|+.....
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 23345566666666654  56889999999764  2222222222111 1   366788887765432


Q ss_pred             hhhc-------cCceeeccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHh---------CCcchHHHHHH-HHH
Q 038398          271 GALK-------AHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQEC---------AGLPLALITIG-RAM  333 (720)
Q Consensus       271 ~~~~-------~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c---------~GlPLai~~~~-~~l  333 (720)
                      ....       ....+.+++++.++..+++...+.... ....--.+....+++.+         +|.|..+..+. .+.
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            2211       123689999999999999988764311 11122356788899999         78875444333 222


Q ss_pred             h----cCCChhHHHHHHHHHhcccCCCCCCCccchhhHHhhcCCCCCcchhHHHHhhcCCC---CCcccChHHHHHHHHh
Q 038398          334 A----CKKTPQEWHYAIQVLRRSASEFPGMGKEVYPLLKFSYDSLPDDTIRSYLLYCGLFP---EDYRIRKSELIDCWIG  406 (720)
Q Consensus       334 ~----~~~~~~~w~~~l~~l~~~~~~~~~~~~~~~~~l~~sy~~L~~~~~k~~fl~~~~fp---~~~~i~~~~li~~Wia  406 (720)
                      .    .+...-.+..+...+....          ...+.-.+..|+. +.+.++..++.+.   .+..+....+...+-.
T Consensus       252 ~~a~~~~~~~i~~~~v~~~~~~~~----------~~~~~~~l~~l~~-~~~~~L~~l~~~~~~~~~~~~~~~~i~~~~~~  320 (389)
T 1fnn_A          252 YAAQQNGRKHIAPEDVRKSSKEVL----------FGISEEVLIGLPL-HEKLFLLAIVRSLKISHTPYITFGDAEESYKI  320 (389)
T ss_dssp             HHHHHTTCSSCCHHHHHHHHHHHS----------CCCCHHHHHHSCH-HHHHHHHHHHHHHHHHCSSCEEHHHHHHHHHH
T ss_pred             HHHHHhCCCCcCHHHHHHHHHHHh----------hhhHHHHHHcCCH-HHHHHHHHHHHHHhhccCCCccHHHHHHHHHH
Confidence            1    1112222233222222211          1122333455776 6777777676553   2224555566554422


Q ss_pred             ----hCCCCcccchhhHHhHHHHHHHHHHhccccccCC--CCCcccCCceEEE----ehHHHHHHHHHHHh
Q 038398          407 ----EGFLDQYDRSGAYNEGYYIIGILLHACLLEEEGG--DIGEEESGEHVVK----MHDVIRDMVLWIAC  467 (720)
Q Consensus       407 ----eg~~~~~~~~~~~~~~~~~~~~L~~~sll~~~~~--~~~~~~~~~~~~~----mHdlv~~~a~~~~~  467 (720)
                          .|...     -.......++++|...+++.....  ..+. .+....++    .|+++.++...+..
T Consensus       321 ~~~~~~~~~-----~~~~~~~~~l~~L~~~gli~~~~~~~~~g~-~g~~~~~~l~~~~~~v~~~~~~~~~~  385 (389)
T 1fnn_A          321 VCEEYGERP-----RVHSQLWSYLNDLREKGIVETRQNKRGEGV-RGRTTLISIGTEPLDTLEAVITKLIK  385 (389)
T ss_dssp             HHHHTTCCC-----CCHHHHHHHHHHHHHTTSSEEEEC----------CEEEECCSSCHHHHHHHHHHHHH
T ss_pred             HHHHcCCCC-----CCHHHHHHHHHHHHhCCCeEEeeeccCCCC-CCceeEEEeCCCHHHHHHHHHHHHHH
Confidence                12111     123456678999999999987542  1111 12222333    46777766665543

>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=99.46  E-value=2.3e-13  Score=132.38  Aligned_cols=149  Identities=19%  Similarity=0.316  Sum_probs=91.4

Q ss_pred             EEEecccccccCCCCCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCccCCccccCCCCCCEEeccCCCCc
Q 038398          498 RMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSSTAIT  577 (720)
Q Consensus       498 ~L~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~~~i~  577 (720)
                      .++++++.+..+|... .++|+.|++++|.++.+++..|.++++|++|+|++|.+....|..|.++++|++|+|++|.++
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 IVDCRGKGLTEIPTNL-PETITEIRLEQNTIKVIPPGAFSPYKKLRRIDLSNNQISELAPDAFQGLRSLNSLVLYGNKIT   93 (220)
T ss_dssp             EEECTTSCCSSCCSSC-CTTCCEEECCSSCCCEECTTSSTTCTTCCEEECCSSCCCEECTTTTTTCSSCCEEECCSSCCC
T ss_pred             EEEcCCCCcCcCCCcc-CcCCCEEECCCCcCCCcCHhHhhCCCCCCEEECCCCcCCCcCHHHhhCCcCCCEEECCCCcCC
Confidence            4566666666655421 256777777777766666655667777777777777655555666777777777777777777


Q ss_pred             ccchh-hhcCCCCCEEeccCCcCCCCCchhhhhccccCceeeccccCCCcccchhcccccCCccccHHHhcCCCCCceeE
Q 038398          578 HLPIE-LQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKINVLFGGHQFLVEELMGMKHLMVLT  656 (720)
Q Consensus       578 ~lp~~-i~~l~~L~~L~l~~~~~l~~lp~~~~~~l~~L~~L~~~~~~~~~l~~l~~~~~~~~~~~~~~~l~~l~~L~~L~  656 (720)
                      .+|.. +.++++|++|++++ +.+..++...+..+++|+.|++.+   |.+..++.           ..+..+++|+.|.
T Consensus        94 ~l~~~~f~~l~~L~~L~L~~-N~l~~~~~~~~~~l~~L~~L~L~~---N~l~~~~~-----------~~~~~l~~L~~L~  158 (220)
T 2v9t_B           94 ELPKSLFEGLFSLQLLLLNA-NKINCLRVDAFQDLHNLNLLSLYD---NKLQTIAK-----------GTFSPLRAIQTMH  158 (220)
T ss_dssp             CCCTTTTTTCTTCCEEECCS-SCCCCCCTTTTTTCTTCCEEECCS---SCCSCCCT-----------TTTTTCTTCCEEE
T ss_pred             ccCHhHccCCCCCCEEECCC-CCCCEeCHHHcCCCCCCCEEECCC---CcCCEECH-----------HHHhCCCCCCEEE
Confidence            66654 46677777777766 455556544456666666665544   33332221           1244556666777


Q ss_pred             EEecch
Q 038398          657 ITLKSW  662 (720)
Q Consensus       657 ~~~~~~  662 (720)
                      +.+|.+
T Consensus       159 L~~N~~  164 (220)
T 2v9t_B          159 LAQNPF  164 (220)
T ss_dssp             CCSSCE
T ss_pred             eCCCCc
Confidence            666654

>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=99.46  E-value=4.5e-13  Score=130.36  Aligned_cols=144  Identities=26%  Similarity=0.278  Sum_probs=118.5

Q ss_pred             EEEEcCCCCccCcccccccceeEEEecccccccCCC--CCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCC
Q 038398          476 FLVHAGLGLTEAPEIQNWRNVRRMSLMKNKIENLSE--TPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLL  553 (720)
Q Consensus       476 ~~~~~~~~~~~~~~~~~~~~l~~L~l~~~~~~~~~~--~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~  553 (720)
                      .+...+.....+|.. -.++++.|++++|.+..++.  +..+++|+.|++++|.+..+.+..|.++++|++|+|++|.+.
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            344555556666542 23689999999999988764  578999999999999999998888999999999999999665


Q ss_pred             ccCCccccCCCCCCEEeccCCCCcccc-hhhhcCCCCCEEeccCCcCCCCCchhhhhccccCceeeccc
Q 038398          554 WKLPSGISTLVSLEHLDLSSTAITHLP-IELQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFD  621 (720)
Q Consensus       554 ~~lp~~i~~l~~L~~L~L~~~~i~~lp-~~i~~l~~L~~L~l~~~~~l~~lp~~~~~~l~~L~~L~~~~  621 (720)
                      ...+..+.++++|++|+|++|.++.++ ..|..+++|++|++++ +.+..++...+..+++|+.|++.+
T Consensus        94 ~l~~~~f~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~-N~l~~~~~~~~~~l~~L~~L~L~~  161 (220)
T 2v9t_B           94 ELPKSLFEGLFSLQLLLLNANKINCLRVDAFQDLHNLNLLSLYD-NKLQTIAKGTFSPLRAIQTMHLAQ  161 (220)
T ss_dssp             CCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCS-SCCSCCCTTTTTTCTTCCEEECCS
T ss_pred             ccCHhHccCCCCCCEEECCCCCCCEeCHHHcCCCCCCCEEECCC-CcCCEECHHHHhCCCCCCEEEeCC
Confidence            443445789999999999999999884 5699999999999999 577888876678888888887764

>2v1u_A Cell division control protein 6 homolog; DNA replication, nucleotide-binding, replication, archaea; HET: ADP; 3.10A {Aeropyrum pernix}

Probab=99.46  E-value=1.5e-12  Score=138.71  Aligned_cols=292  Identities=16%  Similarity=0.085  Sum_probs=178.2

Q ss_pred             CCCcCchHHHHHHHHHhcC----CCceEEEEEcCCCChHHHHHHHHHhhhcCCC---CCcCEEEEEEecCcCCHHHHHHH
Q 038398          126 EPTVGLESTFDKVWRCLGE----EQVGIIGLYGMGGVGKTTLLTKINNKLLGAP---NVFDVVIWVVVSKDLQLEKIQEK  198 (720)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~----~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~---~~f~~~~wv~v~~~~~~~~~~~~  198 (720)
                      +.++||+++++++..++..    ...+.+.|+|++|+||||+|+.+++......   +.-..++|+++....+...+...
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            6789999999999998843    4567899999999999999999998762100   00125678888888888899999


Q ss_pred             HHHHhCCCCCccCCCChhHHHHHHHHHhc--cCcEEEEEeccccccc----cccc---cccCCCC--CCCcEEEEEcCCh
Q 038398          199 IGRRIGFFDESWKNGSLEDKTSDILRILG--KKKFLLLLDDIWERVD----LTKV---GIPFPDP--ENKSKIVFTTHFL  267 (720)
Q Consensus       199 i~~~l~~~~~~~~~~~~~~~~~~l~~~l~--~k~~LlVlDdv~~~~~----~~~l---~~~~~~~--~~gs~iiiTtR~~  267 (720)
                      ++.+++...+. ......+....+.+.+.  +++.+|||||++....    .+.+   .......  ..+..+|.||+..
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  4688999999975321    1111   1111111  3456778888765


Q ss_pred             hH--------hhhhccCceeeccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhC---Ccch-HHHHHHHHHh-
Q 038398          268 EI--------CGALKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECA---GLPL-ALITIGRAMA-  334 (720)
Q Consensus       268 ~v--------~~~~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~---GlPL-ai~~~~~~l~-  334 (720)
                      ..        ...+ ....+.+++++.++..+++...+.... ....--.+....+++.++   |.|- ++..+..+.. 
T Consensus       178 ~~~~~l~~~l~~r~-~~~~i~l~~l~~~~~~~il~~~~~~~~-~~~~~~~~~~~~l~~~~~~~~G~~r~~~~~l~~a~~~  255 (387)
T 2v1u_A          178 GFVENLEPRVKSSL-GEVELVFPPYTAPQLRDILETRAEEAF-NPGVLDPDVVPLCAALAAREHGDARRALDLLRVAGEI  255 (387)
T ss_dssp             TTSSSSCHHHHTTT-TSEECCBCCCCHHHHHHHHHHHHHHHB-CTTTBCSSHHHHHHHHHHSSSCCHHHHHHHHHHHHHH
T ss_pred             chHhhhCHHHHhcC-CCeEEeeCCCCHHHHHHHHHHHHHhhc-cCCCCCHHHHHHHHHHHHHhccCHHHHHHHHHHHHHH
Confidence            32        1111 124789999999999999998864211 001111345677888887   9994 4444333221 


Q ss_pred             ----c--CCChhHHHHHHHHHhcccCCCCCCCccchhhHHhhcCCCCCcchhHHHHhhc-CCCCCcccChHHHHHHHH--
Q 038398          335 ----C--KKTPQEWHYAIQVLRRSASEFPGMGKEVYPLLKFSYDSLPDDTIRSYLLYCG-LFPEDYRIRKSELIDCWI--  405 (720)
Q Consensus       335 ----~--~~~~~~w~~~l~~l~~~~~~~~~~~~~~~~~l~~sy~~L~~~~~k~~fl~~~-~fp~~~~i~~~~li~~Wi--  405 (720)
                          +  .-+.+.+..++.....             ..+.-++..++. +.+..+..++ ++.....+....+.+...  
T Consensus       256 a~~~~~~~i~~~~v~~a~~~~~~-------------~~~~~~~~~l~~-~~~~~l~a~~~~~~~~~~~~~~~~~~~~~~~  321 (387)
T 2v1u_A          256 AERRREERVRREHVYSARAEIER-------------DRVSEVVRTLPL-HAKLVLLSIMMLEDGGRPASTGEIYERYKEL  321 (387)
T ss_dssp             HHHTTCSCBCHHHHHHHHHHHHH-------------HHHHHHHHSSCH-HHHHHHHHHHHHSSSSCCEEHHHHHHHHHHH
T ss_pred             HHHcCCCCcCHHHHHHHHHHHhh-------------chHHHHHHcCCH-HHHHHHHHHHHHhcCCCCCcHHHHHHHHHHH
Confidence                1  1245556555554321             234456777887 5666665555 332222444454444321  


Q ss_pred             --hhCCCCcccchhhHHhHHHHHHHHHHhccccccC
Q 038398          406 --GEGFLDQYDRSGAYNEGYYIIGILLHACLLEEEG  439 (720)
Q Consensus       406 --aeg~~~~~~~~~~~~~~~~~~~~L~~~sll~~~~  439 (720)
                        ..| ..    .........+++.|...++++...
T Consensus       322 ~~~~~-~~----~~~~~~~~~~l~~L~~~gli~~~~  352 (387)
T 2v1u_A          322 TSTLG-LE----HVTLRRVSGIISELDMLGIVKSRV  352 (387)
T ss_dssp             HHHTT-CC----CCCHHHHHHHHHHHHHTTSEEEEE
T ss_pred             HHhcC-CC----CCCHHHHHHHHHHHHhCCCeEEEe
Confidence              112 11    122356778899999999998753

>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=99.45  E-value=6.1e-12  Score=133.83  Aligned_cols=291  Identities=12%  Similarity=-0.013  Sum_probs=178.9

Q ss_pred             CCCcCchHHHHHHHHHhc----CCCceEEEEEcCCCChHHHHHHHHHhhhcCC----CCC-cCEEEEEEecCcC-CHHHH
Q 038398          126 EPTVGLESTFDKVWRCLG----EEQVGIIGLYGMGGVGKTTLLTKINNKLLGA----PNV-FDVVIWVVVSKDL-QLEKI  195 (720)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~----~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~----~~~-f~~~~wv~v~~~~-~~~~~  195 (720)
                      +.++||+++++++..++.    .+..+.+.|+|++|+||||||+.+++.....    .+. ...++|+++.... +...+
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            679999999999987764    3446789999999999999999999875110    011 3367888887766 88888


Q ss_pred             HHHHHHHhCCCCCccCCCChhHHHHHHHHHhccCcEEEEEeccccccc---ccc-ccccCCCCCCCcEEEEEcCChhHh-
Q 038398          196 QEKIGRRIGFFDESWKNGSLEDKTSDILRILGKKKFLLLLDDIWERVD---LTK-VGIPFPDPENKSKIVFTTHFLEIC-  270 (720)
Q Consensus       196 ~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~---~~~-l~~~~~~~~~gs~iiiTtR~~~v~-  270 (720)
                      ...++..+..................+.+.+..++.+|||||++....   .+. +...+... .+..+|+||+..... 
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            888888873221111233456667788888888777999999975321   111 11111111 577888898865321 


Q ss_pred             ---hhh--ccCceeeccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhC---Ccch-HHHHHHHHH--hc---C
Q 038398          271 ---GAL--KAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECA---GLPL-ALITIGRAM--AC---K  336 (720)
Q Consensus       271 ---~~~--~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~---GlPL-ai~~~~~~l--~~---~  336 (720)
                         ...  .....+.+++++.++..+++...+.... ....--.+....+++.++   |.|. |+..+-.+.  +.   .
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  1123899999999999999998864211 111122456778888888   8876 444444332  21   2


Q ss_pred             CChhHHHHHHHHHhcccCCCCCCCccchhhHHhhcCCCCCcchhHHHHhhcCCCCCcccChHHHHHHHHhhCC-CCcccc
Q 038398          337 KTPQEWHYAIQVLRRSASEFPGMGKEVYPLLKFSYDSLPDDTIRSYLLYCGLFPEDYRIRKSELIDCWIGEGF-LDQYDR  415 (720)
Q Consensus       337 ~~~~~w~~~l~~l~~~~~~~~~~~~~~~~~l~~sy~~L~~~~~k~~fl~~~~fp~~~~i~~~~li~~Wiaeg~-~~~~~~  415 (720)
                      -+.+.+..+++....             ..+..++..|++ ..+..+..++....+..+. ....  -+++.+ ..    
T Consensus       258 i~~~~v~~~~~~~~~-------------~~~~~~~~~l~~-~~~~~l~al~~~~~~~~~~-~~~~--~~~~~~g~~----  316 (384)
T 2qby_B          258 IRKEHVDKAIVDYEQ-------------ERLIEAVKALPF-HYKLALRSLIESEDVMSAH-KMYT--DLCNKFKQK----  316 (384)
T ss_dssp             CCHHHHHHHHHHHHH-------------HHHHHHHHSSCH-HHHHHHHHHHTCCBHHHHH-HHHH--HHHHHTTCC----
T ss_pred             cCHHHHHHHHHHHhc-------------chHHHHHHcCCH-HHHHHHHHHHHhcccChHH-HHHH--HHHHHcCCC----
Confidence            355666666554322             235556777887 6666666666511101111 1111  122211 11    


Q ss_pred             hhhHHhHHHHHHHHHHhccccccC
Q 038398          416 SGAYNEGYYIIGILLHACLLEEEG  439 (720)
Q Consensus       416 ~~~~~~~~~~~~~L~~~sll~~~~  439 (720)
                      .........+++.|...++++...
T Consensus       317 ~~~~~~~~~~l~~L~~~gli~~~~  340 (384)
T 2qby_B          317 PLSYRRFSDIISELDMFGIVKIRI  340 (384)
T ss_dssp             CCCHHHHHHHHHHHHHTTSEEEEE
T ss_pred             CCCHHHHHHHHHHHHhCCCEEEEe
Confidence            112345678899999999998753

>1xeu_A Internalin C; cellular invasion, leucine-rich repeat, cell invasion; 2.05A {Listeria monocytogenes}

Probab=99.45  E-value=5.2e-13  Score=133.79  Aligned_cols=156  Identities=21%  Similarity=0.275  Sum_probs=129.8

Q ss_pred             CccCcccccccceeEEEecccccccCCCCCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCccCCccccCC
Q 038398          484 LTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTL  563 (720)
Q Consensus       484 ~~~~~~~~~~~~l~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l  563 (720)
                      ..+.+.+..+++|+.|++++|.+..++.+..+++|+.|++++|.++.+++  +.++++|++|+|++|++. .+|.. .. 
T Consensus        31 i~~~~~~~~l~~L~~L~l~~n~i~~l~~l~~l~~L~~L~L~~N~i~~~~~--l~~l~~L~~L~L~~N~l~-~l~~~-~~-  105 (263)
T 1xeu_A           31 VTDLVSQKELSGVQNFNGDNSNIQSLAGMQFFTNLKELHLSHNQISDLSP--LKDLTKLEELSVNRNRLK-NLNGI-PS-  105 (263)
T ss_dssp             TTSEECHHHHTTCSEEECTTSCCCCCTTGGGCTTCCEEECCSSCCCCCGG--GTTCSSCCEEECCSSCCS-CCTTC-CC-
T ss_pred             cccccchhhcCcCcEEECcCCCcccchHHhhCCCCCEEECCCCccCCChh--hccCCCCCEEECCCCccC-CcCcc-cc-
Confidence            34455677889999999999999999888889999999999999999887  899999999999999554 56643 33 


Q ss_pred             CCCCEEeccCCCCcccchhhhcCCCCCEEeccCCcCCCCCchhhhhccccCceeeccccCCCcccchhcccccCCccccH
Q 038398          564 VSLEHLDLSSTAITHLPIELQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKINVLFGGHQFLV  643 (720)
Q Consensus       564 ~~L~~L~L~~~~i~~lp~~i~~l~~L~~L~l~~~~~l~~lp~~~~~~l~~L~~L~~~~~~~~~l~~l~~~~~~~~~~~~~  643 (720)
                      ++|++|++++|.++.+| .+.++++|+.|++++ +.+..+|.  ++.+++|+.|++.+   |.+..+             
T Consensus       106 ~~L~~L~L~~N~l~~~~-~l~~l~~L~~L~Ls~-N~i~~~~~--l~~l~~L~~L~L~~---N~i~~~-------------  165 (263)
T 1xeu_A          106 ACLSRLFLDNNELRDTD-SLIHLKNLEILSIRN-NKLKSIVM--LGFLSKLEVLDLHG---NEITNT-------------  165 (263)
T ss_dssp             SSCCEEECCSSCCSBSG-GGTTCTTCCEEECTT-SCCCBCGG--GGGCTTCCEEECTT---SCCCBC-------------
T ss_pred             CcccEEEccCCccCCCh-hhcCcccccEEECCC-CcCCCChH--HccCCCCCEEECCC---CcCcch-------------
Confidence            99999999999999987 599999999999999 56788874  78899999888776   444322             


Q ss_pred             HHhcCCCCCceeEEEecchhh
Q 038398          644 EELMGMKHLMVLTITLKSWQA  664 (720)
Q Consensus       644 ~~l~~l~~L~~L~~~~~~~~~  664 (720)
                      ..+..+++|+.|++++|.+..
T Consensus       166 ~~l~~l~~L~~L~l~~N~~~~  186 (263)
T 1xeu_A          166 GGLTRLKKVNWIDLTGQKCVN  186 (263)
T ss_dssp             TTSTTCCCCCEEEEEEEEEEC
T ss_pred             HHhccCCCCCEEeCCCCcccC
Confidence            346778999999999987754

>2o6s_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 1.50A {Eptatretus burgeri}

Probab=99.44  E-value=9.8e-13  Score=126.89  Aligned_cols=180  Identities=20%  Similarity=0.240  Sum_probs=136.9

Q ss_pred             eEEEecccccccCCCCCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCccCCccccCCCCCCEEeccCCCC
Q 038398          497 RRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSSTAI  576 (720)
Q Consensus       497 ~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~~~i  576 (720)
                      +.++..++.+..+|.. ..++|++|++++|.++.+++..|.++++|++|++++|.+....+..+..+++|++|++++|.+
T Consensus        10 ~~v~c~~~~l~~~p~~-~~~~l~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l   88 (208)
T 2o6s_A           10 TTVECYSQGRTSVPTG-IPAQTTYLDLETNSLKSLPNGVFDELTSLTQLYLGGNKLQSLPNGVFNKLTSLTYLNLSTNQL   88 (208)
T ss_dssp             TEEECCSSCCSSCCSC-CCTTCSEEECCSSCCCCCCTTTTTTCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCC
T ss_pred             CEEEecCCCccCCCCC-CCCCCcEEEcCCCccCcCChhhhcccccCcEEECCCCccCccChhhcCCCCCcCEEECCCCcC
Confidence            3567777777777643 356899999999999999988889999999999999966644455678999999999999999


Q ss_pred             cccchh-hhcCCCCCEEeccCCcCCCCCchhhhhccccCceeeccccCCCcccchhcccccCCccccHHHhcCCCCCcee
Q 038398          577 THLPIE-LQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKINVLFGGHQFLVEELMGMKHLMVL  655 (720)
Q Consensus       577 ~~lp~~-i~~l~~L~~L~l~~~~~l~~lp~~~~~~l~~L~~L~~~~~~~~~l~~l~~~~~~~~~~~~~~~l~~l~~L~~L  655 (720)
                      +.+|.. +.++++|++|++++ +.+..+|...+..+++|+.|++.+   |.+..++.           ..+..+++|+.|
T Consensus        89 ~~~~~~~~~~l~~L~~L~L~~-N~l~~~~~~~~~~l~~L~~L~l~~---N~l~~~~~-----------~~~~~l~~L~~L  153 (208)
T 2o6s_A           89 QSLPNGVFDKLTQLKELALNT-NQLQSLPDGVFDKLTQLKDLRLYQ---NQLKSVPD-----------GVFDRLTSLQYI  153 (208)
T ss_dssp             CCCCTTTTTTCTTCCEEECCS-SCCCCCCTTTTTTCTTCCEEECCS---SCCSCCCT-----------TTTTTCTTCCEE
T ss_pred             CccCHhHhcCccCCCEEEcCC-CcCcccCHhHhccCCcCCEEECCC---CccceeCH-----------HHhccCCCccEE
Confidence            998865 68999999999998 567888876678888888888876   44433322           235678999999


Q ss_pred             EEEecchhhHHHHhhhhhhhhhccccccccccCCCccccccccccCC
Q 038398          656 TITLKSWQALKELLISQELQRSTQSLFLRCFNDSKSLDIFCLAGLRN  702 (720)
Q Consensus       656 ~~~~~~~~~l~~l~~~~~~~~~L~~L~l~~~~~l~~l~~~~l~~l~~  702 (720)
                      .++.|.+..         .+++|+.|+++.++....+| ..++.++.
T Consensus       154 ~l~~N~~~~---------~~~~l~~L~~~~n~~~g~ip-~~~~~l~~  190 (208)
T 2o6s_A          154 WLHDNPWDC---------TCPGIRYLSEWINKHSGVVR-NSAGSVAP  190 (208)
T ss_dssp             ECCSCCBCC---------CTTTTHHHHHHHHHCTTTBB-CTTSSBCT
T ss_pred             EecCCCeec---------CCCCHHHHHHHHHhCCceee-ccCccccC
Confidence            999987642         22466777776654444555 44444443

>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=99.43  E-value=5.1e-13  Score=130.00  Aligned_cols=150  Identities=18%  Similarity=0.285  Sum_probs=90.3

Q ss_pred             EEEecccccccCCCCCCCCcccEEEccCCCCcCcc-hHHhccCCcccEEEccCCCCCccCCccccCCCCCCEEeccCCCC
Q 038398          498 RMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMST-DDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSSTAI  576 (720)
Q Consensus       498 ~L~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~-~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~~~i  576 (720)
                      .+++++|.+..+|.. -.+.++.|++++|.++.++ ...|.++++|++|+|++|.+.+..|..|.++++|++|+|++|.+
T Consensus        15 ~l~~s~n~l~~iP~~-~~~~~~~L~L~~N~l~~~~~~~~~~~l~~L~~L~L~~N~i~~i~~~~~~~l~~L~~L~Ls~N~l   93 (220)
T 2v70_A           15 TVDCSNQKLNKIPEH-IPQYTAELRLNNNEFTVLEATGIFKKLPQLRKINFSNNKITDIEEGAFEGASGVNEILLTSNRL   93 (220)
T ss_dssp             EEECCSSCCSSCCSC-CCTTCSEEECCSSCCCEECCCCCGGGCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSCC
T ss_pred             EeEeCCCCcccCccC-CCCCCCEEEcCCCcCCccCchhhhccCCCCCEEECCCCcCCEECHHHhCCCCCCCEEECCCCcc
Confidence            566666666666542 1235567777777666663 34466677777777777755544455677777777777777777


Q ss_pred             cccchh-hhcCCCCCEEeccCCcCCCCCchhhhhccccCceeeccccCCCcccchhcccccCCccccHHHhcCCCCCcee
Q 038398          577 THLPIE-LQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKINVLFGGHQFLVEELMGMKHLMVL  655 (720)
Q Consensus       577 ~~lp~~-i~~l~~L~~L~l~~~~~l~~lp~~~~~~l~~L~~L~~~~~~~~~l~~l~~~~~~~~~~~~~~~l~~l~~L~~L  655 (720)
                      +.+|.. |.++++|++|++++ +.+..++...+..+++|+.|++.+   |.+..++           +..+..+++|+.|
T Consensus        94 ~~~~~~~~~~l~~L~~L~Ls~-N~l~~~~~~~~~~l~~L~~L~L~~---N~l~~~~-----------~~~~~~l~~L~~L  158 (220)
T 2v70_A           94 ENVQHKMFKGLESLKTLMLRS-NRITCVGNDSFIGLSSVRLLSLYD---NQITTVA-----------PGAFDTLHSLSTL  158 (220)
T ss_dssp             CCCCGGGGTTCSSCCEEECTT-SCCCCBCTTSSTTCTTCSEEECTT---SCCCCBC-----------TTTTTTCTTCCEE
T ss_pred             CccCHhHhcCCcCCCEEECCC-CcCCeECHhHcCCCccCCEEECCC---CcCCEEC-----------HHHhcCCCCCCEE
Confidence            766544 66677777777776 345555444455666666665543   3333221           2234556667777


Q ss_pred             EEEecchh
Q 038398          656 TITLKSWQ  663 (720)
Q Consensus       656 ~~~~~~~~  663 (720)
                      .+++|.+.
T Consensus       159 ~L~~N~l~  166 (220)
T 2v70_A          159 NLLANPFN  166 (220)
T ss_dssp             ECCSCCEE
T ss_pred             EecCcCCc
Confidence            77666553

>2je0_A Acidic leucine-rich nuclear phosphoprotein 32 FAM member A; nuclear protein; 2.40A {Homo sapiens} PDB: 2je1_A

Probab=99.43  E-value=2.9e-13  Score=123.03  Aligned_cols=125  Identities=22%  Similarity=0.242  Sum_probs=105.4

Q ss_pred             ccceeEEEecccccc--cCCCC-CCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCccCCccccCCCCCCEE
Q 038398          493 WRNVRRMSLMKNKIE--NLSET-PTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVSLEHL  569 (720)
Q Consensus       493 ~~~l~~L~l~~~~~~--~~~~~-~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L  569 (720)
                      .++++.|++++|.+.  .++.. ..+++|++|++++|.++.+  ..+..+++|++|++++|.+.+.+|..++.+++|++|
T Consensus        16 ~~~l~~L~l~~n~l~~~~~~~~~~~l~~L~~L~l~~n~l~~~--~~~~~l~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L   93 (149)
T 2je0_A           16 PSDVKELVLDNSRSNEGKLEGLTDEFEELEFLSTINVGLTSI--ANLPKLNKLKKLELSDNRVSGGLEVLAEKCPNLTHL   93 (149)
T ss_dssp             GGGCSEEECTTCBCBTTBCCSCCTTCTTCCEEECTTSCCCCC--TTCCCCTTCCEEECCSSCCCSCTHHHHHHCTTCCEE
T ss_pred             CccCeEEEccCCcCChhHHHHHHhhcCCCcEEECcCCCCCCc--hhhhcCCCCCEEECCCCcccchHHHHhhhCCCCCEE
Confidence            367999999999987  66654 7889999999999988887  448899999999999997776688888889999999


Q ss_pred             eccCCCCcccc--hhhhcCCCCCEEeccCCcCCCCCch---hhhhccccCceeecc
Q 038398          570 DLSSTAITHLP--IELQKLVNLKCLNLEYMNNLNQFPR---LVISAFSKLQVLRMF  620 (720)
Q Consensus       570 ~L~~~~i~~lp--~~i~~l~~L~~L~l~~~~~l~~lp~---~~~~~l~~L~~L~~~  620 (720)
                      ++++|.++.+|  ..+..+++|++|++++| .+..+|.   ..++.+++|+.|++.
T Consensus        94 ~ls~N~i~~~~~~~~~~~l~~L~~L~l~~N-~l~~~~~~~~~~~~~l~~L~~L~l~  148 (149)
T 2je0_A           94 NLSGNKIKDLSTIEPLKKLENLKSLDLFNC-EVTNLNDYRENVFKLLPQLTYLDGY  148 (149)
T ss_dssp             ECTTSCCCSHHHHGGGGGCTTCCEEECTTC-GGGGSTTHHHHHHHHCTTCCEETTB
T ss_pred             ECCCCcCCChHHHHHHhhCCCCCEEeCcCC-cccchHHHHHHHHHHCCCcccccCC
Confidence            99999999875  77999999999999985 6677775   457888888888765

>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=99.43  E-value=1.1e-13  Score=147.35  Aligned_cols=213  Identities=18%  Similarity=0.125  Sum_probs=151.9

Q ss_pred             ccccccceeEEEecccccccC------CCCCCCCcccEEEccCCCCcCc----chHH------hccCCcccEEEccCCCC
Q 038398          489 EIQNWRNVRRMSLMKNKIENL------SETPTCPHLLSLFLSDNSLKMS----TDDF------FQSMPSLRVFNMSNNHL  552 (720)
Q Consensus       489 ~~~~~~~l~~L~l~~~~~~~~------~~~~~~~~L~~L~l~~~~~~~~----~~~~------~~~l~~L~~L~L~~~~~  552 (720)
                      .+..+++|++|++++|.+...      ..+..+++|++|++++|.+..+    |...      +..+++|++|+|++|.+
T Consensus        27 ~l~~~~~L~~L~L~~n~i~~~~~~~l~~~l~~~~~L~~L~Ls~~~~~~l~~~~~~~~~~l~~~l~~~~~L~~L~Ls~n~l  106 (386)
T 2ca6_A           27 VLLEDDSVKEIVLSGNTIGTEAARWLSENIASKKDLEIAEFSDIFTGRVKDEIPEALRLLLQALLKCPKLHTVRLSDNAF  106 (386)
T ss_dssp             HHHHCSCCCEEECTTSEECHHHHHHHHHTTTTCTTCCEEECCSCCTTSCGGGSHHHHHHHHHHHTTCTTCCEEECCSCCC
T ss_pred             HHhcCCCccEEECCCCCCCHHHHHHHHHHHHhCCCccEEeCcccccCccccchhHHHHHHHHHHhhCCcccEEECCCCcC
Confidence            345667899999999988653      1256789999999999855432    2221      47899999999999977


Q ss_pred             Cc----cCCccccCCCCCCEEeccCCCCcc-----cchhhhcC---------CCCCEEeccCCcCCC--CCch--hhhhc
Q 038398          553 LW----KLPSGISTLVSLEHLDLSSTAITH-----LPIELQKL---------VNLKCLNLEYMNNLN--QFPR--LVISA  610 (720)
Q Consensus       553 ~~----~lp~~i~~l~~L~~L~L~~~~i~~-----lp~~i~~l---------~~L~~L~l~~~~~l~--~lp~--~~~~~  610 (720)
                      ..    .+|..+..+++|++|+|++|.++.     ++..+..+         ++|++|++++| .+.  .+|.  ..+..
T Consensus       107 ~~~~~~~l~~~l~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~l~~~~~~~~~~~L~~L~L~~n-~l~~~~~~~l~~~l~~  185 (386)
T 2ca6_A          107 GPTAQEPLIDFLSKHTPLEHLYLHNNGLGPQAGAKIARALQELAVNKKAKNAPPLRSIICGRN-RLENGSMKEWAKTFQS  185 (386)
T ss_dssp             CTTTHHHHHHHHHHCTTCCEEECCSSCCHHHHHHHHHHHHHHHHHHHHHHTCCCCCEEECCSS-CCTGGGHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHhCCCCCEEECcCCCCCHHHHHHHHHHHHHHhhhhhcccCCCCcEEECCCC-CCCcHHHHHHHHHHHh
Confidence            65    478889999999999999999873     34445555         89999999995 343  3342  13567


Q ss_pred             cccCceeeccccCCCcccchhcccccCCccccHH-HhcCCCCCceeEEEecchhh--HHHHhhhhhhhhhcccccccccc
Q 038398          611 FSKLQVLRMFDCGGSKIERLKINVLFGGHQFLVE-ELMGMKHLMVLTITLKSWQA--LKELLISQELQRSTQSLFLRCFN  687 (720)
Q Consensus       611 l~~L~~L~~~~~~~~~l~~l~~~~~~~~~~~~~~-~l~~l~~L~~L~~~~~~~~~--l~~l~~~~~~~~~L~~L~l~~~~  687 (720)
                      +++|++|.+.+|.   +....       ...... .+..+++|+.|.++.|.+..  ...++.....+++|+.|+|++|.
T Consensus       186 ~~~L~~L~L~~n~---l~~~g-------~~~l~~~~l~~~~~L~~L~Ls~n~l~~~g~~~l~~~l~~~~~L~~L~L~~n~  255 (386)
T 2ca6_A          186 HRLLHTVKMVQNG---IRPEG-------IEHLLLEGLAYCQELKVLDLQDNTFTHLGSSALAIALKSWPNLRELGLNDCL  255 (386)
T ss_dssp             CTTCCEEECCSSC---CCHHH-------HHHHHHTTGGGCTTCCEEECCSSCCHHHHHHHHHHHGGGCTTCCEEECTTCC
T ss_pred             CCCcCEEECcCCC---CCHhH-------HHHHHHHHhhcCCCccEEECcCCCCCcHHHHHHHHHHccCCCcCEEECCCCC
Confidence            8888888887653   32110       001222 57789999999999998753  23445555666799999999855


Q ss_pred             CCCcccc----ccc--cccCCcceeeecCCCC
Q 038398          688 DSKSLDI----FCL--AGLRNLNKLYVAGCKH  713 (720)
Q Consensus       688 ~l~~l~~----~~l--~~l~~L~~L~l~~c~~  713 (720)
                       ++....    ..+  ..+++|+.|+|++|..
T Consensus       256 -i~~~~~~~l~~~l~~~~~~~L~~L~L~~n~i  286 (386)
T 2ca6_A          256 -LSARGAAAVVDAFSKLENIGLQTLRLQYNEI  286 (386)
T ss_dssp             -CCHHHHHHHHHHHHTCSSCCCCEEECCSSCC
T ss_pred             -CchhhHHHHHHHHhhccCCCeEEEECcCCcC
Confidence             544421    234  3489999999999873

>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=99.43  E-value=2.8e-13  Score=125.89  Aligned_cols=129  Identities=23%  Similarity=0.281  Sum_probs=106.7

Q ss_pred             cceeEEEecccccc--cCCCC-CCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCccCCccccCCCCCCEEe
Q 038398          494 RNVRRMSLMKNKIE--NLSET-PTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLD  570 (720)
Q Consensus       494 ~~l~~L~l~~~~~~--~~~~~-~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~  570 (720)
                      ++++.|++++|.+.  .++.. ..+++|++|++++|.++.+  ..+..+++|++|+|++|.+.+.+|..+..+++|++|+
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            67899999999987  67665 6788999999999988877  4488899999999999977666887777899999999


Q ss_pred             ccCCCCcccc--hhhhcCCCCCEEeccCCcCCCCCch---hhhhccccCceeeccccCCC
Q 038398          571 LSSTAITHLP--IELQKLVNLKCLNLEYMNNLNQFPR---LVISAFSKLQVLRMFDCGGS  625 (720)
Q Consensus       571 L~~~~i~~lp--~~i~~l~~L~~L~l~~~~~l~~lp~---~~~~~l~~L~~L~~~~~~~~  625 (720)
                      +++|.++.+|  ..+..+++|++|++++| .+..+|.   ..+..+++|+.|++.++...
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            9999999876  67889999999999984 6677775   45788888888888876543

>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=99.42  E-value=7.9e-13  Score=128.61  Aligned_cols=144  Identities=19%  Similarity=0.202  Sum_probs=118.7

Q ss_pred             EEEEcCCCCccCcccccccceeEEEecccccccCCC---CCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCC
Q 038398          476 FLVHAGLGLTEAPEIQNWRNVRRMSLMKNKIENLSE---TPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHL  552 (720)
Q Consensus       476 ~~~~~~~~~~~~~~~~~~~~l~~L~l~~~~~~~~~~---~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~  552 (720)
                      .+...+.....+|. .-...++.|++++|.+..++.   +..+++|++|++++|.++.+++..|.++++|++|+|++|.+
T Consensus        15 ~l~~s~n~l~~iP~-~~~~~~~~L~L~~N~l~~~~~~~~~~~l~~L~~L~L~~N~i~~i~~~~~~~l~~L~~L~Ls~N~l   93 (220)
T 2v70_A           15 TVDCSNQKLNKIPE-HIPQYTAELRLNNNEFTVLEATGIFKKLPQLRKINFSNNKITDIEEGAFEGASGVNEILLTSNRL   93 (220)
T ss_dssp             EEECCSSCCSSCCS-CCCTTCSEEECCSSCCCEECCCCCGGGCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSCC
T ss_pred             EeEeCCCCcccCcc-CCCCCCCEEEcCCCcCCccCchhhhccCCCCCEEECCCCcCCEECHHHhCCCCCCCEEECCCCcc
Confidence            34444555555553 223567899999999988743   46889999999999999999987899999999999999977


Q ss_pred             CccCCccccCCCCCCEEeccCCCCccc-chhhhcCCCCCEEeccCCcCCCCCchhhhhccccCceeeccc
Q 038398          553 LWKLPSGISTLVSLEHLDLSSTAITHL-PIELQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFD  621 (720)
Q Consensus       553 ~~~lp~~i~~l~~L~~L~L~~~~i~~l-p~~i~~l~~L~~L~l~~~~~l~~lp~~~~~~l~~L~~L~~~~  621 (720)
                      .+..|..+..+++|++|+|++|.++.+ |..+..+++|++|++++ +.+..++...+..+++|+.|++.+
T Consensus        94 ~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~-N~l~~~~~~~~~~l~~L~~L~L~~  162 (220)
T 2v70_A           94 ENVQHKMFKGLESLKTLMLRSNRITCVGNDSFIGLSSVRLLSLYD-NQITTVAPGAFDTLHSLSTLNLLA  162 (220)
T ss_dssp             CCCCGGGGTTCSSCCEEECTTSCCCCBCTTSSTTCTTCSEEECTT-SCCCCBCTTTTTTCTTCCEEECCS
T ss_pred             CccCHhHhcCCcCCCEEECCCCcCCeECHhHcCCCccCCEEECCC-CcCCEECHHHhcCCCCCCEEEecC
Confidence            766677799999999999999999988 56799999999999999 567777555578888888887764

>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=99.41  E-value=6e-13  Score=151.62  Aligned_cols=216  Identities=22%  Similarity=0.228  Sum_probs=140.7

Q ss_pred             EEEcCCCCccCcccccccceeEEEecccccccCCC--CCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCc
Q 038398          477 LVHAGLGLTEAPEIQNWRNVRRMSLMKNKIENLSE--TPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLW  554 (720)
Q Consensus       477 ~~~~~~~~~~~~~~~~~~~l~~L~l~~~~~~~~~~--~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~  554 (720)
                      +.+.+.+...+|.- -..++++|+|++|.++.++.  +.++++|++|++++|.++.+++..|.++++|++|+|++|++..
T Consensus        36 ~~c~~~~l~~vP~~-lp~~~~~LdLs~N~i~~l~~~~f~~l~~L~~L~Ls~N~i~~i~~~~f~~L~~L~~L~Ls~N~l~~  114 (635)
T 4g8a_A           36 YQCMELNFYKIPDN-LPFSTKNLDLSFNPLRHLGSYSFFSFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNPIQS  114 (635)
T ss_dssp             EECTTSCCSSCCSS-SCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECTTCCCCEECTTTTTTCTTCCEEECTTCCCCE
T ss_pred             EECCCCCcCccCCC-CCcCCCEEEeeCCCCCCCCHHHHhCCCCCCEEECCCCcCCCcChhHhcCCCCCCEEEccCCcCCC
Confidence            34445556666642 12478999999999988764  5789999999999999999988889999999999999996654


Q ss_pred             cCCccccCCCCCCEEeccCCCCcccchh-hhcCCCCCEEeccCCcCCCCC--chhhhhccccCceeeccccCCCcccchh
Q 038398          555 KLPSGISTLVSLEHLDLSSTAITHLPIE-LQKLVNLKCLNLEYMNNLNQF--PRLVISAFSKLQVLRMFDCGGSKIERLK  631 (720)
Q Consensus       555 ~lp~~i~~l~~L~~L~L~~~~i~~lp~~-i~~l~~L~~L~l~~~~~l~~l--p~~~~~~l~~L~~L~~~~~~~~~l~~l~  631 (720)
                      ..|..|.++++|++|+|++|.++.+|.. |+++++|++|++++| .+..+  |. .++.+++|++|++.+   |.+..++
T Consensus       115 l~~~~f~~L~~L~~L~Ls~N~l~~l~~~~~~~L~~L~~L~Ls~N-~l~~~~~~~-~~~~l~~L~~L~L~~---N~l~~~~  189 (635)
T 4g8a_A          115 LALGAFSGLSSLQKLVAVETNLASLENFPIGHLKTLKELNVAHN-LIQSFKLPE-YFSNLTNLEHLDLSS---NKIQSIY  189 (635)
T ss_dssp             ECGGGGTTCTTCCEEECTTSCCCCSTTCCCTTCTTCCEEECCSS-CCCCCCCCG-GGGGCTTCCEEECCS---SCCCEEC
T ss_pred             CCHHHhcCCCCCCEEECCCCcCCCCChhhhhcCcccCeeccccC-ccccCCCch-hhccchhhhhhcccC---ccccccc
Confidence            4456789999999999999999988764 889999999999984 45543  44 367788888887765   4444333


Q ss_pred             cccccCCccccHHHhcCCCC-CceeEEEecchhhHHHHhhhhhhhhhccccccccccCCCccccccccccCCcceeeec
Q 038398          632 INVLFGGHQFLVEELMGMKH-LMVLTITLKSWQALKELLISQELQRSTQSLFLRCFNDSKSLDIFCLAGLRNLNKLYVA  709 (720)
Q Consensus       632 ~~~~~~~~~~~~~~l~~l~~-L~~L~~~~~~~~~l~~l~~~~~~~~~L~~L~l~~~~~l~~l~~~~l~~l~~L~~L~l~  709 (720)
                      ..        .+..+..++. +..+.++.+.+..+.   ........+..+++.++.....+....+.+++.|+...+.
T Consensus       190 ~~--------~l~~L~~l~~~~~~~~ls~n~l~~i~---~~~~~~~~~~~l~l~~n~~~~~~~~~~~~~l~~l~~~~l~  257 (635)
T 4g8a_A          190 CT--------DLRVLHQMPLLNLSLDLSLNPMNFIQ---PGAFKEIRLHKLTLRNNFDSLNVMKTCIQGLAGLEVHRLV  257 (635)
T ss_dssp             GG--------GGHHHHTCTTCCCEEECTTCCCCEEC---TTTTTTCEEEEEEEESCCSSHHHHHHHHHTTTTCEEEEEE
T ss_pred             cc--------cccchhhhhhhhhhhhcccCcccccC---cccccchhhhhhhhhcccccccccchhhcCCccccccccc
Confidence            21        1223333322 223444444433221   1111112455566654322222222346667766655553

>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=99.41  E-value=1.2e-12  Score=128.20  Aligned_cols=151  Identities=21%  Similarity=0.289  Sum_probs=123.0

Q ss_pred             eeEEEecccccccCCCCCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCccCCccccCCCCCCEEeccCCC
Q 038398          496 VRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSSTA  575 (720)
Q Consensus       496 l~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~~~  575 (720)
                      .+.++.+++.+..+|.. -.++|++|++++|.+..+++..|.++++|++|+|++|.+....+..+..+++|++|+|++|.
T Consensus        21 ~~~v~c~~~~l~~ip~~-~~~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~L~~N~l~~i~~~~~~~l~~L~~L~Ls~N~   99 (229)
T 3e6j_A           21 GTTVDCRSKRHASVPAG-IPTNAQILYLHDNQITKLEPGVFDSLINLKELYLGSNQLGALPVGVFDSLTQLTVLDLGTNQ   99 (229)
T ss_dssp             TTEEECTTSCCSSCCSC-CCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSC
T ss_pred             CCEeEccCCCcCccCCC-CCCCCCEEEcCCCccCccCHHHhhCccCCcEEECCCCCCCCcChhhcccCCCcCEEECCCCc
Confidence            34688888888888763 34899999999999999988889999999999999996643334567999999999999999


Q ss_pred             Ccccchh-hhcCCCCCEEeccCCcCCCCCchhhhhccccCceeeccccCCCcccchhcccccCCccccHHHhcCCCCCce
Q 038398          576 ITHLPIE-LQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKINVLFGGHQFLVEELMGMKHLMV  654 (720)
Q Consensus       576 i~~lp~~-i~~l~~L~~L~l~~~~~l~~lp~~~~~~l~~L~~L~~~~~~~~~l~~l~~~~~~~~~~~~~~~l~~l~~L~~  654 (720)
                      ++.+|.. +..+++|++|++++ +.+..+|.. +..+++|+.|++.+   |.+..++.           ..+..+++|+.
T Consensus       100 l~~l~~~~~~~l~~L~~L~Ls~-N~l~~lp~~-~~~l~~L~~L~L~~---N~l~~~~~-----------~~~~~l~~L~~  163 (229)
T 3e6j_A          100 LTVLPSAVFDRLVHLKELFMCC-NKLTELPRG-IERLTHLTHLALDQ---NQLKSIPH-----------GAFDRLSSLTH  163 (229)
T ss_dssp             CCCCCTTTTTTCTTCCEEECCS-SCCCSCCTT-GGGCTTCSEEECCS---SCCCCCCT-----------TTTTTCTTCCE
T ss_pred             CCccChhHhCcchhhCeEeccC-CcccccCcc-cccCCCCCEEECCC---CcCCccCH-----------HHHhCCCCCCE
Confidence            9999866 68999999999999 578899875 68888988888765   55543332           23567889999


Q ss_pred             eEEEecchh
Q 038398          655 LTITLKSWQ  663 (720)
Q Consensus       655 L~~~~~~~~  663 (720)
                      |.+.+|.+.
T Consensus       164 L~l~~N~~~  172 (229)
T 3e6j_A          164 AYLFGNPWD  172 (229)
T ss_dssp             EECTTSCBC
T ss_pred             EEeeCCCcc
Confidence            999988653

>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=99.41  E-value=3.7e-13  Score=126.10  Aligned_cols=131  Identities=21%  Similarity=0.242  Sum_probs=89.2

Q ss_pred             cccccccceeEEEecccccccCCCCCCCC-cccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCccCCcc-ccCCCC
Q 038398          488 PEIQNWRNVRRMSLMKNKIENLSETPTCP-HLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSG-ISTLVS  565 (720)
Q Consensus       488 ~~~~~~~~l~~L~l~~~~~~~~~~~~~~~-~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~-i~~l~~  565 (720)
                      +.+.++.+++.|++++|.+..++.+..+. +|++|++++|.++.+  ..|..+++|++|+|++|.+. .+|.. ++.+++
T Consensus        13 ~~~~~~~~L~~L~l~~n~l~~i~~~~~~~~~L~~L~Ls~N~l~~~--~~l~~l~~L~~L~Ls~N~l~-~~~~~~~~~l~~   89 (176)
T 1a9n_A           13 AQYTNAVRDRELDLRGYKIPVIENLGATLDQFDAIDFSDNEIRKL--DGFPLLRRLKTLLVNNNRIC-RIGEGLDQALPD   89 (176)
T ss_dssp             CEEECTTSCEEEECTTSCCCSCCCGGGGTTCCSEEECCSSCCCEE--CCCCCCSSCCEEECCSSCCC-EECSCHHHHCTT
T ss_pred             HhcCCcCCceEEEeeCCCCchhHHhhhcCCCCCEEECCCCCCCcc--cccccCCCCCEEECCCCccc-ccCcchhhcCCC
Confidence            34555667788888888777766554444 778888888877766  23677777888888877544 44433 377778


Q ss_pred             CCEEeccCCCCcccch--hhhcCCCCCEEeccCCcCCCCCchh---hhhccccCceeecccc
Q 038398          566 LEHLDLSSTAITHLPI--ELQKLVNLKCLNLEYMNNLNQFPRL---VISAFSKLQVLRMFDC  622 (720)
Q Consensus       566 L~~L~L~~~~i~~lp~--~i~~l~~L~~L~l~~~~~l~~lp~~---~~~~l~~L~~L~~~~~  622 (720)
                      |++|++++|.++.+|.  .+..+++|++|++++| .+..+|..   .+..+++|+.|++.++
T Consensus        90 L~~L~L~~N~i~~~~~~~~l~~l~~L~~L~l~~N-~i~~~~~~~~~~~~~l~~L~~Ld~~~n  150 (176)
T 1a9n_A           90 LTELILTNNSLVELGDLDPLASLKSLTYLCILRN-PVTNKKHYRLYVIYKVPQVRVLDFQKV  150 (176)
T ss_dssp             CCEEECCSCCCCCGGGGGGGGGCTTCCEEECCSS-GGGGSTTHHHHHHHHCTTCSEETTEEC
T ss_pred             CCEEECCCCcCCcchhhHhhhcCCCCCEEEecCC-CCCCcHhHHHHHHHHCCccceeCCCcC
Confidence            8888888877777776  6777777888888773 45556653   3566666666666543

>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=99.41  E-value=2.2e-12  Score=137.36  Aligned_cols=289  Identities=13%  Similarity=0.068  Sum_probs=173.7

Q ss_pred             CCCcCchHHHHHHHHHhcC----CCceEEEEEcCCCChHHHHHHHHHhhhcCCCCC---cCEEEEEEecCcCCHHHHHHH
Q 038398          126 EPTVGLESTFDKVWRCLGE----EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNV---FDVVIWVVVSKDLQLEKIQEK  198 (720)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~----~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~---f~~~~wv~v~~~~~~~~~~~~  198 (720)
                      +.++||+++++.+.+++..    .....+.|+|++|+||||||+.+++..   ...   -..++|+++....+...+...
T Consensus        20 ~~~~gr~~e~~~l~~~l~~~~~~~~~~~vli~G~~G~GKTtl~~~l~~~~---~~~~~~~~~~~~i~~~~~~~~~~~~~~   96 (386)
T 2qby_A           20 DELPHREDQIRKIASILAPLYREEKPNNIFIYGLTGTGKTAVVKFVLSKL---HKKFLGKFKHVYINTRQIDTPYRVLAD   96 (386)
T ss_dssp             SCCTTCHHHHHHHHHSSGGGGGTCCCCCEEEEECTTSSHHHHHHHHHHHH---HHHTCSSCEEEEEEHHHHCSHHHHHHH
T ss_pred             CCCCChHHHHHHHHHHHHHHHcCCCCCeEEEECCCCCCHHHHHHHHHHHH---HHHhcCCceEEEEECCCCCCHHHHHHH
Confidence            6799999999999998863    456789999999999999999999876   222   235778887777777888888


Q ss_pred             HHHHhCCCCCccCCCChhHHHHHHHHHhcc--CcEEEEEecccccc------ccccccccCCC-CCCCcEEEEEcCChhH
Q 038398          199 IGRRIGFFDESWKNGSLEDKTSDILRILGK--KKFLLLLDDIWERV------DLTKVGIPFPD-PENKSKIVFTTHFLEI  269 (720)
Q Consensus       199 i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~--k~~LlVlDdv~~~~------~~~~l~~~~~~-~~~gs~iiiTtR~~~v  269 (720)
                      ++..++...+. ...+..+....+.+.+..  ++.+||||+++...      .+..+...+.. ...+..+|+||+....
T Consensus        97 i~~~l~~~~~~-~~~~~~~~~~~l~~~l~~~~~~~vlilDE~~~l~~~~~~~~l~~l~~~~~~~~~~~~~~I~~~~~~~~  175 (386)
T 2qby_A           97 LLESLDVKVPF-TGLSIAELYRRLVKAVRDYGSQVVIVLDEIDAFVKKYNDDILYKLSRINSEVNKSKISFIGITNDVKF  175 (386)
T ss_dssp             HTTTTSCCCCS-SSCCHHHHHHHHHHHHHTCCSCEEEEEETHHHHHHSSCSTHHHHHHHHHHSCCC--EEEEEEESCGGG
T ss_pred             HHHHhCCCCCC-CCCCHHHHHHHHHHHHhccCCeEEEEEcChhhhhccCcCHHHHHHhhchhhcCCCeEEEEEEECCCCh
Confidence            88887654321 223455556666666653  48999999997532      12222111111 2335567778876543


Q ss_pred             hhhhc-------cCceeeccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhC---CcchHH-HHHHHHHh----
Q 038398          270 CGALK-------AHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECA---GLPLAL-ITIGRAMA----  334 (720)
Q Consensus       270 ~~~~~-------~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~---GlPLai-~~~~~~l~----  334 (720)
                      ...+.       ....+.+++++.++..+++...+.... ....-..+....+++.++   |.|..+ ..+..+..    
T Consensus       176 ~~~~~~~~~~r~~~~~i~l~~l~~~~~~~il~~~~~~~~-~~~~~~~~~~~~l~~~~~~~~G~~r~~~~ll~~a~~~a~~  254 (386)
T 2qby_A          176 VDLLDPRVKSSLSEEEIIFPPYNAEELEDILTKRAQMAF-KPGVLPDNVIKLCAALAAREHGDARRALDLLRVSGEIAER  254 (386)
T ss_dssp             GGGCTTHHHHTTTTEEEEECCCCHHHHHHHHHHHHHHHB-CSSCSCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHH
T ss_pred             HhhhCHHHhccCCCeeEEeCCCCHHHHHHHHHHHHHhhc-cCCCCCHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHh
Confidence            22211       124789999999999999998754211 112233566777888887   998844 43333221    


Q ss_pred             -c--CCChhHHHHHHHHHhcccCCCCCCCccchhhHHhhcCCCCCcchhHHHHhhcCCCC-C-cccChHHHHHHH--Hh-
Q 038398          335 -C--KKTPQEWHYAIQVLRRSASEFPGMGKEVYPLLKFSYDSLPDDTIRSYLLYCGLFPE-D-YRIRKSELIDCW--IG-  406 (720)
Q Consensus       335 -~--~~~~~~w~~~l~~l~~~~~~~~~~~~~~~~~l~~sy~~L~~~~~k~~fl~~~~fp~-~-~~i~~~~li~~W--ia-  406 (720)
                       +  .-+.+.+..++....             ...+.-.+..+|. ..+..+..++.+.+ + ..+....+.+..  ++ 
T Consensus       255 ~~~~~i~~~~v~~a~~~~~-------------~~~~~~~~~~l~~-~~~~il~ai~~~~~~g~~~~~~~~l~~~~~~~~~  320 (386)
T 2qby_A          255 MKDTKVKEEYVYMAKEEIE-------------RDRVRDIILTLPF-HSKLVLMAVVSISSEENVVSTTGAVYETYLNICK  320 (386)
T ss_dssp             TTCSSCCHHHHHHHHHHHH-------------HHHHHHHHHTSCH-HHHHHHHHHHHHC-----CEEHHHHHHHHHHHHH
T ss_pred             cCCCccCHHHHHHHHHHHh-------------hchHHHHHHcCCH-HHHHHHHHHHHHHhcCCCceeHHHHHHHHHHHHH
Confidence             1  124445554444322             1234555667777 56666665553211 1 123333332221  11 


Q ss_pred             -hCCCCcccchhhHHhHHHHHHHHHHhcccccc
Q 038398          407 -EGFLDQYDRSGAYNEGYYIIGILLHACLLEEE  438 (720)
Q Consensus       407 -eg~~~~~~~~~~~~~~~~~~~~L~~~sll~~~  438 (720)
                       .|. ..    ........+++.|...++++..
T Consensus       321 ~~g~-~~----~~~~~~~~~l~~L~~~gli~~~  348 (386)
T 2qby_A          321 KLGV-EA----VTQRRVSDIINELDMVGILTAK  348 (386)
T ss_dssp             HHTC-CC----CCHHHHHHHHHHHHHHTSEEEE
T ss_pred             hcCC-CC----CCHHHHHHHHHHHHhCCCEEEE
Confidence             121 11    1224566789999999999775

>2xot_A Amphoterin-induced protein 1; cell adhesion, neuronal protein, neurite growth regulation; HET: NAG BMA; 2.00A {Mus musculus}

Probab=99.41  E-value=6.3e-13  Score=139.98  Aligned_cols=172  Identities=25%  Similarity=0.338  Sum_probs=131.8

Q ss_pred             EEEEcCCCCccCcccccccceeEEEecccccccCCCC--C-CCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCC
Q 038398          476 FLVHAGLGLTEAPEIQNWRNVRRMSLMKNKIENLSET--P-TCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHL  552 (720)
Q Consensus       476 ~~~~~~~~~~~~~~~~~~~~l~~L~l~~~~~~~~~~~--~-~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~  552 (720)
                      .+...+..+..+|. .-...++.|++++|.+..++..  . .+++|+.|++++|.+..+++..|.++++|++|+|++|.+
T Consensus        22 ~l~c~~~~l~~iP~-~~~~~l~~L~Ls~N~l~~l~~~~~~~~l~~L~~L~L~~N~i~~i~~~~~~~l~~L~~L~Ls~N~l  100 (361)
T 2xot_A           22 ILSCSKQQLPNVPQ-SLPSYTALLDLSHNNLSRLRAEWTPTRLTNLHSLLLSHNHLNFISSEAFVPVPNLRYLDLSSNHL  100 (361)
T ss_dssp             EEECCSSCCSSCCS-SCCTTCSEEECCSSCCCEECTTSSSSCCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSCC
T ss_pred             EEEeCCCCcCccCc-cCCCCCCEEECCCCCCCccChhhhhhcccccCEEECCCCcCCccChhhccCCCCCCEEECCCCcC
Confidence            44555555666654 2235689999999999887653  3 889999999999999999988899999999999999977


Q ss_pred             CccCCccccCCCCCCEEeccCCCCccc-chhhhcCCCCCEEeccCCcCCCCCchhhh---hccccCceeeccccCCCccc
Q 038398          553 LWKLPSGISTLVSLEHLDLSSTAITHL-PIELQKLVNLKCLNLEYMNNLNQFPRLVI---SAFSKLQVLRMFDCGGSKIE  628 (720)
Q Consensus       553 ~~~lp~~i~~l~~L~~L~L~~~~i~~l-p~~i~~l~~L~~L~l~~~~~l~~lp~~~~---~~l~~L~~L~~~~~~~~~l~  628 (720)
                      ....+..|.++++|++|+|++|.|+.+ |..|.++++|++|+|++ +.+..+|...+   ..+++|+.|++.   .|.+.
T Consensus       101 ~~~~~~~~~~l~~L~~L~L~~N~i~~~~~~~~~~l~~L~~L~L~~-N~l~~l~~~~~~~~~~l~~L~~L~L~---~N~l~  176 (361)
T 2xot_A          101 HTLDEFLFSDLQALEVLLLYNNHIVVVDRNAFEDMAQLQKLYLSQ-NQISRFPVELIKDGNKLPKLMLLDLS---SNKLK  176 (361)
T ss_dssp             CEECTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCS-SCCCSCCGGGTC----CTTCCEEECC---SSCCC
T ss_pred             CcCCHHHhCCCcCCCEEECCCCcccEECHHHhCCcccCCEEECCC-CcCCeeCHHHhcCcccCCcCCEEECC---CCCCC
Confidence            655566799999999999999999988 56799999999999999 67888998655   456777777665   46665


Q ss_pred             chhcccccCCccccHHHhcCCCC--CceeEEEecchh
Q 038398          629 RLKINVLFGGHQFLVEELMGMKH--LMVLTITLKSWQ  663 (720)
Q Consensus       629 ~l~~~~~~~~~~~~~~~l~~l~~--L~~L~~~~~~~~  663 (720)
                      .++.           ..+..++.  |+.|.+.+|.+.
T Consensus       177 ~l~~-----------~~~~~l~~~~l~~l~l~~N~~~  202 (361)
T 2xot_A          177 KLPL-----------TDLQKLPAWVKNGLYLHNNPLE  202 (361)
T ss_dssp             CCCH-----------HHHHHSCHHHHTTEECCSSCEE
T ss_pred             ccCH-----------HHhhhccHhhcceEEecCCCcc
Confidence            4442           23334443  366787776653

>1xeu_A Internalin C; cellular invasion, leucine-rich repeat, cell invasion; 2.05A {Listeria monocytogenes}

Probab=99.39  E-value=9.7e-14  Score=139.10  Aligned_cols=167  Identities=16%  Similarity=0.183  Sum_probs=132.1

Q ss_pred             cccceeEEEecccccccCCCCCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCccCCccccCCCCCCEEec
Q 038398          492 NWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDL  571 (720)
Q Consensus       492 ~~~~l~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L  571 (720)
                      .+.++..+.+..+.+..++.+..+++|++|++++|.++.++  .+..+++|++|+|++|.+. .+|. ++.+++|++|++
T Consensus        17 ~l~~l~~l~l~~~~i~~~~~~~~l~~L~~L~l~~n~i~~l~--~l~~l~~L~~L~L~~N~i~-~~~~-l~~l~~L~~L~L   92 (263)
T 1xeu_A           17 GLANAVKQNLGKQSVTDLVSQKELSGVQNFNGDNSNIQSLA--GMQFFTNLKELHLSHNQIS-DLSP-LKDLTKLEELSV   92 (263)
T ss_dssp             HHHHHHHHHHTCSCTTSEECHHHHTTCSEEECTTSCCCCCT--TGGGCTTCCEEECCSSCCC-CCGG-GTTCSSCCEEEC
T ss_pred             HHHHHHHHHhcCCCcccccchhhcCcCcEEECcCCCcccch--HHhhCCCCCEEECCCCccC-CChh-hccCCCCCEEEC
Confidence            45567777888888888877778899999999999998887  3889999999999999554 5555 999999999999


Q ss_pred             cCCCCcccchhhhcCCCCCEEeccCCcCCCCCchhhhhccccCceeeccccCCCcccchhcccccCCccccHHHhcCCCC
Q 038398          572 SSTAITHLPIELQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKINVLFGGHQFLVEELMGMKH  651 (720)
Q Consensus       572 ~~~~i~~lp~~i~~l~~L~~L~l~~~~~l~~lp~~~~~~l~~L~~L~~~~~~~~~l~~l~~~~~~~~~~~~~~~l~~l~~  651 (720)
                      ++|.++.+|.. .. ++|++|++++ +.+..++.  ++.+++|+.|++.+   |.+..+             ..+..+++
T Consensus        93 ~~N~l~~l~~~-~~-~~L~~L~L~~-N~l~~~~~--l~~l~~L~~L~Ls~---N~i~~~-------------~~l~~l~~  151 (263)
T 1xeu_A           93 NRNRLKNLNGI-PS-ACLSRLFLDN-NELRDTDS--LIHLKNLEILSIRN---NKLKSI-------------VMLGFLSK  151 (263)
T ss_dssp             CSSCCSCCTTC-CC-SSCCEEECCS-SCCSBSGG--GTTCTTCCEEECTT---SCCCBC-------------GGGGGCTT
T ss_pred             CCCccCCcCcc-cc-CcccEEEccC-CccCCChh--hcCcccccEEECCC---CcCCCC-------------hHHccCCC
Confidence            99999998864 34 9999999999 46777775  78888888887765   444322             13667889


Q ss_pred             CceeEEEecchhhHHHHhhhhhhhhhcccccccccc
Q 038398          652 LMVLTITLKSWQALKELLISQELQRSTQSLFLRCFN  687 (720)
Q Consensus       652 L~~L~~~~~~~~~l~~l~~~~~~~~~L~~L~l~~~~  687 (720)
                      |+.|+++.|.+..+    .....+++|+.|++++++
T Consensus       152 L~~L~L~~N~i~~~----~~l~~l~~L~~L~l~~N~  183 (263)
T 1xeu_A          152 LEVLDLHGNEITNT----GGLTRLKKVNWIDLTGQK  183 (263)
T ss_dssp             CCEEECTTSCCCBC----TTSTTCCCCCEEEEEEEE
T ss_pred             CCEEECCCCcCcch----HHhccCCCCCEEeCCCCc
Confidence            99999998888766    333455688999998743

>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=99.39  E-value=2.6e-12  Score=139.30  Aligned_cols=131  Identities=27%  Similarity=0.353  Sum_probs=80.0

Q ss_pred             EEEcCCCCccCcccccccceeEEEecccccccCCCCCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCccC
Q 038398          477 LVHAGLGLTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKL  556 (720)
Q Consensus       477 ~~~~~~~~~~~~~~~~~~~l~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~l  556 (720)
                      +...+.....+|.+..+++|++|++++|.+..+|..  .++|++|++++|.++.++ . +.++++|++|++++|.+. .+
T Consensus       136 L~L~~n~l~~lp~~~~l~~L~~L~l~~N~l~~lp~~--~~~L~~L~L~~n~l~~l~-~-~~~l~~L~~L~l~~N~l~-~l  210 (454)
T 1jl5_A          136 LGVSNNQLEKLPELQNSSFLKIIDVDNNSLKKLPDL--PPSLEFIAAGNNQLEELP-E-LQNLPFLTAIYADNNSLK-KL  210 (454)
T ss_dssp             EECCSSCCSSCCCCTTCTTCCEEECCSSCCSCCCCC--CTTCCEEECCSSCCSSCC-C-CTTCTTCCEEECCSSCCS-SC
T ss_pred             EECcCCCCCCCcccCCCCCCCEEECCCCcCcccCCC--cccccEEECcCCcCCcCc-c-ccCCCCCCEEECCCCcCC-cC
Confidence            333344444555677777777777777777766543  247777777777776665 2 677777777777777443 34


Q ss_pred             CccccCCCCCCEEeccCCCCcccchhhhcCCCCCEEeccCCcCCCCCchhhhhccccCceeeccc
Q 038398          557 PSGISTLVSLEHLDLSSTAITHLPIELQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFD  621 (720)
Q Consensus       557 p~~i~~l~~L~~L~L~~~~i~~lp~~i~~l~~L~~L~l~~~~~l~~lp~~~~~~l~~L~~L~~~~  621 (720)
                      |...   .+|++|++++|.++.+|. ++.+++|++|++++ +.+..+|.    .+++|+.|++.+
T Consensus       211 ~~~~---~~L~~L~l~~n~l~~lp~-~~~l~~L~~L~l~~-N~l~~l~~----~~~~L~~L~l~~  266 (454)
T 1jl5_A          211 PDLP---LSLESIVAGNNILEELPE-LQNLPFLTTIYADN-NLLKTLPD----LPPSLEALNVRD  266 (454)
T ss_dssp             CCCC---TTCCEEECCSSCCSSCCC-CTTCTTCCEEECCS-SCCSSCCS----CCTTCCEEECCS
T ss_pred             CCCc---CcccEEECcCCcCCcccc-cCCCCCCCEEECCC-CcCCcccc----cccccCEEECCC
Confidence            4322   466677777776666663 66677777777766 34455553    224455554443

>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=99.38  E-value=1.8e-12  Score=147.74  Aligned_cols=126  Identities=19%  Similarity=0.298  Sum_probs=71.1

Q ss_pred             ccccccceeEEEecccccccCCC--CCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCccCCccccCCCCC
Q 038398          489 EIQNWRNVRRMSLMKNKIENLSE--TPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVSL  566 (720)
Q Consensus       489 ~~~~~~~l~~L~l~~~~~~~~~~--~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L  566 (720)
                      .+..+++|++|++++|.+..++.  +.++++|++|++++|.++.+++..|.++++|++|+|++|++.+..|..|+++++|
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            35556666666666666655543  3556666666666666666665556666666666666664443333446666666


Q ss_pred             CEEeccCCCCcc--cchhhhcCCCCCEEeccCCcCCCCCchhhhhccccCc
Q 038398          567 EHLDLSSTAITH--LPIELQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQ  615 (720)
Q Consensus       567 ~~L~L~~~~i~~--lp~~i~~l~~L~~L~l~~~~~l~~lp~~~~~~l~~L~  615 (720)
                      ++|++++|.++.  +|..++.+++|++|++++ +.+..++...+..+.+++
T Consensus       151 ~~L~Ls~N~l~~~~~~~~~~~l~~L~~L~L~~-N~l~~~~~~~l~~L~~l~  200 (635)
T 4g8a_A          151 KELNVAHNLIQSFKLPEYFSNLTNLEHLDLSS-NKIQSIYCTDLRVLHQMP  200 (635)
T ss_dssp             CEEECCSSCCCCCCCCGGGGGCTTCCEEECCS-SCCCEECGGGGHHHHTCT
T ss_pred             CeeccccCccccCCCchhhccchhhhhhcccC-ccccccccccccchhhhh
Confidence            666666666553  345556666666666665 344444433344444433

>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=99.37  E-value=2.4e-12  Score=139.55  Aligned_cols=94  Identities=30%  Similarity=0.445  Sum_probs=40.9

Q ss_pred             cceeEEEecccccccCCCCCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCccCCccccCCCCCCEEeccC
Q 038398          494 RNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSS  573 (720)
Q Consensus       494 ~~l~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~  573 (720)
                      ++++.|++++|.+..++...  ++|++|++++|.++.++ . |.++++|++|++++|.+. .+|..+   .+|++|++++
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-LQNSSFLKIIDVDNNSLK-KLPDLP---PSLEFIAAGN  182 (454)
T ss_dssp             TTCCEEECCSSCCSCCCSCC--TTCCEEECCSSCCSSCC-C-CTTCTTCCEEECCSSCCS-CCCCCC---TTCCEEECCS
T ss_pred             CCCcEEECCCCccCcccCCC--CCCCEEECcCCCCCCCc-c-cCCCCCCCEEECCCCcCc-ccCCCc---ccccEEECcC
Confidence            34444444444444333221  34445555554444443 1 444455555555544322 233222   2444444444


Q ss_pred             CCCcccchhhhcCCCCCEEeccC
Q 038398          574 TAITHLPIELQKLVNLKCLNLEY  596 (720)
Q Consensus       574 ~~i~~lp~~i~~l~~L~~L~l~~  596 (720)
                      |.++.+| .++++++|++|++++
T Consensus       183 n~l~~l~-~~~~l~~L~~L~l~~  204 (454)
T 1jl5_A          183 NQLEELP-ELQNLPFLTAIYADN  204 (454)
T ss_dssp             SCCSSCC-CCTTCTTCCEEECCS
T ss_pred             CcCCcCc-cccCCCCCCEEECCC
Confidence            4444444 344444444444444

>4glp_A Monocyte differentiation antigen CD14; alpha beta BENT solenoid, LRR, lipopolysaccharide, serum, CD leucine-rich repeat, pattern recognition; 4.00A {Homo sapiens}

Probab=99.36  E-value=4.3e-13  Score=138.19  Aligned_cols=173  Identities=16%  Similarity=0.098  Sum_probs=132.6

Q ss_pred             ccccceeEEEecccccccCCC------CCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCcc--C--Cccc
Q 038398          491 QNWRNVRRMSLMKNKIENLSE------TPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWK--L--PSGI  560 (720)
Q Consensus       491 ~~~~~l~~L~l~~~~~~~~~~------~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~--l--p~~i  560 (720)
                      ..+++|+.|++++|.+.....      ...+++|++|++++|.+..+++..|.++++|++|+|++|++.+.  +  +..+
T Consensus       114 ~~~~~L~~L~Ls~n~i~~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~~~  193 (310)
T 4glp_A          114 ATGLALSSLRLRNVSWATGRSWLAELQQWLKPGLKVLSIAQAHSPAFSCEQVRAFPALTSLDLSDNPGLGERGLMAALCP  193 (310)
T ss_dssp             CCCBCCSSCEEESCCCSSTTSSHHHHHTTBCSCCCEEEEECCSSCCCCTTSCCCCTTCCEEECCSCTTCHHHHHHTTSCT
T ss_pred             ccCCCCCEEEeecccccchhhhhHHHHhhhccCCCEEEeeCCCcchhhHHHhccCCCCCEEECCCCCCccchhhhHHHhh
Confidence            778999999999999875321      24689999999999999999988899999999999999976542  3  2334


Q ss_pred             cCCCCCCEEeccCCCCcccchh----hhcCCCCCEEeccCCcCCCCC-chhhhhcc---ccCceeeccccCCCcccchhc
Q 038398          561 STLVSLEHLDLSSTAITHLPIE----LQKLVNLKCLNLEYMNNLNQF-PRLVISAF---SKLQVLRMFDCGGSKIERLKI  632 (720)
Q Consensus       561 ~~l~~L~~L~L~~~~i~~lp~~----i~~l~~L~~L~l~~~~~l~~l-p~~~~~~l---~~L~~L~~~~~~~~~l~~l~~  632 (720)
                      +.+++|++|++++|.++.+|..    +.++++|++|++++| .+..+ |.. +..+   ++|++|++.   .|.+..++.
T Consensus       194 ~~l~~L~~L~Ls~N~l~~l~~~~~~l~~~l~~L~~L~Ls~N-~l~~~~p~~-~~~~~~~~~L~~L~Ls---~N~l~~lp~  268 (310)
T 4glp_A          194 HKFPAIQNLALRNTGMETPTGVCAALAAAGVQPHSLDLSHN-SLRATVNPS-APRCMWSSALNSLNLS---FAGLEQVPK  268 (310)
T ss_dssp             TSSCCCCSCBCCSSCCCCHHHHHHHHHHHTCCCSSEECTTS-CCCCCCCSC-CSSCCCCTTCCCEECC---SSCCCSCCS
T ss_pred             hcCCCCCEEECCCCCCCchHHHHHHHHhcCCCCCEEECCCC-CCCccchhh-HHhccCcCcCCEEECC---CCCCCchhh
Confidence            7899999999999999887663    578899999999995 55655 543 5565   466666665   466654432


Q ss_pred             ccccCCccccHHHhcCCCCCceeEEEecchhhHHHHhhhhhhhhhccccccccc
Q 038398          633 NVLFGGHQFLVEELMGMKHLMVLTITLKSWQALKELLISQELQRSTQSLFLRCF  686 (720)
Q Consensus       633 ~~~~~~~~~~~~~l~~l~~L~~L~~~~~~~~~l~~l~~~~~~~~~L~~L~l~~~  686 (720)
                      .            +  .++|+.|+++.|.+..++.    ...+++|+.|+++++
T Consensus       269 ~------------~--~~~L~~L~Ls~N~l~~~~~----~~~l~~L~~L~L~~N  304 (310)
T 4glp_A          269 G------------L--PAKLRVLDLSSNRLNRAPQ----PDELPEVDNLTLDGN  304 (310)
T ss_dssp             C------------C--CSCCSCEECCSCCCCSCCC----TTSCCCCSCEECSST
T ss_pred             h------------h--cCCCCEEECCCCcCCCCch----hhhCCCccEEECcCC
Confidence            1            1  2689999999998876532    234468999999874

>3goz_A Leucine-rich repeat-containing protein; LEGL7, NESG, LGR148, structural genomics, PSI-2, protein structure initiative; 2.10A {Legionella pneumophila subsp}

Probab=99.35  E-value=9.3e-13  Score=138.85  Aligned_cols=103  Identities=23%  Similarity=0.324  Sum_probs=53.9

Q ss_pred             ceeEEEecccccccCCC------CCCCC-cccEEEccCCCCcCcchHHhccC-----CcccEEEccCCCCCccCCcccc-
Q 038398          495 NVRRMSLMKNKIENLSE------TPTCP-HLLSLFLSDNSLKMSTDDFFQSM-----PSLRVFNMSNNHLLWKLPSGIS-  561 (720)
Q Consensus       495 ~l~~L~l~~~~~~~~~~------~~~~~-~L~~L~l~~~~~~~~~~~~~~~l-----~~L~~L~L~~~~~~~~lp~~i~-  561 (720)
                      ++++|++++|.+...+.      +..++ +|++|++++|.+....+..+..+     ++|++|+|++|.+....+..+. 
T Consensus        23 ~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~N~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~l~~  102 (362)
T 3goz_A           23 GVTSLDLSLNNLYSISTVELIQAFANTPASVTSLNLSGNSLGFKNSDELVQILAAIPANVTSLNLSGNFLSYKSSDELVK  102 (362)
T ss_dssp             TCCEEECTTSCGGGSCHHHHHHHHHTCCTTCCEEECCSSCGGGSCHHHHHHHHHTSCTTCCEEECCSSCGGGSCHHHHHH
T ss_pred             CceEEEccCCCCChHHHHHHHHHHHhCCCceeEEECcCCCCCHHHHHHHHHHHhccCCCccEEECcCCcCChHHHHHHHH
Confidence            36666666666654432      23444 56666666666555544444443     6666666666644433333222 


Q ss_pred             ---CC-CCCCEEeccCCCCcccchh-----hhc-CCCCCEEeccCC
Q 038398          562 ---TL-VSLEHLDLSSTAITHLPIE-----LQK-LVNLKCLNLEYM  597 (720)
Q Consensus       562 ---~l-~~L~~L~L~~~~i~~lp~~-----i~~-l~~L~~L~l~~~  597 (720)
                         .+ ++|++|++++|.++..+..     +.. .++|++|++++|
T Consensus       103 ~l~~~~~~L~~L~Ls~N~l~~~~~~~l~~~l~~~~~~L~~L~Ls~N  148 (362)
T 3goz_A          103 TLAAIPFTITVLDLGWNDFSSKSSSEFKQAFSNLPASITSLNLRGN  148 (362)
T ss_dssp             HHHTSCTTCCEEECCSSCGGGSCHHHHHHHHTTSCTTCCEEECTTS
T ss_pred             HHHhCCCCccEEECcCCcCCcHHHHHHHHHHHhCCCceeEEEccCC
Confidence               22 5666666666666544322     222 246666666653

>3goz_A Leucine-rich repeat-containing protein; LEGL7, NESG, LGR148, structural genomics, PSI-2, protein structure initiative; 2.10A {Legionella pneumophila subsp}

Probab=99.33  E-value=3.1e-13  Score=142.54  Aligned_cols=211  Identities=18%  Similarity=0.189  Sum_probs=125.8

Q ss_pred             ccccc-ceeEEEecccccccCCC--CCC-----CCcccEEEccCCCCcCcchHH----hccC-CcccEEEccCCCCCccC
Q 038398          490 IQNWR-NVRRMSLMKNKIENLSE--TPT-----CPHLLSLFLSDNSLKMSTDDF----FQSM-PSLRVFNMSNNHLLWKL  556 (720)
Q Consensus       490 ~~~~~-~l~~L~l~~~~~~~~~~--~~~-----~~~L~~L~l~~~~~~~~~~~~----~~~l-~~L~~L~L~~~~~~~~l  556 (720)
                      +..++ +|+.|++++|.+.....  +..     +++|++|++++|.++...+..    +..+ ++|++|+|++|.+....
T Consensus        46 l~~~~~~L~~L~Ls~N~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~N~l~~~~  125 (362)
T 3goz_A           46 FANTPASVTSLNLSGNSLGFKNSDELVQILAAIPANVTSLNLSGNFLSYKSSDELVKTLAAIPFTITVLDLGWNDFSSKS  125 (362)
T ss_dssp             HHTCCTTCCEEECCSSCGGGSCHHHHHHHHHTSCTTCCEEECCSSCGGGSCHHHHHHHHHTSCTTCCEEECCSSCGGGSC
T ss_pred             HHhCCCceeEEECcCCCCCHHHHHHHHHHHhccCCCccEEECcCCcCChHHHHHHHHHHHhCCCCccEEECcCCcCCcHH
Confidence            34455 78888888887765421  111     378888888888877666543    3334 78888888888655443


Q ss_pred             Cccc----cC-CCCCCEEeccCCCCc-----ccchhhhcCC-CCCEEeccCCcCCCCCchhhh----hcc-ccCceeecc
Q 038398          557 PSGI----ST-LVSLEHLDLSSTAIT-----HLPIELQKLV-NLKCLNLEYMNNLNQFPRLVI----SAF-SKLQVLRMF  620 (720)
Q Consensus       557 p~~i----~~-l~~L~~L~L~~~~i~-----~lp~~i~~l~-~L~~L~l~~~~~l~~lp~~~~----~~l-~~L~~L~~~  620 (720)
                      +..+    .. ..+|++|+|++|.++     .++..+..++ +|++|++++| .+...+...+    ..+ ++|++|++.
T Consensus       126 ~~~l~~~l~~~~~~L~~L~Ls~N~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n-~l~~~~~~~l~~~l~~~~~~L~~L~Ls  204 (362)
T 3goz_A          126 SSEFKQAFSNLPASITSLNLRGNDLGIKSSDELIQILAAIPANVNSLNLRGN-NLASKNCAELAKFLASIPASVTSLDLS  204 (362)
T ss_dssp             HHHHHHHHTTSCTTCCEEECTTSCGGGSCHHHHHHHHHTSCTTCCEEECTTS-CGGGSCHHHHHHHHHTSCTTCCEEECT
T ss_pred             HHHHHHHHHhCCCceeEEEccCCcCCHHHHHHHHHHHhcCCccccEeeecCC-CCchhhHHHHHHHHHhCCCCCCEEECC
Confidence            3333    23 258888888888877     4555566665 8888888885 4444433222    233 467777666


Q ss_pred             ccCCCcccchhcccccCCccccHHHhcC-CCCCceeEEEecchhhH--HHHhhhhhhhhhcccccccccc--CC-----C
Q 038398          621 DCGGSKIERLKINVLFGGHQFLVEELMG-MKHLMVLTITLKSWQAL--KELLISQELQRSTQSLFLRCFN--DS-----K  690 (720)
Q Consensus       621 ~~~~~~l~~l~~~~~~~~~~~~~~~l~~-l~~L~~L~~~~~~~~~l--~~l~~~~~~~~~L~~L~l~~~~--~l-----~  690 (720)
                      +   |.+....       .......+.. .++|+.|++++|.+...  ..+......+++|+.|++++|.  .+     .
T Consensus       205 ~---N~i~~~~-------~~~l~~~l~~~~~~L~~L~Ls~N~l~~~~~~~l~~~~~~l~~L~~L~L~~n~l~~i~~~~~~  274 (362)
T 3goz_A          205 A---NLLGLKS-------YAELAYIFSSIPNHVVSLNLCLNCLHGPSLENLKLLKDSLKHLQTVYLDYDIVKNMSKEQCK  274 (362)
T ss_dssp             T---SCGGGSC-------HHHHHHHHHHSCTTCCEEECCSSCCCCCCHHHHHHTTTTTTTCSEEEEEHHHHTTCCHHHHH
T ss_pred             C---CCCChhH-------HHHHHHHHhcCCCCceEEECcCCCCCcHHHHHHHHHHhcCCCccEEEeccCCccccCHHHHH
Confidence            4   3333211       1112333444 35788888887766443  3344444555678888887754  11     1


Q ss_pred             ccccccccccCCcceeeecCCC
Q 038398          691 SLDIFCLAGLRNLNKLYVAGCK  712 (720)
Q Consensus       691 ~l~~~~l~~l~~L~~L~l~~c~  712 (720)
                      .+. ..+.++++|+.|++++|+
T Consensus       275 ~l~-~~~~~l~~L~~LdL~~N~  295 (362)
T 3goz_A          275 ALG-AAFPNIQKIILVDKNGKE  295 (362)
T ss_dssp             HHH-TTSTTCCEEEEECTTSCB
T ss_pred             HHH-HHhccCCceEEEecCCCc
Confidence            111 245667778888888776

>2wfh_A SLIT homolog 2 protein C-product; developmental protein, neurogenesis, splicing, glycoprotein, leucine-rich repeat, disulfide bond, differentiation; 1.80A {Homo sapiens}

Probab=99.31  E-value=1.3e-11  Score=117.16  Aligned_cols=122  Identities=19%  Similarity=0.251  Sum_probs=101.1

Q ss_pred             eEEEecccccccCCCCCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCccCCccccCCCCCCEEeccCCCC
Q 038398          497 RRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSSTAI  576 (720)
Q Consensus       497 ~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~~~i  576 (720)
                      +.++++++.+..+|.. -.++|++|++++|.++.++. .|.++++|++|+|++|.+....|..|.++++|++|+|++|.+
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            4688888888888753 23689999999999988874 589999999999999977766667899999999999999999


Q ss_pred             cccch-hhhcCCCCCEEeccCCcCCCCCchhhhhccccCceeeccc
Q 038398          577 THLPI-ELQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFD  621 (720)
Q Consensus       577 ~~lp~-~i~~l~~L~~L~l~~~~~l~~lp~~~~~~l~~L~~L~~~~  621 (720)
                      +.+|. .|.++++|++|+|++ +.+..+|...+..+++|+.|++.+
T Consensus        91 ~~i~~~~f~~l~~L~~L~L~~-N~l~~~~~~~~~~l~~L~~L~L~~  135 (193)
T 2wfh_A           91 RCIPPRTFDGLKSLRLLSLHG-NDISVVPEGAFNDLSALSHLAIGA  135 (193)
T ss_dssp             CBCCTTTTTTCTTCCEEECCS-SCCCBCCTTTTTTCTTCCEEECCS
T ss_pred             CEeCHHHhCCCCCCCEEECCC-CCCCeeChhhhhcCccccEEEeCC
Confidence            98875 588999999999998 577888876677788888777654

>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=99.29  E-value=8.9e-12  Score=118.34  Aligned_cols=123  Identities=20%  Similarity=0.278  Sum_probs=97.4

Q ss_pred             eEEEecccccccCCCCCCCCcccEEEccCCCCcCcchH-HhccCCcccEEEccCCCCCccCCccccCCCCCCEEeccCCC
Q 038398          497 RRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDD-FFQSMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSSTA  575 (720)
Q Consensus       497 ~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~-~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~~~  575 (720)
                      +.++++++.+..+|... ..+|++|++++|.+..+++. .|..+++|++|+|++|.+.+..|..+.++++|++|+|++|.
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 TTVDCTGRGLKEIPRDI-PLHTTELLLNDNELGRISSDGLFGRLPHLVKLELKRNQLTGIEPNAFEGASHIQELQLGENK   89 (192)
T ss_dssp             TEEECTTSCCSSCCSCC-CTTCSEEECCSCCCCSBCCSCSGGGCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSCC
T ss_pred             CEEEcCCCCcCcCccCC-CCCCCEEECCCCcCCccCCccccccCCCCCEEECCCCCCCCcCHhHcCCcccCCEEECCCCc
Confidence            57888888888877632 24889999999988888764 47889999999999997777778889999999999999999


Q ss_pred             Ccccchh-hhcCCCCCEEeccCCcCCCCCchhhhhccccCceeeccc
Q 038398          576 ITHLPIE-LQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFD  621 (720)
Q Consensus       576 i~~lp~~-i~~l~~L~~L~l~~~~~l~~lp~~~~~~l~~L~~L~~~~  621 (720)
                      ++.+|.. +.++++|++|++++ +.+..++...+..+++|+.|++.+
T Consensus        90 l~~~~~~~~~~l~~L~~L~L~~-N~l~~~~~~~~~~l~~L~~L~L~~  135 (192)
T 1w8a_A           90 IKEISNKMFLGLHQLKTLNLYD-NQISCVMPGSFEHLNSLTSLNLAS  135 (192)
T ss_dssp             CCEECSSSSTTCTTCCEEECCS-SCCCEECTTSSTTCTTCCEEECTT
T ss_pred             CCccCHHHhcCCCCCCEEECCC-CcCCeeCHHHhhcCCCCCEEEeCC
Confidence            9887654 88899999999988 456656444467777777776654

>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=99.29  E-value=1.6e-11  Score=113.91  Aligned_cols=128  Identities=24%  Similarity=0.279  Sum_probs=106.3

Q ss_pred             EEEEcCCCCc--cCcc-cccccceeEEEecccccccCCCCCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCC
Q 038398          476 FLVHAGLGLT--EAPE-IQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHL  552 (720)
Q Consensus       476 ~~~~~~~~~~--~~~~-~~~~~~l~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~  552 (720)
                      .+...+....  .+|. +..+++|+.|++++|.+..++.+..+++|++|++++|.+....+..+.++++|++|+|++|.+
T Consensus        28 ~L~l~~n~l~~~~i~~~~~~l~~L~~L~l~~n~l~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls~N~l  107 (168)
T 2ell_A           28 ELVLDNCKSNDGKIEGLTAEFVNLEFLSLINVGLISVSNLPKLPKLKKLELSENRIFGGLDMLAEKLPNLTHLNLSGNKL  107 (168)
T ss_dssp             EEECCSCBCBTTBCSSCCGGGGGCCEEEEESSCCCCCSSCCCCSSCCEEEEESCCCCSCCCHHHHHCTTCCEEECBSSSC
T ss_pred             EEECCCCCCChhhHHHHHHhCCCCCEEeCcCCCCCChhhhccCCCCCEEECcCCcCchHHHHHHhhCCCCCEEeccCCcc
Confidence            3444444444  4443 478899999999999999887778999999999999999886666688899999999999955


Q ss_pred             CccCC--ccccCCCCCCEEeccCCCCcccch----hhhcCCCCCEEeccCCcCCCCCch
Q 038398          553 LWKLP--SGISTLVSLEHLDLSSTAITHLPI----ELQKLVNLKCLNLEYMNNLNQFPR  605 (720)
Q Consensus       553 ~~~lp--~~i~~l~~L~~L~L~~~~i~~lp~----~i~~l~~L~~L~l~~~~~l~~lp~  605 (720)
                      . .+|  ..+..+++|++|++++|.++.+|.    .+..+++|++|++++| .+..+|.
T Consensus       108 ~-~~~~~~~l~~l~~L~~L~l~~N~l~~~~~~~~~~~~~l~~L~~L~l~~n-~~~~~~~  164 (168)
T 2ell_A          108 K-DISTLEPLKKLECLKSLDLFNCEVTNLNDYRESVFKLLPQLTYLDGYDR-EDQEAPD  164 (168)
T ss_dssp             C-SSGGGGGGSSCSCCCEEECCSSGGGTSTTHHHHHHTTCSSCCEETTEET-TSCBCCS
T ss_pred             C-cchhHHHHhcCCCCCEEEeeCCcCcchHHHHHHHHHhCccCcEecCCCC-Chhhccc
Confidence            4 544  789999999999999999999987    7999999999999995 4566664

>2o6r_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 2.30A {Eptatretus burgeri}

Probab=99.29  E-value=1.8e-11  Score=114.67  Aligned_cols=124  Identities=20%  Similarity=0.263  Sum_probs=94.1

Q ss_pred             eeEEEecccccccCCCCCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCccCCccccCCCCCCEEeccCCC
Q 038398          496 VRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSSTA  575 (720)
Q Consensus       496 l~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~~~  575 (720)
                      .+.+++.++.+..+|. ...++|+.|++++|.++.+++..|.++++|++|+|++|.+....+..++.+++|++|++++|.
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            3467777787777764 234688888888888888887777888888888888886654444557888888888888888


Q ss_pred             Ccccchh-hhcCCCCCEEeccCCcCCCCCchhhhhccccCceeeccc
Q 038398          576 ITHLPIE-LQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFD  621 (720)
Q Consensus       576 i~~lp~~-i~~l~~L~~L~l~~~~~l~~lp~~~~~~l~~L~~L~~~~  621 (720)
                      ++.+|.. +.++++|++|++++ +.+..+|...+..+++|++|++.+
T Consensus        88 l~~~~~~~~~~l~~L~~L~l~~-N~l~~~~~~~~~~l~~L~~L~l~~  133 (177)
T 2o6r_A           88 LQSLPNGVFDKLTQLKELALDT-NQLKSVPDGIFDRLTSLQKIWLHT  133 (177)
T ss_dssp             CCCCCTTTTTTCTTCCEEECCS-SCCSCCCTTTTTTCTTCCEEECCS
T ss_pred             ccccCHHHhhCCcccCEEECcC-CcceEeCHHHhcCCcccCEEEecC
Confidence            8888765 67888888888888 467777776556777777776654

>3cvr_A Invasion plasmid antigen; leucine rich repeat and alpha fold, ligase; 2.80A {Shigella flexneri 2A}

Probab=99.29  E-value=7.7e-12  Score=138.28  Aligned_cols=190  Identities=19%  Similarity=0.178  Sum_probs=129.2

Q ss_pred             EEEEcCCCCccCcccccccceeEEEecccccccCCCCCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCcc
Q 038398          476 FLVHAGLGLTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWK  555 (720)
Q Consensus       476 ~~~~~~~~~~~~~~~~~~~~l~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~  555 (720)
                      .+...+.....+|... +++|+.|++++|.+..+|  ..+++|++|++++|.++.++.  +.+  +|++|+|++|.+. .
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--SLKHLDVDNNQLT-M  134 (571)
T ss_dssp             EEECCSSCCSCCCSCC-CTTCSEEECCSSCCSCCC--CCCTTCCEEECCSSCCSCCCC--CCT--TCCEEECCSSCCS-C
T ss_pred             EEEeCCCCCCccCHhH-cCCCCEEECcCCCCcccc--cccCCCCEEEccCCCCCCcch--hhc--CCCEEECCCCcCC-C
Confidence            4444454555555421 378999999999999888  567899999999999888776  444  8999999999655 4


Q ss_pred             CCccccCCCCCCEEeccCCCCcccchhhhcCCCCCEEeccCCcCCCCCchhhhhccccCceeeccccCCCcccchhcccc
Q 038398          556 LPSGISTLVSLEHLDLSSTAITHLPIELQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKINVL  635 (720)
Q Consensus       556 lp~~i~~l~~L~~L~L~~~~i~~lp~~i~~l~~L~~L~l~~~~~l~~lp~~~~~~l~~L~~L~~~~~~~~~l~~l~~~~~  635 (720)
                      +|.   .+++|++|++++|.++.+|.   .+++|++|++++ |.+..+|.  +.  ++|+.|++.+   |.+..++.  +
T Consensus       135 lp~---~l~~L~~L~Ls~N~l~~lp~---~l~~L~~L~Ls~-N~L~~lp~--l~--~~L~~L~Ls~---N~L~~lp~--~  198 (571)
T 3cvr_A          135 LPE---LPALLEYINADNNQLTMLPE---LPTSLEVLSVRN-NQLTFLPE--LP--ESLEALDVST---NLLESLPA--V  198 (571)
T ss_dssp             CCC---CCTTCCEEECCSSCCSCCCC---CCTTCCEEECCS-SCCSCCCC--CC--TTCCEEECCS---SCCSSCCC--C
T ss_pred             CCC---cCccccEEeCCCCccCcCCC---cCCCcCEEECCC-CCCCCcch--hh--CCCCEEECcC---CCCCchhh--H
Confidence            776   68899999999999999986   678999999998 46777887  44  6777777665   55554443  1


Q ss_pred             cCCccccHHHhcCCCCCceeEEEecchhhHHHHhhhhhhhhhccccccccccCCCccccccccc
Q 038398          636 FGGHQFLVEELMGMKHLMVLTITLKSWQALKELLISQELQRSTQSLFLRCFNDSKSLDIFCLAG  699 (720)
Q Consensus       636 ~~~~~~~~~~l~~l~~L~~L~~~~~~~~~l~~l~~~~~~~~~L~~L~l~~~~~l~~l~~~~l~~  699 (720)
                      ..      .-....+.|+.|++++|.+..++   .....+++|+.|+|++++ +.......+..
T Consensus       199 ~~------~L~~~~~~L~~L~Ls~N~l~~lp---~~l~~l~~L~~L~L~~N~-l~~~~p~~l~~  252 (571)
T 3cvr_A          199 PV------RNHHSEETEIFFRCRENRITHIP---ENILSLDPTCTIILEDNP-LSSRIRESLSQ  252 (571)
T ss_dssp             C--------------CCEEEECCSSCCCCCC---GGGGGSCTTEEEECCSSS-CCHHHHHHHHH
T ss_pred             HH------hhhcccccceEEecCCCcceecC---HHHhcCCCCCEEEeeCCc-CCCcCHHHHHH
Confidence            10      00122344588888888776543   333336688888888744 43333244433

>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=99.28  E-value=3.6e-11  Score=118.92  Aligned_cols=197  Identities=14%  Similarity=0.104  Sum_probs=115.1

Q ss_pred             CCCcCchHHHHHHHHHhcCCC-ceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHHHHHhC
Q 038398          126 EPTVGLESTFDKVWRCLGEEQ-VGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKIGRRIG  204 (720)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~-~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i~~~l~  204 (720)
                      ..++||+..++.+..++.... .+.+.|+|++|+||||+|+.+++.... ...+..   ..+   ..... ...+.....
T Consensus        23 ~~~~g~~~~~~~l~~~l~~~~~~~~~ll~G~~G~GKT~l~~~~~~~~~~-~~~~~~---~~~---~~~~~-~~~~~~~~~   94 (250)
T 1njg_A           23 ADVVGQEHVLTALANGLSLGRIHHAYLFSGTRGVGKTSIARLLAKGLNC-ETGITA---TPC---GVCDN-CREIEQGRF   94 (250)
T ss_dssp             GGCCSCHHHHHHHHHHHHHTCCCSEEEEECSTTSCHHHHHHHHHHHHHC-TTCSCS---SCC---SCSHH-HHHHHTTCC
T ss_pred             HHHhCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcC-CCCCCC---CCC---cccHH-HHHHhccCC
Confidence            568999999999999986543 458899999999999999999987621 111100   000   00000 001110000


Q ss_pred             CCCCcc--CCCChhHHHHHHHHHh-----ccCcEEEEEeccccc--cccccccccCCCCCCCcEEEEEcCChhHh-h-hh
Q 038398          205 FFDESW--KNGSLEDKTSDILRIL-----GKKKFLLLLDDIWER--VDLTKVGIPFPDPENKSKIVFTTHFLEIC-G-AL  273 (720)
Q Consensus       205 ~~~~~~--~~~~~~~~~~~l~~~l-----~~k~~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~iiiTtR~~~v~-~-~~  273 (720)
                      ...-..  ...........+.+.+     .+++.+||+||++..  ..+..+...+.....+..+|+||+..... . ..
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            000000  0000111112222221     346799999999753  33444433333334567888888764321 1 11


Q ss_pred             ccCceeeccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCcchHHHHHHHHH
Q 038398          274 KAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGLPLALITIGRAM  333 (720)
Q Consensus       274 ~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~GlPLai~~~~~~l  333 (720)
                      .....+++++++.++..+++...+.....   .--.+....|++.|+|.|..+..+...+
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            22357899999999999999988754321   1125668899999999999888776543

>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=99.27  E-value=1.8e-12  Score=141.52  Aligned_cols=210  Identities=19%  Similarity=0.140  Sum_probs=139.2

Q ss_pred             cccccceeEEEecccccccCCC--C-----CCCCcccEEEccCCCCcCcc----hHHhccCCcccEEEccCCCCCcc---
Q 038398          490 IQNWRNVRRMSLMKNKIENLSE--T-----PTCPHLLSLFLSDNSLKMST----DDFFQSMPSLRVFNMSNNHLLWK---  555 (720)
Q Consensus       490 ~~~~~~l~~L~l~~~~~~~~~~--~-----~~~~~L~~L~l~~~~~~~~~----~~~~~~l~~L~~L~L~~~~~~~~---  555 (720)
                      +..+++|++|++++|.+.....  +     ...++|++|++++|.++...    +..+..+++|++|++++|.+...   
T Consensus       166 l~~~~~L~~L~L~~n~i~~~~~~~l~~~l~~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~n~l~~~~~~  245 (461)
T 1z7x_W          166 LRAKPDFKELTVSNNDINEAGVRVLCQGLKDSPCQLEALKLESCGVTSDNCRDLCGIVASKASLRELALGSNKLGDVGMA  245 (461)
T ss_dssp             HHHCTTCCEEECCSSBCHHHHHHHHHHHHHHSCCCCCEEECTTSCCBTTHHHHHHHHHHHCTTCCEEECCSSBCHHHHHH
T ss_pred             HhhCCCCCEEECcCCCcchHHHHHHHHHHhcCCCCceEEEccCCCCcHHHHHHHHHHHHhCCCccEEeccCCcCChHHHH
Confidence            3445788899999888754211  1     13568999999999887642    44577889999999999854432   


Q ss_pred             -C-CccccCCCCCCEEeccCCCCcc-----cchhhhcCCCCCEEeccCCcCCCCCchhhhhc-----cccCceeeccccC
Q 038398          556 -L-PSGISTLVSLEHLDLSSTAITH-----LPIELQKLVNLKCLNLEYMNNLNQFPRLVISA-----FSKLQVLRMFDCG  623 (720)
Q Consensus       556 -l-p~~i~~l~~L~~L~L~~~~i~~-----lp~~i~~l~~L~~L~l~~~~~l~~lp~~~~~~-----l~~L~~L~~~~~~  623 (720)
                       + +..+..+++|++|++++|.++.     +|..+.++++|++|++++| .+...+...+..     .++|+.|++.+|.
T Consensus       246 ~l~~~~~~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~n-~i~~~~~~~l~~~l~~~~~~L~~L~L~~n~  324 (461)
T 1z7x_W          246 ELCPGLLHPSSRLRTLWIWECGITAKGCGDLCRVLRAKESLKELSLAGN-ELGDEGARLLCETLLEPGCQLESLWVKSCS  324 (461)
T ss_dssp             HHHHHHTSTTCCCCEEECTTSCCCHHHHHHHHHHHHHCTTCCEEECTTC-CCHHHHHHHHHHHHTSTTCCCCEEECTTSC
T ss_pred             HHHHHHhcCCCCceEEECcCCCCCHHHHHHHHHHHhhCCCcceEECCCC-CCchHHHHHHHHHhccCCccceeeEcCCCC
Confidence             1 2223468899999999998886     7778888999999999885 333211111222     2578888877654


Q ss_pred             CCcccchhcccccCCccccHHHhcCCCCCceeEEEecchhhHH--HHhhhhh-hhhhccccccccccCCC-----ccccc
Q 038398          624 GSKIERLKINVLFGGHQFLVEELMGMKHLMVLTITLKSWQALK--ELLISQE-LQRSTQSLFLRCFNDSK-----SLDIF  695 (720)
Q Consensus       624 ~~~l~~l~~~~~~~~~~~~~~~l~~l~~L~~L~~~~~~~~~l~--~l~~~~~-~~~~L~~L~l~~~~~l~-----~l~~~  695 (720)
                      ...   ..       .......+..+++|+.|++++|.+....  .+..... ..++|+.|++++|. ++     .++ .
T Consensus       325 l~~---~~-------~~~l~~~l~~~~~L~~L~Ls~n~i~~~~~~~l~~~l~~~~~~L~~L~L~~n~-i~~~~~~~l~-~  392 (461)
T 1z7x_W          325 FTA---AC-------CSHFSSVLAQNRFLLELQISNNRLEDAGVRELCQGLGQPGSVLRVLWLADCD-VSDSSCSSLA-A  392 (461)
T ss_dssp             CBG---GG-------HHHHHHHHHHCSSCCEEECCSSBCHHHHHHHHHHHHTSTTCCCCEEECTTSC-CCHHHHHHHH-H
T ss_pred             Cch---HH-------HHHHHHHHhhCCCccEEEccCCccccccHHHHHHHHcCCCCceEEEECCCCC-CChhhHHHHH-H
Confidence            221   11       1123456677889999999988775532  2222211 14589999999854 44     343 4


Q ss_pred             cccccCCcceeeecCCC
Q 038398          696 CLAGLRNLNKLYVAGCK  712 (720)
Q Consensus       696 ~l~~l~~L~~L~l~~c~  712 (720)
                      .+..+++|+.|++++|+
T Consensus       393 ~l~~~~~L~~L~l~~N~  409 (461)
T 1z7x_W          393 TLLANHSLRELDLSNNC  409 (461)
T ss_dssp             HHHHCCCCCEEECCSSS
T ss_pred             HHHhCCCccEEECCCCC
Confidence            56778999999999886

>4b8c_D Glucose-repressible alcohol dehydrogenase transcr effector; hydrolase-cell cycle complex; 3.41A {Saccharomyces cerevisiae S288C}

Probab=99.27  E-value=7.3e-12  Score=143.70  Aligned_cols=114  Identities=23%  Similarity=0.338  Sum_probs=62.9

Q ss_pred             chHHhccCCcccEEEccCCCCCccCCccccCCCCCCEEeccCCCCcccchhhhcCCCCCEEeccCCcCCCCCchhhhhcc
Q 038398          532 TDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSSTAITHLPIELQKLVNLKCLNLEYMNNLNQFPRLVISAF  611 (720)
Q Consensus       532 ~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~~~i~~lp~~i~~l~~L~~L~l~~~~~l~~lp~~~~~~l  611 (720)
                      ++..|..++.|++|+|++|.+ ..+|..+..+++|++|+|++|.|+.+|..|++|++|++|+|++ +.+..+|.. ++.|
T Consensus       216 ~~~~~~~l~~L~~L~Ls~n~l-~~l~~~~~~l~~L~~L~Ls~N~l~~lp~~~~~l~~L~~L~Ls~-N~l~~lp~~-~~~l  292 (727)
T 4b8c_D          216 PKDSKYDDQLWHALDLSNLQI-FNISANIFKYDFLTRLYLNGNSLTELPAEIKNLSNLRVLDLSH-NRLTSLPAE-LGSC  292 (727)
T ss_dssp             ------CCCCCCEEECTTSCC-SCCCGGGGGCCSCSCCBCTTSCCSCCCGGGGGGTTCCEEECTT-SCCSSCCSS-GGGG
T ss_pred             ChhhhccCCCCcEEECCCCCC-CCCChhhcCCCCCCEEEeeCCcCcccChhhhCCCCCCEEeCcC-CcCCccChh-hcCC
Confidence            344456666666666666643 3566666666666666666666666666666666666666666 345566554 5566


Q ss_pred             ccCceeeccccCCCcccchhcccccCCccccHHHhcCCCCCceeEEEecchh
Q 038398          612 SKLQVLRMFDCGGSKIERLKINVLFGGHQFLVEELMGMKHLMVLTITLKSWQ  663 (720)
Q Consensus       612 ~~L~~L~~~~~~~~~l~~l~~~~~~~~~~~~~~~l~~l~~L~~L~~~~~~~~  663 (720)
                      ++|+.|++.++   .+..++            ..++.+++|+.|++++|.+.
T Consensus       293 ~~L~~L~L~~N---~l~~lp------------~~~~~l~~L~~L~L~~N~l~  329 (727)
T 4b8c_D          293 FQLKYFYFFDN---MVTTLP------------WEFGNLCNLQFLGVEGNPLE  329 (727)
T ss_dssp             TTCSEEECCSS---CCCCCC------------SSTTSCTTCCCEECTTSCCC
T ss_pred             CCCCEEECCCC---CCCccC------------hhhhcCCCccEEeCCCCccC
Confidence            66666655542   322221            12455666666666666554

>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=1e-11  Score=116.17  Aligned_cols=121  Identities=19%  Similarity=0.259  Sum_probs=105.1

Q ss_pred             EEEEcCCCCccCccccccc-ceeEEEecccccccCCCCCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCc
Q 038398          476 FLVHAGLGLTEAPEIQNWR-NVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLW  554 (720)
Q Consensus       476 ~~~~~~~~~~~~~~~~~~~-~l~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~  554 (720)
                      .+...+.....++.+..+. +|+.|++++|.+..++.+..+++|++|++++|.++.+++..|..+++|++|+|++|.+ +
T Consensus        23 ~L~l~~n~l~~i~~~~~~~~~L~~L~Ls~N~l~~~~~l~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~N~i-~  101 (176)
T 1a9n_A           23 ELDLRGYKIPVIENLGATLDQFDAIDFSDNEIRKLDGFPLLRRLKTLLVNNNRICRIGEGLDQALPDLTELILTNNSL-V  101 (176)
T ss_dssp             EEECTTSCCCSCCCGGGGTTCCSEEECCSSCCCEECCCCCCSSCCEEECCSSCCCEECSCHHHHCTTCCEEECCSCCC-C
T ss_pred             EEEeeCCCCchhHHhhhcCCCCCEEECCCCCCCcccccccCCCCCEEECCCCcccccCcchhhcCCCCCEEECCCCcC-C
Confidence            3444555555666666666 9999999999999888889999999999999999999888789999999999999955 6


Q ss_pred             cCCc--cccCCCCCCEEeccCCCCcccchh----hhcCCCCCEEeccCC
Q 038398          555 KLPS--GISTLVSLEHLDLSSTAITHLPIE----LQKLVNLKCLNLEYM  597 (720)
Q Consensus       555 ~lp~--~i~~l~~L~~L~L~~~~i~~lp~~----i~~l~~L~~L~l~~~  597 (720)
                      .+|.  .++.+++|++|++++|.++.+|..    +..+++|+.|++++|
T Consensus       102 ~~~~~~~l~~l~~L~~L~l~~N~i~~~~~~~~~~~~~l~~L~~Ld~~~n  150 (176)
T 1a9n_A          102 ELGDLDPLASLKSLTYLCILRNPVTNKKHYRLYVIYKVPQVRVLDFQKV  150 (176)
T ss_dssp             CGGGGGGGGGCTTCCEEECCSSGGGGSTTHHHHHHHHCTTCSEETTEEC
T ss_pred             cchhhHhhhcCCCCCEEEecCCCCCCcHhHHHHHHHHCCccceeCCCcC
Confidence            7776  889999999999999999999885    999999999999985

>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=99.25  E-value=5e-11  Score=116.12  Aligned_cols=183  Identities=11%  Similarity=0.092  Sum_probs=115.0

Q ss_pred             CCCcCchHHHHHHHHHhcCCCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcC-EEEEEEecCcCCHHHHHHHHHHHhC
Q 038398          126 EPTVGLESTFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFD-VVIWVVVSKDLQLEKIQEKIGRRIG  204 (720)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~-~~~wv~v~~~~~~~~~~~~i~~~l~  204 (720)
                      ..++|++..++.+.+++.....+.+.|+|++|+|||++|+.+++...  ...+. ..+.+..+...+...+...+.....
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            56899999999999999776555699999999999999999988751  11121 2344444433333333222222111


Q ss_pred             CCCCccCCCChhHHHHHHHHHhccCcEEEEEeccccc--cccccccccCCCCCCCcEEEEEcCChhHh-h-hhccCceee
Q 038398          205 FFDESWKNGSLEDKTSDILRILGKKKFLLLLDDIWER--VDLTKVGIPFPDPENKSKIVFTTHFLEIC-G-ALKAHEFLK  280 (720)
Q Consensus       205 ~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~iiiTtR~~~v~-~-~~~~~~~~~  280 (720)
                      ...                 .-.+++.+||+||++..  .....+...+.....+.++|+||+..... . .......+.
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                 01257889999999763  22233322222234567888888765321 1 112234789


Q ss_pred             ccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCcchHHHHHH
Q 038398          281 VECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGLPLALITIG  330 (720)
Q Consensus       281 l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~GlPLai~~~~  330 (720)
                      +.+++.++..+++...+......   --.+....+++.++|.|..+..+.
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            99999999999999887532211   124667889999999998654443

>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=99.24  E-value=3.3e-12  Score=139.51  Aligned_cols=132  Identities=20%  Similarity=0.251  Sum_probs=71.9

Q ss_pred             cccccceeEEEecccccccCC-----C--CCCCCcccEEEccCCCCcCcc----hHHhccCCcccEEEccCCCCCccCCc
Q 038398          490 IQNWRNVRRMSLMKNKIENLS-----E--TPTCPHLLSLFLSDNSLKMST----DDFFQSMPSLRVFNMSNNHLLWKLPS  558 (720)
Q Consensus       490 ~~~~~~l~~L~l~~~~~~~~~-----~--~~~~~~L~~L~l~~~~~~~~~----~~~~~~l~~L~~L~L~~~~~~~~lp~  558 (720)
                      +..+++|++|++++|.+....     .  ....++|++|++++|.++...    +..+..+++|++|++++|.+....+.
T Consensus       109 l~~~~~L~~L~Ls~n~i~~~~~~~l~~~l~~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~L~~n~i~~~~~~  188 (461)
T 1z7x_W          109 LRTLPTLQELHLSDNLLGDAGLQLLCEGLLDPQCRLEKLQLEYCSLSAASCEPLASVLRAKPDFKELTVSNNDINEAGVR  188 (461)
T ss_dssp             TTSCTTCCEEECCSSBCHHHHHHHHHHHHTSTTCCCCEEECTTSCCBGGGHHHHHHHHHHCTTCCEEECCSSBCHHHHHH
T ss_pred             HccCCceeEEECCCCcCchHHHHHHHHHHhcCCCcceEEECCCCCCCHHHHHHHHHHHhhCCCCCEEECcCCCcchHHHH
Confidence            445567777777777654210     0  122456777777777665533    33355667777777777754333222


Q ss_pred             ccc-----CCCCCCEEeccCCCCcc-----cchhhhcCCCCCEEeccCCcCCCCC-----chhhhhccccCceeecccc
Q 038398          559 GIS-----TLVSLEHLDLSSTAITH-----LPIELQKLVNLKCLNLEYMNNLNQF-----PRLVISAFSKLQVLRMFDC  622 (720)
Q Consensus       559 ~i~-----~l~~L~~L~L~~~~i~~-----lp~~i~~l~~L~~L~l~~~~~l~~l-----p~~~~~~l~~L~~L~~~~~  622 (720)
                      .+.     .+++|++|++++|.++.     +|..+..+++|++|++++| .+...     +......+++|++|++.+|
T Consensus       189 ~l~~~l~~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~n-~l~~~~~~~l~~~~~~~~~~L~~L~L~~n  266 (461)
T 1z7x_W          189 VLCQGLKDSPCQLEALKLESCGVTSDNCRDLCGIVASKASLRELALGSN-KLGDVGMAELCPGLLHPSSRLRTLWIWEC  266 (461)
T ss_dssp             HHHHHHHHSCCCCCEEECTTSCCBTTHHHHHHHHHHHCTTCCEEECCSS-BCHHHHHHHHHHHHTSTTCCCCEEECTTS
T ss_pred             HHHHHHhcCCCCceEEEccCCCCcHHHHHHHHHHHHhCCCccEEeccCC-cCChHHHHHHHHHHhcCCCCceEEECcCC
Confidence            222     24567777777776664     4555666677777777664 22221     1111223556666666554

>2je0_A Acidic leucine-rich nuclear phosphoprotein 32 FAM member A; nuclear protein; 2.40A {Homo sapiens} PDB: 2je1_A

Probab=99.23  E-value=3.4e-11  Score=109.21  Aligned_cols=121  Identities=21%  Similarity=0.205  Sum_probs=100.3

Q ss_pred             EEEEcCCCCc--cCc-ccccccceeEEEecccccccCCCCCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCC
Q 038398          476 FLVHAGLGLT--EAP-EIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHL  552 (720)
Q Consensus       476 ~~~~~~~~~~--~~~-~~~~~~~l~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~  552 (720)
                      .+...+....  .++ .+..+++++.|++++|.+..++.+..+++|++|++++|.+....+..+.++++|++|++++|.+
T Consensus        21 ~L~l~~n~l~~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~l~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~ls~N~i  100 (149)
T 2je0_A           21 ELVLDNSRSNEGKLEGLTDEFEELEFLSTINVGLTSIANLPKLNKLKKLELSDNRVSGGLEVLAEKCPNLTHLNLSGNKI  100 (149)
T ss_dssp             EEECTTCBCBTTBCCSCCTTCTTCCEEECTTSCCCCCTTCCCCTTCCEEECCSSCCCSCTHHHHHHCTTCCEEECTTSCC
T ss_pred             EEEccCCcCChhHHHHHHhhcCCCcEEECcCCCCCCchhhhcCCCCCEEECCCCcccchHHHHhhhCCCCCEEECCCCcC
Confidence            3444444443  333 4578899999999999999887778999999999999999886666688899999999999965


Q ss_pred             Ccc-CCccccCCCCCCEEeccCCCCcccch----hhhcCCCCCEEeccC
Q 038398          553 LWK-LPSGISTLVSLEHLDLSSTAITHLPI----ELQKLVNLKCLNLEY  596 (720)
Q Consensus       553 ~~~-lp~~i~~l~~L~~L~L~~~~i~~lp~----~i~~l~~L~~L~l~~  596 (720)
                      .+. .|..++.+++|++|++++|.++.+|.    .+..+++|++|++++
T Consensus       101 ~~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~~~~l~~L~~L~l~d  149 (149)
T 2je0_A          101 KDLSTIEPLKKLENLKSLDLFNCEVTNLNDYRENVFKLLPQLTYLDGYD  149 (149)
T ss_dssp             CSHHHHGGGGGCTTCCEEECTTCGGGGSTTHHHHHHHHCTTCCEETTBC
T ss_pred             CChHHHHHHhhCCCCCEEeCcCCcccchHHHHHHHHHHCCCcccccCCC
Confidence            542 34789999999999999999998886    689999999999863

>2wfh_A SLIT homolog 2 protein C-product; developmental protein, neurogenesis, splicing, glycoprotein, leucine-rich repeat, disulfide bond, differentiation; 1.80A {Homo sapiens}

Probab=99.23  E-value=4.4e-11  Score=113.49  Aligned_cols=121  Identities=24%  Similarity=0.270  Sum_probs=103.5

Q ss_pred             EEEEcCCCCccCcccccccceeEEEecccccccCCC-CCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCc
Q 038398          476 FLVHAGLGLTEAPEIQNWRNVRRMSLMKNKIENLSE-TPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLW  554 (720)
Q Consensus       476 ~~~~~~~~~~~~~~~~~~~~l~~L~l~~~~~~~~~~-~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~  554 (720)
                      .+...+.....+|.. -.++++.|++++|.+..+|. +..+++|+.|++++|.++.+++..|.++++|++|+|++|.+..
T Consensus        14 ~l~~~~~~l~~ip~~-~~~~l~~L~L~~n~i~~ip~~~~~l~~L~~L~Ls~N~i~~i~~~~f~~l~~L~~L~Ls~N~l~~   92 (193)
T 2wfh_A           14 VVRCSNKGLKVLPKG-IPRDVTELYLDGNQFTLVPKELSNYKHLTLIDLSNNRISTLSNQSFSNMTQLLTLILSYNRLRC   92 (193)
T ss_dssp             EEECTTSCCSSCCSC-CCTTCCEEECCSSCCCSCCGGGGGCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCB
T ss_pred             EEEcCCCCCCcCCCC-CCCCCCEEECCCCcCchhHHHhhcccCCCEEECCCCcCCEeCHhHccCCCCCCEEECCCCccCE
Confidence            344555555666542 24689999999999988863 4788999999999999999998889999999999999998776


Q ss_pred             cCCccccCCCCCCEEeccCCCCcccchh-hhcCCCCCEEeccCC
Q 038398          555 KLPSGISTLVSLEHLDLSSTAITHLPIE-LQKLVNLKCLNLEYM  597 (720)
Q Consensus       555 ~lp~~i~~l~~L~~L~L~~~~i~~lp~~-i~~l~~L~~L~l~~~  597 (720)
                      ..|..|..+++|++|+|++|.++.+|.. +..+++|++|++++|
T Consensus        93 i~~~~f~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~N  136 (193)
T 2wfh_A           93 IPPRTFDGLKSLRLLSLHGNDISVVPEGAFNDLSALSHLAIGAN  136 (193)
T ss_dssp             CCTTTTTTCTTCCEEECCSSCCCBCCTTTTTTCTTCCEEECCSS
T ss_pred             eCHHHhCCCCCCCEEECCCCCCCeeChhhhhcCccccEEEeCCC
Confidence            6677899999999999999999999875 889999999999984

>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=99.22  E-value=3.7e-11  Score=114.02  Aligned_cols=121  Identities=23%  Similarity=0.269  Sum_probs=102.7

Q ss_pred             EEEEcCCCCccCcccccccceeEEEecccccccCCC---CCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCC
Q 038398          476 FLVHAGLGLTEAPEIQNWRNVRRMSLMKNKIENLSE---TPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHL  552 (720)
Q Consensus       476 ~~~~~~~~~~~~~~~~~~~~l~~L~l~~~~~~~~~~---~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~  552 (720)
                      .+...+.....+|.. -..+++.|++++|.+..++.   +..+++|++|++++|.++.+.+..|.++++|++|+|++|.+
T Consensus        12 ~l~~s~~~l~~ip~~-~~~~l~~L~l~~n~i~~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls~N~l   90 (192)
T 1w8a_A           12 TVDCTGRGLKEIPRD-IPLHTTELLLNDNELGRISSDGLFGRLPHLVKLELKRNQLTGIEPNAFEGASHIQELQLGENKI   90 (192)
T ss_dssp             EEECTTSCCSSCCSC-CCTTCSEEECCSCCCCSBCCSCSGGGCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSCCC
T ss_pred             EEEcCCCCcCcCccC-CCCCCCEEECCCCcCCccCCccccccCCCCCEEECCCCCCCCcCHhHcCCcccCCEEECCCCcC
Confidence            344455555566542 23489999999999988765   46899999999999999999888899999999999999988


Q ss_pred             CccCCccccCCCCCCEEeccCCCCccc-chhhhcCCCCCEEeccCC
Q 038398          553 LWKLPSGISTLVSLEHLDLSSTAITHL-PIELQKLVNLKCLNLEYM  597 (720)
Q Consensus       553 ~~~lp~~i~~l~~L~~L~L~~~~i~~l-p~~i~~l~~L~~L~l~~~  597 (720)
                      .+..|..+.++++|++|+|++|.++.+ |..+..+++|++|++++|
T Consensus        91 ~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~N  136 (192)
T 1w8a_A           91 KEISNKMFLGLHQLKTLNLYDNQISCVMPGSFEHLNSLTSLNLASN  136 (192)
T ss_dssp             CEECSSSSTTCTTCCEEECCSSCCCEECTTSSTTCTTCCEEECTTC
T ss_pred             CccCHHHhcCCCCCCEEECCCCcCCeeCHHHhhcCCCCCEEEeCCC
Confidence            777777899999999999999999976 667999999999999995

>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=99.22  E-value=2.9e-11  Score=134.35  Aligned_cols=120  Identities=22%  Similarity=0.247  Sum_probs=90.3

Q ss_pred             ceeEEEecccccccCCCCCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCccCCccccCCCCCCEEeccCC
Q 038398          495 NVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSST  574 (720)
Q Consensus       495 ~l~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~~  574 (720)
                      .++.|++++|.+..+|.+..+++|+.|++++|.++.+|.. |.++++|++|+|++|.+. .+| .++.+++|++|+|++|
T Consensus       442 ~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  518 (567)
T 1dce_A          442 DVRVLHLAHKDLTVLCHLEQLLLVTHLDLSHNRLRALPPA-LAALRCLEVLQASDNALE-NVD-GVANLPRLQELLLCNN  518 (567)
T ss_dssp             TCSEEECTTSCCSSCCCGGGGTTCCEEECCSSCCCCCCGG-GGGCTTCCEEECCSSCCC-CCG-GGTTCSSCCEEECCSS
T ss_pred             CceEEEecCCCCCCCcCccccccCcEeecCcccccccchh-hhcCCCCCEEECCCCCCC-CCc-ccCCCCCCcEEECCCC
Confidence            4778888888888887777788888888888888777654 788888888888888554 467 7888888888888888


Q ss_pred             CCccc--chhhhcCCCCCEEeccCCcCCCCCchh---hhhccccCceee
Q 038398          575 AITHL--PIELQKLVNLKCLNLEYMNNLNQFPRL---VISAFSKLQVLR  618 (720)
Q Consensus       575 ~i~~l--p~~i~~l~~L~~L~l~~~~~l~~lp~~---~~~~l~~L~~L~  618 (720)
                      .++.+  |..++.+++|+.|++++| .+..+|+.   .+..+++|+.|+
T Consensus       519 ~l~~~~~p~~l~~l~~L~~L~L~~N-~l~~~~~~~~~l~~~lp~L~~L~  566 (567)
T 1dce_A          519 RLQQSAAIQPLVSCPRLVLLNLQGN-SLCQEEGIQERLAEMLPSVSSIL  566 (567)
T ss_dssp             CCCSSSTTGGGGGCTTCCEEECTTS-GGGGSSSCTTHHHHHCTTCSEEE
T ss_pred             CCCCCCCcHHHhcCCCCCEEEecCC-cCCCCccHHHHHHHHCcccCccC
Confidence            88877  777888888888888874 45555532   234466666664

>2o6r_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 2.30A {Eptatretus burgeri}

Probab=99.19  E-value=1.2e-10  Score=109.07  Aligned_cols=120  Identities=23%  Similarity=0.308  Sum_probs=100.0

Q ss_pred             EEcCCCCccCcccccccceeEEEecccccccCCC--CCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCcc
Q 038398          478 VHAGLGLTEAPEIQNWRNVRRMSLMKNKIENLSE--TPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWK  555 (720)
Q Consensus       478 ~~~~~~~~~~~~~~~~~~l~~L~l~~~~~~~~~~--~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~  555 (720)
                      ...+.+...+|. ...++++.|++++|.+..++.  +..+++|++|++++|.++.+++..|.++++|++|+|++|.+.+.
T Consensus        13 ~~~~~~l~~~p~-~~~~~l~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~N~l~~~   91 (177)
T 2o6r_A           13 RCNSKGLTSVPT-GIPSSATRLELESNKLQSLPHGVFDKLTQLTKLSLSQNQIQSLPDGVFDKLTKLTILYLHENKLQSL   91 (177)
T ss_dssp             ECCSSCCSSCCT-TCCTTCSEEECCSSCCCCCCTTTTTTCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCC
T ss_pred             EecCCCCccCCC-CCCCCCcEEEeCCCcccEeCHHHhcCcccccEEECCCCcceEeChhHccCCCccCEEECCCCCcccc
Confidence            334444445542 334789999999999988765  47889999999999999999988889999999999999976655


Q ss_pred             CCccccCCCCCCEEeccCCCCcccchh-hhcCCCCCEEeccCCc
Q 038398          556 LPSGISTLVSLEHLDLSSTAITHLPIE-LQKLVNLKCLNLEYMN  598 (720)
Q Consensus       556 lp~~i~~l~~L~~L~L~~~~i~~lp~~-i~~l~~L~~L~l~~~~  598 (720)
                      .+..+..+++|++|++++|.++.+|.. +..+++|++|++++|.
T Consensus        92 ~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~l~~L~~L~l~~N~  135 (177)
T 2o6r_A           92 PNGVFDKLTQLKELALDTNQLKSVPDGIFDRLTSLQKIWLHTNP  135 (177)
T ss_dssp             CTTTTTTCTTCCEEECCSSCCSCCCTTTTTTCTTCCEEECCSSC
T ss_pred             CHHHhhCCcccCEEECcCCcceEeCHHHhcCCcccCEEEecCCC
Confidence            555678999999999999999999876 5789999999999953

>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=99.15  E-value=3.5e-11  Score=135.80  Aligned_cols=129  Identities=15%  Similarity=0.143  Sum_probs=74.8

Q ss_pred             cccceeEEEecccccccCCC------CCCCCcccEEEccCCCCcCcc----hHHhccCCcccEEEccCCCCCccCCcccc
Q 038398          492 NWRNVRRMSLMKNKIENLSE------TPTCPHLLSLFLSDNSLKMST----DDFFQSMPSLRVFNMSNNHLLWKLPSGIS  561 (720)
Q Consensus       492 ~~~~l~~L~l~~~~~~~~~~------~~~~~~L~~L~l~~~~~~~~~----~~~~~~l~~L~~L~L~~~~~~~~lp~~i~  561 (720)
                      .+++|++|++++|.+.+...      ...+++|++|++++|.+..+.    +..+.++++|++|++++|.. ..+|..+.
T Consensus       162 ~~~~L~~L~L~~~~~~~~~~~~l~~~~~~~~~L~~L~L~~n~~~~~~~~~l~~~~~~~~~L~~L~L~~~~~-~~l~~~~~  240 (592)
T 3ogk_B          162 HCRKIKTLLMEESSFSEKDGKWLHELAQHNTSLEVLNFYMTEFAKISPKDLETIARNCRSLVSVKVGDFEI-LELVGFFK  240 (592)
T ss_dssp             HCTTCSEEECTTCEEECCCSHHHHHHHHHCCCCCEEECTTCCCSSCCHHHHHHHHHHCTTCCEEECSSCBG-GGGHHHHH
T ss_pred             hCCCCCEEECccccccCcchhHHHHHHhcCCCccEEEeeccCCCccCHHHHHHHHhhCCCCcEEeccCccH-HHHHHHHh
Confidence            55677777777776543211      134677777777777665222    23355677777777777743 34666677


Q ss_pred             CCCCCCEEeccCCCC----cccchhhhcCCCCCEEeccCCcCCCCCchhhhhccccCceeeccccC
Q 038398          562 TLVSLEHLDLSSTAI----THLPIELQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFDCG  623 (720)
Q Consensus       562 ~l~~L~~L~L~~~~i----~~lp~~i~~l~~L~~L~l~~~~~l~~lp~~~~~~l~~L~~L~~~~~~  623 (720)
                      .+++|++|+++.+..    ...+..+..+++|+.|+++++ ....+|.. +..+++|++|++.+|.
T Consensus       241 ~~~~L~~L~l~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~-~~~~l~~~-~~~~~~L~~L~Ls~~~  304 (592)
T 3ogk_B          241 AAANLEEFCGGSLNEDIGMPEKYMNLVFPRKLCRLGLSYM-GPNEMPIL-FPFAAQIRKLDLLYAL  304 (592)
T ss_dssp             HCTTCCEEEECBCCCCTTCTTSSSCCCCCTTCCEEEETTC-CTTTGGGG-GGGGGGCCEEEETTCC
T ss_pred             hhhHHHhhcccccccccchHHHHHHhhccccccccCcccc-chhHHHHH-HhhcCCCcEEecCCCc
Confidence            777777777764311    122333455555666655552 23344442 5566677777766654

>2r9u_A Variable lymphocyte receptor; adaptive immunity, VLR, leucine-rich repeat, LRR, system; 2.10A {Petromyzon marinus}

Probab=99.15  E-value=1.8e-10  Score=107.15  Aligned_cols=107  Identities=17%  Similarity=0.222  Sum_probs=85.5

Q ss_pred             eEEEecccccccCCCCCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCccCCccccCCCCCCEEeccCCCC
Q 038398          497 RRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSSTAI  576 (720)
Q Consensus       497 ~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~~~i  576 (720)
                      +.+++++|.+..+|... .++|++|++++|.++.+++..|.++++|++|+|++|++.+..+..+..+++|++|+|++|.|
T Consensus        15 ~~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           15 TLVNCQNIRLASVPAGI-PTDKQRLWLNNNQITKLEPGVFDHLVNLQQLYFNSNKLTAIPTGVFDKLTQLTQLDLNDNHL   93 (174)
T ss_dssp             SEEECCSSCCSSCCSCC-CTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCC
T ss_pred             cEEEeCCCCCCccCCCc-CCCCcEEEeCCCCccccCHHHhcCCcCCCEEECCCCCCCccChhHhCCcchhhEEECCCCcc
Confidence            57888888888887632 37899999999999888887788999999999999965543344468899999999999999


Q ss_pred             cccchh-hhcCCCCCEEeccCCcCCCCCch
Q 038398          577 THLPIE-LQKLVNLKCLNLEYMNNLNQFPR  605 (720)
Q Consensus       577 ~~lp~~-i~~l~~L~~L~l~~~~~l~~lp~  605 (720)
                      +.+|.. +..+++|++|++++ |.+...+.
T Consensus        94 ~~l~~~~~~~l~~L~~L~L~~-N~~~c~~~  122 (174)
T 2r9u_A           94 KSIPRGAFDNLKSLTHIYLYN-NPWDCECR  122 (174)
T ss_dssp             CCCCTTTTTTCTTCSEEECCS-SCBCTTBG
T ss_pred             ceeCHHHhccccCCCEEEeCC-CCcccccc
Confidence            988876 88899999999988 44554443

>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=99.12  E-value=2.5e-10  Score=105.86  Aligned_cols=101  Identities=17%  Similarity=0.227  Sum_probs=83.1

Q ss_pred             eeEEEecccccccCCCCCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCccCCccccCCCCCCEEeccCCC
Q 038398          496 VRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSSTA  575 (720)
Q Consensus       496 l~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~~~  575 (720)
                      .+.+++++|.+..+|... .++|++|++++|.++.+++..|.++++|++|+|++|++.+..|..+..+++|++|+|++|.
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            457888888888877533 3788999999999988888778899999999999996664445557889999999999999


Q ss_pred             Ccccchh-hhcCCCCCEEeccCC
Q 038398          576 ITHLPIE-LQKLVNLKCLNLEYM  597 (720)
Q Consensus       576 i~~lp~~-i~~l~~L~~L~l~~~  597 (720)
                      |+.+|.. +.++++|++|++++|
T Consensus        90 l~~~~~~~~~~l~~L~~L~L~~N  112 (170)
T 3g39_A           90 LKSIPRGAFDNLKSLTHIWLLNN  112 (170)
T ss_dssp             CCCCCTTTTTTCTTCCEEECCSS
T ss_pred             cCEeCHHHhcCCCCCCEEEeCCC
Confidence            9988765 888999999999884

>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=99.11  E-value=3e-10  Score=117.53  Aligned_cols=186  Identities=16%  Similarity=0.165  Sum_probs=115.1

Q ss_pred             CCCcCchHHHHHHHHHhcCCCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCc-CEEEEEEecCcCCHHHHHHHHHHHhC
Q 038398          126 EPTVGLESTFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVF-DVVIWVVVSKDLQLEKIQEKIGRRIG  204 (720)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f-~~~~wv~v~~~~~~~~~~~~i~~~l~  204 (720)
                      +.++|++..++.+..++..+..+.+.|+|++|+||||+|+.+++...  ...+ ..+++++.+...+...+ +.++..+.
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            56899999999999999876655599999999999999999998751  1111 12344443332222222 11111111


Q ss_pred             CCCCccCCCChhHHHHHHHHHh-ccCcEEEEEeccccc--cccccccccCCCCCCCcEEEEEcCChhH-hhh-hccCcee
Q 038398          205 FFDESWKNGSLEDKTSDILRIL-GKKKFLLLLDDIWER--VDLTKVGIPFPDPENKSKIVFTTHFLEI-CGA-LKAHEFL  279 (720)
Q Consensus       205 ~~~~~~~~~~~~~~~~~l~~~l-~~k~~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~iiiTtR~~~v-~~~-~~~~~~~  279 (720)
                      ...                ..+ .+++.++|+||++..  .....+...+.....++.+|+||+...- ... ......+
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 346889999999763  2233333223233456788888765432 111 1223478


Q ss_pred             eccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCcch-HHHHHHHHH
Q 038398          280 KVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGLPL-ALITIGRAM  333 (720)
Q Consensus       280 ~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~GlPL-ai~~~~~~l  333 (720)
                      ++.+++.++..+++...+......   --.+....|++.++|.|. |+..+....
T Consensus       162 ~~~~~~~~~~~~~l~~~~~~~~~~---~~~~~~~~l~~~~~G~~r~a~~~l~~~~  213 (323)
T 1sxj_B          162 RYSKLSDEDVLKRLLQIIKLEDVK---YTNDGLEAIIFTAEGDMRQAINNLQSTV  213 (323)
T ss_dssp             ECCCCCHHHHHHHHHHHHHHHTCC---BCHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             eecCCCHHHHHHHHHHHHHHcCCC---CCHHHHHHHHHHcCCCHHHHHHHHHHHH
Confidence            999999999999999876532211   124667889999999995 555555443

>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=99.10  E-value=1.2e-10  Score=131.35  Aligned_cols=220  Identities=17%  Similarity=0.148  Sum_probs=133.3

Q ss_pred             ccccceeEEEecccccccCC-----C-CCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCC---ccCCcccc
Q 038398          491 QNWRNVRRMSLMKNKIENLS-----E-TPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLL---WKLPSGIS  561 (720)
Q Consensus       491 ~~~~~l~~L~l~~~~~~~~~-----~-~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~---~~lp~~i~  561 (720)
                      ..+++|+.|++++|.+..+.     . ...+++|++|++++|.+..++ ..+.++++|+.|+++++...   ...+..+.
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            45678999999999886332     1 246899999999999887766 45889999999999854322   23455667


Q ss_pred             CCCCCCEEeccCCCCcccchhhhcCCCCCEEeccCCcCCCCCc-hhhhhccccCceeeccccCC-----------Ccccc
Q 038398          562 TLVSLEHLDLSSTAITHLPIELQKLVNLKCLNLEYMNNLNQFP-RLVISAFSKLQVLRMFDCGG-----------SKIER  629 (720)
Q Consensus       562 ~l~~L~~L~L~~~~i~~lp~~i~~l~~L~~L~l~~~~~l~~lp-~~~~~~l~~L~~L~~~~~~~-----------~~l~~  629 (720)
                      .+++|+.|+++++....+|..+..+++|++|++++|. +.... ...+..+++|+.|.+.++-.           ..+..
T Consensus       268 ~~~~L~~L~l~~~~~~~l~~~~~~~~~L~~L~Ls~~~-l~~~~~~~~~~~~~~L~~L~L~~~~~~~~l~~~~~~~~~L~~  346 (592)
T 3ogk_B          268 FPRKLCRLGLSYMGPNEMPILFPFAAQIRKLDLLYAL-LETEDHCTLIQKCPNLEVLETRNVIGDRGLEVLAQYCKQLKR  346 (592)
T ss_dssp             CCTTCCEEEETTCCTTTGGGGGGGGGGCCEEEETTCC-CCHHHHHHHHTTCTTCCEEEEEGGGHHHHHHHHHHHCTTCCE
T ss_pred             ccccccccCccccchhHHHHHHhhcCCCcEEecCCCc-CCHHHHHHHHHhCcCCCEEeccCccCHHHHHHHHHhCCCCCE
Confidence            7778888888777666777777777888888887764 22111 11246677777776652110           01111


Q ss_pred             hhccc----------ccCCccc-cHHHhcCCCCCceeEEEecchhhHHHHhhhhhhhhhcccccccc---ccCCCccccc
Q 038398          630 LKINV----------LFGGHQF-LVEELMGMKHLMVLTITLKSWQALKELLISQELQRSTQSLFLRC---FNDSKSLDIF  695 (720)
Q Consensus       630 l~~~~----------~~~~~~~-~~~~l~~l~~L~~L~~~~~~~~~l~~l~~~~~~~~~L~~L~l~~---~~~l~~l~~~  695 (720)
                      +....          ....+.. .......+++|+.|.+..+.++.. .+......+++|+.|+++.   |+.++..|..
T Consensus       347 L~L~~g~~~~~~~~~~~~~~~~~~~~l~~~~~~L~~L~l~~~~l~~~-~~~~l~~~~~~L~~L~l~~~~~~n~l~~~p~~  425 (592)
T 3ogk_B          347 LRIERGADEQGMEDEEGLVSQRGLIALAQGCQELEYMAVYVSDITNE-SLESIGTYLKNLCDFRLVLLDREERITDLPLD  425 (592)
T ss_dssp             EEEECCCCSSTTSSTTCCCCHHHHHHHHHHCTTCSEEEEEESCCCHH-HHHHHHHHCCSCCEEEEEECSCCSCCSSCCCH
T ss_pred             EEeecCccccccccccCccCHHHHHHHHhhCccCeEEEeecCCccHH-HHHHHHhhCCCCcEEEEeecCCCccccCchHH
Confidence            11110          0111111 112234467777777766655432 1222223345788888863   4556554321


Q ss_pred             -----cccccCCcceeeecCCCC
Q 038398          696 -----CLAGLRNLNKLYVAGCKH  713 (720)
Q Consensus       696 -----~l~~l~~L~~L~l~~c~~  713 (720)
                           .+.++++|+.|+|+.|..
T Consensus       426 ~~~~~~~~~~~~L~~L~L~~~~~  448 (592)
T 3ogk_B          426 NGVRSLLIGCKKLRRFAFYLRQG  448 (592)
T ss_dssp             HHHHHHHHHCTTCCEEEEECCGG
T ss_pred             HHHHHHHHhCCCCCEEEEecCCC
Confidence                 255688888888877653

>4b8c_D Glucose-repressible alcohol dehydrogenase transcr effector; hydrolase-cell cycle complex; 3.41A {Saccharomyces cerevisiae S288C}

Probab=99.10  E-value=1.1e-10  Score=133.93  Aligned_cols=118  Identities=25%  Similarity=0.329  Sum_probs=88.9

Q ss_pred             ccccccceeEEEecccccccCCC-CCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCccCCccccCCCCCC
Q 038398          489 EIQNWRNVRRMSLMKNKIENLSE-TPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVSLE  567 (720)
Q Consensus       489 ~~~~~~~l~~L~l~~~~~~~~~~-~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~  567 (720)
                      .+..+.+|+.|+|++|.+..++. ...+++|++|+|++|.++.+|.. |.+|++|++|+|++|.+. .+|..|+.|++|+
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-IKNLSNLRVLDLSHNRLT-SLPAELGSCFQLK  296 (727)
T ss_dssp             ---CCCCCCEEECTTSCCSCCCGGGGGCCSCSCCBCTTSCCSCCCGG-GGGGTTCCEEECTTSCCS-SCCSSGGGGTTCS
T ss_pred             hhccCCCCcEEECCCCCCCCCChhhcCCCCCCEEEeeCCcCcccChh-hhCCCCCCEEeCcCCcCC-ccChhhcCCCCCC
Confidence            45667788888888888877654 35778888888888888877655 788888888888888554 7788888888888


Q ss_pred             EEeccCCCCcccchhhhcCCCCCEEeccCCcCCCCCchhhhh
Q 038398          568 HLDLSSTAITHLPIELQKLVNLKCLNLEYMNNLNQFPRLVIS  609 (720)
Q Consensus       568 ~L~L~~~~i~~lp~~i~~l~~L~~L~l~~~~~l~~lp~~~~~  609 (720)
                      +|+|++|.|+.+|..|++|++|++|+|++| .+...+...+.
T Consensus       297 ~L~L~~N~l~~lp~~~~~l~~L~~L~L~~N-~l~~~~p~~~~  337 (727)
T 4b8c_D          297 YFYFFDNMVTTLPWEFGNLCNLQFLGVEGN-PLEKQFLKILT  337 (727)
T ss_dssp             EEECCSSCCCCCCSSTTSCTTCCCEECTTS-CCCSHHHHHHH
T ss_pred             EEECCCCCCCccChhhhcCCCccEEeCCCC-ccCCCChHHHh
Confidence            888888888888888888888888888884 44544333333

>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=99.09  E-value=2.7e-10  Score=126.54  Aligned_cols=121  Identities=21%  Similarity=0.307  Sum_probs=97.1

Q ss_pred             eEEEecccccccCCCCCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCccCCccccCCCCCCEEeccCCCC
Q 038398          497 RRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSSTAI  576 (720)
Q Consensus       497 ~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~~~i  576 (720)
                      +.+.+.+|.+..++.    ..|+.|++++|.++.+|.  |.++++|++|+|++|.+. .+|..++++++|++|+|++|.+
T Consensus       426 ~~l~l~~n~i~~l~~----~~L~~L~Ls~n~l~~lp~--~~~l~~L~~L~Ls~N~l~-~lp~~~~~l~~L~~L~Ls~N~l  498 (567)
T 1dce_A          426 RSKFLLENSVLKMEY----ADVRVLHLAHKDLTVLCH--LEQLLLVTHLDLSHNRLR-ALPPALAALRCLEVLQASDNAL  498 (567)
T ss_dssp             HHHHHHHHHHHHHHH----TTCSEEECTTSCCSSCCC--GGGGTTCCEEECCSSCCC-CCCGGGGGCTTCCEEECCSSCC
T ss_pred             hhhhhhcccccccCc----cCceEEEecCCCCCCCcC--ccccccCcEeecCccccc-ccchhhhcCCCCCEEECCCCCC
Confidence            334444555554433    248999999999998875  899999999999999555 8999999999999999999999


Q ss_pred             cccchhhhcCCCCCEEeccCCcCCCCC--chhhhhccccCceeeccccCCCcccch
Q 038398          577 THLPIELQKLVNLKCLNLEYMNNLNQF--PRLVISAFSKLQVLRMFDCGGSKIERL  630 (720)
Q Consensus       577 ~~lp~~i~~l~~L~~L~l~~~~~l~~l--p~~~~~~l~~L~~L~~~~~~~~~l~~l  630 (720)
                      +.+| .++++++|+.|+|++ +.+..+  |. .++.+++|+.|++.+   |.+..+
T Consensus       499 ~~lp-~l~~l~~L~~L~Ls~-N~l~~~~~p~-~l~~l~~L~~L~L~~---N~l~~~  548 (567)
T 1dce_A          499 ENVD-GVANLPRLQELLLCN-NRLQQSAAIQ-PLVSCPRLVLLNLQG---NSLCQE  548 (567)
T ss_dssp             CCCG-GGTTCSSCCEEECCS-SCCCSSSTTG-GGGGCTTCCEEECTT---SGGGGS
T ss_pred             CCCc-ccCCCCCCcEEECCC-CCCCCCCCcH-HHhcCCCCCEEEecC---CcCCCC
Confidence            9998 899999999999998 567777  55 378888888887765   555433

>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=99.03  E-value=5.7e-09  Score=107.87  Aligned_cols=269  Identities=17%  Similarity=0.108  Sum_probs=141.3

Q ss_pred             CCCCcCchHHHHHHHHHhcC-----CCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHH
Q 038398          125 CEPTVGLESTFDKVWRCLGE-----EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKI  199 (720)
Q Consensus       125 ~~~~vGr~~~~~~l~~~L~~-----~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i  199 (720)
                      .+.++|++..++.+..++..     .....|.|+|++|+|||++|+.+++..   ...   .++++.+.......+.   
T Consensus        11 ~~~~ig~~~~~~~l~~~l~~~~~~~~~~~~vll~G~~GtGKT~la~~i~~~~---~~~---~~~~~~~~~~~~~~l~---   81 (324)
T 1hqc_A           11 LDEYIGQERLKQKLRVYLEAAKARKEPLEHLLLFGPPGLGKTTLAHVIAHEL---GVN---LRVTSGPAIEKPGDLA---   81 (324)
T ss_dssp             TTTCCSCHHHHHHHHHHHHHHHHHCSCCCCCEEECCTTCCCHHHHHHHHHHH---TCC---EEEECTTTCCSHHHHH---
T ss_pred             HHHhhCHHHHHHHHHHHHHHHHccCCCCCcEEEECCCCCCHHHHHHHHHHHh---CCC---EEEEeccccCChHHHH---
Confidence            36789999999988887742     234678899999999999999999876   222   2344433222222211   


Q ss_pred             HHHhCCCCCccCCCChhHHHHHHHHHhc---cCcEEEEEecccccc--ccccccccCC--------C----------CCC
Q 038398          200 GRRIGFFDESWKNGSLEDKTSDILRILG---KKKFLLLLDDIWERV--DLTKVGIPFP--------D----------PEN  256 (720)
Q Consensus       200 ~~~l~~~~~~~~~~~~~~~~~~l~~~l~---~k~~LlVlDdv~~~~--~~~~l~~~~~--------~----------~~~  256 (720)
                                              ..+.   .+..+|+|||++...  ....+...+.        .          ...
T Consensus        82 ------------------------~~l~~~~~~~~~l~lDEi~~l~~~~~~~L~~~l~~~~~~~v~~~~~~~~~~~~~~~  137 (324)
T 1hqc_A           82 ------------------------AILANSLEEGDILFIDEIHRLSRQAEEHLYPAMEDFVMDIVIGQGPAARTIRLELP  137 (324)
T ss_dssp             ------------------------HHHTTTCCTTCEEEETTTTSCCHHHHHHHHHHHHHSEEEECCSSSSSCCCEEEECC
T ss_pred             ------------------------HHHHHhccCCCEEEEECCcccccchHHHHHHHHHhhhhHHhccccccccccccCCC
Confidence                                    1221   245688888886532  1111100000        0          012


Q ss_pred             CcEEEEEcCChh-Hhhhh-c-cCceeeccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCcchHHHHHHHHH
Q 038398          257 KSKIVFTTHFLE-ICGAL-K-AHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGLPLALITIGRAM  333 (720)
Q Consensus       257 gs~iiiTtR~~~-v~~~~-~-~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~GlPLai~~~~~~l  333 (720)
                      +..+|.||.... +.... . ....+.+.+++.+|..+++...+.....   .--.+....+++.++|.|-.+..+...+
T Consensus       138 ~~~~i~~t~~~~~~~~~l~~R~~~~i~l~~~~~~e~~~~l~~~~~~~~~---~~~~~~~~~l~~~~~G~~r~l~~~l~~~  214 (324)
T 1hqc_A          138 RFTLIGATTRPGLITAPLLSRFGIVEHLEYYTPEELAQGVMRDARLLGV---RITEEAALEIGRRSRGTMRVAKRLFRRV  214 (324)
T ss_dssp             CCEEEEEESCCSSCSCSTTTTCSCEEECCCCCHHHHHHHHHHHHHTTTC---CCCHHHHHHHHHHSCSCHHHHHHHHHHH
T ss_pred             CEEEEEeCCCcccCCHHHHhcccEEEecCCCCHHHHHHHHHHHHHhcCC---CCCHHHHHHHHHHccCCHHHHHHHHHHH
Confidence            345666665432 21111 1 1257899999999999999888754331   1225678899999999998887766554


Q ss_pred             hcC--------CChhHHHHHHHHHhcccCCCCCCCccchhhHHhhcCCCCCcchhHHHHhhcCCCCCcccChHHHHH---
Q 038398          334 ACK--------KTPQEWHYAIQVLRRSASEFPGMGKEVYPLLKFSYDSLPDDTIRSYLLYCGLFPEDYRIRKSELID---  402 (720)
Q Consensus       334 ~~~--------~~~~~w~~~l~~l~~~~~~~~~~~~~~~~~l~~sy~~L~~~~~k~~fl~~~~fp~~~~i~~~~li~---  402 (720)
                      ...        -+.+....++..+......+...+..+...+...|..-+. ....+-..+++       ++..+.+   
T Consensus       215 ~~~a~~~~~~~i~~~~~~~~~~~~~~~~~~l~~~e~~~i~~~~~~~~g~~~-~~~~~a~~lgi-------~~~tl~~~l~  286 (324)
T 1hqc_A          215 RDFAQVAGEEVITRERALEALAALGLDELGLEKRDREILEVLILRFGGGPV-GLATLATALSE-------DPGTLEEVHE  286 (324)
T ss_dssp             TTTSTTTSCSCCCHHHHHHHHHHHTCCTTCCCHHHHHHHHHHHHHSCSSCC-CHHHHHHHTTS-------CHHHHHHHTH
T ss_pred             HHHHHHhcCCCCCHHHHHHHHHHhcccccCCCHHHHHHHHHHHHHhcCCCc-hHHHHHHHhCC-------CHHHHHHHHh
Confidence            321        1333344444333211111111111222222222222222 23333333333       2222222   


Q ss_pred             -HHHhhCCCCccc-chhhHHhHHHHHH-HHHHhccccc
Q 038398          403 -CWIGEGFLDQYD-RSGAYNEGYYIIG-ILLHACLLEE  437 (720)
Q Consensus       403 -~Wiaeg~~~~~~-~~~~~~~~~~~~~-~L~~~sll~~  437 (720)
                       +-+..|++.... +....+.|..|++ ++.+|+|+|+
T Consensus       287 ~~~i~~~li~~~~~g~~~~~~~~~~~~~~~~~~~~~~~  324 (324)
T 1hqc_A          287 PYLIRQGLLKRTPRGRVPTELAYRHLGYPPPVGPLLEP  324 (324)
T ss_dssp             HHHHHTTSEEEETTEEEECHHHHHHTTCCCCC------
T ss_pred             HHHHHhcchhcCCccceecHHHHHHHhcCCCCCCCCCC
Confidence             234567776543 5556678888887 7888888774

>2r9u_A Variable lymphocyte receptor; adaptive immunity, VLR, leucine-rich repeat, LRR, system; 2.10A {Petromyzon marinus}

Probab=99.00  E-value=9.4e-10  Score=102.32  Aligned_cols=100  Identities=21%  Similarity=0.303  Sum_probs=86.4

Q ss_pred             ccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCccCCccccCCCCCCEEeccCCCCcccchh-hhcCCCCCEEeccC
Q 038398          518 LLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSSTAITHLPIE-LQKLVNLKCLNLEY  596 (720)
Q Consensus       518 L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~~~i~~lp~~-i~~l~~L~~L~l~~  596 (720)
                      -+.+++++|.++.+|...   .++|++|+|++|.+.+..|..|+++++|++|+|++|+|+.+|.. |.++++|++|+|++
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            478999999998888753   38899999999987766788899999999999999999999876 58999999999998


Q ss_pred             CcCCCCCchhhhhccccCceeeccc
Q 038398          597 MNNLNQFPRLVISAFSKLQVLRMFD  621 (720)
Q Consensus       597 ~~~l~~lp~~~~~~l~~L~~L~~~~  621 (720)
                       +.+..+|...+..+++|+.|++.+
T Consensus        91 -N~l~~l~~~~~~~l~~L~~L~L~~  114 (174)
T 2r9u_A           91 -NHLKSIPRGAFDNLKSLTHIYLYN  114 (174)
T ss_dssp             -SCCCCCCTTTTTTCTTCSEEECCS
T ss_pred             -CccceeCHHHhccccCCCEEEeCC
Confidence             678888886678888888887765

>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=98.99  E-value=1.1e-09  Score=101.47  Aligned_cols=101  Identities=24%  Similarity=0.324  Sum_probs=86.5

Q ss_pred             cccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCccCCccccCCCCCCEEeccCCCCcccchh-hhcCCCCCEEecc
Q 038398          517 HLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSSTAITHLPIE-LQKLVNLKCLNLE  595 (720)
Q Consensus       517 ~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~~~i~~lp~~-i~~l~~L~~L~l~  595 (720)
                      ..+.+++++|.++.+|...   .++|++|+|++|.+.+..|..|.++++|++|+|++|+|+.+|.. |.++++|++|+|+
T Consensus        10 ~~~~l~~s~n~l~~ip~~~---~~~l~~L~L~~N~i~~~~~~~~~~l~~L~~L~Ls~N~l~~l~~~~f~~l~~L~~L~L~   86 (170)
T 3g39_A           10 SGTTVDCSGKSLASVPTGI---PTTTQVLYLYDNQITKLEPGVFDRLTQLTRLDLDNNQLTVLPAGVFDKLTQLTQLSLN   86 (170)
T ss_dssp             ETTEEECTTSCCSSCCSCC---CTTCSEEECCSSCCCCCCTTTTTTCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECC
T ss_pred             CCCEEEeCCCCcCccCccC---CCCCcEEEcCCCcCCccChhhhcCcccCCEEECCCCCcCccChhhccCCCCCCEEECC
Confidence            4678999999999988653   37899999999977766688899999999999999999999876 6899999999999


Q ss_pred             CCcCCCCCchhhhhccccCceeeccc
Q 038398          596 YMNNLNQFPRLVISAFSKLQVLRMFD  621 (720)
Q Consensus       596 ~~~~l~~lp~~~~~~l~~L~~L~~~~  621 (720)
                      + +.+..+|...+..+++|+.|++.+
T Consensus        87 ~-N~l~~~~~~~~~~l~~L~~L~L~~  111 (170)
T 3g39_A           87 D-NQLKSIPRGAFDNLKSLTHIWLLN  111 (170)
T ss_dssp             S-SCCCCCCTTTTTTCTTCCEEECCS
T ss_pred             C-CccCEeCHHHhcCCCCCCEEEeCC
Confidence            9 578888876678888888887765

>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=98.97  E-value=3.9e-11  Score=114.54  Aligned_cols=129  Identities=18%  Similarity=0.212  Sum_probs=92.3

Q ss_pred             ccEEEccCC--CCcCcchHHhccCCcccEEEccCCCCCccCCccccCCCCCCEEeccCCCCcccchhhhcCCCCCEEecc
Q 038398          518 LLSLFLSDN--SLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSSTAITHLPIELQKLVNLKCLNLE  595 (720)
Q Consensus       518 L~~L~l~~~--~~~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~~~i~~lp~~i~~l~~L~~L~l~  595 (720)
                      |+.+.+.++  .++.++. .+..+++|++|+|++|.+. .+| .+..+++|++|++++|.++.+|..+..+++|+.|+++
T Consensus        25 l~~~~l~~~~~~l~~l~~-~~~~l~~L~~L~ls~n~l~-~l~-~~~~l~~L~~L~l~~n~l~~l~~~~~~~~~L~~L~L~  101 (198)
T 1ds9_A           25 AEKVELHGMIPPIEKMDA-TLSTLKACKHLALSTNNIE-KIS-SLSGMENLRILSLGRNLIKKIENLDAVADTLEELWIS  101 (198)
T ss_dssp             CSEEECCBCCTTCCCCHH-HHHHTTTCSEEECSEEEES-CCC-CHHHHTTCCEEEEEEEEECSCSSHHHHHHHCSEEEEE
T ss_pred             hheeEeccccCcHhhhhH-HHhcCCCCCEEECCCCCCc-ccc-ccccCCCCCEEECCCCCcccccchhhcCCcCCEEECc
Confidence            444444443  4445554 4788888999999888544 477 7888889999999988888888878888889999998


Q ss_pred             CCcCCCCCchhhhhccccCceeeccccCCCcccchhcccccCCccccHHHhcCCCCCceeEEEecchhhH
Q 038398          596 YMNNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKINVLFGGHQFLVEELMGMKHLMVLTITLKSWQAL  665 (720)
Q Consensus       596 ~~~~l~~lp~~~~~~l~~L~~L~~~~~~~~~l~~l~~~~~~~~~~~~~~~l~~l~~L~~L~~~~~~~~~l  665 (720)
                      + +.+..+|.  ++.+++|+.|++.++   .+..++          .+..+..+++|+.|.++.|.+...
T Consensus       102 ~-N~l~~l~~--~~~l~~L~~L~l~~N---~i~~~~----------~~~~l~~l~~L~~L~l~~N~l~~~  155 (198)
T 1ds9_A          102 Y-NQIASLSG--IEKLVNLRVLYMSNN---KITNWG----------EIDKLAALDKLEDLLLAGNPLYND  155 (198)
T ss_dssp             E-EECCCHHH--HHHHHHSSEEEESEE---ECCCHH----------HHHHHTTTTTCSEEEECSCHHHHH
T ss_pred             C-CcCCcCCc--cccCCCCCEEECCCC---cCCchh----------HHHHHhcCCCCCEEEecCCccccc
Confidence            8 46677774  778888888887764   332211          123577788888888887776543

>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=98.97  E-value=7.5e-10  Score=114.78  Aligned_cols=194  Identities=14%  Similarity=0.191  Sum_probs=120.6

Q ss_pred             ccceeEEEecccccc--------------------cCCC--CCC--------CCcccEEEccCCCCcCcchHHhccCCcc
Q 038398          493 WRNVRRMSLMKNKIE--------------------NLSE--TPT--------CPHLLSLFLSDNSLKMSTDDFFQSMPSL  542 (720)
Q Consensus       493 ~~~l~~L~l~~~~~~--------------------~~~~--~~~--------~~~L~~L~l~~~~~~~~~~~~~~~l~~L  542 (720)
                      +++|+.|+|++|.+.                    .++.  +.+        |++|+.|.+.. .++.++...|.+|++|
T Consensus        48 l~~L~~LdLs~n~i~~~~~~~~~~~~~~~~~~~~~~I~~~aF~~~~~~~~~g~~~L~~l~L~~-~i~~I~~~aF~~~~~L  126 (329)
T 3sb4_A           48 FPSLKVLDISNAEIKMYSGKAGTYPNGKFYIYMANFVPAYAFSNVVNGVTKGKQTLEKVILSE-KIKNIEDAAFKGCDNL  126 (329)
T ss_dssp             CTTCCEEEEEEEEECCEEESSSSSGGGCCEEECTTEECTTTTEEEETTEEEECTTCCC-CBCT-TCCEECTTTTTTCTTC
T ss_pred             hccCeEEecCcceeEEecCccccccccccccccccccCHHHhcccccccccccCCCcEEECCc-cccchhHHHhhcCccc
Confidence            567888888888776                    1121  234        77788888877 6777777777888888


Q ss_pred             cEEEccCCCCCccCCccccCCCCCCEEeccCCCC---------------------------cccchhh------------
Q 038398          543 RVFNMSNNHLLWKLPSGISTLVSLEHLDLSSTAI---------------------------THLPIEL------------  583 (720)
Q Consensus       543 ~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~~~i---------------------------~~lp~~i------------  583 (720)
                      +.|++++|.....-+..|.++.++.++.+..+..                           ..+|..+            
T Consensus       127 ~~l~l~~n~i~~i~~~aF~~~~~l~~l~~~~~~~~~~~~~i~~~~f~~~~~L~~~i~~~~~~~l~~~~~~~~~~~~~~~~  206 (329)
T 3sb4_A          127 KICQIRKKTAPNLLPEALADSVTAIFIPLGSSDAYRFKNRWEHFAFIEGEPLETTIQVGAMGKLEDEIMKAGLQPRDINF  206 (329)
T ss_dssp             CEEEBCCSSCCEECTTSSCTTTCEEEECTTCTHHHHTSTTTTTSCEEESCCCEEEEEECTTCCHHHHHHHTTCCGGGCSE
T ss_pred             ceEEcCCCCccccchhhhcCCCceEEecCcchhhhhccccccccccccccccceeEEecCCCcHHHHHhhcccCccccce
Confidence            8888887755444455566665555555443100                           0111100            


Q ss_pred             ----------------hcCCCCCEEeccCCcCCCCCchhhhhccccCceeeccccCCCcccchhcccccCCccccHHHhc
Q 038398          584 ----------------QKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKINVLFGGHQFLVEELM  647 (720)
Q Consensus       584 ----------------~~l~~L~~L~l~~~~~l~~lp~~~~~~l~~L~~L~~~~~~~~~l~~l~~~~~~~~~~~~~~~l~  647 (720)
                                      ..+++|+.+++++ +.+..+|...+..+++|+.|.+.+   | +..++...           +.
T Consensus       207 l~~~~~l~~~~~~~l~~~~~~L~~l~L~~-n~i~~I~~~aF~~~~~L~~l~l~~---n-i~~I~~~a-----------F~  270 (329)
T 3sb4_A          207 LTIEGKLDNADFKLIRDYMPNLVSLDISK-TNATTIPDFTFAQKKYLLKIKLPH---N-LKTIGQRV-----------FS  270 (329)
T ss_dssp             EEEEECCCHHHHHHHHHHCTTCCEEECTT-BCCCEECTTTTTTCTTCCEEECCT---T-CCEECTTT-----------TT
T ss_pred             EEEeeeecHHHHHHHHHhcCCCeEEECCC-CCcceecHhhhhCCCCCCEEECCc---c-cceehHHH-----------hh
Confidence                            1267888888876 457778877777787887777654   2 44444332           44


Q ss_pred             CCCCCc-eeEEEecchhhHHHHhhhhhhhhhccccccccccCCCccccccccccCCcceee
Q 038398          648 GMKHLM-VLTITLKSWQALKELLISQELQRSTQSLFLRCFNDSKSLDIFCLAGLRNLNKLY  707 (720)
Q Consensus       648 ~l~~L~-~L~~~~~~~~~l~~l~~~~~~~~~L~~L~l~~~~~l~~l~~~~l~~l~~L~~L~  707 (720)
                      ++++|+ .+.+.. .+..+.  ...+..+++|+.+++.+ +.+..++...|.++++|+.|+
T Consensus       271 ~~~~L~~~l~l~~-~l~~I~--~~aF~~c~~L~~l~l~~-n~i~~I~~~aF~~~~~L~~ly  327 (329)
T 3sb4_A          271 NCGRLAGTLELPA-SVTAIE--FGAFMGCDNLRYVLATG-DKITTLGDELFGNGVPSKLIY  327 (329)
T ss_dssp             TCTTCCEEEEECT-TCCEEC--TTTTTTCTTEEEEEECS-SCCCEECTTTTCTTCCCCEEE
T ss_pred             CChhccEEEEEcc-cceEEc--hhhhhCCccCCEEEeCC-CccCccchhhhcCCcchhhhc
Confidence            566777 777654 332221  13445566788888765 667788777788888888775

>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=98.95  E-value=1.5e-11  Score=117.53  Aligned_cols=104  Identities=27%  Similarity=0.289  Sum_probs=55.5

Q ss_pred             cccccceeEEEecccccccCCCCCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCccCCccccCCCCCCEE
Q 038398          490 IQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVSLEHL  569 (720)
Q Consensus       490 ~~~~~~l~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L  569 (720)
                      +..+++|+.|++++|.+..++.+..+++|++|++++|.++.++.. +..+++|++|++++|.+. .+| .++.+++|++|
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~~L  120 (198)
T 1ds9_A           44 LSTLKACKHLALSTNNIEKISSLSGMENLRILSLGRNLIKKIENL-DAVADTLEELWISYNQIA-SLS-GIEKLVNLRVL  120 (198)
T ss_dssp             HHHTTTCSEEECSEEEESCCCCHHHHTTCCEEEEEEEEECSCSSH-HHHHHHCSEEEEEEEECC-CHH-HHHHHHHSSEE
T ss_pred             HhcCCCCCEEECCCCCCccccccccCCCCCEEECCCCCcccccch-hhcCCcCCEEECcCCcCC-cCC-ccccCCCCCEE
Confidence            444555555666555555555444455555555555555544432 444555555555555332 334 45555555555


Q ss_pred             eccCCCCcccch--hhhcCCCCCEEeccC
Q 038398          570 DLSSTAITHLPI--ELQKLVNLKCLNLEY  596 (720)
Q Consensus       570 ~L~~~~i~~lp~--~i~~l~~L~~L~l~~  596 (720)
                      ++++|.++.+|.  .+..+++|++|++++
T Consensus       121 ~l~~N~i~~~~~~~~l~~l~~L~~L~l~~  149 (198)
T 1ds9_A          121 YMSNNKITNWGEIDKLAALDKLEDLLLAG  149 (198)
T ss_dssp             EESEEECCCHHHHHHHTTTTTCSEEEECS
T ss_pred             ECCCCcCCchhHHHHHhcCCCCCEEEecC
Confidence            555555555443  455555555555555

>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=98.95  E-value=5.9e-10  Score=125.76  Aligned_cols=215  Identities=15%  Similarity=0.153  Sum_probs=125.4

Q ss_pred             cccceeEEEecccccccC--CCC-CCCCcccEEEccCC-CCcCc-chHHhccCCcccEEEccCCCCCccC----CccccC
Q 038398          492 NWRNVRRMSLMKNKIENL--SET-PTCPHLLSLFLSDN-SLKMS-TDDFFQSMPSLRVFNMSNNHLLWKL----PSGIST  562 (720)
Q Consensus       492 ~~~~l~~L~l~~~~~~~~--~~~-~~~~~L~~L~l~~~-~~~~~-~~~~~~~l~~L~~L~L~~~~~~~~l----p~~i~~  562 (720)
                      .+++|++|++++|.+...  ..+ ..+++|++|++++| .++.. .+..+.++++|++|+|++|.+.+..    +.....
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            567899999998876432  112 25789999999998 44432 2344568999999999998644332    333346


Q ss_pred             CCCCCEEeccCCC--Cc--ccchhhhcCCCCCEEeccCCcCCCCCchhhhhccccCceeeccccCCC----cccchhcc-
Q 038398          563 LVSLEHLDLSSTA--IT--HLPIELQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFDCGGS----KIERLKIN-  633 (720)
Q Consensus       563 l~~L~~L~L~~~~--i~--~lp~~i~~l~~L~~L~l~~~~~l~~lp~~~~~~l~~L~~L~~~~~~~~----~l~~l~~~-  633 (720)
                      +++|++|++++|.  +.  .++.-+.++++|++|++++|..+..+|.. +..+++|+.|.+..+...    .+..++.. 
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            7799999999886  32  23333556799999999998666666653 788899999987655421    01110000 


Q ss_pred             ----------cccCC-ccccHHHhcCCCCCceeEEEecchhhHHHHhhhhhhhhhccccccccccCCCccccccc-cccC
Q 038398          634 ----------VLFGG-HQFLVEELMGMKHLMVLTITLKSWQALKELLISQELQRSTQSLFLRCFNDSKSLDIFCL-AGLR  701 (720)
Q Consensus       634 ----------~~~~~-~~~~~~~l~~l~~L~~L~~~~~~~~~l~~l~~~~~~~~~L~~L~l~~~~~l~~l~~~~l-~~l~  701 (720)
                                .+... .......+..+++|+.|+++.+.+.. ..+......+++|+.|++.+|  +....+..+ ..++
T Consensus       262 ~~~~~L~~Ls~~~~~~~~~l~~~~~~~~~L~~L~L~~~~l~~-~~l~~~~~~~~~L~~L~l~~~--~~~~~l~~l~~~~~  338 (594)
T 2p1m_B          262 SGCKELRCLSGFWDAVPAYLPAVYSVCSRLTTLNLSYATVQS-YDLVKLLCQCPKLQRLWVLDY--IEDAGLEVLASTCK  338 (594)
T ss_dssp             HTCTTCCEEECCBTCCGGGGGGGHHHHTTCCEEECTTCCCCH-HHHHHHHTTCTTCCEEEEEGG--GHHHHHHHHHHHCT
T ss_pred             hcCCCcccccCCcccchhhHHHHHHhhCCCCEEEccCCCCCH-HHHHHHHhcCCCcCEEeCcCc--cCHHHHHHHHHhCC
Confidence                      00000 01111122245666666666555332 222222334456777777664  222111222 3467


Q ss_pred             CcceeeecC
Q 038398          702 NLNKLYVAG  710 (720)
Q Consensus       702 ~L~~L~l~~  710 (720)
                      +|+.|+|.+
T Consensus       339 ~L~~L~L~~  347 (594)
T 2p1m_B          339 DLRELRVFP  347 (594)
T ss_dssp             TCCEEEEEC
T ss_pred             CCCEEEEec
Confidence            777777743

>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=98.94  E-value=1.8e-09  Score=111.74  Aligned_cols=186  Identities=16%  Similarity=0.129  Sum_probs=112.4

Q ss_pred             CCCCcCchHHHHHHHHHhcCCCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCc-CEEEEEEecCcCCHHHHHHHHHHHh
Q 038398          125 CEPTVGLESTFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVF-DVVIWVVVSKDLQLEKIQEKIGRRI  203 (720)
Q Consensus       125 ~~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f-~~~~wv~v~~~~~~~~~~~~i~~~l  203 (720)
                      .++++|++..++.+..++..+..+.+.|+|++|+||||+|+.+++...  ...+ ...+.+..+.......+...+....
T Consensus        24 ~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~la~~l~~~l~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  101 (327)
T 1iqp_A           24 LDDIVGQEHIVKRLKHYVKTGSMPHLLFAGPPGVGKTTAALALARELF--GENWRHNFLELNASDERGINVIREKVKEFA  101 (327)
T ss_dssp             TTTCCSCHHHHHHHHHHHHHTCCCEEEEESCTTSSHHHHHHHHHHHHH--GGGHHHHEEEEETTCHHHHHTTHHHHHHHH
T ss_pred             HHHhhCCHHHHHHHHHHHHcCCCCeEEEECcCCCCHHHHHHHHHHHhc--CCcccCceEEeeccccCchHHHHHHHHHHH
Confidence            367899999999999999776666699999999999999999998751  1111 1233333322111111111110000


Q ss_pred             CCCCCccCCCChhHHHHHHHHHhccCcEEEEEeccccc--cccccccccCCCCCCCcEEEEEcCChhH-hhh-hccCcee
Q 038398          204 GFFDESWKNGSLEDKTSDILRILGKKKFLLLLDDIWER--VDLTKVGIPFPDPENKSKIVFTTHFLEI-CGA-LKAHEFL  279 (720)
Q Consensus       204 ~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~iiiTtR~~~v-~~~-~~~~~~~  279 (720)
                      . ..                ....+++.++|+||++..  .....+...+.....++++|+||....- ... ......+
T Consensus       102 ~-~~----------------~~~~~~~~vliiDe~~~l~~~~~~~L~~~le~~~~~~~~i~~~~~~~~l~~~l~sr~~~~  164 (327)
T 1iqp_A          102 R-TK----------------PIGGASFKIIFLDEADALTQDAQQALRRTMEMFSSNVRFILSCNYSSKIIEPIQSRCAIF  164 (327)
T ss_dssp             H-SC----------------CGGGCSCEEEEEETGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHHTEEEE
T ss_pred             h-hC----------------CcCCCCCeEEEEeCCCcCCHHHHHHHHHHHHhcCCCCeEEEEeCCccccCHHHHhhCcEE
Confidence            0 00                011256889999999753  2233333222223456788888865432 111 1122478


Q ss_pred             eccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCcchHHHHHHHH
Q 038398          280 KVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGLPLALITIGRA  332 (720)
Q Consensus       280 ~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~GlPLai~~~~~~  332 (720)
                      .+.+++.++...++...+......   --.+....|++.++|.|..+..+...
T Consensus       165 ~~~~l~~~~~~~~l~~~~~~~~~~---~~~~~~~~l~~~~~g~~r~~~~~l~~  214 (327)
T 1iqp_A          165 RFRPLRDEDIAKRLRYIAENEGLE---LTEEGLQAILYIAEGDMRRAINILQA  214 (327)
T ss_dssp             ECCCCCHHHHHHHHHHHHHTTTCE---ECHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             EecCCCHHHHHHHHHHHHHhcCCC---CCHHHHHHHHHHCCCCHHHHHHHHHH
Confidence            999999999999998876543211   12466788999999999865544433

>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=98.93  E-value=9.1e-10  Score=124.21  Aligned_cols=82  Identities=22%  Similarity=0.281  Sum_probs=52.2

Q ss_pred             cccceeEEEeccccccc-----CCCC-CCCCcccEEEccCCCCcCcch----HHhccCCcccEEEccCCCCCccCCcccc
Q 038398          492 NWRNVRRMSLMKNKIEN-----LSET-PTCPHLLSLFLSDNSLKMSTD----DFFQSMPSLRVFNMSNNHLLWKLPSGIS  561 (720)
Q Consensus       492 ~~~~l~~L~l~~~~~~~-----~~~~-~~~~~L~~L~l~~~~~~~~~~----~~~~~l~~L~~L~L~~~~~~~~lp~~i~  561 (720)
                      .+++|++|++++|.+..     ++.+ ..+++|++|++++|. ..+..    ..+.++++|++|++++|.....+|..+.
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            56778888888777543     2222 366788888888775 22222    2234568888888887755455666677


Q ss_pred             CCCCCCEEeccCC
Q 038398          562 TLVSLEHLDLSST  574 (720)
Q Consensus       562 ~l~~L~~L~L~~~  574 (720)
                      .+++|++|+++.+
T Consensus       233 ~~~~L~~L~l~~~  245 (594)
T 2p1m_B          233 RAPQLEELGTGGY  245 (594)
T ss_dssp             HCTTCSEEECSBC
T ss_pred             cCCcceEcccccc
Confidence            7777777775443

>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=98.87  E-value=4.2e-09  Score=110.09  Aligned_cols=100  Identities=18%  Similarity=0.259  Sum_probs=82.1

Q ss_pred             EEEeccc-ccccCCCCCCCCcccEEEccC-CCCcCcchHHhccCCcccEEEccCCCCCccCCccccCCCCCCEEeccCCC
Q 038398          498 RMSLMKN-KIENLSETPTCPHLLSLFLSD-NSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSSTA  575 (720)
Q Consensus       498 ~L~l~~~-~~~~~~~~~~~~~L~~L~l~~-~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~~~  575 (720)
                      .++++++ .+..+|.+..+++|+.|+|++ |.+..+++..|.+|++|++|+|++|++.+..|..|.+|++|++|+|++|.
T Consensus        12 ~v~~~~~n~l~~ip~l~~~~~L~~L~l~~~n~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~l~~L~~L~l~~N~   91 (347)
T 2ifg_A           12 GLRCTRDGALDSLHHLPGAENLTELYIENQQHLQHLELRDLRGLGELRNLTIVKSGLRFVAPDAFHFTPRLSRLNLSFNA   91 (347)
T ss_dssp             CEECCSSCCCTTTTTSCSCSCCSEEECCSCSSCCEECGGGSCSCCCCSEEECCSSCCCEECTTGGGSCSCCCEEECCSSC
T ss_pred             EEEcCCCCCCCccCCCCCCCCeeEEEccCCCCCCCcChhHhccccCCCEEECCCCccceeCHHHhcCCcCCCEEeCCCCc
Confidence            4577777 788888777788899999986 88888888878899999999999997777777788899999999999999


Q ss_pred             CcccchhhhcCCCCCEEeccCC
Q 038398          576 ITHLPIELQKLVNLKCLNLEYM  597 (720)
Q Consensus       576 i~~lp~~i~~l~~L~~L~l~~~  597 (720)
                      |+.+|..+.....|+.|+|.+|
T Consensus        92 l~~~~~~~~~~~~L~~l~l~~N  113 (347)
T 2ifg_A           92 LESLSWKTVQGLSLQELVLSGN  113 (347)
T ss_dssp             CSCCCSTTTCSCCCCEEECCSS
T ss_pred             cceeCHHHcccCCceEEEeeCC
Confidence            9988876444444999999884

>3qfl_A MLA10; coiled-coil, (CC) domain, NLRS, nucleotide-binding domain, L rich repeat containing receptors, protein binding; 2.00A {Hordeum vulgare}

Probab=98.85  E-value=8.2e-09  Score=87.54  Aligned_cols=62  Identities=10%  Similarity=0.102  Sum_probs=50.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhh-hhccHHHHHHHHHHHHHHHHHHHHHhccccccc
Q 038398            9 LTVLQAQLPKLIESKNDVMARVANAEQQQ-MRRLNTVQGWLSRVEAMETEVGELMKDGSQEVD   70 (720)
Q Consensus         9 ~~~l~~~l~~l~~~l~~i~~~v~~ae~~~-~~~~~~~~~wl~~~~~~~~~~~d~ld~~~~~~~   70 (720)
                      +..++++++.|+..+..|++++.+|+.+. ...+++++.|+++||+++||+||++|+|.++..
T Consensus        21 ~~gv~~~i~~Lk~eL~~m~a~L~da~~~~~~~~d~~vk~W~~~vrdlaYD~ED~iD~f~~~~~   83 (115)
T 3qfl_A           21 HKGVKKNIEDLGKELESMNAALIKIGEVPREQLDSQDKLWADEVRELSYVIEDVVDKFLVQVD   83 (115)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHTTSCGGGCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HhchHHHHHHHHHHHHHHHHHHHHHHHhccccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            45567777788888888888888888873 234588999999999999999999999988764

>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=98.81  E-value=2.8e-08  Score=102.36  Aligned_cols=179  Identities=11%  Similarity=0.138  Sum_probs=111.1

Q ss_pred             CCCcCchHHHHHHHHHhcCCCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcC-EEEEEEecCcCCHHHHHHHHHHHhC
Q 038398          126 EPTVGLESTFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFD-VVIWVVVSKDLQLEKIQEKIGRRIG  204 (720)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~-~~~wv~v~~~~~~~~~~~~i~~~l~  204 (720)
                      ++++|++..++.+.+++..+..+.+.++|++|+|||++|+.+++...  ...+. ..+.++.+.....            
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            56899999999999999776655699999999999999999998751  11111 2233333321110            


Q ss_pred             CCCCccCCCChhHHHHHHHHH--h-ccCcEEEEEeccccc--cccccccccCCCCCCCcEEEEEcCChh-Hhhh-hccCc
Q 038398          205 FFDESWKNGSLEDKTSDILRI--L-GKKKFLLLLDDIWER--VDLTKVGIPFPDPENKSKIVFTTHFLE-ICGA-LKAHE  277 (720)
Q Consensus       205 ~~~~~~~~~~~~~~~~~l~~~--l-~~k~~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~iiiTtR~~~-v~~~-~~~~~  277 (720)
                              ....+........  + .+++.++|+|+++..  .....+...+.....++.+|+||.... +... .....
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                    1111111111110  1 256789999999753  223344433433445677888776543 2111 12235


Q ss_pred             eeeccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCcchHHHHH
Q 038398          278 FLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGLPLALITI  329 (720)
Q Consensus       278 ~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~GlPLai~~~  329 (720)
                      .+++.+++.++..+++...+......   --.+....+++.++|.+..+..+
T Consensus       155 ~i~~~~~~~~~~~~~l~~~~~~~~~~---i~~~~l~~l~~~~~G~~r~~~~~  203 (319)
T 2chq_A          155 VFRFKPVPKEAMKKRLLEICEKEGVK---ITEDGLEALIYISGGDFRKAINA  203 (319)
T ss_dssp             EEECCCCCHHHHHHHHHHHHHTTCCC---BCHHHHHHHHHTTTTCHHHHHHH
T ss_pred             EEEecCCCHHHHHHHHHHHHHHcCCC---CCHHHHHHHHHHcCCCHHHHHHH
Confidence            78999999999999998877543311   12556788889999988755433

>3te6_A Regulatory protein SIR3; heterochromatin, gene silencing, SIR complex, HMR, HML, TELO AAA+ domain, structural, nucleus, gene RE; 2.80A {Saccharomyces cerevisiae}

Probab=98.80  E-value=3.5e-08  Score=99.69  Aligned_cols=169  Identities=11%  Similarity=0.026  Sum_probs=103.4

Q ss_pred             CcCchHHHHHHHHHhc----CCCceEEEEEcCCCChHHHHHHHHHhhhcCCC--CCc-C-EEEEEEecCcCCHHHHHHHH
Q 038398          128 TVGLESTFDKVWRCLG----EEQVGIIGLYGMGGVGKTTLLTKINNKLLGAP--NVF-D-VVIWVVVSKDLQLEKIQEKI  199 (720)
Q Consensus       128 ~vGr~~~~~~l~~~L~----~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~--~~f-~-~~~wv~v~~~~~~~~~~~~i  199 (720)
                      +.|||+++++|...|.    .+....+.|+|++|+|||++|+.|++......  ... . .+++|++....+...+...|
T Consensus        22 L~~Re~E~~~i~~~L~~~i~~~~~~~lli~GpPGTGKT~~v~~v~~~L~~~~~~~~~~~~~~v~INc~~~~t~~~~~~~I  101 (318)
T 3te6_A           22 LKSQVEDFTRIFLPIYDSLMSSQNKLFYITNADDSTKFQLVNDVMDELITSSARKELPIFDYIHIDALELAGMDALYEKI  101 (318)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHTTCCCEEEEECCCSHHHHHHHHHHHHHHHHTTTTTSSCCEEEEEEETTCCC--HHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHHHHHhhhccCCceEEEEEeccccCCHHHHHHHH
Confidence            5799999999987774    35678899999999999999999998873111  111 1 45677777777888999999


Q ss_pred             HHHhCCCCCccCCCChhHHHHHHHHHh---ccCcEEEEEeccccccccccccccCCC-CCCCc--EEEEEcCChhH----
Q 038398          200 GRRIGFFDESWKNGSLEDKTSDILRIL---GKKKFLLLLDDIWERVDLTKVGIPFPD-PENKS--KIVFTTHFLEI----  269 (720)
Q Consensus       200 ~~~l~~~~~~~~~~~~~~~~~~l~~~l---~~k~~LlVlDdv~~~~~~~~l~~~~~~-~~~gs--~iiiTtR~~~v----  269 (720)
                      +.++.....  ......+....+...+   .+++++++||+++...+-+.+...+.+ ...++  .||.++...+.    
T Consensus       102 ~~~L~g~~~--~~~~~~~~L~~~f~~~~~~~~~~~ii~lDE~d~l~~q~~L~~l~~~~~~~~s~~~vI~i~n~~d~~~~~  179 (318)
T 3te6_A          102 WFAISKENL--CGDISLEALNFYITNVPKAKKRKTLILIQNPENLLSEKILQYFEKWISSKNSKLSIICVGGHNVTIREQ  179 (318)
T ss_dssp             HHHHSCCC----CCCCHHHHHHHHHHSCGGGSCEEEEEEECCSSSCCTHHHHHHHHHHHCSSCCEEEEEECCSSCCCHHH
T ss_pred             HHHhcCCCC--CchHHHHHHHHHHHHhhhccCCceEEEEecHHHhhcchHHHHHHhcccccCCcEEEEEEecCcccchhh
Confidence            999954321  1122223333333333   356799999999764321111111110 01122  23333433211    


Q ss_pred             h-----hhhccCceeeccCCChhhHHHHHHHHhcc
Q 038398          270 C-----GALKAHEFLKVECLGPEDAWRLFRENLRR  299 (720)
Q Consensus       270 ~-----~~~~~~~~~~l~~L~~~e~~~Lf~~~~~~  299 (720)
                      .     ..+ ....+.+++++.+|-.+++..++..
T Consensus       180 L~~~v~SR~-~~~~i~F~pYt~~el~~Il~~Rl~~  213 (318)
T 3te6_A          180 INIMPSLKA-HFTEIKLNKVDKNELQQMIITRLKS  213 (318)
T ss_dssp             HHTCHHHHT-TEEEEECCCCCHHHHHHHHHHHHHH
T ss_pred             cchhhhccC-CceEEEeCCCCHHHHHHHHHHHHHh
Confidence            1     111 1246899999999999999988743

>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=98.74  E-value=9.2e-08  Score=100.87  Aligned_cols=193  Identities=15%  Similarity=0.137  Sum_probs=109.8

Q ss_pred             CCCcCchHHHHHHHHHhcCCC-ceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHHHHHhC
Q 038398          126 EPTVGLESTFDKVWRCLGEEQ-VGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKIGRRIG  204 (720)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~-~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i~~~l~  204 (720)
                      ++++|++..++.+..++..+. ...+.|+|++|+||||+|+.+++... ....+.       ...+........+.....
T Consensus        16 ~~~vg~~~~~~~L~~~l~~~~~~~~~ll~G~~G~GKT~la~~la~~l~-~~~~~~-------~~~~~~~~~~~~~~~~~~   87 (373)
T 1jr3_A           16 ADVVGQEHVLTALANGLSLGRIHHAYLFSGTRGVGKTSIARLLAKGLN-CETGIT-------ATPCGVCDNCREIEQGRF   87 (373)
T ss_dssp             TTSCSCHHHHHHHHHHHHHTCCCSEEEEESCTTSSHHHHHHHHHHHHS-CTTCSC-------SSCCSSSHHHHHHHTSCC
T ss_pred             hhccCcHHHHHHHHHHHHhCCCCeEEEEECCCCCCHHHHHHHHHHHhC-CCCCCC-------CCCCcccHHHHHHhccCC
Confidence            568999999999999986654 45788999999999999999998762 111110       000000001111111000


Q ss_pred             CCC---CccCCCChhHHHHHHHHHh-----ccCcEEEEEeccccc--cccccccccCCCCCCCcEEEEEcCChh-Hh-hh
Q 038398          205 FFD---ESWKNGSLEDKTSDILRIL-----GKKKFLLLLDDIWER--VDLTKVGIPFPDPENKSKIVFTTHFLE-IC-GA  272 (720)
Q Consensus       205 ~~~---~~~~~~~~~~~~~~l~~~l-----~~k~~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~iiiTtR~~~-v~-~~  272 (720)
                      ...   ........+ ....+.+.+     .+++.++|+||++..  .....+...+.....+..+|++|.... +. ..
T Consensus        88 ~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~Ll~~le~~~~~~~~Il~~~~~~~l~~~l  166 (373)
T 1jr3_A           88 VDLIEIDAASRTKVE-DTRDLLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLPVTI  166 (373)
T ss_dssp             SSCEEEETTCSCCSS-CHHHHHHHTTSCCSSSSSEEEEEECGGGSCHHHHHHHHHHHHSCCSSEEEEEEESCGGGSCHHH
T ss_pred             CceEEecccccCCHH-HHHHHHHHHhhccccCCeEEEEEECcchhcHHHHHHHHHHHhcCCCceEEEEEeCChHhCcHHH
Confidence            000   000001111 122233333     246789999999753  223333222222334566777765432 21 11


Q ss_pred             hccCceeeccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCcchHHHHHH
Q 038398          273 LKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGLPLALITIG  330 (720)
Q Consensus       273 ~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~GlPLai~~~~  330 (720)
                      ......+++.+++.++..+++...+......   --.+....|++.++|.|..+..+.
T Consensus       167 ~sr~~~i~~~~l~~~~~~~~l~~~~~~~~~~---~~~~a~~~l~~~~~G~~r~~~~~l  221 (373)
T 1jr3_A          167 LSRCLQFHLKALDVEQIRHQLEHILNEEHIA---HEPRALQLLARAAEGSLRDALSLT  221 (373)
T ss_dssp             HTTSEEEECCCCCHHHHHHHHHHHHHHHTCC---BCHHHHHHHHHHSSSCHHHHHHHH
T ss_pred             HhheeEeeCCCCCHHHHHHHHHHHHHHcCCC---CCHHHHHHHHHHCCCCHHHHHHHH
Confidence            1223678999999999999998876432211   124567889999999998776554

>1jbk_A CLPB protein; beta barrel, chaperone; 1.80A {Escherichia coli} SCOP: c.37.1.20

Probab=98.68  E-value=3.5e-08  Score=93.20  Aligned_cols=47  Identities=21%  Similarity=0.408  Sum_probs=42.1

Q ss_pred             CCCCcCchHHHHHHHHHhcCCCceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          125 CEPTVGLESTFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       125 ~~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ...++||+++++++.+++.....+.+.|+|++|+|||++|+.+++..
T Consensus        21 ~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~~~~~~   67 (195)
T 1jbk_A           21 LDPVIGRDEEIRRTIQVLQRRTKNNPVLIGEPGVGKTAIVEGLAQRI   67 (195)
T ss_dssp             SCCCCSCHHHHHHHHHHHTSSSSCEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             ccccccchHHHHHHHHHHhcCCCCceEEECCCCCCHHHHHHHHHHHH
Confidence            36789999999999999987666788999999999999999998875

>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=98.67  E-value=4.7e-08  Score=96.08  Aligned_cols=172  Identities=10%  Similarity=0.052  Sum_probs=102.4

Q ss_pred             CCCcCc---hHHHHHHHHHhcCCCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHHHHH
Q 038398          126 EPTVGL---ESTFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKIGRR  202 (720)
Q Consensus       126 ~~~vGr---~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i~~~  202 (720)
                      ++++|.   +..++.+..+......+.+.|+|++|+||||+|+.+++...   .....++|+.++.....          
T Consensus        28 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~la~~l~~~~~---~~~~~~~~~~~~~~~~~----------   94 (242)
T 3bos_A           28 TSYYPAAGNDELIGALKSAASGDGVQAIYLWGPVKSGRTHLIHAACARAN---ELERRSFYIPLGIHASI----------   94 (242)
T ss_dssp             TTSCC--CCHHHHHHHHHHHHTCSCSEEEEECSTTSSHHHHHHHHHHHHH---HTTCCEEEEEGGGGGGS----------
T ss_pred             hhccCCCCCHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHHH---HcCCeEEEEEHHHHHHH----------
Confidence            567763   35566666666555667899999999999999999998762   12234567665432110          


Q ss_pred             hCCCCCccCCCChhHHHHHHHHHhccCcEEEEEeccccccc----cccccccCCC-CCCC-cEEEEEcCChh--------
Q 038398          203 IGFFDESWKNGSLEDKTSDILRILGKKKFLLLLDDIWERVD----LTKVGIPFPD-PENK-SKIVFTTHFLE--------  268 (720)
Q Consensus       203 l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~----~~~l~~~~~~-~~~g-s~iiiTtR~~~--------  268 (720)
                      +            .+..    +.+ .++.+||+||++....    ...+...+.. ...+ .++|+||+...        
T Consensus        95 ~------------~~~~----~~~-~~~~vliiDe~~~~~~~~~~~~~l~~~l~~~~~~~~~~ii~~~~~~~~~~~~~~~  157 (242)
T 3bos_A           95 S------------TALL----EGL-EQFDLICIDDVDAVAGHPLWEEAIFDLYNRVAEQKRGSLIVSASASPMEAGFVLP  157 (242)
T ss_dssp             C------------GGGG----TTG-GGSSEEEEETGGGGTTCHHHHHHHHHHHHHHHHHCSCEEEEEESSCTTTTTCCCH
T ss_pred             H------------HHHH----Hhc-cCCCEEEEeccccccCCHHHHHHHHHHHHHHHHcCCCeEEEEcCCCHHHHHHhhh
Confidence            0            0000    011 3467899999975321    1112111110 0112 24777776322        


Q ss_pred             -HhhhhccCceeeccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCcchHHHHHH
Q 038398          269 -ICGALKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGLPLALITIG  330 (720)
Q Consensus       269 -v~~~~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~GlPLai~~~~  330 (720)
                       +...+.....+++++++.++..+++...+.....   .--.+....+++.++|.+-.+..+.
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             1222222367899999999999999988753321   1235677889999999887665443

>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=98.66  E-value=5.2e-08  Score=101.66  Aligned_cols=99  Identities=19%  Similarity=0.242  Sum_probs=82.5

Q ss_pred             cEEEccCC-CCcCcchHHhccCCcccEEEccC-CCCCccCCccccCCCCCCEEeccCCCCcccch-hhhcCCCCCEEecc
Q 038398          519 LSLFLSDN-SLKMSTDDFFQSMPSLRVFNMSN-NHLLWKLPSGISTLVSLEHLDLSSTAITHLPI-ELQKLVNLKCLNLE  595 (720)
Q Consensus       519 ~~L~l~~~-~~~~~~~~~~~~l~~L~~L~L~~-~~~~~~lp~~i~~l~~L~~L~L~~~~i~~lp~-~i~~l~~L~~L~l~  595 (720)
                      ..++++++ .++.+|.  +..+++|++|+|++ |.+.+..|..|++|++|++|+|++|.|+.+|+ .|.+|++|++|+|+
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            35688887 8988887  89999999999997 86655555789999999999999999998865 58999999999999


Q ss_pred             CCcCCCCCchhhhhccccCceeeccc
Q 038398          596 YMNNLNQFPRLVISAFSKLQVLRMFD  621 (720)
Q Consensus       596 ~~~~l~~lp~~~~~~l~~L~~L~~~~  621 (720)
                      + |.+..+|...+..++ |+.|.+.+
T Consensus        89 ~-N~l~~~~~~~~~~~~-L~~l~l~~  112 (347)
T 2ifg_A           89 F-NALESLSWKTVQGLS-LQELVLSG  112 (347)
T ss_dssp             S-SCCSCCCSTTTCSCC-CCEEECCS
T ss_pred             C-CccceeCHHHcccCC-ceEEEeeC
Confidence            9 678889876555555 77777664

>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=98.66  E-value=1.1e-08  Score=105.80  Aligned_cols=200  Identities=14%  Similarity=0.128  Sum_probs=119.8

Q ss_pred             cccceeEEEeccccc-ccCCCCCC-CCcccEEEccCCCCc--------------------CcchHHhcc--------CCc
Q 038398          492 NWRNVRRMSLMKNKI-ENLSETPT-CPHLLSLFLSDNSLK--------------------MSTDDFFQS--------MPS  541 (720)
Q Consensus       492 ~~~~l~~L~l~~~~~-~~~~~~~~-~~~L~~L~l~~~~~~--------------------~~~~~~~~~--------l~~  541 (720)
                      .+.+++.|.+.++-- ..+..+.. +++|++|+|++|.+.                    .++...|.+        +++
T Consensus        23 ~~~~l~~L~l~g~i~~~~~~~l~~~l~~L~~LdLs~n~i~~~~~~~~~~~~~~~~~~~~~~I~~~aF~~~~~~~~~g~~~  102 (329)
T 3sb4_A           23 EANSITHLTLTGKLNAEDFRHLRDEFPSLKVLDISNAEIKMYSGKAGTYPNGKFYIYMANFVPAYAFSNVVNGVTKGKQT  102 (329)
T ss_dssp             HHHHCSEEEEEEEECHHHHHHHHHSCTTCCEEEEEEEEECCEEESSSSSGGGCCEEECTTEECTTTTEEEETTEEEECTT
T ss_pred             hhCceeEEEEeccccHHHHHHHHHhhccCeEEecCcceeEEecCccccccccccccccccccCHHHhcccccccccccCC
Confidence            456788888886521 11111222 789999999999877                    455566777        888


Q ss_pred             ccEEEccCCCCCccCCccccCCCCCCEEeccCCCCcccchh-hhcCCCCCEEeccCCc---CCCCCchhhhh--------
Q 038398          542 LRVFNMSNNHLLWKLPSGISTLVSLEHLDLSSTAITHLPIE-LQKLVNLKCLNLEYMN---NLNQFPRLVIS--------  609 (720)
Q Consensus       542 L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~~~i~~lp~~-i~~l~~L~~L~l~~~~---~l~~lp~~~~~--------  609 (720)
                      |+.|+|.+ .+...-+..|.++.+|+.|+++.|.+..++.. |..+.++..+.+....   ....+....+.        
T Consensus       103 L~~l~L~~-~i~~I~~~aF~~~~~L~~l~l~~n~i~~i~~~aF~~~~~l~~l~~~~~~~~~~~~~i~~~~f~~~~~L~~~  181 (329)
T 3sb4_A          103 LEKVILSE-KIKNIEDAAFKGCDNLKICQIRKKTAPNLLPEALADSVTAIFIPLGSSDAYRFKNRWEHFAFIEGEPLETT  181 (329)
T ss_dssp             CCC-CBCT-TCCEECTTTTTTCTTCCEEEBCCSSCCEECTTSSCTTTCEEEECTTCTHHHHTSTTTTTSCEEESCCCEEE
T ss_pred             CcEEECCc-cccchhHHHhhcCcccceEEcCCCCccccchhhhcCCCceEEecCcchhhhhcccccccccccccccccee
Confidence            88888888 35544456788888888888888887777544 6666666655543310   00111110011        


Q ss_pred             ------------------------------------------ccccCceeeccccCCCcccchhcccccCCccccHHHhc
Q 038398          610 ------------------------------------------AFSKLQVLRMFDCGGSKIERLKINVLFGGHQFLVEELM  647 (720)
Q Consensus       610 ------------------------------------------~l~~L~~L~~~~~~~~~l~~l~~~~~~~~~~~~~~~l~  647 (720)
                                                                .+++|+.|++.+   |.+..++..           .+.
T Consensus       182 i~~~~~~~l~~~~~~~~~~~~~~~~l~~~~~l~~~~~~~l~~~~~~L~~l~L~~---n~i~~I~~~-----------aF~  247 (329)
T 3sb4_A          182 IQVGAMGKLEDEIMKAGLQPRDINFLTIEGKLDNADFKLIRDYMPNLVSLDISK---TNATTIPDF-----------TFA  247 (329)
T ss_dssp             EEECTTCCHHHHHHHTTCCGGGCSEEEEEECCCHHHHHHHHHHCTTCCEEECTT---BCCCEECTT-----------TTT
T ss_pred             EEecCCCcHHHHHhhcccCccccceEEEeeeecHHHHHHHHHhcCCCeEEECCC---CCcceecHh-----------hhh
Confidence                                                      134444444432   333333332           244


Q ss_pred             CCCCCceeEEEecchhhHHHHhhhhhhhhhcc-ccccccccCCCccccccccccCCcceeeecCC
Q 038398          648 GMKHLMVLTITLKSWQALKELLISQELQRSTQ-SLFLRCFNDSKSLDIFCLAGLRNLNKLYVAGC  711 (720)
Q Consensus       648 ~l~~L~~L~~~~~~~~~l~~l~~~~~~~~~L~-~L~l~~~~~l~~l~~~~l~~l~~L~~L~l~~c  711 (720)
                      ++++|+.+.+..+ +..++  ...+..+++|+ .+.+.+  .++.++...|.++++|+.|+++++
T Consensus       248 ~~~~L~~l~l~~n-i~~I~--~~aF~~~~~L~~~l~l~~--~l~~I~~~aF~~c~~L~~l~l~~n  307 (329)
T 3sb4_A          248 QKKYLLKIKLPHN-LKTIG--QRVFSNCGRLAGTLELPA--SVTAIEFGAFMGCDNLRYVLATGD  307 (329)
T ss_dssp             TCTTCCEEECCTT-CCEEC--TTTTTTCTTCCEEEEECT--TCCEECTTTTTTCTTEEEEEECSS
T ss_pred             CCCCCCEEECCcc-cceeh--HHHhhCChhccEEEEEcc--cceEEchhhhhCCccCCEEEeCCC
Confidence            5677777776643 32222  12345556777 888775  577777778888888888888543

>3un9_A NLR family member X1; leucine rich repeat (LRR), antiviral signaling, MAVS, TRAF6, UQCRC2, immune system; 2.65A {Homo sapiens}

Probab=98.60  E-value=1.4e-08  Score=106.60  Aligned_cols=159  Identities=14%  Similarity=0.077  Sum_probs=83.2

Q ss_pred             cceeEEEecccccccCCC------C-CCCCcccEEEccCCCCcCcch-HHhccCCcccEEEccCCCCCccCCccc-----
Q 038398          494 RNVRRMSLMKNKIENLSE------T-PTCPHLLSLFLSDNSLKMSTD-DFFQSMPSLRVFNMSNNHLLWKLPSGI-----  560 (720)
Q Consensus       494 ~~l~~L~l~~~~~~~~~~------~-~~~~~L~~L~l~~~~~~~~~~-~~~~~l~~L~~L~L~~~~~~~~lp~~i-----  560 (720)
                      +.++.|++++|.+.....      + ..+++|+.|++++|.++.... .....+++|++|+|++|.+...-...+     
T Consensus        72 ~~L~~L~Ls~n~l~~~~~~~l~~~L~~~~~~L~~L~Ls~n~l~~~~~~~l~~~L~~L~~L~Ls~n~l~~~~~~~L~~~L~  151 (372)
T 3un9_A           72 SSLRQLNLAGVRMTPVKCTVVAAVLGSGRHALDEVNLASCQLDPAGLRTLLPVFLRARKLGLQLNSLGPEACKDLRDLLL  151 (372)
T ss_dssp             TTCCEEECTTSCCCHHHHHHHHHHHSSCSSCEEEEECTTCCCCHHHHHHTHHHHHTEEEEECCSSCCCHHHHHHHHHHHH
T ss_pred             hhCCEEEecCCCCCHHHHHHHHHHHhhCCCCceEEEecCCCCCHHHHHHHHHHHHhccHhhcCCCCCCHHHHHHHHHHHH
Confidence            356677777776643211      0 233577777777776644322 222345567777777775443322222     


Q ss_pred             cCCCCCCEEeccCCCCcc-----cchhhhcCCCCCEEeccCCcCCCCCc----hhhhhccccCceeeccccCCCcccchh
Q 038398          561 STLVSLEHLDLSSTAITH-----LPIELQKLVNLKCLNLEYMNNLNQFP----RLVISAFSKLQVLRMFDCGGSKIERLK  631 (720)
Q Consensus       561 ~~l~~L~~L~L~~~~i~~-----lp~~i~~l~~L~~L~l~~~~~l~~lp----~~~~~~l~~L~~L~~~~~~~~~l~~l~  631 (720)
                      ...++|++|+|++|.|+.     ++..+..+++|++|+|++| .+....    ...+...++|+.|++.+|   .+....
T Consensus       152 ~~~~~L~~L~Ls~n~l~~~~~~~l~~~L~~~~~L~~L~Ls~N-~l~~~g~~~L~~~L~~~~~L~~L~Ls~N---~i~~~g  227 (372)
T 3un9_A          152 HDQCQITTLRLSNNPLTAAGVAVLMEGLAGNTSVTHLSLLHT-GLGDEGLELLAAQLDRNRQLQELNVAYN---GAGDTA  227 (372)
T ss_dssp             STTCCCCEEECCSSCCHHHHHHHHHHHHHTCSSCCEEECTTS-SCHHHHHHHHHHHGGGCSCCCEEECCSS---CCCHHH
T ss_pred             hcCCccceeeCCCCCCChHHHHHHHHHHhcCCCcCEEeCCCC-CCCcHHHHHHHHHHhcCCCcCeEECCCC---CCCHHH
Confidence            234667777777777653     4445566777777777774 222211    011344455666655543   332111


Q ss_pred             cccccCCccccHHHhcCCCCCceeEEEecchh
Q 038398          632 INVLFGGHQFLVEELMGMKHLMVLTITLKSWQ  663 (720)
Q Consensus       632 ~~~~~~~~~~~~~~l~~l~~L~~L~~~~~~~~  663 (720)
                             ...+...+..++.|+.|++++|.+.
T Consensus       228 -------~~~l~~~L~~~~~L~~L~Ls~N~i~  252 (372)
T 3un9_A          228 -------ALALARAAREHPSLELLHLYFNELS  252 (372)
T ss_dssp             -------HHHHHHHHHHCSSCCEEECTTSSCC
T ss_pred             -------HHHHHHHHHhCCCCCEEeccCCCCC
Confidence                   0112334445666777777666654

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii}

Probab=98.59  E-value=2.3e-07  Score=93.74  Aligned_cols=176  Identities=21%  Similarity=0.212  Sum_probs=102.0

Q ss_pred             CCCcCchHHHHHHHHHhcC-------------CCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCH
Q 038398          126 EPTVGLESTFDKVWRCLGE-------------EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQL  192 (720)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~-------------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~  192 (720)
                      ++++|.+..++++.+.+..             .....+.|+|++|+|||+||+.+++..   ...   .+.+..+.-.  
T Consensus        17 ~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~G~~GtGKT~la~~la~~~---~~~---~~~v~~~~~~--   88 (285)
T 3h4m_A           17 EDIGGLEKQMQEIREVVELPLKHPELFEKVGIEPPKGILLYGPPGTGKTLLAKAVATET---NAT---FIRVVGSELV--   88 (285)
T ss_dssp             GGSCSCHHHHHHHHHHTHHHHHCHHHHHHHCCCCCSEEEEESSSSSSHHHHHHHHHHHT---TCE---EEEEEGGGGC--
T ss_pred             HHhcCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCeEEEECCCCCcHHHHHHHHHHHh---CCC---EEEEehHHHH--
Confidence            5689999999999887632             345679999999999999999999886   222   2233322110  


Q ss_pred             HHHHHHHHHHhCCCCCccCCCChhHHHHHHH-HHhccCcEEEEEecccccc----------------ccccccccCC--C
Q 038398          193 EKIQEKIGRRIGFFDESWKNGSLEDKTSDIL-RILGKKKFLLLLDDIWERV----------------DLTKVGIPFP--D  253 (720)
Q Consensus       193 ~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~-~~l~~k~~LlVlDdv~~~~----------------~~~~l~~~~~--~  253 (720)
                                  ..    ...........+. ......+.+|+|||++...                .+..+...+.  .
T Consensus        89 ------------~~----~~~~~~~~~~~~~~~~~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~  152 (285)
T 3h4m_A           89 ------------KK----FIGEGASLVKDIFKLAKEKAPSIIFIDEIDAIAAKRTDALTGGDREVQRTLMQLLAEMDGFD  152 (285)
T ss_dssp             ------------CC----STTHHHHHHHHHHHHHHHTCSEEEEEETTHHHHBCCSSSCCGGGGHHHHHHHHHHHHHHTTC
T ss_pred             ------------Hh----ccchHHHHHHHHHHHHHHcCCeEEEEECHHHhcccCccccCCccHHHHHHHHHHHHHhhCCC
Confidence                        00    0111112222222 2233467899999996421                0111111111  1


Q ss_pred             CCCCcEEEEEcCChhHhh-----hhccCceeeccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCC-cchHHH
Q 038398          254 PENKSKIVFTTHFLEICG-----ALKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAG-LPLALI  327 (720)
Q Consensus       254 ~~~gs~iiiTtR~~~v~~-----~~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~G-lPLai~  327 (720)
                      ...+..||.||.......     .......+.++.++.++..+++...+..........    ...+++.+.| .|-.+.
T Consensus       153 ~~~~~~vI~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~il~~~~~~~~~~~~~~----~~~l~~~~~g~~~~~i~  228 (285)
T 3h4m_A          153 ARGDVKIIGATNRPDILDPAILRPGRFDRIIEVPAPDEKGRLEILKIHTRKMNLAEDVN----LEEIAKMTEGCVGAELK  228 (285)
T ss_dssp             SSSSEEEEEECSCGGGBCHHHHSTTSEEEEEECCCCCHHHHHHHHHHHHTTSCBCTTCC----HHHHHHHCTTCCHHHHH
T ss_pred             CCCCEEEEEeCCCchhcCHHHcCCCcCCeEEEECCCCHHHHHHHHHHHHhcCCCCCcCC----HHHHHHHcCCCCHHHHH
Confidence            223566777876543321     111224688999999999999998876543222222    4567777777 454554


Q ss_pred             HH
Q 038398          328 TI  329 (720)
Q Consensus       328 ~~  329 (720)
                      .+
T Consensus       229 ~l  230 (285)
T 3h4m_A          229 AI  230 (285)
T ss_dssp             HH
T ss_pred             HH
Confidence            44

>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=98.56  E-value=2.6e-07  Score=96.60  Aligned_cols=194  Identities=12%  Similarity=0.158  Sum_probs=110.0

Q ss_pred             CCCCcCchHHHHHHHHHhcCCCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCc-CEEEEEEecCcCCHHHHHHHHHHHh
Q 038398          125 CEPTVGLESTFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVF-DVVIWVVVSKDLQLEKIQEKIGRRI  203 (720)
Q Consensus       125 ~~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f-~~~~wv~v~~~~~~~~~~~~i~~~l  203 (720)
                      ...++|+++.++.+..++..+..+.+.|+|++|+||||+|+.+++... ....+ ..++.+..+.......+...+....
T Consensus        36 ~~~i~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~la~~la~~l~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  114 (353)
T 1sxj_D           36 LDEVTAQDHAVTVLKKTLKSANLPHMLFYGPPGTGKTSTILALTKELY-GPDLMKSRILELNASDERGISIVREKVKNFA  114 (353)
T ss_dssp             TTTCCSCCTTHHHHHHHTTCTTCCCEEEECSTTSSHHHHHHHHHHHHH-HHHHHTTSEEEECSSSCCCHHHHTTHHHHHH
T ss_pred             HHHhhCCHHHHHHHHHHHhcCCCCEEEEECCCCCCHHHHHHHHHHHhC-CCcccccceEEEccccccchHHHHHHHHHHh
Confidence            367899999999999999876555589999999999999999988751 00011 1233344333333332222111111


Q ss_pred             CCCCCccCCCChhHHHHHHHHHhccCcEEEEEecccccc--ccccccccCCCCCCCcEEEEEcCChh-Hhhh-hccCcee
Q 038398          204 GFFDESWKNGSLEDKTSDILRILGKKKFLLLLDDIWERV--DLTKVGIPFPDPENKSKIVFTTHFLE-ICGA-LKAHEFL  279 (720)
Q Consensus       204 ~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~--~~~~l~~~~~~~~~gs~iiiTtR~~~-v~~~-~~~~~~~  279 (720)
                      .....  ..  ...   .....-.+++-++++|+++...  ....+...+.......++|++|.... +... ......+
T Consensus       115 ~~~~~--~~--~~~---~~~~~~~~~~~vliiDE~~~l~~~~~~~Ll~~le~~~~~~~~il~~~~~~~l~~~l~sR~~~i  187 (353)
T 1sxj_D          115 RLTVS--KP--SKH---DLENYPCPPYKIIILDEADSMTADAQSALRRTMETYSGVTRFCLICNYVTRIIDPLASQCSKF  187 (353)
T ss_dssp             HSCCC--CC--CTT---HHHHSCCCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHHHSEEE
T ss_pred             hhccc--cc--chh---hcccCCCCCceEEEEECCCccCHHHHHHHHHHHHhcCCCceEEEEeCchhhCcchhhccCceE
Confidence            00000  00  000   0001112355799999986532  22222222222233566777765432 2111 1122478


Q ss_pred             eccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCcchHHHHH
Q 038398          280 KVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGLPLALITI  329 (720)
Q Consensus       280 ~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~GlPLai~~~  329 (720)
                      .+.+++.++....+...+......   --.+....|++.++|.|-.+..+
T Consensus       188 ~~~~~~~~~~~~~l~~~~~~~~~~---i~~~~l~~l~~~~~G~~r~~~~~  234 (353)
T 1sxj_D          188 RFKALDASNAIDRLRFISEQENVK---CDDGVLERILDISAGDLRRGITL  234 (353)
T ss_dssp             ECCCCCHHHHHHHHHHHHHTTTCC---CCHHHHHHHHHHTSSCHHHHHHH
T ss_pred             EeCCCCHHHHHHHHHHHHHHhCCC---CCHHHHHHHHHHcCCCHHHHHHH
Confidence            899999999999998876543211   22567889999999998764433

>3pvs_A Replication-associated recombination protein A; maintenance of genome stability Pro recombination; 2.50A {Escherichia coli}

Probab=98.54  E-value=1.4e-06  Score=93.14  Aligned_cols=176  Identities=15%  Similarity=0.125  Sum_probs=104.5

Q ss_pred             CCCCCcCchHHH---HHHHHHhcCCCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCc-CCHHHHHHHH
Q 038398          124 PCEPTVGLESTF---DKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKD-LQLEKIQEKI  199 (720)
Q Consensus       124 ~~~~~vGr~~~~---~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~-~~~~~~~~~i  199 (720)
                      ..+++||.+..+   ..+...+..+....+.|+|++|+||||+|+.+++..   ...|     +.++.. .....+ +.+
T Consensus        24 ~l~~ivGq~~~~~~~~~L~~~i~~~~~~~vLL~GppGtGKTtlAr~ia~~~---~~~f-----~~l~a~~~~~~~i-r~~   94 (447)
T 3pvs_A           24 NLAQYIGQQHLLAAGKPLPRAIEAGHLHSMILWGPPGTGKTTLAEVIARYA---NADV-----ERISAVTSGVKEI-REA   94 (447)
T ss_dssp             STTTCCSCHHHHSTTSHHHHHHHHTCCCEEEEECSTTSSHHHHHHHHHHHT---TCEE-----EEEETTTCCHHHH-HHH
T ss_pred             CHHHhCCcHHHHhchHHHHHHHHcCCCcEEEEECCCCCcHHHHHHHHHHHh---CCCe-----EEEEeccCCHHHH-HHH
Confidence            346789999988   778888877777889999999999999999999886   2222     222221 122211 111


Q ss_pred             HHHhCCCCCccCCCChhHHHHHHH-HHhccCcEEEEEeccccc--cccccccccCCCCCCCcEEEE-EcCChhH---hhh
Q 038398          200 GRRIGFFDESWKNGSLEDKTSDIL-RILGKKKFLLLLDDIWER--VDLTKVGIPFPDPENKSKIVF-TTHFLEI---CGA  272 (720)
Q Consensus       200 ~~~l~~~~~~~~~~~~~~~~~~l~-~~l~~k~~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~iii-TtR~~~v---~~~  272 (720)
                      +                   .... ....+++.+|+||+++..  ...+.+...+.. + ...+|. ||.+...   ...
T Consensus        95 ~-------------------~~a~~~~~~~~~~iLfIDEI~~l~~~~q~~LL~~le~-~-~v~lI~att~n~~~~l~~aL  153 (447)
T 3pvs_A           95 I-------------------ERARQNRNAGRRTILFVDEVHRFNKSQQDAFLPHIED-G-TITFIGATTENPSFELNSAL  153 (447)
T ss_dssp             H-------------------HHHHHHHHTTCCEEEEEETTTCC------CCHHHHHT-T-SCEEEEEESSCGGGSSCHHH
T ss_pred             H-------------------HHHHHhhhcCCCcEEEEeChhhhCHHHHHHHHHHHhc-C-ceEEEecCCCCcccccCHHH
Confidence            1                   1111 112457889999999753  233333322222 1 233333 5555431   111


Q ss_pred             hccCceeeccCCChhhHHHHHHHHhccCcc----CCCCChHHHHHHHHHHhCCcchHHHHH
Q 038398          273 LKAHEFLKVECLGPEDAWRLFRENLRRDVL----DNHPDIPELARSVAQECAGLPLALITI  329 (720)
Q Consensus       273 ~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~----~~~~~~~~~~~~i~~~c~GlPLai~~~  329 (720)
                      ......+.+++++.++...++.+.+.....    ....--.+....|++.++|.+-.+..+
T Consensus       154 ~sR~~v~~l~~l~~edi~~il~~~l~~~~~~~~~~~~~i~~~al~~L~~~~~Gd~R~lln~  214 (447)
T 3pvs_A          154 LSRARVYLLKSLSTEDIEQVLTQAMEDKTRGYGGQDIVLPDETRRAIAELVNGDARRALNT  214 (447)
T ss_dssp             HTTEEEEECCCCCHHHHHHHHHHHHHCTTTSSTTSSEECCHHHHHHHHHHHCSCHHHHHHH
T ss_pred             hCceeEEeeCCcCHHHHHHHHHHHHHHHhhhhccccCcCCHHHHHHHHHHCCCCHHHHHHH
Confidence            222357889999999999999888754210    011123567788888899877654433

>4fdw_A Leucine rich hypothetical protein; putative cell surface protein, BIG3 domain, LRR domain, STRU genomics; 2.05A {Bacteroides ovatus} PDB: 4fd0_A

Probab=98.54  E-value=2.8e-07  Score=97.64  Aligned_cols=198  Identities=13%  Similarity=0.129  Sum_probs=96.0

Q ss_pred             ccccccceeEEEecccccccCCCC-CCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCccCCccccCCCCCC
Q 038398          489 EIQNWRNVRRMSLMKNKIENLSET-PTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVSLE  567 (720)
Q Consensus       489 ~~~~~~~l~~L~l~~~~~~~~~~~-~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~  567 (720)
                      .|.++.+|+.+.+..|.+..++.. ..+.+|+.+.+..+ ++.+....|.++++|+.++|..+ ....-...|.+ .+|+
T Consensus       175 aF~~c~~L~~l~l~~n~l~~I~~~aF~~~~L~~l~lp~~-l~~I~~~aF~~~~~L~~l~l~~~-l~~I~~~aF~~-~~L~  251 (401)
T 4fdw_A          175 IFYYCYNLKKADLSKTKITKLPASTFVYAGIEEVLLPVT-LKEIGSQAFLKTSQLKTIEIPEN-VSTIGQEAFRE-SGIT  251 (401)
T ss_dssp             TTTTCTTCCEEECTTSCCSEECTTTTTTCCCSEEECCTT-CCEECTTTTTTCTTCCCEECCTT-CCEECTTTTTT-CCCS
T ss_pred             HhhCcccCCeeecCCCcceEechhhEeecccCEEEeCCc-hheehhhHhhCCCCCCEEecCCC-ccCcccccccc-CCcc
Confidence            345555666666666555554432 23456666666533 55555555666666666666554 32222333444 5566


Q ss_pred             EEeccCCCCcccc-hhhhcCCCCCEEeccCCcC----CCCCchhhhhccccCceeeccccCCCcccchhcccccCCcccc
Q 038398          568 HLDLSSTAITHLP-IELQKLVNLKCLNLEYMNN----LNQFPRLVISAFSKLQVLRMFDCGGSKIERLKINVLFGGHQFL  642 (720)
Q Consensus       568 ~L~L~~~~i~~lp-~~i~~l~~L~~L~l~~~~~----l~~lp~~~~~~l~~L~~L~~~~~~~~~l~~l~~~~~~~~~~~~  642 (720)
                      .+.+. +.++.++ ..|.++++|+.+++.++..    ...++...+..+++|+.+.+.+    .+..++...        
T Consensus       252 ~i~lp-~~i~~I~~~aF~~c~~L~~l~l~~~~~~~~~~~~I~~~aF~~c~~L~~l~l~~----~i~~I~~~a--------  318 (401)
T 4fdw_A          252 TVKLP-NGVTNIASRAFYYCPELAEVTTYGSTFNDDPEAMIHPYCLEGCPKLARFEIPE----SIRILGQGL--------  318 (401)
T ss_dssp             EEEEE-TTCCEECTTTTTTCTTCCEEEEESSCCCCCTTCEECTTTTTTCTTCCEECCCT----TCCEECTTT--------
T ss_pred             EEEeC-CCccEEChhHhhCCCCCCEEEeCCccccCCcccEECHHHhhCCccCCeEEeCC----ceEEEhhhh--------
Confidence            66663 3355553 2356666666666655211    1135555555566666555541    232222222        


Q ss_pred             HHHhcCCCCCceeEEEecchhhHHHHhhhhhhhhhccccccccccCCCccccccccccC-CcceeeecC
Q 038398          643 VEELMGMKHLMVLTITLKSWQALKELLISQELQRSTQSLFLRCFNDSKSLDIFCLAGLR-NLNKLYVAG  710 (720)
Q Consensus       643 ~~~l~~l~~L~~L~~~~~~~~~l~~l~~~~~~~~~L~~L~l~~~~~l~~l~~~~l~~l~-~L~~L~l~~  710 (720)
                         +.+|++|+.+.+.. .+..+.  ...+..+ +|+.+.+.+ +.+..++...|.+++ +++.|++-.
T Consensus       319 ---F~~c~~L~~l~lp~-~l~~I~--~~aF~~~-~L~~l~l~~-n~~~~l~~~~F~~~~~~l~~l~vp~  379 (401)
T 4fdw_A          319 ---LGGNRKVTQLTIPA-NVTQIN--FSAFNNT-GIKEVKVEG-TTPPQVFEKVWYGFPDDITVIRVPA  379 (401)
T ss_dssp             ---TTTCCSCCEEEECT-TCCEEC--TTSSSSS-CCCEEEECC-SSCCBCCCSSCCCSCTTCCEEEECG
T ss_pred             ---hcCCCCccEEEECc-cccEEc--HHhCCCC-CCCEEEEcC-CCCcccccccccCCCCCccEEEeCH
Confidence               33455566665532 122111  1123333 566666665 334444444455553 555555543

>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=98.54  E-value=8.3e-07  Score=97.42  Aligned_cols=190  Identities=12%  Similarity=0.063  Sum_probs=109.5

Q ss_pred             CCCcCchHHHHHHHHHhcC-----------------CCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecC
Q 038398          126 EPTVGLESTFDKVWRCLGE-----------------EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSK  188 (720)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~-----------------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~  188 (720)
                      .+++|++..++++..++..                 +..+.+.|+|++|+||||+|+.+++..   .  + .++.++.+.
T Consensus        39 ~dliG~~~~~~~L~~~l~~~~~~~~~~~~~~g~~~~~~~~~lLL~GppGtGKTtla~~la~~l---~--~-~~i~in~s~  112 (516)
T 1sxj_A           39 QQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVAQEL---G--Y-DILEQNASD  112 (516)
T ss_dssp             GGCCSCHHHHHHHHHHHHTHHHHHHTTTCCCCTTSTTSCSEEEEECSTTSSHHHHHHHHHHHT---T--C-EEEEECTTS
T ss_pred             HHhcCCHHHHHHHHHHHHHhHhhchhhccccCccCCCCCcEEEEECCCCCCHHHHHHHHHHHc---C--C-CEEEEeCCC
Confidence            5689999999999999864                 134789999999999999999999886   1  1 244555554


Q ss_pred             cCCHHHHHHHHHHHhCCCCCccCCCChhHHHHHHHH--HhccCcEEEEEeccccccc-----cccccccCCCCCCCcEEE
Q 038398          189 DLQLEKIQEKIGRRIGFFDESWKNGSLEDKTSDILR--ILGKKKFLLLLDDIWERVD-----LTKVGIPFPDPENKSKIV  261 (720)
Q Consensus       189 ~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~--~l~~k~~LlVlDdv~~~~~-----~~~l~~~~~~~~~gs~ii  261 (720)
                      ...... ....+.......      ..........+  ...+++.+|++|+++....     +..+...+..  .+..||
T Consensus       113 ~~~~~~-~~~~i~~~~~~~------~~~~~~~~~~~~~~~~~~~~vliIDEid~l~~~~~~~l~~L~~~l~~--~~~~iI  183 (516)
T 1sxj_A          113 VRSKTL-LNAGVKNALDNM------SVVGYFKHNEEAQNLNGKHFVIIMDEVDGMSGGDRGGVGQLAQFCRK--TSTPLI  183 (516)
T ss_dssp             CCCHHH-HHHTGGGGTTBC------CSTTTTTC----CCSSTTSEEEEECSGGGCCTTSTTHHHHHHHHHHH--CSSCEE
T ss_pred             cchHHH-HHHHHHHHhccc------cHHHHHhhhhhhhhccCCCeEEEEECCCccchhhHHHHHHHHHHHHh--cCCCEE
Confidence            444332 222222211100      00000000000  1135788999999975321     1222111111  233455


Q ss_pred             EEcCChh---HhhhhccCceeeccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCC-cchHHHHHHHHH
Q 038398          262 FTTHFLE---ICGALKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAG-LPLALITIGRAM  333 (720)
Q Consensus       262 iTtR~~~---v~~~~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~G-lPLai~~~~~~l  333 (720)
                      +++....   +.........+.+++++.++..+++...+.......+   .+....|++.++| ++.++..+..+.
T Consensus       184 li~~~~~~~~l~~l~~r~~~i~f~~~~~~~~~~~L~~i~~~~~~~i~---~~~l~~la~~s~GdiR~~i~~L~~~~  256 (516)
T 1sxj_A          184 LICNERNLPKMRPFDRVCLDIQFRRPDANSIKSRLMTIAIREKFKLD---PNVIDRLIQTTRGDIRQVINLLSTIS  256 (516)
T ss_dssp             EEESCTTSSTTGGGTTTSEEEECCCCCHHHHHHHHHHHHHHHTCCCC---TTHHHHHHHHTTTCHHHHHHHHTHHH
T ss_pred             EEEcCCCCccchhhHhceEEEEeCCCCHHHHHHHHHHHHHHcCCCCC---HHHHHHHHHHcCCcHHHHHHHHHHHH
Confidence            5544322   2222222356899999999999999887654332222   2457788999998 566677665443

>4fdw_A Leucine rich hypothetical protein; putative cell surface protein, BIG3 domain, LRR domain, STRU genomics; 2.05A {Bacteroides ovatus} PDB: 4fd0_A

Probab=98.53  E-value=4.1e-07  Score=96.39  Aligned_cols=37  Identities=11%  Similarity=0.222  Sum_probs=21.7

Q ss_pred             hhhhhccccccccccCCCccccccccccCCcceeeecCCC
Q 038398          673 ELQRSTQSLFLRCFNDSKSLDIFCLAGLRNLNKLYVAGCK  712 (720)
Q Consensus       673 ~~~~~L~~L~l~~~~~l~~l~~~~l~~l~~L~~L~l~~c~  712 (720)
                      ..+++|+.+.|.  ++++.++...|.++ +|+.|++.++.
T Consensus       320 ~~c~~L~~l~lp--~~l~~I~~~aF~~~-~L~~l~l~~n~  356 (401)
T 4fdw_A          320 GGNRKVTQLTIP--ANVTQINFSAFNNT-GIKEVKVEGTT  356 (401)
T ss_dssp             TTCCSCCEEEEC--TTCCEECTTSSSSS-CCCEEEECCSS
T ss_pred             cCCCCccEEEEC--ccccEEcHHhCCCC-CCCEEEEcCCC
Confidence            334456666664  23556655566666 67777776653

>3un9_A NLR family member X1; leucine rich repeat (LRR), antiviral signaling, MAVS, TRAF6, UQCRC2, immune system; 2.65A {Homo sapiens}

Probab=98.50  E-value=3.6e-08  Score=103.49  Aligned_cols=172  Identities=13%  Similarity=0.077  Sum_probs=112.3

Q ss_pred             CCcccEEEccCCCCcCcchHHhcc-----CCcccEEEccCCCCCccCCccc-cCCCCCCEEeccCCCCcccc-----hhh
Q 038398          515 CPHLLSLFLSDNSLKMSTDDFFQS-----MPSLRVFNMSNNHLLWKLPSGI-STLVSLEHLDLSSTAITHLP-----IEL  583 (720)
Q Consensus       515 ~~~L~~L~l~~~~~~~~~~~~~~~-----l~~L~~L~L~~~~~~~~lp~~i-~~l~~L~~L~L~~~~i~~lp-----~~i  583 (720)
                      .++|+.|++++|.++......+..     .++|++|+|++|.+...-...+ ..+.+|++|+|++|.++...     ..+
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            467899999999887655443333     3799999999996654322233 34678999999999987432     222


Q ss_pred             -hcCCCCCEEeccCCcCCCC-----CchhhhhccccCceeeccccCCCcccchhcccccCCccccHHHhcCCCCCceeEE
Q 038398          584 -QKLVNLKCLNLEYMNNLNQ-----FPRLVISAFSKLQVLRMFDCGGSKIERLKINVLFGGHQFLVEELMGMKHLMVLTI  657 (720)
Q Consensus       584 -~~l~~L~~L~l~~~~~l~~-----lp~~~~~~l~~L~~L~~~~~~~~~l~~l~~~~~~~~~~~~~~~l~~l~~L~~L~~  657 (720)
                       ...++|++|+|++| .+..     ++. .+..+++|++|++.+   |.+....       ...+...+..+++|+.|++
T Consensus       151 ~~~~~~L~~L~Ls~n-~l~~~~~~~l~~-~L~~~~~L~~L~Ls~---N~l~~~g-------~~~L~~~L~~~~~L~~L~L  218 (372)
T 3un9_A          151 LHDQCQITTLRLSNN-PLTAAGVAVLME-GLAGNTSVTHLSLLH---TGLGDEG-------LELLAAQLDRNRQLQELNV  218 (372)
T ss_dssp             HSTTCCCCEEECCSS-CCHHHHHHHHHH-HHHTCSSCCEEECTT---SSCHHHH-------HHHHHHHGGGCSCCCEEEC
T ss_pred             HhcCCccceeeCCCC-CCChHHHHHHHH-HHhcCCCcCEEeCCC---CCCCcHH-------HHHHHHHHhcCCCcCeEEC
Confidence             24688999999996 3332     222 135567777777665   4443221       1123455677889999999


Q ss_pred             EecchhhHH--HHhhhhhhhhhccccccccccCCCccccccccc
Q 038398          658 TLKSWQALK--ELLISQELQRSTQSLFLRCFNDSKSLDIFCLAG  699 (720)
Q Consensus       658 ~~~~~~~l~--~l~~~~~~~~~L~~L~l~~~~~l~~l~~~~l~~  699 (720)
                      +.|.+....  .+.......++|+.|+|++| .++......+..
T Consensus       219 s~N~i~~~g~~~l~~~L~~~~~L~~L~Ls~N-~i~~~g~~~L~~  261 (372)
T 3un9_A          219 AYNGAGDTAALALARAAREHPSLELLHLYFN-ELSSEGRQVLRD  261 (372)
T ss_dssp             CSSCCCHHHHHHHHHHHHHCSSCCEEECTTS-SCCHHHHHHHHH
T ss_pred             CCCCCCHHHHHHHHHHHHhCCCCCEEeccCC-CCCHHHHHHHHH
Confidence            998876533  34444445568999999984 455554444433

>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=98.47  E-value=6.9e-06  Score=82.13  Aligned_cols=192  Identities=16%  Similarity=0.090  Sum_probs=106.1

Q ss_pred             CCCcCchHHHHHHHH-------Hhc---CCCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHH
Q 038398          126 EPTVGLESTFDKVWR-------CLG---EEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKI  195 (720)
Q Consensus       126 ~~~vGr~~~~~~l~~-------~L~---~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~  195 (720)
                      ..++|....++++..       .+.   ......+.|+|++|+|||++|+.+++..   ...|   +.+..+..      
T Consensus        33 ~~~i~~~~~~~~i~~~~~~l~~~l~~~~~~~~~~vLl~G~~GtGKT~la~~ia~~~---~~~~---~~i~~~~~------  100 (272)
T 1d2n_A           33 NGIIKWGDPVTRVLDDGELLVQQTKNSDRTPLVSVLLEGPPHSGKTALAAKIAEES---NFPF---IKICSPDK------  100 (272)
T ss_dssp             TCCCCCSHHHHHHHHHHHHHHHHHHHCSSCSEEEEEEECSTTSSHHHHHHHHHHHH---TCSE---EEEECGGG------
T ss_pred             cCCCCccHHHHHHHHHHHHHHHHHhccCCCCCeEEEEECCCCCcHHHHHHHHHHHh---CCCE---EEEeCHHH------
Confidence            467888887776665       232   3456789999999999999999999876   2222   22222210      


Q ss_pred             HHHHHHHhCCCCCccCCCChhH----HHHHHHHHhccCcEEEEEecccccc------------ccccccccCC---CCCC
Q 038398          196 QEKIGRRIGFFDESWKNGSLED----KTSDILRILGKKKFLLLLDDIWERV------------DLTKVGIPFP---DPEN  256 (720)
Q Consensus       196 ~~~i~~~l~~~~~~~~~~~~~~----~~~~l~~~l~~k~~LlVlDdv~~~~------------~~~~l~~~~~---~~~~  256 (720)
                             +       .......    ....+......+..+|+|||++...            .+..+...+.   ....
T Consensus       101 -------~-------~g~~~~~~~~~~~~~~~~~~~~~~~vl~iDEid~l~~~~~~~~~~~~~~l~~L~~~~~~~~~~~~  166 (272)
T 1d2n_A          101 -------M-------IGFSETAKCQAMKKIFDDAYKSQLSCVVVDDIERLLDYVPIGPRFSNLVLQALLVLLKKAPPQGR  166 (272)
T ss_dssp             -------C-------TTCCHHHHHHHHHHHHHHHHTSSEEEEEECCHHHHTTCBTTTTBCCHHHHHHHHHHTTCCCSTTC
T ss_pred             -------h-------cCCchHHHHHHHHHHHHHHHhcCCcEEEEEChhhhhccCCCChhHHHHHHHHHHHHhcCccCCCC
Confidence                   0       0011111    1122222334568899999986530            0111111111   1223


Q ss_pred             CcEEEEEcCChhHhhh---hcc-CceeeccCCCh-hhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCC------cchH
Q 038398          257 KSKIVFTTHFLEICGA---LKA-HEFLKVECLGP-EDAWRLFRENLRRDVLDNHPDIPELARSVAQECAG------LPLA  325 (720)
Q Consensus       257 gs~iiiTtR~~~v~~~---~~~-~~~~~l~~L~~-~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~G------lPLa  325 (720)
                      ...||.||........   ... ...+.+++++. ++...++....     .   --.+....|++.+.|      ++-+
T Consensus       167 ~~~ii~ttn~~~~l~~~~l~~rf~~~i~~p~l~~r~~i~~i~~~~~-----~---~~~~~~~~l~~~~~g~~~~g~ir~l  238 (272)
T 1d2n_A          167 KLLIIGTTSRKDVLQEMEMLNAFSTTIHVPNIATGEQLLEALELLG-----N---FKDKERTTIAQQVKGKKVWIGIKKL  238 (272)
T ss_dssp             EEEEEEEESCHHHHHHTTCTTTSSEEEECCCEEEHHHHHHHHHHHT-----C---SCHHHHHHHHHHHTTSEEEECHHHH
T ss_pred             CEEEEEecCChhhcchhhhhcccceEEcCCCccHHHHHHHHHHhcC-----C---CCHHHHHHHHHHhcCCCccccHHHH
Confidence            3446667776644332   111 35678888988 66666665431     1   114567888888888      3444


Q ss_pred             HHHHHHHHhcCCChhHHHHHHHHHhcc
Q 038398          326 LITIGRAMACKKTPQEWHYAIQVLRRS  352 (720)
Q Consensus       326 i~~~~~~l~~~~~~~~w~~~l~~l~~~  352 (720)
                      +..+-.+. .......+..+++.+...
T Consensus       239 ~~~l~~a~-~~~~~~~~~~~~~~l~~~  264 (272)
T 1d2n_A          239 LMLIEMSL-QMDPEYRVRKFLALLREE  264 (272)
T ss_dssp             HHHHHHHT-TSCGGGHHHHHHHHHHHT
T ss_pred             HHHHHHHh-hhchHHHHHHHHHHHHHc
Confidence            44444332 224556677777766554

>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable holliday junction DNA helicase; HET: ADP; 2.69A {Campylobacter jejuni subsp}

Probab=98.46  E-value=1.3e-05  Score=83.01  Aligned_cols=171  Identities=13%  Similarity=0.051  Sum_probs=100.5

Q ss_pred             CCCcCchHHHHHHHHHhcC-----CCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHHH
Q 038398          126 EPTVGLESTFDKVWRCLGE-----EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKIG  200 (720)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~-----~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i~  200 (720)
                      ++++|++..++++..++..     .....|.|+|++|+|||++|+.+++..   ...|   +.++.+.......+     
T Consensus        29 ~~iiG~~~~~~~l~~~l~~~~~~~~~~~~vll~G~~GtGKT~la~~ia~~~---~~~~---~~~~~~~~~~~~~~-----   97 (338)
T 3pfi_A           29 DGYIGQESIKKNLNVFIAAAKKRNECLDHILFSGPAGLGKTTLANIISYEM---SANI---KTTAAPMIEKSGDL-----   97 (338)
T ss_dssp             GGCCSCHHHHHHHHHHHHHHHHTTSCCCCEEEECSTTSSHHHHHHHHHHHT---TCCE---EEEEGGGCCSHHHH-----
T ss_pred             HHhCChHHHHHHHHHHHHHHHhcCCCCCeEEEECcCCCCHHHHHHHHHHHh---CCCe---EEecchhccchhHH-----
Confidence            5789999999999888853     344678999999999999999998876   2222   22332221111111     


Q ss_pred             HHhCCCCCccCCCChhHHHHHHHHHhccCcEEEEEecccccc--ccccccccC------------------CCCCCCcEE
Q 038398          201 RRIGFFDESWKNGSLEDKTSDILRILGKKKFLLLLDDIWERV--DLTKVGIPF------------------PDPENKSKI  260 (720)
Q Consensus       201 ~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~--~~~~l~~~~------------------~~~~~gs~i  260 (720)
                                        ...+..  ..+..+|+||+++...  ....+...+                  ....++..+
T Consensus        98 ------------------~~~~~~--~~~~~vl~lDEi~~l~~~~~~~Ll~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~  157 (338)
T 3pfi_A           98 ------------------AAILTN--LSEGDILFIDEIHRLSPAIEEVLYPAMEDYRLDIIIGSGPAAQTIKIDLPKFTL  157 (338)
T ss_dssp             ------------------HHHHHT--CCTTCEEEEETGGGCCHHHHHHHHHHHHTSCC---------CCCCCCCCCCCEE
T ss_pred             ------------------HHHHHh--ccCCCEEEEechhhcCHHHHHHHHHHHHhccchhhcccCccccceecCCCCeEE
Confidence                              111111  2356788889887531  111110000                  001113456


Q ss_pred             EEEcCChhH-hhh-h-ccCceeeccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCcchHHHHHH
Q 038398          261 VFTTHFLEI-CGA-L-KAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGLPLALITIG  330 (720)
Q Consensus       261 iiTtR~~~v-~~~-~-~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~GlPLai~~~~  330 (720)
                      |.+|..... ... . .....+.+++++.++...++...+.....   .--.+....+++.+.|.|-.+..+.
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            666654322 111 1 12357899999999999999887754321   1125667888889999986554433

>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=98.41  E-value=5.7e-07  Score=96.36  Aligned_cols=180  Identities=19%  Similarity=0.157  Sum_probs=105.2

Q ss_pred             CCCc-CchHH--HHHHHHHhcCCC-ceEEEEEcCCCChHHHHHHHHHhhhcCCCCCc--CEEEEEEecCcCCHHHHHHHH
Q 038398          126 EPTV-GLEST--FDKVWRCLGEEQ-VGIIGLYGMGGVGKTTLLTKINNKLLGAPNVF--DVVIWVVVSKDLQLEKIQEKI  199 (720)
Q Consensus       126 ~~~v-Gr~~~--~~~l~~~L~~~~-~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f--~~~~wv~v~~~~~~~~~~~~i  199 (720)
                      +.|| |....  ...+.......+ ...+.|+|++|+||||||+.+++..   ...+  ..+++++..      .+..++
T Consensus       105 d~fv~g~~n~~a~~~~~~~a~~~~~~~~lll~Gp~G~GKTtLa~aia~~l---~~~~~~~~v~~v~~~------~~~~~~  175 (440)
T 2z4s_A          105 ENFVVGPGNSFAYHAALEVAKHPGRYNPLFIYGGVGLGKTHLLQSIGNYV---VQNEPDLRVMYITSE------KFLNDL  175 (440)
T ss_dssp             GGCCCCTTTHHHHHHHHHHHHSTTSSCCEEEECSSSSSHHHHHHHHHHHH---HHHCCSSCEEEEEHH------HHHHHH
T ss_pred             hhcCCCCchHHHHHHHHHHHhCCCCCCeEEEECCCCCCHHHHHHHHHHHH---HHhCCCCeEEEeeHH------HHHHHH
Confidence            4455 65443  333444433332 5689999999999999999999876   2222  134555433      334444


Q ss_pred             HHHhCCCCCccCCCChhHHHHHHHHHhccCcEEEEEeccccccc----cccccccCCC-CCCCcEEEEEcCCh-------
Q 038398          200 GRRIGFFDESWKNGSLEDKTSDILRILGKKKFLLLLDDIWERVD----LTKVGIPFPD-PENKSKIVFTTHFL-------  267 (720)
Q Consensus       200 ~~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~----~~~l~~~~~~-~~~gs~iiiTtR~~-------  267 (720)
                      ...+...       .    ...+...+..+.-+|+|||++....    .+.+...+.. ...|..||+||.+.       
T Consensus       176 ~~~~~~~-------~----~~~~~~~~~~~~~vL~IDEi~~l~~~~~~q~~l~~~l~~l~~~~~~iIitt~~~~~~l~~l  244 (440)
T 2z4s_A          176 VDSMKEG-------K----LNEFREKYRKKVDILLIDDVQFLIGKTGVQTELFHTFNELHDSGKQIVICSDREPQKLSEF  244 (440)
T ss_dssp             HHHHHTT-------C----HHHHHHHHTTTCSEEEEECGGGGSSCHHHHHHHHHHHHHHHTTTCEEEEEESSCGGGCSSC
T ss_pred             HHHHHcc-------c----HHHHHHHhcCCCCEEEEeCcccccCChHHHHHHHHHHHHHHHCCCeEEEEECCCHHHHHHH
Confidence            4444211       1    1223344444677999999975321    1222211110 13467888888752       


Q ss_pred             --hHhhhhccCceeeccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCcchHHHH
Q 038398          268 --EICGALKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGLPLALIT  328 (720)
Q Consensus       268 --~v~~~~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~GlPLai~~  328 (720)
                        .+...+.....+.+++++.++..+++.+.+.......+   .+....|++.++|.+-.+.-
T Consensus       245 ~~~L~sR~~~g~~i~l~~p~~e~r~~iL~~~~~~~~~~i~---~e~l~~la~~~~gn~R~l~~  304 (440)
T 2z4s_A          245 QDRLVSRFQMGLVAKLEPPDEETRKSIARKMLEIEHGELP---EEVLNFVAENVDDNLRRLRG  304 (440)
T ss_dssp             CHHHHHHHHSSBCCBCCCCCHHHHHHHHHHHHHHHTCCCC---TTHHHHHHHHCCSCHHHHHH
T ss_pred             HHHHHhhccCCeEEEeCCCCHHHHHHHHHHHHHHcCCCCC---HHHHHHHHHhcCCCHHHHHH
Confidence              22233333467899999999999999888753322222   34567888899998765443

>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=98.41  E-value=2.2e-06  Score=85.33  Aligned_cols=180  Identities=12%  Similarity=0.115  Sum_probs=98.3

Q ss_pred             CCCcCchHHHHHHHHHhc---C---------CCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHH
Q 038398          126 EPTVGLESTFDKVWRCLG---E---------EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLE  193 (720)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~---~---------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~  193 (720)
                      ++++|.+..++++.+++.   .         ...+.|.|+|++|+|||++|+.+++..   ...   .+.+..+.-.+  
T Consensus         6 ~~i~G~~~~~~~l~~~~~~~~~~~~~~~~g~~~~~~vll~G~~GtGKT~la~~la~~~---~~~---~~~~~~~~~~~--   77 (262)
T 2qz4_A            6 KDVAGMHEAKLEVREFVDYLKSPERFLQLGAKVPKGALLLGPPGCGKTLLAKAVATEA---QVP---FLAMAGAEFVE--   77 (262)
T ss_dssp             TSSCSCHHHHHHHHHHHHHHHCCC------CCCCCEEEEESCTTSSHHHHHHHHHHHH---TCC---EEEEETTTTSS--
T ss_pred             HHhCCHHHHHHHHHHHHHHHHCHHHHHHcCCCCCceEEEECCCCCCHHHHHHHHHHHh---CCC---EEEechHHHHh--
Confidence            678999988877765542   1         234568899999999999999999887   222   23343332110  


Q ss_pred             HHHHHHHHHhCCCCCccCCCChhHHHHHHHHHhccCcEEEEEecccccc-------------c----cccccccCCC--C
Q 038398          194 KIQEKIGRRIGFFDESWKNGSLEDKTSDILRILGKKKFLLLLDDIWERV-------------D----LTKVGIPFPD--P  254 (720)
Q Consensus       194 ~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~-------------~----~~~l~~~~~~--~  254 (720)
                                  .   +...........+.......+.+|+|||++...             .    +..+...+..  .
T Consensus        78 ------------~---~~~~~~~~~~~~~~~a~~~~~~vl~iDeid~l~~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~~  142 (262)
T 2qz4_A           78 ------------V---IGGLGAARVRSLFKEARARAPCIVYIDEIDAVGKKRSTTMSGFSNTEEEQTLNQLLVEMDGMGT  142 (262)
T ss_dssp             ------------S---STTHHHHHHHHHHHHHHHTCSEEEEEECC-------------------CHHHHHHHHHHHTCCT
T ss_pred             ------------h---ccChhHHHHHHHHHHHHhcCCeEEEEeCcchhhccccccccCccchhHHHHHHHHHHHhhCcCC
Confidence                        0   000011111122222233467899999997531             0    1111111111  1


Q ss_pred             CCCcEEEEEcCChhHhh-hh----ccCceeeccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCcch-HHHH
Q 038398          255 ENKSKIVFTTHFLEICG-AL----KAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGLPL-ALIT  328 (720)
Q Consensus       255 ~~gs~iiiTtR~~~v~~-~~----~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~GlPL-ai~~  328 (720)
                      ..+..||.||....... ..    .....+.++..+.++-.+++...+....  ...........+++.+.|.+- .|..
T Consensus       143 ~~~~~vi~~tn~~~~ld~~l~~~~R~~~~i~i~~p~~~~r~~il~~~~~~~~--~~~~~~~~~~~l~~~~~g~~~~~l~~  220 (262)
T 2qz4_A          143 TDHVIVLASTNRADILDGALMRPGRLDRHVFIDLPTLQERREIFEQHLKSLK--LTQSSTFYSQRLAELTPGFSGADIAN  220 (262)
T ss_dssp             TCCEEEEEEESCGGGGGSGGGSTTSCCEEEECCSCCHHHHHHHHHHHHHHTT--CCBTHHHHHHHHHHTCTTCCHHHHHH
T ss_pred             CCCEEEEecCCChhhcCHHHhcCCcCCeEEEeCCcCHHHHHHHHHHHHHhCC--CCcchhhHHHHHHHHCCCCCHHHHHH
Confidence            23455666665443211 11    1235678899999999999988775433  111222235778888888754 4544


Q ss_pred             HH
Q 038398          329 IG  330 (720)
Q Consensus       329 ~~  330 (720)
                      +.
T Consensus       221 l~  222 (262)
T 2qz4_A          221 IC  222 (262)
T ss_dssp             HH
T ss_pred             HH
Confidence            43

>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=98.38  E-value=1.2e-06  Score=91.52  Aligned_cols=194  Identities=9%  Similarity=0.105  Sum_probs=102.5

Q ss_pred             CCCcCchHHHHHHHHHh-cCCCceEEEEEcCCCChHHHHHHHHHhhhcCCC-C--CcCE--------------------E
Q 038398          126 EPTVGLESTFDKVWRCL-GEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAP-N--VFDV--------------------V  181 (720)
Q Consensus       126 ~~~vGr~~~~~~l~~~L-~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~-~--~f~~--------------------~  181 (720)
                      ++++|++..++.+..++ ..+....+.|+|+.|+||||+|+.++....... +  .++.                    .
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            56899999999999988 665544499999999999999999988531111 0  0110                    1


Q ss_pred             EEEEecCcC-CHHHHHHHHHHHhCCCCCccCCCChhHHHHHHHHHhccCcEEEEEecccccc--ccccccccCCCCCCCc
Q 038398          182 IWVVVSKDL-QLEKIQEKIGRRIGFFDESWKNGSLEDKTSDILRILGKKKFLLLLDDIWERV--DLTKVGIPFPDPENKS  258 (720)
Q Consensus       182 ~wv~v~~~~-~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~--~~~~l~~~~~~~~~gs  258 (720)
                      +.+..+... ......++++..+.....      ..... .+. -+.+++-++|||++....  ....+...+.....+.
T Consensus        94 ~~~~~~~~~~~~~~~~~~~i~~~~~~~~------~~~~~-~ls-~l~~~~~vlilDE~~~L~~~~~~~L~~~le~~~~~~  165 (354)
T 1sxj_E           94 LEITPSDMGNNDRIVIQELLKEVAQMEQ------VDFQD-SKD-GLAHRYKCVIINEANSLTKDAQAALRRTMEKYSKNI  165 (354)
T ss_dssp             EEECCC----CCHHHHHHHHHHHTTTTC--------------------CCEEEEEECTTSSCHHHHHHHHHHHHHSTTTE
T ss_pred             EEecHhhcCCcchHHHHHHHHHHHHhcc------ccccc-ccc-ccCCCCeEEEEeCccccCHHHHHHHHHHHHhhcCCC
Confidence            111111000 000012222222211000      00000 000 023467799999997621  1222222221223456


Q ss_pred             EEEEEcCChh-Hhh-hhccCceeeccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCcchHHHHH
Q 038398          259 KIVFTTHFLE-ICG-ALKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGLPLALITI  329 (720)
Q Consensus       259 ~iiiTtR~~~-v~~-~~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~GlPLai~~~  329 (720)
                      .+|++|.+.. +.. .......+++++++.++..+.+...+.......+  -.+....|++.++|.+-.+..+
T Consensus       166 ~~Il~t~~~~~l~~~l~sR~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~--~~~~l~~i~~~~~G~~r~a~~~  236 (354)
T 1sxj_E          166 RLIMVCDSMSPIIAPIKSQCLLIRCPAPSDSEISTILSDVVTNERIQLE--TKDILKRIAQASNGNLRVSLLM  236 (354)
T ss_dssp             EEEEEESCSCSSCHHHHTTSEEEECCCCCHHHHHHHHHHHHHHHTCEEC--CSHHHHHHHHHHTTCHHHHHHH
T ss_pred             EEEEEeCCHHHHHHHHHhhceEEecCCcCHHHHHHHHHHHHHHcCCCCC--cHHHHHHHHHHcCCCHHHHHHH
Confidence            7777776532 211 1122367899999999999999887754321111  0356788899999987654433

>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo sapiens}

Probab=98.36  E-value=2.2e-05  Score=80.41  Aligned_cols=180  Identities=15%  Similarity=0.150  Sum_probs=103.4

Q ss_pred             CCCcCchHHHHHHHHHhc------------CCCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHH
Q 038398          126 EPTVGLESTFDKVWRCLG------------EEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLE  193 (720)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~------------~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~  193 (720)
                      ++++|.+..++.|.+.+.            ....+.|.++|++|+|||+||+.+++...  ..   ..+.+..+.-.   
T Consensus        12 ~di~G~~~~k~~l~~~v~~p~~~~~~~~~~~~~~~~iLL~GppGtGKT~la~ala~~~~--~~---~~~~i~~~~l~---   83 (322)
T 1xwi_A           12 SDVAGLEGAKEALKEAVILPIKFPHLFTGKRTPWRGILLFGPPGTGKSYLAKAVATEAN--NS---TFFSISSSDLV---   83 (322)
T ss_dssp             GGSCSCHHHHHHHHHHHHHHHHCGGGSCTTCCCCSEEEEESSSSSCHHHHHHHHHHHTT--SC---EEEEEECCSSC---
T ss_pred             HHhcCHHHHHHHHHHHHHHHHhCHHHHhCCCCCCceEEEECCCCccHHHHHHHHHHHcC--CC---cEEEEEhHHHH---
Confidence            567999998888877652            12346799999999999999999998751  11   22333332211   


Q ss_pred             HHHHHHHHHhCCCCCccCCCChhHHHHHHHHHh-ccCcEEEEEeccccccc-------------ccccccc---CCCCCC
Q 038398          194 KIQEKIGRRIGFFDESWKNGSLEDKTSDILRIL-GKKKFLLLLDDIWERVD-------------LTKVGIP---FPDPEN  256 (720)
Q Consensus       194 ~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l-~~k~~LlVlDdv~~~~~-------------~~~l~~~---~~~~~~  256 (720)
                                 ..   +. ...+.....+.+.. ..++.+|+||+++....             ...+...   +.....
T Consensus        84 -----------~~---~~-g~~~~~~~~lf~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~  148 (322)
T 1xwi_A           84 -----------SK---WL-GESEKLVKNLFQLARENKPSIIFIDEIDSLCGSRSENESEAARRIKTEFLVQMQGVGVDND  148 (322)
T ss_dssp             -----------CS---SC-CSCHHHHHHHHHHHHHTSSEEEEEETTTGGGCCSSSCCTTHHHHHHHHHHHHHHCSSSCCT
T ss_pred             -----------hh---hh-hHHHHHHHHHHHHHHhcCCcEEEeecHHHhccccccccchHHHHHHHHHHHHHhcccccCC
Confidence                       00   01 11223333333332 35788999999975310             0011111   111223


Q ss_pred             CcEEEEEcCChhHh-hh--hccCceeeccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCc-chHHHHHHH
Q 038398          257 KSKIVFTTHFLEIC-GA--LKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGL-PLALITIGR  331 (720)
Q Consensus       257 gs~iiiTtR~~~v~-~~--~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~Gl-PLai~~~~~  331 (720)
                      +..||.||...... ..  -.....+.++..+.++-.+++..++......   .-......|++.+.|. +-.|..+..
T Consensus       149 ~v~vI~atn~~~~ld~al~rRf~~~i~i~~P~~~~r~~il~~~l~~~~~~---l~~~~l~~la~~t~G~sgadl~~l~~  224 (322)
T 1xwi_A          149 GILVLGATNIPWVLDSAIRRRFEKRIYIPLPEPHARAAMFKLHLGTTQNS---LTEADFRELGRKTDGYSGADISIIVR  224 (322)
T ss_dssp             TEEEEEEESCTTTSCHHHHHTCCEEEECCCCCHHHHHHHHHHHHTTCCBC---CCHHHHHHHHHTCTTCCHHHHHHHHH
T ss_pred             CEEEEEecCCcccCCHHHHhhcCeEEEeCCcCHHHHHHHHHHHHhcCCCC---CCHHHHHHHHHHcCCCCHHHHHHHHH
Confidence            44555566433221 11  1233567889999999999998877543211   1245678899999887 545666554

>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=98.36  E-value=8.5e-06  Score=84.88  Aligned_cols=179  Identities=14%  Similarity=0.070  Sum_probs=103.3

Q ss_pred             CCCcCchHHHHHHHHHhc------------CCCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHH
Q 038398          126 EPTVGLESTFDKVWRCLG------------EEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLE  193 (720)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~------------~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~  193 (720)
                      .+++|.+..++++.+.+.            ....+.|.|+|++|+|||+||+.+++..   ..   ..+.++.+.-..  
T Consensus        84 ~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vLl~GppGtGKT~la~aia~~~---~~---~~~~i~~~~l~~--  155 (357)
T 3d8b_A           84 EDIAGVEFAKATIKEIVVWPMLRPDIFTGLRGPPKGILLFGPPGTGKTLIGKCIASQS---GA---TFFSISASSLTS--  155 (357)
T ss_dssp             GGSCSCHHHHHHHHHHTHHHHHCTTTSCGGGSCCSEEEEESSTTSSHHHHHHHHHHHT---TC---EEEEEEGGGGCC--
T ss_pred             HHhCChHHHHHHHHHHHHHHhhChHhHhhccCCCceEEEECCCCCCHHHHHHHHHHHc---CC---eEEEEehHHhhc--
Confidence            568999999999888763            1245689999999999999999999876   22   233444432111  


Q ss_pred             HHHHHHHHHhCCCCCccCCCChhHHHHHHHHHh-ccCcEEEEEecccccc-------------ccccccccCC----CCC
Q 038398          194 KIQEKIGRRIGFFDESWKNGSLEDKTSDILRIL-GKKKFLLLLDDIWERV-------------DLTKVGIPFP----DPE  255 (720)
Q Consensus       194 ~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l-~~k~~LlVlDdv~~~~-------------~~~~l~~~~~----~~~  255 (720)
                                  .    ...........+.... ..++.+|+||+++...             ....+...+.    ...
T Consensus       156 ------------~----~~g~~~~~~~~~~~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~lL~~l~~~~~~~~  219 (357)
T 3d8b_A          156 ------------K----WVGEGEKMVRALFAVARCQQPAVIFIDEIDSLLSQRGDGEHESSRRIKTEFLVQLDGATTSSE  219 (357)
T ss_dssp             ------------S----STTHHHHHHHHHHHHHHHTCSEEEEEETHHHHTBC------CHHHHHHHHHHHHHHC----CC
T ss_pred             ------------c----ccchHHHHHHHHHHHHHhcCCeEEEEeCchhhhccCCCCcchHHHHHHHHHHHHHhcccccCC
Confidence                        0    0011122222222222 3467899999995421             0111111111    112


Q ss_pred             CCcEEEEEcCChhH-hhhh--ccCceeeccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCC-cchHHHHHHH
Q 038398          256 NKSKIVFTTHFLEI-CGAL--KAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAG-LPLALITIGR  331 (720)
Q Consensus       256 ~gs~iiiTtR~~~v-~~~~--~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~G-lPLai~~~~~  331 (720)
                      .+..||.||..... ....  .....+.+...+.++..+++...+......   -..+....|++.+.| .+-.|..+..
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            34455556654322 1111  223467888999999999998876543211   124567889999998 4556666554

>3uk6_A RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding, hydrolase; HET: ADP; 2.95A {Homo sapiens} PDB: 2xsz_D*

Probab=98.34  E-value=2.1e-06  Score=90.19  Aligned_cols=193  Identities=12%  Similarity=0.097  Sum_probs=100.9

Q ss_pred             CCCCcCchHHHHH---HHHHhcCCCc--eEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEec----CcCCHHHH
Q 038398          125 CEPTVGLESTFDK---VWRCLGEEQV--GIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVS----KDLQLEKI  195 (720)
Q Consensus       125 ~~~~vGr~~~~~~---l~~~L~~~~~--~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~----~~~~~~~~  195 (720)
                      .+.+||++..++.   +...+.....  +.+.|+|++|+|||++|+.+++.. .....|   +.+...    ........
T Consensus        43 ~~~ivG~~~~~~~l~~l~~~~~~~~~~~~~vLl~GppGtGKT~la~~la~~l-~~~~~~---~~~~~~~~~~~~~~~~~~  118 (368)
T 3uk6_A           43 SQGMVGQLAARRAAGVVLEMIREGKIAGRAVLIAGQPGTGKTAIAMGMAQAL-GPDTPF---TAIAGSEIFSLEMSKTEA  118 (368)
T ss_dssp             ETTEESCHHHHHHHHHHHHHHHTTCCTTCEEEEEESTTSSHHHHHHHHHHHH-CSSCCE---EEEEGGGGSCSSSCHHHH
T ss_pred             hhhccChHHHHHHHHHHHHHHHcCCCCCCEEEEECCCCCCHHHHHHHHHHHh-cccCCc---ccccchhhhhcccchhHH
Confidence            3678999998776   4555544433  589999999999999999999987 211122   222211    12233333


Q ss_pred             HHHHHHHhC-C--------------------CCC-------ccCCCChhHHHHHHHHHh-----ccC----cEEEEEecc
Q 038398          196 QEKIGRRIG-F--------------------FDE-------SWKNGSLEDKTSDILRIL-----GKK----KFLLLLDDI  238 (720)
Q Consensus       196 ~~~i~~~l~-~--------------------~~~-------~~~~~~~~~~~~~l~~~l-----~~k----~~LlVlDdv  238 (720)
                      ......... .                    ...       .............+....     .++    +.+|+||++
T Consensus       119 ~~~~~~~~~~~~~~~~~~~~~~~~~ld~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~g~~~~~~~vl~IDEi  198 (368)
T 3uk6_A          119 LTQAFRRSIGVRIKAGAVHTVSLHEIDVINSRTQGFLALFSGDTGEIKSEVREQINAKVAEWREEGKAEIIPGVLFIDEV  198 (368)
T ss_dssp             HHHHHHHSBEECC------CEEHHHHHHHTC----CCSCC-------CHHHHHHHHHHHHHHHHHTC---CBCEEEEESG
T ss_pred             HHHHHHHHHHHHhhhhccccccHhhhhhhhcccccchhhccCcccccHHHHHHHHHHHHHHhhhhccccccCceEEEhhc
Confidence            333332210 0                    000       000000122222222211     123    359999999


Q ss_pred             ccc--cccccccccCCCCCCCcEEEEEcCC-----------------hhHhhhhccCceeeccCCChhhHHHHHHHHhcc
Q 038398          239 WER--VDLTKVGIPFPDPENKSKIVFTTHF-----------------LEICGALKAHEFLKVECLGPEDAWRLFRENLRR  299 (720)
Q Consensus       239 ~~~--~~~~~l~~~~~~~~~gs~iiiTtR~-----------------~~v~~~~~~~~~~~l~~L~~~e~~~Lf~~~~~~  299 (720)
                      +..  .....+...+...... .++++|..                 +.+...   ...+.+++++.++..+++...+..
T Consensus       199 ~~l~~~~~~~L~~~le~~~~~-~~ii~t~~~~~~i~~t~~~~~~~l~~~l~sR---~~~i~~~~~~~~e~~~il~~~~~~  274 (368)
T 3uk6_A          199 HMLDIESFSFLNRALESDMAP-VLIMATNRGITRIRGTSYQSPHGIPIDLLDR---LLIVSTTPYSEKDTKQILRIRCEE  274 (368)
T ss_dssp             GGSBHHHHHHHHHHTTCTTCC-EEEEEESCSEEECBTSSCEEETTCCHHHHTT---EEEEEECCCCHHHHHHHHHHHHHH
T ss_pred             cccChHHHHHHHHHhhCcCCC-eeeeecccceeeeeccCCCCcccCCHHHHhh---ccEEEecCCCHHHHHHHHHHHHHH
Confidence            753  2222222222222222 34444421                 112222   234799999999999999988754


Q ss_pred             CccCCCCChHHHHHHHHHHhC-CcchHHHH
Q 038398          300 DVLDNHPDIPELARSVAQECA-GLPLALIT  328 (720)
Q Consensus       300 ~~~~~~~~~~~~~~~i~~~c~-GlPLai~~  328 (720)
                      ...   .--.+....|++.+. |.|-.+..
T Consensus       275 ~~~---~~~~~~l~~l~~~~~~G~~r~~~~  301 (368)
T 3uk6_A          275 EDV---EMSEDAYTVLTRIGLETSLRYAIQ  301 (368)
T ss_dssp             TTC---CBCHHHHHHHHHHHHHSCHHHHHH
T ss_pred             cCC---CCCHHHHHHHHHHhcCCCHHHHHH
Confidence            321   122566788888887 76654443

>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein, calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides} PDB: 3syk_A 3zuh_A*

Probab=98.33  E-value=1.3e-06  Score=89.32  Aligned_cols=152  Identities=15%  Similarity=0.164  Sum_probs=85.3

Q ss_pred             CCcCchHHHHHHHHHhc---------------CCCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCC
Q 038398          127 PTVGLESTFDKVWRCLG---------------EEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQ  191 (720)
Q Consensus       127 ~~vGr~~~~~~l~~~L~---------------~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~  191 (720)
                      .++|.+..++.|.+.+.               ......+.|+|++|+|||++|+.+++... ........-++.++..  
T Consensus        32 ~i~G~~~~~~~l~~~~~~~~~~~~~~~~g~~~~~~~~~vll~G~~GtGKT~la~~la~~l~-~~~~~~~~~~~~~~~~--  108 (309)
T 3syl_A           32 ELIGLKPVKDRIRETAALLLVERARQKLGLAHETPTLHMSFTGNPGTGKTTVALKMAGLLH-RLGYVRKGHLVSVTRD--  108 (309)
T ss_dssp             HSSSCHHHHHHHHHHHHHHHHHHHHHHHTCCSSCCCCEEEEEECTTSSHHHHHHHHHHHHH-HTTSSSSCCEEEECGG--
T ss_pred             HccChHHHHHHHHHHHHHHHhHHHHHHcCCCCCCCCceEEEECCCCCCHHHHHHHHHHHHH-hcCCcCCCcEEEEcHH--
Confidence            47899998888876553               23445799999999999999998887762 1111111112333211  


Q ss_pred             HHHHHHHHHHHhCCCCCccCCCChhHHHHHHHHHhccCcEEEEEeccccc-----------cccccccccCCCCCCCcEE
Q 038398          192 LEKIQEKIGRRIGFFDESWKNGSLEDKTSDILRILGKKKFLLLLDDIWER-----------VDLTKVGIPFPDPENKSKI  260 (720)
Q Consensus       192 ~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~-----------~~~~~l~~~~~~~~~gs~i  260 (720)
                                .+...   +. .........+....  +..+|+||+++..           .....+...+.....+..+
T Consensus       109 ----------~l~~~---~~-g~~~~~~~~~~~~~--~~~vl~iDEid~l~~~~~~~~~~~~~~~~Ll~~l~~~~~~~~~  172 (309)
T 3syl_A          109 ----------DLVGQ---YI-GHTAPKTKEVLKRA--MGGVLFIDEAYYLYRPDNERDYGQEAIEILLQVMENNRDDLVV  172 (309)
T ss_dssp             ----------GTCCS---ST-TCHHHHHHHHHHHH--TTSEEEEETGGGSCCCC---CCTHHHHHHHHHHHHHCTTTCEE
T ss_pred             ----------Hhhhh---cc-cccHHHHHHHHHhc--CCCEEEEEChhhhccCCCcccccHHHHHHHHHHHhcCCCCEEE
Confidence                      11000   01 11111112222211  4569999999743           1122222222223345677


Q ss_pred             EEEcCChhH----------hhhhccCceeeccCCChhhHHHHHHHHhcc
Q 038398          261 VFTTHFLEI----------CGALKAHEFLKVECLGPEDAWRLFRENLRR  299 (720)
Q Consensus       261 iiTtR~~~v----------~~~~~~~~~~~l~~L~~~e~~~Lf~~~~~~  299 (720)
                      |.||.....          ...  ....+.+++++.++-..++...+..
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            777754322          111  1267899999999999999887754

>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=98.32  E-value=5.2e-06  Score=85.26  Aligned_cols=179  Identities=15%  Similarity=0.113  Sum_probs=104.4

Q ss_pred             CCCcCchHHHHHHHHHhc----------C--CCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHH
Q 038398          126 EPTVGLESTFDKVWRCLG----------E--EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLE  193 (720)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~----------~--~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~  193 (720)
                      .+++|.+..+++|.+.+.          .  ...+.|.++|++|+|||+||+.+++..   ...   .+.++.+      
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            568999999999988772          1  124679999999999999999999886   222   2333221      


Q ss_pred             HHHHHHHHHhCCCCCccCCCChhHHHHHHHHHh-ccCcEEEEEeccccccc-------------ccccc---ccCCCCCC
Q 038398          194 KIQEKIGRRIGFFDESWKNGSLEDKTSDILRIL-GKKKFLLLLDDIWERVD-------------LTKVG---IPFPDPEN  256 (720)
Q Consensus       194 ~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l-~~k~~LlVlDdv~~~~~-------------~~~l~---~~~~~~~~  256 (720)
                      .+    ....        ....+.....+.... ..++.+|+||+++....             ...+.   ..+.....
T Consensus        86 ~l----~~~~--------~g~~~~~~~~~f~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~  153 (322)
T 3eie_A           86 DL----VSKW--------MGESEKLVKQLFAMARENKPSIIFIDQVDALTGTRGEGESEASRRIKTELLVQMNGVGNDSQ  153 (322)
T ss_dssp             HH----HTTT--------GGGHHHHHHHHHHHHHHTSSEEEEEECGGGGSCC------CCTHHHHHHHHHHHGGGGTSCC
T ss_pred             HH----hhcc--------cchHHHHHHHHHHHHHhcCCeEEEechhhhhhccCCCCcchHHHHHHHHHHHHhccccccCC
Confidence            11    1100        011222233333322 34678999999975311             11111   11112234


Q ss_pred             CcEEEEEcCChhHhh-h--hccCceeeccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCc-chHHHHHHH
Q 038398          257 KSKIVFTTHFLEICG-A--LKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGL-PLALITIGR  331 (720)
Q Consensus       257 gs~iiiTtR~~~v~~-~--~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~Gl-PLai~~~~~  331 (720)
                      +..||.||....... .  -.....+.++..+.++-.+++..++.....   ..-......|++.+.|. +-.|..+..
T Consensus       154 ~v~vi~atn~~~~ld~al~~Rf~~~i~~~~p~~~~r~~il~~~~~~~~~---~~~~~~l~~la~~t~g~sg~di~~l~~  229 (322)
T 3eie_A          154 GVLVLGATNIPWQLDSAIRRRFERRIYIPLPDLAARTTMFEINVGDTPC---VLTKEDYRTLGAMTEGYSGSDIAVVVK  229 (322)
T ss_dssp             CEEEEEEESCGGGSCHHHHHHCCEEEECCCCCHHHHHHHHHHHHTTCCC---CCCHHHHHHHHHTTTTCCHHHHHHHHH
T ss_pred             ceEEEEecCChhhCCHHHHcccCeEEEeCCCCHHHHHHHHHHHhccCCC---CCCHHHHHHHHHHcCCCCHHHHHHHHH
Confidence            555666776533211 0  123356788899999999999988764321   11245677888898884 555555543

>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=98.32  E-value=4.7e-06  Score=85.77  Aligned_cols=182  Identities=8%  Similarity=0.013  Sum_probs=102.3

Q ss_pred             CCCCcCchHHHHHHHHHhcCCC-ceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHHHHHh
Q 038398          125 CEPTVGLESTFDKVWRCLGEEQ-VGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKIGRRI  203 (720)
Q Consensus       125 ~~~~vGr~~~~~~l~~~L~~~~-~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i~~~l  203 (720)
                      .++++|.+..++.+.+++..+. ..++.+.|++|+|||++|+.+++..   .   ..++.++.+.. ....+. ..+...
T Consensus        25 ~~~ivg~~~~~~~l~~~l~~~~~~~~~L~~G~~G~GKT~la~~la~~l---~---~~~~~i~~~~~-~~~~i~-~~~~~~   96 (324)
T 3u61_B           25 IDECILPAFDKETFKSITSKGKIPHIILHSPSPGTGKTTVAKALCHDV---N---ADMMFVNGSDC-KIDFVR-GPLTNF   96 (324)
T ss_dssp             TTTSCCCHHHHHHHHHHHHTTCCCSEEEECSSTTSSHHHHHHHHHHHT---T---EEEEEEETTTC-CHHHHH-THHHHH
T ss_pred             HHHHhCcHHHHHHHHHHHHcCCCCeEEEeeCcCCCCHHHHHHHHHHHh---C---CCEEEEccccc-CHHHHH-HHHHHH
Confidence            3678999999999999997654 3577888889999999999999876   1   12344443321 222221 111111


Q ss_pred             CCCCCccCCCChhHHHHHHHHHhccCcEEEEEecccccc---ccccccccCCCCCCCcEEEEEcCChhH-hh-hhccCce
Q 038398          204 GFFDESWKNGSLEDKTSDILRILGKKKFLLLLDDIWERV---DLTKVGIPFPDPENKSKIVFTTHFLEI-CG-ALKAHEF  278 (720)
Q Consensus       204 ~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~---~~~~l~~~~~~~~~gs~iiiTtR~~~v-~~-~~~~~~~  278 (720)
                      ....                 ...+++.++++||++...   ....+...+.....+.++|+||....- .. .......
T Consensus        97 ~~~~-----------------~~~~~~~vliiDEi~~l~~~~~~~~L~~~le~~~~~~~iI~~~n~~~~l~~~l~sR~~~  159 (324)
T 3u61_B           97 ASAA-----------------SFDGRQKVIVIDEFDRSGLAESQRHLRSFMEAYSSNCSIIITANNIDGIIKPLQSRCRV  159 (324)
T ss_dssp             HHBC-----------------CCSSCEEEEEEESCCCGGGHHHHHHHHHHHHHHGGGCEEEEEESSGGGSCTTHHHHSEE
T ss_pred             Hhhc-----------------ccCCCCeEEEEECCcccCcHHHHHHHHHHHHhCCCCcEEEEEeCCccccCHHHHhhCcE
Confidence            0000                 012367899999997643   222222222112245678887765431 11 1111247


Q ss_pred             eeccCCChhhHHHHHHH-------HhccCccCCCCChHHHHHHHHHHhCCcch-HHHHHHHHH
Q 038398          279 LKVECLGPEDAWRLFRE-------NLRRDVLDNHPDIPELARSVAQECAGLPL-ALITIGRAM  333 (720)
Q Consensus       279 ~~l~~L~~~e~~~Lf~~-------~~~~~~~~~~~~~~~~~~~i~~~c~GlPL-ai~~~~~~l  333 (720)
                      +++++++.++-.+++..       .+.......+  -.+....|++.++|.+- |+..+-.+.
T Consensus       160 i~~~~~~~~e~~~il~~~~~~l~~~~~~~~~~~~--~~~~~~~l~~~~~gd~R~a~~~L~~~~  220 (324)
T 3u61_B          160 ITFGQPTDEDKIEMMKQMIRRLTEICKHEGIAIA--DMKVVAALVKKNFPDFRKTIGELDSYS  220 (324)
T ss_dssp             EECCCCCHHHHHHHHHHHHHHHHHHHHHHTCCBS--CHHHHHHHHHHTCSCTTHHHHHHHHHG
T ss_pred             EEeCCCCHHHHHHHHHHHHHHHHHHHHHcCCCCC--cHHHHHHHHHhCCCCHHHHHHHHHHHh
Confidence            89999998885443322       2222111111  12677888888988665 444444433

>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=98.29  E-value=2.8e-06  Score=88.03  Aligned_cols=172  Identities=15%  Similarity=0.204  Sum_probs=100.7

Q ss_pred             CCCcCchHHHHHHHHHhcCCCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcC-EEEEEEecCcCCHHHHHHHHHHHhC
Q 038398          126 EPTVGLESTFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFD-VVIWVVVSKDLQLEKIQEKIGRRIG  204 (720)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~-~~~wv~v~~~~~~~~~~~~i~~~l~  204 (720)
                      ..++|.+..++.+..++..+..+.+.++|++|+||||+|+.++....  ...+. .+..++.+.......+.        
T Consensus        25 ~~~~g~~~~~~~L~~~i~~g~~~~~ll~Gp~G~GKTtla~~la~~l~--~~~~~~~~~~~~~~~~~~~~~ir--------   94 (340)
T 1sxj_C           25 DEVYGQNEVITTVRKFVDEGKLPHLLFYGPPGTGKTSTIVALAREIY--GKNYSNMVLELNASDDRGIDVVR--------   94 (340)
T ss_dssp             GGCCSCHHHHHHHHHHHHTTCCCCEEEECSSSSSHHHHHHHHHHHHH--TTSHHHHEEEECTTSCCSHHHHH--------
T ss_pred             HHhcCcHHHHHHHHHHHhcCCCceEEEECCCCCCHHHHHHHHHHHHc--CCCccceEEEEcCcccccHHHHH--------
Confidence            45789999999999998877655589999999999999999998762  11111 22222222222222211        


Q ss_pred             CCCCccCCCChhHHHHHHHHHh------ccCcEEEEEeccccc--cccccccccCCCCCCCcEEEEEcCChh-Hhh-hhc
Q 038398          205 FFDESWKNGSLEDKTSDILRIL------GKKKFLLLLDDIWER--VDLTKVGIPFPDPENKSKIVFTTHFLE-ICG-ALK  274 (720)
Q Consensus       205 ~~~~~~~~~~~~~~~~~l~~~l------~~k~~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~iiiTtR~~~-v~~-~~~  274 (720)
                                     ..+....      .+.+-++|+|+++..  .....+...+......+++|++|.... +.. ...
T Consensus        95 ---------------~~i~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~il~~n~~~~i~~~i~s  159 (340)
T 1sxj_C           95 ---------------NQIKDFASTRQIFSKGFKLIILDEADAMTNAAQNALRRVIERYTKNTRFCVLANYAHKLTPALLS  159 (340)
T ss_dssp             ---------------THHHHHHHBCCSSSCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHT
T ss_pred             ---------------HHHHHHHhhcccCCCCceEEEEeCCCCCCHHHHHHHHHHHhcCCCCeEEEEEecCccccchhHHh
Confidence                           1111111      234678999998643  122222222212224556776665432 111 111


Q ss_pred             cCceeeccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCcchH
Q 038398          275 AHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGLPLA  325 (720)
Q Consensus       275 ~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~GlPLa  325 (720)
                      ....+.+.+++.++..+.+...+......   --.+....+++.++|.+--
T Consensus       160 R~~~~~~~~l~~~~~~~~l~~~~~~~~~~---i~~~~~~~i~~~s~G~~r~  207 (340)
T 1sxj_C          160 QCTRFRFQPLPQEAIERRIANVLVHEKLK---LSPNAEKALIELSNGDMRR  207 (340)
T ss_dssp             TSEEEECCCCCHHHHHHHHHHHHHTTTCC---BCHHHHHHHHHHHTTCHHH
T ss_pred             hceeEeccCCCHHHHHHHHHHHHHHcCCC---CCHHHHHHHHHHcCCCHHH
Confidence            22468899999999998888776432211   1145677888888887653

>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=98.27  E-value=8.4e-06  Score=84.75  Aligned_cols=179  Identities=14%  Similarity=0.111  Sum_probs=102.4

Q ss_pred             CCCcCchHHHHHHHHHhcC------------CCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHH
Q 038398          126 EPTVGLESTFDKVWRCLGE------------EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLE  193 (720)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~------------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~  193 (720)
                      .+++|.+..++.|...+..            ...+.|.++|++|+|||+||+.+++..   ...   .+.+..+      
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            5689999999999887621            123468899999999999999999987   222   2233221      


Q ss_pred             HHHHHHHHHhCCCCCccCCCChhHHHHHHHHH-hccCcEEEEEeccccccc-------------cccccccC---CCCCC
Q 038398          194 KIQEKIGRRIGFFDESWKNGSLEDKTSDILRI-LGKKKFLLLLDDIWERVD-------------LTKVGIPF---PDPEN  256 (720)
Q Consensus       194 ~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~-l~~k~~LlVlDdv~~~~~-------------~~~l~~~~---~~~~~  256 (720)
                      .+    ....       .. ..+.....+... -..++.+|+||+++....             ...+...+   .....
T Consensus       119 ~l----~~~~-------~g-~~~~~~~~~f~~a~~~~~~vl~iDEid~l~~~r~~~~~~~~~~~~~~ll~~l~~~~~~~~  186 (355)
T 2qp9_X          119 DL----VSKW-------MG-ESEKLVKQLFAMARENKPSIIFIDQVDALTGTRGEGESEASRRIKTELLVQMNGVGNDSQ  186 (355)
T ss_dssp             HH----HSCC-----------CHHHHHHHHHHHHHTSSEEEEEECGGGGTC------CTHHHHHHHHHHHHHHHCC---C
T ss_pred             HH----hhhh-------cc-hHHHHHHHHHHHHHHcCCeEEEEechHhhcccCCCCcchHHHHHHHHHHHHhhcccccCC
Confidence            11    1110       11 112223333332 235788999999975321             11111111   11223


Q ss_pred             CcEEEEEcCChhHh-hh--hccCceeeccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCc-chHHHHHHH
Q 038398          257 KSKIVFTTHFLEIC-GA--LKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGL-PLALITIGR  331 (720)
Q Consensus       257 gs~iiiTtR~~~v~-~~--~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~Gl-PLai~~~~~  331 (720)
                      +..||.||...... ..  -.....+.++..+.++-.+++..++......   .-......|++.+.|. +-.|..+..
T Consensus       187 ~v~vI~atn~~~~ld~al~rRf~~~i~i~~P~~~~r~~il~~~l~~~~~~---~~~~~l~~la~~t~G~sg~dl~~l~~  262 (355)
T 2qp9_X          187 GVLVLGATNIPWQLDSAIRRRFERRIYIPLPDLAARTTMFEINVGDTPSV---LTKEDYRTLGAMTEGYSGSDIAVVVK  262 (355)
T ss_dssp             CEEEEEEESCGGGSCHHHHHTCCEEEECCCCCHHHHHHHHHHHHTTSCBC---CCHHHHHHHHHHTTTCCHHHHHHHHH
T ss_pred             CeEEEeecCCcccCCHHHHcccCEEEEeCCcCHHHHHHHHHHHHhhCCCC---CCHHHHHHHHHHcCCCCHHHHHHHHH
Confidence            45566566543221 11  1233567889999999999998887643211   1145577889999884 545655543

>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo sapiens}

Probab=98.26  E-value=2.4e-05  Score=82.51  Aligned_cols=179  Identities=14%  Similarity=0.112  Sum_probs=100.6

Q ss_pred             CCCcCchHHHHHHHHHhcC------------CCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHH
Q 038398          126 EPTVGLESTFDKVWRCLGE------------EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLE  193 (720)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~------------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~  193 (720)
                      .+++|.+..++.+..++..            ...+.|.|+|++|+|||+||+.+++..   ..   ..+.++++.-.+  
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            5689999999999888721            234689999999999999999998876   22   223333322111  


Q ss_pred             HHHHHHHHHhCCCCCccCCCChhHHHHHHHHHh-ccCcEEEEEeccccccc-------------cccccccC---CC-CC
Q 038398          194 KIQEKIGRRIGFFDESWKNGSLEDKTSDILRIL-GKKKFLLLLDDIWERVD-------------LTKVGIPF---PD-PE  255 (720)
Q Consensus       194 ~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l-~~k~~LlVlDdv~~~~~-------------~~~l~~~~---~~-~~  255 (720)
                      ..               .. ........+.... ...+.+|+||+++....             ...+...+   .. ..
T Consensus       187 ~~---------------~g-~~~~~~~~~~~~a~~~~~~il~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~  250 (389)
T 3vfd_A          187 KY---------------VG-EGEKLVRALFAVARELQPSIIFIDQVDSLLCERREGEHDASRRLKTEFLIEFDGVQSAGD  250 (389)
T ss_dssp             ---------------------CHHHHHHHHHHHHHSSSEEEEEETGGGGC--------CTHHHHHHHHHHHHHHHC----
T ss_pred             cc---------------cc-hHHHHHHHHHHHHHhcCCeEEEEECchhhcccCCCccchHHHHHHHHHHHHhhcccccCC
Confidence            00               00 1122222232222 34568999999964310             00111111   01 12


Q ss_pred             CCcEEEEEcCChhHh-hh-h-ccCceeeccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCcch-HHHHHHH
Q 038398          256 NKSKIVFTTHFLEIC-GA-L-KAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGLPL-ALITIGR  331 (720)
Q Consensus       256 ~gs~iiiTtR~~~v~-~~-~-~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~GlPL-ai~~~~~  331 (720)
                      ....||.||...... .. . .....+.+...+.++..+++...+....   ..-..+....|++.+.|..- +|..+..
T Consensus       251 ~~v~vI~atn~~~~l~~~l~~R~~~~i~i~~p~~~~r~~il~~~~~~~~---~~l~~~~~~~la~~~~g~~~~~l~~L~~  327 (389)
T 3vfd_A          251 DRVLVMGATNRPQELDEAVLRRFIKRVYVSLPNEETRLLLLKNLLCKQG---SPLTQKELAQLARMTDGYSGSDLTALAK  327 (389)
T ss_dssp             -CEEEEEEESCGGGCCHHHHTTCCEEEECCCCCHHHHHHHHHHHHTTSC---CCSCHHHHHHHHHHTTTCCHHHHHHHHH
T ss_pred             CCEEEEEecCCchhcCHHHHcCcceEEEcCCcCHHHHHHHHHHHHHhcC---CCCCHHHHHHHHHHcCCCCHHHHHHHHH
Confidence            234455566543221 11 1 1224678899999999999988875432   11224567889999988544 6655543

>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding, hydrolase; 2.70A {Drosophila melanogaster}

Probab=98.25  E-value=3.6e-05  Score=77.98  Aligned_cols=177  Identities=13%  Similarity=0.088  Sum_probs=101.9

Q ss_pred             CCCcCchHHHHHHHHHhcC------------CCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHH
Q 038398          126 EPTVGLESTFDKVWRCLGE------------EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLE  193 (720)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~------------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~  193 (720)
                      ++++|.+..++.+.+++..            ...+.|.|+|++|+||||+|+.+++..   ...   .+.++.+.-..  
T Consensus        21 ~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~la~~la~~~---~~~---~~~i~~~~l~~--   92 (297)
T 3b9p_A           21 TDIAGQDVAKQALQEMVILPSVRPELFTGLRAPAKGLLLFGPPGNGKTLLARAVATEC---SAT---FLNISAASLTS--   92 (297)
T ss_dssp             GGSCCCHHHHHHHHHHTHHHHHCGGGSCGGGCCCSEEEEESSSSSCHHHHHHHHHHHT---TCE---EEEEESTTTSS--
T ss_pred             HHhCChHHHHHHHHHHHHhhhhCHHHHhcCCCCCCeEEEECcCCCCHHHHHHHHHHHh---CCC---eEEeeHHHHhh--
Confidence            5689999999998887621            234689999999999999999999876   222   23333322110  


Q ss_pred             HHHHHHHHHhCCCCCccCCCChhHHHHHHHH-HhccCcEEEEEecccccccc-------------ccc---cccCCC--C
Q 038398          194 KIQEKIGRRIGFFDESWKNGSLEDKTSDILR-ILGKKKFLLLLDDIWERVDL-------------TKV---GIPFPD--P  254 (720)
Q Consensus       194 ~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~-~l~~k~~LlVlDdv~~~~~~-------------~~l---~~~~~~--~  254 (720)
                                  .    ...........+.. ....++.+|+||+++....-             ..+   ...++.  .
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    11122223333332 22356789999999653110             001   011111  1


Q ss_pred             CCCcEEEEEcCChhH-----hhhhccCceeeccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCcch-HHHH
Q 038398          255 ENKSKIVFTTHFLEI-----CGALKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGLPL-ALIT  328 (720)
Q Consensus       255 ~~gs~iiiTtR~~~v-----~~~~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~GlPL-ai~~  328 (720)
                      +.+..||.||.....     ..  .....+.++..+.++...++...+.....   .--.+....+++.+.|.+- ++..
T Consensus       157 ~~~v~vi~~tn~~~~l~~~l~~--R~~~~i~~~~p~~~~r~~il~~~~~~~~~---~~~~~~~~~la~~~~g~~~~~l~~  231 (297)
T 3b9p_A          157 GDRIVVLAATNRPQELDEAALR--RFTKRVYVSLPDEQTRELLLNRLLQKQGS---PLDTEALRRLAKITDGYSGSDLTA  231 (297)
T ss_dssp             --CEEEEEEESCGGGBCHHHHH--HCCEEEECCCCCHHHHHHHHHHHHGGGSC---CSCHHHHHHHHHHTTTCCHHHHHH
T ss_pred             CCcEEEEeecCChhhCCHHHHh--hCCeEEEeCCcCHHHHHHHHHHHHHhcCC---CCCHHHHHHHHHHcCCCCHHHHHH
Confidence            133456666665322     22  22356777888888888888877654321   1124567789999999875 5655


Q ss_pred             HHH
Q 038398          329 IGR  331 (720)
Q Consensus       329 ~~~  331 (720)
                      +..
T Consensus       232 l~~  234 (297)
T 3b9p_A          232 LAK  234 (297)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            543

>2p65_A Hypothetical protein PF08_0063; CLPB, malaria, structural genomics, structural genomics consortium, SGC, unknown function; 1.70A {Plasmodium falciparum}

Probab=98.24  E-value=1.3e-06  Score=81.87  Aligned_cols=47  Identities=23%  Similarity=0.388  Sum_probs=42.1

Q ss_pred             CCCCcCchHHHHHHHHHhcCCCceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          125 CEPTVGLESTFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       125 ~~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ...++||+.+++.+.+.+.....+.+.|+|++|+|||++|+.+++..
T Consensus        21 ~~~~~g~~~~~~~l~~~l~~~~~~~vll~G~~G~GKT~la~~~~~~~   67 (187)
T 2p65_A           21 LDPVIGRDTEIRRAIQILSRRTKNNPILLGDPGVGKTAIVEGLAIKI   67 (187)
T ss_dssp             SCCCCSCHHHHHHHHHHHTSSSSCEEEEESCGGGCHHHHHHHHHHHH
T ss_pred             cchhhcchHHHHHHHHHHhCCCCCceEEECCCCCCHHHHHHHHHHHH
Confidence            36789999999999999987666788999999999999999998876

>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=98.23  E-value=3.6e-05  Score=82.51  Aligned_cols=180  Identities=14%  Similarity=0.140  Sum_probs=102.1

Q ss_pred             CCCcCchHHHHHHHHHhc------------CCCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHH
Q 038398          126 EPTVGLESTFDKVWRCLG------------EEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLE  193 (720)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~------------~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~  193 (720)
                      ++++|.+..++.+...+.            ....+.|.++|++|+|||+||+.+++...  ..     -++.++...   
T Consensus       134 ~di~G~~~~k~~l~~~v~~p~~~~~~~~~~~~~~~~vLL~GppGtGKT~lA~aia~~~~--~~-----~~~~v~~~~---  203 (444)
T 2zan_A          134 SDVAGLEGAKEALKEAVILPIKFPHLFTGKRTPWRGILLFGPPGTGKSYLAKAVATEAN--NS-----TFFSISSSD---  203 (444)
T ss_dssp             GGSCSCHHHHHHHHHHHTHHHHCTTTTSGGGCCCSEEEEECSTTSSHHHHHHHHHHHCC--SS-----EEEEECCC----
T ss_pred             HHhcCHHHHHHHHHHHHHHHhhCHHHhhccCCCCceEEEECCCCCCHHHHHHHHHHHcC--CC-----CEEEEeHHH---
Confidence            568999999999887762            12346899999999999999999998751  11     233333221   


Q ss_pred             HHHHHHHHHhCCCCCccCCCChhHHHHHHHHH-hccCcEEEEEeccccccc-------------cccccccCCC---CCC
Q 038398          194 KIQEKIGRRIGFFDESWKNGSLEDKTSDILRI-LGKKKFLLLLDDIWERVD-------------LTKVGIPFPD---PEN  256 (720)
Q Consensus       194 ~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~-l~~k~~LlVlDdv~~~~~-------------~~~l~~~~~~---~~~  256 (720)
                       +....   .+.     ...    ....+... -..++.+|+||+++....             ...+...+..   ...
T Consensus       204 -l~~~~---~g~-----~~~----~~~~~f~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~lL~~l~~~~~~~~  270 (444)
T 2zan_A          204 -LVSKW---LGE-----SEK----LVKNLFQLARENKPSIIFIDEIDSLCGSRSENESEAARRIKTEFLVQMQGVGVDND  270 (444)
T ss_dssp             -----------------CCC----THHHHHHHHHHSCSEEEEESCTTTTCCCSSCCCCGGGHHHHHHHHTTTTCSSCCCS
T ss_pred             -HHhhh---cch-----HHH----HHHHHHHHHHHcCCeEEEEechHhhccCCCCccccHHHHHHHHHHHHHhCcccCCC
Confidence             11000   010     111    12222222 235788999999975310             1111111211   234


Q ss_pred             CcEEEEEcCChhHhh-h-h-ccCceeeccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCc-chHHHHHHH
Q 038398          257 KSKIVFTTHFLEICG-A-L-KAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGL-PLALITIGR  331 (720)
Q Consensus       257 gs~iiiTtR~~~v~~-~-~-~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~Gl-PLai~~~~~  331 (720)
                      +..||.||....... . . .....+.++..+.++-..+|..++......   .-......|++.+.|. +-.|..+..
T Consensus       271 ~v~vI~atn~~~~ld~al~rRf~~~i~i~~P~~~~r~~il~~~l~~~~~~---l~~~~l~~la~~t~G~sgadl~~l~~  346 (444)
T 2zan_A          271 GILVLGATNIPWVLDSAIRRRFEKRIYIPLPEAHARAAMFRLHLGSTQNS---LTEADFQELGRKTDGYSGADISIIVR  346 (444)
T ss_dssp             SCEEEEEESCGGGSCHHHHTTCCEEEECCCCCHHHHHHHHHHHHTTSCEE---CCHHHHHHHHHHTTTCCHHHHHHHHH
T ss_pred             CEEEEecCCCccccCHHHHhhcceEEEeCCcCHHHHHHHHHHHHhcCCCC---CCHHHHHHHHHHcCCCCHHHHHHHHH
Confidence            556666775443211 1 1 223567888889999999998887543211   1245577889999884 556655543

>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=98.20  E-value=1e-05  Score=83.27  Aligned_cols=174  Identities=17%  Similarity=0.181  Sum_probs=96.9

Q ss_pred             CCCc-CchH--HHHHHHHHhcCC--CceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHHH
Q 038398          126 EPTV-GLES--TFDKVWRCLGEE--QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKIG  200 (720)
Q Consensus       126 ~~~v-Gr~~--~~~~l~~~L~~~--~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i~  200 (720)
                      ++|| |...  ....+..++...  ....+.|+|++|+||||||+.+++.....  . ..+++++..      .+...+.
T Consensus        11 ~~fv~g~~~~~a~~~~~~~~~~~~~~~~~lll~G~~GtGKT~la~~i~~~~~~~--~-~~~~~i~~~------~~~~~~~   81 (324)
T 1l8q_A           11 ENFIVGEGNRLAYEVVKEALENLGSLYNPIFIYGSVGTGKTHLLQAAGNEAKKR--G-YRVIYSSAD------DFAQAMV   81 (324)
T ss_dssp             SSCCCCTTTHHHHHHHHHHHHTTTTSCSSEEEECSSSSSHHHHHHHHHHHHHHT--T-CCEEEEEHH------HHHHHHH
T ss_pred             ccCCCCCcHHHHHHHHHHHHhCcCCCCCeEEEECCCCCcHHHHHHHHHHHHHHC--C-CEEEEEEHH------HHHHHHH
Confidence            5665 5433  334444444433  34678999999999999999999876211  1 234555432      2333333


Q ss_pred             HHhCCCCCccCCCChhHHHHHHHHHhccCcEEEEEeccccccc----cccccccCC-CCCCCcEEEEEcCChh-------
Q 038398          201 RRIGFFDESWKNGSLEDKTSDILRILGKKKFLLLLDDIWERVD----LTKVGIPFP-DPENKSKIVFTTHFLE-------  268 (720)
Q Consensus       201 ~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~----~~~l~~~~~-~~~~gs~iiiTtR~~~-------  268 (720)
                      ..+..       ..    ...+...+. +..+|+|||+.....    ...+...+. ....|..||+||.+..       
T Consensus        82 ~~~~~-------~~----~~~~~~~~~-~~~vL~iDEi~~l~~~~~~~~~l~~~l~~~~~~~~~iii~~~~~~~~l~~l~  149 (324)
T 1l8q_A           82 EHLKK-------GT----INEFRNMYK-SVDLLLLDDVQFLSGKERTQIEFFHIFNTLYLLEKQIILASDRHPQKLDGVS  149 (324)
T ss_dssp             HHHHH-------TC----HHHHHHHHH-TCSEEEEECGGGGTTCHHHHHHHHHHHHHHHHTTCEEEEEESSCGGGCTTSC
T ss_pred             HHHHc-------Cc----HHHHHHHhc-CCCEEEEcCcccccCChHHHHHHHHHHHHHHHCCCeEEEEecCChHHHHHhh
Confidence            33311       01    111222222 367999999965321    122211111 0123567888775431       


Q ss_pred             --HhhhhccCceeeccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCcchH
Q 038398          269 --ICGALKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGLPLA  325 (720)
Q Consensus       269 --v~~~~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~GlPLa  325 (720)
                        +...+.....+++++ +.++..+++...+......   --.+....|++.+ |.+-.
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              122223335689999 9999999998887543211   2256677888888 76543

>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=98.20  E-value=1.8e-06  Score=78.75  Aligned_cols=41  Identities=17%  Similarity=0.298  Sum_probs=25.1

Q ss_pred             hhccccccccccCCCccccccccccCCcceeeecCCCCCcc
Q 038398          676 RSTQSLFLRCFNDSKSLDIFCLAGLRNLNKLYVAGCKHLED  716 (720)
Q Consensus       676 ~~L~~L~l~~~~~l~~l~~~~l~~l~~L~~L~l~~c~~l~~  716 (720)
                      ++|++|+|++|.+++.-.+..+.++++|+.|+|++|+.+++
T Consensus       114 ~~L~~L~Ls~C~~ITD~Gl~~L~~~~~L~~L~L~~c~~Itd  154 (176)
T 3e4g_A          114 KSMLEMEIISCGNVTDKGIIALHHFRNLKYLFLSDLPGVKE  154 (176)
T ss_dssp             HHCCEEEEESCTTCCHHHHHHGGGCTTCCEEEEESCTTCCC
T ss_pred             CCCCEEEcCCCCcCCHHHHHHHhcCCCCCEEECCCCCCCCc
Confidence            35666666666666655555566666666666666666554

>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=98.16  E-value=4e-05  Score=77.72  Aligned_cols=173  Identities=17%  Similarity=0.193  Sum_probs=98.5

Q ss_pred             CCCcCchHHHHHHHHHhcC-------------CCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCH
Q 038398          126 EPTVGLESTFDKVWRCLGE-------------EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQL  192 (720)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~-------------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~  192 (720)
                      ++++|.+..++++.+++..             ...+.|.|+|++|+|||+||+.+++..   ...     ++.++    .
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            5689999988888776631             345679999999999999999999886   222     22222    2


Q ss_pred             HHHHHHHHHHhCCCCCccCCCChhHHHHHHHHHhccCcEEEEEeccccccc----------------cccccccCC--CC
Q 038398          193 EKIQEKIGRRIGFFDESWKNGSLEDKTSDILRILGKKKFLLLLDDIWERVD----------------LTKVGIPFP--DP  254 (720)
Q Consensus       193 ~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~----------------~~~l~~~~~--~~  254 (720)
                      ..+....   .+.        ........+.......+.+|+||+++....                ...+...+.  ..
T Consensus        83 ~~l~~~~---~g~--------~~~~~~~~f~~a~~~~p~il~iDEid~l~~~~~~~~~~~~~~~~~~~~~lL~~l~~~~~  151 (301)
T 3cf0_A           83 PELLTMW---FGE--------SEANVREIFDKARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMST  151 (301)
T ss_dssp             HHHHHHH---HTT--------CTTHHHHHHHHHHHTCSEEEEECSTTHHHHHHTTTTCCSSCSCCHHHHHHHHHHHSSCT
T ss_pred             HHHHhhh---cCc--------hHHHHHHHHHHHHhcCCeEEEEEChHHHhhccCCCcCCcchHHHHHHHHHHHHhhcccC
Confidence            2232221   111        111222222333345689999999974210                111111111  12


Q ss_pred             CCCcEEEEEcCChhHh-hh-h---ccCceeeccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCcchH
Q 038398          255 ENKSKIVFTTHFLEIC-GA-L---KAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGLPLA  325 (720)
Q Consensus       255 ~~gs~iiiTtR~~~v~-~~-~---~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~GlPLa  325 (720)
                      ..+..||.||...... .. .   .....+.++..+.++-.+++...+..........+    ..+++.+.|.|-+
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            2345667777554322 11 1   12356889999999999999887754332222233    3455667777654

>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=98.16  E-value=2.3e-05  Score=80.72  Aligned_cols=171  Identities=11%  Similarity=0.095  Sum_probs=99.3

Q ss_pred             chHHHHHHHHHhcCCC-ceEEEEEcCCCChHHHHHHHHHhhhcCCCC-------------------CcCEEEEEEec---
Q 038398          131 LESTFDKVWRCLGEEQ-VGIIGLYGMGGVGKTTLLTKINNKLLGAPN-------------------VFDVVIWVVVS---  187 (720)
Q Consensus       131 r~~~~~~l~~~L~~~~-~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~-------------------~f~~~~wv~v~---  187 (720)
                      .++..+.+...+..+. ...+.++|++|+||||+|+.+.+.......                   +++ ..++...   
T Consensus         7 ~~~~~~~l~~~i~~~~~~~a~L~~G~~G~GKt~~a~~la~~l~~~~~~~~~~c~~c~~c~~~~~~~~~d-~~~~~~~~~~   85 (334)
T 1a5t_A            7 LRPDFEKLVASYQAGRGHHALLIQALPGMGDDALIYALSRYLLCQQPQGHKSCGHCRGCQLMQAGTHPD-YYTLAPEKGK   85 (334)
T ss_dssp             GHHHHHHHHHHHHTTCCCSEEEEECCTTSCHHHHHHHHHHHHTCSSCBTTBCCSCSHHHHHHHHTCCTT-EEEECCCTTC
T ss_pred             hHHHHHHHHHHHHcCCcceeEEEECCCCchHHHHHHHHHHHHhCCCCCCCCCCCCCHHHHHHhcCCCCC-EEEEeccccC
Confidence            3556677777776655 457999999999999999999887621110                   122 1222211   


Q ss_pred             CcCCHHHHHHHHHHHhCCCCCccCCCChhHHHHHHHHHhccCcEEEEEeccccc--cccccccccCCCCCCCcEEEEEcC
Q 038398          188 KDLQLEKIQEKIGRRIGFFDESWKNGSLEDKTSDILRILGKKKFLLLLDDIWER--VDLTKVGIPFPDPENKSKIVFTTH  265 (720)
Q Consensus       188 ~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~iiiTtR  265 (720)
                      ....+..+ +++...+....                  ..+++-++|+|+++..  .....+...+.....++.+|++|.
T Consensus        86 ~~~~i~~i-r~l~~~~~~~~------------------~~~~~kvviIdead~l~~~a~naLLk~lEep~~~~~~Il~t~  146 (334)
T 1a5t_A           86 NTLGVDAV-REVTEKLNEHA------------------RLGGAKVVWVTDAALLTDAAANALLKTLEEPPAETWFFLATR  146 (334)
T ss_dssp             SSBCHHHH-HHHHHHTTSCC------------------TTSSCEEEEESCGGGBCHHHHHHHHHHHTSCCTTEEEEEEES
T ss_pred             CCCCHHHH-HHHHHHHhhcc------------------ccCCcEEEEECchhhcCHHHHHHHHHHhcCCCCCeEEEEEeC
Confidence            11111111 12222221100                  1246779999999753  222333222333334567777665


Q ss_pred             Chh-Hhh-hhccCceeeccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCcchHHHHH
Q 038398          266 FLE-ICG-ALKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGLPLALITI  329 (720)
Q Consensus       266 ~~~-v~~-~~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~GlPLai~~~  329 (720)
                      +.. +.. ..+....+++++++.++..+.+.....        --.+.+..+++.++|.|..+..+
T Consensus       147 ~~~~l~~ti~SRc~~~~~~~~~~~~~~~~L~~~~~--------~~~~~~~~l~~~s~G~~r~a~~~  204 (334)
T 1a5t_A          147 EPERLLATLRSRCRLHYLAPPPEQYAVTWLSREVT--------MSQDALLAALRLSAGSPGAALAL  204 (334)
T ss_dssp             CGGGSCHHHHTTSEEEECCCCCHHHHHHHHHHHCC--------CCHHHHHHHHHHTTTCHHHHHHT
T ss_pred             ChHhCcHHHhhcceeeeCCCCCHHHHHHHHHHhcC--------CCHHHHHHHHHHcCCCHHHHHHH
Confidence            543 221 112235789999999999999987751        11355678999999999765443

>2ra8_A Uncharacterized protein Q64V53_bacfr; WGR domain, LRR domain, leucine rich repeats, BFR43, structural genomics, PSI-2; 1.95A {Bacteroides fragilis}

Probab=98.14  E-value=5.7e-06  Score=85.93  Aligned_cols=79  Identities=20%  Similarity=0.296  Sum_probs=45.7

Q ss_pred             CCCcccEEEccCCCCc---------CcchHHhccCCcccEEEccCCCCCccCCccccCCCCCCEEeccCCCCccc-chhh
Q 038398          514 TCPHLLSLFLSDNSLK---------MSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSSTAITHL-PIEL  583 (720)
Q Consensus       514 ~~~~L~~L~l~~~~~~---------~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~~~i~~l-p~~i  583 (720)
                      .+++|+.|.+..+...         ......+..+|+|+.|+|++|... .+|. + .+++|++|+|..|.+..- ...+
T Consensus       137 ~l~~L~~L~l~~~~~e~~~is~~~~~~L~~ll~~~P~L~~L~L~g~~~l-~l~~-~-~~~~L~~L~L~~~~l~~~~l~~l  213 (362)
T 2ra8_A          137 KFAHFEGLFWGDIDFEEQEISWIEQVDLSPVLDAMPLLNNLKIKGTNNL-SIGK-K-PRPNLKSLEIISGGLPDSVVEDI  213 (362)
T ss_dssp             HHTTCSEEEECCCCTTTCCGGGCBCCBCHHHHHTCTTCCEEEEECCBTC-BCCS-C-BCTTCSEEEEECSBCCHHHHHHH
T ss_pred             hcchhhheeecCcchhhcccccccccCHHHHHhcCCCCcEEEEeCCCCc-eecc-c-cCCCCcEEEEecCCCChHHHHHH
Confidence            4567888877554221         112244567777888888776322 3343 3 367777777777665421 1123


Q ss_pred             h--cCCCCCEEecc
Q 038398          584 Q--KLVNLKCLNLE  595 (720)
Q Consensus       584 ~--~l~~L~~L~l~  595 (720)
                      .  .+++|++|+|+
T Consensus       214 ~~~~lp~L~~L~L~  227 (362)
T 2ra8_A          214 LGSDLPNLEKLVLY  227 (362)
T ss_dssp             HHSBCTTCCEEEEE
T ss_pred             HHccCCCCcEEEEe
Confidence            2  57777777775

>3pxg_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 3.65A {Bacillus subtilis}

Probab=98.13  E-value=1.7e-05  Score=85.78  Aligned_cols=151  Identities=14%  Similarity=0.197  Sum_probs=83.2

Q ss_pred             CCCCcCchHHHHHHHHHhcCCCceEEEEEcCCCChHHHHHHHHHhhhcCC--CCCc-C-EEEEEEecCcCCHHHHHHHHH
Q 038398          125 CEPTVGLESTFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGA--PNVF-D-VVIWVVVSKDLQLEKIQEKIG  200 (720)
Q Consensus       125 ~~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~--~~~f-~-~~~wv~v~~~~~~~~~~~~i~  200 (720)
                      .+++|||+.+++.+...+......-+.++|++|+|||++|+.+++.....  .... + .++.++++             
T Consensus       179 ld~iiGr~~~i~~l~~~l~r~~~~~~LL~G~pG~GKT~la~~la~~l~~~~~p~~l~~~~~~~l~~~-------------  245 (468)
T 3pxg_A          179 LDPVIGRSKEIQRVIEVLSRRTKNNPVLIGEPGVGKTAIAEGLAQQIINNEVPEILRDKRVMTLDMG-------------  245 (468)
T ss_dssp             SCCCCCCHHHHHHHHHHHHCSSSCEEEEESCTTTTTHHHHHHHHHHHHSSCSCTTTSSCCEECC----------------
T ss_pred             CCCccCcHHHHHHHHHHHhccCCCCeEEECCCCCCHHHHHHHHHHHHHhCCCChhhcCCeEEEeeCC-------------
Confidence            35689999999999999976555677899999999999999999886210  0011 1 12222222             


Q ss_pred             HHhCCCCCccCCCChhHHHHHHHHHhccCcEEEEEeccccccccccccccCCCCCCCcEEEEEcCChhHh-------hhh
Q 038398          201 RRIGFFDESWKNGSLEDKTSDILRILGKKKFLLLLDDIWERVDLTKVGIPFPDPENKSKIVFTTHFLEIC-------GAL  273 (720)
Q Consensus       201 ~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~~~~l~~~~~~~~~gs~iiiTtR~~~v~-------~~~  273 (720)
                         ...    ...........+...-..++.+|++|  ........+...+.  ....++|.+|......       ...
T Consensus       246 ---~~~----~g~~e~~~~~~~~~~~~~~~~iLfiD--~~~~a~~~L~~~L~--~g~v~vI~at~~~e~~~~~~~~~al~  314 (468)
T 3pxg_A          246 ---TKY----RGEFEDRLKKVMDEIRQAGNIILFID--AAIDASNILKPSLA--RGELQCIGATTLDEYRKYIEKDAALE  314 (468)
T ss_dssp             --------------CTTHHHHHHHHHTCCCCEEEEC--C--------CCCTT--SSSCEEEEECCTTTTHHHHTTCSHHH
T ss_pred             ---ccc----cchHHHHHHHHHHHHHhcCCeEEEEe--CchhHHHHHHHhhc--CCCEEEEecCCHHHHHHHhhcCHHHH
Confidence               000    00001112222222333567899999  22122222222222  2235666666544311       111


Q ss_pred             ccCceeeccCCChhhHHHHHHHHhcc
Q 038398          274 KAHEFLKVECLGPEDAWRLFRENLRR  299 (720)
Q Consensus       274 ~~~~~~~l~~L~~~e~~~Lf~~~~~~  299 (720)
                      .-...+.+++++.++..+++...+..
T Consensus       315 ~Rf~~i~v~~p~~e~~~~iL~~~~~~  340 (468)
T 3pxg_A          315 RRFQPIQVDQPSVDESIQILQGLRDR  340 (468)
T ss_dssp             HSEEEEECCCCCHHHHHHHHHHTTTT
T ss_pred             HhCccceeCCCCHHHHHHHHHHHHHH
Confidence            12246899999999999999877643

>4b4t_J 26S protease regulatory subunit 8 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.12  E-value=5.1e-05  Score=78.55  Aligned_cols=170  Identities=18%  Similarity=0.183  Sum_probs=98.0

Q ss_pred             CCCcCchHHHHHHHHHhcC-------------CCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCH
Q 038398          126 EPTVGLESTFDKVWRCLGE-------------EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQL  192 (720)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~-------------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~  192 (720)
                      +++.|.++.+++|.+.+.-             ...+-|.++|++|+|||.||+++++..   ...|   +.|..+.-.+ 
T Consensus       148 ~dIgGl~~~k~~l~e~v~~Pl~~pe~f~~~gi~~prGvLL~GPPGTGKTllAkAiA~e~---~~~f---~~v~~s~l~s-  220 (405)
T 4b4t_J          148 DMVGGLTKQIKEIKEVIELPVKHPELFESLGIAQPKGVILYGPPGTGKTLLARAVAHHT---DCKF---IRVSGAELVQ-  220 (405)
T ss_dssp             GGSCSCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCCCEEEESCSSSSHHHHHHHHHHHH---TCEE---EEEEGGGGSC-
T ss_pred             HHhCCHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCceEEeCCCCCCHHHHHHHHHHhh---CCCc---eEEEhHHhhc-
Confidence            4567999988888765521             245678999999999999999999987   2232   3333222110 


Q ss_pred             HHHHHHHHHHhCCCCCccCCCChhHHHHHHHHHh-ccCcEEEEEeccccccc----------------cccccccCC--C
Q 038398          193 EKIQEKIGRRIGFFDESWKNGSLEDKTSDILRIL-GKKKFLLLLDDIWERVD----------------LTKVGIPFP--D  253 (720)
Q Consensus       193 ~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l-~~k~~LlVlDdv~~~~~----------------~~~l~~~~~--~  253 (720)
                                   .    .....+.....+.... ...+++|++|+++....                +..+...+.  .
T Consensus       221 -------------k----~vGese~~vr~lF~~Ar~~aP~IIFiDEiDai~~~R~~~~~~~~~~~~~~l~~lL~~lDg~~  283 (405)
T 4b4t_J          221 -------------K----YIGEGSRMVRELFVMAREHAPSIIFMDEIDSIGSTRVEGSGGGDSEVQRTMLELLNQLDGFE  283 (405)
T ss_dssp             -------------S----STTHHHHHHHHHHHHHHHTCSEEEEEESSSCCTTSCSCSSSGGGGHHHHHHHHHHHHHHTTT
T ss_pred             -------------c----ccchHHHHHHHHHHHHHHhCCceEeeecchhhccCCCCCCCCCcHHHHHHHHHHHHhhhccC
Confidence                         0    0111222223333222 34689999999875210                011111111  1


Q ss_pred             CCCCcEEEEEcCChhHh-----hhhccCceeeccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCcc
Q 038398          254 PENKSKIVFTTHFLEIC-----GALKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGLP  323 (720)
Q Consensus       254 ~~~gs~iiiTtR~~~v~-----~~~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~GlP  323 (720)
                      ...+..||.||......     ..-.-...+.++..+.++-.++|..+..........+    ...|++.+.|.-
T Consensus       284 ~~~~V~vIaATNrpd~LDpAllRpGRfD~~I~i~lPd~~~R~~Il~~~~~~~~l~~dvd----l~~lA~~t~G~S  354 (405)
T 4b4t_J          284 TSKNIKIIMATNRLDILDPALLRPGRIDRKIEFPPPSVAARAEILRIHSRKMNLTRGIN----LRKVAEKMNGCS  354 (405)
T ss_dssp             CCCCEEEEEEESCSSSSCHHHHSTTSSCCEEECCCCCHHHHHHHHHHHHTTSBCCSSCC----HHHHHHHCCSCC
T ss_pred             CCCCeEEEeccCChhhCCHhHcCCCcCceEEEcCCcCHHHHHHHHHHHhcCCCCCccCC----HHHHHHHCCCCC
Confidence            22344566676544331     1112356788999999999999988876544233333    456777887754

>2ra8_A Uncharacterized protein Q64V53_bacfr; WGR domain, LRR domain, leucine rich repeats, BFR43, structural genomics, PSI-2; 1.95A {Bacteroides fragilis}

Probab=98.07  E-value=7.6e-06  Score=85.00  Aligned_cols=159  Identities=16%  Similarity=0.200  Sum_probs=82.2

Q ss_pred             ccccceeEEEeccccccc----------CCC-CCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCccCCcc
Q 038398          491 QNWRNVRRMSLMKNKIEN----------LSE-TPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSG  559 (720)
Q Consensus       491 ~~~~~l~~L~l~~~~~~~----------~~~-~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~  559 (720)
                      ..+++|+.|.+.......          +.. +..+|+|+.|.+++|.-..+++  +. +++|+.|+|..|.+.......
T Consensus       136 ~~l~~L~~L~l~~~~~e~~~is~~~~~~L~~ll~~~P~L~~L~L~g~~~l~l~~--~~-~~~L~~L~L~~~~l~~~~l~~  212 (362)
T 2ra8_A          136 EKFAHFEGLFWGDIDFEEQEISWIEQVDLSPVLDAMPLLNNLKIKGTNNLSIGK--KP-RPNLKSLEIISGGLPDSVVED  212 (362)
T ss_dssp             HHHTTCSEEEECCCCTTTCCGGGCBCCBCHHHHHTCTTCCEEEEECCBTCBCCS--CB-CTTCSEEEEECSBCCHHHHHH
T ss_pred             hhcchhhheeecCcchhhcccccccccCHHHHHhcCCCCcEEEEeCCCCceecc--cc-CCCCcEEEEecCCCChHHHHH
Confidence            345678888775442211          111 1456888888888873123333  33 788888888877544332233


Q ss_pred             cc--CCCCCCEEeccCC--C------Ccccchhh--hcCCCCCEEeccCCcCCCCCchhhh--hccccCceeeccccCCC
Q 038398          560 IS--TLVSLEHLDLSST--A------ITHLPIEL--QKLVNLKCLNLEYMNNLNQFPRLVI--SAFSKLQVLRMFDCGGS  625 (720)
Q Consensus       560 i~--~l~~L~~L~L~~~--~------i~~lp~~i--~~l~~L~~L~l~~~~~l~~lp~~~~--~~l~~L~~L~~~~~~~~  625 (720)
                      ++  .+++|++|+|+.+  .      +..+...+  ..+++|++|++.+|......+....  ..+++|++|++.   .|
T Consensus       213 l~~~~lp~L~~L~L~~~~~~~~~~~~~~~l~~~l~~~~~p~Lr~L~L~~~~i~~~~~~~la~a~~~~~L~~LdLs---~n  289 (362)
T 2ra8_A          213 ILGSDLPNLEKLVLYVGVEDYGFDGDMNVFRPLFSKDRFPNLKWLGIVDAEEQNVVVEMFLESDILPQLETMDIS---AG  289 (362)
T ss_dssp             HHHSBCTTCCEEEEECBCGGGTCCSCGGGTGGGSCTTTCTTCCEEEEESCTTHHHHHHHHHHCSSGGGCSEEECC---SS
T ss_pred             HHHccCCCCcEEEEeccccccccchhHHHHHHHHhcCCCCCcCEEeCCCCCCchHHHHHHHhCccCCCCCEEECC---CC
Confidence            33  6788888887531  1      22222222  2467888888877532111111111  135566666653   34


Q ss_pred             cccchhcccccCCccccHHHhcCCCCCceeEEEecch
Q 038398          626 KIERLKINVLFGGHQFLVEELMGMKHLMVLTITLKSW  662 (720)
Q Consensus       626 ~l~~l~~~~~~~~~~~~~~~l~~l~~L~~L~~~~~~~  662 (720)
                      .+.....       ..+...+.++++|+.|+++.|.+
T Consensus       290 ~L~d~G~-------~~L~~~L~~l~~L~~L~L~~n~i  319 (362)
T 2ra8_A          290 VLTDEGA-------RLLLDHVDKIKHLKFINMKYNYL  319 (362)
T ss_dssp             CCBHHHH-------HHHHTTHHHHTTCSEEECCSBBC
T ss_pred             CCChHHH-------HHHHhhcccCCcceEEECCCCcC
Confidence            4332110       01122234556677777766554

>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=98.03  E-value=1.8e-05  Score=78.82  Aligned_cols=173  Identities=16%  Similarity=0.088  Sum_probs=90.5

Q ss_pred             CCCCcCchHHHHHHHHHhcC------------CCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCH
Q 038398          125 CEPTVGLESTFDKVWRCLGE------------EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQL  192 (720)
Q Consensus       125 ~~~~vGr~~~~~~l~~~L~~------------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~  192 (720)
                      ..+++|.+..++++.+.+..            ...+-+.|+|++|+|||+||+.+++..   ...|-   .+..+.-.+ 
T Consensus        10 ~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~~---~~~~~---~v~~~~~~~-   82 (268)
T 2r62_A           10 FKDMAGNEEAKEEVVEIVDFLKYPERYANLGAKIPKGVLLVGPPGTGKTLLAKAVAGEA---HVPFF---SMGGSSFIE-   82 (268)
T ss_dssp             STTSSSCTTTHHHHHHHHHHHHCHHHHHHHSCCCCSCCCCBCSSCSSHHHHHHHHHHHH---TCCCC---CCCSCTTTT-
T ss_pred             HHHhCCcHHHHHHHHHHHHHHHChHHHHHCCCCCCceEEEECCCCCcHHHHHHHHHHHh---CCCEE---EechHHHHH-
Confidence            36789999888877665531            123447899999999999999999886   22221   111111000 


Q ss_pred             HHHHHHHHHHhCCCCCccCCCChhHHHHHHHHHhccCcEEEEEecccccc-----------------ccccccccCCC--
Q 038398          193 EKIQEKIGRRIGFFDESWKNGSLEDKTSDILRILGKKKFLLLLDDIWERV-----------------DLTKVGIPFPD--  253 (720)
Q Consensus       193 ~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~-----------------~~~~l~~~~~~--  253 (720)
                               ... ..   ..........   .....++.+|+|||++...                 .+..+...+..  
T Consensus        83 ---------~~~-~~---~~~~~~~~~~---~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~  146 (268)
T 2r62_A           83 ---------MFV-GL---GASRVRDLFE---TAKKQAPSIIFIDEIDAIGKSRAAGGVVSGNDEREQTLNQLLAEMDGFG  146 (268)
T ss_dssp             ---------SCS-SS---CSSSSSTTHH---HHHHSCSCEEEESCGGGTTC----------CCCSCSSTTTTTTTTTCSS
T ss_pred             ---------hhc-ch---HHHHHHHHHH---HHHhcCCeEEEEeChhhhcccccccccCCCchhHHHHHHHHHHHhhCcc
Confidence                     000 00   1111112222   2223467899999996421                 11222222211  


Q ss_pred             -CCCCcEEEEEcCChhHhh--hh---ccCceeeccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCcch
Q 038398          254 -PENKSKIVFTTHFLEICG--AL---KAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGLPL  324 (720)
Q Consensus       254 -~~~gs~iiiTtR~~~v~~--~~---~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~GlPL  324 (720)
                       ......||.||.......  ..   .....+.++.++.++-.+++...+..........+    ..|++.+.|.|-
T Consensus       147 ~~~~~v~vi~ttn~~~~ld~~l~r~~Rf~~~i~i~~p~~~~r~~il~~~~~~~~~~~~~~~----~~la~~~~g~~g  219 (268)
T 2r62_A          147 SENAPVIVLAATNRPEILDPALMRPGRFDRQVLVDKPDFNGRVEILKVHIKGVKLANDVNL----QEVAKLTAGLAG  219 (268)
T ss_dssp             CSCSCCEEEECBSCCTTSCGGGGSSSSSCCCCBCCCCCTTTHHHHHHHHTSSSCCCSSCCT----TTTTSSSCSSCH
T ss_pred             cCCCCEEEEEecCCchhcCHhHcCCCCCCeEEEecCcCHHHHHHHHHHHHhcCCCCCccCH----HHHHHHcCCCCH
Confidence             112245666665443211  11   12346788999999999999887654321112222    234555666543

>4b4t_L 26S protease subunit RPT4; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.01  E-value=6.7e-05  Score=79.00  Aligned_cols=170  Identities=14%  Similarity=0.177  Sum_probs=97.1

Q ss_pred             CCCcCchHHHHHHHHHhc----C---------CCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCH
Q 038398          126 EPTVGLESTFDKVWRCLG----E---------EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQL  192 (720)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~----~---------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~  192 (720)
                      +++.|.++.+++|.+.+.    .         ...+-|.++|++|+|||+||+++++..   ...   .+.+..+.-.+ 
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            456789988888766552    1         245789999999999999999999987   222   23333322110 


Q ss_pred             HHHHHHHHHHhCCCCCccCCCChhHHHHHHHHHh-ccCcEEEEEeccccccc----------------cccccccCC--C
Q 038398          193 EKIQEKIGRRIGFFDESWKNGSLEDKTSDILRIL-GKKKFLLLLDDIWERVD----------------LTKVGIPFP--D  253 (720)
Q Consensus       193 ~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l-~~k~~LlVlDdv~~~~~----------------~~~l~~~~~--~  253 (720)
                                   .    .....+.....+.... ...+++|++|+++....                +..+...+.  .
T Consensus       254 -------------k----~~Gese~~ir~~F~~A~~~~P~IifiDEiDai~~~R~~~~~~~~~~~~~~l~~lL~~lDg~~  316 (437)
T 4b4t_L          254 -------------K----YIGESARIIREMFAYAKEHEPCIIFMDEVDAIGGRRFSEGTSADREIQRTLMELLTQMDGFD  316 (437)
T ss_dssp             -------------S----SSSHHHHHHHHHHHHHHHSCSEEEEEECCCSSSCCCSSSCCSSTTHHHHHHHHHHHHHHSSS
T ss_pred             -------------c----cchHHHHHHHHHHHHHHhcCCceeeeecccccccccccCCCCcchHHHHHHHHHHHHhhccc
Confidence                         0    0111122222222222 34789999999974210                011111111  1


Q ss_pred             CCCCcEEEEEcCChhHhhh--hc---cCceeeccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCcc
Q 038398          254 PENKSKIVFTTHFLEICGA--LK---AHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGLP  323 (720)
Q Consensus       254 ~~~gs~iiiTtR~~~v~~~--~~---~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~GlP  323 (720)
                      ...+..||.||........  ..   -...+.++..+.++-.++|+.++.........+    ...+++.+.|+-
T Consensus       317 ~~~~vivI~ATNrp~~LDpAllRpGRfD~~I~i~lPd~~~R~~Il~~~~~~~~~~~d~d----l~~lA~~t~G~s  387 (437)
T 4b4t_L          317 NLGQTKIIMATNRPDTLDPALLRPGRLDRKVEIPLPNEAGRLEIFKIHTAKVKKTGEFD----FEAAVKMSDGFN  387 (437)
T ss_dssp             CTTSSEEEEEESSTTSSCTTTTSTTSEEEEECCCCCCHHHHHHHHHHHHHTSCBCSCCC----HHHHHHTCCSCC
T ss_pred             CCCCeEEEEecCCchhhCHHHhCCCccceeeecCCcCHHHHHHHHHHHhcCCCCCcccC----HHHHHHhCCCCC
Confidence            2234567777755443211  11   235688888888888899988775443223333    355677777754

>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=97.99  E-value=1.5e-05  Score=93.13  Aligned_cols=155  Identities=15%  Similarity=0.252  Sum_probs=85.2

Q ss_pred             CCCCcCchHHHHHHHHHhcCCCceEEEEEcCCCChHHHHHHHHHhhhcC--CCCCc--CEEEEEEecCcCCHHHHHHHHH
Q 038398          125 CEPTVGLESTFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLG--APNVF--DVVIWVVVSKDLQLEKIQEKIG  200 (720)
Q Consensus       125 ~~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~--~~~~f--~~~~wv~v~~~~~~~~~~~~i~  200 (720)
                      .+++|||++++++++..+.......+.++|++|+||||+|+.+++....  +....  ..+++++++.-..         
T Consensus       169 ld~viGr~~~i~~l~~~l~~~~~~~vlL~G~pG~GKT~la~~la~~l~~~~~p~~l~~~~~~~l~~~~l~~---------  239 (854)
T 1qvr_A          169 LDPVIGRDEEIRRVIQILLRRTKNNPVLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIVSLQMGSLLA---------  239 (854)
T ss_dssp             SCCCCSCHHHHHHHHHHHHCSSCCCCEEEECTTSCHHHHHHHHHHHHHHTCSCTTSTTCEEEEECC--------------
T ss_pred             CcccCCcHHHHHHHHHHHhcCCCCceEEEcCCCCCHHHHHHHHHHHHhcCCCchhhcCCeEEEeehHHhhc---------
Confidence            4678999999999999997765667889999999999999999887521  11111  1344443321100         


Q ss_pred             HHhCCCCCccCCCChhHHHHHHHHHhc--cCcEEEEEeccccccc-------cc---cccccCCCCCCCcEEEEEcCChh
Q 038398          201 RRIGFFDESWKNGSLEDKTSDILRILG--KKKFLLLLDDIWERVD-------LT---KVGIPFPDPENKSKIVFTTHFLE  268 (720)
Q Consensus       201 ~~l~~~~~~~~~~~~~~~~~~l~~~l~--~k~~LlVlDdv~~~~~-------~~---~l~~~~~~~~~gs~iiiTtR~~~  268 (720)
                         +..    .....+.....+...+.  +++.+|++|+++....       ++   .+...+ . ..+..+|.+|....
T Consensus       240 ---g~~----~~g~~~~~l~~~~~~~~~~~~~~iL~IDEi~~l~~~~~~~g~~~~~~~L~~~l-~-~~~i~~I~at~~~~  310 (854)
T 1qvr_A          240 ---GAK----YRGEFEERLKAVIQEVVQSQGEVILFIDELHTVVGAGKAEGAVDAGNMLKPAL-A-RGELRLIGATTLDE  310 (854)
T ss_dssp             -------------CHHHHHHHHHHHHHTTCSSEEEEECCC-------------------HHHH-H-TTCCCEEEEECHHH
T ss_pred             ---cCc----cchHHHHHHHHHHHHHHhcCCCeEEEEecHHHHhccCCccchHHHHHHHHHHH-h-CCCeEEEEecCchH
Confidence               000    11122333333333332  3678999999975320       11   111111 1 12344555554333


Q ss_pred             Hh-----h-hhccCceeeccCCChhhHHHHHHHHh
Q 038398          269 IC-----G-ALKAHEFLKVECLGPEDAWRLFRENL  297 (720)
Q Consensus       269 v~-----~-~~~~~~~~~l~~L~~~e~~~Lf~~~~  297 (720)
                      ..     . ...-...+.+++++.++..+++....
T Consensus       311 ~~~~~~d~aL~rRf~~i~l~~p~~~e~~~iL~~~~  345 (854)
T 1qvr_A          311 YREIEKDPALERRFQPVYVDEPTVEETISILRGLK  345 (854)
T ss_dssp             HHHHTTCTTTCSCCCCEEECCCCHHHHHHHHHHHH
T ss_pred             HhhhccCHHHHhCCceEEeCCCCHHHHHHHHHhhh
Confidence            21     1 11112458899999999999987554

>4b4t_M 26S protease regulatory subunit 6A; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.97  E-value=7.6e-05  Score=78.51  Aligned_cols=170  Identities=12%  Similarity=0.159  Sum_probs=96.1

Q ss_pred             CCCcCchHHHHHHHHHhc----C---------CCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCH
Q 038398          126 EPTVGLESTFDKVWRCLG----E---------EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQL  192 (720)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~----~---------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~  192 (720)
                      +++.|.++.+++|.+.+.    .         ...+-|.++||+|+|||+||+++++..   ...   .+.+..+.-   
T Consensus       181 ~digGl~~~k~~l~e~v~~pl~~pe~f~~~g~~~prGvLLyGPPGTGKTllAkAiA~e~---~~~---f~~v~~s~l---  251 (434)
T 4b4t_M          181 SDVGGLDKQIEELVEAIVLPMKRADKFKDMGIRAPKGALMYGPPGTGKTLLARACAAQT---NAT---FLKLAAPQL---  251 (434)
T ss_dssp             GGSCSCHHHHHHHHHHTHHHHHCSHHHHHHCCCCCCEEEEESCTTSSHHHHHHHHHHHH---TCE---EEEEEGGGG---
T ss_pred             HhcCcHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCeeEEECcCCCCHHHHHHHHHHHh---CCC---EEEEehhhh---
Confidence            455799998888876642    1         245789999999999999999999987   222   233332211   


Q ss_pred             HHHHHHHHHHhCCCCCccCCCChhHHHHHHHHHh-ccCcEEEEEecccccc-------c---------cccccccCC--C
Q 038398          193 EKIQEKIGRRIGFFDESWKNGSLEDKTSDILRIL-GKKKFLLLLDDIWERV-------D---------LTKVGIPFP--D  253 (720)
Q Consensus       193 ~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l-~~k~~LlVlDdv~~~~-------~---------~~~l~~~~~--~  253 (720)
                                 ...    .....+.....+.... ...+++|++|+++...       .         ...+...+.  .
T Consensus       252 -----------~~~----~vGese~~ir~lF~~A~~~aP~IifiDEiDal~~~R~~~~~~~~~~~~~~~~~lL~~ldg~~  316 (434)
T 4b4t_M          252 -----------VQM----YIGEGAKLVRDAFALAKEKAPTIIFIDELDAIGTKRFDSEKSGDREVQRTMLELLNQLDGFS  316 (434)
T ss_dssp             -----------CSS----CSSHHHHHHHHHHHHHHHHCSEEEEEECTHHHHCCCSSGGGGTTHHHHHHHHHHHHHHTTSC
T ss_pred             -----------hhc----ccchHHHHHHHHHHHHHhcCCeEEeecchhhhhhccCCCCCCCchHHHHHHHHHHHHhhccC
Confidence                       000    0111122223333222 3468999999986310       0         011111111  1


Q ss_pred             CCCCcEEEEEcCChhHhh-hh----ccCceeeccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCcc
Q 038398          254 PENKSKIVFTTHFLEICG-AL----KAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGLP  323 (720)
Q Consensus       254 ~~~gs~iiiTtR~~~v~~-~~----~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~GlP  323 (720)
                      ...+..||.||....... .+    .-...+.++..+.++-.++|+.++.........+    ...|++.+.|+-
T Consensus       317 ~~~~ViVIaaTNrp~~LD~AllRpGRfD~~I~i~lPd~~~R~~Il~~~~~~~~~~~dvd----l~~lA~~t~G~s  387 (434)
T 4b4t_M          317 SDDRVKVLAATNRVDVLDPALLRSGRLDRKIEFPLPSEDSRAQILQIHSRKMTTDDDIN----WQELARSTDEFN  387 (434)
T ss_dssp             SSCSSEEEEECSSCCCCCTTTCSTTSEEEEEECCCCCHHHHHHHHHHHHHHSCBCSCCC----HHHHHHHCSSCC
T ss_pred             CCCCEEEEEeCCCchhcCHhHhcCCceeEEEEeCCcCHHHHHHHHHHHhcCCCCCCcCC----HHHHHHhCCCCC
Confidence            223445666775544321 11    2235688888899988899887765433223333    356677887753

>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=97.96  E-value=2.5e-06  Score=83.94  Aligned_cols=83  Identities=28%  Similarity=0.341  Sum_probs=55.1

Q ss_pred             ccCCcccEEEccCCCCCc--cCCccccCCCCCCEEeccCCCCcccchhhhcCC--CCCEEeccCCcCCCCCc------hh
Q 038398          537 QSMPSLRVFNMSNNHLLW--KLPSGISTLVSLEHLDLSSTAITHLPIELQKLV--NLKCLNLEYMNNLNQFP------RL  606 (720)
Q Consensus       537 ~~l~~L~~L~L~~~~~~~--~lp~~i~~l~~L~~L~L~~~~i~~lp~~i~~l~--~L~~L~l~~~~~l~~lp------~~  606 (720)
                      .++++|+.|+|++|.+.+  .+|..+..+++|++|+|++|.|+.+. .+..+.  +|+.|+|++|.-...+|      ..
T Consensus       167 ~~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          167 ENIPELLSLNLSNNRLYRLDDMSSIVQKAPNLKILNLSGNELKSER-ELDKIKGLKLEELWLDGNSLCDTFRDQSTYISA  245 (267)
T ss_dssp             HHCTTCCEEECTTSCCCCCGGGTTHHHHSTTCCEEECTTSCCCSGG-GGGGGTTSCCSEEECTTSTTGGGCSSHHHHHHH
T ss_pred             hhCCCCCEEECCCCCCCCCccchhHHhhCCCCCEEECCCCccCCch-hhhhcccCCcceEEccCCcCccccCcchhHHHH
Confidence            567888888888886654  44566667888888888888887763 344444  78888888854323333      12


Q ss_pred             hhhccccCceeecc
Q 038398          607 VISAFSKLQVLRMF  620 (720)
Q Consensus       607 ~~~~l~~L~~L~~~  620 (720)
                      ++..+++|+.|+-.
T Consensus       246 il~~~P~L~~LDg~  259 (267)
T 3rw6_A          246 IRERFPKLLRLDGH  259 (267)
T ss_dssp             HHHHCTTCCEESSC
T ss_pred             HHHHCcccCeECCc
Confidence            45667777776544

>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=97.95  E-value=3.3e-05  Score=78.08  Aligned_cols=147  Identities=13%  Similarity=0.139  Sum_probs=89.0

Q ss_pred             CchHHHHHHHHHhcCCCceEEEEEcCCCChHHHHHHHHHhhhcCCC-CCcCEEEEEEecC-cCCHHHHHHHHHHHhCCCC
Q 038398          130 GLESTFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAP-NVFDVVIWVVVSK-DLQLEKIQEKIGRRIGFFD  207 (720)
Q Consensus       130 Gr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~-~~f~~~~wv~v~~-~~~~~~~~~~i~~~l~~~~  207 (720)
                      |.++.++.+...+..+..+.+.++|++|+||||+|+.+.+...... .+.+ +.++..+. ...+..+ +++...+....
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 GAKDQLETLKRIIEKSEGISILINGEDLSYPREVSLELPEYVEKFPPKASD-VLEIDPEGENIGIDDI-RTIKDFLNYSP   78 (305)
T ss_dssp             ---CHHHHHHHHHHTCSSEEEEEECSSSSHHHHHHHHHHHHHHTSCCCTTT-EEEECCSSSCBCHHHH-HHHHHHHTSCC
T ss_pred             ChHHHHHHHHHHHHCCCCcEEEEECCCCCCHHHHHHHHHHhCchhhccCCC-EEEEcCCcCCCCHHHH-HHHHHHHhhcc
Confidence            4566778888888776677899999999999999999987531111 2333 34444332 3333333 22444332111


Q ss_pred             CccCCCChhHHHHHHHHHhccCcEEEEEeccccc--cccccccccCCCCCCCcEEEEEcCCh-hHhhhhccCceeeccCC
Q 038398          208 ESWKNGSLEDKTSDILRILGKKKFLLLLDDIWER--VDLTKVGIPFPDPENKSKIVFTTHFL-EICGALKAHEFLKVECL  284 (720)
Q Consensus       208 ~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~iiiTtR~~-~v~~~~~~~~~~~l~~L  284 (720)
                                        ..+++-++|+|+++..  .....+...+......+.+|++|.+. .+....... .+++.++
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                              1245678999999753  23333433333334566777666443 343333334 8999999


Q ss_pred             ChhhHHHHHHHHh
Q 038398          285 GPEDAWRLFRENL  297 (720)
Q Consensus       285 ~~~e~~~Lf~~~~  297 (720)
                      ++++..+.+.+.+
T Consensus       140 ~~~~i~~~L~~~~  152 (305)
T 2gno_A          140 VPKEFRDLVKEKI  152 (305)
T ss_dssp             CCHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHh
Confidence            9999999998876

>4b4t_H 26S protease regulatory subunit 7 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.91  E-value=9.1e-05  Score=77.71  Aligned_cols=170  Identities=18%  Similarity=0.227  Sum_probs=97.1

Q ss_pred             CCCcCchHHHHHHHHHhc----C---------CCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCH
Q 038398          126 EPTVGLESTFDKVWRCLG----E---------EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQL  192 (720)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~----~---------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~  192 (720)
                      +++.|.++.+++|.+.+.    .         ...+-|.++|++|+|||+||+++++..   ...|   +.+..+.-.  
T Consensus       209 ~DIgGl~~~k~~L~e~V~~pl~~pe~f~~~Gi~pprGILLyGPPGTGKTlLAkAiA~e~---~~~f---i~vs~s~L~--  280 (467)
T 4b4t_H          209 SDVGGCKDQIEKLREVVELPLLSPERFATLGIDPPKGILLYGPPGTGKTLCARAVANRT---DATF---IRVIGSELV--  280 (467)
T ss_dssp             SSCTTCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCSEEEECSCTTSSHHHHHHHHHHHH---TCEE---EEEEGGGGC--
T ss_pred             HHhccHHHHHHHHHHHHHHHhcCHHHHHHCCCCCCCceEeeCCCCCcHHHHHHHHHhcc---CCCe---EEEEhHHhh--
Confidence            456799998888876542    1         356789999999999999999999987   2222   333322110  


Q ss_pred             HHHHHHHHHHhCCCCCccCCCChhHHHHHHHHH-hccCcEEEEEeccccccc----------------cccccccCC--C
Q 038398          193 EKIQEKIGRRIGFFDESWKNGSLEDKTSDILRI-LGKKKFLLLLDDIWERVD----------------LTKVGIPFP--D  253 (720)
Q Consensus       193 ~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~-l~~k~~LlVlDdv~~~~~----------------~~~l~~~~~--~  253 (720)
                                  ..    .....+.....+... -...+++|++|+++....                ...+...+.  .
T Consensus       281 ------------sk----~vGesek~ir~lF~~Ar~~aP~IIfiDEiDai~~~R~~~~~~~~~~~~~~l~~lL~~lDg~~  344 (467)
T 4b4t_H          281 ------------QK----YVGEGARMVRELFEMARTKKACIIFFDEIDAVGGARFDDGAGGDNEVQRTMLELITQLDGFD  344 (467)
T ss_dssp             ------------CC----SSSHHHHHHHHHHHHHHHTCSEEEEEECCTTTSBCCSSSSCGGGGHHHHHHHHHHHHHHSSC
T ss_pred             ------------cc----cCCHHHHHHHHHHHHHHhcCCceEeecccccccccccCcCCCccHHHHHHHHHHHHHhhccC
Confidence                        00    011112222223222 234789999999874210                001111111  1


Q ss_pred             CCCCcEEEEEcCChhHhh-h-h---ccCceeeccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCcc
Q 038398          254 PENKSKIVFTTHFLEICG-A-L---KAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGLP  323 (720)
Q Consensus       254 ~~~gs~iiiTtR~~~v~~-~-~---~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~GlP  323 (720)
                      ...+..||.||....... . .   .-...+.++..+.++-.++|+.++.........+    ...|++.|.|.-
T Consensus       345 ~~~~ViVIaATNrpd~LDpALlRpGRFD~~I~i~lPd~~~R~~Ilk~~l~~~~l~~dvd----l~~LA~~T~GfS  415 (467)
T 4b4t_H          345 PRGNIKVMFATNRPNTLDPALLRPGRIDRKVEFSLPDLEGRANIFRIHSKSMSVERGIR----WELISRLCPNST  415 (467)
T ss_dssp             CTTTEEEEEECSCTTSBCHHHHSTTTCCEEECCCCCCHHHHHHHHHHHHTTSCBCSSCC----HHHHHHHCCSCC
T ss_pred             CCCcEEEEeCCCCcccCChhhhccccccEEEEeCCcCHHHHHHHHHHHhcCCCCCCCCC----HHHHHHHCCCCC
Confidence            223445566775433311 1 1   2346788999999999999988876543233333    355677888754

>2w58_A DNAI, primosome component (helicase loader); ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.50A {Geobacillus kaustophilus HTA426}

Probab=97.90  E-value=1.7e-05  Score=75.30  Aligned_cols=121  Identities=21%  Similarity=0.190  Sum_probs=64.2

Q ss_pred             CCCCcCchH----HHHHHHHHhcCC----CceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHH
Q 038398          125 CEPTVGLES----TFDKVWRCLGEE----QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQ  196 (720)
Q Consensus       125 ~~~~vGr~~----~~~~l~~~L~~~----~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~  196 (720)
                      .++|++...    .++.+.+++...    ....+.|+|++|+|||+||+.+++...   .....++|+.++      .+.
T Consensus        24 f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~G~~GtGKT~la~~i~~~~~---~~~~~~~~~~~~------~~~   94 (202)
T 2w58_A           24 LSDVDLNDDGRIKAIRFAERFVAEYEPGKKMKGLYLHGSFGVGKTYLLAAIANELA---KRNVSSLIVYVP------ELF   94 (202)
T ss_dssp             TTSSCCSSHHHHHHHHHHHHHHHHCCSSCCCCEEEEECSTTSSHHHHHHHHHHHHH---TTTCCEEEEEHH------HHH
T ss_pred             HhhccCCChhHHHHHHHHHHHHHHhhhccCCCeEEEECCCCCCHHHHHHHHHHHHH---HcCCeEEEEEhH------HHH
Confidence            356665443    444555555432    127899999999999999999998872   223345666543      344


Q ss_pred             HHHHHHhCCCCCccCCCChhHHHHHHHHHhccCcEEEEEeccccc--ccccc--ccc-cCCC-CCCCcEEEEEcCC
Q 038398          197 EKIGRRIGFFDESWKNGSLEDKTSDILRILGKKKFLLLLDDIWER--VDLTK--VGI-PFPD-PENKSKIVFTTHF  266 (720)
Q Consensus       197 ~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~--~~~~~--l~~-~~~~-~~~gs~iiiTtR~  266 (720)
                      ..+.....       ........    +.+.+. -+|||||++..  ..|..  +.. .+.. ...+.++|+||..
T Consensus        95 ~~~~~~~~-------~~~~~~~~----~~~~~~-~~lilDei~~~~~~~~~~~~ll~~~l~~~~~~~~~~i~tsn~  158 (202)
T 2w58_A           95 RELKHSLQ-------DQTMNEKL----DYIKKV-PVLMLDDLGAEAMSSWVRDDVFGPILQYRMFENLPTFFTSNF  158 (202)
T ss_dssp             HHHHHC----------CCCHHHH----HHHHHS-SEEEEEEECCC---CCGGGTTHHHHHHHHHHTTCCEEEEESS
T ss_pred             HHHHHHhc-------cchHHHHH----HHhcCC-CEEEEcCCCCCcCCHHHHHHHHHHHHHHHHhCCCCEEEEcCC
Confidence            44433221       11122222    223322 39999999642  22221  211 1111 1235578888864

>3n70_A Transport activator; sigma-54, ntpase, PSI, MCSG, structural genomics, center for structural genomics; 2.80A {Escherichia coli}

Probab=97.86  E-value=1.2e-05  Score=71.66  Aligned_cols=45  Identities=22%  Similarity=0.219  Sum_probs=35.4

Q ss_pred             CCcCchHHHHHHHHHhcC--CCceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          127 PTVGLESTFDKVWRCLGE--EQVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       127 ~~vGr~~~~~~l~~~L~~--~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      .++|+...++++.+.+..  ....-|.|+|++|+|||++|+.+++..
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            478999999998887732  233457899999999999999998875

>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=97.86  E-value=0.00012  Score=79.03  Aligned_cols=177  Identities=13%  Similarity=0.132  Sum_probs=99.7

Q ss_pred             CCCcCchHHHHHHHHHhc-------------CCCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCH
Q 038398          126 EPTVGLESTFDKVWRCLG-------------EEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQL  192 (720)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~-------------~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~  192 (720)
                      ..++|.+..++++.+++.             .....-|.|+|++|+|||++|+.+++..   ...   .+.++++     
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            457999999999887763             1344678999999999999999998875   222   2334321     


Q ss_pred             HHHHHHHHHHhCCCCCccCCCChhHHHHHHHHHhccCcEEEEEeccccccc-------------cccccccCC--CCCCC
Q 038398          193 EKIQEKIGRRIGFFDESWKNGSLEDKTSDILRILGKKKFLLLLDDIWERVD-------------LTKVGIPFP--DPENK  257 (720)
Q Consensus       193 ~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~-------------~~~l~~~~~--~~~~g  257 (720)
                       .+    ...+       ...........+.....+++.+|+||+++....             ...+...+.  ....+
T Consensus       273 -~l----~~~~-------~g~~~~~~~~~f~~A~~~~p~iLfLDEId~l~~~~~~~~~~~~~~~~~~LL~~ld~~~~~~~  340 (489)
T 3hu3_A          273 -EI----MSKL-------AGESESNLRKAFEEAEKNAPAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQRAH  340 (489)
T ss_dssp             -HH----HTSC-------TTHHHHHHHHHHHHHHHTCSEEEEEESHHHHCBCTTSCCCHHHHHHHHHHHHHHHHSCTTSC
T ss_pred             -Hh----hhhh-------cchhHHHHHHHHHHHHhcCCcEEEecchhhhccccccccchHHHHHHHHHHHHhhccccCCc
Confidence             11    1110       111111222223333456788999999953110             011111111  12234


Q ss_pred             cEEEEEcCChhH-hhhh----ccCceeeccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCc-chHHHHH
Q 038398          258 SKIVFTTHFLEI-CGAL----KAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGL-PLALITI  329 (720)
Q Consensus       258 s~iiiTtR~~~v-~~~~----~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~Gl-PLai~~~  329 (720)
                      ..||.||..... ....    .-...+.+...+.++-.+++..++..........    ..++++.+.|. +-.+..+
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 VIVMAATNRPNSIDPALRRFGRFDREVDIGIPDATGRLEILQIHTKNMKLADDVD----LEQVANETHGHVGADLAAL  414 (489)
T ss_dssp             EEEEEEESCGGGBCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHTTTSCBCTTCC----HHHHHHTCTTCCHHHHHHH
T ss_pred             eEEEEecCCccccCHHHhCCCcCceEEEeCCCCHHHHHHHHHHHHhcCCCcchhh----HHHHHHHccCCcHHHHHHH
Confidence            456666654422 1111    2234688999999999999998876443222223    34566677774 5445444

>4b4t_I 26S protease regulatory subunit 4 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.86  E-value=0.00012  Score=75.99  Aligned_cols=170  Identities=16%  Similarity=0.183  Sum_probs=95.9

Q ss_pred             CCCcCchHHHHHHHHHhc----C---------CCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCH
Q 038398          126 EPTVGLESTFDKVWRCLG----E---------EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQL  192 (720)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~----~---------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~  192 (720)
                      +++.|.++.+++|.+.+.    .         ...+-|.++|++|+|||.||+++++..   ...|   +.+..+.-   
T Consensus       182 ~DIgGld~~k~~L~e~v~~Pl~~pe~f~~~Gi~~prGvLLyGPPGTGKTlLAkAiA~e~---~~~f---i~v~~s~l---  252 (437)
T 4b4t_I          182 SDIGGLESQIQEIKESVELPLTHPELYEEMGIKPPKGVILYGAPGTGKTLLAKAVANQT---SATF---LRIVGSEL---  252 (437)
T ss_dssp             GGTCSCHHHHHHHHHHHHHHHHCCHHHHHHTCCCCSEEEEESSTTTTHHHHHHHHHHHH---TCEE---EEEESGGG---
T ss_pred             eecCcHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCCCceECCCCchHHHHHHHHHHHh---CCCE---EEEEHHHh---
Confidence            345789988888766542    1         245789999999999999999999987   2222   22322211   


Q ss_pred             HHHHHHHHHHhCCCCCccCCCChhHHHHHHHHHh-ccCcEEEEEeccccccc----------------cccccccCC--C
Q 038398          193 EKIQEKIGRRIGFFDESWKNGSLEDKTSDILRIL-GKKKFLLLLDDIWERVD----------------LTKVGIPFP--D  253 (720)
Q Consensus       193 ~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l-~~k~~LlVlDdv~~~~~----------------~~~l~~~~~--~  253 (720)
                                 ...    .....+.....+.... ...+++|++|+++....                +..+...+.  .
T Consensus       253 -----------~sk----~vGesek~ir~lF~~Ar~~aP~IIfiDEiDai~~~R~~~~~~~~~~~~~~l~~LL~~lDg~~  317 (437)
T 4b4t_I          253 -----------IQK----YLGDGPRLCRQIFKVAGENAPSIVFIDEIDAIGTKRYDSNSGGEREIQRTMLELLNQLDGFD  317 (437)
T ss_dssp             -----------CCS----SSSHHHHHHHHHHHHHHHTCSEEEEEEEESSSSCCCSCSSCSSCCHHHHHHHHHHHHHHHCC
T ss_pred             -----------hhc----cCchHHHHHHHHHHHHHhcCCcEEEEehhhhhcccCCCCCCCccHHHHHHHHHHHHHhhCcC
Confidence                       000    1111222333333322 34689999999874210                001111111  1


Q ss_pred             CCCCcEEEEEcCChhHhhh-h----ccCceeeccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCcc
Q 038398          254 PENKSKIVFTTHFLEICGA-L----KAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGLP  323 (720)
Q Consensus       254 ~~~gs~iiiTtR~~~v~~~-~----~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~GlP  323 (720)
                      ...+..||.||........ +    .-...+.++..+.++-.++|..++.......+.+    ...|++.+.|+-
T Consensus       318 ~~~~ViVIaATNrpd~LDpALlRpGRfD~~I~v~lPd~~~R~~Il~~~l~~~~l~~dvd----l~~LA~~T~GfS  388 (437)
T 4b4t_I          318 DRGDVKVIMATNKIETLDPALIRPGRIDRKILFENPDLSTKKKILGIHTSKMNLSEDVN----LETLVTTKDDLS  388 (437)
T ss_dssp             CSSSEEEEEEESCSTTCCTTSSCTTTEEEEECCCCCCHHHHHHHHHHHHTTSCBCSCCC----HHHHHHHCCSCC
T ss_pred             CCCCEEEEEeCCChhhcCHHHhcCCceeEEEEcCCcCHHHHHHHHHHHhcCCCCCCcCC----HHHHHHhCCCCC
Confidence            2234456667754443221 1    1234678888888988999988876544333333    355667777753

>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A {Escherichia coli} SCOP: c.37.1.20

Probab=97.83  E-value=0.00024  Score=70.11  Aligned_cols=177  Identities=15%  Similarity=0.137  Sum_probs=93.5

Q ss_pred             CCCcCchHHHHHHHHHh---cC---------CCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHH
Q 038398          126 EPTVGLESTFDKVWRCL---GE---------EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLE  193 (720)
Q Consensus       126 ~~~vGr~~~~~~l~~~L---~~---------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~  193 (720)
                      ++++|.+..++++.+.+   ..         ...+-|.|+|++|+||||||+.+++..   ...|   +.++.+.-.+  
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            56899998887765543   21         123468899999999999999999886   2222   3332221100  


Q ss_pred             HHHHHHHHHhCCCCCccCCCChhHHHHHHHHHhccCcEEEEEeccccccc----------------cccccccCC--CCC
Q 038398          194 KIQEKIGRRIGFFDESWKNGSLEDKTSDILRILGKKKFLLLLDDIWERVD----------------LTKVGIPFP--DPE  255 (720)
Q Consensus       194 ~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~----------------~~~l~~~~~--~~~  255 (720)
                                  .   ............+.......+.++++|+++....                ...+...+.  ...
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   0111122222223333344678999999853210                001110010  112


Q ss_pred             CCcEEEEEcCChh-Hhhhh----ccCceeeccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCC-cchHHHHH
Q 038398          256 NKSKIVFTTHFLE-ICGAL----KAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAG-LPLALITI  329 (720)
Q Consensus       256 ~gs~iiiTtR~~~-v~~~~----~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~G-lPLai~~~  329 (720)
                      .+..||.||.... +....    .....+.++..+.++-.+++..++..........    ...++..+.| .+--|..+
T Consensus       149 ~~~~vI~~tn~~~~l~~~l~r~~rf~~~i~i~~P~~~~r~~il~~~~~~~~l~~~~~----~~~la~~~~G~~~~dl~~l  224 (257)
T 1lv7_A          149 EGIIVIAATNRPDVLDPALLRPGRFDRQVVVGLPDVRGREQILKVHMRRVPLAPDID----AAIIARGTPGFSGADLANL  224 (257)
T ss_dssp             SCEEEEEEESCTTTSCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHHTTSCBCTTCC----HHHHHHTCTTCCHHHHHHH
T ss_pred             CCEEEEEeeCCchhCCHHHcCCCcCCeEEEeCCCCHHHHHHHHHHHHhcCCCCcccc----HHHHHHHcCCCCHHHHHHH
Confidence            3445666665443 21111    1234677888888888888877764432122222    3456677777 56544433

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=97.82  E-value=0.00015  Score=83.53  Aligned_cols=153  Identities=12%  Similarity=0.129  Sum_probs=84.4

Q ss_pred             CCCCcCchHHHHHHHHHhcCCCceEEEEEcCCCChHHHHHHHHHhhhcCCCCC--cCEEEEEEecCcCCHHHHHHHHHHH
Q 038398          125 CEPTVGLESTFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNV--FDVVIWVVVSKDLQLEKIQEKIGRR  202 (720)
Q Consensus       125 ~~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~--f~~~~wv~v~~~~~~~~~~~~i~~~  202 (720)
                      .+++|||+++++++...+......-+.++|++|+|||++|+.+++........  ....-++.++-              
T Consensus       179 ld~iiG~~~~i~~l~~~l~~~~~~~vLL~G~pGtGKT~la~~la~~l~~~~~p~~l~~~~~~~~~~--------------  244 (758)
T 3pxi_A          179 LDPVIGRSKEIQRVIEVLSRRTKNNPVLIGEPGVGKTAIAEGLAQQIINNEVPEILRDKRVMTLDM--------------  244 (758)
T ss_dssp             SCCCCCCHHHHHHHHHHHHCSSSCEEEEESCTTTTTHHHHHHHHHHHHSSCSCTTTSSCCEECC----------------
T ss_pred             CCCccCchHHHHHHHHHHhCCCCCCeEEECCCCCCHHHHHHHHHHHHhcCCCChhhcCCeEEEecc--------------
Confidence            35689999999999999976655678899999999999999999875211101  01111111111              


Q ss_pred             hCCCCCccCCCChhHHHHHHHHHhccCcEEEEEeccccccccccccccCCCCCCCcEEEEEcCChhHhh-------hhcc
Q 038398          203 IGFFDESWKNGSLEDKTSDILRILGKKKFLLLLDDIWERVDLTKVGIPFPDPENKSKIVFTTHFLEICG-------ALKA  275 (720)
Q Consensus       203 l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~~~~l~~~~~~~~~gs~iiiTtR~~~v~~-------~~~~  275 (720)
                       +...   ...........+...-..++.+|++|.  .......+...+.  ....++|.||.......       ...-
T Consensus       245 -g~~~---~G~~e~~l~~~~~~~~~~~~~iLfiD~--~~~~~~~L~~~l~--~~~v~~I~at~~~~~~~~~~~d~al~rR  316 (758)
T 3pxi_A          245 -GTKY---RGEFEDRLKKVMDEIRQAGNIILFIDA--AIDASNILKPSLA--RGELQCIGATTLDEYRKYIEKDAALERR  316 (758)
T ss_dssp             ------------CTTHHHHHHHHHTCCCCEEEECC----------CCCTT--SSSCEEEEECCTTTTHHHHTTCSHHHHS
T ss_pred             -cccc---cchHHHHHHHHHHHHHhcCCEEEEEcC--chhHHHHHHHHHh--cCCEEEEeCCChHHHHHHhhccHHHHhh
Confidence             0000   011111222223333346788999992  1111122222222  23456666665444110       0111


Q ss_pred             CceeeccCCChhhHHHHHHHHhcc
Q 038398          276 HEFLKVECLGPEDAWRLFRENLRR  299 (720)
Q Consensus       276 ~~~~~l~~L~~~e~~~Lf~~~~~~  299 (720)
                      ...+.++.++.++..+++......
T Consensus       317 f~~i~v~~p~~~~~~~il~~~~~~  340 (758)
T 3pxi_A          317 FQPIQVDQPSVDESIQILQGLRDR  340 (758)
T ss_dssp             EEEEECCCCCHHHHHHHHHHTTTT
T ss_pred             CcEEEeCCCCHHHHHHHHHHHHHH
Confidence            256899999999999999876543

>1io0_A Tropomodulin; LRR protein, right-handed super-helix, protein binding; 1.45A {Gallus gallus} SCOP: c.10.1.1

Probab=97.81  E-value=1.1e-05  Score=75.38  Aligned_cols=82  Identities=13%  Similarity=0.185  Sum_probs=34.2

Q ss_pred             CCcccEEEccCCCCcCcc----hHHhccCCcccEEEccCCCCCcc----CCccccCCCCCCEEec--cCCCCcc-----c
Q 038398          515 CPHLLSLFLSDNSLKMST----DDFFQSMPSLRVFNMSNNHLLWK----LPSGISTLVSLEHLDL--SSTAITH-----L  579 (720)
Q Consensus       515 ~~~L~~L~l~~~~~~~~~----~~~~~~l~~L~~L~L~~~~~~~~----lp~~i~~l~~L~~L~L--~~~~i~~-----l  579 (720)
                      .++|++|++++|.+....    ...+...++|++|+|++|.+...    +...+....+|++|+|  ++|.|+.     +
T Consensus        64 ~~~L~~L~Ls~n~i~~~g~~~l~~~L~~n~~L~~L~L~~N~i~~~g~~~l~~~L~~n~~L~~L~L~~~~N~i~~~g~~~l  143 (185)
T 1io0_A           64 NTYVKKFSIVGTRSNDPVAFALAEMLKVNNTLKSLNVESNFISGSGILALVEALQSNTSLIELRIDNQSQPLGNNVEMEI  143 (185)
T ss_dssp             CCSCCEEECTTSCCCHHHHHHHHHHHHHCSSCCEEECCSSCCCHHHHHHHHHGGGGCSSCCEEECCCCSSCCCHHHHHHH
T ss_pred             CCCcCEEECcCCCCChHHHHHHHHHHHhCCCcCEEECcCCcCCHHHHHHHHHHHHhCCCceEEEecCCCCCCCHHHHHHH
Confidence            344555555555443211    11233334455555555533221    2333344444555555  4444441     2


Q ss_pred             chhhhcCCCCCEEeccC
Q 038398          580 PIELQKLVNLKCLNLEY  596 (720)
Q Consensus       580 p~~i~~l~~L~~L~l~~  596 (720)
                      ...+...++|++|++++
T Consensus       144 ~~~L~~n~~L~~L~L~~  160 (185)
T 1io0_A          144 ANMLEKNTTLLKFGYHF  160 (185)
T ss_dssp             HHHHHHCSSCCEEECCC
T ss_pred             HHHHHhCCCcCEEeccC
Confidence            23333344445555444

>4b4t_K 26S protease regulatory subunit 6B homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.81  E-value=0.00035  Score=73.44  Aligned_cols=170  Identities=18%  Similarity=0.217  Sum_probs=90.8

Q ss_pred             CCCcCchHHHHHHHHHhcC-------------CCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCH
Q 038398          126 EPTVGLESTFDKVWRCLGE-------------EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQL  192 (720)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~-------------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~  192 (720)
                      +++.|.++.+++|.+.+.-             ...+-|.++|++|+|||+||+++++..   ...   .+.+..+.-.+ 
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            4567999988888775521             245679999999999999999999987   222   23333322110 


Q ss_pred             HHHHHHHHHHhCCCCCccCCCChhHHHHHHHHHh-ccCcEEEEEecccccc----------c------cccccccCC--C
Q 038398          193 EKIQEKIGRRIGFFDESWKNGSLEDKTSDILRIL-GKKKFLLLLDDIWERV----------D------LTKVGIPFP--D  253 (720)
Q Consensus       193 ~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l-~~k~~LlVlDdv~~~~----------~------~~~l~~~~~--~  253 (720)
                                   .    .....+.....+.... ...++++++|+++...          +      +..+...+.  .
T Consensus       245 -------------~----~~Ge~e~~ir~lF~~A~~~aP~IifiDEiD~i~~~R~~~~~~~~~~~~r~l~~lL~~ldg~~  307 (428)
T 4b4t_K          245 -------------K----YLGEGPRMVRDVFRLARENAPSIIFIDEVDSIATKRFDAQTGSDREVQRILIELLTQMDGFD  307 (428)
T ss_dssp             -------------S----SCSHHHHHHHHHHHHHHHTCSEEEEEECTHHHHCSCSSSCSCCCCHHHHHHHHHHHHHHHSC
T ss_pred             -------------c----ccchhHHHHHHHHHHHHHcCCCeeechhhhhhhccccCCCCCCChHHHHHHHHHHHHhhCCC
Confidence                         0    0111122222222222 3468999999986311          0      111111111  1


Q ss_pred             CCCCcEEEEEcCChhHh-hh-h---ccCceeeccCCC-hhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCcc
Q 038398          254 PENKSKIVFTTHFLEIC-GA-L---KAHEFLKVECLG-PEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGLP  323 (720)
Q Consensus       254 ~~~gs~iiiTtR~~~v~-~~-~---~~~~~~~l~~L~-~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~GlP  323 (720)
                      ...+..||.||...... .. .   .-...++++.++ .++-..+|..++.........+    ...+++.+.|+-
T Consensus       308 ~~~~v~vI~aTN~~~~LD~AllRpGRfd~~I~~p~lPd~~~R~~Il~~~~~~~~l~~~~d----l~~lA~~t~G~s  379 (428)
T 4b4t_K          308 QSTNVKVIMATNRADTLDPALLRPGRLDRKIEFPSLRDRRERRLIFGTIASKMSLAPEAD----LDSLIIRNDSLS  379 (428)
T ss_dssp             SSCSEEEEEEESCSSSCCHHHHSSSSEEEEEECCSSCCHHHHHHHHHHHHHSSCBCTTCC----HHHHHHHTTTCC
T ss_pred             CCCCEEEEEecCChhhcChhhhcCCcceEEEEcCCCCCHHHHHHHHHHHhcCCCCCcccC----HHHHHHHCCCCC
Confidence            23344566677543321 11 1   123457776554 4555566766654433223333    356677777753

>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=97.81  E-value=1.2e-05  Score=74.74  Aligned_cols=121  Identities=14%  Similarity=0.103  Sum_probs=63.4

Q ss_pred             CCCcC----chHHHHHHHHHhcC---CCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHH
Q 038398          126 EPTVG----LESTFDKVWRCLGE---EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEK  198 (720)
Q Consensus       126 ~~~vG----r~~~~~~l~~~L~~---~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~  198 (720)
                      +++++    ++..++.+.+++..   .....++|+|++|+||||||+.+++... ....+ .+++++      ..++...
T Consensus        10 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~l~G~~G~GKTtL~~~i~~~~~-~~~g~-~~~~~~------~~~~~~~   81 (180)
T 3ec2_A           10 DTYHPKNVSQNRALLTIRVFVHNFNPEEGKGLTFVGSPGVGKTHLAVATLKAIY-EKKGI-RGYFFD------TKDLIFR   81 (180)
T ss_dssp             SSCCCCSHHHHHHHHHHHHHHHSCCGGGCCEEEECCSSSSSHHHHHHHHHHHHH-HHSCC-CCCEEE------HHHHHHH
T ss_pred             ccccCCCHHHHHHHHHHHHHHHhccccCCCEEEEECCCCCCHHHHHHHHHHHHH-HHcCC-eEEEEE------HHHHHHH
Confidence            44554    34445555555533   2347899999999999999999988762 01111 223333      3444444


Q ss_pred             HHHHhCCCCCccCCCChhHHHHHHHHHhccCcEEEEEecccc--ccccc--cccccCC-CCCCCcEEEEEcCC
Q 038398          199 IGRRIGFFDESWKNGSLEDKTSDILRILGKKKFLLLLDDIWE--RVDLT--KVGIPFP-DPENKSKIVFTTHF  266 (720)
Q Consensus       199 i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~--~~~~~--~l~~~~~-~~~~gs~iiiTtR~  266 (720)
                      +........       ....    .+.+. +.-+|||||++.  ...|.  .+...+. ....|..+|+||..
T Consensus        82 ~~~~~~~~~-------~~~~----~~~~~-~~~llilDE~~~~~~~~~~~~~l~~ll~~~~~~~~~ii~tsn~  142 (180)
T 3ec2_A           82 LKHLMDEGK-------DTKF----LKTVL-NSPVLVLDDLGSERLSDWQRELISYIITYRYNNLKSTIITTNY  142 (180)
T ss_dssp             HHHHHHHTC-------CSHH----HHHHH-TCSEEEEETCSSSCCCHHHHHHHHHHHHHHHHTTCEEEEECCC
T ss_pred             HHHHhcCch-------HHHH----HHHhc-CCCEEEEeCCCCCcCCHHHHHHHHHHHHHHHHcCCCEEEEcCC
Confidence            444332111       1112    22222 456899999973  22221  1111111 11246788888864

>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=97.79  E-value=1.6e-05  Score=72.38  Aligned_cols=87  Identities=17%  Similarity=0.224  Sum_probs=50.9

Q ss_pred             CcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCcc-CCccccCC----CCCCEEeccCC-CCccc-chhhhcCCC
Q 038398          516 PHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWK-LPSGISTL----VSLEHLDLSST-AITHL-PIELQKLVN  588 (720)
Q Consensus       516 ~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~-lp~~i~~l----~~L~~L~L~~~-~i~~l-p~~i~~l~~  588 (720)
                      .+|+.|++++|.++...-..+.++++|+.|+|++|..++. --..++.+    ++|++|+|++| +|+.- -..+.++++
T Consensus        61 ~~L~~LDLs~~~Itd~GL~~L~~~~~L~~L~L~~C~~ItD~gL~~L~~~~~~~~~L~~L~Ls~C~~ITD~Gl~~L~~~~~  140 (176)
T 3e4g_A           61 YKIQAIDATDSCIMSIGFDHMEGLQYVEKIRLCKCHYIEDGCLERLSQLENLQKSMLEMEIISCGNVTDKGIIALHHFRN  140 (176)
T ss_dssp             CCEEEEEEESCCCCGGGGGGGTTCSCCCEEEEESCTTCCHHHHHHHHTCHHHHHHCCEEEEESCTTCCHHHHHHGGGCTT
T ss_pred             ceEeEEeCcCCCccHHHHHHhcCCCCCCEEEeCCCCccCHHHHHHHHhcccccCCCCEEEcCCCCcCCHHHHHHHhcCCC
Confidence            4678888888776655444466777777777777753322 11223332    35677777766 36531 123556667


Q ss_pred             CCEEeccCCcCCCC
Q 038398          589 LKCLNLEYMNNLNQ  602 (720)
Q Consensus       589 L~~L~l~~~~~l~~  602 (720)
                      |++|++++|..++.
T Consensus       141 L~~L~L~~c~~Itd  154 (176)
T 3e4g_A          141 LKYLFLSDLPGVKE  154 (176)
T ss_dssp             CCEEEEESCTTCCC
T ss_pred             CCEEECCCCCCCCc
Confidence            77777777655544

>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=97.74  E-value=0.00061  Score=70.01  Aligned_cols=170  Identities=20%  Similarity=0.163  Sum_probs=92.8

Q ss_pred             CCCcCchHHHHHHHHHhcC-----CCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHHH
Q 038398          126 EPTVGLESTFDKVWRCLGE-----EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKIG  200 (720)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~-----~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i~  200 (720)
                      +.++|.+..++.+...+..     .....++++|++|+||||||+.++...   ...|.   .  .+....         
T Consensus        25 ~~~~g~~~~~~~l~~~i~~~~~~~~~~~~~ll~Gp~G~GKTTLa~~ia~~l---~~~~~---~--~sg~~~---------   87 (334)
T 1in4_A           25 DEFIGQENVKKKLSLALEAAKMRGEVLDHVLLAGPPGLGKTTLAHIIASEL---QTNIH---V--TSGPVL---------   87 (334)
T ss_dssp             GGCCSCHHHHHHHHHHHHHHHHHTCCCCCEEEESSTTSSHHHHHHHHHHHH---TCCEE---E--EETTTC---------
T ss_pred             HHccCcHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCcHHHHHHHHHHHh---CCCEE---E--EechHh---------
Confidence            5678998888887666642     234679999999999999999999887   22221   1  111100         


Q ss_pred             HHhCCCCCccCCCChhHHHHHHHHHhccCcEEEEEecccccc--ccccccccCCC--------CC----------CCcEE
Q 038398          201 RRIGFFDESWKNGSLEDKTSDILRILGKKKFLLLLDDIWERV--DLTKVGIPFPD--------PE----------NKSKI  260 (720)
Q Consensus       201 ~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~--~~~~l~~~~~~--------~~----------~gs~i  260 (720)
                                  ....+. ..+...+ .++.++++|++....  ..+.+...+..        .+          ....+
T Consensus        88 ------------~~~~~l-~~~~~~~-~~~~v~~iDE~~~l~~~~~e~L~~~~~~~~~~i~~~~~~~~~~i~~~l~~~~l  153 (334)
T 1in4_A           88 ------------VKQGDM-AAILTSL-ERGDVLFIDEIHRLNKAVEELLYSAIEDFQIDIMIGKGPSAKSIRIDIQPFTL  153 (334)
T ss_dssp             ------------CSHHHH-HHHHHHC-CTTCEEEEETGGGCCHHHHHHHHHHHHTSCCCC---------------CCCEE
T ss_pred             ------------cCHHHH-HHHHHHc-cCCCEEEEcchhhcCHHHHHHHHHHHHhcccceeeccCcccccccccCCCeEE
Confidence                        001111 1111112 234467778875421  11111000000        00          11223


Q ss_pred             E-EEcCChhHhhhh--ccCceeeccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCcchHHHHH
Q 038398          261 V-FTTHFLEICGAL--KAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGLPLALITI  329 (720)
Q Consensus       261 i-iTtR~~~v~~~~--~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~GlPLai~~~  329 (720)
                      + .|++...+...+  .....+.+++.+.++-.+++.+.+....   ...-.+.+..|++.+.|.|-.+..+
T Consensus       154 i~at~~~~~Ls~~l~sR~~l~~~Ld~~~~~~l~~iL~~~~~~~~---~~~~~~~~~~ia~~~~G~~R~a~~l  222 (334)
T 1in4_A          154 VGATTRSGLLSSPLRSRFGIILELDFYTVKELKEIIKRAASLMD---VEIEDAAAEMIAKRSRGTPRIAIRL  222 (334)
T ss_dssp             EEEESCGGGSCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHTT---CCBCHHHHHHHHHTSTTCHHHHHHH
T ss_pred             EEecCCcccCCHHHHHhcCceeeCCCCCHHHHHHHHHHHHHHcC---CCcCHHHHHHHHHhcCCChHHHHHH
Confidence            2 344433332111  1123578999999999999988764322   1222567889999999999755433

>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=97.72  E-value=0.00031  Score=75.13  Aligned_cols=171  Identities=15%  Similarity=0.158  Sum_probs=94.9

Q ss_pred             CCCcCchHHHHHHHHHh---cC---------CCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHH
Q 038398          126 EPTVGLESTFDKVWRCL---GE---------EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLE  193 (720)
Q Consensus       126 ~~~vGr~~~~~~l~~~L---~~---------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~  193 (720)
                      .+++|.+..++++.+.+   ..         .-.+-|.|+|++|+|||+||+.++...   ...|   +.++.+.-... 
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            56789998777665543   22         123458899999999999999999886   2222   33333221110 


Q ss_pred             HHHHHHHHHhCCCCCccCCCChhHHHHHHHHHhccCcEEEEEeccccccc----------------cccccccCC--CCC
Q 038398          194 KIQEKIGRRIGFFDESWKNGSLEDKTSDILRILGKKKFLLLLDDIWERVD----------------LTKVGIPFP--DPE  255 (720)
Q Consensus       194 ~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~----------------~~~l~~~~~--~~~  255 (720)
                                      +...........+.......+.+|+||+++....                +..+...+.  ...
T Consensus        89 ----------------~~g~~~~~~r~lf~~A~~~~p~ILfIDEid~l~~~r~~~~~g~~~~~~~~l~~LL~~ld~~~~~  152 (476)
T 2ce7_A           89 ----------------FVGVGAARVRDLFAQAKAHAPCIVFIDEIDAVGRHRGAGLGGGHDEREQTLNQLLVEMDGFDSK  152 (476)
T ss_dssp             ----------------CTTHHHHHHHHHHHHHHHTCSEEEEEETGGGTCCC---------CHHHHHHHHHHHHHHHSCGG
T ss_pred             ----------------HhcccHHHHHHHHHHHHhcCCCEEEEechhhhhhhcccccCcCcHHHHHHHHHHHHHHhccCCC
Confidence                            0000111122223334446789999999965210                111111111  112


Q ss_pred             CCcEEEEEcCChhHhh-h-hc---cCceeeccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCcc
Q 038398          256 NKSKIVFTTHFLEICG-A-LK---AHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGLP  323 (720)
Q Consensus       256 ~gs~iiiTtR~~~v~~-~-~~---~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~GlP  323 (720)
                      .+..||.||....... . ..   -...+.++..+.++-.+++..++..........    ...+++.+.|..
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            3556666776554322 1 11   224678888888888888887765433222222    344777888876

>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=97.72  E-value=0.00021  Score=72.70  Aligned_cols=46  Identities=22%  Similarity=0.223  Sum_probs=37.9

Q ss_pred             CCCcCchHHHHHHHHHhcC--------------CCceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          126 EPTVGLESTFDKVWRCLGE--------------EQVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~--------------~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ..++|++..++.+...+..              .....+.++|++|+|||++|+.+++..
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            3579999999988877643              234568899999999999999999887

>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=97.69  E-value=6.6e-05  Score=73.83  Aligned_cols=78  Identities=29%  Similarity=0.394  Sum_probs=47.9

Q ss_pred             CCcccEEEccCCCCcCcch--HHhccCCcccEEEccCCCCCccCCccccCCC--CCCEEeccCCCCcc-cc-------hh
Q 038398          515 CPHLLSLFLSDNSLKMSTD--DFFQSMPSLRVFNMSNNHLLWKLPSGISTLV--SLEHLDLSSTAITH-LP-------IE  582 (720)
Q Consensus       515 ~~~L~~L~l~~~~~~~~~~--~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~--~L~~L~L~~~~i~~-lp-------~~  582 (720)
                      +++|++|+|++|.+..+.+  ..+..+++|++|+|++|.+.+.  ..+..+.  +|++|+|++|.+.. +|       ..
T Consensus       169 l~~L~~L~Ls~N~l~~l~~l~~~~~~l~~L~~L~Ls~N~i~~~--~~l~~l~~l~L~~L~L~~Npl~~~~~~~~~y~~~i  246 (267)
T 3rw6_A          169 IPELLSLNLSNNRLYRLDDMSSIVQKAPNLKILNLSGNELKSE--RELDKIKGLKLEELWLDGNSLCDTFRDQSTYISAI  246 (267)
T ss_dssp             CTTCCEEECTTSCCCCCGGGTTHHHHSTTCCEEECTTSCCCSG--GGGGGGTTSCCSEEECTTSTTGGGCSSHHHHHHHH
T ss_pred             CCCCCEEECCCCCCCCCccchhHHhhCCCCCEEECCCCccCCc--hhhhhcccCCcceEEccCCcCccccCcchhHHHHH
Confidence            3455555566555555432  3456777777777777754432  2333333  78888888887763 33       23


Q ss_pred             hhcCCCCCEEec
Q 038398          583 LQKLVNLKCLNL  594 (720)
Q Consensus       583 i~~l~~L~~L~l  594 (720)
                      +..+++|+.||-
T Consensus       247 l~~~P~L~~LDg  258 (267)
T 3rw6_A          247 RERFPKLLRLDG  258 (267)
T ss_dssp             HHHCTTCCEESS
T ss_pred             HHHCcccCeECC
Confidence            677888888874

>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=97.63  E-value=0.00032  Score=80.88  Aligned_cols=155  Identities=16%  Similarity=0.285  Sum_probs=90.4

Q ss_pred             CCCCcCchHHHHHHHHHhcCCCceEEEEEcCCCChHHHHHHHHHhhhcC--CCC-CcCEEEE-EEecCcCCHHHHHHHHH
Q 038398          125 CEPTVGLESTFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLG--APN-VFDVVIW-VVVSKDLQLEKIQEKIG  200 (720)
Q Consensus       125 ~~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~--~~~-~f~~~~w-v~v~~~~~~~~~~~~i~  200 (720)
                      .++++||+.+++++.+.|......-+.|+|++|+|||++|+.+++....  +.. .....+| +..+.-           
T Consensus       185 ~d~~iGr~~~i~~l~~~l~~~~~~~vlL~G~~GtGKT~la~~la~~l~~~~v~~~~~~~~~~~~~~~~l-----------  253 (758)
T 1r6b_X          185 IDPLIGREKELERAIQVLCRRRKNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIGSL-----------  253 (758)
T ss_dssp             SCCCCSCHHHHHHHHHHHTSSSSCEEEEECCTTSSHHHHHHHHHHHHHHTCSCGGGTTCEEEECCCC-------------
T ss_pred             CCCccCCHHHHHHHHHHHhccCCCCeEEEcCCCCCHHHHHHHHHHHHHhCCCChhhcCCEEEEEcHHHH-----------
Confidence            3568999999999999998766677889999999999999999887521  110 1122222 211110           


Q ss_pred             HHhCCCCCccCCCChhHHHHHHHHHhc-cCcEEEEEecccccc--------c---cccccccCCCCCCCcEEEEEcCChh
Q 038398          201 RRIGFFDESWKNGSLEDKTSDILRILG-KKKFLLLLDDIWERV--------D---LTKVGIPFPDPENKSKIVFTTHFLE  268 (720)
Q Consensus       201 ~~l~~~~~~~~~~~~~~~~~~l~~~l~-~k~~LlVlDdv~~~~--------~---~~~l~~~~~~~~~gs~iiiTtR~~~  268 (720)
                        +...  . .....+.....+.+.+. .++.+|++|+++...        .   ...+...+.  ..+..+|.+|....
T Consensus       254 --~~~~--~-~~g~~e~~l~~~~~~~~~~~~~iL~IDEi~~l~~~~~~~~~~~~~~~~L~~~l~--~~~~~~I~at~~~~  326 (758)
T 1r6b_X          254 --LAGT--K-YRGDFEKRFKALLKQLEQDTNSILFIDEIHTIIGAGAASGGQVDAANLIKPLLS--SGKIRVIGSTTYQE  326 (758)
T ss_dssp             ---CCC--C-CSSCHHHHHHHHHHHHSSSSCEEEEETTTTTTTTSCCSSSCHHHHHHHHSSCSS--SCCCEEEEEECHHH
T ss_pred             --hccc--c-ccchHHHHHHHHHHHHHhcCCeEEEEechHHHhhcCCCCcchHHHHHHHHHHHh--CCCeEEEEEeCchH
Confidence              0000  0 12233444444444443 357899999997531        1   111222222  23456666665443


Q ss_pred             Hhhh-------hccCceeeccCCChhhHHHHHHHHh
Q 038398          269 ICGA-------LKAHEFLKVECLGPEDAWRLFRENL  297 (720)
Q Consensus       269 v~~~-------~~~~~~~~l~~L~~~e~~~Lf~~~~  297 (720)
                      ....       ......+.++.++.++..+++....
T Consensus       327 ~~~~~~~d~aL~~Rf~~i~v~~p~~~e~~~il~~l~  362 (758)
T 1r6b_X          327 FSNIFEKDRALARRFQKIDITEPSIEETVQIINGLK  362 (758)
T ss_dssp             HHCCCCCTTSSGGGEEEEECCCCCHHHHHHHHHHHH
T ss_pred             HhhhhhcCHHHHhCceEEEcCCCCHHHHHHHHHHHH
Confidence            2111       1112368899999999998887654

>4fcw_A Chaperone protein CLPB; AAA domain; HET: ADP; 2.35A {Thermus thermophilus} PDB: 4fcv_A* 4fd2_A* 4fct_A*

Probab=97.62  E-value=0.00017  Score=73.39  Aligned_cols=60  Identities=22%  Similarity=0.375  Sum_probs=43.3

Q ss_pred             CCCcCchHHHHHHHHHhcCC---------CceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecC
Q 038398          126 EPTVGLESTFDKVWRCLGEE---------QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSK  188 (720)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~---------~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~  188 (720)
                      ..++|.+..++.+...+...         ....+.++|++|+|||++|+.+++...   ..-...+.+.++.
T Consensus        17 ~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~ll~G~~GtGKt~la~~la~~~~---~~~~~~~~~~~~~   85 (311)
T 4fcw_A           17 KRVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATLF---DTEEAMIRIDMTE   85 (311)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHTCSCTTSCSEEEEEESCSSSSHHHHHHHHHHHHH---SCGGGEEEEEGGG
T ss_pred             hhcCCHHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCCcCHHHHHHHHHHHHc---CCCcceEEeeccc
Confidence            35789999998888777431         135899999999999999999998762   1112345555554

>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=97.55  E-value=0.00057  Score=73.52  Aligned_cols=46  Identities=26%  Similarity=0.247  Sum_probs=36.1

Q ss_pred             CCCcCchHHHHHHHHH---hcCC--CceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          126 EPTVGLESTFDKVWRC---LGEE--QVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       126 ~~~vGr~~~~~~l~~~---L~~~--~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      +.++|.++.++.+..+   +..+  ..+-+.++|++|+|||++|+.+++..
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            6789999987765443   3333  23578899999999999999999887

>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=97.52  E-value=0.00022  Score=70.77  Aligned_cols=46  Identities=15%  Similarity=0.226  Sum_probs=34.0

Q ss_pred             CCCcCchHHHHHHHHHhcC--CCceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          126 EPTVGLESTFDKVWRCLGE--EQVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~--~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      +.++|.+..+.++.+.+..  .....|.|+|++|+|||++|+.+++..
T Consensus         6 ~~~ig~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKt~la~~i~~~~   53 (265)
T 2bjv_A            6 DNLLGEANSFLEVLEQVSHLAPLDKPVLIIGERGTGKELIASRLHYLS   53 (265)
T ss_dssp             ----CCCHHHHHHHHHHHHHTTSCSCEEEECCTTSCHHHHHHHHHHTS
T ss_pred             ccceeCCHHHHHHHHHHHHHhCCCCCEEEECCCCCcHHHHHHHHHHhc
Confidence            5679999988888766532  223567899999999999999999876

>1io0_A Tropomodulin; LRR protein, right-handed super-helix, protein binding; 1.45A {Gallus gallus} SCOP: c.10.1.1

Probab=97.51  E-value=9.5e-05  Score=68.93  Aligned_cols=20  Identities=10%  Similarity=0.009  Sum_probs=12.2

Q ss_pred             HhcCCCCCceeEEEecchhh
Q 038398          645 ELMGMKHLMVLTITLKSWQA  664 (720)
Q Consensus       645 ~l~~l~~L~~L~~~~~~~~~  664 (720)
                      .+..++.|+.|++++|.+..
T Consensus       146 ~L~~n~~L~~L~L~~n~i~~  165 (185)
T 1io0_A          146 MLEKNTTLLKFGYHFTQQGP  165 (185)
T ss_dssp             HHHHCSSCCEEECCCSSHHH
T ss_pred             HHHhCCCcCEEeccCCCCCh
Confidence            44555667777776666543

>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic; photosynthesis, rubisco activase, AAA+ protein; 2.95A {Nicotiana tabacum} PDB: 3zw6_A

Probab=97.45  E-value=0.00097  Score=67.05  Aligned_cols=26  Identities=27%  Similarity=0.383  Sum_probs=23.5

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      .+..+.++|++|+|||+||+.+++..
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            35678899999999999999999987

>1ojl_A Transcriptional regulatory protein ZRAR; response regulator, two component system, AAA domain, NTRC family, DNA-binding; HET: ATP; 3.0A {Salmonella typhimurium}

Probab=97.42  E-value=0.00042  Score=70.09  Aligned_cols=46  Identities=11%  Similarity=0.175  Sum_probs=36.9

Q ss_pred             CCCcCchHHHHHHHHHhcC--CCceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          126 EPTVGLESTFDKVWRCLGE--EQVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~--~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      +.++|+...+.++.+.+..  .....|.|+|++|+|||++|+.+++..
T Consensus         2 ~~iig~s~~~~~~~~~~~~~a~~~~~vLi~Ge~GtGKt~lAr~i~~~~   49 (304)
T 1ojl_A            2 SHMIGSSPAMQHLLNEIAMVAPSDATVLIHGDSGTGKELVARALHACS   49 (304)
T ss_dssp             -CCCCCSHHHHHHHHHHHHHCSTTSCEEEESCTTSCHHHHHHHHHHHS
T ss_pred             CCcEECCHHHHHHHHHHHHHhCCCCcEEEECCCCchHHHHHHHHHHhC
Confidence            3578999999888877643  334567899999999999999999865

>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=97.39  E-value=0.00034  Score=79.29  Aligned_cols=169  Identities=14%  Similarity=0.154  Sum_probs=94.4

Q ss_pred             CCcCchHHHHHHHHHhc----C---------CCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHH
Q 038398          127 PTVGLESTFDKVWRCLG----E---------EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLE  193 (720)
Q Consensus       127 ~~vGr~~~~~~l~~~L~----~---------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~  193 (720)
                      ++.|.++.+++|.+.+.    .         ..++-|.++|++|+|||+||+++++..   ..+   .+.|+.+.     
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            45688888877766541    1         245789999999999999999999887   222   23443221     


Q ss_pred             HHHHHHHHHhCCCCCccCCCChhHHHHHHHH-HhccCcEEEEEeccccccc-------------cccccccCC--CCCCC
Q 038398          194 KIQEKIGRRIGFFDESWKNGSLEDKTSDILR-ILGKKKFLLLLDDIWERVD-------------LTKVGIPFP--DPENK  257 (720)
Q Consensus       194 ~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~-~l~~k~~LlVlDdv~~~~~-------------~~~l~~~~~--~~~~g  257 (720)
                           +...        .....+.....+.+ .-...+.+|+||+++....             ...+...+.  ....+
T Consensus       274 -----l~sk--------~~gese~~lr~lF~~A~~~~PsIIfIDEiDal~~~r~~~~~~~~~riv~~LL~~mdg~~~~~~  340 (806)
T 3cf2_A          274 -----IMSK--------LAGESESNLRKAFEEAEKNAPAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQRAH  340 (806)
T ss_dssp             -----HHSS--------CTTHHHHHHHHHHHHHTTSCSEEEEEESGGGTCCTTTTCCCTTHHHHHHHHHTHHHHCCGGGC
T ss_pred             -----hhcc--------cchHHHHHHHHHHHHHHHcCCeEEEEehhcccccccCCCCChHHHHHHHHHHHHHhcccccCC
Confidence                 1100        01112222222322 3345789999999975210             001111110  11123


Q ss_pred             cEEEEEcCChh-Hhhhh----ccCceeeccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCcc
Q 038398          258 SKIVFTTHFLE-ICGAL----KAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGLP  323 (720)
Q Consensus       258 s~iiiTtR~~~-v~~~~----~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~GlP  323 (720)
                      ..||.||.... +-..+    .-...++++..+.++-.++|..+........+.+    ...|++.+.|..
T Consensus       341 V~VIaaTN~~d~LD~ALrR~GRFd~~I~i~~Pd~~~R~~IL~~~l~~~~~~~dvd----l~~lA~~T~Gfs  407 (806)
T 3cf2_A          341 VIVMAATNRPNSIDPALRRFGRFDREVDIGIPDATGRLEILQIHTKNMKLADDVD----LEQVANETHGHV  407 (806)
T ss_dssp             EEEEEECSSTTTSCTTTTSTTSSCEEEECCCCCHHHHHHHHHHTCSSSEECTTCC----HHHHHHHCCSCC
T ss_pred             EEEEEecCChhhcCHHHhCCcccceEEecCCCCHHHHHHHHHHHhcCCCCCcccC----HHHHHHhcCCCC
Confidence            34555664433 21111    2245788899999999999988765543333333    455777888764

>2dhr_A FTSH; AAA+ protein, hexameric Zn metalloprotease, hydrolase; HET: ADP; 3.90A {Thermus thermophilus}

Probab=97.38  E-value=0.0022  Score=69.02  Aligned_cols=168  Identities=14%  Similarity=0.147  Sum_probs=91.5

Q ss_pred             CCCCcCchHHHHHHHHHh---cCC---------CceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCH
Q 038398          125 CEPTVGLESTFDKVWRCL---GEE---------QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQL  192 (720)
Q Consensus       125 ~~~~vGr~~~~~~l~~~L---~~~---------~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~  192 (720)
                      .++++|.+..++++.+..   ...         -.+-|.|+|++|+||||||+.++...   ..   ..+.++.+.-.. 
T Consensus        30 f~dv~G~~~~k~~l~~lv~~l~~~~~~~~lg~~ip~GvLL~GppGtGKTtLaraIa~~~---~~---~~i~i~g~~~~~-  102 (499)
T 2dhr_A           30 FKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEA---RV---PFITASGSDFVE-  102 (499)
T ss_dssp             TTSSCSCHHHHHHHHHHHHHHHCGGGTTTTSCCCCSEEEEECSSSSSHHHHHHHHHHHT---TC---CEEEEEGGGGTS-
T ss_pred             HHHcCCcHHHHHHHHHHHHHhhchhhhhhccCCCCceEEEECCCCCCHHHHHHHHHHHh---CC---CEEEEehhHHHH-
Confidence            367899998777665543   221         12348999999999999999999876   22   233443322100 


Q ss_pred             HHHHHHHHHHhCCCCCccCCCChhHHHHHHHHHhcc----CcEEEEEeccccccc----------------cccccccCC
Q 038398          193 EKIQEKIGRRIGFFDESWKNGSLEDKTSDILRILGK----KKFLLLLDDIWERVD----------------LTKVGIPFP  252 (720)
Q Consensus       193 ~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~----k~~LlVlDdv~~~~~----------------~~~l~~~~~  252 (720)
                                          .........+...++.    .+.++++|+++....                +..+...+.
T Consensus       103 --------------------~~~g~~~~~v~~lfq~a~~~~p~il~IDEId~l~~~r~~~~~~~~~e~~~~l~~LL~~Ld  162 (499)
T 2dhr_A          103 --------------------MFVGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMD  162 (499)
T ss_dssp             --------------------SCTTHHHHHHHHHTTTSSSSSSCEEEEECGGGTCCCSSSSTTTSSHHHHHHHHHHHHHGG
T ss_pred             --------------------hhhhhHHHHHHHHHHHHHhcCCCEEEEehHHHHHHhhccCcCCCcHHHHHHHHHHHHHhc
Confidence                                0111122333344433    357999999964210                111111111


Q ss_pred             C--CCCCcEEEEEcCChhHhhh-h----ccCceeeccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCcc
Q 038398          253 D--PENKSKIVFTTHFLEICGA-L----KAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGLP  323 (720)
Q Consensus       253 ~--~~~gs~iiiTtR~~~v~~~-~----~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~GlP  323 (720)
                      .  ...+..++.||....+... .    .-...+.++..+.++-.+++..++..........    ...|++.+.|+.
T Consensus       163 g~~~~~~viviAatn~p~~LD~aLlr~gRfdr~i~i~~Pd~~~R~~IL~~~~~~~~l~~dv~----l~~lA~~t~G~~  236 (499)
T 2dhr_A          163 GFEKDTAIVVMAATNRPDILDPALLRPGRFDRQIAIDAPDVKGREQILRIHARGKPLAEDVD----LALLAKRTPGFV  236 (499)
T ss_dssp             GCCSSCCCEEEECCSCGGGSCTTTSSTTSSCCEEECCCCCHHHHHHHHHHTTSSSCCCCSST----THHHHTTSCSCC
T ss_pred             ccccCccEEEEEecCChhhcCcccccccccceEEecCCCCHHHHHHHHHHHHhcCCCChHHH----HHHHHHhcCCCC
Confidence            1  1223445556665554221 1    1234678888898888888887664322111112    345677777765

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens}

Probab=97.37  E-value=0.0027  Score=63.05  Aligned_cols=149  Identities=15%  Similarity=0.124  Sum_probs=80.8

Q ss_pred             CCCcCchHHHHHHHHHhc----C---------CCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCH
Q 038398          126 EPTVGLESTFDKVWRCLG----E---------EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQL  192 (720)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~----~---------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~  192 (720)
                      .++.|.++.+++|.+.+.    .         .-.+-++++|++|+||||||+.++...   ..   ..+++....-.+.
T Consensus        10 ~di~g~~~~~~~l~~~i~~~~~~~~~l~~~~l~~~~GvlL~Gp~GtGKTtLakala~~~---~~---~~i~i~g~~l~~~   83 (274)
T 2x8a_A           10 ADIGALEDIREELTMAILAPVRNPDQFKALGLVTPAGVLLAGPPGCGKTLLAKAVANES---GL---NFISVKGPELLNM   83 (274)
T ss_dssp             --CCHHHHHHHHHHHHHTHHHHSHHHHHHTTCCCCSEEEEESSTTSCHHHHHHHHHHHT---TC---EEEEEETTTTCSS
T ss_pred             HHhCCHHHHHHHHHHHHHHHhhCHHHHHHcCCCCCCeEEEECCCCCcHHHHHHHHHHHc---CC---CEEEEEcHHHHhh
Confidence            567788888887766542    1         112339999999999999999999876   11   2344432211000


Q ss_pred             HHHHHHHHHHhCCCCCccCCCChhHHHHHHHHHh-ccCcEEEEEeccccccc---------ccc----ccccCCC--CCC
Q 038398          193 EKIQEKIGRRIGFFDESWKNGSLEDKTSDILRIL-GKKKFLLLLDDIWERVD---------LTK----VGIPFPD--PEN  256 (720)
Q Consensus       193 ~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l-~~k~~LlVlDdv~~~~~---------~~~----l~~~~~~--~~~  256 (720)
                                        ...........+.+.. ...+.++++|+++....         ...    +...+..  ...
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                              0000111222222222 34578999999864210         000    0011111  112


Q ss_pred             CcEEEEEcCChhHhhhh-----ccCceeeccCCChhhHHHHHHHHhc
Q 038398          257 KSKIVFTTHFLEICGAL-----KAHEFLKVECLGPEDAWRLFRENLR  298 (720)
Q Consensus       257 gs~iiiTtR~~~v~~~~-----~~~~~~~l~~L~~~e~~~Lf~~~~~  298 (720)
                      ..-++.+|....+....     .-...+.++..+.++-.+++.....
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            33455566655553221     2345678899999999999988764

>4fs7_A Uncharacterized protein; leucine-rich repeats, protein binding, extracellular protein structural genomics; HET: MSE; 1.19A {Bacteroides ovatus}

Probab=97.33  E-value=0.00037  Score=73.58  Aligned_cols=195  Identities=16%  Similarity=0.173  Sum_probs=100.0

Q ss_pred             ccccccceeEEEecccccccCC--CCCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCccCCccccCCCCC
Q 038398          489 EIQNWRNVRRMSLMKNKIENLS--ETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVSL  566 (720)
Q Consensus       489 ~~~~~~~l~~L~l~~~~~~~~~--~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L  566 (720)
                      .+..+++|+.+.+..+. ..++  .+.+|.+|+.+.+..+ ++.+....|.++..|+.+.+..+. . .+.........|
T Consensus       157 aF~~c~~L~~i~l~~~~-~~I~~~~F~~c~~L~~i~l~~~-~~~I~~~~F~~~~~L~~i~~~~~~-~-~i~~~~~~~~~l  232 (394)
T 4fs7_A          157 AFATCESLEYVSLPDSM-ETLHNGLFSGCGKLKSIKLPRN-LKIIRDYCFAECILLENMEFPNSL-Y-YLGDFALSKTGV  232 (394)
T ss_dssp             TTTTCTTCCEEECCTTC-CEECTTTTTTCTTCCBCCCCTT-CCEECTTTTTTCTTCCBCCCCTTC-C-EECTTTTTTCCC
T ss_pred             hhcccCCCcEEecCCcc-ceeccccccCCCCceEEEcCCC-ceEeCchhhccccccceeecCCCc-e-EeehhhcccCCC
Confidence            46667778888876542 2232  2356777877777665 555555567777777766665541 1 111222223344


Q ss_pred             CEEeccCCCCcccc-hhhhcCCCCCEEeccCCcCCC---------------------CCchhhhhccccCceeeccccCC
Q 038398          567 EHLDLSSTAITHLP-IELQKLVNLKCLNLEYMNNLN---------------------QFPRLVISAFSKLQVLRMFDCGG  624 (720)
Q Consensus       567 ~~L~L~~~~i~~lp-~~i~~l~~L~~L~l~~~~~l~---------------------~lp~~~~~~l~~L~~L~~~~~~~  624 (720)
                      +.+.+..+ ++.++ ..+..+.+|+.+.+..+  ..                     .++...+..+.+|+.+.+.+   
T Consensus       233 ~~i~ip~~-~~~i~~~~f~~~~~l~~~~~~~~--~~~i~~~~F~~~~~l~~~~~~~~~i~~~~F~~~~~L~~i~l~~---  306 (394)
T 4fs7_A          233 KNIIIPDS-FTELGKSVFYGCTDLESISIQNN--KLRIGGSLFYNCSGLKKVIYGSVIVPEKTFYGCSSLTEVKLLD---  306 (394)
T ss_dssp             CEEEECTT-CCEECSSTTTTCSSCCEEEECCT--TCEECSCTTTTCTTCCEEEECSSEECTTTTTTCTTCCEEEECT---
T ss_pred             ceEEECCC-ceecccccccccccceeEEcCCC--cceeeccccccccccceeccCceeecccccccccccccccccc---
Confidence            44444322 22221 12334444444444331  11                     23333344444555444431   


Q ss_pred             CcccchhcccccCCccccHHHhcCCCCCceeEEEecchhhHHHHhhhhhhhhhccccccccccCCCccccccccccCCcc
Q 038398          625 SKIERLKINVLFGGHQFLVEELMGMKHLMVLTITLKSWQALKELLISQELQRSTQSLFLRCFNDSKSLDIFCLAGLRNLN  704 (720)
Q Consensus       625 ~~l~~l~~~~~~~~~~~~~~~l~~l~~L~~L~~~~~~~~~l~~l~~~~~~~~~L~~L~l~~~~~l~~l~~~~l~~l~~L~  704 (720)
                       .+..++.           ..+.++++|+.+.+.. .+..+.  ...+..+++|+.+.+..  +++.++...|.++++|+
T Consensus       307 -~i~~I~~-----------~aF~~c~~L~~i~lp~-~v~~I~--~~aF~~c~~L~~i~lp~--~l~~I~~~aF~~C~~L~  369 (394)
T 4fs7_A          307 -SVKFIGE-----------EAFESCTSLVSIDLPY-LVEEIG--KRSFRGCTSLSNINFPL--SLRKIGANAFQGCINLK  369 (394)
T ss_dssp             -TCCEECT-----------TTTTTCTTCCEECCCT-TCCEEC--TTTTTTCTTCCEECCCT--TCCEECTTTBTTCTTCC
T ss_pred             -ccceech-----------hhhcCCCCCCEEEeCC-cccEEh--HHhccCCCCCCEEEECc--cccEehHHHhhCCCCCC
Confidence             1222221           1244566777666531 122221  12345556788888763  37777777888888888


Q ss_pred             eeeecC
Q 038398          705 KLYVAG  710 (720)
Q Consensus       705 ~L~l~~  710 (720)
                      .++|.+
T Consensus       370 ~i~lp~  375 (394)
T 4fs7_A          370 KVELPK  375 (394)
T ss_dssp             EEEEEG
T ss_pred             EEEECC
Confidence            888743

>4fs7_A Uncharacterized protein; leucine-rich repeats, protein binding, extracellular protein structural genomics; HET: MSE; 1.19A {Bacteroides ovatus}

Probab=97.32  E-value=0.0007  Score=71.44  Aligned_cols=123  Identities=19%  Similarity=0.204  Sum_probs=69.0

Q ss_pred             ccccccceeEEEecccccccCCC--CCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCc------------
Q 038398          489 EIQNWRNVRRMSLMKNKIENLSE--TPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLW------------  554 (720)
Q Consensus       489 ~~~~~~~l~~L~l~~~~~~~~~~--~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~------------  554 (720)
                      .|.++.+|+.+.+.. .+..+..  +.+|++|+.+.+..+ ++.+....|.++..|+.+.+..+ ...            
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 AFQGCRKVTEIKIPS-TVREIGEFAFENCSKLEIINIPDS-VKMIGRCTFSGCYALKSILLPLM-LKSIGVEAFKGCDFK  142 (394)
T ss_dssp             TTTTCTTEEEEECCT-TCCEECTTTTTTCTTCCEECCCTT-CCEECTTTTTTCTTCCCCCCCTT-CCEECTTTTTTCCCS
T ss_pred             HhhCCCCceEEEeCC-CccCcchhHhhCCCCCcEEEeCCC-ceEccchhhcccccchhhcccCc-eeeecceeeeccccc
Confidence            466778888888864 3554443  467788888888654 55566566666666666555432 110            


Q ss_pred             ----------cCCccccCCCCCCEEeccCCCCcccch-hhhcCCCCCEEeccCCcCCCCCchhhhhccccCcee
Q 038398          555 ----------KLPSGISTLVSLEHLDLSSTAITHLPI-ELQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVL  617 (720)
Q Consensus       555 ----------~lp~~i~~l~~L~~L~L~~~~i~~lp~-~i~~l~~L~~L~l~~~~~l~~lp~~~~~~l~~L~~L  617 (720)
                                .-...|.++.+|+.+.+..+ ++.++. .|.++.+|+.+.+..+  +..++...+..+..|+.+
T Consensus       143 ~~~~~~~~~~i~~~aF~~c~~L~~i~l~~~-~~~I~~~~F~~c~~L~~i~l~~~--~~~I~~~~F~~~~~L~~i  213 (394)
T 4fs7_A          143 EITIPEGVTVIGDEAFATCESLEYVSLPDS-METLHNGLFSGCGKLKSIKLPRN--LKIIRDYCFAECILLENM  213 (394)
T ss_dssp             EEECCTTCCEECTTTTTTCTTCCEEECCTT-CCEECTTTTTTCTTCCBCCCCTT--CCEECTTTTTTCTTCCBC
T ss_pred             ccccCccccccchhhhcccCCCcEEecCCc-cceeccccccCCCCceEEEcCCC--ceEeCchhhcccccccee
Confidence                      01233556667777777543 333432 3666667776666542  344444334444444433

>2kjq_A DNAA-related protein; solution structure, NESG, structural genomics, PSI-2, protei structure initiative; NMR {Neisseria meningitidis serogroup B}

Probab=97.31  E-value=0.00014  Score=64.93  Aligned_cols=26  Identities=27%  Similarity=0.372  Sum_probs=23.5

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      .-..++|+|+.|+|||||++.++...
T Consensus        35 ~g~~~~l~G~~G~GKTtL~~~i~~~~   60 (149)
T 2kjq_A           35 HGQFIYVWGEEGAGKSHLLQAWVAQA   60 (149)
T ss_dssp             CCSEEEEESSSTTTTCHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHH
Confidence            44689999999999999999999877

>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=97.26  E-value=0.0013  Score=64.56  Aligned_cols=170  Identities=16%  Similarity=0.164  Sum_probs=87.4

Q ss_pred             CCCcCchHHHHHHHHHh---cC---------CCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHH
Q 038398          126 EPTVGLESTFDKVWRCL---GE---------EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLE  193 (720)
Q Consensus       126 ~~~vGr~~~~~~l~~~L---~~---------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~  193 (720)
                      ++++|.+..+.++.+..   ..         .-.+-+.|+|++|+||||||+.++...   ..   ..+.+...      
T Consensus        16 ~~i~g~~~~~~~l~~l~~~~~~~~~~~~~~~~~~~g~ll~G~~G~GKTtl~~~i~~~~---~~---~~i~~~~~------   83 (254)
T 1ixz_A           16 KDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEA---RV---PFITASGS------   83 (254)
T ss_dssp             GGCCSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCSEEEEECCTTSSHHHHHHHHHHHT---TC---CEEEEEHH------
T ss_pred             HHhCCcHHHHHHHHHHHHHHHCHHHHHHcCCCCCCeEEEECCCCCCHHHHHHHHHHHh---CC---CEEEeeHH------
Confidence            56789887666654433   21         112338999999999999999999876   21   22333211      


Q ss_pred             HHHHHHHHHhCCCCCccCCCChhHHHHHHHHHhc-cCcEEEEEeccccccc----------------cccccccCCCCC-
Q 038398          194 KIQEKIGRRIGFFDESWKNGSLEDKTSDILRILG-KKKFLLLLDDIWERVD----------------LTKVGIPFPDPE-  255 (720)
Q Consensus       194 ~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~-~k~~LlVlDdv~~~~~----------------~~~l~~~~~~~~-  255 (720)
                      .+    ....        ..........+.+... ..+.++++|+++....                ...+...+.... 
T Consensus        84 ~~----~~~~--------~~~~~~~i~~~~~~~~~~~~~i~~~Deid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~g~~~  151 (254)
T 1ixz_A           84 DF----VEMF--------VGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEK  151 (254)
T ss_dssp             HH----HHSC--------TTHHHHHHHHHHHHHTTSSSEEEEEETHHHHHC---------CHHHHHHHHHHHHHHHTCCT
T ss_pred             HH----HHHH--------hhHHHHHHHHHHHHHHhcCCeEEEehhhhhhhcccCccccccchHHHHHHHHHHHHHhCCCC
Confidence            11    1100        0011122223333332 3568999999853210                111111111111 


Q ss_pred             -CCcEEEEEcCChhHhhh-h----ccCceeeccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCcc
Q 038398          256 -NKSKIVFTTHFLEICGA-L----KAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGLP  323 (720)
Q Consensus       256 -~gs~iiiTtR~~~v~~~-~----~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~GlP  323 (720)
                       ....++.||....+... .    .-...+.++..+.++-.+++...+..........    ...+++.+.|.-
T Consensus       152 ~~~~i~~a~t~~p~~ld~~l~r~~rf~~~i~i~~p~~~~r~~il~~~~~~~~~~~~~~----~~~la~~~~G~~  221 (254)
T 1ixz_A          152 DTAIVVMAATNRPDILDPALLRPGRFDRQIAIDAPDVKGREQILRIHARGKPLAEDVD----LALLAKRTPGFV  221 (254)
T ss_dssp             TCCEEEEEEESCGGGSCGGGGSTTSSCEEEECCSCCHHHHHHHHHHHHTTSCBCTTCC----HHHHHHTCTTCC
T ss_pred             CCCEEEEEccCCchhCCHHHcCCCcCCeEEeeCCcCHHHHHHHHHHHHcCCCCCcccC----HHHHHHHcCCCC
Confidence             22334445655544221 1    1235678888888888888877654322122222    345667777754

>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=97.25  E-value=0.0027  Score=69.72  Aligned_cols=45  Identities=33%  Similarity=0.438  Sum_probs=35.1

Q ss_pred             CCcCchHHHHHHHHHhc------CCCceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          127 PTVGLESTFDKVWRCLG------EEQVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       127 ~~vGr~~~~~~l~~~L~------~~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      +.+|.++..+.+.+.+.      .-...++.++|++|+||||||+.++...
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            46898888777755432      1235689999999999999999999886

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=97.20  E-value=0.00046  Score=79.45  Aligned_cols=60  Identities=20%  Similarity=0.328  Sum_probs=42.8

Q ss_pred             CCCcCchHHHHHHHHHhcC---------CCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecC
Q 038398          126 EPTVGLESTFDKVWRCLGE---------EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSK  188 (720)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~---------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~  188 (720)
                      ..++|.+..++.+...+..         .....+.++|++|+|||++|+.+++...   ..-...+.++++.
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            4579999999888877742         1223799999999999999999998862   1122345555543

>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 3.20A {Thermus thermophilus} SCOP: c.37.1.20

Probab=97.18  E-value=0.0037  Score=62.30  Aligned_cols=170  Identities=15%  Similarity=0.154  Sum_probs=87.8

Q ss_pred             CCCcCchHHHHHHHHHh---cC---------CCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHH
Q 038398          126 EPTVGLESTFDKVWRCL---GE---------EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLE  193 (720)
Q Consensus       126 ~~~vGr~~~~~~l~~~L---~~---------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~  193 (720)
                      ++++|.++.++++.+..   ..         .-.+-|.|+|++|+||||||+.++...   ..   ..+.+...      
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            56789988776665443   11         112238999999999999999999876   21   22333221      


Q ss_pred             HHHHHHHHHhCCCCCccCCCChhHHHHHHHHHh-ccCcEEEEEecccccc------------c----cccccccCCCCC-
Q 038398          194 KIQEKIGRRIGFFDESWKNGSLEDKTSDILRIL-GKKKFLLLLDDIWERV------------D----LTKVGIPFPDPE-  255 (720)
Q Consensus       194 ~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l-~~k~~LlVlDdv~~~~------------~----~~~l~~~~~~~~-  255 (720)
                      .+    ....        ..........+.+.. ...+.++++|+++...            .    +..+...+.... 
T Consensus       108 ~~----~~~~--------~~~~~~~i~~~~~~~~~~~~~i~~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~lsgg~~  175 (278)
T 1iy2_A          108 DF----VEMF--------VGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEK  175 (278)
T ss_dssp             HH----HHST--------TTHHHHHHHHHHHHHHTSCSEEEEEETHHHHHCC--------CHHHHHHHHHHHHHHTTCCT
T ss_pred             HH----HHHH--------hhHHHHHHHHHHHHHHhcCCcEEehhhhHhhhcccccccCCcchHHHHHHHHHHHHHhCCCC
Confidence            11    1100        000111222222322 2356899999985310            0    111111111111 


Q ss_pred             -CCcEEEEEcCChhHhhh-----hccCceeeccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCcc
Q 038398          256 -NKSKIVFTTHFLEICGA-----LKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGLP  323 (720)
Q Consensus       256 -~gs~iiiTtR~~~v~~~-----~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~GlP  323 (720)
                       ....++.||....+...     ..-...+.++..+.++-.+++..++..........    ...+++.+.|..
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             12234445555443211     12335688888898888888887664322122222    345667777754

>3co5_A Putative two-component system transcriptional RES regulator; structural genomics, APC89341.1; 2.40A {Neisseria gonorrhoeae}

Probab=97.17  E-value=0.00021  Score=63.44  Aligned_cols=45  Identities=13%  Similarity=0.127  Sum_probs=33.7

Q ss_pred             CCcCchHHHHHHHHHhcC--CCceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          127 PTVGLESTFDKVWRCLGE--EQVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       127 ~~vGr~~~~~~l~~~L~~--~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      .++|++..++++.+.+..  ....-|.|+|++|+|||++|+.+++..
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            468999988888777643  233457899999999999999998765

>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=96.90  E-value=0.0022  Score=61.33  Aligned_cols=88  Identities=18%  Similarity=0.218  Sum_probs=52.1

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHHHHHhCCCCC-------ccCCCCh---
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKIGRRIGFFDE-------SWKNGSL---  215 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i~~~l~~~~~-------~~~~~~~---  215 (720)
                      .-.++.|+|++|+||||||..++. .     .-..++|++.....+...+.. +....+....       -......   
T Consensus        19 ~G~~~~i~G~~GsGKTtl~~~l~~-~-----~~~~v~~i~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~   91 (220)
T 2cvh_A           19 PGVLTQVYGPYASGKTTLALQTGL-L-----SGKKVAYVDTEGGFSPERLVQ-MAETRGLNPEEALSRFILFTPSDFKEQ   91 (220)
T ss_dssp             TTSEEEEECSTTSSHHHHHHHHHH-H-----HCSEEEEEESSCCCCHHHHHH-HHHTTTCCHHHHHHHEEEECCTTTSHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHH-H-----cCCcEEEEECCCCCCHHHHHH-HHHhcCCChHHHhhcEEEEecCCHHHH
Confidence            346899999999999999999987 2     113688888766555555443 3333222100       0011112   


Q ss_pred             hHHHHHHHHHhccCcEEEEEecccc
Q 038398          216 EDKTSDILRILGKKKFLLLLDDIWE  240 (720)
Q Consensus       216 ~~~~~~l~~~l~~k~~LlVlDdv~~  240 (720)
                      .+....++..+..+.-++|+|.+..
T Consensus        92 ~~~~~~~~~l~~~~~~lliiD~~~~  116 (220)
T 2cvh_A           92 RRVIGSLKKTVDSNFALVVVDSITA  116 (220)
T ss_dssp             HHHHHHHHHHCCTTEEEEEEECCCC
T ss_pred             HHHHHHHHHHhhcCCCEEEEcCcHH
Confidence            2344444444444577999998753

>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=96.89  E-value=0.0006  Score=68.07  Aligned_cols=68  Identities=22%  Similarity=0.384  Sum_probs=45.8

Q ss_pred             eEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEe--cCcCCHHHHHHHHHHHhCCCCCccCCCChhHHHHHHHHH
Q 038398          148 GIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVV--SKDLQLEKIQEKIGRRIGFFDESWKNGSLEDKTSDILRI  225 (720)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v--~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~  225 (720)
                      +++.|+|++|+||||||.+++... .     ..++|++.  ...             +..     ...+.++....+.+.
T Consensus       124 sviLI~GpPGsGKTtLAlqlA~~~-G-----~~VlyIs~~~eE~-------------v~~-----~~~~le~~l~~i~~~  179 (331)
T 2vhj_A          124 GMVIVTGKGNSGKTPLVHALGEAL-G-----GKDKYATVRFGEP-------------LSG-----YNTDFNVFVDDIARA  179 (331)
T ss_dssp             EEEEEECSCSSSHHHHHHHHHHHH-H-----TTSCCEEEEBSCS-------------STT-----CBCCHHHHHHHHHHH
T ss_pred             cEEEEEcCCCCCHHHHHHHHHHhC-C-----CCEEEEEecchhh-------------hhh-----hhcCHHHHHHHHHHH
Confidence            577899999999999999998752 1     12456666  221             110     013456666667777


Q ss_pred             hccCcEEEEEecccc
Q 038398          226 LGKKKFLLLLDDIWE  240 (720)
Q Consensus       226 l~~k~~LlVlDdv~~  240 (720)
                      +.+.+ ++|+|++..
T Consensus       180 l~~~~-LLVIDsI~a  193 (331)
T 2vhj_A          180 MLQHR-VIVIDSLKN  193 (331)
T ss_dssp             HHHCS-EEEEECCTT
T ss_pred             HhhCC-EEEEecccc
Confidence            77767 999999854

>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=96.66  E-value=0.0045  Score=60.09  Aligned_cols=92  Identities=13%  Similarity=0.160  Sum_probs=54.1

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhhcCCCC----CcCEEEEEEecCcCCHHHHHHHHHHHhCCCCC----c---cCCCCh
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKLLGAPN----VFDVVIWVVVSKDLQLEKIQEKIGRRIGFFDE----S---WKNGSL  215 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~----~f~~~~wv~v~~~~~~~~~~~~i~~~l~~~~~----~---~~~~~~  215 (720)
                      -.++.|+|++|+|||||++.++... ....    .-..++|+.....+....+. .++..++....    .   ....+.
T Consensus        24 G~~~~i~G~~GsGKTtl~~~l~~~~-~~~~~~g~~~~~~~~i~~~~~~~~~~~~-~~~~~~g~~~~~~~~~~~~~~~~~~  101 (243)
T 1n0w_A           24 GSITEMFGEFRTGKTQICHTLAVTC-QLPIDRGGGEGKAMYIDTEGTFRPERLL-AVAERYGLSGSDVLDNVAYARAFNT  101 (243)
T ss_dssp             TSEEEEECCTTSSHHHHHHHHHHHT-TSCGGGTCCSSEEEEEESSSCCCHHHHH-HHHHHTTCCHHHHHHTEEEEECCSH
T ss_pred             CeEEEEECCCCCcHHHHHHHHHHHH-hCchhcCCCCCeEEEEECCCCcCHHHHH-HHHHHcCCCHHHHhhCeEEEecCCH
Confidence            4699999999999999999998753 1111    13578898877655544443 34444443210    0   011222


Q ss_pred             hH---HHHHHHHHhc-cCcEEEEEecccc
Q 038398          216 ED---KTSDILRILG-KKKFLLLLDDIWE  240 (720)
Q Consensus       216 ~~---~~~~l~~~l~-~k~~LlVlDdv~~  240 (720)
                      .+   ....+.+.+. .+.-++|+|++..
T Consensus       102 ~~~~~~~~~~~~~~~~~~~~lliiD~~~~  130 (243)
T 1n0w_A          102 DHQTQLLYQASAMMVESRYALLIVDSATA  130 (243)
T ss_dssp             HHHHHHHHHHHHHHHHSCEEEEEEETSSG
T ss_pred             HHHHHHHHHHHHHHhcCCceEEEEeCchH
Confidence            22   2233444444 3667889998754

>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=96.65  E-value=0.0046  Score=63.32  Aligned_cols=86  Identities=16%  Similarity=0.153  Sum_probs=56.4

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHHHHHhCCCCCc---cCCCChhHHHHHHH
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKIGRRIGFFDES---WKNGSLEDKTSDIL  223 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i~~~l~~~~~~---~~~~~~~~~~~~l~  223 (720)
                      -.++.|.|++|+||||||.+++....   ..=..++|++.....+..     .++.++.....   ....+.++....+.
T Consensus        61 G~i~~I~GppGsGKSTLal~la~~~~---~~gg~VlyId~E~s~~~~-----ra~rlgv~~~~l~i~~~~~~e~~l~~~~  132 (356)
T 3hr8_A           61 GRIVEIFGQESSGKTTLALHAIAEAQ---KMGGVAAFIDAEHALDPV-----YAKNLGVDLKSLLISQPDHGEQALEIVD  132 (356)
T ss_dssp             TEEEEEEESTTSSHHHHHHHHHHHHH---HTTCCEEEEESSCCCCHH-----HHHHHTCCGGGCEEECCSSHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHH---hcCCeEEEEecccccchH-----HHHHcCCchhhhhhhhccCHHHHHHHHH
Confidence            47999999999999999999987752   111357888776666543     45555543221   12345556666666


Q ss_pred             HHhc-cCcEEEEEecccc
Q 038398          224 RILG-KKKFLLLLDDIWE  240 (720)
Q Consensus       224 ~~l~-~k~~LlVlDdv~~  240 (720)
                      ..++ .+.-++|+|.+..
T Consensus       133 ~l~~~~~~dlvVIDSi~~  150 (356)
T 3hr8_A          133 ELVRSGVVDLIVVDSVAA  150 (356)
T ss_dssp             HHHHTSCCSEEEEECTTT
T ss_pred             HHhhhcCCCeEEehHhhh
Confidence            5554 4556899998754

>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=96.52  E-value=0.0089  Score=62.47  Aligned_cols=126  Identities=13%  Similarity=0.137  Sum_probs=80.8

Q ss_pred             cccccceeEEEecccccccCC--CCCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCccCCccccCCCCCC
Q 038398          490 IQNWRNVRRMSLMKNKIENLS--ETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVSLE  567 (720)
Q Consensus       490 ~~~~~~l~~L~l~~~~~~~~~--~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~  567 (720)
                      +..+.++..+.+..+ +..+.  .+..+..|+.+.+..+ ++.+....|.++.+|+.+.+..+ ....-...|.++.+|+
T Consensus       213 f~~~~~l~~i~~~~~-~~~i~~~~f~~~~~L~~i~lp~~-v~~I~~~aF~~~~~l~~i~l~~~-i~~i~~~aF~~c~~L~  289 (379)
T 4h09_A          213 FSYGKNLKKITITSG-VTTLGDGAFYGMKALDEIAIPKN-VTSIGSFLLQNCTALKTLNFYAK-VKTVPYLLCSGCSNLT  289 (379)
T ss_dssp             TTTCSSCSEEECCTT-CCEECTTTTTTCSSCCEEEECTT-CCEECTTTTTTCTTCCEEEECCC-CSEECTTTTTTCTTCC
T ss_pred             cccccccceeeeccc-eeEEccccccCCccceEEEcCCC-ccEeCccccceeehhcccccccc-ceeccccccccccccc
Confidence            334455666655433 22222  2356777777777665 55666666777788888887655 3333344567778888


Q ss_pred             EEeccCCCCcccch-hhhcCCCCCEEeccCCcCCCCCchhhhhccccCceeecc
Q 038398          568 HLDLSSTAITHLPI-ELQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMF  620 (720)
Q Consensus       568 ~L~L~~~~i~~lp~-~i~~l~~L~~L~l~~~~~l~~lp~~~~~~l~~L~~L~~~  620 (720)
                      .+.+.++.++.++. .|.++.+|+.+.+..  .++.++...+.++++|+.+.+-
T Consensus       290 ~i~l~~~~i~~I~~~aF~~c~~L~~i~lp~--~l~~I~~~aF~~C~~L~~i~ip  341 (379)
T 4h09_A          290 KVVMDNSAIETLEPRVFMDCVKLSSVTLPT--ALKTIQVYAFKNCKALSTISYP  341 (379)
T ss_dssp             EEEECCTTCCEECTTTTTTCTTCCEEECCT--TCCEECTTTTTTCTTCCCCCCC
T ss_pred             cccccccccceehhhhhcCCCCCCEEEcCc--cccEEHHHHhhCCCCCCEEEEC
Confidence            88887777777754 377778888888754  3566766667777777776653

>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=96.46  E-value=0.0038  Score=71.88  Aligned_cols=46  Identities=22%  Similarity=0.345  Sum_probs=37.2

Q ss_pred             CCCcCchHHHHHHHHHhcC---------CCceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          126 EPTVGLESTFDKVWRCLGE---------EQVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~---------~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ..++|.+..++.+...+..         .....+.++|++|+|||++|+.+.+..
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            4578999999888777632         123478999999999999999999886

>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=96.46  E-value=0.0031  Score=73.49  Aligned_cols=45  Identities=27%  Similarity=0.407  Sum_probs=36.5

Q ss_pred             CCcCchHHHHHHHHHhcC---------CCceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          127 PTVGLESTFDKVWRCLGE---------EQVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       127 ~~vGr~~~~~~l~~~L~~---------~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      .++|.+..++.+...+..         .....+.|+|++|+|||++|+.+.+..
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            468999988888777632         123588999999999999999999876

>2qgz_A Helicase loader, putative primosome component; structural genomics, PSI-2, protein structure initiative; 2.40A {Streptococcus pyogenes serotype M3}

Probab=96.45  E-value=0.0025  Score=64.45  Aligned_cols=46  Identities=22%  Similarity=0.283  Sum_probs=32.3

Q ss_pred             CCCcC----chHHHHHHHHHhcCC---CceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          126 EPTVG----LESTFDKVWRCLGEE---QVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       126 ~~~vG----r~~~~~~l~~~L~~~---~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ++|++    +...++.+.+++..-   ....+.|+|++|+|||+||+.+++..
T Consensus       124 d~f~~~~~~~~~~~~~~~~~i~~~~~~~~~~lll~G~~GtGKT~La~aia~~~  176 (308)
T 2qgz_A          124 SDIDVNNASRMEAFSAILDFVEQYPSAEQKGLYLYGDMGIGKSYLLAAMAHEL  176 (308)
T ss_dssp             GGSCCCSHHHHHHHHHHHHHHHHCSCSSCCEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             hhCcCCChHHHHHHHHHHHHHHhccccCCceEEEECCCCCCHHHHHHHHHHHH
Confidence            45554    333444555555431   24688999999999999999999876

>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=96.44  E-value=0.0079  Score=61.77  Aligned_cols=87  Identities=15%  Similarity=0.185  Sum_probs=55.6

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHHHHHhCCCCCc---cCCCChhHHHHHH
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKIGRRIGFFDES---WKNGSLEDKTSDI  222 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i~~~l~~~~~~---~~~~~~~~~~~~l  222 (720)
                      .-.++.|+|++|+||||||.+++....   ..=..++|++.....+..     .+..++.....   ....+.++....+
T Consensus        60 ~G~iv~I~G~pGsGKTtLal~la~~~~---~~g~~vlyi~~E~~~~~~-----~a~~lG~~~~~l~i~~~~~~e~~l~~~  131 (349)
T 2zr9_A           60 RGRVIEIYGPESSGKTTVALHAVANAQ---AAGGIAAFIDAEHALDPE-----YAKKLGVDTDSLLVSQPDTGEQALEIA  131 (349)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHHH---HTTCCEEEEESSCCCCHH-----HHHHTTCCGGGCEEECCSSHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHH---hCCCeEEEEECCCCcCHH-----HHHHcCCCHHHeEEecCCCHHHHHHHH
Confidence            347899999999999999999886652   112368899887766543     24555543221   1223455555555


Q ss_pred             HHHhcc-CcEEEEEecccc
Q 038398          223 LRILGK-KKFLLLLDDIWE  240 (720)
Q Consensus       223 ~~~l~~-k~~LlVlDdv~~  240 (720)
                      ...... +.-+||+|.+..
T Consensus       132 ~~l~~~~~~~lIVIDsl~~  150 (349)
T 2zr9_A          132 DMLVRSGALDIIVIDSVAA  150 (349)
T ss_dssp             HHHHTTTCCSEEEEECGGG
T ss_pred             HHHHhcCCCCEEEEcChHh
Confidence            544443 466999999854

>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=96.40  E-value=0.014  Score=59.91  Aligned_cols=58  Identities=17%  Similarity=0.300  Sum_probs=40.9

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhhcCCCC----CcCEEEEEEecCcCCHHHHHHHHHHHhCC
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPN----VFDVVIWVVVSKDLQLEKIQEKIGRRIGF  205 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~----~f~~~~wv~v~~~~~~~~~~~~i~~~l~~  205 (720)
                      .-.++.|+|++|+||||||..++... ....    .-..++|++....++...+.+ ++..++.
T Consensus       121 ~G~i~~I~G~~GsGKTtla~~la~~~-~~~~~~gg~~~~vlyi~~E~~~~~~~l~~-~~~~~g~  182 (343)
T 1v5w_A          121 SMAITEAFGEFRTGKTQLSHTLCVTA-QLPGAGGYPGGKIIFIDTENTFRPDRLRD-IADRFNV  182 (343)
T ss_dssp             SSEEEEEECCTTCTHHHHHHHHHHHT-TSCBTTTBCCCEEEEEESSSCCCHHHHHH-HHHHTTC
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH-hcccccCCCCCeEEEEECCCCCCHHHHHH-HHHHcCC
Confidence            34789999999999999999998764 1111    234789999888777666543 3445543

>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=96.40  E-value=0.01  Score=60.42  Aligned_cols=91  Identities=14%  Similarity=0.304  Sum_probs=55.7

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhhcCCCC----CcCEEEEEEecCcCCHHHHHHHHHHHhCCCCCc-------cCCCCh
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKLLGAPN----VFDVVIWVVVSKDLQLEKIQEKIGRRIGFFDES-------WKNGSL  215 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~----~f~~~~wv~v~~~~~~~~~~~~i~~~l~~~~~~-------~~~~~~  215 (720)
                      -.++.|+|++|+||||||.+++.... ...    .-..++|++....++...+.+ ++..++.....       ....+.
T Consensus       107 G~i~~i~G~~GsGKT~la~~la~~~~-~~~~~gg~~~~vlyi~~e~~~~~~~l~~-~~~~~g~~~~~~~~~l~~~~~~~~  184 (324)
T 2z43_A          107 RTMTEFFGEFGSGKTQLCHQLSVNVQ-LPPEKGGLSGKAVYIDTEGTFRWERIEN-MAKALGLDIDNVMNNIYYIRAINT  184 (324)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHHHHTT-SCGGGTCCSCEEEEEESSSCCCHHHHHH-HHHHTTCCHHHHHHTEEEEECCSH
T ss_pred             CcEEEEECCCCCCHhHHHHHHHHHHh-cccccCCCCCeEEEEECCCCCCHHHHHH-HHHHhCCCHHHHhccEEEEeCCCH
Confidence            46899999999999999999987651 111    024789998887776666553 34555443210       011222


Q ss_pred             h---HHHHHHHHHhc--cCcEEEEEeccc
Q 038398          216 E---DKTSDILRILG--KKKFLLLLDDIW  239 (720)
Q Consensus       216 ~---~~~~~l~~~l~--~k~~LlVlDdv~  239 (720)
                      +   +....+...+.  .+.-+||+|.+.
T Consensus       185 ~~~~~~l~~l~~~~~~~~~~~lvVIDsl~  213 (324)
T 2z43_A          185 DHQIAIVDDLQELVSKDPSIKLIVVDSVT  213 (324)
T ss_dssp             HHHHHHHHHHHHHHHHCTTEEEEEETTTT
T ss_pred             HHHHHHHHHHHHHHHhccCCCEEEEeCcH
Confidence            2   23344455554  345688888874

>4gt6_A Cell surface protein; leucine rich repeats, putative protein binding, extracellula protein, structural genomics; HET: MSE; 1.80A {Faecalibacterium prausnitzii a2-165}

Probab=96.38  E-value=0.011  Score=62.06  Aligned_cols=80  Identities=18%  Similarity=0.301  Sum_probs=32.9

Q ss_pred             hccCCcccEEEccCCCCCccCCccccCCCCCCEEeccCCCCcccchh-hhcCCCCCEEeccCCcCCCCCchhhhhccccC
Q 038398          536 FQSMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSSTAITHLPIE-LQKLVNLKCLNLEYMNNLNQFPRLVISAFSKL  614 (720)
Q Consensus       536 ~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~~~i~~lp~~-i~~l~~L~~L~l~~~~~l~~lp~~~~~~l~~L  614 (720)
                      |.++..|+.+.+..+ ....-...+.++..|+.+.+. +.++.++.. |.++.+|+.+.+..  .++.++...+..+++|
T Consensus       261 F~~c~~L~~i~lp~~-~~~I~~~aF~~c~~L~~i~l~-~~i~~I~~~aF~~c~~L~~i~lp~--~v~~I~~~aF~~C~~L  336 (394)
T 4gt6_A          261 FDSCAYLASVKMPDS-VVSIGTGAFMNCPALQDIEFS-SRITELPESVFAGCISLKSIDIPE--GITQILDDAFAGCEQL  336 (394)
T ss_dssp             TTTCSSCCEEECCTT-CCEECTTTTTTCTTCCEEECC-TTCCEECTTTTTTCTTCCEEECCT--TCCEECTTTTTTCTTC
T ss_pred             eeecccccEEecccc-cceecCcccccccccccccCC-CcccccCceeecCCCCcCEEEeCC--cccEehHhHhhCCCCC
Confidence            444444444444433 222222334444444444443 233333322 44444444444432  2334444444444444


Q ss_pred             ceeec
Q 038398          615 QVLRM  619 (720)
Q Consensus       615 ~~L~~  619 (720)
                      +.+.+
T Consensus       337 ~~i~i  341 (394)
T 4gt6_A          337 ERIAI  341 (394)
T ss_dssp             CEEEE
T ss_pred             CEEEE
Confidence            44443

>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=96.36  E-value=0.0073  Score=68.49  Aligned_cols=169  Identities=15%  Similarity=0.188  Sum_probs=78.5

Q ss_pred             CCCcCchHHHHHHHHHhcC-------------CCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCH
Q 038398          126 EPTVGLESTFDKVWRCLGE-------------EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQL  192 (720)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~-------------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~  192 (720)
                      ..+.|.++.+++|.+.+.-             ...+-|.++|++|+|||.+|+++++..   ...     ++.++.    
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---QAN-----FISIKG----  544 (806)
T ss_dssp             TTCCSCHHHHHHHTTTTTTTTTCSGGGSSSCCCCCSCCEEESSTTSSHHHHHHHHHHTT---TCE-----EEECCH----
T ss_pred             HHhCCHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCceEEEecCCCCCchHHHHHHHHHh---CCc-----eEEecc----
Confidence            4567888888887766521             124568899999999999999999987   222     333321    


Q ss_pred             HHHHHHHHHHhCCCCCccCCCChhHHHHHHHHHh-ccCcEEEEEeccccccc----------------cccccccCC--C
Q 038398          193 EKIQEKIGRRIGFFDESWKNGSLEDKTSDILRIL-GKKKFLLLLDDIWERVD----------------LTKVGIPFP--D  253 (720)
Q Consensus       193 ~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l-~~k~~LlVlDdv~~~~~----------------~~~l~~~~~--~  253 (720)
                      .+    ++...       .. ..+.....+.+.. +..+++|+||+++....                ...+...+.  .
T Consensus       545 ~~----l~s~~-------vG-ese~~vr~lF~~Ar~~~P~IifiDEiDsl~~~R~~~~~~~~~~~~rv~~~lL~~mdg~~  612 (806)
T 3cf2_A          545 PE----LLTMW-------FG-ESEANVREIFDKARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMS  612 (806)
T ss_dssp             HH----HHTTT-------CS-SCHHHHHHHHHHHHTTCSEEEECSCGGGCC--------------CHHHHHHHHHHHSSC
T ss_pred             ch----hhccc-------cc-hHHHHHHHHHHHHHHcCCceeechhhhHHhhccCCCCCCCchHHHHHHHHHHHHHhCCC
Confidence            11    11111       11 2233444444444 34789999999864210                011111111  1


Q ss_pred             CCCCcEEEEEcCChhH-----hhhhccCceeeccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCc
Q 038398          254 PENKSKIVFTTHFLEI-----CGALKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGL  322 (720)
Q Consensus       254 ~~~gs~iiiTtR~~~v-----~~~~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~Gl  322 (720)
                      ...+--||.||.....     ...-.-...+.++..+.++-.++|+.++.......+.+    ...+++.+.|+
T Consensus       613 ~~~~V~vi~aTN~p~~lD~AllRpgRfd~~i~v~lPd~~~R~~il~~~l~~~~~~~~~d----l~~la~~t~g~  682 (806)
T 3cf2_A          613 TKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDEKSRVAILKANLRKSPVAKDVD----LEFLAKMTNGF  682 (806)
T ss_dssp             SSSSEEEECC-CCSSSSCHHHHSTTTSCCEEEC-----CHHHHTTTTTSSCC--CCC-----------------
T ss_pred             CCCCEEEEEeCCCchhCCHhHcCCCcceEEEEECCcCHHHHHHHHHHHhcCCCCCCCCC----HHHHHHhCCCC
Confidence            1122223334533222     11112345677877777777788877665433222223    34455566654

>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=96.36  E-value=0.0012  Score=63.01  Aligned_cols=112  Identities=14%  Similarity=-0.069  Sum_probs=59.9

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHHHHHhCCCCCccCCCChhHHHHHHHHHh
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKIGRRIGFFDESWKNGSLEDKTSDILRIL  226 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l  226 (720)
                      -.++.|+|+.|+||||++..+..+..   .+-..++.+....+.  . -...++..++............+..+.+.+.+
T Consensus        12 G~i~litG~mGsGKTT~ll~~~~r~~---~~g~kVli~~~~~d~--r-~~~~i~srlG~~~~~~~~~~~~~i~~~i~~~~   85 (223)
T 2b8t_A           12 GWIEFITGPMFAGKTAELIRRLHRLE---YADVKYLVFKPKIDT--R-SIRNIQSRTGTSLPSVEVESAPEILNYIMSNS   85 (223)
T ss_dssp             CEEEEEECSTTSCHHHHHHHHHHHHH---HTTCCEEEEEECCCG--G-GCSSCCCCCCCSSCCEEESSTHHHHHHHHSTT
T ss_pred             cEEEEEECCCCCcHHHHHHHHHHHHH---hcCCEEEEEEeccCc--h-HHHHHHHhcCCCccccccCCHHHHHHHHHHHh
Confidence            46889999999999999998888762   222234444433221  1 11234444444322211223334444444444


Q ss_pred             ccCc-EEEEEeccccc--cccccccccCCCCCCCcEEEEEcCCh
Q 038398          227 GKKK-FLLLLDDIWER--VDLTKVGIPFPDPENKSKIVFTTHFL  267 (720)
Q Consensus       227 ~~k~-~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~iiiTtR~~  267 (720)
                      .+.+ -+||+|.+...  ..++.+. .+..  .|..||+|.+..
T Consensus        86 ~~~~~dvViIDEaQ~l~~~~ve~l~-~L~~--~gi~Vil~Gl~~  126 (223)
T 2b8t_A           86 FNDETKVIGIDEVQFFDDRICEVAN-ILAE--NGFVVIISGLDK  126 (223)
T ss_dssp             SCTTCCEEEECSGGGSCTHHHHHHH-HHHH--TTCEEEEECCSB
T ss_pred             hCCCCCEEEEecCccCcHHHHHHHH-HHHh--CCCeEEEEeccc
Confidence            3344 49999998642  2222221 1111  267788888743

>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=96.35  E-value=0.002  Score=59.52  Aligned_cols=115  Identities=17%  Similarity=0.100  Sum_probs=60.0

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCc---CCHHHHHHHHHHHhCCCC----CccC--CCC---
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKD---LQLEKIQEKIGRRIGFFD----ESWK--NGS---  214 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~---~~~~~~~~~i~~~l~~~~----~~~~--~~~---  214 (720)
                      ...|.|++..|.||||.|-...-+..   ++=-.+.++..-+.   .+...++..    +....    ..+.  ..+   
T Consensus        28 ~g~i~v~tG~GkGKTTaA~GlalRA~---g~G~rV~~vQF~Kg~~~~gE~~~l~~----L~v~~~~~g~gf~~~~~~~~~  100 (196)
T 1g5t_A           28 RGIIIVFTGNGKGKTTAAFGTAARAV---GHGKNVGVVQFIKGTWPNGERNLLEP----HGVEFQVMATGFTWETQNREA  100 (196)
T ss_dssp             CCCEEEEESSSSCHHHHHHHHHHHHH---HTTCCEEEEESSCCSSCCHHHHHHGG----GTCEEEECCTTCCCCGGGHHH
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHHH---HCCCeEEEEEeeCCCCCccHHHHHHh----CCcEEEEcccccccCCCCcHH
Confidence            35677777788999999988877662   22224556654332   223333333    32100    0111  101   


Q ss_pred             ----hhHHHHHHHHHhccCcE-EEEEeccccc-----cccccccccCCCCCCCcEEEEEcCChh
Q 038398          215 ----LEDKTSDILRILGKKKF-LLLLDDIWER-----VDLTKVGIPFPDPENKSKIVFTTHFLE  268 (720)
Q Consensus       215 ----~~~~~~~l~~~l~~k~~-LlVlDdv~~~-----~~~~~l~~~~~~~~~gs~iiiTtR~~~  268 (720)
                          .......+++.+.+.+| |||||++-..     ...+.+...+........||+|+|+..
T Consensus       101 ~~~~a~~~l~~a~~~l~~~~yDlvILDEi~~al~~g~l~~~ev~~~l~~Rp~~~~vIlTGr~ap  164 (196)
T 1g5t_A          101 DTAACMAVWQHGKRMLADPLLDMVVLDELTYMVAYDYLPLEEVISALNARPGHQTVIITGRGCH  164 (196)
T ss_dssp             HHHHHHHHHHHHHHHTTCTTCSEEEEETHHHHHHTTSSCHHHHHHHHHTSCTTCEEEEECSSCC
T ss_pred             HHHHHHHHHHHHHHHHhcCCCCEEEEeCCCccccCCCCCHHHHHHHHHhCcCCCEEEEECCCCc
Confidence                12233344555555555 9999998432     222222222223334678999999853

>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=96.28  E-value=0.011  Score=60.96  Aligned_cols=86  Identities=16%  Similarity=0.142  Sum_probs=55.9

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHHHHHhCCCCCc---cCCCChhHHHHHHH
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKIGRRIGFFDES---WKNGSLEDKTSDIL  223 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i~~~l~~~~~~---~~~~~~~~~~~~l~  223 (720)
                      -.++.|.|++|+||||||.+++.....   .-..++|++....++..     .+..++.....   ....+.++....+.
T Consensus        74 G~li~I~G~pGsGKTtlal~la~~~~~---~g~~vlyi~~E~s~~~~-----~a~~~g~d~~~l~i~~~~~~e~~l~~l~  145 (366)
T 1xp8_A           74 GRITEIYGPESGGKTTLALAIVAQAQK---AGGTCAFIDAEHALDPV-----YARALGVNTDELLVSQPDNGEQALEIME  145 (366)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHHHHHHH---TTCCEEEEESSCCCCHH-----HHHHTTCCGGGCEEECCSSHHHHHHHHH
T ss_pred             CcEEEEEcCCCCChHHHHHHHHHHHHH---CCCeEEEEECCCChhHH-----HHHHcCCCHHHceeecCCcHHHHHHHHH
Confidence            468999999999999999998876521   12368899887766543     24455543221   12234556666666


Q ss_pred             HHhcc-CcEEEEEecccc
Q 038398          224 RILGK-KKFLLLLDDIWE  240 (720)
Q Consensus       224 ~~l~~-k~~LlVlDdv~~  240 (720)
                      ...+. ..-+||+|.+..
T Consensus       146 ~l~~~~~~~lVVIDsl~~  163 (366)
T 1xp8_A          146 LLVRSGAIDVVVVDSVAA  163 (366)
T ss_dssp             HHHTTTCCSEEEEECTTT
T ss_pred             HHHhcCCCCEEEEeChHH
Confidence            55543 455999999853

>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=96.28  E-value=0.009  Score=61.40  Aligned_cols=87  Identities=15%  Similarity=0.129  Sum_probs=54.0

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHHHHHhCCCCCcc---CCCChhHHHHHH
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKIGRRIGFFDESW---KNGSLEDKTSDI  222 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i~~~l~~~~~~~---~~~~~~~~~~~l  222 (720)
                      .-.++.|.|.+|+||||||.+++.....   .-..++|++....++..     .+..++...+.+   ...+.++..+.+
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            3468999999999999999998876521   12368899887766643     244555432211   122344444444


Q ss_pred             HHHhc-cCcEEEEEecccc
Q 038398          223 LRILG-KKKFLLLLDDIWE  240 (720)
Q Consensus       223 ~~~l~-~k~~LlVlDdv~~  240 (720)
                      ....+ .+.-+||+|.+..
T Consensus       134 ~~l~~~~~~~lVVIDsl~~  152 (356)
T 1u94_A          134 DALARSGAVDVIVVDSVAA  152 (356)
T ss_dssp             HHHHHHTCCSEEEEECGGG
T ss_pred             HHHHhccCCCEEEEcCHHH
Confidence            44433 3455999999743

>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=96.26  E-value=0.01  Score=58.91  Aligned_cols=88  Identities=15%  Similarity=0.124  Sum_probs=56.0

Q ss_pred             eEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHHHHHhCCCCCcc---CCCChhHH-HHHHH
Q 038398          148 GIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKIGRRIGFFDESW---KNGSLEDK-TSDIL  223 (720)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i~~~l~~~~~~~---~~~~~~~~-~~~l~  223 (720)
                      .++-|.|++|+||||||.+++..... ...=..++||+....++..     .+++++...+..   ...+.++. ...+.
T Consensus        29 GiteI~G~pGsGKTtL~Lq~~~~~~~-~g~g~~vlyId~E~s~~~~-----ra~~lGvd~d~llv~~~~~~E~~~l~i~~  102 (333)
T 3io5_A           29 GLLILAGPSKSFKSNFGLTMVSSYMR-QYPDAVCLFYDSEFGITPA-----YLRSMGVDPERVIHTPVQSLEQLRIDMVN  102 (333)
T ss_dssp             EEEEEEESSSSSHHHHHHHHHHHHHH-HCTTCEEEEEESSCCCCHH-----HHHHTTCCGGGEEEEECSBHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHHHh-cCCCceEEEEeccchhhHH-----HHHHhCCCHHHeEEEcCCCHHHHHHHHHH
Confidence            37899999999999999998776521 1112478899887776653     366777654321   23344454 33332


Q ss_pred             HH--h-ccCcEEEEEeccccc
Q 038398          224 RI--L-GKKKFLLLLDDIWER  241 (720)
Q Consensus       224 ~~--l-~~k~~LlVlDdv~~~  241 (720)
                      ..  + .++.-++|+|-+...
T Consensus       103 ~l~~i~~~~~~lvVIDSI~aL  123 (333)
T 3io5_A          103 QLDAIERGEKVVVFIDSLGNL  123 (333)
T ss_dssp             HHHTCCTTCCEEEEEECSTTC
T ss_pred             HHHHhhccCceEEEEeccccc
Confidence            22  2 346789999998653

>1rz3_A Hypothetical protein rbstp0775; MCSG, structural genomics, PSI, protein structure initiative; 1.90A {Geobacillus stearothermophilus} SCOP: c.37.1.6

Probab=96.26  E-value=0.004  Score=58.62  Aligned_cols=42  Identities=24%  Similarity=0.388  Sum_probs=33.5

Q ss_pred             CchHHHHHHHHHhcC---CCceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          130 GLESTFDKVWRCLGE---EQVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       130 Gr~~~~~~l~~~L~~---~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      .|++.++++.+.+..   ....+|+|.|+.|+||||+++.+....
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

>4gt6_A Cell surface protein; leucine rich repeats, putative protein binding, extracellula protein, structural genomics; HET: MSE; 1.80A {Faecalibacterium prausnitzii a2-165}

Probab=96.24  E-value=0.012  Score=61.93  Aligned_cols=105  Identities=17%  Similarity=0.240  Sum_probs=74.6

Q ss_pred             CCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCccCCccccCCCCCCEEeccCCCCcccch-hhhcCCCCC
Q 038398          512 TPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSSTAITHLPI-ELQKLVNLK  590 (720)
Q Consensus       512 ~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~~~i~~lp~-~i~~l~~L~  590 (720)
                      +.+|.+|+.+.+..+ +..+....|.+++.|+.+.+..+ ....-...|.++.+|+.+.+..+ ++.++. .|.++.+|+
T Consensus       261 F~~c~~L~~i~lp~~-~~~I~~~aF~~c~~L~~i~l~~~-i~~I~~~aF~~c~~L~~i~lp~~-v~~I~~~aF~~C~~L~  337 (394)
T 4gt6_A          261 FDSCAYLASVKMPDS-VVSIGTGAFMNCPALQDIEFSSR-ITELPESVFAGCISLKSIDIPEG-ITQILDDAFAGCEQLE  337 (394)
T ss_dssp             TTTCSSCCEEECCTT-CCEECTTTTTTCTTCCEEECCTT-CCEECTTTTTTCTTCCEEECCTT-CCEECTTTTTTCTTCC
T ss_pred             eeecccccEEecccc-cceecCcccccccccccccCCCc-ccccCceeecCCCCcCEEEeCCc-ccEehHhHhhCCCCCC
Confidence            467778888887655 33556666788888888888654 43333456778888888888754 666643 478888888


Q ss_pred             EEeccCCcCCCCCchhhhhccccCceeeccc
Q 038398          591 CLNLEYMNNLNQFPRLVISAFSKLQVLRMFD  621 (720)
Q Consensus       591 ~L~l~~~~~l~~lp~~~~~~l~~L~~L~~~~  621 (720)
                      .+.+..  .++.++...+.++++|+.+.+.+
T Consensus       338 ~i~ip~--sv~~I~~~aF~~C~~L~~i~~~~  366 (394)
T 4gt6_A          338 RIAIPS--SVTKIPESAFSNCTALNNIEYSG  366 (394)
T ss_dssp             EEEECT--TCCBCCGGGGTTCTTCCEEEESS
T ss_pred             EEEECc--ccCEEhHhHhhCCCCCCEEEECC
Confidence            888864  46778777788888888887654

>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=96.20  E-value=0.033  Score=57.24  Aligned_cols=161  Identities=11%  Similarity=-0.087  Sum_probs=94.0

Q ss_pred             HHhcCCCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHHHHHhCCCCCccCCCChhHHH
Q 038398          140 RCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKIGRRIGFFDESWKNGSLEDKT  219 (720)
Q Consensus       140 ~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~  219 (720)
                      +.+...-.++..++|+.|.||++.|+.+.+...  ...|+....+.+....++.++.                       
T Consensus        11 ~~l~~~~~~~yl~~G~e~~~~~~~~~~l~~~~~--~~~~~~~~~~~~~~~~~~~~l~-----------------------   65 (343)
T 1jr3_D           11 AQLNEGLRAAYLLLGNDPLLLQESQDAVRQVAA--AQGFEEHHTFSIDPNTDWNAIF-----------------------   65 (343)
T ss_dssp             HHHHHCCCSEEEEEESCHHHHHHHHHHHHHHHH--HHTCCEEEEEECCTTCCHHHHH-----------------------
T ss_pred             HHHhcCCCcEEEEECCcHHHHHHHHHHHHHHHH--hCCCCeeEEEEecCCCCHHHHH-----------------------
Confidence            334323457899999999999999999887651  1233322122222233333322                       


Q ss_pred             HHHHH-HhccCcEEEEEecccc---ccccccccccCCCCCCCcEEEEEcCC-------hhHhhh-hccCceeeccCCChh
Q 038398          220 SDILR-ILGKKKFLLLLDDIWE---RVDLTKVGIPFPDPENKSKIVFTTHF-------LEICGA-LKAHEFLKVECLGPE  287 (720)
Q Consensus       220 ~~l~~-~l~~k~~LlVlDdv~~---~~~~~~l~~~~~~~~~gs~iiiTtR~-------~~v~~~-~~~~~~~~l~~L~~~  287 (720)
                      +.+.. -+-+++-++|+|+++.   ...+..+...+.....++.+|++|..       ..+... ......++..+++.+
T Consensus        66 ~~~~~~plf~~~kvvii~~~~~kl~~~~~~aLl~~le~p~~~~~~il~~~~~~~~~~~~k~~~~i~sr~~~~~~~~l~~~  145 (343)
T 1jr3_D           66 SLCQAMSLFASRQTLLLLLPENGPNAAINEQLLTLTGLLHDDLLLIVRGNKLSKAQENAAWFTALANRSVQVTCQTPEQA  145 (343)
T ss_dssp             HHHHHHHHCCSCEEEEEECCSSCCCTTHHHHHHHHHTTCBTTEEEEEEESCCCTTTTTSHHHHHHTTTCEEEEECCCCTT
T ss_pred             HHhcCcCCccCCeEEEEECCCCCCChHHHHHHHHHHhcCCCCeEEEEEcCCCChhhHhhHHHHHHHhCceEEEeeCCCHH
Confidence            22221 1234566888899865   23344443333333456777766532       123322 233467899999999


Q ss_pred             hHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCcchHHHH
Q 038398          288 DAWRLFRENLRRDVLDNHPDIPELARSVAQECAGLPLALIT  328 (720)
Q Consensus       288 e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~GlPLai~~  328 (720)
                      +....+...+......   --.+.+..+++.++|.+..+..
T Consensus       146 ~l~~~l~~~~~~~g~~---i~~~a~~~l~~~~~gdl~~~~~  183 (343)
T 1jr3_D          146 QLPRWVAARAKQLNLE---LDDAANQVLCYCYEGNLLALAQ  183 (343)
T ss_dssp             HHHHHHHHHHHHTTCE---ECHHHHHHHHHSSTTCHHHHHH
T ss_pred             HHHHHHHHHHHHcCCC---CCHHHHHHHHHHhchHHHHHHH
Confidence            9998888876543211   1246678899999998776644

>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2}

Probab=96.10  E-value=0.015  Score=55.96  Aligned_cols=47  Identities=28%  Similarity=0.236  Sum_probs=30.9

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHH
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEK  198 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~  198 (720)
                      -.+++|.|++|+|||||++.++....   ..-..++|+....  ....+...
T Consensus        23 G~~~~i~G~~GsGKTtl~~~l~~~~~---~~~~~v~~~~~~~--~~~~~~~~   69 (235)
T 2w0m_A           23 GFFIALTGEPGTGKTIFSLHFIAKGL---RDGDPCIYVTTEE--SRDSIIRQ   69 (235)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHHHHH---HHTCCEEEEESSS--CHHHHHHH
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHHH---HCCCeEEEEEccc--CHHHHHHH
Confidence            36899999999999999999986541   1112466665433  34444443

>3c8u_A Fructokinase; YP_612366.1, putative fructose transport system kinase, STRU genomics, joint center for structural genomics, JCSG; 1.95A {Silicibacter SP}

Probab=96.05  E-value=0.0054  Score=58.05  Aligned_cols=39  Identities=26%  Similarity=0.331  Sum_probs=30.6

Q ss_pred             HHHHHHHHHhcC--CCceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          133 STFDKVWRCLGE--EQVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       133 ~~~~~l~~~L~~--~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      +.+++|.+.+..  ....+|+|+|+.|+|||||++.+....
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            355666666653  345799999999999999999998766

>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=95.89  E-value=0.016  Score=58.97  Aligned_cols=93  Identities=13%  Similarity=0.195  Sum_probs=55.0

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhhcCC-----------CCCc--CEEEEEEecCcCCHHHHHHHHHHHhCCCCCc---
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGA-----------PNVF--DVVIWVVVSKDLQLEKIQEKIGRRIGFFDES---  209 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~-----------~~~f--~~~~wv~v~~~~~~~~~~~~i~~~l~~~~~~---  209 (720)
                      .-.++.|+|++|+||||||.+++......           .+..  ..++|++....++...+.+. +..++.....   
T Consensus        97 ~g~i~~i~G~~gsGKT~la~~la~~~~l~~~~~~~~~~~~~gg~~~~~v~yi~~e~~~~~~~l~~~-~~~~g~~~~~~~~  175 (322)
T 2i1q_A           97 SQSVTEFAGVFGSGKTQIMHQSCVNLQNPEFLFYDEEAVSKGEVAQPKAVYIDTEGTFRPERIMQM-AEHAGIDGQTVLD  175 (322)
T ss_dssp             TTEEEEEEESTTSSHHHHHHHHHHHTTCGGGEECCTTTSCTTTTSSEEEEEEESSSCCCHHHHHHH-HHHHTCCHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHhccccccccccccccCCCCCceEEEEECCCCCCHHHHHHH-HHHcCCCHHHHhc
Confidence            34789999999999999999988653100           0101  47899988887777666543 4555543210   


Q ss_pred             ----cCCCChh---HHHHHHHHHhcc--CcEEEEEeccc
Q 038398          210 ----WKNGSLE---DKTSDILRILGK--KKFLLLLDDIW  239 (720)
Q Consensus       210 ----~~~~~~~---~~~~~l~~~l~~--k~~LlVlDdv~  239 (720)
                          ....+.+   +....+...+..  +.-+||+|.+.
T Consensus       176 ~l~~~~~~~~~~~~~~l~~l~~~~~~~~~~~lvVIDsl~  214 (322)
T 2i1q_A          176 NTFVARAYNSDMQMLFAEKIEDLIQEGNNIKLVVIDSLT  214 (322)
T ss_dssp             TEEEEECSSHHHHHHHHHTHHHHHHTTCEEEEEEEECSS
T ss_pred             CEEEEeCCCHHHHHHHHHHHHHHHhhccCccEEEEECcH
Confidence                0112222   233344444443  34578888764

>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=95.88  E-value=0.041  Score=57.79  Aligned_cols=26  Identities=31%  Similarity=0.491  Sum_probs=23.4

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ...+|.++|.+|+||||++..++...
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            46899999999999999999998776

>2r44_A Uncharacterized protein; putative ATPase, structural genomics, joint center for struc genomics, JCSG; HET: MSE PG4; 2.00A {Cytophaga hutchinsonii atcc 33406}

Probab=95.80  E-value=0.0063  Score=62.33  Aligned_cols=44  Identities=20%  Similarity=0.310  Sum_probs=37.7

Q ss_pred             CCCcCchHHHHHHHHHhcCCCceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          126 EPTVGLESTFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ..++|++..++.+...+..+  ..+.++|++|+|||+||+.+.+..
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            46899999999988877653  468899999999999999999876

>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=95.76  E-value=0.0052  Score=56.03  Aligned_cols=24  Identities=29%  Similarity=0.292  Sum_probs=22.2

Q ss_pred             eEEEEEcCCCChHHHHHHHHHhhh
Q 038398          148 GIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      .+|.|.|++|+||||+|+.+....
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            478999999999999999999886

>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=95.75  E-value=0.0053  Score=56.37  Aligned_cols=24  Identities=25%  Similarity=0.364  Sum_probs=22.3

Q ss_pred             eEEEEEcCCCChHHHHHHHHHhhh
Q 038398          148 GIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      .+|.|.|++|+||||+|+.+.+..
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

>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=95.70  E-value=0.0046  Score=63.88  Aligned_cols=46  Identities=22%  Similarity=0.270  Sum_probs=35.1

Q ss_pred             CCCcCchHHHHHHHHHhcCCCceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          126 EPTVGLESTFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      +.++|.+..++.+..........-|.|+|++|+|||++|+.+++..
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            5689999876665444433333458899999999999999999876

>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=95.70  E-value=0.023  Score=53.42  Aligned_cols=23  Identities=26%  Similarity=0.413  Sum_probs=21.4

Q ss_pred             EEEEEcCCCChHHHHHHHHHhhh
Q 038398          149 IIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      +|.|.|++|+||||.|+.+.+.+
T Consensus         2 ~Iil~GpPGsGKgTqa~~La~~~   24 (206)
T 3sr0_A            2 ILVFLGPPGAGKGTQAKRLAKEK   24 (206)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            57899999999999999999887

>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=95.64  E-value=0.0059  Score=55.79  Aligned_cols=23  Identities=26%  Similarity=0.436  Sum_probs=20.4

Q ss_pred             eEEEEEcCCCChHHHHHHHHHhhh
Q 038398          148 GIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      .+|+|.|++|+||||+|+.+ ...
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 554

>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=95.61  E-value=0.043  Score=57.19  Aligned_cols=93  Identities=12%  Similarity=0.164  Sum_probs=52.7

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhhcCC---CCCcCEEEEEEecCcCCHHHHHHHHHHHhCCCCCc-------cCCCChh
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKLLGA---PNVFDVVIWVVVSKDLQLEKIQEKIGRRIGFFDES-------WKNGSLE  216 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~---~~~f~~~~wv~v~~~~~~~~~~~~i~~~l~~~~~~-------~~~~~~~  216 (720)
                      -.++.|+|++|+|||||+..++-.....   ...-..++|++....+....+. .+++.++.....       ....+..
T Consensus       178 Gei~~I~G~sGsGKTTLl~~la~~~~~p~~~Gg~~~~viyid~E~~~~~~rl~-~~a~~~gl~~~~vleni~~~~~~~~~  256 (400)
T 3lda_A          178 GSITELFGEFRTGKSQLCHTLAVTCQIPLDIGGGEGKCLYIDTEGTFRPVRLV-SIAQRFGLDPDDALNNVAYARAYNAD  256 (400)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHHHHTTSCGGGTCCSSEEEEEESSSCCCHHHHH-HHHHHTTCCHHHHHHTEEEEECCSHH
T ss_pred             CcEEEEEcCCCCChHHHHHHHHHHhccCcccCCCCCcEEEEeCCCccCHHHHH-HHHHHcCCChHhHhhcEEEeccCChH
Confidence            4699999999999999999776433110   1123468898877665555443 355665543210       0111222


Q ss_pred             ---HHHHHHHHHhc-cCcEEEEEecccc
Q 038398          217 ---DKTSDILRILG-KKKFLLLLDDIWE  240 (720)
Q Consensus       217 ---~~~~~l~~~l~-~k~~LlVlDdv~~  240 (720)
                         +....+...+. .+.-+||+|.+-.
T Consensus       257 ~~~~~l~~~~~~l~~~~~~llVIDs~t~  284 (400)
T 3lda_A          257 HQLRLLDAAAQMMSESRFSLIVVDSVMA  284 (400)
T ss_dssp             HHHHHHHHHHHHHHHSCEEEEEEETGGG
T ss_pred             HHHHHHHHHHHHHHhcCCceEEecchhh
Confidence               22233333333 3567888898643

>3nbx_X ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structure, rossman fold, hydro; HET: ADP; 2.91A {Escherichia coli}

Probab=95.58  E-value=0.0088  Score=64.38  Aligned_cols=44  Identities=9%  Similarity=0.052  Sum_probs=37.6

Q ss_pred             CCCcCchHHHHHHHHHhcCCCceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          126 EPTVGLESTFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ..++|+++.++.+...+..+  .-|.++|++|+|||+||+.+++..
T Consensus        22 ~~ivGq~~~i~~l~~al~~~--~~VLL~GpPGtGKT~LAraLa~~l   65 (500)
T 3nbx_X           22 KGLYERSHAIRLCLLAALSG--ESVFLLGPPGIAKSLIARRLKFAF   65 (500)
T ss_dssp             TTCSSCHHHHHHHHHHHHHT--CEEEEECCSSSSHHHHHHHGGGGB
T ss_pred             hhhHHHHHHHHHHHHHHhcC--CeeEeecCchHHHHHHHHHHHHHH
Confidence            35799999999888877544  468899999999999999999876

>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=95.57  E-value=0.012  Score=61.06  Aligned_cols=44  Identities=25%  Similarity=0.183  Sum_probs=36.2

Q ss_pred             CcCchHHHHHHHHHhc-------------C--CCceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          128 TVGLESTFDKVWRCLG-------------E--EQVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       128 ~vGr~~~~~~l~~~L~-------------~--~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ++|.+..++.+...+.             .  .....|.++|++|+|||++|+.+++..
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            5899999988887772             1  134578999999999999999999886

>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=95.56  E-value=0.03  Score=57.45  Aligned_cols=93  Identities=19%  Similarity=0.249  Sum_probs=52.8

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhhcCCCCCc----CEEEEEEecCcCCHHHHHHHHHHHhCCCCCc------c-CCC-
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVF----DVVIWVVVSKDLQLEKIQEKIGRRIGFFDES------W-KNG-  213 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f----~~~~wv~v~~~~~~~~~~~~i~~~l~~~~~~------~-~~~-  213 (720)
                      .-.++.|+|++|+|||||+..++... ......    ..++|++....+....+ ..+.+..+.....      . ... 
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            34799999999999999999998765 111111    25588887655433333 3344444332100      0 001 


Q ss_pred             --ChhHHHHHHHHHhc------cCcEEEEEecccc
Q 038398          214 --SLEDKTSDILRILG------KKKFLLLLDDIWE  240 (720)
Q Consensus       214 --~~~~~~~~l~~~l~------~k~~LlVlDdv~~  240 (720)
                        ...+....+...+.      .+.-+||+|.+-.
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              11233444444454      3677899998754

>3vaa_A Shikimate kinase, SK; structural genomics, center for structural genomics of infec diseases, csgid, metal binding, transferase; 1.70A {Bacteroides thetaiotaomicron}

Probab=95.53  E-value=0.0074  Score=56.63  Aligned_cols=26  Identities=42%  Similarity=0.367  Sum_probs=23.4

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ...+|.|+|++|+||||+|+.+....
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            34689999999999999999999876

>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=95.53  E-value=0.029  Score=58.48  Aligned_cols=118  Identities=12%  Similarity=0.176  Sum_probs=87.6

Q ss_pred             ccccccceeEEEecccccccCC--CCCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCccCCccccCCCCC
Q 038398          489 EIQNWRNVRRMSLMKNKIENLS--ETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVSL  566 (720)
Q Consensus       489 ~~~~~~~l~~L~l~~~~~~~~~--~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L  566 (720)
                      .+..+..|+.+.+..+ +..+.  .+.++.+|..+.+..+ ++.++...|.++.+|+.+.+.++.....-+..|.++.+|
T Consensus       235 ~f~~~~~L~~i~lp~~-v~~I~~~aF~~~~~l~~i~l~~~-i~~i~~~aF~~c~~L~~i~l~~~~i~~I~~~aF~~c~~L  312 (379)
T 4h09_A          235 AFYGMKALDEIAIPKN-VTSIGSFLLQNCTALKTLNFYAK-VKTVPYLLCSGCSNLTKVVMDNSAIETLEPRVFMDCVKL  312 (379)
T ss_dssp             TTTTCSSCCEEEECTT-CCEECTTTTTTCTTCCEEEECCC-CSEECTTTTTTCTTCCEEEECCTTCCEECTTTTTTCTTC
T ss_pred             cccCCccceEEEcCCC-ccEeCccccceeehhcccccccc-ceeccccccccccccccccccccccceehhhhhcCCCCC
Confidence            4566778888888765 44443  2467889999998755 667777779999999999998874443445678899999


Q ss_pred             CEEeccCCCCcccch-hhhcCCCCCEEeccCCcCCCCCchhhhhcc
Q 038398          567 EHLDLSSTAITHLPI-ELQKLVNLKCLNLEYMNNLNQFPRLVISAF  611 (720)
Q Consensus       567 ~~L~L~~~~i~~lp~-~i~~l~~L~~L~l~~~~~l~~lp~~~~~~l  611 (720)
                      +.+.|..+ ++.++. .|.++++|+.+.+..  .++.+....+.++
T Consensus       313 ~~i~lp~~-l~~I~~~aF~~C~~L~~i~ip~--~v~~I~~~aF~~c  355 (379)
T 4h09_A          313 SSVTLPTA-LKTIQVYAFKNCKALSTISYPK--SITLIESGAFEGS  355 (379)
T ss_dssp             CEEECCTT-CCEECTTTTTTCTTCCCCCCCT--TCCEECTTTTTTS
T ss_pred             CEEEcCcc-ccEEHHHHhhCCCCCCEEEECC--ccCEEchhHhhCC
Confidence            99999754 777754 488999999998864  3566665545444

>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=95.49  E-value=0.011  Score=60.33  Aligned_cols=52  Identities=15%  Similarity=0.094  Sum_probs=33.7

Q ss_pred             HHHHHhcC-CCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCc
Q 038398          137 KVWRCLGE-EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKD  189 (720)
Q Consensus       137 ~l~~~L~~-~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~  189 (720)
                      ++++.+.. ..-..++|+|++|+|||||++.+.+........+ .++++-+++.
T Consensus       163 raID~~~pi~rGQr~~IvG~sG~GKTtLl~~Iar~i~~~~~~v-~~I~~lIGER  215 (422)
T 3ice_A          163 RVLDLASPIGRGQRGLIVAPPKAGKTMLLQNIAQSIAYNHPDC-VLMVLLIDER  215 (422)
T ss_dssp             HHHHHHSCCBTTCEEEEECCSSSSHHHHHHHHHHHHHHHCTTS-EEEEEEESSC
T ss_pred             eeeeeeeeecCCcEEEEecCCCCChhHHHHHHHHHHhhcCCCe-eEEEEEecCC
Confidence            34555543 3447899999999999999998876541111223 3446777654

>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=95.48  E-value=0.0073  Score=56.16  Aligned_cols=25  Identities=32%  Similarity=0.371  Sum_probs=22.2

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      -.+|+|+|++|+|||||++.+....
T Consensus         9 g~~i~l~G~~GsGKSTl~~~La~~~   33 (191)
T 1zp6_A            9 GNILLLSGHPGSGKSTIAEALANLP   33 (191)
T ss_dssp             TEEEEEEECTTSCHHHHHHHHHTCS
T ss_pred             CeEEEEECCCCCCHHHHHHHHHhcc
Confidence            4689999999999999999998753

>2ga8_A Hypothetical 39.9 kDa protein; YFR007W, YFH7, unknown function; HET: CME; 1.77A {Saccharomyces cerevisiae} PDB: 2gaa_A*

Probab=95.46  E-value=0.014  Score=59.18  Aligned_cols=43  Identities=23%  Similarity=0.282  Sum_probs=32.9

Q ss_pred             cCchHHHHHHHHHhc----CCCceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          129 VGLESTFDKVWRCLG----EEQVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       129 vGr~~~~~~l~~~L~----~~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      |+.+..++++++.+.    .+....|.|+|++|+||||+++.++...
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            455666666666653    3456679999999999999999988775

>1kgd_A CASK, peripheral plasma membrane CASK; maguk, guanylate kinase like domain, protein binding; 1.31A {Homo sapiens} SCOP: c.37.1.1

Probab=95.46  E-value=0.0077  Score=55.49  Aligned_cols=24  Identities=25%  Similarity=0.393  Sum_probs=22.0

Q ss_pred             eEEEEEcCCCChHHHHHHHHHhhh
Q 038398          148 GIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      .+++|+|+.|+|||||++.+....
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            589999999999999999998765

>2orw_A Thymidine kinase; TMTK, TP4A, transferase; HET: 4TA; 1.50A {Thermotoga maritima} PDB: 2qpo_A 2qq0_A* 2qqe_A*

Probab=95.44  E-value=0.0013  Score=61.01  Aligned_cols=24  Identities=25%  Similarity=0.097  Sum_probs=20.3

Q ss_pred             eEEEEEcCCCChHHHHHHHHHhhh
Q 038398          148 GIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      .++.|+|+.|+||||++..++.+.
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            478899999999999997776654

>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=95.43  E-value=0.037  Score=55.25  Aligned_cols=86  Identities=15%  Similarity=0.138  Sum_probs=46.3

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecC-cCCHHHHHHHHHHHhCCCCCccCCCChhHHHHHHHH
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSK-DLQLEKIQEKIGRRIGFFDESWKNGSLEDKTSDILR  224 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~-~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~  224 (720)
                      ...+|+|+|++|+||||++..++.......+  ..+.++.... .....+.+.......+.+..  ...+.......+. 
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 HSKYIVLFGSTGAGKTTTLAKLAAISMLEKH--KKIAFITTDTYRIAAVEQLKTYAELLQAPLE--VCYTKEEFQQAKE-  178 (296)
T ss_dssp             CSSEEEEEESTTSSHHHHHHHHHHHHHHTTC--CCEEEEECCCSSTTHHHHHHHHHTTTTCCCC--BCSSHHHHHHHHH-
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHHHhcC--CEEEEEecCcccchHHHHHHHHHHhcCCCeE--ecCCHHHHHHHHH-
Confidence            3579999999999999999998876621111  2355555432 22333334444444443321  1122333333333 


Q ss_pred             HhccCcEEEEEec
Q 038398          225 ILGKKKFLLLLDD  237 (720)
Q Consensus       225 ~l~~k~~LlVlDd  237 (720)
                      .+ .+.=++|+|-
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

>3bh0_A DNAB-like replicative helicase; ATPase, replication; 2.35A {Bacillus phage SPP1}

Probab=95.43  E-value=0.047  Score=55.22  Aligned_cols=53  Identities=13%  Similarity=0.126  Sum_probs=38.6

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHHHHHh
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKIGRRI  203 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i~~~l  203 (720)
                      .-.++.|.|.+|+||||+|..++.... ..+  ..++|++..  .+..++...+....
T Consensus        67 ~G~l~li~G~pG~GKTtl~l~ia~~~a-~~g--~~vl~~slE--~s~~~l~~R~~~~~  119 (315)
T 3bh0_A           67 RRNFVLIAARPSMGKTAFALKQAKNMS-DND--DVVNLHSLE--MGKKENIKRLIVTA  119 (315)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHHHHH-TTT--CEEEEEESS--SCHHHHHHHHHHHH
T ss_pred             CCcEEEEEeCCCCCHHHHHHHHHHHHH-HcC--CeEEEEECC--CCHHHHHHHHHHHH
Confidence            346899999999999999999987652 222  577887654  56677777766543

>1ly1_A Polynucleotide kinase; PNK, phosphatase, transferase; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.1

Probab=95.42  E-value=0.0084  Score=55.04  Aligned_cols=22  Identities=32%  Similarity=0.320  Sum_probs=20.6

Q ss_pred             eEEEEEcCCCChHHHHHHHHHh
Q 038398          148 GIIGLYGMGGVGKTTLLTKINN  169 (720)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~  169 (720)
                      .+|.|.|++|+||||+|+.+..
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            5789999999999999999987

>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=95.41  E-value=0.014  Score=60.79  Aligned_cols=45  Identities=24%  Similarity=0.203  Sum_probs=35.5

Q ss_pred             CCcCchHHHHHHHHHhc------------------------------CCCceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          127 PTVGLESTFDKVWRCLG------------------------------EEQVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       127 ~~vGr~~~~~~l~~~L~------------------------------~~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      .++|.+..++.|...+.                              ......+.++|++|+|||++|+.+++..
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            46899888888876661                              0123568899999999999999999876

>1kag_A SKI, shikimate kinase I; transferase, structural genomics, PSI, protein structure initiative; 2.05A {Escherichia coli} SCOP: c.37.1.2

Probab=95.41  E-value=0.007  Score=55.24  Aligned_cols=24  Identities=33%  Similarity=0.383  Sum_probs=22.1

Q ss_pred             eEEEEEcCCCChHHHHHHHHHhhh
Q 038398          148 GIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      .+|+|+|++|+||||+++.+....
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            479999999999999999998876

>3trf_A Shikimate kinase, SK; amino acid biosynthesis, transferase; 2.60A {Coxiella burnetii}

Probab=95.41  E-value=0.0082  Score=55.49  Aligned_cols=25  Identities=28%  Similarity=0.373  Sum_probs=22.7

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ...|.|+|++|+||||+|+.+....
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

>1zuh_A Shikimate kinase; alpha-beta protein, transferase; 1.80A {Helicobacter pylori} PDB: 1zui_A* 3hr7_A 3muf_A* 3mrs_A 3n2e_A*

Probab=95.32  E-value=0.0094  Score=54.09  Aligned_cols=26  Identities=27%  Similarity=0.428  Sum_probs=22.7

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ...+|+|.|++|+||||+|+.+....
T Consensus         6 ~~~~i~l~G~~GsGKSTva~~La~~l   31 (168)
T 1zuh_A            6 HMQHLVLIGFMGSGKSSLAQELGLAL   31 (168)
T ss_dssp             --CEEEEESCTTSSHHHHHHHHHHHH
T ss_pred             ccceEEEECCCCCCHHHHHHHHHHHh
Confidence            45789999999999999999999876

>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=95.28  E-value=0.011  Score=55.61  Aligned_cols=27  Identities=33%  Similarity=0.518  Sum_probs=24.1

Q ss_pred             CCceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          145 EQVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       145 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ....+|+|+|++|+||||+++.+....
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            455799999999999999999998876

>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=95.27  E-value=0.13  Score=54.19  Aligned_cols=64  Identities=25%  Similarity=0.332  Sum_probs=45.9

Q ss_pred             HHHHHhcC-CCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcC-CHHHHHHHHHHH
Q 038398          137 KVWRCLGE-EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDL-QLEKIQEKIGRR  202 (720)
Q Consensus       137 ~l~~~L~~-~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~-~~~~~~~~i~~~  202 (720)
                      ++++.+.. ..-..++|+|.+|+|||+|+..+.+...  +.+-+.++|+-++... ...++.+++...
T Consensus       142 r~ID~l~pigkGQr~~Ifgg~G~GKT~L~~~i~~~~~--~~~~~v~V~~~iGER~rEv~e~~~~~~~~  207 (482)
T 2ck3_D          142 KVVDLLAPYAKGGKIGLFGGAGVGKTVLIMELINNVA--KAHGGYSVFAGVGERTREGNDLYHEMIES  207 (482)
T ss_dssp             HHHHHHSCEETTCEEEEEECTTSSHHHHHHHHHHHTT--TTCSSEEEEEEESCCHHHHHHHHHHHHHH
T ss_pred             EEEecccccccCCeeeeecCCCCChHHHHHHHHHhhH--hhCCCEEEEEECCCcchHHHHHHHHhhhc
Confidence            35555543 3447899999999999999999988752  3445677888887643 466777777655

>3rfe_A Platelet glycoprotein IB beta chain; platelet surface receptor, GPIX, cell adhesion; HET: NAG; 1.25A {Homo sapiens} PDB: 3rez_A*

Probab=95.24  E-value=0.029  Score=48.35  Aligned_cols=53  Identities=17%  Similarity=0.266  Sum_probs=33.5

Q ss_pred             EEEecccccc--cCCCCCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCC
Q 038398          498 RMSLMKNKIE--NLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNH  551 (720)
Q Consensus       498 ~L~l~~~~~~--~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~  551 (720)
                      +++.+++.++  .+|.. -.++|+.|+|++|.++.++...|..+++|++|+|++|.
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 LVDCGRRGLTWASLPTA-FPVDTTELVLTGNNLTALPPGLLDALPALRTAHLGANP   66 (130)
T ss_dssp             EEECCSSCCCTTTSCSC-CCTTCSEEECTTSCCSSCCTTTGGGCTTCCEEECCSSC
T ss_pred             EEEeCCCCCccccCCCC-CCcCCCEEECCCCcCCccChhhhhhccccCEEEecCCC
Confidence            4556666665  55432 12357777777777777776667777777777777764

>1nks_A Adenylate kinase; thermophilic, transferase; HET: AMP ADP; 2.57A {Sulfolobus acidocaldarius} SCOP: c.37.1.1

Probab=95.21  E-value=0.011  Score=55.02  Aligned_cols=24  Identities=42%  Similarity=0.576  Sum_probs=22.2

Q ss_pred             eEEEEEcCCCChHHHHHHHHHhhh
Q 038398          148 GIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      .+|.|.|++|+||||+|+.+.+..
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            478999999999999999999887

>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=95.20  E-value=0.08  Score=55.60  Aligned_cols=26  Identities=38%  Similarity=0.307  Sum_probs=23.2

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ...+|.++|++|+||||++..++...
T Consensus        96 ~~~vI~lvG~~GsGKTTt~~kLA~~l  121 (433)
T 3kl4_A           96 LPFIIMLVGVQGSGKTTTAGKLAYFY  121 (433)
T ss_dssp             SSEEEEECCCTTSCHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            35799999999999999999988776

>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=95.19  E-value=0.0078  Score=55.48  Aligned_cols=24  Identities=38%  Similarity=0.486  Sum_probs=21.5

Q ss_pred             eEEEEEcCCCChHHHHHHHHHhhh
Q 038398          148 GIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      +.|.|.||+|+|||||++.+....
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            458899999999999999998775

>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=95.18  E-value=0.046  Score=54.78  Aligned_cols=90  Identities=18%  Similarity=0.182  Sum_probs=48.8

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCH--HHHHHHHHHHhCCCCCc-cCCCChhHH-HHH
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQL--EKIQEKIGRRIGFFDES-WKNGSLEDK-TSD  221 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~--~~~~~~i~~~l~~~~~~-~~~~~~~~~-~~~  221 (720)
                      ...+|+|+|++|+||||++..++.... .  .-..+.++... .+..  .+-+...+...+.+.-. ....+.... ...
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--EGKSVVLAAAD-TFRAAAIEQLKIWGERVGATVISHSEGADPAAVAFDA  178 (306)
T ss_dssp             SCEEEEEECCTTSSHHHHHHHHHHHHH-H--TTCCEEEEEEC-TTCHHHHHHHHHHHHHHTCEEECCSTTCCHHHHHHHH
T ss_pred             CCeEEEEEcCCCChHHHHHHHHHHHHH-h--cCCEEEEEccc-cccHHHHHHHHHHHHHcCCcEEecCCccCHHHHHHHH
Confidence            457999999999999999999987762 1  11235555442 2222  12233445555433211 011222222 223


Q ss_pred             HHHHhccCcEEEEEeccc
Q 038398          222 ILRILGKKKFLLLLDDIW  239 (720)
Q Consensus       222 l~~~l~~k~~LlVlDdv~  239 (720)
                      +...+....-++|+|..-
T Consensus       179 l~~a~~~~~dvvIiDtpg  196 (306)
T 1vma_A          179 VAHALARNKDVVIIDTAG  196 (306)
T ss_dssp             HHHHHHTTCSEEEEEECC
T ss_pred             HHHHHhcCCCEEEEECCC
Confidence            444454555588889653

>3t61_A Gluconokinase; PSI-biology, structural genomics, protein structure initiati YORK structural genomics research consortium, nysgrc; 2.20A {Sinorhizobium meliloti}

Probab=95.18  E-value=0.0085  Score=56.34  Aligned_cols=25  Identities=28%  Similarity=0.426  Sum_probs=22.8

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ..+|+|.|++|+||||+|+.+....
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            4689999999999999999998876

>4eun_A Thermoresistant glucokinase; putative sugar kinase, enzyme function initiative, EFI, STRU genomics, transferase; 1.60A {Janibacter SP}

Probab=95.18  E-value=0.011  Score=55.39  Aligned_cols=26  Identities=23%  Similarity=0.413  Sum_probs=23.3

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ...+|+|+|+.|+|||||++.+....
T Consensus        28 ~g~~i~l~G~~GsGKSTl~~~L~~~~   53 (200)
T 4eun_A           28 PTRHVVVMGVSGSGKTTIAHGVADET   53 (200)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHhh
Confidence            45799999999999999999998775

>2hf9_A Probable hydrogenase nickel incorporation protein HYPB; alpha and beta protein; HET: GSP; 1.90A {Methanocaldococcus jannaschii} PDB: 2hf8_A*

Probab=95.17  E-value=0.015  Score=55.57  Aligned_cols=38  Identities=32%  Similarity=0.385  Sum_probs=29.2

Q ss_pred             HHHHHHHHhcCCCceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          134 TFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       134 ~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ..+.+...+.......|.|+|.+|+|||||+..+....
T Consensus        25 ~a~~~r~~~~~~~~~~i~ivG~~gvGKTtl~~~l~~~~   62 (226)
T 2hf9_A           25 LADKNRKLLNKHGVVAFDFMGAIGSGKTLLIEKLIDNL   62 (226)
T ss_dssp             HHHHHHHHHHHTTCEEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCCeEEEEEcCCCCCHHHHHHHHHHHh
Confidence            34444444444567889999999999999999998875

>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=95.14  E-value=0.1  Score=52.73  Aligned_cols=27  Identities=41%  Similarity=0.555  Sum_probs=23.6

Q ss_pred             CCceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          145 EQVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       145 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ....+|+|+|+.|+||||+++.+....
T Consensus       127 ~~g~vi~lvG~nGaGKTTll~~Lag~l  153 (328)
T 3e70_C          127 EKPYVIMFVGFNGSGKTTTIAKLANWL  153 (328)
T ss_dssp             CSSEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            345799999999999999999988765

>2yvu_A Probable adenylyl-sulfate kinase; transferase, structural genomics, NPPSFA, national P protein structural and functional analyses; 2.10A {Aeropyrum pernix}

Probab=95.13  E-value=0.013  Score=54.09  Aligned_cols=26  Identities=35%  Similarity=0.508  Sum_probs=23.3

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ...+|.|.|++|+||||+++.+....
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            44789999999999999999998876

>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=95.12  E-value=0.012  Score=54.60  Aligned_cols=25  Identities=32%  Similarity=0.365  Sum_probs=22.7

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ..+|.|.|++|+||||+|+.+....
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            4689999999999999999998876

>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=95.10  E-value=0.01  Score=54.58  Aligned_cols=25  Identities=44%  Similarity=0.450  Sum_probs=22.6

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ..+|.|.|++|+||||+|+.+.+..
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            3578899999999999999999876

>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=95.10  E-value=0.012  Score=54.69  Aligned_cols=24  Identities=29%  Similarity=0.386  Sum_probs=22.2

Q ss_pred             eEEEEEcCCCChHHHHHHHHHhhh
Q 038398          148 GIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      .+|.|.|++|+||||+|+.+....
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

>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=95.08  E-value=0.03  Score=59.01  Aligned_cols=90  Identities=19%  Similarity=0.276  Sum_probs=50.7

Q ss_pred             eEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcC-CHHHHHHHHHHHhCCCCC----ccCCCChhH-H---
Q 038398          148 GIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDL-QLEKIQEKIGRRIGFFDE----SWKNGSLED-K---  218 (720)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~-~~~~~~~~i~~~l~~~~~----~~~~~~~~~-~---  218 (720)
                      ..++|+|.+|+|||||+..+.....  ...-+.++++.+++.. ...++..++...-.....    .....+... .   
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            4689999999999999999887651  1122455667776543 344555555432100000    001111111 1   


Q ss_pred             --HHHHHHHh---ccCcEEEEEeccc
Q 038398          219 --TSDILRIL---GKKKFLLLLDDIW  239 (720)
Q Consensus       219 --~~~l~~~l---~~k~~LlVlDdv~  239 (720)
                        .-.+.+++   +++++|+++||+.
T Consensus       230 ~~~ltiAEyFrd~~G~~VLl~~D~it  255 (473)
T 1sky_E          230 LTGLTMAEYFRDEQGQDGLLFIDNIF  255 (473)
T ss_dssp             HHHHHHHHHHHHHSCCEEEEEEECTH
T ss_pred             HHHHHHHHHHHHhcCCcEEEEeccHH
Confidence              11233433   4789999999984

>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=95.08  E-value=0.012  Score=53.67  Aligned_cols=25  Identities=28%  Similarity=0.525  Sum_probs=22.4

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ..+|+|+|++|+||||+++.+....
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

>3tr0_A Guanylate kinase, GMP kinase; purines, pyrimidines, nucleosides, nucleotides, transferase; HET: 5GP; 1.85A {Coxiella burnetii}

Probab=95.07  E-value=0.012  Score=55.47  Aligned_cols=24  Identities=25%  Similarity=0.415  Sum_probs=21.9

Q ss_pred             eEEEEEcCCCChHHHHHHHHHhhh
Q 038398          148 GIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      .+++|+|+.|+|||||++.+....
T Consensus         8 ~ii~l~Gp~GsGKSTl~~~L~~~~   31 (205)
T 3tr0_A            8 NLFIISAPSGAGKTSLVRALVKAL   31 (205)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHS
T ss_pred             cEEEEECcCCCCHHHHHHHHHhhC
Confidence            689999999999999999998764

>2ze6_A Isopentenyl transferase; crown GALL tumor, cytokinin biosynthesis; HET: DST AMP; 2.10A {Agrobacterium tumefaciens} PDB: 2ze5_A* 2ze7_A* 2ze8_A

Probab=95.06  E-value=0.012  Score=57.44  Aligned_cols=24  Identities=25%  Similarity=0.302  Sum_probs=22.2

Q ss_pred             eEEEEEcCCCChHHHHHHHHHhhh
Q 038398          148 GIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      .+|.|.|++|+||||||+.++...
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            478999999999999999999876

>1via_A Shikimate kinase; structural genomics, transferase; HET: MSE; 1.57A {Campylobacter jejuni} SCOP: c.37.1.2

Probab=95.04  E-value=0.01  Score=54.25  Aligned_cols=24  Identities=33%  Similarity=0.448  Sum_probs=21.9

Q ss_pred             eEEEEEcCCCChHHHHHHHHHhhh
Q 038398          148 GIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ..|.|.|++|+||||+|+.+....
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

>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer, structural genomics; HET: ADP; 2.00A {Pyrococcus horikoshii}

Probab=95.02  E-value=0.048  Score=52.77  Aligned_cols=47  Identities=19%  Similarity=0.226  Sum_probs=31.5

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHH
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEK  198 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~  198 (720)
                      -.++.|.|++|+||||||.+++.....   .-..++|++...  ...++.+.
T Consensus        23 G~~~~i~G~~GsGKTtl~~~~~~~~~~---~~~~v~~~~~e~--~~~~~~~~   69 (247)
T 2dr3_A           23 RNVVLLSGGPGTGKTIFSQQFLWNGLK---MGEPGIYVALEE--HPVQVRQN   69 (247)
T ss_dssp             TCEEEEEECTTSSHHHHHHHHHHHHHH---TTCCEEEEESSS--CHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHHh---cCCeEEEEEccC--CHHHHHHH
Confidence            368999999999999999888765411   123577776543  33444433

>3umf_A Adenylate kinase; rossmann fold, transferase; 2.05A {Schistosoma mansoni}

Probab=95.01  E-value=0.014  Score=55.27  Aligned_cols=26  Identities=31%  Similarity=0.373  Sum_probs=24.2

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ..++|.|.|++|+||||.|+.+.+.+
T Consensus        28 k~kiI~llGpPGsGKgTqa~~L~~~~   53 (217)
T 3umf_A           28 KAKVIFVLGGPGSGKGTQCEKLVQKF   53 (217)
T ss_dssp             SCEEEEEECCTTCCHHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            56899999999999999999999887

>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=95.00  E-value=0.014  Score=55.17  Aligned_cols=26  Identities=31%  Similarity=0.300  Sum_probs=23.3

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ...+|+|+|+.|+|||||++.+....
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            34689999999999999999998876

>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=94.99  E-value=0.026  Score=56.26  Aligned_cols=27  Identities=30%  Similarity=0.235  Sum_probs=23.7

Q ss_pred             CCceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          145 EQVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       145 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ....+|+|+|+.|+||||||+.+....
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            356799999999999999999987766

>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=94.98  E-value=0.013  Score=54.28  Aligned_cols=23  Identities=26%  Similarity=0.430  Sum_probs=20.7

Q ss_pred             eEEEEEcCCCChHHHHHHHHHhh
Q 038398          148 GIIGLYGMGGVGKTTLLTKINNK  170 (720)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~  170 (720)
                      .+++|+|+.|+|||||++.+...
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            47899999999999999999763

>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=94.98  E-value=0.013  Score=53.68  Aligned_cols=23  Identities=52%  Similarity=0.647  Sum_probs=21.0

Q ss_pred             EEEEEcCCCChHHHHHHHHHhhh
Q 038398          149 IIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      .++|+|+.|+|||||++.++...
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            58999999999999999998775

>2qor_A Guanylate kinase; phosphotransferase, purine metabolism, structural genomics, structural genomics of pathogenic protozoa consortium; HET: 5GP POP; 1.80A {Plasmodium vivax}

Probab=94.95  E-value=0.012  Score=55.49  Aligned_cols=25  Identities=32%  Similarity=0.531  Sum_probs=22.7

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ..+|.|+|++|+||||+++.+....
T Consensus        12 ~~~i~l~G~sGsGKsTl~~~L~~~~   36 (204)
T 2qor_A           12 IPPLVVCGPSGVGKGTLIKKVLSEF   36 (204)
T ss_dssp             CCCEEEECCTTSCHHHHHHHHHHHC
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHhC
Confidence            4689999999999999999998876

>2c95_A Adenylate kinase 1; transferase, AP4A, nucleotide kinase, transferase ATP-bindi; HET: B4P; 1.71A {Homo sapiens} PDB: 1z83_A* 3adk_A

Probab=94.94  E-value=0.014  Score=54.32  Aligned_cols=26  Identities=38%  Similarity=0.378  Sum_probs=23.3

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ...+|+|.|++|+||||+|+.+.+..
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            34689999999999999999998876

>2wsm_A Hydrogenase expression/formation protein (HYPB); metal binding protein; 2.30A {Archaeoglobus fulgidus}

Probab=94.94  E-value=0.016  Score=55.18  Aligned_cols=40  Identities=23%  Similarity=0.323  Sum_probs=30.8

Q ss_pred             hHHHHHHHHHhcCCCceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          132 ESTFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       132 ~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ++..+.+.+.+......+|+|+|.+|+|||||+..+....
T Consensus        15 ~~~~~~~~~~~~~~~~~~i~i~G~~g~GKTTl~~~l~~~~   54 (221)
T 2wsm_A           15 KRLAEKNREALRESGTVAVNIMGAIGSGKTLLIERTIERI   54 (221)
T ss_dssp             HHHHHHHHHHHHHHTCEEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhcccCceEEEEEcCCCCCHHHHHHHHHHHh
Confidence            3444555555544567899999999999999999998875

>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=94.93  E-value=0.014  Score=53.83  Aligned_cols=24  Identities=29%  Similarity=0.271  Sum_probs=22.1

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhh
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNK  170 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~  170 (720)
                      ...|+|+|++|+||||+++.+.+.
T Consensus        10 ~~~I~l~G~~GsGKSTv~~~La~~   33 (184)
T 1y63_A           10 GINILITGTPGTGKTSMAEMIAAE   33 (184)
T ss_dssp             SCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHh
Confidence            468999999999999999999887

>1tev_A UMP-CMP kinase; ploop, NMP binding region, LID region, conformational changes, transferase; 2.10A {Homo sapiens} SCOP: c.37.1.1

Probab=94.93  E-value=0.015  Score=54.16  Aligned_cols=25  Identities=28%  Similarity=0.296  Sum_probs=22.5

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ..+|+|.|++|+||||+|+.+....
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            3579999999999999999998876

>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=94.92  E-value=0.014  Score=56.74  Aligned_cols=26  Identities=23%  Similarity=0.319  Sum_probs=23.4

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ...+|+|+|+.|+|||||++.+.+..
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

>3rfe_A Platelet glycoprotein IB beta chain; platelet surface receptor, GPIX, cell adhesion; HET: NAG; 1.25A {Homo sapiens} PDB: 3rez_A*

Probab=94.92  E-value=0.043  Score=47.22  Aligned_cols=52  Identities=25%  Similarity=0.330  Sum_probs=31.2

Q ss_pred             EEEccCCCCC-ccCCccccCCCCCCEEeccCCCCcccchh-hhcCCCCCEEeccCC
Q 038398          544 VFNMSNNHLL-WKLPSGISTLVSLEHLDLSSTAITHLPIE-LQKLVNLKCLNLEYM  597 (720)
Q Consensus       544 ~L~L~~~~~~-~~lp~~i~~l~~L~~L~L~~~~i~~lp~~-i~~l~~L~~L~l~~~  597 (720)
                      +++.+++.+. ..+|..+.  .+|++|+|++|.|+.+|.. |..+++|+.|+|.+|
T Consensus        12 ~v~Cs~~~L~~~~vP~~lp--~~l~~L~Ls~N~l~~l~~~~f~~l~~L~~L~L~~N   65 (130)
T 3rfe_A           12 LVDCGRRGLTWASLPTAFP--VDTTELVLTGNNLTALPPGLLDALPALRTAHLGAN   65 (130)
T ss_dssp             EEECCSSCCCTTTSCSCCC--TTCSEEECTTSCCSSCCTTTGGGCTTCCEEECCSS
T ss_pred             EEEeCCCCCccccCCCCCC--cCCCEEECCCCcCCccChhhhhhccccCEEEecCC
Confidence            5566655332 15554432  3567777777777777654 566777777777663

>2jaq_A Deoxyguanosine kinase; transferase, deoxyribonucleoside kinase; HET: DCP; 2.3A {Mycoplasma mycoides subsp} PDB: 2jat_A* 2jas_A*

Probab=94.91  E-value=0.014  Score=54.80  Aligned_cols=23  Identities=39%  Similarity=0.709  Sum_probs=21.6

Q ss_pred             EEEEEcCCCChHHHHHHHHHhhh
Q 038398          149 IIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      .|+|.|+.|+||||+|+.+.+..
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            68999999999999999999887

>1gvn_B Zeta; postsegregational killing system, plasmid; 1.95A {Streptococcus pyogenes} SCOP: c.37.1.21 PDB: 3q8x_B*

Probab=94.90  E-value=0.022  Score=56.75  Aligned_cols=26  Identities=31%  Similarity=0.272  Sum_probs=23.1

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ...+|.|.|++|+||||+|+.+....
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

>1ukz_A Uridylate kinase; transferase; HET: ADP AMP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1uky_A*

Probab=94.88  E-value=0.016  Score=54.40  Aligned_cols=26  Identities=35%  Similarity=0.405  Sum_probs=23.5

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ...+|+|.|++|+||||+|+.+.+..
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            45789999999999999999998875

>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=94.88  E-value=0.014  Score=55.87  Aligned_cols=24  Identities=33%  Similarity=0.498  Sum_probs=22.1

Q ss_pred             eEEEEEcCCCChHHHHHHHHHhhh
Q 038398          148 GIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      .+|+|+|++|+||||+|+.+....
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            589999999999999999998765

>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=94.86  E-value=0.011  Score=54.47  Aligned_cols=24  Identities=29%  Similarity=0.419  Sum_probs=21.9

Q ss_pred             eEEEEEcCCCChHHHHHHHHHhhh
Q 038398          148 GIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      .+|+|.|++|+||||+|+.+....
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            468999999999999999999876

>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=94.85  E-value=0.012  Score=60.46  Aligned_cols=126  Identities=15%  Similarity=0.183  Sum_probs=66.9

Q ss_pred             cCchHHHHHHHHHhcCCCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHHHHHhCCCCC
Q 038398          129 VGLESTFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKIGRRIGFFDE  208 (720)
Q Consensus       129 vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i~~~l~~~~~  208 (720)
                      +|....+..+   +. ..-.+|+|+|+.|+|||||++.+.....   ......+ +.+.+.....  ..   ........
T Consensus       109 lg~~~~l~~l---~~-~~~g~i~I~GptGSGKTTlL~~l~g~~~---~~~~~~i-~t~ed~~e~~--~~---~~~~~v~q  175 (356)
T 3jvv_A          109 LGMGEVFKRV---SD-VPRGLVLVTGPTGSGKSTTLAAMLDYLN---NTKYHHI-LTIEDPIEFV--HE---SKKCLVNQ  175 (356)
T ss_dssp             TTCCHHHHHH---HH-CSSEEEEEECSTTSCHHHHHHHHHHHHH---HHCCCEE-EEEESSCCSC--CC---CSSSEEEE
T ss_pred             cCChHHHHHH---Hh-CCCCEEEEECCCCCCHHHHHHHHHhccc---CCCCcEE-EEccCcHHhh--hh---ccccceee
Confidence            4554444333   22 3345999999999999999999876541   1111122 2222221100  00   00000000


Q ss_pred             ccCCCChhHHHHHHHHHhccCcEEEEEeccccccccccccccCCCCCCCcEEEEEcCChhHh
Q 038398          209 SWKNGSLEDKTSDILRILGKKKFLLLLDDIWERVDLTKVGIPFPDPENKSKIVFTTHFLEIC  270 (720)
Q Consensus       209 ~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~~~~l~~~~~~~~~gs~iiiTtR~~~v~  270 (720)
                      .............+...|...+=+|++|++.+.+.+..+...   ...|..|++||......
T Consensus       176 ~~~~~~~~~~~~~La~aL~~~PdvillDEp~d~e~~~~~~~~---~~~G~~vl~t~H~~~~~  234 (356)
T 3jvv_A          176 REVHRDTLGFSEALRSALREDPDIILVGEMRDLETIRLALTA---AETGHLVFGTLHTTSAA  234 (356)
T ss_dssp             EEBTTTBSCHHHHHHHHTTSCCSEEEESCCCSHHHHHHHHHH---HHTTCEEEEEESCSSHH
T ss_pred             eeeccccCCHHHHHHHHhhhCcCEEecCCCCCHHHHHHHHHH---HhcCCEEEEEEccChHH
Confidence            001112234455788888899999999999865544432221   12366788888765544

>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=94.84  E-value=0.018  Score=60.60  Aligned_cols=46  Identities=22%  Similarity=0.223  Sum_probs=36.3

Q ss_pred             CCCcCchHHHHHHHHHhcC--------------CCceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          126 EPTVGLESTFDKVWRCLGE--------------EQVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~--------------~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ..++|.++.++.+..++..              -..+-|.++|++|+||||+|+.++...
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            3578999888888665521              124568999999999999999999887

>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=94.82  E-value=0.017  Score=54.10  Aligned_cols=26  Identities=31%  Similarity=0.392  Sum_probs=22.9

Q ss_pred             CCceEEEEEcCCCChHHHHHHHHHhh
Q 038398          145 EQVGIIGLYGMGGVGKTTLLTKINNK  170 (720)
Q Consensus       145 ~~~~vi~I~G~gGiGKTtLa~~v~~~  170 (720)
                      ....+|+|.|+.|+||||+|+.+...
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            35678999999999999999999864

>3asz_A Uridine kinase; cytidine phosphorylation, transferase; HET: C5P; 2.25A {Thermus thermophilus} PDB: 3asy_A*

Probab=94.82  E-value=0.016  Score=54.80  Aligned_cols=26  Identities=35%  Similarity=0.442  Sum_probs=23.0

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ...+|+|+|+.|+|||||++.+....
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            34689999999999999999998865

>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=94.82  E-value=0.015  Score=54.71  Aligned_cols=22  Identities=36%  Similarity=0.469  Sum_probs=20.4

Q ss_pred             eEEEEEcCCCChHHHHHHHHHh
Q 038398          148 GIIGLYGMGGVGKTTLLTKINN  169 (720)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~  169 (720)
                      .+|+|+|+.|+||||+++.+..
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

>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=94.82  E-value=0.14  Score=53.63  Aligned_cols=25  Identities=32%  Similarity=0.329  Sum_probs=22.7

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ..+|+|+|++|+||||++..++...
T Consensus        98 ~~vi~i~G~~GsGKTT~~~~LA~~l  122 (425)
T 2ffh_A           98 RNLWFLVGLQGSGKTTTAAKLALYY  122 (425)
T ss_dssp             SEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHH
Confidence            4789999999999999999998877

>3cm0_A Adenylate kinase; ATP-binding, cytoplasm, nucleotide biosynthesis, nucleotide-binding, transferase, structural genomics; 1.80A {Thermus thermophilus}

Probab=94.81  E-value=0.016  Score=53.42  Aligned_cols=24  Identities=25%  Similarity=0.405  Sum_probs=22.0

Q ss_pred             eEEEEEcCCCChHHHHHHHHHhhh
Q 038398          148 GIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ..|+|.|++|+||||+|+.+.+..
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            579999999999999999998876

>4a1f_A DNAB helicase, replicative DNA helicase; hydrolase, DNA replication, ATPase; HET: FLC; 2.50A {Helicobacter pylori}

Probab=94.81  E-value=0.23  Score=50.27  Aligned_cols=52  Identities=13%  Similarity=0.111  Sum_probs=37.5

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHHHHHh
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKIGRRI  203 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i~~~l  203 (720)
                      -.++.|.|.+|+||||+|..++.....   .=..++|++.  ..+..++...++...
T Consensus        46 G~LiiIaG~pG~GKTt~al~ia~~~a~---~g~~Vl~fSl--Ems~~ql~~Rlls~~   97 (338)
T 4a1f_A           46 GSLVIIGARPSMGKTSLMMNMVLSALN---DDRGVAVFSL--EMSAEQLALRALSDL   97 (338)
T ss_dssp             TCEEEEEECTTSCHHHHHHHHHHHHHH---TTCEEEEEES--SSCHHHHHHHHHHHH
T ss_pred             CcEEEEEeCCCCCHHHHHHHHHHHHHH---cCCeEEEEeC--CCCHHHHHHHHHHHh
Confidence            368999999999999999999877621   2235667654  456677777766543

>2j41_A Guanylate kinase; GMP, GMK, transferase, ATP-binding, nucleotide- binding; HET: 5GP; 1.9A {Staphylococcus aureus}

Probab=94.79  E-value=0.015  Score=54.75  Aligned_cols=25  Identities=36%  Similarity=0.349  Sum_probs=22.3

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ..+|+|+|+.|+||||+++.+....
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            3689999999999999999998765

>2bwj_A Adenylate kinase 5; phosphoryl transfer reaction, transferase; HET: AMP; 2.3A {Homo sapiens}

Probab=94.76  E-value=0.016  Score=54.11  Aligned_cols=25  Identities=36%  Similarity=0.359  Sum_probs=22.9

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ..+|+|.|++|+||||+|+.+....
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            3689999999999999999999886

>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=94.76  E-value=0.08  Score=55.90  Aligned_cols=100  Identities=21%  Similarity=0.258  Sum_probs=62.5

Q ss_pred             HHHHhcC-CCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcC-CHHHHHHHHHHHhCCC-------CC
Q 038398          138 VWRCLGE-EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDL-QLEKIQEKIGRRIGFF-------DE  208 (720)
Q Consensus       138 l~~~L~~-~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~-~~~~~~~~i~~~l~~~-------~~  208 (720)
                      +++.|.. ..-..++|.|.+|+|||+|+..+.+...  +.+-+.++|+-++... ...++.+++...=...       ..
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 3346799999999999999999988752  3455778888887654 5667777776542221       00


Q ss_pred             ----ccCCCChh------HHHHHHHHHhc---cCcEEEEEeccc
Q 038398          209 ----SWKNGSLE------DKTSDILRILG---KKKFLLLLDDIW  239 (720)
Q Consensus       209 ----~~~~~~~~------~~~~~l~~~l~---~k~~LlVlDdv~  239 (720)
                          ...+....      ...-.+.++++   ++.+|+++||+-
T Consensus       233 vvV~~t~d~p~~~R~~~~~~altiAEyfrd~~G~dVLl~~Dsit  276 (498)
T 1fx0_B          233 ALVYGQMNEPPGARMRVGLTALTMAEYFRDVNEQDVLLFIDNIF  276 (498)
T ss_dssp             EEEEECTTSCHHHHTTHHHHHHHTHHHHTTTSCCEEEEEEECSH
T ss_pred             EEEEeCCCCCHHHHHHHHHHHHHHHHHHHHhcCCcEEEEeccHH
Confidence                00111111      12233445554   479999999984

>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=94.74  E-value=0.12  Score=51.45  Aligned_cols=89  Identities=18%  Similarity=0.081  Sum_probs=48.6

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCc-CCHHHHHHHHHHHhCCCCCc-cCCCChhHHHHHHHH
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKD-LQLEKIQEKIGRRIGFFDES-WKNGSLEDKTSDILR  224 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~-~~~~~~~~~i~~~l~~~~~~-~~~~~~~~~~~~l~~  224 (720)
                      ..+|+++|.+|+||||++..++....   ..-..+.++..... ......++......+.+.-. ....+..+......+
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 PYVIMLVGVQGTGKTTTAGKLAYFYK---KKGFKVGLVGADVYRPAALEQLQQLGQQIGVPVYGEPGEKDVVGIAKRGVE  174 (297)
T ss_dssp             SEEEEEECSSCSSTTHHHHHHHHHHH---HTTCCEEEEECCCSSSHHHHHHHHHHHHHTCCEECCTTCCCHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHH---HCCCeEEEEecCCCCHHHHHHHHHHhccCCeEEEecCCCCCHHHHHHHHHH
Confidence            57899999999999999999887762   11124556654322 22233344445555443211 012344444444444


Q ss_pred             HhccCcE-EEEEecc
Q 038398          225 ILGKKKF-LLLLDDI  238 (720)
Q Consensus       225 ~l~~k~~-LlVlDdv  238 (720)
                      .++.+.| ++|+|-.
T Consensus       175 ~~~~~~~D~ViIDTp  189 (297)
T 1j8m_F          175 KFLSEKMEIIIVDTA  189 (297)
T ss_dssp             HHHHTTCSEEEEECC
T ss_pred             HHHhCCCCEEEEeCC
Confidence            4542333 7777864

>1lvg_A Guanylate kinase, GMP kinase; transferase; HET: ADP 5GP; 2.10A {Mus musculus} SCOP: c.37.1.1

Probab=94.73  E-value=0.014  Score=54.72  Aligned_cols=24  Identities=38%  Similarity=0.479  Sum_probs=21.7

Q ss_pred             eEEEEEcCCCChHHHHHHHHHhhh
Q 038398          148 GIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ++++|+|+.|+|||||++.+....
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

>4gp7_A Metallophosphoesterase; polynucleotide kinase phosphatase, RNA repair, transferase; HET: ATP CIT; 2.00A {Clostridium thermocellum} PDB: 4gp6_A*

Probab=94.71  E-value=0.015  Score=52.91  Aligned_cols=22  Identities=32%  Similarity=0.484  Sum_probs=19.2

Q ss_pred             ceEEEEEcCCCChHHHHHHHHH
Q 038398          147 VGIIGLYGMGGVGKTTLLTKIN  168 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~  168 (720)
                      -.+++|+|+.|+|||||++.++
T Consensus         9 gei~~l~G~nGsGKSTl~~~~~   30 (171)
T 4gp7_A            9 LSLVVLIGSSGSGKSTFAKKHF   30 (171)
T ss_dssp             SEEEEEECCTTSCHHHHHHHHS
T ss_pred             CEEEEEECCCCCCHHHHHHHHc
Confidence            4689999999999999999643

>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=94.70  E-value=0.015  Score=53.03  Aligned_cols=24  Identities=29%  Similarity=0.329  Sum_probs=22.0

Q ss_pred             eEEEEEcCCCChHHHHHHHHHhhh
Q 038398          148 GIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      .+|.|.|++|+||||+|+.+.+..
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

>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=94.69  E-value=0.018  Score=54.22  Aligned_cols=26  Identities=38%  Similarity=0.586  Sum_probs=22.7

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ...+|+|+|++|+||||+|+.+....
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            34789999999999999999998754

>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=94.69  E-value=0.016  Score=54.61  Aligned_cols=22  Identities=41%  Similarity=0.523  Sum_probs=20.2

Q ss_pred             eEEEEEcCCCChHHHHHHHHHh
Q 038398          148 GIIGLYGMGGVGKTTLLTKINN  169 (720)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~  169 (720)
                      .+|+|.|+.|+||||+++.+..
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

>2vli_A Antibiotic resistance protein; transferase, tunicamycin, phosphotransferase; 1.95A {Deinococcus radiodurans}

Probab=94.66  E-value=0.013  Score=53.83  Aligned_cols=25  Identities=36%  Similarity=0.437  Sum_probs=18.6

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ..+|.|.|++|+||||+|+.+.+..
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            3589999999999999999998876

>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=94.62  E-value=0.019  Score=53.32  Aligned_cols=26  Identities=19%  Similarity=0.321  Sum_probs=23.0

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ..++|+|+|+.|+|||||++.+....
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            34789999999999999999998765

>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=94.62  E-value=0.019  Score=53.25  Aligned_cols=25  Identities=24%  Similarity=0.303  Sum_probs=22.8

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ..+|+|.|++|+||||+|+.+.+..
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            4689999999999999999998876

>1tue_A Replication protein E1; helicase, replication, E1E2 complex, AAA+ protein; 2.10A {Human papillomavirus type 18} SCOP: c.37.1.20

Probab=94.61  E-value=0.029  Score=51.92  Aligned_cols=39  Identities=10%  Similarity=0.095  Sum_probs=29.2

Q ss_pred             HHHHHHHHHhcCC-CceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          133 STFDKVWRCLGEE-QVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       133 ~~~~~l~~~L~~~-~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      .-+..+..++..- ....+.|+|++|+||||+|..+++..
T Consensus        43 ~f~~~l~~~~~~iPkkn~ili~GPPGtGKTt~a~ala~~l   82 (212)
T 1tue_A           43 TFLGALKSFLKGTPKKNCLVFCGPANTGKSYFGMSFIHFI   82 (212)
T ss_dssp             HHHHHHHHHHHTCTTCSEEEEESCGGGCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCCcccEEEEECCCCCCHHHHHHHHHHHh
Confidence            3455566666431 23479999999999999999998886

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli}

Probab=94.61  E-value=0.058  Score=66.80  Aligned_cols=86  Identities=15%  Similarity=0.130  Sum_probs=56.9

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHHHHHhCCCCCcc---CCCChhHHHHHH
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKIGRRIGFFDESW---KNGSLEDKTSDI  222 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i~~~l~~~~~~~---~~~~~~~~~~~l  222 (720)
                      ..++|.|+|++|+|||+||.++.....   ..=..++|+++....+...     ++.++.+.+..   ...+.++....+
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---REGKTCAFIDAEHALDPIY-----ARKLGVDIDNLLCSQPDTGEQALEIC 1497 (2050)
T ss_dssp             TTSEEEEECCTTSSHHHHHHHHHHHHH---TTTCCEEEECTTSCCCHHH-----HHHTTCCTTTCEEECCSSHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHH---HcCCcEEEEEcccccCHHH-----HHHcCCCchhceeecCChHHHHHHHH
Confidence            457999999999999999999987762   2223578888777766555     44555332211   223344555555


Q ss_pred             HHHhc-cCcEEEEEeccc
Q 038398          223 LRILG-KKKFLLLLDDIW  239 (720)
Q Consensus       223 ~~~l~-~k~~LlVlDdv~  239 (720)
                      ....+ .+.-+||+|.+.
T Consensus      1498 ~~lvr~~~~~lVVIDsi~ 1515 (2050)
T 3cmu_A         1498 DALARSGAVDVIVVDSVA 1515 (2050)
T ss_dssp             HHHHHHTCCSEEEESCGG
T ss_pred             HHHHhcCCCCEEEEcChh
Confidence            55544 467799999985

>2plr_A DTMP kinase, probable thymidylate kinase; TMP-binding, ATP-binding, structural GEN NPPSFA; HET: 1PE PGE EPE PG4; 1.60A {Sulfolobus tokodaii}

Probab=94.61  E-value=0.019  Score=54.19  Aligned_cols=24  Identities=25%  Similarity=0.468  Sum_probs=22.5

Q ss_pred             eEEEEEcCCCChHHHHHHHHHhhh
Q 038398          148 GIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      .+|.|.|++|+||||+|+.+.+..
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

>2pt5_A Shikimate kinase, SK; aromatic amino acid biosynthesis, P-loop kinase, SHI kinase, shikimate pathway; 2.10A {Aquifex aeolicus}

Probab=94.61  E-value=0.019  Score=51.93  Aligned_cols=23  Identities=30%  Similarity=0.310  Sum_probs=21.4

Q ss_pred             EEEEEcCCCChHHHHHHHHHhhh
Q 038398          149 IIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      .|+|.|++|+||||+|+.+.+..
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

>2p5t_B PEZT; postsegregational killing system, phosphoryltransferase, HEL helix motif, transcription regulator; 3.20A {Streptococcus pneumoniae}

Probab=94.58  E-value=0.024  Score=55.34  Aligned_cols=26  Identities=35%  Similarity=0.308  Sum_probs=23.3

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ...+|.|+|++|+||||+|+.+....
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            35689999999999999999998876

>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=94.58  E-value=0.019  Score=53.81  Aligned_cols=25  Identities=36%  Similarity=0.352  Sum_probs=22.7

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ..+|.|.|++|+||||+|+.+....
T Consensus        20 ~~~I~l~G~~GsGKST~a~~La~~l   44 (201)
T 2cdn_A           20 HMRVLLLGPPGAGKGTQAVKLAEKL   44 (201)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHh
Confidence            4589999999999999999998876

>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=94.55  E-value=0.022  Score=52.90  Aligned_cols=26  Identities=35%  Similarity=0.502  Sum_probs=23.3

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ...+|+|.|+.|+||||+|+.+.+..
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            45799999999999999999998874

>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=94.55  E-value=0.021  Score=56.09  Aligned_cols=25  Identities=36%  Similarity=0.555  Sum_probs=22.5

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ..+|.|.|++|+||||+|+.+....
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

>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=94.52  E-value=0.022  Score=51.42  Aligned_cols=26  Identities=27%  Similarity=0.316  Sum_probs=23.0

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ...+++|.|+.|+|||||+..+....
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            35789999999999999999998876

>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=94.51  E-value=0.12  Score=66.47  Aligned_cols=79  Identities=27%  Similarity=0.297  Sum_probs=49.4

Q ss_pred             eEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHHHHHhCCCCCccCCCChhHHHHHHHHHhc
Q 038398          148 GIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKIGRRIGFFDESWKNGSLEDKTSDILRILG  227 (720)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~  227 (720)
                      +-|.++|++|+|||++|+.+....   . .+ ..+.++.+...+...+++.+-..+...... ......       -.-.
T Consensus      1268 ~~vLL~GPpGtGKT~la~~~l~~~---~-~~-~~~~infsa~ts~~~~~~~i~~~~~~~~~~-~g~~~~-------P~~~ 1334 (2695)
T 4akg_A         1268 RGIILCGPPGSGKTMIMNNALRNS---S-LY-DVVGINFSKDTTTEHILSALHRHTNYVTTS-KGLTLL-------PKSD 1334 (2695)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHSC---S-SC-EEEEEECCTTCCHHHHHHHHHHHBCCEEET-TTEEEE-------EBSS
T ss_pred             CeEEEECCCCCCHHHHHHHHHhcC---C-CC-ceEEEEeecCCCHHHHHHHHHHHhhhcccc-CCcccc-------CCCC
Confidence            567899999999999998877654   1 22 456677777777777776666655321100 000000       0013


Q ss_pred             cCcEEEEEeccc
Q 038398          228 KKKFLLLLDDIW  239 (720)
Q Consensus       228 ~k~~LlVlDdv~  239 (720)
                      +++.++.+||+.
T Consensus      1335 gk~~VlFiDEin 1346 (2695)
T 4akg_A         1335 IKNLVLFCDEIN 1346 (2695)
T ss_dssp             SSCEEEEEETTT
T ss_pred             CceEEEEecccc
Confidence            678899999974

>2xxa_A Signal recognition particle protein; protein transport, RNA/RNA binding protein, hydrolase, gtpas; HET: GCP; 3.94A {Escherichia coli} PDB: 2j28_9

Probab=94.51  E-value=0.2  Score=52.84  Aligned_cols=26  Identities=31%  Similarity=0.479  Sum_probs=23.3

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ..++|.|+|.+|+||||++..++...
T Consensus        99 ~~~vI~ivG~~GvGKTT~a~~LA~~l  124 (433)
T 2xxa_A           99 PPAVVLMAGLQGAGKTTSVGKLGKFL  124 (433)
T ss_dssp             SSEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            46799999999999999999998776

>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=94.51  E-value=0.032  Score=54.11  Aligned_cols=26  Identities=23%  Similarity=0.225  Sum_probs=23.4

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ...+|+|.|++|+||||+|+.+.+..
T Consensus        28 ~~~~I~l~G~~GsGKsT~a~~L~~~~   53 (243)
T 3tlx_A           28 PDGRYIFLGAPGSGKGTQSLNLKKSH   53 (243)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            55789999999999999999998876

>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=94.48  E-value=0.019  Score=54.12  Aligned_cols=25  Identities=24%  Similarity=0.442  Sum_probs=22.5

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      -.+++|+|+.|+|||||++.+..-.
T Consensus        20 Gei~~l~GpnGsGKSTLl~~l~gl~   44 (207)
T 1znw_A           20 GRVVVLSGPSAVGKSTVVRCLRERI   44 (207)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhhC
Confidence            4689999999999999999998765

>2pbr_A DTMP kinase, thymidylate kinase; transferase, nucleotide biosynthesis, TMP-binding, A binding, structural genomics, NPPSFA; 1.96A {Aquifex aeolicus}

Probab=94.48  E-value=0.02  Score=53.13  Aligned_cols=23  Identities=39%  Similarity=0.593  Sum_probs=21.3

Q ss_pred             EEEEEcCCCChHHHHHHHHHhhh
Q 038398          149 IIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      +|+|.|+.|+||||+|+.+.+..
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            68999999999999999998865

>3fb4_A Adenylate kinase; psychrophIle, phosphotransferase, ATP-binding, nucleotide-binding, transferase; HET: AP5; 2.00A {Marinibacillus marinus}

Probab=94.44  E-value=0.021  Score=54.22  Aligned_cols=23  Identities=39%  Similarity=0.455  Sum_probs=21.0

Q ss_pred             EEEEEcCCCChHHHHHHHHHhhh
Q 038398          149 IIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      .|+|.|++|+||||+|+.+....
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

>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=94.40  E-value=0.024  Score=55.40  Aligned_cols=26  Identities=31%  Similarity=0.396  Sum_probs=23.4

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ...+|+|.|++|+||||+|+.+....
T Consensus        21 ~~~iI~I~G~~GSGKST~a~~L~~~l   46 (252)
T 1uj2_A           21 EPFLIGVSGGTASGKSSVCAKIVQLL   46 (252)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             CcEEEEEECCCCCCHHHHHHHHHHHh
Confidence            45789999999999999999998865

>4e22_A Cytidylate kinase; P-loop, CMP/ATP binding, transferase; 2.32A {Yersinia pseudotuberculosis}

Probab=94.39  E-value=0.022  Score=55.61  Aligned_cols=26  Identities=31%  Similarity=0.434  Sum_probs=23.3

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ...+|+|+|+.|+||||+++.+....
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            34689999999999999999999876

>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=94.38  E-value=0.075  Score=50.75  Aligned_cols=43  Identities=23%  Similarity=0.342  Sum_probs=30.1

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhhcCC--C-CCcCEEEEEEecCc
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKLLGA--P-NVFDVVIWVVVSKD  189 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~--~-~~f~~~~wv~v~~~  189 (720)
                      -.+++|+|++|+|||||++.++......  . ..-..++|+.....
T Consensus        25 G~~~~l~G~nGsGKSTll~~l~g~~~~~~~~g~~~~~~i~~~~~~~   70 (231)
T 4a74_A           25 QAITEVFGEFGSGKTQLAHTLAVMVQLPPEEGGLNGSVIWIDTENT   70 (231)
T ss_dssp             SEEEEEEESTTSSHHHHHHHHHHHTTSCGGGTCCSCEEEEEESSSC
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHhcccccCCCCCEEEEEECCCC
Confidence            4799999999999999999998743110  0 12346788765443

>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=94.36  E-value=0.024  Score=50.76  Aligned_cols=26  Identities=31%  Similarity=0.326  Sum_probs=22.8

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      .-.+++|+|+.|+|||||++.++.-.
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            34689999999999999999998764

>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=94.34  E-value=0.024  Score=57.15  Aligned_cols=27  Identities=33%  Similarity=0.316  Sum_probs=23.6

Q ss_pred             CCceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          145 EQVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       145 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ....+|+|.|+.|+|||||++.+..-.
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            345799999999999999999998765

>1zd8_A GTP:AMP phosphotransferase mitochondrial; ATP:AMP phosphotransferase, myokinase, structural genomics, structural genomics consortium, SGC; 1.48A {Homo sapiens} PDB: 2ak3_A*

Probab=94.34  E-value=0.023  Score=54.51  Aligned_cols=25  Identities=24%  Similarity=0.349  Sum_probs=22.6

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ...|.|.|++|+||||+|+.+.+..
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            4679999999999999999998876

>2wwf_A Thymidilate kinase, putative; transferase, malaria; HET: TMP ADP; 1.89A {Plasmodium falciparum} PDB: 2wwg_A* 2wwh_A* 2wwi_A*

Probab=94.33  E-value=0.024  Score=53.56  Aligned_cols=25  Identities=24%  Similarity=0.210  Sum_probs=22.7

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ..+|+|.|+.|+||||+|+.+.+..
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

>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=94.33  E-value=0.023  Score=53.99  Aligned_cols=23  Identities=35%  Similarity=0.417  Sum_probs=20.9

Q ss_pred             EEEEEcCCCChHHHHHHHHHhhh
Q 038398          149 IIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      .|+|.|++|+||||+|+.+....
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            48899999999999999998776

>3tqc_A Pantothenate kinase; biosynthesis of cofactors, prosthetic groups, carriers, TRAN; HET: ADP; 2.30A {Coxiella burnetii}

Probab=94.32  E-value=0.033  Score=56.13  Aligned_cols=43  Identities=26%  Similarity=0.207  Sum_probs=29.7

Q ss_pred             cCchHHHHHHHHHhcC----CCceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          129 VGLESTFDKVWRCLGE----EQVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       129 vGr~~~~~~l~~~L~~----~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      +|-...+..+...+..    ....+|+|.|+.|+||||+|+.+..-.
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            3444444444443322    245699999999999999999987765

>1z6g_A Guanylate kinase; structural genomics, SGC, structural genom consortium, transferase; HET: EPE; 2.18A {Plasmodium falciparum}

Probab=94.29  E-value=0.018  Score=54.75  Aligned_cols=25  Identities=36%  Similarity=0.547  Sum_probs=22.2

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      -.+++|+|+.|+|||||++.+....
T Consensus        23 G~~~~lvGpsGsGKSTLl~~L~g~~   47 (218)
T 1z6g_A           23 IYPLVICGPSGVGKGTLIKKLLNEF   47 (218)
T ss_dssp             CCCEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhhC
Confidence            3689999999999999999998754

>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=94.28  E-value=0.025  Score=53.82  Aligned_cols=25  Identities=24%  Similarity=0.299  Sum_probs=22.7

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ...|.|.|++|+||||+|+.+.+..
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            3579999999999999999999886

>2jeo_A Uridine-cytidine kinase 1; UCK, transferase, ATP-binding, nucleoside kinase, nucleotide-binding; 2.50A {Homo sapiens} PDB: 2uvq_A*

Probab=94.26  E-value=0.027  Score=54.74  Aligned_cols=26  Identities=35%  Similarity=0.400  Sum_probs=22.9

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ...+|+|.|+.|+|||||++.+....
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            44789999999999999999998754

>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=94.24  E-value=0.026  Score=53.45  Aligned_cols=25  Identities=32%  Similarity=0.369  Sum_probs=22.8

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ..+|+|.|+.|+||||+|+.+.+..
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

>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=94.24  E-value=0.024  Score=57.09  Aligned_cols=40  Identities=20%  Similarity=0.377  Sum_probs=28.9

Q ss_pred             CCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEec
Q 038398          145 EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVS  187 (720)
Q Consensus       145 ~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~  187 (720)
                      ++.+||+|.|-|||||||.+..+.--..+ .+  ..+.-|.+.
T Consensus        46 ~~aKVIAIaGKGGVGKTTtavNLA~aLA~-~G--kkVllID~D   85 (314)
T 3fwy_A           46 TGAKVFAVYGKGGIGKSTTSSNLSAAFSI-LG--KRVLQIGCD   85 (314)
T ss_dssp             -CCEEEEEECSTTSSHHHHHHHHHHHHHH-TT--CCEEEEEES
T ss_pred             CCceEEEEECCCccCHHHHHHHHHHHHHH-CC--CeEEEEecC
Confidence            56799999999999999999887766621 11  235666655

>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=94.15  E-value=0.026  Score=53.62  Aligned_cols=25  Identities=16%  Similarity=0.223  Sum_probs=22.6

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      -.+++|+|+.|+|||||++.+....
T Consensus        16 G~ii~l~GpsGsGKSTLlk~L~g~~   40 (219)
T 1s96_A           16 GTLYIVSAPSGAGKSSLIQALLKTQ   40 (219)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHS
T ss_pred             CcEEEEECCCCCCHHHHHHHHhccC
Confidence            4689999999999999999998765

>1zak_A Adenylate kinase; ATP:AMP-phosphotransferase, transferase; HET: AP5; 3.50A {Zea mays} SCOP: c.37.1.1 g.41.2.1

Probab=94.10  E-value=0.025  Score=54.00  Aligned_cols=25  Identities=24%  Similarity=0.141  Sum_probs=22.7

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ...|.|.|++|+||||+|+.+.+..
T Consensus         5 ~~~I~l~G~~GsGKsT~~~~La~~l   29 (222)
T 1zak_A            5 PLKVMISGAPASGKGTQCELIKTKY   29 (222)
T ss_dssp             SCCEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHh
Confidence            4578999999999999999999887

>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=94.03  E-value=0.029  Score=52.61  Aligned_cols=24  Identities=29%  Similarity=0.393  Sum_probs=22.0

Q ss_pred             eEEEEEcCCCChHHHHHHHHHhhh
Q 038398          148 GIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ..|+|.|+.|+||||+++.+.+..
T Consensus         5 ~~I~l~G~~GsGKsT~~~~L~~~l   28 (204)
T 2v54_A            5 ALIVFEGLDKSGKTTQCMNIMESI   28 (204)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHTS
T ss_pred             cEEEEEcCCCCCHHHHHHHHHHHH
Confidence            579999999999999999998875

>3k1j_A LON protease, ATP-dependent protease LON; ATP-binding, nucleotide-binding, Pro hydrolase; HET: ADP PE8; 2.00A {Thermococcus onnurineus}

Probab=94.01  E-value=0.068  Score=59.44  Aligned_cols=44  Identities=20%  Similarity=0.312  Sum_probs=38.2

Q ss_pred             CCCcCchHHHHHHHHHhcCCCceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          126 EPTVGLESTFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      +.++|.+..++.+...+..+  ..+.|+|++|+||||||+.++...
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            45799999998888888655  588999999999999999999876

>2f1r_A Molybdopterin-guanine dinucleotide biosynthesis protein B (MOBB); structural genomics, PSI, protein structure initiative; 2.10A {Archaeoglobus fulgidus}

Probab=93.99  E-value=0.02  Score=51.93  Aligned_cols=24  Identities=38%  Similarity=0.530  Sum_probs=21.8

Q ss_pred             eEEEEEcCCCChHHHHHHHHHhhh
Q 038398          148 GIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      .+++|+|..|+|||||++.+..-.
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            689999999999999999988765

>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=93.97  E-value=0.016  Score=54.82  Aligned_cols=23  Identities=35%  Similarity=0.712  Sum_probs=21.4

Q ss_pred             EEEEEcCCCChHHHHHHHHHhhh
Q 038398          149 IIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      +|+|.|+.|+||||+|+.+....
T Consensus         2 ~I~i~G~~GsGKsTl~~~L~~~l   24 (214)
T 1gtv_A            2 LIAIEGVDGAGKRTLVEKLSGAF   24 (214)
T ss_dssp             EEEEEEEEEEEHHHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHH
Confidence            68999999999999999998876

>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=93.87  E-value=0.034  Score=50.89  Aligned_cols=25  Identities=32%  Similarity=0.425  Sum_probs=22.3

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ..+|+|.|+.|+||||+++.+....
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            3688999999999999999998865

>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=93.86  E-value=0.033  Score=53.22  Aligned_cols=25  Identities=20%  Similarity=0.391  Sum_probs=22.8

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ..+|+|.|++|+||||+|+.+....
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            3589999999999999999999876

>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=93.80  E-value=0.16  Score=50.61  Aligned_cols=89  Identities=18%  Similarity=0.122  Sum_probs=46.7

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCC-HHHHHHHHHHHhCCCCCcc-CCCChhHHHHHHHH
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQ-LEKIQEKIGRRIGFFDESW-KNGSLEDKTSDILR  224 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~-~~~~~~~i~~~l~~~~~~~-~~~~~~~~~~~l~~  224 (720)
                      ..+++|+|.+|+||||++..++....   ..-..+.++...-... ....+.......+...-.. ...+..+.......
T Consensus        98 ~~~i~i~g~~G~GKTT~~~~la~~~~---~~~~~v~l~~~d~~~~~~~~ql~~~~~~~~l~~~~~~~~~~p~~l~~~~l~  174 (295)
T 1ls1_A           98 RNLWFLVGLQGSGKTTTAAKLALYYK---GKGRRPLLVAADTQRPAAREQLRLLGEKVGVPVLEVMDGESPESIRRRVEE  174 (295)
T ss_dssp             SEEEEEECCTTTTHHHHHHHHHHHHH---HTTCCEEEEECCSSCHHHHHHHHHHHHHHTCCEEECCTTCCHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHH---HcCCeEEEecCCcccHhHHHHHHHhcccCCeEEEEcCCCCCHHHHHHHHHH
Confidence            47899999999999999999987762   1112345554432211 1112333444444332110 12233344333333


Q ss_pred             Hh-ccCcEEEEEecc
Q 038398          225 IL-GKKKFLLLLDDI  238 (720)
Q Consensus       225 ~l-~~k~~LlVlDdv  238 (720)
                      .+ ....=++|+|-.
T Consensus       175 ~~~~~~~D~viiDtp  189 (295)
T 1ls1_A          175 KARLEARDLILVDTA  189 (295)
T ss_dssp             HHHHHTCCEEEEECC
T ss_pred             HHHhCCCCEEEEeCC
Confidence            33 244457888875

>2i3b_A HCR-ntpase, human cancer-related ntpase; AAA, rossmann, hydrolase; NMR {Homo sapiens} SCOP: c.37.1.11

Probab=93.78  E-value=0.029  Score=51.89  Aligned_cols=24  Identities=46%  Similarity=0.517  Sum_probs=21.2

Q ss_pred             eEEEEEcCCCChHHHHHHHHHhhh
Q 038398          148 GIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      .+++|+|+.|+|||||++.++...
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            368999999999999999988765

>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=93.75  E-value=0.037  Score=52.33  Aligned_cols=26  Identities=31%  Similarity=0.422  Sum_probs=23.1

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ...+|.|.|+.|+||||+|+.+....
T Consensus        24 ~~~~i~~~G~~GsGKsT~~~~l~~~l   49 (211)
T 1m7g_A           24 RGLTIWLTGLSASGKSTLAVELEHQL   49 (211)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHh
Confidence            44789999999999999999998775

>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=93.73  E-value=0.035  Score=55.61  Aligned_cols=26  Identities=31%  Similarity=0.511  Sum_probs=23.2

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ...+|+|+|++|+||||+++.++...
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            45799999999999999999998766

>2onk_A Molybdate/tungstate ABC transporter, ATP-binding protein; membrane protein; 3.10A {Archaeoglobus fulgidus} SCOP: c.37.1.12

Probab=93.73  E-value=0.036  Score=53.48  Aligned_cols=26  Identities=27%  Similarity=0.365  Sum_probs=22.9

Q ss_pred             CCceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          145 EQVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       145 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      .. .+++|+|+.|+|||||++.++.-.
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 899999999999999999987654

>2j37_W Signal recognition particle 54 kDa protein (SRP54); ribosome, SRP, translation/RNA; 8.00A {Canis SP} PDB: 1wgw_A

Probab=93.73  E-value=0.35  Score=51.89  Aligned_cols=26  Identities=31%  Similarity=0.445  Sum_probs=22.2

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ...+|.|+|.+|+||||++..+....
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

>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=93.72  E-value=0.035  Score=52.13  Aligned_cols=23  Identities=22%  Similarity=0.466  Sum_probs=21.8

Q ss_pred             EEEEEcCCCChHHHHHHHHHhhh
Q 038398          149 IIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      +|+|.|+.|+||||+|+.+....
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            89999999999999999998876

>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=93.68  E-value=0.038  Score=54.89  Aligned_cols=24  Identities=29%  Similarity=0.695  Sum_probs=21.5

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHh
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINN  169 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~  169 (720)
                      ...+|+|.|++|+||||+|+.+..
T Consensus        74 ~~~iI~I~G~~GSGKSTva~~La~   97 (281)
T 2f6r_A           74 GLYVLGLTGISGSGKSSVAQRLKN   97 (281)
T ss_dssp             TCEEEEEEECTTSCHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHH
Confidence            457899999999999999999983

>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=93.67  E-value=0.04  Score=50.15  Aligned_cols=25  Identities=36%  Similarity=0.570  Sum_probs=22.7

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ..+++|.|+.|+|||||+..+....
T Consensus         6 ~~~i~i~G~sGsGKTTl~~~l~~~l   30 (174)
T 1np6_A            6 IPLLAFAAWSGTGKTTLLKKLIPAL   30 (174)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             ceEEEEEeCCCCCHHHHHHHHHHhc
Confidence            5789999999999999999998775

>3nwj_A ATSK2; P loop, shikimate, nucleoside monophosphate kinase, shikimat ATP binding, chloroplast, transferase; 2.35A {Arabidopsis thaliana}

Probab=93.67  E-value=0.03  Score=54.33  Aligned_cols=24  Identities=38%  Similarity=0.396  Sum_probs=22.4

Q ss_pred             eEEEEEcCCCChHHHHHHHHHhhh
Q 038398          148 GIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      .+|+|+|+.|+||||+++.+....
T Consensus        49 ~~i~l~G~~GsGKSTl~~~La~~l   72 (250)
T 3nwj_A           49 RSMYLVGMMGSGKTTVGKIMARSL   72 (250)
T ss_dssp             CCEEEECSTTSCHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHhc
Confidence            579999999999999999999876

>3d3q_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2; 2.70A {Staphylococcus epidermidis atcc 12228}

Probab=93.67  E-value=0.038  Score=55.90  Aligned_cols=24  Identities=29%  Similarity=0.364  Sum_probs=22.4

Q ss_pred             eEEEEEcCCCChHHHHHHHHHhhh
Q 038398          148 GIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      .+|+|.|+.|+||||||+.++...
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            589999999999999999999886

>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=93.65  E-value=0.037  Score=52.44  Aligned_cols=23  Identities=35%  Similarity=0.193  Sum_probs=21.1

Q ss_pred             EEEEEcCCCChHHHHHHHHHhhh
Q 038398          149 IIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      .|.|.|++|+||||+|+.+.+..
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            47899999999999999998876

>3lnc_A Guanylate kinase, GMP kinase; ALS collaborative crystallography, emerald biostructures, ATP-binding, cytoplasm, nucleotide-binding; HET: 5GP; 1.95A {Anaplasma phagocytophilum}

Probab=93.64  E-value=0.024  Score=54.55  Aligned_cols=25  Identities=32%  Similarity=0.309  Sum_probs=16.5

Q ss_pred             ceEEEEEcCCCChHHHHHHHHH-hhh
Q 038398          147 VGIIGLYGMGGVGKTTLLTKIN-NKL  171 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~-~~~  171 (720)
                      -.+++|+|+.|+|||||++.+. ...
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            3689999999999999999998 554

>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=93.64  E-value=0.04  Score=52.31  Aligned_cols=23  Identities=30%  Similarity=0.368  Sum_probs=20.8

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHh
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINN  169 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~  169 (720)
                      ..+|+|.|+.|+||||+++.+..
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            36899999999999999999976

>3be4_A Adenylate kinase; malaria, cryptosporidium parvum nonprotein inhibitors, nucleotide-binding, transferase; HET: AP5; 1.60A {Cryptosporidium parvum iowa II}

Probab=93.64  E-value=0.038  Score=52.51  Aligned_cols=24  Identities=29%  Similarity=0.263  Sum_probs=22.0

Q ss_pred             eEEEEEcCCCChHHHHHHHHHhhh
Q 038398          148 GIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ..|.|.|++|+||||+|+.+.+..
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            468899999999999999999887

>2xb4_A Adenylate kinase; ATP-binding, nucleotide-binding, transferase; HET: SRT; 1.80A {Desulfovibrio gigas} PDB: 3l0s_A* 3l0p_A*

Probab=93.60  E-value=0.039  Score=52.71  Aligned_cols=23  Identities=30%  Similarity=0.404  Sum_probs=21.2

Q ss_pred             EEEEEcCCCChHHHHHHHHHhhh
Q 038398          149 IIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      .|.|.|++|+||||+|+.+....
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            58899999999999999998876

>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=93.59  E-value=0.065  Score=53.98  Aligned_cols=27  Identities=30%  Similarity=0.273  Sum_probs=23.6

Q ss_pred             CCceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          145 EQVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       145 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ....+|+|.|+.|+|||||++.+....
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            345799999999999999999998765

>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=93.49  E-value=0.032  Score=53.67  Aligned_cols=26  Identities=27%  Similarity=0.391  Sum_probs=22.1

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      .-.+++|+|+.|+|||||++.+..-.
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            34689999999999999999887544

>3b85_A Phosphate starvation-inducible protein; PHOH2, ATPase, PFAM: PF02562, ST genomics, PSI-2, protein structure initiative; 2.35A {Corynebacterium glutamicum atcc 13032}

Probab=93.48  E-value=0.033  Score=52.46  Aligned_cols=23  Identities=30%  Similarity=0.231  Sum_probs=20.6

Q ss_pred             eEEEEEcCCCChHHHHHHHHHhh
Q 038398          148 GIIGLYGMGGVGKTTLLTKINNK  170 (720)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~  170 (720)
                      .+++|+|+.|+|||||++.++.-
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            58999999999999999998754

>2pcj_A ABC transporter, lipoprotein-releasing system ATP-binding protein; structural genomics; 1.70A {Aquifex aeolicus} PDB: 2pcl_A

Probab=93.47  E-value=0.033  Score=53.16  Aligned_cols=25  Identities=28%  Similarity=0.352  Sum_probs=21.7

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      -.+++|+|+.|+|||||++.++.-.
T Consensus        30 Ge~~~iiG~nGsGKSTLl~~l~Gl~   54 (224)
T 2pcj_A           30 GEFVSIIGASGSGKSTLLYILGLLD   54 (224)
T ss_dssp             TCEEEEEECTTSCHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcCC
Confidence            3689999999999999999987543

>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=93.42  E-value=0.048  Score=52.45  Aligned_cols=25  Identities=28%  Similarity=0.242  Sum_probs=22.8

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ...|.|.|++|+||||+|+.+.+..
T Consensus        16 ~~~I~l~G~~GsGKsT~a~~La~~l   40 (233)
T 1ak2_A           16 GVRAVLLGPPGAGKGTQAPKLAKNF   40 (233)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHh
Confidence            3579999999999999999999887

>1a7j_A Phosphoribulokinase; transferase, calvin cycle; 2.50A {Rhodobacter sphaeroides} SCOP: c.37.1.6

Probab=93.36  E-value=0.028  Score=56.07  Aligned_cols=26  Identities=23%  Similarity=0.418  Sum_probs=20.0

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      +..+|+|.|+.|+||||+|+.+.+..
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            45689999999999999999998765

>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=93.35  E-value=0.25  Score=45.63  Aligned_cols=20  Identities=15%  Similarity=0.205  Sum_probs=13.7

Q ss_pred             HHHhcCCCCCceeEEEecch
Q 038398          643 VEELMGMKHLMVLTITLKSW  662 (720)
Q Consensus       643 ~~~l~~l~~L~~L~~~~~~~  662 (720)
                      ...+...+.|..|++.++..
T Consensus       150 a~aL~~N~tL~~L~l~~~~~  169 (197)
T 1pgv_A          150 MMAIEENESLLRVGISFASM  169 (197)
T ss_dssp             HHHHHHCSSCCEEECCCCCH
T ss_pred             HHHHHhCCCcCeEeccCCCc
Confidence            44566777888888876654

>3crm_A TRNA delta(2)-isopentenylpyrophosphate transferase; ATP-binding, nucleotide-binding, nucleotidyltransferase, tRNA processing; 1.90A {Pseudomonas aeruginosa} PDB: 3crq_A 3crr_A

Probab=93.33  E-value=0.046  Score=54.88  Aligned_cols=24  Identities=33%  Similarity=0.366  Sum_probs=22.3

Q ss_pred             eEEEEEcCCCChHHHHHHHHHhhh
Q 038398          148 GIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      .+|.|+|+.|+||||||+.++...
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            589999999999999999999886

>2q6t_A DNAB replication FORK helicase; hydrolase; 2.90A {Thermus aquaticus}

Probab=93.26  E-value=0.25  Score=52.52  Aligned_cols=52  Identities=10%  Similarity=-0.061  Sum_probs=36.6

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHHHHH
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKIGRR  202 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i~~~  202 (720)
                      -.++.|.|.+|+||||+|..++.....  ..=..++|++..  .+..++...++..
T Consensus       200 G~l~ii~G~pg~GKT~lal~ia~~~a~--~~g~~vl~~slE--~~~~~l~~R~~~~  251 (444)
T 2q6t_A          200 GSLNIIAARPAMGKTAFALTIAQNAAL--KEGVGVGIYSLE--MPAAQLTLRMMCS  251 (444)
T ss_dssp             TCEEEEEECTTSCHHHHHHHHHHHHHH--TTCCCEEEEESS--SCHHHHHHHHHHH
T ss_pred             CcEEEEEeCCCCCHHHHHHHHHHHHHH--hCCCeEEEEECC--CCHHHHHHHHHHH
Confidence            468999999999999999998877621  111357776554  4566777776544

>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=93.15  E-value=0.039  Score=53.14  Aligned_cols=26  Identities=23%  Similarity=0.517  Sum_probs=22.3

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      .-.+++|+|+.|+|||||++.+..-.
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            34689999999999999999987653

>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=93.14  E-value=0.053  Score=53.91  Aligned_cols=24  Identities=25%  Similarity=0.440  Sum_probs=22.1

Q ss_pred             eEEEEEcCCCChHHHHHHHHHhhh
Q 038398          148 GIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      .+|.|.|+.|+||||||..++...
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            588999999999999999998876

>3b9q_A Chloroplast SRP receptor homolog, alpha subunit CPFTSY; protein translocation, GTP-binding, nucleotide-binding, protein transport; 1.75A {Arabidopsis thaliana}

Probab=93.14  E-value=0.051  Score=54.40  Aligned_cols=26  Identities=38%  Similarity=0.598  Sum_probs=23.0

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ...+++|+|+.|+||||+++.++...
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            34799999999999999999998765

>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=93.13  E-value=0.094  Score=53.97  Aligned_cols=37  Identities=24%  Similarity=0.366  Sum_probs=28.5

Q ss_pred             HHHHHHHhc--CCCceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          135 FDKVWRCLG--EEQVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       135 ~~~l~~~L~--~~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ..++.+.+.  .....+|+|+|.+|+|||||+..+....
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            444455453  3467899999999999999999988765

>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=93.10  E-value=0.041  Score=54.26  Aligned_cols=25  Identities=36%  Similarity=0.573  Sum_probs=21.7

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      -.+++|+|+.|+|||||++.+.--.
T Consensus        34 Ge~~~iiGpnGsGKSTLl~~l~Gl~   58 (275)
T 3gfo_A           34 GEVTAILGGNGVGKSTLFQNFNGIL   58 (275)
T ss_dssp             TSEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCCCHHHHHHHHHcCC
Confidence            3689999999999999999987543

>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=93.07  E-value=0.31  Score=52.77  Aligned_cols=53  Identities=11%  Similarity=0.006  Sum_probs=37.4

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHHHHHh
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKIGRRI  203 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i~~~l  203 (720)
                      -.++.|.|.+|+||||||..++.... . .+=..++|++.  ..+..++...++...
T Consensus       242 G~l~li~G~pG~GKT~lal~~a~~~a-~-~~g~~vl~~s~--E~s~~~l~~r~~~~~  294 (503)
T 1q57_A          242 GEVIMVTSGSGMVMSTFVRQQALQWG-T-AMGKKVGLAML--EESVEETAEDLIGLH  294 (503)
T ss_dssp             TCEEEEEESSCHHHHHHHHHHHHHHT-T-TSCCCEEEEES--SSCHHHHHHHHHHHH
T ss_pred             CeEEEEeecCCCCchHHHHHHHHHHH-H-hcCCcEEEEec--cCCHHHHHHHHHHHH
Confidence            46889999999999999999988772 1 11235777765  345667777665443

>1b0u_A Histidine permease; ABC transporter, transport protein; HET: ATP; 1.50A {Salmonella typhimurium} SCOP: c.37.1.12

Probab=93.06  E-value=0.042  Score=53.87  Aligned_cols=26  Identities=35%  Similarity=0.437  Sum_probs=22.2

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      .-.+++|+|+.|+|||||++.++.-.
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            34689999999999999999987543

>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=93.04  E-value=0.064  Score=56.04  Aligned_cols=101  Identities=12%  Similarity=0.121  Sum_probs=57.3

Q ss_pred             HHHHhcC-CCceEEEEEcCCCChHHHHHHHHHhhhcCCC-CCcC-EEEEEEecCc-CCHHHHHHHHHHHhCCCCC----c
Q 038398          138 VWRCLGE-EQVGIIGLYGMGGVGKTTLLTKINNKLLGAP-NVFD-VVIWVVVSKD-LQLEKIQEKIGRRIGFFDE----S  209 (720)
Q Consensus       138 l~~~L~~-~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~-~~f~-~~~wv~v~~~-~~~~~~~~~i~~~l~~~~~----~  209 (720)
                      .++.+.. ..-..++|.|..|+|||+|+.++.+.. ... ++-+ .++++-++.. ....++.+++...=.....    .
T Consensus       141 aID~l~pigrGQr~~Ifgg~G~GKt~L~~~Ia~~~-~~~~d~~~~~~V~~~iGeR~~Ev~e~~~~~~~~g~~~rtvvV~a  219 (465)
T 3vr4_D          141 AIDHLNTLVRGQKLPVFSGSGLPHKELAAQIARQA-TVLDSSDDFAVVFAAIGITFEEAEFFMEDFRQTGAIDRSVMFMN  219 (465)
T ss_dssp             HHHTTSCCBTTCBCCEEECTTSCHHHHHHHHHHHC-BCSSCSSCEEEEEEEEEECHHHHHHHHHHHHHHTGGGGEEEEEE
T ss_pred             EEecccccccCCEEEEeCCCCcChHHHHHHHHHHH-HhccCCCceEEEEEEecCCcHHHHHHHHHHhhcCCccceEEEEE
Confidence            3444433 233568899999999999999998876 221 1112 6677777654 4566666666543111100    0


Q ss_pred             cCCCChhH------HHHHHHHHhc---cCcEEEEEeccc
Q 038398          210 WKNGSLED------KTSDILRILG---KKKFLLLLDDIW  239 (720)
Q Consensus       210 ~~~~~~~~------~~~~l~~~l~---~k~~LlVlDdv~  239 (720)
                      ..+.....      ..-.+.+++.   ++.+|+++||+-
T Consensus       220 tsd~p~~~r~~a~~~a~tiAEyfrd~~G~~VLl~~DslT  258 (465)
T 3vr4_D          220 LANDPAIERIATPRMALTAAEYLAYEKGMHVLVIMTDMT  258 (465)
T ss_dssp             ETTSCHHHHHHHHHHHHHHHHHHHHTTCCEEEEEEECHH
T ss_pred             CCCCCHHHHHHHHHHHHHHHHHHHHhcCCeEEEEEcChH
Confidence            01111111      1123445554   689999999984

>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=93.02  E-value=0.05  Score=52.93  Aligned_cols=24  Identities=29%  Similarity=0.379  Sum_probs=21.6

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhh
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNK  170 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~  170 (720)
                      -.+++|+|+.|+|||||++.++.-
T Consensus        29 Ge~~~l~G~nGsGKSTLlk~l~Gl   52 (250)
T 2d2e_A           29 GEVHALMGPNGAGKSTLGKILAGD   52 (250)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHTC
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            368999999999999999999874

>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=93.02  E-value=0.053  Score=50.19  Aligned_cols=25  Identities=32%  Similarity=0.473  Sum_probs=22.0

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      .-.|+|+|..|+|||||++.+....
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

>3a8t_A Adenylate isopentenyltransferase; rossmann fold protein; HET: ATP; 2.37A {Humulus lupulus}

Probab=92.93  E-value=0.054  Score=54.55  Aligned_cols=25  Identities=24%  Similarity=0.430  Sum_probs=22.8

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ..+|.|+|+.|+||||||..++...
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            3689999999999999999999876

>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=92.93  E-value=0.038  Score=52.20  Aligned_cols=25  Identities=40%  Similarity=0.642  Sum_probs=21.7

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      -.+++|+|+.|+|||||++.++.-.
T Consensus        35 Ge~~~iiG~NGsGKSTLlk~l~Gl~   59 (214)
T 1sgw_A           35 GNVVNFHGPNGIGKTTLLKTISTYL   59 (214)
T ss_dssp             TCCEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcCC
Confidence            3689999999999999999987654

>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=92.92  E-value=0.045  Score=53.75  Aligned_cols=25  Identities=32%  Similarity=0.541  Sum_probs=22.0

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      -.+++|+|+.|+|||||++.+..-.
T Consensus        37 Ge~~~liG~nGsGKSTLl~~l~Gl~   61 (266)
T 4g1u_C           37 GEMVAIIGPNGAGKSTLLRLLTGYL   61 (266)
T ss_dssp             TCEEEEECCTTSCHHHHHHHHTSSS
T ss_pred             CCEEEEECCCCCcHHHHHHHHhcCC
Confidence            4689999999999999999987654

>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=92.91  E-value=0.053  Score=53.29  Aligned_cols=25  Identities=24%  Similarity=0.426  Sum_probs=22.1

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhh
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNK  170 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~  170 (720)
                      .-.+++|+|+.|+|||||++.++.-
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            3468999999999999999999874

>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=92.90  E-value=0.046  Score=52.36  Aligned_cols=25  Identities=36%  Similarity=0.526  Sum_probs=22.1

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      -.+++|+|+.|+|||||++.++.-.
T Consensus        34 Ge~~~i~G~nGsGKSTLl~~l~Gl~   58 (229)
T 2pze_A           34 GQLLAVAGSTGAGKTSLLMMIMGEL   58 (229)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCC
Confidence            3689999999999999999997654

>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=92.89  E-value=0.046  Score=53.52  Aligned_cols=26  Identities=27%  Similarity=0.351  Sum_probs=22.3

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      .-.+++|+|+.|+|||||++.++.-.
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            34689999999999999999987543

>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=92.89  E-value=0.098  Score=50.04  Aligned_cols=25  Identities=32%  Similarity=0.566  Sum_probs=23.2

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ...|.|.|++|+||||+++.+.+..
T Consensus        26 g~~i~i~G~~GsGKsT~~~~l~~~l   50 (229)
T 4eaq_A           26 SAFITFEGPEGSGKTTVINEVYHRL   50 (229)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CeEEEEEcCCCCCHHHHHHHHHHHH
Confidence            4689999999999999999999988

>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=92.87  E-value=0.046  Score=52.82  Aligned_cols=25  Identities=40%  Similarity=0.539  Sum_probs=21.8

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      -.+++|+|+.|+|||||++.++.-.
T Consensus        32 Ge~~~l~G~nGsGKSTLl~~l~Gl~   56 (240)
T 1ji0_A           32 GQIVTLIGANGAGKTTTLSAIAGLV   56 (240)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCC
Confidence            3689999999999999999987654

>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=92.86  E-value=0.097  Score=56.03  Aligned_cols=41  Identities=29%  Similarity=0.455  Sum_probs=31.2

Q ss_pred             CchHHHHHHHHHhcCCCceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          130 GLESTFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       130 Gr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      +....++.+..++..+. +.+.|.|++|+||||++..+....
T Consensus        29 ~Q~~av~~~~~~i~~~~-~~~li~G~aGTGKT~ll~~~~~~l   69 (459)
T 3upu_A           29 GQKNAFNIVMKAIKEKK-HHVTINGPAGTGATTLTKFIIEAL   69 (459)
T ss_dssp             HHHHHHHHHHHHHHSSS-CEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCC-CEEEEEeCCCCCHHHHHHHHHHHH
Confidence            44455566666665433 489999999999999999998876

>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=92.83  E-value=0.046  Score=53.40  Aligned_cols=25  Identities=32%  Similarity=0.430  Sum_probs=21.9

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      -.+++|+|+.|+|||||++.++.-.
T Consensus        33 Ge~~~liG~nGsGKSTLlk~l~Gl~   57 (257)
T 1g6h_A           33 GDVTLIIGPNGSGKSTLINVITGFL   57 (257)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCC
Confidence            3689999999999999999987654

>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=92.82  E-value=0.05  Score=52.68  Aligned_cols=26  Identities=27%  Similarity=0.423  Sum_probs=22.2

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      .-.+++|+|+.|+|||||++.++.-.
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            34689999999999999999987543

>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=92.82  E-value=0.097  Score=55.58  Aligned_cols=26  Identities=35%  Similarity=0.520  Sum_probs=23.0

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ...+|+|+|+.|+|||||++.++...
T Consensus       292 ~GeVI~LVGpNGSGKTTLl~~LAgll  317 (503)
T 2yhs_A          292 APFVILMVGVNGVGKTTTIGKLARQF  317 (503)
T ss_dssp             TTEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCcccHHHHHHHHHHHh
Confidence            35699999999999999999998765

>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=92.78  E-value=0.048  Score=52.90  Aligned_cols=25  Identities=36%  Similarity=0.513  Sum_probs=21.8

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      -.+++|+|+.|+|||||++.++.-.
T Consensus        35 Ge~~~i~G~nGsGKSTLl~~l~Gl~   59 (247)
T 2ff7_A           35 GEVIGIVGRSGSGKSTLTKLIQRFY   59 (247)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcCC
Confidence            3689999999999999999987654

>3l0o_A Transcription termination factor RHO; helicase, RHO factor, RNA capture mechanism, ATP-binding, hydrolase, nucleotide-binding, RN binding; 2.35A {Thermotoga maritima}

Probab=92.77  E-value=0.23  Score=50.68  Aligned_cols=53  Identities=15%  Similarity=0.129  Sum_probs=34.7

Q ss_pred             HHHHHHhcC-CCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCc
Q 038398          136 DKVWRCLGE-EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKD  189 (720)
Q Consensus       136 ~~l~~~L~~-~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~  189 (720)
                      -++++.+.. ..-..++|+|.+|+|||+|++.+.+........+ .++++-+++.
T Consensus       163 iraID~l~PigrGQR~lIfg~~g~GKT~Ll~~Ia~~i~~~~~dv-~~V~~lIGER  216 (427)
T 3l0o_A          163 TRLIDLFAPIGKGQRGMIVAPPKAGKTTILKEIANGIAENHPDT-IRIILLIDER  216 (427)
T ss_dssp             HHHHHHHSCCBTTCEEEEEECTTCCHHHHHHHHHHHHHHHCTTS-EEEEEECSCC
T ss_pred             chhhhhcccccCCceEEEecCCCCChhHHHHHHHHHHhhcCCCe-EEEEEEeccC
Confidence            356666654 3446899999999999999998887641101122 2356666543

>2eyu_A Twitching motility protein PILT; pilus retraction motor, C-terminal domain PILT, protein transport; 1.87A {Aquifex aeolicus}

Probab=92.74  E-value=0.061  Score=52.60  Aligned_cols=113  Identities=12%  Similarity=0.137  Sum_probs=56.5

Q ss_pred             CCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHHHHHhCCCCCccCCCChhHHHHHHHH
Q 038398          145 EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKIGRRIGFFDESWKNGSLEDKTSDILR  224 (720)
Q Consensus       145 ~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~  224 (720)
                      ..-.+++|+|+.|+|||||++.+.....   ..+...+++.- .....  +.+.. ..+ ..... -..+.......+..
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--VFKHK-KSI-VNQRE-VGEDTKSFADALRA   93 (261)
T ss_dssp             CSSEEEEEECSTTCSHHHHHHHHHHHHH---HHCCCEEEEEE-SSCCS--CCCCS-SSE-EEEEE-BTTTBSCHHHHHHH
T ss_pred             CCCCEEEEECCCCccHHHHHHHHHHhCC---CCCCCEEEEcC-Cccee--ecCCc-cee-eeHHH-hCCCHHHHHHHHHH
Confidence            3447999999999999999999876541   11122332221 11000  00000 000 00000 00011233456666


Q ss_pred             HhccCcEEEEEeccccccccccccccCCCCCCCcEEEEEcCChhH
Q 038398          225 ILGKKKFLLLLDDIWERVDLTKVGIPFPDPENKSKIVFTTHFLEI  269 (720)
Q Consensus       225 ~l~~k~~LlVlDdv~~~~~~~~l~~~~~~~~~gs~iiiTtR~~~v  269 (720)
                      .+..++=+|++|+.-+.+........   ...|.-|++||....+
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            67667778999998644332222111   1236678888876543

>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=92.72  E-value=0.065  Score=53.15  Aligned_cols=25  Identities=32%  Similarity=0.316  Sum_probs=22.8

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ..+|.|.|+.|+||||||..++...
T Consensus        10 ~~~i~i~GptgsGKt~la~~La~~~   34 (316)
T 3foz_A           10 PKAIFLMGPTASGKTALAIELRKIL   34 (316)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHHHS
T ss_pred             CcEEEEECCCccCHHHHHHHHHHhC
Confidence            4689999999999999999999876

>3f9v_A Minichromosome maintenance protein MCM; replicative helicase, DNA replication, MCM complex, AAA+ Pro ATP-binding, DNA-binding, helicase; 4.35A {Sulfolobus solfataricus}

Probab=92.71  E-value=0.035  Score=61.45  Aligned_cols=46  Identities=17%  Similarity=0.038  Sum_probs=33.1

Q ss_pred             CCCcCchHHHHHHHHHhcCCCce-----------EEEEEcCCCChHHHHHHHHHhhh
Q 038398          126 EPTVGLESTFDKVWRCLGEEQVG-----------IIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~~~-----------vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      +.++|.+..+..+...+..+..+           -|.++|++|+|||+||+.+++..
T Consensus       295 ~~I~G~e~vk~al~~~l~~g~~~~~~~~~~r~~~~vLL~GppGtGKT~LAr~la~~~  351 (595)
T 3f9v_A          295 PSIYGHWELKEALALALFGGVPKVLEDTRIRGDIHILIIGDPGTAKSQMLQFISRVA  351 (595)
T ss_dssp             STTSCCHHHHHHHTTTTTCCCCEETTTTEECCSCCEEEEESSCCTHHHHHHSSSTTC
T ss_pred             chhcChHHHHHHHHHHHhCCCcccccCCCcCCCcceEEECCCchHHHHHHHHHHHhC
Confidence            34578887666665555433211           58899999999999999988765

>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=92.71  E-value=0.057  Score=53.90  Aligned_cols=26  Identities=19%  Similarity=0.289  Sum_probs=22.7

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      .-.+++|+|+.|+|||||++.+..-.
T Consensus       125 ~Ge~vaIvGpsGsGKSTLl~lL~gl~  150 (305)
T 2v9p_A          125 KKNCLAFIGPPNTGKSMLCNSLIHFL  150 (305)
T ss_dssp             TCSEEEEECSSSSSHHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhhhc
Confidence            44789999999999999999987654

>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=92.70  E-value=0.05  Score=53.00  Aligned_cols=26  Identities=42%  Similarity=0.579  Sum_probs=22.3

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      .-.+++|+|+.|+|||||++.++.-.
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            34689999999999999999987643

>2dyk_A GTP-binding protein; GTPase, ribosome-binding protein, structural genomics; HET: GDP; 1.96A {Thermus thermophilus}

Probab=92.68  E-value=0.068  Score=47.52  Aligned_cols=24  Identities=25%  Similarity=0.400  Sum_probs=21.1

Q ss_pred             eEEEEEcCCCChHHHHHHHHHhhh
Q 038398          148 GIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ..|.|+|.+|+|||||+..+....
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            468999999999999999998753

>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=92.60  E-value=0.064  Score=53.79  Aligned_cols=23  Identities=35%  Similarity=0.352  Sum_probs=21.1

Q ss_pred             eEEEEEcCCCChHHHHHHHHHhh
Q 038398          148 GIIGLYGMGGVGKTTLLTKINNK  170 (720)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~  170 (720)
                      .+|.|.|++|+||||+|+.+...
T Consensus         3 ~~I~l~G~~GsGKST~a~~L~~~   25 (301)
T 1ltq_A            3 KIILTIGCPGSGKSTWAREFIAK   25 (301)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHh
Confidence            57899999999999999999875

>2ghi_A Transport protein; multidrug resistance protein, MDR, structural genomics, structural genomics consortium, SGC; 2.20A {Plasmodium yoelii yoelii str}

Probab=92.60  E-value=0.052  Score=53.10  Aligned_cols=26  Identities=23%  Similarity=0.247  Sum_probs=22.4

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      .-.+++|+|+.|+|||||++.+..-.
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            34689999999999999999987654

>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=92.55  E-value=0.055  Score=52.50  Aligned_cols=25  Identities=36%  Similarity=0.541  Sum_probs=22.0

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      -.+++|+|+.|+|||||++.++.-.
T Consensus        26 Ge~~~liG~NGsGKSTLlk~l~Gl~   50 (249)
T 2qi9_C           26 GEILHLVGPNGAGKSTLLARMAGMT   50 (249)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCCcHHHHHHHHhCCC
Confidence            3689999999999999999987654

>2ixe_A Antigen peptide transporter 1; ABC ATPase, hydrolase; HET: ATP; 2.0A {Rattus norvegicus} PDB: 2ixg_A* 2ixf_A* 1jj7_A*

Probab=92.54  E-value=0.053  Score=53.39  Aligned_cols=26  Identities=27%  Similarity=0.381  Sum_probs=22.4

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      .-.+++|+|+.|+|||||++.++.-.
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            34689999999999999999987654

>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=92.52  E-value=0.069  Score=49.15  Aligned_cols=24  Identities=21%  Similarity=0.181  Sum_probs=21.8

Q ss_pred             eEEEEEcCCCChHHHHHHHHHhhh
Q 038398          148 GIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ..|.|.|++|+||||||..+..+.
T Consensus        35 ~~ilI~GpsGsGKStLA~~La~~g   58 (205)
T 2qmh_A           35 LGVLITGDSGVGKSETALELVQRG   58 (205)
T ss_dssp             EEEEEECCCTTTTHHHHHHHHTTT
T ss_pred             EEEEEECCCCCCHHHHHHHHHHhC
Confidence            678999999999999999998775

>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=92.51  E-value=0.068  Score=49.81  Aligned_cols=25  Identities=32%  Similarity=0.473  Sum_probs=21.7

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      .-.|+|+|.+|+|||||++.+....
T Consensus         5 ~~kv~lvG~~g~GKSTLl~~l~~~~   29 (199)
T 2f9l_A            5 LFKVVLIGDSGVGKSNLLSRFTRNE   29 (199)
T ss_dssp             EEEEEEESSTTSSHHHHHHHHHHSC
T ss_pred             eEEEEEECcCCCCHHHHHHHHhcCC
Confidence            3568999999999999999998763

>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=92.47  E-value=0.065  Score=48.15  Aligned_cols=23  Identities=30%  Similarity=0.455  Sum_probs=20.7

Q ss_pred             eEEEEEcCCCChHHHHHHHHHhh
Q 038398          148 GIIGLYGMGGVGKTTLLTKINNK  170 (720)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~  170 (720)
                      ..|+|+|.+|+|||||...+...
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

>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=92.47  E-value=0.065  Score=56.48  Aligned_cols=27  Identities=19%  Similarity=0.283  Sum_probs=23.8

Q ss_pred             CCceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          145 EQVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       145 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ....+|.|+|++|+||||+|+.+..+.
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

>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=92.42  E-value=0.12  Score=55.57  Aligned_cols=45  Identities=11%  Similarity=-0.085  Sum_probs=33.2

Q ss_pred             CCcCchHHHHHHHHHhc--CCCceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          127 PTVGLESTFDKVWRCLG--EEQVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       127 ~~vGr~~~~~~l~~~L~--~~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      +.+.|.+..+.+.+...  .....+|.+.|++|+||||+|+.+....
T Consensus       373 ~~f~rpeV~~vLr~~~~~~~~~~~~I~l~GlsGsGKSTIa~~La~~L  419 (511)
T 1g8f_A          373 EWFSYPEVVKILRESNPPRPKQGFSIVLGNSLTVSREQLSIALLSTF  419 (511)
T ss_dssp             TTTSCHHHHHHHHHHSCCGGGCCEEEEECTTCCSCHHHHHHHHHHHH
T ss_pred             ccccChhhHHHHHHhcccccccceEEEecccCCCCHHHHHHHHHHHH
Confidence            34556555555555542  2344789999999999999999999998

>2og2_A Putative signal recognition particle receptor; nucleotide-binding, protein transport; 2.00A {Arabidopsis thaliana}

Probab=92.42  E-value=0.075  Score=54.42  Aligned_cols=26  Identities=38%  Similarity=0.598  Sum_probs=23.0

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ...+|+|+|+.|+||||+++.++...
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            34699999999999999999998765

>2nq2_C Hypothetical ABC transporter ATP-binding protein HI1470; putative iron chelatin ABC transporter, nucleotide binding domain; 2.40A {Haemophilus influenzae}

Probab=92.42  E-value=0.058  Score=52.51  Aligned_cols=25  Identities=32%  Similarity=0.460  Sum_probs=21.9

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      -.+++|+|+.|+|||||++.++.-.
T Consensus        31 Ge~~~l~G~nGsGKSTLl~~l~Gl~   55 (253)
T 2nq2_C           31 GDILAVLGQNGCGKSTLLDLLLGIH   55 (253)
T ss_dssp             TCEEEEECCSSSSHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCC
Confidence            3689999999999999999987654

>2ihy_A ABC transporter, ATP-binding protein; ATPase, ABC cassette, hydrolase; HET: MSE; 1.90A {Staphylococcus aureus}

Probab=92.40  E-value=0.057  Score=53.35  Aligned_cols=25  Identities=44%  Similarity=0.525  Sum_probs=21.9

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      -.+++|+|+.|+|||||++.++.-.
T Consensus        47 Ge~~~liG~NGsGKSTLlk~l~Gl~   71 (279)
T 2ihy_A           47 GDKWILYGLNGAGKTTLLNILNAYE   71 (279)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCCcHHHHHHHHhCCC
Confidence            4689999999999999999987654

>2yz2_A Putative ABC transporter ATP-binding protein TM_0; cobalt transport, TM02 hydrolase, inner membrane, membrane, nucleotide-binding; 2.30A {Thermotoga maritima}

Probab=92.39  E-value=0.057  Score=53.03  Aligned_cols=26  Identities=27%  Similarity=0.348  Sum_probs=22.2

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      .-.+++|+|+.|+|||||++.++.-.
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            34689999999999999999987543

>1q3t_A Cytidylate kinase; nucleotide monophosphate kinase, CMP kinase, transferase; NMR {Streptococcus pneumoniae} SCOP: c.37.1.1

Probab=92.32  E-value=0.082  Score=50.88  Aligned_cols=26  Identities=23%  Similarity=0.298  Sum_probs=23.2

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ...+|+|.|+.|+||||+++.+....
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            45689999999999999999998876

>3sop_A Neuronal-specific septin-3; hydrolase; HET: GDP; 2.88A {Homo sapiens}

Probab=92.29  E-value=0.072  Score=52.40  Aligned_cols=23  Identities=30%  Similarity=0.465  Sum_probs=20.9

Q ss_pred             EEEEEcCCCChHHHHHHHHHhhh
Q 038398          149 IIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      .++|+|+.|+|||||.+.++...
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            58999999999999999998765

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli}

Probab=92.29  E-value=0.27  Score=61.03  Aligned_cols=87  Identities=15%  Similarity=0.124  Sum_probs=57.6

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHHHHHhCCCCCcc---CCCChhHHHHHH
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKIGRRIGFFDESW---KNGSLEDKTSDI  222 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i~~~l~~~~~~~---~~~~~~~~~~~l  222 (720)
                      .-.++.|.|++|+||||||.+++.....   .=..++|++.....+...     ++.++...+..   ...+.++....+
T Consensus       382 ~G~lilI~G~pGsGKTtLaLqia~~~a~---~G~~vlyis~E~s~~~~~-----a~~lGvd~~~L~I~~~~~~e~il~~~  453 (2050)
T 3cmu_A          382 MGRIVEIYGPESSGKTTLTLQVIAAAQR---EGKTCAFIDAEHALDPIY-----ARKLGVDIDNLLCSQPDTGEQALEIC  453 (2050)
T ss_dssp             TTSEEEEECCTTSSHHHHHHHHHHHHHT---TTCCEEEECTTSCCCHHH-----HHHTTCCTTTCEEECCSSHHHHHHHH
T ss_pred             CCcEEEEEeCCCCCHHHHHHHHHHHHHh---cCCeEEEEEcCCCHHHHH-----HHHcCCCHHHeEEeCCCCHHHHHHHH
Confidence            3479999999999999999999887621   223688888777666432     55565533211   234556666666


Q ss_pred             HHHhc-cCcEEEEEecccc
Q 038398          223 LRILG-KKKFLLLLDDIWE  240 (720)
Q Consensus       223 ~~~l~-~k~~LlVlDdv~~  240 (720)
                      ....+ .+.-+||+|-+..
T Consensus       454 ~~lv~~~~~~lIVIDSL~a  472 (2050)
T 3cmu_A          454 DALARSGAVDVIVVDSVAA  472 (2050)
T ss_dssp             HHHHHHTCCSEEEESCGGG
T ss_pred             HHHHHhcCCcEEEECCHHH
Confidence            55443 3566999998753

>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=92.26  E-value=0.056  Score=49.66  Aligned_cols=22  Identities=36%  Similarity=0.510  Sum_probs=19.7

Q ss_pred             EEEEEcCCCChHHHHHHHHHhh
Q 038398          149 IIGLYGMGGVGKTTLLTKINNK  170 (720)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~  170 (720)
                      -|+|+|.+|+|||||++.+...
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            5889999999999999998763

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae}

Probab=92.25  E-value=0.14  Score=47.16  Aligned_cols=26  Identities=31%  Similarity=0.264  Sum_probs=22.5

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ....|+|+|.+|+|||||+..+....
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            34589999999999999999998764

>3bgw_A DNAB-like replicative helicase; ATPase, replication; 3.91A {Bacillus phage SPP1}

Probab=92.19  E-value=0.35  Score=51.19  Aligned_cols=51  Identities=14%  Similarity=0.083  Sum_probs=35.2

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHHHHH
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKIGRR  202 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i~~~  202 (720)
                      -.++.|.|.+|+||||+|..++.... ..  =..++|++..  .+..++...++..
T Consensus       197 G~liiIaG~pG~GKTtlal~ia~~~a-~~--g~~vl~fSlE--ms~~ql~~R~~~~  247 (444)
T 3bgw_A          197 RNFVLIAARPSMGKTAFALKQAKNMS-DN--DDVVNLHSLE--MGKKENIKRLIVT  247 (444)
T ss_dssp             SCEEEEEECSSSSHHHHHHHHHHHHH-HT--TCEEEEECSS--SCTTHHHHHHHHH
T ss_pred             CcEEEEEeCCCCChHHHHHHHHHHHH-Hc--CCEEEEEECC--CCHHHHHHHHHHH
Confidence            46899999999999999999987762 12  1357776544  3445555555543

>2qe7_A ATP synthase subunit alpha; blockage of ATP hydrolysis, F1-ATPase, single analysis, thermoalkaliphilic, hydrolase; 3.06A {Bacillus SP} PDB: 1sky_B

Probab=92.12  E-value=0.2  Score=53.00  Aligned_cols=97  Identities=15%  Similarity=0.095  Sum_probs=56.3

Q ss_pred             HHHHhcC-CCceEEEEEcCCCChHHHHHH-HHHhhhcCCCCCcC-EEEEEEecCcC-CHHHHHHHHHHHhCCCCCc----
Q 038398          138 VWRCLGE-EQVGIIGLYGMGGVGKTTLLT-KINNKLLGAPNVFD-VVIWVVVSKDL-QLEKIQEKIGRRIGFFDES----  209 (720)
Q Consensus       138 l~~~L~~-~~~~vi~I~G~gGiGKTtLa~-~v~~~~~~~~~~f~-~~~wv~v~~~~-~~~~~~~~i~~~l~~~~~~----  209 (720)
                      .++.+.. ..-..++|+|..|+|||+||. .+.+..     .-+ .++++-+++.. ...++.+.+...=......    
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            4555543 334678999999999999964 666654     245 45777777643 4566666666532221110    


Q ss_pred             cCCCChhHH------HHHHHHHh--ccCcEEEEEeccc
Q 038398          210 WKNGSLEDK------TSDILRIL--GKKKFLLLLDDIW  239 (720)
Q Consensus       210 ~~~~~~~~~------~~~l~~~l--~~k~~LlVlDdv~  239 (720)
                      ..+......      .-.+.+++  .++.+|+++||+-
T Consensus       227 tad~p~~~r~~a~~~a~tiAEyfrd~G~dVLl~~Dslt  264 (502)
T 2qe7_A          227 SASEPAPLLYLAPYAGCAMGEYFMYKGKHALVVYDDLS  264 (502)
T ss_dssp             CTTSCHHHHHHHHHHHHHHHHHHHTTTCEEEEEEECHH
T ss_pred             CCCCCHHHHHHHHHHHHHHHHHHHHcCCcEEEEEecHH
Confidence            011111111      12233444  4689999999984

>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=92.11  E-value=0.073  Score=52.73  Aligned_cols=25  Identities=24%  Similarity=0.389  Sum_probs=22.1

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      -.++.|+|++|+|||||+..++...
T Consensus        30 G~i~~i~G~~GsGKTtl~~~l~~~~   54 (279)
T 1nlf_A           30 GTVGALVSPGGAGKSMLALQLAAQI   54 (279)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHH
Confidence            3689999999999999999988654

>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=92.10  E-value=0.21  Score=61.12  Aligned_cols=86  Identities=15%  Similarity=0.144  Sum_probs=61.9

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHHHHHhCCCCCcc---CCCChhHHHHHHH
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKIGRRIGFFDESW---KNGSLEDKTSDIL  223 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i~~~l~~~~~~~---~~~~~~~~~~~l~  223 (720)
                      -++|-|+|+.|+||||||.++....   +..=..++|+......+..-     ++.++...+..   ++...++....+.
T Consensus      1431 g~~iei~g~~~sGkttl~~~~~a~~---~~~g~~~~~i~~e~~~~~~~-----~~~~Gv~~~~l~~~~p~~~e~~l~~~~ 1502 (1706)
T 3cmw_A         1431 GRIVEIYGPESSGKTTLTLQVIAAA---QREGKTCAFIDAEHALDPIY-----ARKLGVDIDNLLCSQPDTGEQALEICD 1502 (1706)
T ss_dssp             TSEEEEECSTTSSHHHHHHHHHHHH---HHTTCCEEEECTTSCCCHHH-----HHHTTCCGGGCEEECCSSHHHHHHHHH
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHH---HhcCCeEEEEecCCCCCHHH-----HHHcCCCHHHeEEeCCCcHHHHHHHHH
Confidence            4799999999999999999998765   23335678888877766553     77777665432   3445567777777


Q ss_pred             HHhcc-CcEEEEEecccc
Q 038398          224 RILGK-KKFLLLLDDIWE  240 (720)
Q Consensus       224 ~~l~~-k~~LlVlDdv~~  240 (720)
                      ..++. ..-++|+|-|-.
T Consensus      1503 ~~~~s~~~~~vvvDsv~a 1520 (1706)
T 3cmw_A         1503 ALARSGAVDVIVVDSVAA 1520 (1706)
T ss_dssp             HHHHHTCCSEEEESCSTT
T ss_pred             HHHHcCCCCEEEEccHHh
Confidence            77765 455999998743

>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=92.07  E-value=0.085  Score=49.39  Aligned_cols=42  Identities=26%  Similarity=0.180  Sum_probs=21.7

Q ss_pred             CchHHHHHHHHHhcCCCceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          130 GLESTFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       130 Gr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      |++...+.+.+.......-.|+|+|.+|+|||||+..+....
T Consensus        13 ~~~~~~~~m~~~~~~~~~~ki~vvG~~~~GKSsLi~~l~~~~   54 (204)
T 4gzl_A           13 GLVPRGSHMENLYFQGQAIKCVVVGDGAVGKTCLLISYTTNA   54 (204)
T ss_dssp             -----------------CEEEEEEESTTSSHHHHHHHHHHSC
T ss_pred             CcccchhHHHhHhhcCCeEEEEEECcCCCCHHHHHHHHHhCC
Confidence            344444444444444445678899999999999999988654

>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=92.05  E-value=0.077  Score=47.25  Aligned_cols=23  Identities=30%  Similarity=0.518  Sum_probs=20.4

Q ss_pred             EEEEEcCCCChHHHHHHHHHhhh
Q 038398          149 IIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      .|.|+|.+|+|||||+..+....
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            48899999999999999998664

>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=92.03  E-value=0.078  Score=54.71  Aligned_cols=27  Identities=22%  Similarity=0.064  Sum_probs=23.6

Q ss_pred             CCceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          145 EQVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       145 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ....+++|+|++|+|||||++.+....
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            345799999999999999999999765

>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=92.02  E-value=0.22  Score=52.24  Aligned_cols=27  Identities=37%  Similarity=0.367  Sum_probs=23.9

Q ss_pred             CCceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          145 EQVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       145 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ..-.+|+|+|+.|+||||+++.+....
T Consensus       165 ~~ggii~I~GpnGSGKTTlL~allg~l  191 (418)
T 1p9r_A          165 RPHGIILVTGPTGSGKSTTLYAGLQEL  191 (418)
T ss_dssp             SSSEEEEEECSTTSCHHHHHHHHHHHH
T ss_pred             hcCCeEEEECCCCCCHHHHHHHHHhhc
Confidence            445799999999999999999998876

>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=91.99  E-value=0.092  Score=51.33  Aligned_cols=26  Identities=35%  Similarity=0.428  Sum_probs=23.1

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ...++.+.|.||+||||++..+....
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            35788899999999999999998776

>2r6a_A DNAB helicase, replicative helicase; replication, DNAB; 2.90A {Geobacillus stearothermophilus} PDB: 2r6c_A 2r6d_A 2r6e_A 2vyf_A 2vye_A

Probab=91.93  E-value=0.25  Score=52.70  Aligned_cols=50  Identities=14%  Similarity=0.181  Sum_probs=34.5

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHHH
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKIG  200 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i~  200 (720)
                      -.++.|.|.+|+||||||..++.... . ..-..++|++..  .+...+...++
T Consensus       203 G~liiI~G~pG~GKTtl~l~ia~~~~-~-~~g~~Vl~~s~E--~s~~~l~~r~~  252 (454)
T 2r6a_A          203 SDLIIVAARPSVGKTAFALNIAQNVA-T-KTNENVAIFSLE--MSAQQLVMRML  252 (454)
T ss_dssp             TCEEEEECCTTSCHHHHHHHHHHHHH-H-HSSCCEEEEESS--SCHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHHH-H-hCCCcEEEEECC--CCHHHHHHHHH
Confidence            46899999999999999999987762 1 111257777644  34556666554

>1zu4_A FTSY; GTPase, signal recognition particle, SRP, receptor, protein transport; 1.95A {Mycoplasma mycoides} PDB: 1zu5_A

Probab=91.93  E-value=0.096  Score=52.86  Aligned_cols=26  Identities=42%  Similarity=0.612  Sum_probs=23.2

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ...+|+|+|++|+||||++..++...
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            45799999999999999999988776

>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=91.90  E-value=0.16  Score=49.27  Aligned_cols=38  Identities=18%  Similarity=0.219  Sum_probs=29.1

Q ss_pred             HHHHHHHHhcCC-C-ceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          134 TFDKVWRCLGEE-Q-VGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       134 ~~~~l~~~L~~~-~-~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ...-+..|+... . ...|.++|++|+|||++|.++++..
T Consensus        89 ~~~~l~~~l~~~~~~~n~~~l~GppgtGKt~~a~ala~~~  128 (267)
T 1u0j_A           89 AASVFLGWATKKFGKRNTIWLFGPATTGKTNIAEAIAHTV  128 (267)
T ss_dssp             HHHHHHHHHTTCSTTCCEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             HHHHHHHHHhCCCCCCcEEEEECCCCCCHHHHHHHHHhhh
Confidence            344466666543 2 4579999999999999999999864

>2ocp_A DGK, deoxyguanosine kinase; protein-nucleotide complex, transferase; HET: DTP; 2.80A {Homo sapiens} SCOP: c.37.1.1

Probab=91.87  E-value=0.099  Score=50.48  Aligned_cols=25  Identities=20%  Similarity=0.291  Sum_probs=22.7

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ...|.|.|..|+||||+++.+.+..
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

>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=91.86  E-value=0.083  Score=47.28  Aligned_cols=25  Identities=20%  Similarity=0.393  Sum_probs=21.4

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      .-.|.|+|.+|+|||||+..+....
T Consensus         5 ~~~i~v~G~~~~GKssl~~~l~~~~   29 (168)
T 1z2a_A            5 AIKMVVVGNGAVGKSSMIQRYCKGI   29 (168)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHCC
T ss_pred             eEEEEEECcCCCCHHHHHHHHHcCC
Confidence            3468899999999999999998754

>2pjz_A Hypothetical protein ST1066; ATP binding protein, structural genomics, NPPSFA; 1.90A {Sulfolobus tokodaii}

Probab=91.84  E-value=0.074  Score=52.02  Aligned_cols=24  Identities=38%  Similarity=0.429  Sum_probs=20.9

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhh
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNK  170 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~  170 (720)
                      -.+++|+|+.|+|||||++.++.-
T Consensus        30 Ge~~~i~G~NGsGKSTLlk~l~Gl   53 (263)
T 2pjz_A           30 GEKVIILGPNGSGKTTLLRAISGL   53 (263)
T ss_dssp             SSEEEEECCTTSSHHHHHHHHTTS
T ss_pred             CEEEEEECCCCCCHHHHHHHHhCC
Confidence            358999999999999999988643

>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=91.84  E-value=0.082  Score=52.87  Aligned_cols=26  Identities=19%  Similarity=0.238  Sum_probs=22.8

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      .-.+++|.|++|+|||||++.++...
T Consensus        34 ~G~~~~i~G~~G~GKTTl~~~ia~~~   59 (296)
T 1cr0_A           34 GGEVIMVTSGSGMGKSTFVRQQALQW   59 (296)
T ss_dssp             TTCEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEEeCCCCCHHHHHHHHHHHH
Confidence            34689999999999999999988765

>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=91.82  E-value=0.25  Score=60.47  Aligned_cols=87  Identities=15%  Similarity=0.134  Sum_probs=57.5

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHHHHHhCCCCCcc---CCCChhHHHHHH
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKIGRRIGFFDESW---KNGSLEDKTSDI  222 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i~~~l~~~~~~~---~~~~~~~~~~~l  222 (720)
                      .-+++.|.|++|+||||||.+++....   ..=..++|++.....+..     .+..++...+..   ...+.++....+
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 MGRIVEIYGPESSGKTTLTLQVIAAAQ---REGKTCAFIDAEHALDPI-----YARKLGVDIDNLLCSQPDTGEQALEIC  453 (1706)
T ss_dssp             TTSEEEEECSTTSSHHHHHHHHHHHHH---HTTCCEEEECTTSCCCHH-----HHHHTTCCGGGCEEECCSSHHHHHHHH
T ss_pred             CCcEEEEEeCCCCCHHHHHHHHHHHHH---HhCCCeEEEEccCchHHH-----HHHHcCCCHHHeEEcCCCCHHHHHHHH
Confidence            347999999999999999999987762   122368898877766653     255565543221   233455555555


Q ss_pred             HHHhc-cCcEEEEEecccc
Q 038398          223 LRILG-KKKFLLLLDDIWE  240 (720)
Q Consensus       223 ~~~l~-~k~~LlVlDdv~~  240 (720)
                      ..... .+.-++|+|-+..
T Consensus       454 ~~lv~~~~~~lVVIDSL~a  472 (1706)
T 3cmw_A          454 DALARSGAVDVIVVDSVAA  472 (1706)
T ss_dssp             HHHHHHTCCSEEEESCSTT
T ss_pred             HHHHHhcCCCEEEECCHHH
Confidence            55443 3566999998854

>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=91.81  E-value=0.15  Score=47.16  Aligned_cols=81  Identities=15%  Similarity=0.086  Sum_probs=39.2

Q ss_pred             CcccEEEccCC-CCcCc----chHHhccCCcccEEEccCCCCCcc----CCccccCCCCCCEEeccCCCCc-----ccch
Q 038398          516 PHLLSLFLSDN-SLKMS----TDDFFQSMPSLRVFNMSNNHLLWK----LPSGISTLVSLEHLDLSSTAIT-----HLPI  581 (720)
Q Consensus       516 ~~L~~L~l~~~-~~~~~----~~~~~~~l~~L~~L~L~~~~~~~~----lp~~i~~l~~L~~L~L~~~~i~-----~lp~  581 (720)
                      +.|+.|+|++| .+...    ....+..-++|+.|+|++|.+...    +...+..=..|++|+|++|.|+     .+-+
T Consensus        41 ~~L~~L~L~~nn~igd~ga~~la~aL~~N~~L~~L~L~~n~igd~ga~alA~aL~~N~tL~~L~L~~N~Ig~~Ga~ala~  120 (197)
T 1pgv_A           41 TDLKEVNINNMKRVSKERIRSLIEAACNSKHIEKFSLANTAISDSEARGLIELIETSPSLRVLNVESNFLTPELLARLLR  120 (197)
T ss_dssp             SSCCEEECTTCCSSCHHHHHHHHHHHTTCSCCCEEECTTSCCBHHHHTTHHHHHHHCSSCCEEECCSSBCCHHHHHHHHH
T ss_pred             CCccEEECCCCCCCCHHHHHHHHHHHhhCCCcCEEEccCCCCChHHHHHHHHHHhcCCccCeEecCCCcCCHHHHHHHHH
Confidence            44555555553 33221    112234445666666666643322    2222233355666666666665     2223


Q ss_pred             hhhcCCCCCEEeccC
Q 038398          582 ELQKLVNLKCLNLEY  596 (720)
Q Consensus       582 ~i~~l~~L~~L~l~~  596 (720)
                      .+..-+.|+.|+|++
T Consensus       121 aL~~N~tL~~L~L~n  135 (197)
T 1pgv_A          121 STLVTQSIVEFKADN  135 (197)
T ss_dssp             HTTTTCCCSEEECCC
T ss_pred             HHhhCCceeEEECCC
Confidence            344445566666654

>3fvq_A Fe(3+) IONS import ATP-binding protein FBPC; nucleotide binding domain, ABC motor domain, ferric iron TRA ATP-binding, cell inner membrane; HET: ATP; 1.90A {Neisseria gonorrhoeae}

Probab=91.81  E-value=0.084  Score=53.93  Aligned_cols=25  Identities=36%  Similarity=0.389  Sum_probs=22.1

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      -.+++|+|+.|+|||||.+.++--.
T Consensus        30 Ge~~~llGpsGsGKSTLLr~iaGl~   54 (359)
T 3fvq_A           30 GEILFIIGASGCGKTTLLRCLAGFE   54 (359)
T ss_dssp             TCEEEEEESTTSSHHHHHHHHHTSS
T ss_pred             CCEEEEECCCCchHHHHHHHHhcCC
Confidence            3689999999999999999998654

>2wjg_A FEOB, ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GDP; 2.20A {Methanocaldococcus jannaschii}

Probab=91.79  E-value=0.1  Score=47.88  Aligned_cols=23  Identities=30%  Similarity=0.455  Sum_probs=20.9

Q ss_pred             eEEEEEcCCCChHHHHHHHHHhh
Q 038398          148 GIIGLYGMGGVGKTTLLTKINNK  170 (720)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~  170 (720)
                      ..|+|+|.+|+|||||+..+...
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            57899999999999999999874

>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=91.73  E-value=0.75  Score=48.52  Aligned_cols=98  Identities=14%  Similarity=0.104  Sum_probs=55.3

Q ss_pred             HHHHhcC-CCceEEEEEcCCCChHHHHH-HHHHhhhcCCCCCcCEEEEEEecCcC-CHHHHHHHHHHHhCCCCCc----c
Q 038398          138 VWRCLGE-EQVGIIGLYGMGGVGKTTLL-TKINNKLLGAPNVFDVVIWVVVSKDL-QLEKIQEKIGRRIGFFDES----W  210 (720)
Q Consensus       138 l~~~L~~-~~~~vi~I~G~gGiGKTtLa-~~v~~~~~~~~~~f~~~~wv~v~~~~-~~~~~~~~i~~~l~~~~~~----~  210 (720)
                      .++.+.. ..-..++|.|..|+|||+|| ..+.+..    ..-..++|+-+++.. ...++.+.+...=......    .
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            4444433 33467899999999999996 4565542    222256788888653 4566777665532221100    0


Q ss_pred             CCCChh-HH-----HHHHHHHh--ccCcEEEEEeccc
Q 038398          211 KNGSLE-DK-----TSDILRIL--GKKKFLLLLDDIW  239 (720)
Q Consensus       211 ~~~~~~-~~-----~~~l~~~l--~~k~~LlVlDdv~  239 (720)
                      .+.... +.     .-.+.+++  +++.+||++||+-
T Consensus       228 ad~p~~~r~~a~~~a~tiAEyfrd~G~dVLli~Dslt  264 (513)
T 3oaa_A          228 ASESAALQYLAPYAGCAMGEYFRDRGEDALIIYDDLS  264 (513)
T ss_dssp             TTSCHHHHHHHHHHHHHHHHHHHHTTCEEEEEEETHH
T ss_pred             CCCChHHHHHHHHHHHHHHHHHHhcCCCEEEEecChH
Confidence            111111 11     11223333  4789999999984

>3gmt_A Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucleotide biosynthesis, nucleotide-BIND transferase, structural genomics; 2.10A {Burkholderia pseudomallei 1710B}

Probab=91.71  E-value=0.1  Score=49.55  Aligned_cols=25  Identities=32%  Similarity=0.293  Sum_probs=22.1

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ...++|.|++|+||||+|+.+.+..
T Consensus         8 ~~~~~~~G~pGsGKsT~a~~L~~~~   32 (230)
T 3gmt_A            8 HMRLILLGAPGAGKGTQANFIKEKF   32 (230)
T ss_dssp             -CEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             ccceeeECCCCCCHHHHHHHHHHHh
Confidence            3568999999999999999999877

>3nh6_A ATP-binding cassette SUB-family B member 6, mitoc; ABC-transporter, ABCB6, nucleotide binding domain, heme BIOS transport protein; 2.00A {Homo sapiens} PDB: 3nh9_A* 3nha_A* 3nhb_A*

Probab=91.70  E-value=0.063  Score=53.72  Aligned_cols=26  Identities=27%  Similarity=0.353  Sum_probs=22.3

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      .-.+++|+|+.|+|||||++.+..-.
T Consensus        79 ~Ge~vaivG~sGsGKSTLl~ll~gl~  104 (306)
T 3nh6_A           79 PGQTLALVGPSGAGKSTILRLLFRFY  104 (306)
T ss_dssp             TTCEEEEESSSCHHHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCchHHHHHHHHHcCC
Confidence            44799999999999999999987643

>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=91.70  E-value=0.22  Score=46.86  Aligned_cols=24  Identities=29%  Similarity=0.371  Sum_probs=22.3

Q ss_pred             eEEEEEcCCCChHHHHHHHHHhhh
Q 038398          148 GIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ..|.|-|+.|+||||+++.+.+..
T Consensus         7 ~~i~~eG~~gsGKsT~~~~l~~~l   30 (213)
T 4edh_A            7 LFVTLEGPEGAGKSTNRDYLAERL   30 (213)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             eEEEEEcCCCCCHHHHHHHHHHHH
Confidence            578999999999999999999887

>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=91.69  E-value=0.099  Score=53.94  Aligned_cols=24  Identities=33%  Similarity=0.566  Sum_probs=22.3

Q ss_pred             eEEEEEcCCCChHHHHHHHHHhhh
Q 038398          148 GIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      .+|+|.|+.|+||||||..++...
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            589999999999999999999876

>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=91.69  E-value=0.1  Score=54.43  Aligned_cols=101  Identities=10%  Similarity=0.152  Sum_probs=57.0

Q ss_pred             HHHHhcC-CCceEEEEEcCCCChHHHHHHHHHhhhcCCC--------CCcC-EEEEEEecCc-CCHHHHHHHHHHHhCCC
Q 038398          138 VWRCLGE-EQVGIIGLYGMGGVGKTTLLTKINNKLLGAP--------NVFD-VVIWVVVSKD-LQLEKIQEKIGRRIGFF  206 (720)
Q Consensus       138 l~~~L~~-~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~--------~~f~-~~~wv~v~~~-~~~~~~~~~i~~~l~~~  206 (720)
                      .++.+.. ..-..++|.|..|+|||+|+.++.+.. ...        ++-+ .++++-++.. ....++.+++...=...
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            3444433 233568899999999999999998875 221        1222 6677777654 45566666655421011


Q ss_pred             C-----CccCCCChhHH-----HHHHHHHhc---cCcEEEEEeccc
Q 038398          207 D-----ESWKNGSLEDK-----TSDILRILG---KKKFLLLLDDIW  239 (720)
Q Consensus       207 ~-----~~~~~~~~~~~-----~~~l~~~l~---~k~~LlVlDdv~  239 (720)
                      .     ...........     .-.+.+++.   ++.+|+++||+-
T Consensus       216 rtvvv~~t~d~p~~~r~~~~~~a~tiAEyfrd~~G~~VLl~~DdlT  261 (464)
T 3gqb_B          216 RSVLFLNKADDPTIERILTPRMALTVAEYLAFEHDYHVLVILTDMT  261 (464)
T ss_dssp             GEEEEEEETTSCTHHHHHHHHHHHHHHHHHHHTTCCEEEEEEETHH
T ss_pred             ceEEEEECCCCCHHHHHHHHHHHHHHHHHHHHhcCCeEEEEEcChH
Confidence            0     00011112211     123445554   689999999984

>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=91.63  E-value=0.21  Score=50.67  Aligned_cols=48  Identities=27%  Similarity=0.303  Sum_probs=34.0

Q ss_pred             cCCCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHH
Q 038398          143 GEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLE  193 (720)
Q Consensus       143 ~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~  193 (720)
                      .+...+++.+.|.||+||||+|..++....   ..=..++-|+.....++.
T Consensus        12 ~~~~~~i~~~sgkGGvGKTt~a~~lA~~la---~~g~~vllid~D~~~~l~   59 (334)
T 3iqw_A           12 DQRSLRWIFVGGKGGVGKTTTSCSLAIQLA---KVRRSVLLLSTDPAHNLS   59 (334)
T ss_dssp             HCTTCCEEEEECSTTSSHHHHHHHHHHHHT---TSSSCEEEEECCSSCHHH
T ss_pred             cCCCeEEEEEeCCCCccHHHHHHHHHHHHH---hCCCcEEEEECCCCCChh
Confidence            344567888999999999999999988872   222356677666544433

>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=91.63  E-value=0.52  Score=50.29  Aligned_cols=58  Identities=19%  Similarity=0.240  Sum_probs=41.4

Q ss_pred             HHHHHhcC-CCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcC-CHHHHHHHH
Q 038398          137 KVWRCLGE-EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDL-QLEKIQEKI  199 (720)
Q Consensus       137 ~l~~~L~~-~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~-~~~~~~~~i  199 (720)
                      ++++.+.. ..-..++|.|..|+|||+|+..+.+..     +-+.++++-+++.. ...++.+++
T Consensus       216 rvID~l~PigkGqr~~I~g~~g~GKT~L~~~ia~~~-----~~~~~V~~~iGER~~Ev~e~~~~~  275 (588)
T 3mfy_A          216 RVIDTFFPQAKGGTAAIPGPAGSGKTVTQHQLAKWS-----DAQVVIYIGCGERGNEMTDVLEEF  275 (588)
T ss_dssp             HHHHHHSCEETTCEEEECSCCSHHHHHHHHHHHHHS-----SCSEEEEEECCSSSSHHHHHHHHT
T ss_pred             chhhccCCcccCCeEEeecCCCCCHHHHHHHHHhcc-----CCCEEEEEEecccHHHHHHHHHHH
Confidence            35555543 344789999999999999999987754     23578888888654 455666554

>3io3_A DEHA2D07832P; chaperone, membrane traffic, ATPase; HET: ADP; 1.80A {Debaryomyces hansenii}

Probab=91.62  E-value=0.18  Score=51.38  Aligned_cols=49  Identities=20%  Similarity=0.239  Sum_probs=33.0

Q ss_pred             hcCCCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCC
Q 038398          142 LGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQ  191 (720)
Q Consensus       142 L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~  191 (720)
                      +.....+++.+.|.||+||||+|..++..... ...=..+.-|+.....+
T Consensus        13 l~~~~~~i~~~~gkGGvGKTt~a~~lA~~la~-~~~g~~vllid~D~~~~   61 (348)
T 3io3_A           13 VQHDSLKWIFVGGKGGVGKTTTSSSVAVQLAL-AQPNEQFLLISTDPAHN   61 (348)
T ss_dssp             HTCTTCSEEEEECSTTSSHHHHHHHHHHHHHH-HCTTSCEEEEECCSSCH
T ss_pred             hcCCCcEEEEEeCCCCCcHHHHHHHHHHHHHH-hcCCCeEEEEECCCCCC
Confidence            33455689999999999999999998877620 01223466666654433

>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=91.62  E-value=0.19  Score=48.14  Aligned_cols=25  Identities=28%  Similarity=0.477  Sum_probs=22.8

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ...|.|.|+.|+||||+++.+.+..
T Consensus        27 ~~~i~~eG~~GsGKsT~~~~l~~~l   51 (236)
T 3lv8_A           27 AKFIVIEGLEGAGKSTAIQVVVETL   51 (236)
T ss_dssp             CCEEEEEESTTSCHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHH
Confidence            3689999999999999999999887

>3tui_C Methionine import ATP-binding protein METN; ABC-transporter, type I ABC type importer, methionine uptake transporter, membrane protein; HET: ADP; 2.90A {Escherichia coli} PDB: 3tuj_C 3tuz_C* 3dhw_C

Probab=91.58  E-value=0.094  Score=53.62  Aligned_cols=26  Identities=35%  Similarity=0.464  Sum_probs=22.3

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      .-.+++|+|+.|+|||||++.+.--.
T Consensus        53 ~Gei~~IiGpnGaGKSTLlr~i~GL~   78 (366)
T 3tui_C           53 AGQIYGVIGASGAGKSTLIRCVNLLE   78 (366)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             CCCEEEEEcCCCchHHHHHHHHhcCC
Confidence            34689999999999999999987643

>2nzj_A GTP-binding protein REM 1; GDP/GTP binding, GTP hydrolysis, RAD and GEM like GTP protein 1, structural genomics; HET: GDP; 2.50A {Homo sapiens}

Probab=91.54  E-value=0.087  Score=47.56  Aligned_cols=25  Identities=36%  Similarity=0.400  Sum_probs=20.9

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      .-.|+|+|.+|+|||||+..+....
T Consensus         4 ~~ki~i~G~~~vGKSsl~~~l~~~~   28 (175)
T 2nzj_A            4 LYRVVLLGDPGVGKTSLASLFAGKQ   28 (175)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHCC-
T ss_pred             EEEEEEECCCCccHHHHHHHHhcCC
Confidence            3468999999999999999987653

>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=91.51  E-value=0.17  Score=46.41  Aligned_cols=35  Identities=29%  Similarity=0.599  Sum_probs=26.3

Q ss_pred             HHHHHHHhcCCCceEEEEEcCCCChHHHHHHHHHhh
Q 038398          135 FDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNK  170 (720)
Q Consensus       135 ~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~  170 (720)
                      +..+.+++ ....-.|.|+|.+|+|||||+..+...
T Consensus         5 ~~~~~~~~-~~~~~~i~v~G~~~~GKssl~~~l~~~   39 (187)
T 1zj6_A            5 FTRIWRLF-NHQEHKVIIVGLDNAGKTTILYQFSMN   39 (187)
T ss_dssp             HHHHHHHH-TTSCEEEEEEESTTSSHHHHHHHHHTT
T ss_pred             HHHHHHhc-CCCccEEEEECCCCCCHHHHHHHHhcC
Confidence            34455533 345567899999999999999999854

>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=91.49  E-value=0.095  Score=48.20  Aligned_cols=24  Identities=29%  Similarity=0.441  Sum_probs=21.0

Q ss_pred             eEEEEEcCCCChHHHHHHHHHhhh
Q 038398          148 GIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      -.|.|+|.+|+|||||+..+....
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            468899999999999999998664

>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=91.45  E-value=0.099  Score=46.68  Aligned_cols=24  Identities=29%  Similarity=0.397  Sum_probs=21.0

Q ss_pred             eEEEEEcCCCChHHHHHHHHHhhh
Q 038398          148 GIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ..|+|+|.+|+|||||+..+....
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            468899999999999999998654

>1tq4_A IIGP1, interferon-inducible GTPase; interferon gamma, dimer, immunology, signaling protein; HET: GDP; 1.95A {Mus musculus} SCOP: c.37.1.8 PDB: 1tqd_A* 1tq6_A* 1tpz_A* 1tq2_A*

Probab=91.43  E-value=0.12  Score=54.03  Aligned_cols=25  Identities=20%  Similarity=0.383  Sum_probs=22.4

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhh
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNK  170 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~  170 (720)
                      ...+++|+|+.|+|||||.+.+..-
T Consensus        68 ~~~~valvG~nGaGKSTLln~L~Gl   92 (413)
T 1tq4_A           68 SVLNVAVTGETGSGKSSFINTLRGI   92 (413)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHTC
T ss_pred             CCeEEEEECCCCCcHHHHHHHHhCC
Confidence            4569999999999999999999873

>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=91.43  E-value=0.069  Score=51.20  Aligned_cols=25  Identities=32%  Similarity=0.267  Sum_probs=21.7

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhh
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNK  170 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~  170 (720)
                      ...+|+|.|+.|+||||+++.+...
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            3468999999999999999988764

>2bbs_A Cystic fibrosis transmembrane conductance regulator; ATP binding cassette, transport protein; HET: ATP; 2.05A {Homo sapiens} PDB: 2bbt_A* 1xmi_A* 1xmj_A* 2bbo_A* 3si7_A* 1r0w_A 1q3h_A 1r0x_A* 1r0y_A* 1r0z_A* 1r10_A* 1xf9_A* 1xfa_A*

Probab=91.42  E-value=0.084  Score=52.42  Aligned_cols=26  Identities=35%  Similarity=0.525  Sum_probs=22.3

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      .-.+++|+|+.|+|||||++.++.-.
T Consensus        63 ~Ge~~~i~G~NGsGKSTLlk~l~Gl~   88 (290)
T 2bbs_A           63 RGQLLAVAGSTGAGKTSLLMMIMGEL   88 (290)
T ss_dssp             TTCEEEEEESTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhcCC
Confidence            34689999999999999999987654

>4tmk_A Protein (thymidylate kinase); ATP:DTMP phosphotransferase, transferase; HET: T5A; 1.98A {Escherichia coli} SCOP: c.37.1.1 PDB: 5tmp_A*

Probab=91.38  E-value=0.22  Score=46.80  Aligned_cols=24  Identities=33%  Similarity=0.423  Sum_probs=22.2

Q ss_pred             eEEEEEcCCCChHHHHHHHHHhhh
Q 038398          148 GIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ..|.|-|+.|+||||+++.+.+..
T Consensus         4 ~~i~~eG~~gsGKsT~~~~l~~~l   27 (213)
T 4tmk_A            4 KYIVIEGLEGAGKTTARNVVVETL   27 (213)
T ss_dssp             CEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHH
Confidence            578999999999999999999887

>2lkc_A Translation initiation factor IF-2; NMR {Geobacillus stearothermophilus} PDB: 2lkd_A*

Probab=91.35  E-value=0.13  Score=46.65  Aligned_cols=26  Identities=31%  Similarity=0.409  Sum_probs=22.4

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ....|+|+|.+|+|||||+..+....
T Consensus         7 ~~~~i~v~G~~~~GKssl~~~l~~~~   32 (178)
T 2lkc_A            7 RPPVVTIMGHVDHGKTTLLDAIRHSK   32 (178)
T ss_dssp             CCCEEEEESCTTTTHHHHHHHHHTTC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCc
Confidence            45678999999999999999997653

>2gj8_A MNME, tRNA modification GTPase TRME; G-domain dimer, alpha-beta-sandwich, hydrolase; HET: GDP; 1.70A {Escherichia coli BL21} SCOP: c.37.1.8 PDB: 2gj9_A* 2gja_A* 1rfl_A

Probab=91.31  E-value=0.1  Score=47.35  Aligned_cols=24  Identities=21%  Similarity=0.311  Sum_probs=21.0

Q ss_pred             eEEEEEcCCCChHHHHHHHHHhhh
Q 038398          148 GIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ..|+|+|.+|+|||||...+....
T Consensus         5 ~ki~ivG~~g~GKStLl~~l~~~~   28 (172)
T 2gj8_A            5 MKVVIAGRPNAGKSSLLNALAGRE   28 (172)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHTSC
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCC
Confidence            468899999999999999998653

>1z47_A CYSA, putative ABC-transporter ATP-binding protein; alpha/beta motif, beta sandwich, ligand binding protein; 1.90A {Alicyclobacillus acidocaldarius}

Probab=91.31  E-value=0.1  Score=53.28  Aligned_cols=25  Identities=40%  Similarity=0.545  Sum_probs=22.0

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      -.+++|+|+.|+|||||.+.++--.
T Consensus        41 Ge~~~llGpnGsGKSTLLr~iaGl~   65 (355)
T 1z47_A           41 GEMVGLLGPSGSGKTTILRLIAGLE   65 (355)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHTSS
T ss_pred             CCEEEEECCCCCcHHHHHHHHhCCC
Confidence            3689999999999999999997654

---

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	720
d2a5yb3	277	c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenor	6e-32
d2omza2	384	c.10.2.1 (A:33-416) Internalin A {Listeria monocyt	3e-10
d2omza2	384	c.10.2.1 (A:33-416) Internalin A {Listeria monocyt	7e-09
d2omza2	384	c.10.2.1 (A:33-416) Internalin A {Listeria monocyt	9e-08
d2omza2	384	c.10.2.1 (A:33-416) Internalin A {Listeria monocyt	8e-06
d1jl5a_	353	c.10.2.6 (A:) Leucine rich effector protein YopM {	1e-08
d1jl5a_	353	c.10.2.6 (A:) Leucine rich effector protein YopM {	1e-04
d1jl5a_	353	c.10.2.6 (A:) Leucine rich effector protein YopM {	0.001
d1jl5a_	353	c.10.2.6 (A:) Leucine rich effector protein YopM {	0.002
d1dcea3	124	c.10.2.2 (A:444-567) Rab geranylgeranyltransferase	1e-08
d1dcea3	124	c.10.2.2 (A:444-567) Rab geranylgeranyltransferase	2e-04
d1xkua_	305	c.10.2.7 (A:) Decorin {Cow (Bos taurus) [TaxId: 99	2e-07
d1xkua_	305	c.10.2.7 (A:) Decorin {Cow (Bos taurus) [TaxId: 99	0.001
d1xkua_	305	c.10.2.7 (A:) Decorin {Cow (Bos taurus) [TaxId: 99	0.002
d1ogqa_	313	c.10.2.8 (A:) Polygalacturonase inhibiting protein	1e-06
d1ogqa_	313	c.10.2.8 (A:) Polygalacturonase inhibiting protein	8e-05
d1xwdc1	242	c.10.2.7 (C:18-259) Follicle-stimulating hormone r	2e-05
d1h6ua2	227	c.10.2.1 (A:36-262) Internalin H {Listeria monocyt	1e-04
d1z7xw1	460	c.10.1.1 (W:1-460) Ribonuclease inhibitor {Human (	2e-04
d1z7xw1	460	c.10.1.1 (W:1-460) Ribonuclease inhibitor {Human (	7e-04
d2astb2	284	c.10.1.3 (B:2136-2419) Cyclin A/CDK2-associated p1	2e-04
d1h6ta2	210	c.10.2.1 (A:31-240) Internalin B {Listeria monocyt	0.001
d1p9ag_	266	c.10.2.7 (G:) von Willebrand factor binding domain	0.002
d1m9la_	198	c.10.3.1 (A:) Outer arm dynein light chain 1 {Gree	0.004
d1koha1	162	c.10.2.3 (A:201-362) mRNA export factor tap {Human	0.004
d2ca6a1	344	c.10.1.2 (A:2-345) Rna1p (RanGAP1), N-terminal dom	0.004

>d2a5yb3 c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenorhabditis elegans [TaxId: 6239]} Length = 277

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CED-4, NB-ARC domain
species: Caenorhabditis elegans [TaxId: 6239]

 Score =  123 bits (309), Expect = 6e-32
 Identities = 41/266 (15%), Positives = 85/266 (31%), Gaps = 29/266 (10%)

Query: 124 PCEPTV-GLESTFDKVWRCL---GEEQVGIIGLYGMGGVGKTTLLTKI-NNKLLGAPNVF 178
           P + T    E   D+V + L    +     + L+G  G GK+ + ++  +         +
Sbjct: 17  PKQMTCYIREYHVDRVIKKLDEMCDLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINY 76

Query: 179 DVVIWVVVSKDLQLEKIQEKIGRRIGFFDESWKNG--------SLEDKTSDILRILGKKK 230
           D ++W+  S               +    E             S+  K      ++ +  
Sbjct: 77  DSIVWLKDSGTAPKSTFDLFTDILLMLKSEDDLLNFPSVEHVTSVVLKRMICNALIDRPN 136

Query: 231 FLLLLDDIWERVDLTKVGIPFPDPENKSKIVFTTHFLEICGALK-AHEFLKVECLGPEDA 289
            L + DD+ +              E + + + TT  +EI  A     EF++V  L  ++ 
Sbjct: 137 TLFVFDDVVQEET------IRWAQELRLRCLVTTRDVEISNAASQTCEFIEVTSLEIDEC 190

Query: 290 WRLFRENLRRDVLDNHPDIPELARSVAQECAGLPLALITIGRAMACKKTPQEWHYAIQVL 349
           +           +       ++     +  +G P  L+   ++    KT ++       L
Sbjct: 191 YDFLEAYGMPMPVGEKE--EDVLNKTIELSSGNPATLMMFFKSCE-PKTFEKMAQLNNKL 247

Query: 350 RRSASEFPGMGKEVYPLLKFSYDSLP 375
                        V  +  +SY SL 
Sbjct: 248 ESRGLV------GVECITPYSYKSLA 267

>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 = 60.4 bits (145), Expect = 3e-10
 Identities = 23/120 (19%), Positives = 46/120 (38%), Gaps = 5/120 (4%)

Query: 477 LVHAGLGLTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFF 536
           L      ++    +     +  + L +N++E++S      +L  L L  N++  S     
Sbjct: 268 LKLGANQISNISPLAGLTALTNLELNENQLEDISPISNLKNLTYLTLYFNNI--SDISPV 325

Query: 537 QSMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSSTAITHLPIELQKLVNLKCLNLEY 596
            S+  L+    +NN +     S ++ L ++  L      I+ L   L  L  +  L L  
Sbjct: 326 SSLTKLQRLFFANNKV--SDVSSLANLTNINWLSAGHNQISDL-TPLANLTRITQLGLND 382

>d2omza2 c.10.2.1 (A:33-416) Internalin A {Listeria monocytogenes [TaxId: 1639]} Length = 384

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin A
species: Listeria monocytogenes [TaxId: 1639]

 Score = 56.2 bits (134), Expect = 7e-09
 Identities = 28/176 (15%), Positives = 62/176 (35%), Gaps = 29/176 (16%)

Query: 475 NFLVHAGLGLTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDD 534
             L+     +++   +    N+  +SL  N+++++    +  +L  L L++N +  S   
Sbjct: 200 ESLIATNNQISDITPLGILTNLDELSLNGNQLKDIGTLASLTNLTDLDLANNQI--SNLA 257

Query: 535 FFQSMPSLRVFNMSNNHLLWKLPSGIST--------------------LVSLEHLDLSST 574
               +  L    +  N +    P    T                    L +L +L L   
Sbjct: 258 PLSGLTKLTELKLGANQISNISPLAGLTALTNLELNENQLEDISPISNLKNLTYLTLYFN 317

Query: 575 AITHLPIELQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFDCGGSKIERL 630
            I+ +   +  L  L+ L     N ++      +S+ + L  +     G ++I  L
Sbjct: 318 NISDI-SPVSSLTKLQRLFFAN-NKVSD-----VSSLANLTNINWLSAGHNQISDL 366

>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 = 52.7 bits (125), Expect = 9e-08
 Identities = 17/85 (20%), Positives = 38/85 (44%), Gaps = 4/85 (4%)

Query: 491 QNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNN 550
            N +N+  ++L  N I ++S   +   L  LF ++N +  S      ++ ++   +  +N
Sbjct: 304 SNLKNLTYLTLYFNNISDISPVSSLTKLQRLFFANNKV--SDVSSLANLTNINWLSAGHN 361

Query: 551 HLLWKLPSGISTLVSLEHLDLSSTA 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 = 46.5 bits (109), Expect = 8e-06
 Identities = 9/98 (9%), Positives = 36/98 (36%), Gaps = 2/98 (2%)

Query: 453 KMHDVIRDMVLWIACKIEKEKENFLVHAGLGLTEAPEIQNWRNVRRMSLMKNKIENLSET 512
              ++  + +  I+     +   +L      +++   + +   ++R+    NK+ ++S  
Sbjct: 288 TNLELNENQLEDISPISNLKNLTYLTLYFNNISDISPVSSLTKLQRLFFANNKVSDVSSL 347

Query: 513 PTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNN 550
               ++  L    N +  S      ++  +    +++ 
Sbjct: 348 ANLTNINWLSAGHNQI--SDLTPLANLTRITQLGLNDQ 383

>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 = 55.2 bits (131), Expect = 1e-08
 Identities = 31/132 (23%), Positives = 48/132 (36%), Gaps = 12/132 (9%)

Query: 488 PEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNM 547
            +            +     + +       L       N+            PSL   N+
Sbjct: 232 RDNYLTDLPELPQSLTFLDVSENIFSGLSELPPNLYYLNASSNEIRSLCDLPPSLEELNV 291

Query: 548 SNNHLLWKLPSGISTLVSLEHLDLSSTAITHLPIELQKLVNLKCLNLEYMNNLNQFPRLV 607
           SNN L+ +LP+       LE L  S   +  +P   Q   NLK L++EY N L +FP + 
Sbjct: 292 SNNKLI-ELPALPP---RLERLIASFNHLAEVPELPQ---NLKQLHVEY-NPLREFPDI- 342

Query: 608 ISAFSKLQVLRM 619
                 ++ LRM
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 = 42.9 bits (99), Expect = 1e-04
 Identities = 21/120 (17%), Positives = 40/120 (33%), Gaps = 10/120 (8%)

Query: 454 MHDVIRDMVLWIACKIEKEKENFLVHAGLGLTEAPEIQNWRNVRRMSLMKNKIENLSETP 513
                 D+   I   + +   N                   ++  +++  NK+  L   P
Sbjct: 244 QSLTFLDVSENIFSGLSELPPNLYYLNASSNEIRSLCDLPPSLEELNVSNNKLIELPALP 303

Query: 514 TCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSS 573
             P L  L  S N L     +  +   +L+  ++  N L  + P       S+E L ++S
Sbjct: 304 --PRLERLIASFNHLA----EVPELPQNLKQLHVEYNPLR-EFPDIPE---SVEDLRMNS 353

>d1jl5a_ c.10.2.6 (A:) Leucine rich effector protein YopM {Yersinia pestis [TaxId: 632]} Length = 353

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Leucine rich effector protein YopM
domain: Leucine rich effector protein YopM
species: Yersinia pestis [TaxId: 632]

 Score = 39.4 bits (90), Expect = 0.001
 Identities = 20/96 (20%), Positives = 35/96 (36%), Gaps = 15/96 (15%)

Query: 545 FNMSNNHLLWKLPSGISTLVSLEHLDLSSTAITHLPIELQKLVNLKCLNLEYMNNLNQFP 604
                N    ++ S      SLE L++S+  +  LP        L+ L   + N+L + P
Sbjct: 265 NLYYLNASSNEIRSLCDLPPSLEELNVSNNKLIELPALPP---RLERLIASF-NHLAEVP 320

Query: 605 RLVISAFSKLQVLRMFDC-------GGSKIERLKIN 633
            L       L+ L +              +E L++N
Sbjct: 321 EL----PQNLKQLHVEYNPLREFPDIPESVEDLRMN 352

>d1jl5a_ c.10.2.6 (A:) Leucine rich effector protein YopM {Yersinia pestis [TaxId: 632]} Length = 353

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Leucine rich effector protein YopM
domain: Leucine rich effector protein YopM
species: Yersinia pestis [TaxId: 632]

 Score = 38.7 bits (88), Expect = 0.002
 Identities = 19/82 (23%), Positives = 29/82 (35%), Gaps = 4/82 (4%)

Query: 541 SLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSSTAITHLPIELQKLVNLKCLNLEYMNNL 600
                 ++N  L   LP        LE L  S  ++T LP   Q L +L   N       
Sbjct: 39  QAHELELNNLGLS-SLPELPP---HLESLVASCNSLTELPELPQSLKSLLVDNNNLKALS 94

Query: 601 NQFPRLVISAFSKLQVLRMFDC 622
           +  P L     S  Q+ ++ + 
Sbjct: 95  DLPPLLEYLGVSNNQLEKLPEL 116

>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 = 51.6 bits (123), Expect = 1e-08
 Identities = 26/124 (20%), Positives = 43/124 (34%), Gaps = 6/124 (4%)

Query: 497 RRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKL 556
           R + L    +  L        +  L LS N L+        ++  L V   S+N    + 
Sbjct: 1   RVLHLAHKDLTVLCHLEQLLLVTHLDLSHNRLRALPPALA-ALRCLEVLQASDNA--LEN 57

Query: 557 PSGISTLVSLEHLDLSSTAITHLPI--ELQKLVNLKCLNLEYMNNLNQFPRLVISAFSKL 614
             G++ L  L+ L L +  +        L     L  LNL+  N+L Q   +       L
Sbjct: 58  VDGVANLPRLQELLLCNNRLQQSAAIQPLVSCPRLVLLNLQG-NSLCQEEGIQERLAEML 116

Query: 615 QVLR 618
             + 
Sbjct: 117 PSVS 120

>d1dcea3 c.10.2.2 (A:444-567) Rab geranylgeranyltransferase alpha-subunit, C-terminal domain {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 124

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Rab geranylgeranyltransferase alpha-subunit, C-terminal domain
domain: Rab geranylgeranyltransferase alpha-subunit, C-terminal domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

 Score = 39.3 bits (91), Expect = 2e-04
 Identities = 21/109 (19%), Positives = 36/109 (33%), Gaps = 25/109 (22%)

Query: 543 RVFNMSNNHLLWKLPSGISTLVSLEHLDLSSTAITHLPIELQKLVNLKCLNLEYM----- 597
           RV ++++  L   +   +  L+ + HLDLS   +  LP  L  L  L+ L          
Sbjct: 1   RVLHLAHKDL--TVLCHLEQLLLVTHLDLSHNRLRALPPALAALRCLEVLQASDNALENV 58

Query: 598 ----------------NNLNQFPRLVISAFSKLQVLRMFDCGGSKIERL 630
                           N L Q     I        L + +  G+ + + 
Sbjct: 59  DGVANLPRLQELLLCNNRLQQSA--AIQPLVSCPRLVLLNLQGNSLCQE 105

>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 = 51.2 bits (121), Expect = 2e-07
 Identities = 39/189 (20%), Positives = 72/189 (38%), Gaps = 11/189 (5%)

Query: 508 NLSETPTC--PHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVS 565
            L + P    P    L L +N +    D  F+++ +L    + NN +    P   + LV 
Sbjct: 21  GLEKVPKDLPPDTALLDLQNNKITEIKDGDFKNLKNLHTLILINNKISKISPGAFAPLVK 80

Query: 566 LEHLDLSSTAITHLPIELQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFDCGGS 625
           LE L LS   +  LP ++           E   + N+  ++  S F+ L  + + + G +
Sbjct: 81  LERLYLSKNQLKELPEKMP------KTLQELRVHENEITKVRKSVFNGLNQMIVVELGTN 134

Query: 626 KIERL-KINVLFGGHQFLVEELMGMKHLMVLTITLKSWQALKELLISQELQRSTQSLFLR 684
            ++     N  F G + L    +   ++   TI      +L EL +         +  L+
Sbjct: 135 PLKSSGIENGAFQGMKKLSYIRIADTNIT--TIPQGLPPSLTELHLDGNKITKVDAASLK 192

Query: 685 CFNDSKSLD 693
             N+   L 
Sbjct: 193 GLNNLAKLG 201

>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 = 38.9 bits (89), Expect = 0.001
 Identities = 18/112 (16%), Positives = 36/112 (32%), Gaps = 10/112 (8%)

Query: 492 NWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNH 551
           N      +S       +       PHL  L L++N L             ++V  + NN+
Sbjct: 195 NNLAKLGLSFNSISAVDNGSLANTPHLRELHLNNNKLVKVPGGLAD-HKYIQVVYLHNNN 253

Query: 552 L------LWKLPSGISTLVSLEHLDLSSTAITHLPIE---LQKLVNLKCLNL 594
           +       +  P   +   S   + L S  + +  I+    + +     + L
Sbjct: 254 ISAIGSNDFCPPGYNTKKASYSGVSLFSNPVQYWEIQPSTFRCVYVRAAVQL 305

>d1xkua_ c.10.2.7 (A:) Decorin {Cow (Bos taurus) [TaxId: 9913]} Length = 305

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Decorin
species: Cow (Bos taurus) [TaxId: 9913]

 Score = 38.9 bits (89), Expect = 0.002
 Identities = 17/128 (13%), Positives = 41/128 (32%), Gaps = 7/128 (5%)

Query: 515 CPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSST 574
              L  + ++D ++           PSL   ++  N +     + +  L +L  L LS  
Sbjct: 149 MKKLSYIRIADTNITTIPQGLP---PSLTELHLDGNKITKVDAASLKGLNNLAKLGLSFN 205

Query: 575 AITHLPIELQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKINV 634
           +I+ +             +L  ++  N     V    +  + +++     + I  +  N 
Sbjct: 206 SISAVDNGSLA----NTPHLRELHLNNNKLVKVPGGLADHKYIQVVYLHNNNISAIGSND 261

Query: 635 LFGGHQFL 642
                   
Sbjct: 262 FCPPGYNT 269

>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 = 48.6 bits (114), Expect = 1e-06
 Identities = 13/75 (17%), Positives = 23/75 (30%)

Query: 530 MSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSSTAITHLPIELQKLVNL 589
                      +L   ++ NN +   LP G++ L  L  L++S   +     +   L   
Sbjct: 234 AFDLGKVGLSKNLNGLDLRNNRIYGTLPQGLTQLKFLHSLNVSFNNLCGEIPQGGNLQRF 293

Query: 590 KCLNLEYMNNLNQFP 604
                     L   P
Sbjct: 294 DVSAYANNKCLCGSP 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 = 42.8 bits (99), Expect = 8e-05
 Identities = 12/58 (20%), Positives = 23/58 (39%), Gaps = 1/58 (1%)

Query: 515 CPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLS 572
             +L  L L +N +  +       +  L   N+S N+L  ++P G   L   +    +
Sbjct: 243 SKNLNGLDLRNNRIYGTLPQGLTQLKFLHSLNVSFNNLCGEIPQG-GNLQRFDVSAYA 299

>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 = 44.1 bits (102), Expect = 2e-05
 Identities = 25/117 (21%), Positives = 42/117 (35%), Gaps = 4/117 (3%)

Query: 491 QNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNN 550
           Q      + ++  + IE  S        + L+L+ N ++   +  F       +    NN
Sbjct: 128 QKVLLDIQDNINIHTIERNSFVGLSFESVILWLNKNGIQEIHNCAFNGTQLDELNLSDNN 187

Query: 551 HLLWKLPSGISTLVSLEHLDLSSTAITHLPIE-LQKLVNLKCLNLEYMNNLNQFPRL 606
           +L                LD+S T I  LP   L+ L  L+  +     NL + 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 = 41.9 bits (97), Expect = 1e-04
 Identities = 12/62 (19%), Positives = 28/62 (45%), Gaps = 2/62 (3%)

Query: 488 PEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNM 547
             + N   +  +    NKI ++S   + P+L+ + L +N +  S      +  +L +  +
Sbjct: 167 TPLANLSKLTTLKADDNKISDISPLASLPNLIEVHLKNNQI--SDVSPLANTSNLFIVTL 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 = 42.3 bits (97), Expect = 2e-04
 Identities = 15/117 (12%), Positives = 37/117 (31%), Gaps = 11/117 (9%)

Query: 518 LLSLFLSDNSLKMST-DDFFQSMPSLRVFNMSNNHL----LWKLPSGISTLVSLEHLDLS 572
           + SL +    L  +   +    +   +V  + +  L       + S +    +L  L+L 
Sbjct: 4   IQSLDIQCEELSDARWAELLPLLQQCQVVRLDDCGLTEARCKDISSALRVNPALAELNLR 63

Query: 573 STAITHLPIEL------QKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFDCG 623
           S  +  + +             ++ L+L+          ++ S    L  L+     
Sbjct: 64  SNELGDVGVHCVLQGLQTPSCKIQKLSLQNCCLTGAGCGVLSSTLRTLPTLQELHLS 120

>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 = 40.3 bits (92), Expect = 7e-04
 Identities = 19/106 (17%), Positives = 35/106 (33%), Gaps = 10/106 (9%)

Query: 525 DNSLKMSTDDFFQSMPSLRVFNMSNNHL----LWKLPSGISTLVSLEHLDLSSTAITHLP 580
           D  ++       Q    LRV  +++  +       L + +    SL  LDLS+  +    
Sbjct: 354 DAGVRELCQGLGQPGSVLRVLWLADCDVSDSSCSSLAATLLANHSLRELDLSNNCLGDAG 413

Query: 581 IEL------QKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMF 620
           I        Q    L+ L L  +    +    + +       LR+ 
Sbjct: 414 ILQLVESVRQPGCLLEQLVLYDIYWSEEMEDRLQALEKDKPSLRVI 459

>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 = 41.2 bits (95), Expect = 2e-04
 Identities = 18/84 (21%), Positives = 34/84 (40%), Gaps = 4/84 (4%)

Query: 541 SLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSSTAIT--HLPIELQKLVNLKCLNLEYMN 598
            +  F    + +   L    S    ++H+DLS++ I    L   L +   L+ L+LE + 
Sbjct: 24  GVIAFRCPRSFMDQPLAEHFS-PFRVQHMDLSNSVIEVSTLHGILSQCSKLQNLSLEGLR 82

Query: 599 NLNQFPRLVISAFSKLQVLRMFDC 622
             +      ++  S L  L +  C
Sbjct: 83  LSDPIVN-TLAKNSNLVRLNLSGC 105

>d1h6ta2 c.10.2.1 (A:31-240) Internalin B {Listeria monocytogenes [TaxId: 1639]} Length = 210

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin B
species: Listeria monocytogenes [TaxId: 1639]

 Score = 38.5 bits (88), Expect = 0.001
 Identities = 42/206 (20%), Positives = 75/206 (36%), Gaps = 11/206 (5%)

Query: 506 IENLSETPTCPHLLSLFLSDNSLKMSTDDFFQS-MPSLRVFNMSNNHLLWKLPSGISTLV 564
           I+ +         +   L   S+   TD   Q+ + S+     +N+ +  K   GI  L 
Sbjct: 14  IKQIFSDDAFAETIKDNLKKKSV---TDAVTQNELNSIDQIIANNSDI--KSVQGIQYLP 68

Query: 565 SLEHLDLSSTAITHLPIELQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFDCGG 624
           ++  L L+   +T     ++ L NLK L   +++         +    KL+ L +   G 
Sbjct: 69  NVTKLFLNGNKLTD----IKPLANLKNLGWLFLDENKVKDLSSLKDLKKLKSLSLEHNGI 124

Query: 625 SKIERLKINVLFGGHQFLVEELMGMKHLMVLTITLKSWQALKELLISQELQRSTQSLFLR 684
           S I  L              ++  +  L  LT          ++     L   T+   L 
Sbjct: 125 SDINGLVHLPQLESLYLGNNKITDITVLSRLTKLDTLSLEDNQISDIVPLAGLTKLQNLY 184

Query: 685 CFNDSKSLDIFCLAGLRNLNKLYVAG 710
              +  S D+  LAGL+NL+ L +  
Sbjct: 185 LSKNHIS-DLRALAGLKNLDVLELFS 209

>d1p9ag_ c.10.2.7 (G:) von Willebrand factor binding domain of glycoprotein Ib alpha {Human (Homo sapiens) [TaxId: 9606]} Length = 266

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: von Willebrand factor binding domain of glycoprotein Ib alpha
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 38.2 bits (87), Expect = 0.002
 Identities = 27/176 (15%), Positives = 42/176 (23%), Gaps = 7/176 (3%)

Query: 541 SLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSSTAITHLPIE-LQKLVNLKCLNLEYMNN 599
           S    N    +L   LP  +        L LS   +    +  L     L  LNL+    
Sbjct: 11  SHLEVNCDKRNLT-ALPPDLPK--DTTILHLSENLLYTFSLATLMPYTRLTQLNLDRAEL 67

Query: 600 LNQFPRLVISA---FSKLQVLRMFDCGGSKIERLKINVLFGGHQFLVEELMGMKHLMVLT 656
                   +                    +       +    ++     L  ++ L  L 
Sbjct: 68  TKLQVDGTLPVLGTLDLSHNQLQSLPLLGQTLPALTVLDVSFNRLTSLPLGALRGLGELQ 127

Query: 657 ITLKSWQALKELLISQELQRSTQSLFLRCFNDSKSLDIFCLAGLRNLNKLYVAGCK 712
                   LK L                  N+   L    L GL NL+ L +    
Sbjct: 128 ELYLKGNELKTLPPGLLTPTPKLEKLSLANNNLTELPAGLLNGLENLDTLLLQENS 183

>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 = 37.0 bits (84), Expect = 0.004
 Identities = 18/94 (19%), Positives = 38/94 (40%), Gaps = 15/94 (15%)

Query: 509 LSETPTCPHLLSLFLSDNSLKMSTD---DFFQSMPSLRVFNMSNNHLLWKLPSGISTLVS 565
           +++  T    + +F    S+  +     +    +P +            K+ + +STL +
Sbjct: 1   MAKATTIKDAIRIFEERKSVVATEAEKVELHGMIPPIE-----------KMDATLSTLKA 49

Query: 566 LEHLDLSSTAITHLPIELQKLVNLKCLNLEYMNN 599
            +HL LS+  I  +   L  + NL+ L+L     
Sbjct: 50  CKHLALSTNNIEKIS-SLSGMENLRILSLGRNLI 82

>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 = 0.004
 Identities = 26/121 (21%), Positives = 45/121 (37%), Gaps = 11/121 (9%)

Query: 484 LTEAPEIQNWRNVRRMSLMKNKIENLSETP-TCPHLLSLFLSDNSLKMSTD--DFFQSMP 540
           L   P++        ++   +    L       P LLSL LS+N L    D     Q  P
Sbjct: 32  LRSDPDLVAQNIDVVLNRRSSMAATLRIIEENIPELLSLNLSNNRLYRLDDMSSIVQKAP 91

Query: 541 SLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSSTAITHLPIE--------LQKLVNLKCL 592
           +L++ N+S N L  +        + LE L L   +++    +         ++   L  L
Sbjct: 92  NLKILNLSGNELKSERELDKIKGLKLEELWLDGNSLSDTFRDQSTYISAIRERFPKLLRL 151

Query: 593 N 593
           +
Sbjct: 152 D 152

>d2ca6a1 c.10.1.2 (A:2-345) Rna1p (RanGAP1), N-terminal domain {Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]} Length = 344

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: Rna1p (RanGAP1), N-terminal domain
domain: Rna1p (RanGAP1), N-terminal domain
species: Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]

 Score = 37.6 bits (85), Expect = 0.004
 Identities = 24/228 (10%), Positives = 56/228 (24%), Gaps = 14/228 (6%)

Query: 385 YCGLFPEDYRIRKSELIDCWIGEGFLDQYDRSGAYNEGYYIIGILLHACLLEEEGGDIGE 444
                 +   +    L +  +G     +  R+                  +      +  
Sbjct: 113 LIDFLSKHTPLEHLYLHNNGLGPQAGAKIARALQELAVNKKAKNAPPLRSIICGRNRLEN 172

Query: 445 EESGEHVVKMHDVIRDMVLWIACKIEKEKENFLVHAGLGLTEAPEIQNWRNVRRMSLMKN 504
             S +   K     R +      +     E        GL    E++             
Sbjct: 173 G-SMKEWAKTFQSHRLLHTVKMVQNGIRPEGIEHLLLEGLAYCQELKVLDLQDNTFTHLG 231

Query: 505 KIENLSETPTCPHLLSLFLSDNSLK------MSTDDFFQSMPSLRVFNMSNNHL----LW 554
                    + P+L  L L+D  L       +           L+   +  N +    + 
Sbjct: 232 SSALAIALKSWPNLRELGLNDCLLSARGAAAVVDAFSKLENIGLQTLRLQYNEIELDAVR 291

Query: 555 KLPSGI-STLVSLEHLDLSSTAITHLPIELQKLVNLKCLNLEYMNNLN 601
            L + I   +  L  L+L+    +     + ++  +   +      L+
Sbjct: 292 TLKTVIDEKMPDLLFLELNGNRFSEEDDVVDEIREV--FSTRGRGELD 337

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	720
d2a5yb3	277	CED-4, NB-ARC domain {Caenorhabditis elegans [TaxI	100.0
d1p9ag_	266	von Willebrand factor binding domain of glycoprote	99.64
d1ozna_	284	Reticulon 4 receptor (Nogo-66 receptor, Ngr) {Huma	99.58
d1h6ua2	227	Internalin H {Listeria monocytogenes [TaxId: 1639]	99.54
d2omza2	384	Internalin A {Listeria monocytogenes [TaxId: 1639]	99.53
d1xkua_	305	Decorin {Cow (Bos taurus) [TaxId: 9913]}	99.51
d1h6ta2	210	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.5
d1ogqa_	313	Polygalacturonase inhibiting protein PGIP {Kidney	99.48
d2omxa2	199	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.47
d1h6ta2	210	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.47
d2omxa2	199	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.46
d1ogqa_	313	Polygalacturonase inhibiting protein PGIP {Kidney	99.46
d1p9ag_	266	von Willebrand factor binding domain of glycoprote	99.44
d2omza2	384	Internalin A {Listeria monocytogenes [TaxId: 1639]	99.42
d1h6ua2	227	Internalin H {Listeria monocytogenes [TaxId: 1639]	99.41
d1dcea3	124	Rab geranylgeranyltransferase alpha-subunit, C-ter	99.41
d1a9na_	162	Splicesomal U2A' protein {Human (Homo sapiens) [Ta	99.39
d1xkua_	305	Decorin {Cow (Bos taurus) [TaxId: 9913]}	99.39
d1ozna_	284	Reticulon 4 receptor (Nogo-66 receptor, Ngr) {Huma	99.38
d1xwdc1	242	Follicle-stimulating hormone receptor {Human (Homo	99.35
d2astb2	284	Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sa	99.35
d1dcea3	124	Rab geranylgeranyltransferase alpha-subunit, C-ter	99.31
d1a9na_	162	Splicesomal U2A' protein {Human (Homo sapiens) [Ta	99.29
d1w8aa_	192	Slit {Fruit fly (Drosophila melanogaster) [TaxId:	99.28
d2fnaa2	283	Archaeal ATPase SSO1545 {Sulfolobus solfataricus [	99.26
d1xwdc1	242	Follicle-stimulating hormone receptor {Human (Homo	99.23
d2astb2	284	Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sa	99.2
d1jl5a_	353	Leucine rich effector protein YopM {Yersinia pesti	99.17
d1w8aa_	192	Slit {Fruit fly (Drosophila melanogaster) [TaxId:	99.16
d1jl5a_	353	Leucine rich effector protein YopM {Yersinia pesti	99.03
d1m9la_	198	Outer arm dynein light chain 1 {Green algae (Chlam	98.98
d2ifga3	156	High affinity nerve growth factor receptor, N-term	98.93
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	98.92
d1sxjd2	237	Replication factor C2 {Baker's yeast (Saccharomyce	98.91
d1m9la_	198	Outer arm dynein light chain 1 {Green algae (Chlam	98.9
d1sxjc2	227	Replication factor C3 {Baker's yeast (Saccharomyce	98.9
d1sxjb2	224	Replication factor C4 {Baker's yeast (Saccharomyce	98.87
d1njfa_	239	delta prime subunit of DNA polymerase III, N-domai	98.8
d1iqpa2	231	Replication factor C {Archaeon Pyrococcus furiosus	98.77
d2ifga3	156	High affinity nerve growth factor receptor, N-term	98.72
d1r6bx2	268	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	98.69
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	98.69
d1sxje2	252	Replication factor C5 {Baker's yeast (Saccharomyce	98.58
d1jbka_	195	ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}	98.52
d1sxja2	253	Replication factor C1 {Baker's yeast (Saccharomyce	98.48
d2ca6a1	344	Rna1p (RanGAP1), N-terminal domain {Fission yeast	98.46
d2ca6a1	344	Rna1p (RanGAP1), N-terminal domain {Fission yeast	98.45
d1in4a2	238	Holliday junction helicase RuvB {Thermotoga mariti	98.41
d1ixsb2	239	Holliday junction helicase RuvB {Thermus thermophi	98.39
d1ixza_	247	AAA domain of cell division protein FtsH {Thermus	98.25
d1a5ta2	207	delta prime subunit of DNA polymerase III, N-domai	98.24
d1lv7a_	256	AAA domain of cell division protein FtsH {Escheric	98.24
d1e32a2	258	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	98.21
d1qvra2	387	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	98.18
d1l8qa2	213	Chromosomal replication initiation factor DnaA {Aq	98.16
d1r7ra3	265	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	98.02
d1d2na_	246	Hexamerization domain of N-ethylmalemide-sensitive	98.01
d1koha1	162	mRNA export factor tap {Human (Homo sapiens) [TaxI	97.7
d1z7xw1	460	Ribonuclease inhibitor {Human (Homo sapiens) [TaxI	97.69
d1koha1	162	mRNA export factor tap {Human (Homo sapiens) [TaxI	97.47
d2gnoa2	198	gamma subunit of DNA polymerase III, N-domain {The	97.35
d1z7xw1	460	Ribonuclease inhibitor {Human (Homo sapiens) [TaxI	97.23
d1lw7a2	192	Transcriptional regulator NadR, ribosylnicotinamid	96.84
d1pgva_	167	Tropomodulin C-terminal domain {nematode (Caenorha	96.74
d1np6a_	170	Molybdopterin-guanine dinucleotide biosynthesis pr	96.73
d1m8pa3	183	ATP sulfurylase C-terminal domain {Fungus (Penicil	96.72
d1kaga_	169	Shikimate kinase (AroK) {Escherichia coli [TaxId:	96.71
d1ly1a_	152	Polynucleotide kinase, kinase domain {Bacteriophag	96.67
d1xp8a1	268	RecA protein, ATPase-domain {Deinococcus radiodura	96.63
d2bdta1	176	Hypothetical protein BH3686 {Bacillus halodurans [	96.61
d1pgva_	167	Tropomodulin C-terminal domain {nematode (Caenorha	96.59
d1rz3a_	198	Hypothetical protein rbstp0775 {Bacillus stearothe	96.56
d1rkba_	173	Adenylate kinase {Human (Homo sapiens), isoenzyme	96.54
d2qy9a2	211	GTPase domain of the signal recognition particle r	96.54
d1ofha_	309	HslU {Haemophilus influenzae [TaxId: 727]}	96.51
d1mo6a1	269	RecA protein, ATPase-domain {Mycobacterium tubercu	96.5
d1qf9a_	194	UMP/CMP kinase {Dictyostelium discoideum [TaxId: 4	96.48
d1u94a1	263	RecA protein, ATPase-domain {Escherichia coli [Tax	96.45
d2i3ba1	189	Cancer-related NTPase, C1orf57 {Human (Homo sapien	96.42
d1ukza_	196	Uridylate kinase {Baker's yeast (Saccharomyces cer	96.35
d1knqa_	171	Gluconate kinase {Escherichia coli [TaxId: 562]}	96.35
d1gvnb_	273	Plasmid maintenance system epsilon/zeta, toxin zet	96.32
d2iyva1	165	Shikimate kinase (AroK) {Mycobacterium tuberculosi	96.3
d1okkd2	207	GTPase domain of the signal recognition particle r	96.29
d1x6va3	195	Adenosine-5'phosphosulfate kinase (APS kinase) {Hu	96.28
d1viaa_	161	Shikimate kinase (AroK) {Campylobacter jejuni [Tax	96.25
d1qhxa_	178	Chloramphenicol phosphotransferase {Streptomyces v	96.24
d1xjca_	165	Molybdopterin-guanine dinucleotide biosynthesis pr	96.21
d1io0a_	166	Tropomodulin C-terminal domain {Chicken (Gallus ga	96.18
d1khta_	190	Adenylate kinase {Archaeon Methanococcus voltae [T	96.15
d1y63a_	174	Probable kinase LmjF30.1890 {Leishmania major [Tax	96.14
d1qvra3	315	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	96.14
d2jdid3	276	Central domain of beta subunit of F1 ATP synthase	96.14
d1zp6a1	176	Hypothetical protein Atu3015 {Agrobacterium tumefa	96.11
d1e6ca_	170	Shikimate kinase (AroK) {Erwinia chrysanthemi [Tax	96.08
d1yj5a2	172	5' polynucleotide kinase-3' phosphatase, C-termina	96.0
d1ls1a2	207	GTPase domain of the signal sequence recognition p	95.99
d1ye8a1	178	Hypothetical kinase-like protein Aq_1292 {Aquifex	95.95
d1j8yf2	211	GTPase domain of the signal sequence recognition p	95.92
d1bifa1	213	6-phosphofructo-2-kinase/fructose-2,6-bisphosphata	95.91
d1teva_	194	UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]	95.91
d1ckea_	225	CMP kinase {Escherichia coli [TaxId: 562]}	95.91
d1w44a_	321	NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}	95.88
d1vmaa2	213	GTPase domain of the signal recognition particle r	95.84
d1g8pa_	333	ATPase subunit of magnesium chelatase, BchI {Rhodo	95.77
d1sq5a_	308	Pantothenate kinase PanK {Escherichia coli [TaxId:	95.67
d1nksa_	194	Adenylate kinase {Archaeon Sulfolobus acidocaldari	95.62
d1uj2a_	213	Uridine-cytidine kinase 2 {Human (Homo sapiens) [T	95.6
d1zaka1	189	Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}	95.59
d3adka_	194	Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}	95.56
d1io0a_	166	Tropomodulin C-terminal domain {Chicken (Gallus ga	95.55
d1zina1	182	Adenylate kinase {Bacillus stearothermophilus [Tax	95.49
d1q3ta_	223	CMP kinase {Streptococcus pneumoniae [TaxId: 1313]	95.47
d1ak2a1	190	Adenylate kinase {Cow (Bos taurus), mitochondrial	95.47
d1ihua2	279	Arsenite-translocating ATPase ArsA {Escherichia co	95.47
d2ak3a1	189	Adenylate kinase {Cow (Bos taurus), mitochondrial	95.38
d1s3ga1	182	Adenylate kinase {Bacillus globisporus [TaxId: 145	95.34
d2cdna1	181	Adenylate kinase {Mycobacterium tuberculosis [TaxI	95.33
d1r6bx3	315	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	95.29
d1m7ga_	208	Adenosine-5'phosphosulfate kinase (APS kinase) {Fu	95.26
d1lvga_	190	Guanylate kinase {Mouse (Mus musculus) [TaxId: 100	95.25
d1gkya_	186	Guanylate kinase {Baker's yeast (Saccharomyces cer	95.21
d1znwa1	182	Guanylate kinase {Mycobacterium tuberculosis [TaxI	95.12
d1akya1	180	Adenylate kinase {Baker's yeast (Saccharomyces cer	95.01
d1cp2a_	269	Nitrogenase iron protein {Clostridium pasteurianum	94.93
d1e4va1	179	Adenylate kinase {Escherichia coli [TaxId: 562]}	94.92
d1kgda_	178	Guanylate kinase-like domain of Cask {Human (Homo	94.92
d1uf9a_	191	Dephospho-CoA kinase {Thermus thermophilus [TaxId:	94.83
d2qm8a1	323	Metallochaperone MeaB {Methylobacterium extorquens	94.8
d1ihua1	296	Arsenite-translocating ATPase ArsA {Escherichia co	94.74
d1xpua3	289	Transcription termination factor Rho, ATPase domai	94.69
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	94.63
d1tf7a2	242	Circadian clock protein KaiC {Synechococcus sp. st	94.43
d1odfa_	286	Hypothetical protein Ygr205W {Baker's yeast (Sacch	94.39
d1um8a_	364	ClpX {Helicobacter pylori [TaxId: 210]}	94.3
d1fx0a3	276	Central domain of alpha subunit of F1 ATP synthase	94.05
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	93.95
d1ny5a2	247	Transcriptional activator sigm54 (NtrC1), C-termin	93.94
d1g2912	240	Maltose transport protein MalK, N-terminal domain	93.94
d1s96a_	205	Guanylate kinase {Escherichia coli [TaxId: 562]}	93.93
d2awna2	232	Maltose transport protein MalK, N-terminal domain	93.92
d1l2ta_	230	MJ0796 {Archaeon Methanococcus jannaschii [TaxId:	93.92
d2vp4a1	197	Deoxyribonucleoside kinase {Fruit fly (Drosophila	93.87
d1sgwa_	200	Putative ABC transporter PF0895 {Pyrococcus furios	93.81
d3dhwc1	240	Methionine import ATP-binding protein MetN {Escher	93.77
d1v43a3	239	Hypothetical protein PH0022, N-terminal domain {Py	93.75
d1pzna2	254	DNA repair protein Rad51, catalytic domain {Archae	93.66
d1a7ja_	288	Phosphoribulokinase {Rhodobacter sphaeroides [TaxI	93.65
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	93.61
d2pmka1	241	Haemolysin B ATP-binding protein {Escherichia coli	93.53
d2afhe1	289	Nitrogenase iron protein {Azotobacter vinelandii [	93.47
d2onka1	240	Molybdate/tungstate import ATP-binding protein Wtp	93.45
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	93.45
d3b60a1	253	Multidrug resistance ABC transporter MsbA, C-termi	93.43
d3d31a2	229	Sulfate/molybdate ABC transporter, ATP-binding pro	93.39
d1b0ua_	258	ATP-binding subunit of the histidine permease {Sal	93.39
d1nn5a_	209	Thymidylate kinase {Human (Homo sapiens) [TaxId: 9	93.3
d1mv5a_	242	Multidrug resistance ABC transporter LmrA, C-termi	93.25
d1svma_	362	Papillomavirus large T antigen helicase domain {Si	93.24
d1jj7a_	251	Peptide transporter Tap1, C-terminal ABC domain {H	93.2
d1vhta_	208	Dephospho-CoA kinase {Escherichia coli [TaxId: 562	93.18
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	93.16
d1r0wa_	281	Cystic fibrosis transmembrane conductance regulato	93.15
d2ocpa1	241	Deoxyguanosine kinase {Human (Homo sapiens) [TaxId	93.14
d1szpa2	251	DNA repair protein Rad51, catalytic domain {Baker'	93.01
d1jjva_	205	Dephospho-CoA kinase {Haemophilus influenzae [TaxI	92.88
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	92.86
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	92.84
d1oxxk2	242	Glucose transport protein GlcV, N-terminal domain	92.76
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	92.75
d1hyqa_	232	Cell division regulator MinD {Archaeon Archaeoglob	92.73
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	92.65
d1nlfa_	274	Hexameric replicative helicase repA {Escherichia c	92.63
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	92.61
d1htwa_	158	Hypothetical protein HI0065 {Haemophilus influenza	92.4
d1nija1	222	Hypothetical protein YjiA, N-terminal domain {Esch	92.38
d2erxa1	171	di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	92.36
d1v5wa_	258	Meiotic recombination protein DMC1/LIM15 homolog {	92.35
d1p5zb_	241	Deoxycytidine kinase {Human (Homo sapiens) [TaxId:	92.33
d1kaoa_	167	Rap2a {Human (Homo sapiens) [TaxId: 9606]}	92.33
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	92.29
d1gsia_	208	Thymidylate kinase {Mycobacterium tuberculosis [Ta	92.28
d1ji0a_	240	Branched chain aminoacid ABC transporter {Thermoto	92.24
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	92.23
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	92.23
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	92.22
d2ew1a1	171	Rab30 {Human (Homo sapiens) [TaxId: 9606]}	92.21
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	92.2
d1vpla_	238	Putative ABC transporter TM0544 {Thermotoga mariti	92.12
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	92.11
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	92.04
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	92.0
d2erya1	171	r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	91.96
d2gjsa1	168	Rad {Human (Homo sapiens) [TaxId: 9606]}	91.93
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	91.92
d4tmka_	210	Thymidylate kinase {Escherichia coli [TaxId: 562]}	91.92
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	91.92
d1g6ha_	254	MJ1267 {Archaeon Methanococcus jannaschii [TaxId:	91.91
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	91.89
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	91.88
d2jdia3	285	Central domain of alpha subunit of F1 ATP synthase	91.86
d1egaa1	179	GTPase Era, N-terminal domain {Escherichia coli [T	91.8
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	91.78
d1deka_	241	Deoxynucleoside monophosphate kinase {Bacteriophag	91.77
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	91.75
d1c1ya_	167	Rap1A {Human (Homo sapiens) [TaxId: 9606]}	91.7
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	91.68
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	91.62
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	91.56
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	91.55
d1nrjb_	209	Signal recognition particle receptor beta-subunit	91.5
d1kmqa_	177	RhoA {Human (Homo sapiens) [TaxId: 9606]}	91.43
d1n0wa_	242	DNA repair protein Rad51, catalytic domain {Human	91.41
d1l7vc_	231	ABC transporter involved in vitamin B12 uptake, Bt	91.4
d2fh5b1	207	Signal recognition particle receptor beta-subunit	91.32
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	91.26
d2hyda1	255	Putative multidrug export ATP-binding/permease pro	91.24
d1mh1a_	183	Rac {Human (Homo sapiens) [TaxId: 9606]}	91.24
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	91.21
d2atxa1	185	RhoQ {Human (Homo sapiens) [TaxId: 9606]}	91.19
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	91.09
d1g3qa_	237	Cell division regulator MinD {Archaeon Pyrococcus	91.05
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	91.02
d1g41a_	443	HslU {Haemophilus influenzae [TaxId: 727]}	91.01
d2g6ba1	170	Rab26 {Human (Homo sapiens) [TaxId: 9606]}	91.0
d1w36d1	359	Exodeoxyribonuclease V alpha chain (RecD) {Escheri	90.96
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	90.76
d2i1qa2	258	DNA repair protein Rad51, catalytic domain {Archae	90.72
d1u8za_	168	Ras-related protein RalA {Cotton-top tamarin (Sagu	90.69
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	90.65
d1m7ba_	179	RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}	90.54
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	90.52
d1udxa2	180	Obg GTP-binding protein middle domain {Thermus the	90.51
d1wmsa_	174	Rab9a {Human (Homo sapiens) [TaxId: 9606]}	90.48
d1svsa1	195	Transducin (alpha subunit) {Rat (Rattus norvegicus	90.45
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	90.44
d2g3ya1	172	GTP-binding protein GEM {Human (Homo sapiens) [Tax	90.4
d1x1ra1	169	Ras-related protein M-Ras (XRas) {Mouse (Mus muscu	90.33
d2cxxa1	184	GTP-binding protein engB {Pyrococcus horikoshii [T	90.24
d2ngra_	191	CDC42 {Human (Homo sapiens) [TaxId: 9606]}	90.22
d1zcba2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	90.16
d2bmja1	175	Centaurin gamma 1, G domain {Human (Homo sapiens)	90.11
d1tmka_	214	Thymidylate kinase {Baker's yeast (Saccharomyces c	90.07
d2gj8a1	161	Probable tRNA modification GTPase TrmE (MnmE), G d	89.96
d1lnza2	185	Obg GTP-binding protein middle domain {Bacillus su	89.96
d1i2ma_	170	Ran {Human (Homo sapiens) [TaxId: 9606]}	89.92
d1e0sa_	173	ADP-ribosylation factor {Human (Homo sapiens), ARF	89.77
d2bcjq2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	89.77
d1kkma_	176	HPr kinase HprK C-terminal domain {Lactobacillus c	89.5
d1mkya2	186	Probable GTPase Der, N-terminal and middle domains	89.4
d1moza_	182	ADP-ribosylation factor {Baker's yeast (Saccharomy	88.77
d1knxa2	177	HPr kinase HprK C-terminal domain {Mycoplasma pneu	88.77
d2fu5c1	173	Rab8a {Mouse (Mus musculus) [TaxId: 10090]}	88.66
d1puia_	188	Probable GTPase EngB {Escherichia coli [TaxId: 562	88.6
d1ko7a2	169	HPr kinase HprK C-terminal domain {Staphylococcus	88.42
d1azta2	221	Transducin (alpha subunit) {Cow (Bos taurus) [TaxI	88.02
d1p9ra_	401	Extracellular secretion NTPase EpsE {Vibrio choler	87.93
d1byia_	224	Dethiobiotin synthetase {Escherichia coli [TaxId:	87.71
d1xzpa2	160	TrmE GTPase domain {Thermotoga maritima [TaxId: 23	87.64
d2bv3a2	276	Elongation factor G (EF-G), N-terminal (G) domain	87.63
d1cr2a_	277	Gene 4 protein (g4p, DNA primase), helicase domain	87.32
d1p6xa_	333	Thymidine kinase {Equine herpesvirus type 4 [TaxId	87.15
d1tf7a1	242	Circadian clock protein KaiC {Synechococcus sp. st	87.06
d2dy1a2	267	Elongation factor G (EF-G), N-terminal (G) domain	85.9
d1h65a_	257	Chloroplast protein translocon GTPase Toc34 {Garde	85.29
d1osna_	331	Thymidine kinase {Varicella-zoster virus [TaxId: 1	84.26
d1tuea_	205	Replication protein E1 helicase domain {Human papi	84.22
d1g6oa_	323	Hexameric traffic ATPase, HP0525 {Helicobacter pyl	84.17
g1f2t.1	292	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	84.12
d1g7sa4	227	Initiation factor IF2/eIF5b, N-terminal (G) domain	82.93
d1wb1a4	179	Elongation factor SelB, N-terminal domain {Methano	81.9
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	81.69
d1pjra1	318	DEXX box DNA helicase {Bacillus stearothermophilus	80.79

>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=6.8e-40  Score=328.68  Aligned_cols=245  Identities=16%  Similarity=0.123  Sum_probs=196.8

Q ss_pred             CCCcCchHHHHHHHHHhc---CCCceEEEEEcCCCChHHHHHHHHHhhhcC-CCCCcCEEEEEEecCcCCHHHHHHHHHH
Q 038398          126 EPTVGLESTFDKVWRCLG---EEQVGIIGLYGMGGVGKTTLLTKINNKLLG-APNVFDVVIWVVVSKDLQLEKIQEKIGR  201 (720)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~---~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~-~~~~f~~~~wv~v~~~~~~~~~~~~i~~  201 (720)
                      +.+|||+.++++|+++|.   +.+.++|+|+||||+||||||+++|++... ...+|++++||++++.++...+...+..
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            567899999999999984   346789999999999999999999987522 5678999999999999887776655544


Q ss_pred             Hh---CCCCCc-----cCCCChhHHHHHHHHHhccCcEEEEEeccccccccccccccCCCCCCCcEEEEEcCChhHhhhh
Q 038398          202 RI---GFFDES-----WKNGSLEDKTSDILRILGKKKFLLLLDDIWERVDLTKVGIPFPDPENKSKIVFTTHFLEICGAL  273 (720)
Q Consensus       202 ~l---~~~~~~-----~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~~~~l~~~~~~~~~gs~iiiTtR~~~v~~~~  273 (720)
                      .+   +.....     ............+.+.+.++++|+||||||+..+|..+.      ..||+||||||+..++..+
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   221110     011222334446778889999999999999988876542      2479999999999998876


Q ss_pred             ccC-ceeeccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCcchHHHHHHHHHhcCCChhHHHHHHHHHhcc
Q 038398          274 KAH-EFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGLPLALITIGRAMACKKTPQEWHYAIQVLRRS  352 (720)
Q Consensus       274 ~~~-~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~GlPLai~~~~~~l~~~~~~~~w~~~l~~l~~~  352 (720)
                      ... +.|++++|+.+|||+||+.+++...  ..+..++++++|+++|+|+||||+++|+.++. ++.++|....+.+++.
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            544 6799999999999999999887643  33456889999999999999999999999986 6788999988888765


Q ss_pred             cCCCCCCCccchhhHHhhcCCCCCcchhHHHHhh
Q 038398          353 ASEFPGMGKEVYPLLKFSYDSLPDDTIRSYLLYC  386 (720)
Q Consensus       353 ~~~~~~~~~~~~~~l~~sy~~L~~~~~k~~fl~~  386 (720)
                      ..      .++..++.+||++||+ ++|.||.++
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            43      3788999999999999 899999764

>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=99.64  E-value=5.2e-16  Score=153.78  Aligned_cols=197  Identities=21%  Similarity=0.190  Sum_probs=139.5

Q ss_pred             cceeEEEecccccccCCCCCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCccCCccccCCCCCCEEeccC
Q 038398          494 RNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSS  573 (720)
Q Consensus       494 ~~l~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~  573 (720)
                      ..+..++.+++.++.+|..- .+++++|++++|.++.+++..|.++++|++|+|++|++ ..+| .++.+++|++|+|++
T Consensus        10 ~~~~~v~C~~~~L~~iP~~l-p~~l~~L~Ls~N~i~~l~~~~f~~l~~L~~L~L~~N~l-~~l~-~~~~l~~L~~L~Ls~   86 (266)
T d1p9ag_          10 ASHLEVNCDKRNLTALPPDL-PKDTTILHLSENLLYTFSLATLMPYTRLTQLNLDRAEL-TKLQ-VDGTLPVLGTLDLSH   86 (266)
T ss_dssp             TTCCEEECTTSCCSSCCSCC-CTTCCEEECTTSCCSEEEGGGGTTCTTCCEEECTTSCC-CEEE-CCSCCTTCCEEECCS
T ss_pred             CCCeEEEccCCCCCeeCcCc-CcCCCEEECcCCcCCCcCHHHhhccccccccccccccc-cccc-ccccccccccccccc
Confidence            34555677777777776421 15788888888888888877788888888888888844 4555 357788888888888


Q ss_pred             CCCcccchhhhcCCCCCEEeccCCcCCCCCchhhhhccccCceeeccccCCCcccchhcccccCCccccHHHhcCCCCCc
Q 038398          574 TAITHLPIELQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKINVLFGGHQFLVEELMGMKHLM  653 (720)
Q Consensus       574 ~~i~~lp~~i~~l~~L~~L~l~~~~~l~~lp~~~~~~l~~L~~L~~~~~~~~~l~~l~~~~~~~~~~~~~~~l~~l~~L~  653 (720)
                      |+++..|..+.++++|+.|++++| .+..++...+..+.+++.|.+.+   |.+..++.           ..+..++.|+
T Consensus        87 N~l~~~~~~~~~l~~L~~L~l~~~-~~~~~~~~~~~~l~~l~~L~l~~---n~l~~l~~-----------~~~~~l~~l~  151 (266)
T d1p9ag_          87 NQLQSLPLLGQTLPALTVLDVSFN-RLTSLPLGALRGLGELQELYLKG---NELKTLPP-----------GLLTPTPKLE  151 (266)
T ss_dssp             SCCSSCCCCTTTCTTCCEEECCSS-CCCCCCSSTTTTCTTCCEEECTT---SCCCCCCT-----------TTTTTCTTCC
T ss_pred             cccccccccccccccccccccccc-ccceeeccccccccccccccccc---cccceecc-----------ccccccccch
Confidence            888888888888888888888874 45566655566677777776654   44433322           1244567788


Q ss_pred             eeEEEecchhhHHHHhhhhhhhhhccccccccccCCCccccccccccCCcceeeecCCC
Q 038398          654 VLTITLKSWQALKELLISQELQRSTQSLFLRCFNDSKSLDIFCLAGLRNLNKLYVAGCK  712 (720)
Q Consensus       654 ~L~~~~~~~~~l~~l~~~~~~~~~L~~L~l~~~~~l~~l~~~~l~~l~~L~~L~l~~c~  712 (720)
                      .+.++.|.+..+..  ..+..+++|+.|+|++ |.++.+| ..+..+++|+.|+|++||
T Consensus       152 ~l~l~~N~l~~~~~--~~~~~l~~L~~L~Ls~-N~L~~lp-~~~~~~~~L~~L~L~~Np  206 (266)
T d1p9ag_         152 KLSLANNNLTELPA--GLLNGLENLDTLLLQE-NSLYTIP-KGFFGSHLLPFAFLHGNP  206 (266)
T ss_dssp             EEECTTSCCSCCCT--TTTTTCTTCCEEECCS-SCCCCCC-TTTTTTCCCSEEECCSCC
T ss_pred             hcccccccccccCc--cccccccccceeeccc-CCCcccC-hhHCCCCCCCEEEecCCC
Confidence            88888777654431  2344556888888887 5577887 455678888889998876

>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=99.58  E-value=7.5e-15  Score=146.91  Aligned_cols=217  Identities=22%  Similarity=0.256  Sum_probs=171.5

Q ss_pred             EEEcCCCCccCcccccccceeEEEecccccccCCC--CCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCc
Q 038398          477 LVHAGLGLTEAPEIQNWRNVRRMSLMKNKIENLSE--TPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLW  554 (720)
Q Consensus       477 ~~~~~~~~~~~~~~~~~~~l~~L~l~~~~~~~~~~--~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~  554 (720)
                      +...+.+...+|.. -.++++.|+|++|.++.++.  +.++++|+.|++++|.+..+++..+..+..++.++...+..+.
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            44445455566542 23578999999999998875  5789999999999999999988888899999999887655555


Q ss_pred             cC-CccccCCCCCCEEeccCCCCcccch-hhhcCCCCCEEeccCCcCCCCCchhhhhccccCceeeccccCCCcccchhc
Q 038398          555 KL-PSGISTLVSLEHLDLSSTAITHLPI-ELQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKI  632 (720)
Q Consensus       555 ~l-p~~i~~l~~L~~L~L~~~~i~~lp~-~i~~l~~L~~L~l~~~~~l~~lp~~~~~~l~~L~~L~~~~~~~~~l~~l~~  632 (720)
                      .+ |..+.++++|++|++++|.+..++. .+..+++|+.+++++ +.++.+|...+..+++|++|++.+   |.+..++.
T Consensus        95 ~l~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~~~L~~l~l~~-N~l~~i~~~~f~~~~~L~~L~l~~---N~l~~l~~  170 (284)
T d1ozna_          95 SVDPATFHGLGRLHTLHLDRCGLQELGPGLFRGLAALQYLYLQD-NALQALPDDTFRDLGNLTHLFLHG---NRISSVPE  170 (284)
T ss_dssp             CCCTTTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECCS-SCCCCCCTTTTTTCTTCCEEECCS---SCCCEECT
T ss_pred             cccchhhcccccCCEEecCCcccccccccccchhcccchhhhcc-ccccccChhHhccccchhhccccc---Ccccccch
Confidence            55 6779999999999999999887754 477789999999998 678889877788888888888765   44443332


Q ss_pred             ccccCCccccHHHhcCCCCCceeEEEecchhhHHHHhhhhhhhhhccccccccccCCCccccccccccCCcceeeecCCC
Q 038398          633 NVLFGGHQFLVEELMGMKHLMVLTITLKSWQALKELLISQELQRSTQSLFLRCFNDSKSLDIFCLAGLRNLNKLYVAGCK  712 (720)
Q Consensus       633 ~~~~~~~~~~~~~l~~l~~L~~L~~~~~~~~~l~~l~~~~~~~~~L~~L~l~~~~~l~~l~~~~l~~l~~L~~L~l~~c~  712 (720)
                                 ..+.++++|+.+.+..|....+.  +..+..+++|+.|++++ +.+..++...|.++++|+.|+|++|+
T Consensus       171 -----------~~f~~l~~L~~l~l~~N~l~~i~--~~~f~~l~~L~~L~l~~-N~i~~~~~~~~~~~~~L~~L~l~~N~  236 (284)
T d1ozna_         171 -----------RAFRGLHSLDRLLLHQNRVAHVH--PHAFRDLGRLMTLYLFA-NNLSALPTEALAPLRALQYLRLNDNP  236 (284)
T ss_dssp             -----------TTTTTCTTCCEEECCSSCCCEEC--TTTTTTCTTCCEEECCS-SCCSCCCHHHHTTCTTCCEEECCSSC
T ss_pred             -----------hhhccccccchhhhhhccccccC--hhHhhhhhhcccccccc-cccccccccccccccccCEEEecCCC
Confidence                       23567889999999988776543  34456667999999998 66788887789999999999999976

>d1h6ua2 c.10.2.1 (A:36-262) Internalin H {Listeria monocytogenes [TaxId: 1639]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin H
species: Listeria monocytogenes [TaxId: 1639]

Probab=99.54  E-value=2.3e-14  Score=138.12  Aligned_cols=194  Identities=19%  Similarity=0.261  Sum_probs=155.8

Q ss_pred             cCcccccccceeEEEecccccccCCCCCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCccCCccccCCCC
Q 038398          486 EAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVS  565 (720)
Q Consensus       486 ~~~~~~~~~~l~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~  565 (720)
                      +......+.+|+.|++.+|.++.++.+..+++|++|++++|.+..+.+  +.++++|+++++++|.. ..++ .+..+++
T Consensus        33 d~~~~~~l~~L~~L~l~~~~i~~l~~l~~l~~L~~L~ls~n~i~~~~~--l~~l~~l~~l~~~~n~~-~~i~-~l~~l~~  108 (227)
T d1h6ua2          33 DTVTQADLDGITTLSAFGTGVTTIEGVQYLNNLIGLELKDNQITDLAP--LKNLTKITELELSGNPL-KNVS-AIAGLQS  108 (227)
T ss_dssp             SEECHHHHHTCCEEECTTSCCCCCTTGGGCTTCCEEECCSSCCCCCGG--GTTCCSCCEEECCSCCC-SCCG-GGTTCTT
T ss_pred             CcCCHHHcCCcCEEECCCCCCCcchhHhcCCCCcEeecCCceeecccc--ccccccccccccccccc-cccc-ccccccc
Confidence            344556788999999999999999888899999999999999988775  89999999999999954 4555 6889999


Q ss_pred             CCEEeccCCCCcccchhhhcCCCCCEEeccCCcCCCCCchhhhhccccCceeeccccCCCcccchhcccccCCccccHHH
Q 038398          566 LEHLDLSSTAITHLPIELQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKINVLFGGHQFLVEE  645 (720)
Q Consensus       566 L~~L~L~~~~i~~lp~~i~~l~~L~~L~l~~~~~l~~lp~~~~~~l~~L~~L~~~~~~~~~l~~l~~~~~~~~~~~~~~~  645 (720)
                      |+++.++++....++ .+...+.+..+.+++| .+...+.  +..+++|+.|.+.++....                ...
T Consensus       109 L~~l~l~~~~~~~~~-~~~~~~~~~~l~~~~~-~~~~~~~--~~~~~~L~~L~l~~n~~~~----------------~~~  168 (227)
T d1h6ua2         109 IKTLDLTSTQITDVT-PLAGLSNLQVLYLDLN-QITNISP--LAGLTNLQYLSIGNAQVSD----------------LTP  168 (227)
T ss_dssp             CCEEECTTSCCCCCG-GGTTCTTCCEEECCSS-CCCCCGG--GGGCTTCCEEECCSSCCCC----------------CGG
T ss_pred             ccccccccccccccc-hhccccchhhhhchhh-hhchhhh--hcccccccccccccccccc----------------chh
Confidence            999999999888765 3677899999999885 3444444  6788889998887643221                123


Q ss_pred             hcCCCCCceeEEEecchhhHHHHhhhhhhhhhccccccccccCCCccccccccccCCcceeeecC
Q 038398          646 LMGMKHLMVLTITLKSWQALKELLISQELQRSTQSLFLRCFNDSKSLDIFCLAGLRNLNKLYVAG  710 (720)
Q Consensus       646 l~~l~~L~~L~~~~~~~~~l~~l~~~~~~~~~L~~L~l~~~~~l~~l~~~~l~~l~~L~~L~l~~  710 (720)
                      +.++++|+.|++++|.+..++.    ...+++|+.|++++| .++.++  .+.++++|+.|+|++
T Consensus       169 l~~l~~L~~L~Ls~n~l~~l~~----l~~l~~L~~L~Ls~N-~lt~i~--~l~~l~~L~~L~lsn  226 (227)
T d1h6ua2         169 LANLSKLTTLKADDNKISDISP----LASLPNLIEVHLKNN-QISDVS--PLANTSNLFIVTLTN  226 (227)
T ss_dssp             GTTCTTCCEEECCSSCCCCCGG----GGGCTTCCEEECTTS-CCCBCG--GGTTCTTCCEEEEEE
T ss_pred             hcccccceecccCCCccCCChh----hcCCCCCCEEECcCC-cCCCCc--ccccCCCCCEEEeeC
Confidence            6778999999999988776543    344569999999996 588877  689999999999974

>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=99.53  E-value=8.7e-14  Score=145.51  Aligned_cols=226  Identities=19%  Similarity=0.267  Sum_probs=140.1

Q ss_pred             EEEcCCCCccCcccccccceeEEEecccccccCCCCCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCcc-
Q 038398          477 LVHAGLGLTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWK-  555 (720)
Q Consensus       477 ~~~~~~~~~~~~~~~~~~~l~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~-  555 (720)
                      +...+.+...++.+..+++|++|++++|.++.++.+.++++|++|++++|.+..+++  +.++++|+.|+++++...+. 
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~~~~~~~~~~~  126 (384)
T d2omza2          49 LQADRLGIKSIDGVEYLNNLTQINFSNNQLTDITPLKNLTKLVDILMNNNQIADITP--LANLTNLTGLTLFNNQITDID  126 (384)
T ss_dssp             EECCSSCCCCCTTGGGCTTCCEEECCSSCCCCCGGGTTCTTCCEEECCSSCCCCCGG--GTTCTTCCEEECCSSCCCCCG
T ss_pred             EECCCCCCCCccccccCCCCCEEeCcCCcCCCCccccCCcccccccccccccccccc--ccccccccccccccccccccc
Confidence            444455555666778888999999999999888888889999999999998877765  77888888888876643210 


Q ss_pred             --------------------------------------------------------------CCcc--------------
Q 038398          556 --------------------------------------------------------------LPSG--------------  559 (720)
Q Consensus       556 --------------------------------------------------------------lp~~--------------  559 (720)
                                                                                    .+..              
T Consensus       127 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~l~l~~  206 (384)
T d2omza2         127 PLKNLTNLNRLELSSNTISDISALSGLTSLQQLSFGNQVTDLKPLANLTTLERLDISSNKVSDISVLAKLTNLESLIATN  206 (384)
T ss_dssp             GGTTCTTCSEEEEEEEEECCCGGGTTCTTCSEEEEEESCCCCGGGTTCTTCCEEECCSSCCCCCGGGGGCTTCSEEECCS
T ss_pred             cccccccccccccccccccccccccccccccccccccccchhhhhccccccccccccccccccccccccccccceeeccC
Confidence                                                                          0011              


Q ss_pred             --------ccCCCCCCEEeccCCCCcccchhhhcCCCCCEEeccCCcCCCCCchhhhhccccCceeeccccCCCcccchh
Q 038398          560 --------ISTLVSLEHLDLSSTAITHLPIELQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLK  631 (720)
Q Consensus       560 --------i~~l~~L~~L~L~~~~i~~lp~~i~~l~~L~~L~l~~~~~l~~lp~~~~~~l~~L~~L~~~~~~~~~l~~l~  631 (720)
                              ++..++|++|++++|.++.+| .+..+++|+.|++++| .+..++.  ++.+++|++|.+.++....+..+.
T Consensus       207 n~i~~~~~~~~~~~L~~L~l~~n~l~~~~-~l~~l~~L~~L~l~~n-~l~~~~~--~~~~~~L~~L~l~~~~l~~~~~~~  282 (384)
T d2omza2         207 NQISDITPLGILTNLDELSLNGNQLKDIG-TLASLTNLTDLDLANN-QISNLAP--LSGLTKLTELKLGANQISNISPLA  282 (384)
T ss_dssp             SCCCCCGGGGGCTTCCEEECCSSCCCCCG-GGGGCTTCSEEECCSS-CCCCCGG--GTTCTTCSEEECCSSCCCCCGGGT
T ss_pred             CccCCCCcccccCCCCEEECCCCCCCCcc-hhhcccccchhccccC-ccCCCCc--ccccccCCEeeccCcccCCCCccc
Confidence                    122345566666666665554 4556666666666663 4555554  566666666666543322221111


Q ss_pred             cc------cccCCccccHHHhcCCCCCceeEEEecchhhHHHHhhhhhhhhhccccccccccCCCccccccccccCCcce
Q 038398          632 IN------VLFGGHQFLVEELMGMKHLMVLTITLKSWQALKELLISQELQRSTQSLFLRCFNDSKSLDIFCLAGLRNLNK  705 (720)
Q Consensus       632 ~~------~~~~~~~~~~~~l~~l~~L~~L~~~~~~~~~l~~l~~~~~~~~~L~~L~l~~~~~l~~l~~~~l~~l~~L~~  705 (720)
                      ..      ......-..+..+..+++++.|.++.+.+..+..    ...+++|+.|++++| .++.++  .+.++++|+.
T Consensus       283 ~~~~l~~l~~~~n~l~~~~~~~~~~~l~~L~ls~n~l~~l~~----l~~l~~L~~L~L~~n-~l~~l~--~l~~l~~L~~  355 (384)
T d2omza2         283 GLTALTNLELNENQLEDISPISNLKNLTYLTLYFNNISDISP----VSSLTKLQRLFFANN-KVSDVS--SLANLTNINW  355 (384)
T ss_dssp             TCTTCSEEECCSSCCSCCGGGGGCTTCSEEECCSSCCSCCGG----GGGCTTCCEEECCSS-CCCCCG--GGGGCTTCCE
T ss_pred             cccccccccccccccccccccchhcccCeEECCCCCCCCCcc----cccCCCCCEEECCCC-CCCCCh--hHcCCCCCCE
Confidence            00      0000001113345667777777777776665432    334567888888875 566665  5777888888


Q ss_pred             eeecCCCCCcc
Q 038398          706 LYVAGCKHLED  716 (720)
Q Consensus       706 L~l~~c~~l~~  716 (720)
                      |++++|+ ++.
T Consensus       356 L~l~~N~-l~~  365 (384)
T d2omza2         356 LSAGHNQ-ISD  365 (384)
T ss_dssp             EECCSSC-CCB
T ss_pred             EECCCCc-CCC
Confidence            8887774 443

>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=99.51  E-value=9.2e-14  Score=140.42  Aligned_cols=232  Identities=18%  Similarity=0.215  Sum_probs=132.0

Q ss_pred             ccEEEEcCCCCccCcccccccceeEEEecccccccCCC--CCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCC
Q 038398          474 ENFLVHAGLGLTEAPEIQNWRNVRRMSLMKNKIENLSE--TPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNH  551 (720)
Q Consensus       474 ~~~~~~~~~~~~~~~~~~~~~~l~~L~l~~~~~~~~~~--~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~  551 (720)
                      ...+...+.+..++|.- -.+++++|++++|.++.++.  +.++++|++|++++|.+..+++..|.++++|++|++++|+
T Consensus        12 ~~~~~C~~~~L~~lP~~-l~~~l~~L~Ls~N~i~~l~~~~f~~l~~L~~L~l~~n~~~~i~~~~f~~l~~L~~L~l~~n~   90 (305)
T d1xkua_          12 LRVVQCSDLGLEKVPKD-LPPDTALLDLQNNKITEIKDGDFKNLKNLHTLILINNKISKISPGAFAPLVKLERLYLSKNQ   90 (305)
T ss_dssp             TTEEECTTSCCCSCCCS-CCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSSC
T ss_pred             CCEEEecCCCCCccCCC-CCCCCCEEECcCCcCCCcChhHhhccccccccccccccccccchhhhhCCCccCEecccCCc
Confidence            34566666667776652 24689999999999998874  5789999999999999999988889999999999999995


Q ss_pred             CCccCCccccCCCCCCEEeccCCCCcccchh-hhcCCCCCEEeccCCcCCC-CCchhhhhccccCceeeccccCCCcccc
Q 038398          552 LLWKLPSGISTLVSLEHLDLSSTAITHLPIE-LQKLVNLKCLNLEYMNNLN-QFPRLVISAFSKLQVLRMFDCGGSKIER  629 (720)
Q Consensus       552 ~~~~lp~~i~~l~~L~~L~L~~~~i~~lp~~-i~~l~~L~~L~l~~~~~l~-~lp~~~~~~l~~L~~L~~~~~~~~~l~~  629 (720)
                       +..+|..+  ...|+.|.+..|.+..++.. +.....+..++...+.... ......+..+++|+.+.+.++   .+..
T Consensus        91 -l~~l~~~~--~~~l~~L~~~~n~l~~l~~~~~~~~~~~~~l~~~~n~~~~~~~~~~~~~~l~~L~~l~l~~n---~l~~  164 (305)
T d1xkua_          91 -LKELPEKM--PKTLQELRVHENEITKVRKSVFNGLNQMIVVELGTNPLKSSGIENGAFQGMKKLSYIRIADT---NITT  164 (305)
T ss_dssp             -CSBCCSSC--CTTCCEEECCSSCCCBBCHHHHTTCTTCCEEECCSSCCCGGGBCTTGGGGCTTCCEEECCSS---CCCS
T ss_pred             -cCcCccch--hhhhhhhhccccchhhhhhhhhhccccccccccccccccccCCCccccccccccCccccccC---Cccc
Confidence             45677543  35777888877777766543 3344445555544421100 001111333333443333332   2222


Q ss_pred             hhcccccC----------CccccHHHhcCCCCCceeEEEecchhhHHHHhhhhhhhhhccccccccccCCCccccccccc
Q 038398          630 LKINVLFG----------GHQFLVEELMGMKHLMVLTITLKSWQALKELLISQELQRSTQSLFLRCFNDSKSLDIFCLAG  699 (720)
Q Consensus       630 l~~~~~~~----------~~~~~~~~l~~l~~L~~L~~~~~~~~~l~~l~~~~~~~~~L~~L~l~~~~~l~~l~~~~l~~  699 (720)
                      ++...+..          ........+.+++.++.|.++.+.+..+..  .....+++|+.|+|+++ .++.+| ..+.+
T Consensus       165 l~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~l~~L~~s~n~l~~~~~--~~~~~l~~L~~L~L~~N-~L~~lp-~~l~~  240 (305)
T d1xkua_         165 IPQGLPPSLTELHLDGNKITKVDAASLKGLNNLAKLGLSFNSISAVDN--GSLANTPHLRELHLNNN-KLVKVP-GGLAD  240 (305)
T ss_dssp             CCSSCCTTCSEEECTTSCCCEECTGGGTTCTTCCEEECCSSCCCEECT--TTGGGSTTCCEEECCSS-CCSSCC-TTTTT
T ss_pred             cCcccCCccCEEECCCCcCCCCChhHhhcccccccccccccccccccc--ccccccccceeeecccc-cccccc-ccccc
Confidence            21111100          011122334455555555555554443321  12223345566666553 445554 34555


Q ss_pred             cCCcceeeecCCCCCccc
Q 038398          700 LRNLNKLYVAGCKHLEDS  717 (720)
Q Consensus       700 l~~L~~L~l~~c~~l~~i  717 (720)
                      +++|+.|+|++|. |+.|
T Consensus       241 l~~L~~L~Ls~N~-i~~i  257 (305)
T d1xkua_         241 HKYIQVVYLHNNN-ISAI  257 (305)
T ss_dssp             CSSCCEEECCSSC-CCCC
T ss_pred             ccCCCEEECCCCc-cCcc
Confidence            5566666665553 4433

>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=99.50  E-value=2.8e-14  Score=135.47  Aligned_cols=166  Identities=22%  Similarity=0.313  Sum_probs=100.8

Q ss_pred             cccceeEEEecccccccCCCCCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCccCCccccCCCCCCEEec
Q 038398          492 NWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDL  571 (720)
Q Consensus       492 ~~~~l~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L  571 (720)
                      .+.++++|++++|.+..++.+..+++|++|++++|.++.+++  +..+++|++|++++|++ ..+| .+..+++|+.|++
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--LANLKNLGWLFLDENKV-KDLS-SLKDLKKLKSLSL  119 (210)
T ss_dssp             HHHTCCEEECTTSCCCCCTTGGGCTTCCEEECCSSCCCCCGG--GTTCTTCCEEECCSSCC-CCGG-GGTTCTTCCEEEC
T ss_pred             HhcCccEEECcCCCCCCchhHhhCCCCCEEeCCCccccCccc--cccCccccccccccccc-cccc-ccccccccccccc
Confidence            455677777777777666666666777777777776666554  46667777777776643 3444 4666677777777


Q ss_pred             cCCCCcccchhhhcCCCCCEEeccCCcCCCCCchhhhhccccCceeeccccCCCcccchhcccccCCccccHHHhcCCCC
Q 038398          572 SSTAITHLPIELQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKINVLFGGHQFLVEELMGMKH  651 (720)
Q Consensus       572 ~~~~i~~lp~~i~~l~~L~~L~l~~~~~l~~lp~~~~~~l~~L~~L~~~~~~~~~l~~l~~~~~~~~~~~~~~~l~~l~~  651 (720)
                      ++|.+..++ .+.++++|+.+++++| .+..++.  ++.+++|+.+.+.+                              
T Consensus       120 ~~~~~~~~~-~l~~l~~l~~l~~~~n-~l~~~~~--~~~l~~L~~l~l~~------------------------------  165 (210)
T d1h6ta2         120 EHNGISDIN-GLVHLPQLESLYLGNN-KITDITV--LSRLTKLDTLSLED------------------------------  165 (210)
T ss_dssp             TTSCCCCCG-GGGGCTTCCEEECCSS-CCCCCGG--GGGCTTCSEEECCS------------------------------
T ss_pred             ccccccccc-cccccccccccccccc-ccccccc--cccccccccccccc------------------------------
Confidence            776666554 3666667777776663 3444443  44555555554443                              


Q ss_pred             CceeEEEecchhhHHHHhhhhhhhhhccccccccccCCCccccccccccCCcceeeecC
Q 038398          652 LMVLTITLKSWQALKELLISQELQRSTQSLFLRCFNDSKSLDIFCLAGLRNLNKLYVAG  710 (720)
Q Consensus       652 L~~L~~~~~~~~~l~~l~~~~~~~~~L~~L~l~~~~~l~~l~~~~l~~l~~L~~L~l~~  710 (720)
                              +.+..+..    ...+++|+.|++++| .++.++  .+.++++|+.|+|++
T Consensus       166 --------n~l~~i~~----l~~l~~L~~L~Ls~N-~i~~l~--~l~~l~~L~~L~Ls~  209 (210)
T d1h6ta2         166 --------NQISDIVP----LAGLTKLQNLYLSKN-HISDLR--ALAGLKNLDVLELFS  209 (210)
T ss_dssp             --------SCCCCCGG----GTTCTTCCEEECCSS-CCCBCG--GGTTCTTCSEEEEEE
T ss_pred             --------cccccccc----ccCCCCCCEEECCCC-CCCCCh--hhcCCCCCCEEEccC
Confidence                    32222111    122346677777763 466665  677888888888864

>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=99.48  E-value=1.4e-14  Score=147.05  Aligned_cols=220  Identities=15%  Similarity=0.123  Sum_probs=131.2

Q ss_pred             cccccccceeEEEecc-cccc-cCCC-CCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCccCCccccCCC
Q 038398          488 PEIQNWRNVRRMSLMK-NKIE-NLSE-TPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLV  564 (720)
Q Consensus       488 ~~~~~~~~l~~L~l~~-~~~~-~~~~-~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~  564 (720)
                      +.+.++++|++|++++ |.+. .+|. +.++++|++|++++|.+..+++..+..+.+|+++++++|.....+|..+++++
T Consensus        70 ~~l~~L~~L~~L~Ls~~N~l~g~iP~~i~~L~~L~~L~Ls~N~l~~~~~~~~~~~~~L~~l~l~~N~~~~~~p~~l~~l~  149 (313)
T d1ogqa_          70 SSLANLPYLNFLYIGGINNLVGPIPPAIAKLTQLHYLYITHTNVSGAIPDFLSQIKTLVTLDFSYNALSGTLPPSISSLP  149 (313)
T ss_dssp             GGGGGCTTCSEEEEEEETTEESCCCGGGGGCTTCSEEEEEEECCEEECCGGGGGCTTCCEEECCSSEEESCCCGGGGGCT
T ss_pred             hHHhcCccccccccccccccccccccccccccccchhhhccccccccccccccchhhhcccccccccccccCchhhccCc
Confidence            4667777888888875 5554 3543 46777888888888877777766677777888888887777777777788888


Q ss_pred             CCCEEeccCCCCc-ccchhhhcCCCC-CEEeccCCcCCCCCchhhhhccccCceeeccccCCCcccchhcc---------
Q 038398          565 SLEHLDLSSTAIT-HLPIELQKLVNL-KCLNLEYMNNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKIN---------  633 (720)
Q Consensus       565 ~L~~L~L~~~~i~-~lp~~i~~l~~L-~~L~l~~~~~l~~lp~~~~~~l~~L~~L~~~~~~~~~l~~l~~~---------  633 (720)
                      +|+++++++|.++ .+|..+..+.++ +.+++++| .+...+...++.+..+ .+.+..+....  .++..         
T Consensus       150 ~L~~l~l~~n~l~~~ip~~~~~l~~l~~~l~~~~n-~l~~~~~~~~~~l~~~-~l~l~~~~~~~--~~~~~~~~~~~l~~  225 (313)
T d1ogqa_         150 NLVGITFDGNRISGAIPDSYGSFSKLFTSMTISRN-RLTGKIPPTFANLNLA-FVDLSRNMLEG--DASVLFGSDKNTQK  225 (313)
T ss_dssp             TCCEEECCSSCCEEECCGGGGCCCTTCCEEECCSS-EEEEECCGGGGGCCCS-EEECCSSEEEE--CCGGGCCTTSCCSE
T ss_pred             ccceeeccccccccccccccccccccccccccccc-cccccccccccccccc-ccccccccccc--cccccccccccccc
Confidence            8888888877766 667777777665 66776663 3332222223333221 23322211100  00000         


Q ss_pred             -ccc-CCccccHHHhcCCCCCceeEEEecchhhHHHHhhhhhhhhhccccccccccCCC-ccccccccccCCcceeeecC
Q 038398          634 -VLF-GGHQFLVEELMGMKHLMVLTITLKSWQALKELLISQELQRSTQSLFLRCFNDSK-SLDIFCLAGLRNLNKLYVAG  710 (720)
Q Consensus       634 -~~~-~~~~~~~~~l~~l~~L~~L~~~~~~~~~l~~l~~~~~~~~~L~~L~l~~~~~l~-~l~~~~l~~l~~L~~L~l~~  710 (720)
                       ... ......+..+..+++|+.|+++.|.+..  .++.....+++|+.|+|+++ .++ .+|  .++++++|+.+++++
T Consensus       226 l~~~~~~l~~~~~~~~~~~~L~~L~Ls~N~l~g--~iP~~l~~L~~L~~L~Ls~N-~l~g~iP--~~~~L~~L~~l~l~~  300 (313)
T d1ogqa_         226 IHLAKNSLAFDLGKVGLSKNLNGLDLRNNRIYG--TLPQGLTQLKFLHSLNVSFN-NLCGEIP--QGGNLQRFDVSAYAN  300 (313)
T ss_dssp             EECCSSEECCBGGGCCCCTTCCEEECCSSCCEE--CCCGGGGGCTTCCEEECCSS-EEEEECC--CSTTGGGSCGGGTCS
T ss_pred             cccccccccccccccccccccccccCccCeecc--cCChHHhCCCCCCEEECcCC-cccccCC--CcccCCCCCHHHhCC
Confidence             000 0011123345666777777777776652  23344445567777777763 343 455  456677777777777


Q ss_pred             CCCCcc
Q 038398          711 CKHLED  716 (720)
Q Consensus       711 c~~l~~  716 (720)
                      |+.+.-
T Consensus       301 N~~l~g  306 (313)
T d1ogqa_         301 NKCLCG  306 (313)
T ss_dssp             SSEEES
T ss_pred             CccccC
Confidence            776543

>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=99.47  E-value=7.8e-14  Score=131.18  Aligned_cols=124  Identities=22%  Similarity=0.300  Sum_probs=85.8

Q ss_pred             cccccceeEEEecccccccCCCCCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCccCCccccCCCCCCEE
Q 038398          490 IQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVSLEHL  569 (720)
Q Consensus       490 ~~~~~~l~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L  569 (720)
                      ...+.+++.|++.+|.+..++.+..+++|++|++++|.++.+++  +.++++|++|++++|.. ..+| .++++++|++|
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--LKNLTKLVDILMNNNQI-ADIT-PLANLTNLTGL  111 (199)
T ss_dssp             HHHHTTCCEEECTTSCCCCCTTGGGCTTCCEEECCSSCCCCCGG--GTTCTTCCEEECCSSCC-CCCG-GGTTCTTCSEE
T ss_pred             HHHhcCCCEEECCCCCCCCccccccCCCcCcCccccccccCccc--ccCCccccccccccccc-cccc-ccccccccccc
Confidence            34566777888888877777666677777888887777777664  67777777777777743 3444 36777777777


Q ss_pred             eccCCCCcccchhhhcCCCCCEEeccCCcCCCCCchhhhhccccCceeeccc
Q 038398          570 DLSSTAITHLPIELQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFD  621 (720)
Q Consensus       570 ~L~~~~i~~lp~~i~~l~~L~~L~l~~~~~l~~lp~~~~~~l~~L~~L~~~~  621 (720)
                      ++++|.+..++ .+..+++|+.|++++| .+..+|.  +..+++|+.|.+.+
T Consensus       112 ~l~~~~~~~~~-~~~~l~~L~~L~l~~n-~l~~~~~--l~~~~~L~~L~l~~  159 (199)
T d2omxa2         112 TLFNNQITDID-PLKNLTNLNRLELSSN-TISDISA--LSGLTSLQQLNFSS  159 (199)
T ss_dssp             ECCSSCCCCCG-GGTTCTTCSEEECCSS-CCCCCGG--GTTCTTCSEEECCS
T ss_pred             ccccccccccc-ccchhhhhHHhhhhhh-hhccccc--cccccccccccccc
Confidence            77777766654 3667777777777773 4555554  56666666666554

>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=1e-13  Score=131.47  Aligned_cols=160  Identities=26%  Similarity=0.386  Sum_probs=132.2

Q ss_pred             EEEEcCCCCccCcccccccceeEEEecccccccCCCCCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCcc
Q 038398          476 FLVHAGLGLTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWK  555 (720)
Q Consensus       476 ~~~~~~~~~~~~~~~~~~~~l~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~  555 (720)
                      .+...+.....++.+..+++|++|++++|.+..++....+++|++|++++|.++.++.  +.++++|+.|++++|.. ..
T Consensus        50 ~L~l~~~~i~~l~~l~~l~~L~~L~L~~n~i~~l~~~~~l~~L~~L~l~~n~i~~l~~--l~~l~~L~~L~l~~~~~-~~  126 (210)
T d1h6ta2          50 QIIANNSDIKSVQGIQYLPNVTKLFLNGNKLTDIKPLANLKNLGWLFLDENKVKDLSS--LKDLKKLKSLSLEHNGI-SD  126 (210)
T ss_dssp             EEECTTSCCCCCTTGGGCTTCCEEECCSSCCCCCGGGTTCTTCCEEECCSSCCCCGGG--GTTCTTCCEEECTTSCC-CC
T ss_pred             EEECcCCCCCCchhHhhCCCCCEEeCCCccccCccccccCcccccccccccccccccc--ccccccccccccccccc-cc
Confidence            4555566666677788999999999999999999888899999999999999988764  88999999999999954 34


Q ss_pred             CCccccCCCCCCEEeccCCCCcccchhhhcCCCCCEEeccCCcCCCCCchhhhhccccCceeeccccCCCcccchhcccc
Q 038398          556 LPSGISTLVSLEHLDLSSTAITHLPIELQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKINVL  635 (720)
Q Consensus       556 lp~~i~~l~~L~~L~L~~~~i~~lp~~i~~l~~L~~L~l~~~~~l~~lp~~~~~~l~~L~~L~~~~~~~~~l~~l~~~~~  635 (720)
                      ++ .+..+++|+.+++++|.++.++ .+..+++|+.+++++| .+..++.  ++.+++|+.|++.+   |.++++     
T Consensus       127 ~~-~l~~l~~l~~l~~~~n~l~~~~-~~~~l~~L~~l~l~~n-~l~~i~~--l~~l~~L~~L~Ls~---N~i~~l-----  193 (210)
T d1h6ta2         127 IN-GLVHLPQLESLYLGNNKITDIT-VLSRLTKLDTLSLEDN-QISDIVP--LAGLTKLQNLYLSK---NHISDL-----  193 (210)
T ss_dssp             CG-GGGGCTTCCEEECCSSCCCCCG-GGGGCTTCSEEECCSS-CCCCCGG--GTTCTTCCEEECCS---SCCCBC-----
T ss_pred             cc-cccccccccccccccccccccc-cccccccccccccccc-ccccccc--ccCCCCCCEEECCC---CCCCCC-----
Confidence            44 6889999999999999998765 5788999999999995 6777876  78899999988765   444322     


Q ss_pred             cCCccccHHHhcCCCCCceeEEEe
Q 038398          636 FGGHQFLVEELMGMKHLMVLTITL  659 (720)
Q Consensus       636 ~~~~~~~~~~l~~l~~L~~L~~~~  659 (720)
                              ..+.++++|+.|+++.
T Consensus       194 --------~~l~~l~~L~~L~Ls~  209 (210)
T d1h6ta2         194 --------RALAGLKNLDVLELFS  209 (210)
T ss_dssp             --------GGGTTCTTCSEEEEEE
T ss_pred             --------hhhcCCCCCCEEEccC
Confidence                    2377889999999874

>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=99.46  E-value=1.4e-13  Score=129.43  Aligned_cols=176  Identities=20%  Similarity=0.262  Sum_probs=126.3

Q ss_pred             EecccccccCCCCCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCccCCccccCCCCCCEEeccCCCCccc
Q 038398          500 SLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSSTAITHL  579 (720)
Q Consensus       500 ~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~~~i~~l  579 (720)
                      .+..+.+.+......+++++.|++++|.++.+..  +..+++|++|++++|++. .++ .++++++|++|++++|.+..+
T Consensus        24 ~l~~~~~~~~~~~~~l~~l~~L~l~~~~i~~l~~--l~~l~nL~~L~Ls~N~l~-~~~-~l~~l~~L~~L~l~~n~~~~~   99 (199)
T d2omxa2          24 VLGKTNVTDTVSQTDLDQVTTLQADRLGIKSIDG--VEYLNNLTQINFSNNQLT-DIT-PLKNLTKLVDILMNNNQIADI   99 (199)
T ss_dssp             HTTCSSTTSEECHHHHTTCCEEECTTSCCCCCTT--GGGCTTCCEEECCSSCCC-CCG-GGTTCTTCCEEECCSSCCCCC
T ss_pred             HhCCCCCCCccCHHHhcCCCEEECCCCCCCCccc--cccCCCcCcCcccccccc-Ccc-cccCCcccccccccccccccc
Confidence            3444444444333456788899999998877653  788899999999998554 444 388899999999999988888


Q ss_pred             chhhhcCCCCCEEeccCCcCCCCCchhhhhccccCceeeccccCCCcccchhcccccCCccccHHHhcCCCCCceeEEEe
Q 038398          580 PIELQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKINVLFGGHQFLVEELMGMKHLMVLTITL  659 (720)
Q Consensus       580 p~~i~~l~~L~~L~l~~~~~l~~lp~~~~~~l~~L~~L~~~~~~~~~l~~l~~~~~~~~~~~~~~~l~~l~~L~~L~~~~  659 (720)
                      |. +.++++|+.|++++| ....++.  +..+++|+.|.+.++   .+..             +..+..+++|+.|.+..
T Consensus       100 ~~-l~~l~~L~~L~l~~~-~~~~~~~--~~~l~~L~~L~l~~n---~l~~-------------~~~l~~~~~L~~L~l~~  159 (199)
T d2omxa2         100 TP-LANLTNLTGLTLFNN-QITDIDP--LKNLTNLNRLELSSN---TISD-------------ISALSGLTSLQQLNFSS  159 (199)
T ss_dssp             GG-GTTCTTCSEEECCSS-CCCCCGG--GTTCTTCSEEECCSS---CCCC-------------CGGGTTCTTCSEEECCS
T ss_pred             cc-ccccccccccccccc-ccccccc--cchhhhhHHhhhhhh---hhcc-------------ccccccccccccccccc
Confidence            74 888899999999875 3444554  677788887777653   3321             12366778888998888


Q ss_pred             cchhhHHHHhhhhhhhhhccccccccccCCCccccccccccCCccee
Q 038398          660 KSWQALKELLISQELQRSTQSLFLRCFNDSKSLDIFCLAGLRNLNKL  706 (720)
Q Consensus       660 ~~~~~l~~l~~~~~~~~~L~~L~l~~~~~l~~l~~~~l~~l~~L~~L  706 (720)
                      |.+..++.    ...+++|+.|++++| .++.++  .+.++++|+.|
T Consensus       160 n~l~~l~~----l~~l~~L~~L~ls~N-~i~~i~--~l~~L~~L~~L  199 (199)
T d2omxa2         160 NQVTDLKP----LANLTTLERLDISSN-KVSDIS--VLAKLTNLESL  199 (199)
T ss_dssp             SCCCCCGG----GTTCTTCCEEECCSS-CCCCCG--GGGGCTTCSEE
T ss_pred             ccccCCcc----ccCCCCCCEEECCCC-CCCCCc--cccCCCCCCcC
Confidence            87766542    344568999999985 577765  67788888765

>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=99.46  E-value=4.2e-14  Score=143.58  Aligned_cols=211  Identities=18%  Similarity=0.155  Sum_probs=155.1

Q ss_pred             cceeEEEeccccccc---CC-CCCCCCcccEEEccC-CCCcCcchHHhccCCcccEEEccCCCCCccCCccccCCCCCCE
Q 038398          494 RNVRRMSLMKNKIEN---LS-ETPTCPHLLSLFLSD-NSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVSLEH  568 (720)
Q Consensus       494 ~~l~~L~l~~~~~~~---~~-~~~~~~~L~~L~l~~-~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~  568 (720)
                      .+++.|+++++.+..   +| .+.++++|++|++++ |.+.+..|..|.++++|++|+|++|++.+..|..+..+.+|++
T Consensus        50 ~~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_          50 YRVNNLDLSGLNLPKPYPIPSSLANLPYLNFLYIGGINNLVGPIPPAIAKLTQLHYLYITHTNVSGAIPDFLSQIKTLVT  129 (313)
T ss_dssp             CCEEEEEEECCCCSSCEECCGGGGGCTTCSEEEEEEETTEESCCCGGGGGCTTCSEEEEEEECCEEECCGGGGGCTTCCE
T ss_pred             EEEEEEECCCCCCCCCCCCChHHhcCccccccccccccccccccccccccccccchhhhccccccccccccccchhhhcc
Confidence            368999999998864   33 357899999999987 6777443444999999999999999888888888999999999


Q ss_pred             EeccCCCCc-ccchhhhcCCCCCEEeccCCcCCCCCchhhhhccccC-ceeeccccCCCcccchhccccc----------
Q 038398          569 LDLSSTAIT-HLPIELQKLVNLKCLNLEYMNNLNQFPRLVISAFSKL-QVLRMFDCGGSKIERLKINVLF----------  636 (720)
Q Consensus       569 L~L~~~~i~-~lp~~i~~l~~L~~L~l~~~~~l~~lp~~~~~~l~~L-~~L~~~~~~~~~l~~l~~~~~~----------  636 (720)
                      +++++|.+. .+|..+.++++|+++++++|.....+|.. +..+.++ +.+...   .|.+.......+.          
T Consensus       130 l~l~~N~~~~~~p~~l~~l~~L~~l~l~~n~l~~~ip~~-~~~l~~l~~~l~~~---~n~l~~~~~~~~~~l~~~~l~l~  205 (313)
T d1ogqa_         130 LDFSYNALSGTLPPSISSLPNLVGITFDGNRISGAIPDS-YGSFSKLFTSMTIS---RNRLTGKIPPTFANLNLAFVDLS  205 (313)
T ss_dssp             EECCSSEEESCCCGGGGGCTTCCEEECCSSCCEEECCGG-GGCCCTTCCEEECC---SSEEEEECCGGGGGCCCSEEECC
T ss_pred             cccccccccccCchhhccCcccceeeccccccccccccc-cccccccccccccc---ccccccccccccccccccccccc
Confidence            999999654 67899999999999999996544467764 5666665 444443   3444322211111          


Q ss_pred             --CCccccHHHhcCCCCCceeEEEecchhhHHHHhhhhhhhhhccccccccccCCCccccccccccCCcceeeecCCC
Q 038398          637 --GGHQFLVEELMGMKHLMVLTITLKSWQALKELLISQELQRSTQSLFLRCFNDSKSLDIFCLAGLRNLNKLYVAGCK  712 (720)
Q Consensus       637 --~~~~~~~~~l~~l~~L~~L~~~~~~~~~l~~l~~~~~~~~~L~~L~l~~~~~l~~l~~~~l~~l~~L~~L~l~~c~  712 (720)
                        ......+..+..++.|+.+.+..+.....   ......+++|+.|++++++-...+| ..|.++++|+.|+|++|.
T Consensus       206 ~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~---~~~~~~~~~L~~L~Ls~N~l~g~iP-~~l~~L~~L~~L~Ls~N~  279 (313)
T d1ogqa_         206 RNMLEGDASVLFGSDKNTQKIHLAKNSLAFD---LGKVGLSKNLNGLDLRNNRIYGTLP-QGLTQLKFLHSLNVSFNN  279 (313)
T ss_dssp             SSEEEECCGGGCCTTSCCSEEECCSSEECCB---GGGCCCCTTCCEEECCSSCCEECCC-GGGGGCTTCCEEECCSSE
T ss_pred             ccccccccccccccccccccccccccccccc---ccccccccccccccCccCeecccCC-hHHhCCCCCCEEECcCCc
Confidence              11122455566788899998887766432   1234455799999999854333677 679999999999999985

>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=99.44  E-value=3.2e-13  Score=133.28  Aligned_cols=121  Identities=28%  Similarity=0.330  Sum_probs=58.2

Q ss_pred             ceeEEEecccccccCCC--CCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCccCCccccCCCCCCEEecc
Q 038398          495 NVRRMSLMKNKIENLSE--TPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLS  572 (720)
Q Consensus       495 ~l~~L~l~~~~~~~~~~--~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~  572 (720)
                      ++++|+|++|.+..++.  +..+++|++|++++|.++.++.  +..+++|++|+|++|++ ...|..+..+++|++|+++
T Consensus        32 ~l~~L~Ls~N~i~~l~~~~f~~l~~L~~L~L~~N~l~~l~~--~~~l~~L~~L~Ls~N~l-~~~~~~~~~l~~L~~L~l~  108 (266)
T d1p9ag_          32 DTTILHLSENLLYTFSLATLMPYTRLTQLNLDRAELTKLQV--DGTLPVLGTLDLSHNQL-QSLPLLGQTLPALTVLDVS  108 (266)
T ss_dssp             TCCEEECTTSCCSEEEGGGGTTCTTCCEEECTTSCCCEEEC--CSCCTTCCEEECCSSCC-SSCCCCTTTCTTCCEEECC
T ss_pred             CCCEEECcCCcCCCcCHHHhhcccccccccccccccccccc--ccccccccccccccccc-ccccccccccccccccccc
Confidence            45555555555554432  2445555555555555554443  34455555555555532 2334445555555555555


Q ss_pred             CCCCcccch-hhhcCCCCCEEeccCCcCCCCCchhhhhccccCceeec
Q 038398          573 STAITHLPI-ELQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRM  619 (720)
Q Consensus       573 ~~~i~~lp~-~i~~l~~L~~L~l~~~~~l~~lp~~~~~~l~~L~~L~~  619 (720)
                      +|.+..++. .+..+.+|+.|++++ +.+..+|...+..+++|+.|.+
T Consensus       109 ~~~~~~~~~~~~~~l~~l~~L~l~~-n~l~~l~~~~~~~l~~l~~l~l  155 (266)
T d1p9ag_         109 FNRLTSLPLGALRGLGELQELYLKG-NELKTLPPGLLTPTPKLEKLSL  155 (266)
T ss_dssp             SSCCCCCCSSTTTTCTTCCEEECTT-SCCCCCCTTTTTTCTTCCEEEC
T ss_pred             ccccceeeccccccccccccccccc-cccceeccccccccccchhccc
Confidence            555444432 234445555555544 2344444433344444444433

>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=99.42  E-value=1.1e-12  Score=136.82  Aligned_cols=195  Identities=21%  Similarity=0.275  Sum_probs=156.5

Q ss_pred             cCcccccccceeEEEecccccccCCCCCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCccCCccccCCCC
Q 038398          486 EAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVS  565 (720)
Q Consensus       486 ~~~~~~~~~~l~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~  565 (720)
                      .......++++..+.+++|.+..++....+++|+.|.+++|.++.++.  +..+++|++|++++|.+. .++ .++.+++
T Consensus       189 ~~~~~~~l~~~~~l~l~~n~i~~~~~~~~~~~L~~L~l~~n~l~~~~~--l~~l~~L~~L~l~~n~l~-~~~-~~~~~~~  264 (384)
T d2omza2         189 DISVLAKLTNLESLIATNNQISDITPLGILTNLDELSLNGNQLKDIGT--LASLTNLTDLDLANNQIS-NLA-PLSGLTK  264 (384)
T ss_dssp             CCGGGGGCTTCSEEECCSSCCCCCGGGGGCTTCCEEECCSSCCCCCGG--GGGCTTCSEEECCSSCCC-CCG-GGTTCTT
T ss_pred             cccccccccccceeeccCCccCCCCcccccCCCCEEECCCCCCCCcch--hhcccccchhccccCccC-CCC-ccccccc
Confidence            344566778899999999999888777788999999999999888753  789999999999999655 444 3888999


Q ss_pred             CCEEeccCCCCcccchhhhcCCCCCEEeccCCcCCCCCchhhhhccccCceeeccccCCCcccchhcccccCCccccHHH
Q 038398          566 LEHLDLSSTAITHLPIELQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKINVLFGGHQFLVEE  645 (720)
Q Consensus       566 L~~L~L~~~~i~~lp~~i~~l~~L~~L~l~~~~~l~~lp~~~~~~l~~L~~L~~~~~~~~~l~~l~~~~~~~~~~~~~~~  645 (720)
                      |++|+++++.++.+|+ +..++.++.+++.. +.+..++.  +..+++++.|++.+   |.+..++             .
T Consensus       265 L~~L~l~~~~l~~~~~-~~~~~~l~~l~~~~-n~l~~~~~--~~~~~~l~~L~ls~---n~l~~l~-------------~  324 (384)
T d2omza2         265 LTELKLGANQISNISP-LAGLTALTNLELNE-NQLEDISP--ISNLKNLTYLTLYF---NNISDIS-------------P  324 (384)
T ss_dssp             CSEEECCSSCCCCCGG-GTTCTTCSEEECCS-SCCSCCGG--GGGCTTCSEEECCS---SCCSCCG-------------G
T ss_pred             CCEeeccCcccCCCCc-cccccccccccccc-cccccccc--cchhcccCeEECCC---CCCCCCc-------------c
Confidence            9999999999998874 77899999999988 45666665  67888888887665   4443221             2


Q ss_pred             hcCCCCCceeEEEecchhhHHHHhhhhhhhhhccccccccccCCCccccccccccCCcceeeecCC
Q 038398          646 LMGMKHLMVLTITLKSWQALKELLISQELQRSTQSLFLRCFNDSKSLDIFCLAGLRNLNKLYVAGC  711 (720)
Q Consensus       646 l~~l~~L~~L~~~~~~~~~l~~l~~~~~~~~~L~~L~l~~~~~l~~l~~~~l~~l~~L~~L~l~~c  711 (720)
                      +..+++|+.|.+++|.++.++.    ...+++|+.|++++ +.++.++  .+.++++|+.|+|++|
T Consensus       325 l~~l~~L~~L~L~~n~l~~l~~----l~~l~~L~~L~l~~-N~l~~l~--~l~~l~~L~~L~L~~N  383 (384)
T d2omza2         325 VSSLTKLQRLFFANNKVSDVSS----LANLTNINWLSAGH-NQISDLT--PLANLTRITQLGLNDQ  383 (384)
T ss_dssp             GGGCTTCCEEECCSSCCCCCGG----GGGCTTCCEEECCS-SCCCBCG--GGTTCTTCSEEECCCE
T ss_pred             cccCCCCCEEECCCCCCCCChh----HcCCCCCCEEECCC-CcCCCCh--hhccCCCCCEeeCCCC
Confidence            6678999999999998876543    34467999999997 5677776  5899999999999986

>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=99.41  E-value=1.1e-13  Score=133.34  Aligned_cols=192  Identities=17%  Similarity=0.213  Sum_probs=144.4

Q ss_pred             ceeEEEecccccccCCCCCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCccCCccccCCCCCCEEeccCC
Q 038398          495 NVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSST  574 (720)
Q Consensus       495 ~l~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~~  574 (720)
                      ++..+++..+.+.++.....+.+|+.|.+.+|.++.+.+  +..|++|++|++++|.+.+ ++ .+..+++|+++++++|
T Consensus        20 ~~~~~~l~~~~~~d~~~~~~l~~L~~L~l~~~~i~~l~~--l~~l~~L~~L~ls~n~i~~-~~-~l~~l~~l~~l~~~~n   95 (227)
T d1h6ua2          20 NAIKIAAGKSNVTDTVTQADLDGITTLSAFGTGVTTIEG--VQYLNNLIGLELKDNQITD-LA-PLKNLTKITELELSGN   95 (227)
T ss_dssp             HHHHHHTTCSSTTSEECHHHHHTCCEEECTTSCCCCCTT--GGGCTTCCEEECCSSCCCC-CG-GGTTCCSCCEEECCSC
T ss_pred             HHHHHHhCCCCcCCcCCHHHcCCcCEEECCCCCCCcchh--HhcCCCCcEeecCCceeec-cc-cccccccccccccccc
Confidence            334445555566555444667899999999999988853  8899999999999996654 33 3889999999999999


Q ss_pred             CCcccchhhhcCCCCCEEeccCCcCCCCCchhhhhccccCceeeccccCCCcccchhcccccCCccccHHHhcCCCCCce
Q 038398          575 AITHLPIELQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKINVLFGGHQFLVEELMGMKHLMV  654 (720)
Q Consensus       575 ~i~~lp~~i~~l~~L~~L~l~~~~~l~~lp~~~~~~l~~L~~L~~~~~~~~~l~~l~~~~~~~~~~~~~~~l~~l~~L~~  654 (720)
                      .++.++ .+.++++|+.+++++|. ...++.  +...+.+..+.+..+....                ...+...++|+.
T Consensus        96 ~~~~i~-~l~~l~~L~~l~l~~~~-~~~~~~--~~~~~~~~~l~~~~~~~~~----------------~~~~~~~~~L~~  155 (227)
T d1h6ua2          96 PLKNVS-AIAGLQSIKTLDLTSTQ-ITDVTP--LAGLSNLQVLYLDLNQITN----------------ISPLAGLTNLQY  155 (227)
T ss_dssp             CCSCCG-GGTTCTTCCEEECTTSC-CCCCGG--GTTCTTCCEEECCSSCCCC----------------CGGGGGCTTCCE
T ss_pred             cccccc-ccccccccccccccccc-ccccch--hccccchhhhhchhhhhch----------------hhhhcccccccc
Confidence            999886 58899999999999863 344544  5667777777776543222                112556788999


Q ss_pred             eEEEecchhhHHHHhhhhhhhhhccccccccccCCCccccccccccCCcceeeecCCCCCcccc
Q 038398          655 LTITLKSWQALKELLISQELQRSTQSLFLRCFNDSKSLDIFCLAGLRNLNKLYVAGCKHLEDSQ  718 (720)
Q Consensus       655 L~~~~~~~~~l~~l~~~~~~~~~L~~L~l~~~~~l~~l~~~~l~~l~~L~~L~l~~c~~l~~i~  718 (720)
                      |.+..+.......    ...+++|+.|++++| .++.++  .+.++++|+.|+|++|+ +++++
T Consensus       156 L~l~~n~~~~~~~----l~~l~~L~~L~Ls~n-~l~~l~--~l~~l~~L~~L~Ls~N~-lt~i~  211 (227)
T d1h6ua2         156 LSIGNAQVSDLTP----LANLSKLTTLKADDN-KISDIS--PLASLPNLIEVHLKNNQ-ISDVS  211 (227)
T ss_dssp             EECCSSCCCCCGG----GTTCTTCCEEECCSS-CCCCCG--GGGGCTTCCEEECTTSC-CCBCG
T ss_pred             ccccccccccchh----hcccccceecccCCC-ccCCCh--hhcCCCCCCEEECcCCc-CCCCc
Confidence            9998877654332    344579999999985 677776  68999999999999994 76654

>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=99.41  E-value=5.8e-13  Score=114.03  Aligned_cols=117  Identities=21%  Similarity=0.239  Sum_probs=74.1

Q ss_pred             eEEEecccccccCCCCCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCccCCccccCCCCCCEEeccCCCC
Q 038398          497 RRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSSTAI  576 (720)
Q Consensus       497 ~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~~~i  576 (720)
                      |.|++++|.++.++.+..+++|+.|++++|.++.+|+. |..+++|++|++++|.+ ..+| .++.+++|++|++++|+|
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-LAALRCLEVLQASDNAL-ENVD-GVANLPRLQELLLCNNRL   77 (124)
T ss_dssp             SEEECTTSCCSSCCCGGGGTTCCEEECCSSCCCCCCGG-GGGCTTCCEEECCSSCC-CCCG-GGTTCSSCCEEECCSSCC
T ss_pred             CEEEcCCCCCCCCcccccCCCCCEEECCCCccCcchhh-hhhhhcccccccccccc-cccC-ccccccccCeEECCCCcc
Confidence            45677777777666666677777777777777766654 66677777777777733 3454 467777777777777777


Q ss_pred             cccc--hhhhcCCCCCEEeccCCcCCCCC---chhhhhccccCcee
Q 038398          577 THLP--IELQKLVNLKCLNLEYMNNLNQF---PRLVISAFSKLQVL  617 (720)
Q Consensus       577 ~~lp--~~i~~l~~L~~L~l~~~~~l~~l---p~~~~~~l~~L~~L  617 (720)
                      +.+|  ..+..+++|++|++++| .+..+   +......+++|+.|
T Consensus        78 ~~~~~~~~l~~~~~L~~L~l~~N-~i~~~~~~~~~l~~~lp~L~~L  122 (124)
T d1dcea3          78 QQSAAIQPLVSCPRLVLLNLQGN-SLCQEEGIQERLAEMLPSVSSI  122 (124)
T ss_dssp             CSSSTTGGGGGCTTCCEEECTTS-GGGGSSSCTTHHHHHCTTCSEE
T ss_pred             CCCCCchhhcCCCCCCEEECCCC-cCCcCccHHHHHHHHCcCcceE
Confidence            7665  24666777777777763 33322   23334445555544

>d1a9na_ c.10.2.4 (A:) Splicesomal U2A' protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: U2A'-like
domain: Splicesomal U2A' protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.39  E-value=3.7e-13  Score=121.37  Aligned_cols=129  Identities=20%  Similarity=0.204  Sum_probs=78.0

Q ss_pred             cccccccceeEEEecccccccCCCC-CCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCccCCccccCCCCC
Q 038398          488 PEIQNWRNVRRMSLMKNKIENLSET-PTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVSL  566 (720)
Q Consensus       488 ~~~~~~~~l~~L~l~~~~~~~~~~~-~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L  566 (720)
                      +.+.++.++|.|++++|.+..++.. ..+++|+.|++++|.++.++.  |..+++|++|++++|.+....+..+..+++|
T Consensus        12 ~~~~n~~~lr~L~L~~n~I~~i~~~~~~l~~L~~L~Ls~N~i~~l~~--~~~l~~L~~L~ls~N~i~~l~~~~~~~l~~L   89 (162)
T d1a9na_          12 AQYTNAVRDRELDLRGYKIPVIENLGATLDQFDAIDFSDNEIRKLDG--FPLLRRLKTLLVNNNRICRIGEGLDQALPDL   89 (162)
T ss_dssp             CEEECTTSCEEEECTTSCCCSCCCGGGGTTCCSEEECCSSCCCEECC--CCCCSSCCEEECCSSCCCEECSCHHHHCTTC
T ss_pred             HhccCcCcCcEEECCCCCCCccCccccccccCCEEECCCCCCCccCC--cccCcchhhhhcccccccCCCcccccccccc
Confidence            3445555677777777777666554 446667777777776666532  5666777777777774432223334456777


Q ss_pred             CEEeccCCCCcccch--hhhcCCCCCEEeccCCcCCCCCch---hhhhccccCceeec
Q 038398          567 EHLDLSSTAITHLPI--ELQKLVNLKCLNLEYMNNLNQFPR---LVISAFSKLQVLRM  619 (720)
Q Consensus       567 ~~L~L~~~~i~~lp~--~i~~l~~L~~L~l~~~~~l~~lp~---~~~~~l~~L~~L~~  619 (720)
                      ++|++++|.++.++.  .+..+++|++|++++| .+..+|.   .++..+++|+.|+.
T Consensus        90 ~~L~L~~N~i~~~~~l~~l~~l~~L~~L~l~~N-~i~~~~~~r~~~i~~lp~L~~LD~  146 (162)
T d1a9na_          90 TELILTNNSLVELGDLDPLASLKSLTYLCILRN-PVTNKKHYRLYVIYKVPQVRVLDF  146 (162)
T ss_dssp             CEEECCSCCCCCGGGGGGGGGCTTCCEEECCSS-GGGGSTTHHHHHHHHCTTCSEETT
T ss_pred             ccceeccccccccccccccccccccchhhcCCC-ccccccchHHHHHHHCCCcCeeCC
Confidence            777777777666653  4566677777777663 3444442   23555666666553

>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=99.39  E-value=8.9e-13  Score=133.01  Aligned_cols=215  Identities=18%  Similarity=0.166  Sum_probs=150.7

Q ss_pred             ceeEEEecccccccCCCCCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCccCCccccCCCCCCEEeccCC
Q 038398          495 NVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSST  574 (720)
Q Consensus       495 ~l~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~~  574 (720)
                      ..+.++.+++.++.+|... .+++++|++++|.++.+++..|.++++|++|++++|.+....|..|.++++|++|++++|
T Consensus        11 ~~~~~~C~~~~L~~lP~~l-~~~l~~L~Ls~N~i~~l~~~~f~~l~~L~~L~l~~n~~~~i~~~~f~~l~~L~~L~l~~n   89 (305)
T d1xkua_          11 HLRVVQCSDLGLEKVPKDL-PPDTALLDLQNNKITEIKDGDFKNLKNLHTLILINNKISKISPGAFAPLVKLERLYLSKN   89 (305)
T ss_dssp             ETTEEECTTSCCCSCCCSC-CTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSS
T ss_pred             cCCEEEecCCCCCccCCCC-CCCCCEEECcCCcCCCcChhHhhccccccccccccccccccchhhhhCCCccCEecccCC
Confidence            4556788888888887632 368999999999999999877999999999999999777666888999999999999999


Q ss_pred             CCcccchhhhcCCCCCEEeccCCcCCCCCchhhhhccccCceeeccccCCCcccchhcccccCCc--------c--ccHH
Q 038398          575 AITHLPIELQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKINVLFGGH--------Q--FLVE  644 (720)
Q Consensus       575 ~i~~lp~~i~~l~~L~~L~l~~~~~l~~lp~~~~~~l~~L~~L~~~~~~~~~l~~l~~~~~~~~~--------~--~~~~  644 (720)
                      +++.+|..+  ...|..|++.+ +.+..++...+.....+..+............ ....+.+..        .  ....
T Consensus        90 ~l~~l~~~~--~~~l~~L~~~~-n~l~~l~~~~~~~~~~~~~l~~~~n~~~~~~~-~~~~~~~l~~L~~l~l~~n~l~~l  165 (305)
T d1xkua_          90 QLKELPEKM--PKTLQELRVHE-NEITKVRKSVFNGLNQMIVVELGTNPLKSSGI-ENGAFQGMKKLSYIRIADTNITTI  165 (305)
T ss_dssp             CCSBCCSSC--CTTCCEEECCS-SCCCBBCHHHHTTCTTCCEEECCSSCCCGGGB-CTTGGGGCTTCCEEECCSSCCCSC
T ss_pred             ccCcCccch--hhhhhhhhccc-cchhhhhhhhhhccccccccccccccccccCC-CccccccccccCccccccCCcccc
Confidence            999999753  46899999988 56778887666677777777665433221110 000000000        0  0000


Q ss_pred             HhcCCCCCceeEEEecchhhHHHHhhhhhhhhhccccccccccCCCccccccccccCCcceeeecCCCCCcccc
Q 038398          645 ELMGMKHLMVLTITLKSWQALKELLISQELQRSTQSLFLRCFNDSKSLDIFCLAGLRNLNKLYVAGCKHLEDSQ  718 (720)
Q Consensus       645 ~l~~l~~L~~L~~~~~~~~~l~~l~~~~~~~~~L~~L~l~~~~~l~~l~~~~l~~l~~L~~L~l~~c~~l~~i~  718 (720)
                      ....+++|+.|.+.++......  ......++.++.|++++ +.+..++...+.++++|+.|+|++| +++.++
T Consensus       166 ~~~~~~~L~~L~l~~n~~~~~~--~~~~~~~~~l~~L~~s~-n~l~~~~~~~~~~l~~L~~L~L~~N-~L~~lp  235 (305)
T d1xkua_         166 PQGLPPSLTELHLDGNKITKVD--AASLKGLNNLAKLGLSF-NSISAVDNGSLANTPHLRELHLNNN-KLVKVP  235 (305)
T ss_dssp             CSSCCTTCSEEECTTSCCCEEC--TGGGTTCTTCCEEECCS-SCCCEECTTTGGGSTTCCEEECCSS-CCSSCC
T ss_pred             CcccCCccCEEECCCCcCCCCC--hhHhhcccccccccccc-ccccccccccccccccceeeecccc-cccccc
Confidence            0112456667766655443321  22334456788888887 4677777678899999999999998 466554

>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=99.38  E-value=1.2e-12  Score=130.45  Aligned_cols=198  Identities=18%  Similarity=0.217  Sum_probs=152.7

Q ss_pred             EEEecccccccCCCCCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCccCCccccCCCCCCEEeccC-CCC
Q 038398          498 RMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSS-TAI  576 (720)
Q Consensus       498 ~L~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~-~~i  576 (720)
                      .+..+++.+..+|.. -.+.+++|++++|.++.+++..|.+++.|++|++++|++....+..+..+..++.+.... +.+
T Consensus        15 ~v~c~~~~L~~iP~~-ip~~~~~L~Ls~N~i~~i~~~~f~~l~~L~~L~ls~n~l~~i~~~~~~~~~~~~~l~~~~~~~~   93 (284)
T d1ozna_          15 TTSCPQQGLQAVPVG-IPAASQRIFLHGNRISHVPAASFRACRNLTILWLHSNVLARIDAAAFTGLALLEQLDLSDNAQL   93 (284)
T ss_dssp             EEECCSSCCSSCCTT-CCTTCSEEECTTSCCCEECTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSCTTC
T ss_pred             EEEcCCCCCCccCCC-CCCCCCEEECcCCcCCCCCHHHhhcccccccccccccccccccccccccccccccccccccccc
Confidence            356667777777653 225789999999999999988899999999999999977777777788899999998764 478


Q ss_pred             ccc-chhhhcCCCCCEEeccCCcCCCCCchhhhhccccCceeeccccCCCcccchhcccccCCccccHHHhcCCCCCcee
Q 038398          577 THL-PIELQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKINVLFGGHQFLVEELMGMKHLMVL  655 (720)
Q Consensus       577 ~~l-p~~i~~l~~L~~L~l~~~~~l~~lp~~~~~~l~~L~~L~~~~~~~~~l~~l~~~~~~~~~~~~~~~l~~l~~L~~L  655 (720)
                      +.+ |..+.++++|+.|++++| .+..++......+.+|+.+.+.   .|.+..++..           .+..+++|+.|
T Consensus        94 ~~l~~~~~~~l~~L~~L~l~~n-~~~~~~~~~~~~~~~L~~l~l~---~N~l~~i~~~-----------~f~~~~~L~~L  158 (284)
T d1ozna_          94 RSVDPATFHGLGRLHTLHLDRC-GLQELGPGLFRGLAALQYLYLQ---DNALQALPDD-----------TFRDLGNLTHL  158 (284)
T ss_dssp             CCCCTTTTTTCTTCCEEECTTS-CCCCCCTTTTTTCTTCCEEECC---SSCCCCCCTT-----------TTTTCTTCCEE
T ss_pred             ccccchhhcccccCCEEecCCc-ccccccccccchhcccchhhhc---cccccccChh-----------Hhccccchhhc
Confidence            877 455899999999999995 5566666556667777776665   4555544322           25567889999


Q ss_pred             EEEecchhhHHHHhhhhhhhhhccccccccccCCCccccccccccCCcceeeecCCCCC
Q 038398          656 TITLKSWQALKELLISQELQRSTQSLFLRCFNDSKSLDIFCLAGLRNLNKLYVAGCKHL  714 (720)
Q Consensus       656 ~~~~~~~~~l~~l~~~~~~~~~L~~L~l~~~~~l~~l~~~~l~~l~~L~~L~l~~c~~l  714 (720)
                      .+..+.+..+..  ..+..+++|+.+++.+ +.+..++...|.++++|+.|++++|..-
T Consensus       159 ~l~~N~l~~l~~--~~f~~l~~L~~l~l~~-N~l~~i~~~~f~~l~~L~~L~l~~N~i~  214 (284)
T d1ozna_         159 FLHGNRISSVPE--RAFRGLHSLDRLLLHQ-NRVAHVHPHAFRDLGRLMTLYLFANNLS  214 (284)
T ss_dssp             ECCSSCCCEECT--TTTTTCTTCCEEECCS-SCCCEECTTTTTTCTTCCEEECCSSCCS
T ss_pred             ccccCcccccch--hhhccccccchhhhhh-ccccccChhHhhhhhhcccccccccccc
Confidence            999888765432  3445567999999998 5567776678999999999999988743

>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=99.35  E-value=1.3e-12  Score=126.93  Aligned_cols=221  Identities=19%  Similarity=0.205  Sum_probs=121.8

Q ss_pred             EEEEcCCCCccCcccccccceeEEEecccccccCCC--CCCCCcccEEEccCCCCcC-cchHHhccCCcccEEEccCC-C
Q 038398          476 FLVHAGLGLTEAPEIQNWRNVRRMSLMKNKIENLSE--TPTCPHLLSLFLSDNSLKM-STDDFFQSMPSLRVFNMSNN-H  551 (720)
Q Consensus       476 ~~~~~~~~~~~~~~~~~~~~l~~L~l~~~~~~~~~~--~~~~~~L~~L~l~~~~~~~-~~~~~~~~l~~L~~L~L~~~-~  551 (720)
                      .+...+.+..++|.- -+++++.|++++|.+..++.  +.++++|++|++++|.+.. +++..|.+++.++++.+..+ +
T Consensus        12 ~i~c~~~~l~~iP~~-l~~~l~~L~Ls~n~i~~l~~~~f~~l~~L~~L~ls~n~~~~~i~~~~f~~l~~l~~l~~~~~n~   90 (242)
T d1xwdc1          12 VFLCQESKVTEIPSD-LPRNAIELRFVLTKLRVIQKGAFSGFGDLEKIEISQNDVLEVIEADVFSNLPKLHEIRIEKANN   90 (242)
T ss_dssp             EEEEESCSCSSCCSC-SCSCCSEEEEESCCCCEECTTTTTTCTTCCEEEEESCTTCCEECSSSEESCTTCCEEEEECCTT
T ss_pred             EEEEeCCCCCCcCCC-CCCCCCEEECcCCcCCccChhHhhccchhhhhhhccccccceeecccccccccccccccccccc
Confidence            344444444555431 12467777777777776654  3567777777777775544 34445677777777776543 3


Q ss_pred             CCccCCccccCCCCCCEEeccCCCCcccchh--hhcCCCCCEEeccCCcCCCCCchhhhhccc-cCceeeccccCCCccc
Q 038398          552 LLWKLPSGISTLVSLEHLDLSSTAITHLPIE--LQKLVNLKCLNLEYMNNLNQFPRLVISAFS-KLQVLRMFDCGGSKIE  628 (720)
Q Consensus       552 ~~~~lp~~i~~l~~L~~L~L~~~~i~~lp~~--i~~l~~L~~L~l~~~~~l~~lp~~~~~~l~-~L~~L~~~~~~~~~l~  628 (720)
                      .....|..+.++++|++|++++|.++..|..  +..++.|..+...+ ..+..++...+..++ .+..|.+   ..|.+.
T Consensus        91 l~~~~~~~~~~l~~L~~l~l~~~~l~~~~~~~~~~~l~~l~~~~~~n-~~l~~i~~~~~~~~~~~l~~L~l---~~n~l~  166 (242)
T d1xwdc1          91 LLYINPEAFQNLPNLQYLLISNTGIKHLPDVHKIHSLQKVLLDIQDN-INIHTIERNSFVGLSFESVILWL---NKNGIQ  166 (242)
T ss_dssp             CCEECTTSEECCTTCCEEEEESCCCCSCCCCTTTCBSSCEEEEEESC-TTCCEECTTSSTTSBSSCEEEEC---CSSCCC
T ss_pred             ccccccccccccccccccccchhhhcccccccccccccccccccccc-cccccccccccccccccceeeec---cccccc
Confidence            4444455667777777777777777665431  22233333333333 344555443233332 3333433   334444


Q ss_pred             chhcccccCCccccHHHhcCCCCCceeE-EEecchhhHHHHhhhhhhhhhccccccccccCCCccccccccccCCcceee
Q 038398          629 RLKINVLFGGHQFLVEELMGMKHLMVLT-ITLKSWQALKELLISQELQRSTQSLFLRCFNDSKSLDIFCLAGLRNLNKLY  707 (720)
Q Consensus       629 ~l~~~~~~~~~~~~~~~l~~l~~L~~L~-~~~~~~~~l~~l~~~~~~~~~L~~L~l~~~~~l~~l~~~~l~~l~~L~~L~  707 (720)
                      .++...+            ...++..+. +..+.+..++.  ..+..+++|+.|++++ +.++.+|...|.++++|+.|+
T Consensus       167 ~i~~~~~------------~~~~l~~~~~l~~n~l~~l~~--~~f~~l~~L~~L~Ls~-N~l~~l~~~~~~~l~~L~~l~  231 (242)
T d1xwdc1         167 EIHNCAF------------NGTQLDELNLSDNNNLEELPN--DVFHGASGPVILDISR-TRIHSLPSYGLENLKKLRARS  231 (242)
T ss_dssp             EECTTTT------------TTCCEEEEECTTCTTCCCCCT--TTTTTSCCCSEEECTT-SCCCCCCSSSCTTCCEEESSS
T ss_pred             ccccccc------------cchhhhccccccccccccccH--HHhcCCCCCCEEECCC-CcCCccCHHHHcCCcccccCc
Confidence            4333222            122222222 22233332211  1234557899999987 557888867788888888888


Q ss_pred             ecCCCCCcc
Q 038398          708 VAGCKHLED  716 (720)
Q Consensus       708 l~~c~~l~~  716 (720)
                      +.++..+-.
T Consensus       232 ~~~l~~lp~  240 (242)
T d1xwdc1         232 TYNLKKLPT  240 (242)
T ss_dssp             EESSSCSCC
T ss_pred             CCCCCcCCC
Confidence            777665543

>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=99.35  E-value=5.6e-13  Score=132.68  Aligned_cols=83  Identities=18%  Similarity=0.214  Sum_probs=36.9

Q ss_pred             CcccEEEccCCCCcCc-chHHhccCCcccEEEccCCCCCccCCccccCCCCCCEEeccCC-CCcc--cchhhhcCCCCCE
Q 038398          516 PHLLSLFLSDNSLKMS-TDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSST-AITH--LPIELQKLVNLKC  591 (720)
Q Consensus       516 ~~L~~L~l~~~~~~~~-~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~~-~i~~--lp~~i~~l~~L~~  591 (720)
                      .+|++|++++|.+... ....+..+++|++|+|++|......+..++.+++|++|++++| .++.  +..-+.++++|++
T Consensus        46 ~~L~~LdLs~~~i~~~~l~~l~~~c~~L~~L~L~~~~l~~~~~~~l~~~~~L~~L~Ls~c~~itd~~l~~l~~~~~~L~~  125 (284)
T d2astb2          46 FRVQHMDLSNSVIEVSTLHGILSQCSKLQNLSLEGLRLSDPIVNTLAKNSNLVRLNLSGCSGFSEFALQTLLSSCSRLDE  125 (284)
T ss_dssp             BCCCEEECTTCEECHHHHHHHHTTBCCCSEEECTTCBCCHHHHHHHTTCTTCSEEECTTCBSCCHHHHHHHHHHCTTCCE
T ss_pred             CCCCEEECCCCccCHHHHHHHHHhCCCcccccccccCCCcHHHHHHhcCCCCcCccccccccccccccchhhHHHHhccc
Confidence            3455555554433221 1223444555555555555433334444445555555555553 3431  2222334455555


Q ss_pred             EeccCCc
Q 038398          592 LNLEYMN  598 (720)
Q Consensus       592 L~l~~~~  598 (720)
                      |++++|.
T Consensus       126 L~ls~c~  132 (284)
T d2astb2         126 LNLSWCF  132 (284)
T ss_dssp             EECCCCT
T ss_pred             ccccccc
Confidence            5555543

>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=99.31  E-value=4.2e-12  Score=108.58  Aligned_cols=102  Identities=24%  Similarity=0.336  Sum_probs=83.4

Q ss_pred             cEEEccCCCCcCcchHHhccCCcccEEEccCCCCCccCCccccCCCCCCEEeccCCCCcccchhhhcCCCCCEEeccCCc
Q 038398          519 LSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSSTAITHLPIELQKLVNLKCLNLEYMN  598 (720)
Q Consensus       519 ~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~~~i~~lp~~i~~l~~L~~L~l~~~~  598 (720)
                      |+|++++|.++.++.  +..+++|++|++++|. +..+|..++.+++|++|++++|.|+.+| ++.++++|++|++++ +
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--LEQLLLVTHLDLSHNR-LRALPPALAALRCLEVLQASDNALENVD-GVANLPRLQELLLCN-N   75 (124)
T ss_dssp             SEEECTTSCCSSCCC--GGGGTTCCEEECCSSC-CCCCCGGGGGCTTCCEEECCSSCCCCCG-GGTTCSSCCEEECCS-S
T ss_pred             CEEEcCCCCCCCCcc--cccCCCCCEEECCCCc-cCcchhhhhhhhcccccccccccccccC-ccccccccCeEECCC-C
Confidence            689999999988864  7899999999999995 4578888999999999999999999997 489999999999998 5


Q ss_pred             CCCCCch-hhhhccccCceeeccccCCCccc
Q 038398          599 NLNQFPR-LVISAFSKLQVLRMFDCGGSKIE  628 (720)
Q Consensus       599 ~l~~lp~-~~~~~l~~L~~L~~~~~~~~~l~  628 (720)
                      .+..+|. ..++.+++|+.|++.   +|++.
T Consensus        76 ~i~~~~~~~~l~~~~~L~~L~l~---~N~i~  103 (124)
T d1dcea3          76 RLQQSAAIQPLVSCPRLVLLNLQ---GNSLC  103 (124)
T ss_dssp             CCCSSSTTGGGGGCTTCCEEECT---TSGGG
T ss_pred             ccCCCCCchhhcCCCCCCEEECC---CCcCC
Confidence            6777764 235666666666654   46554

>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=99.29  E-value=2.5e-12  Score=115.75  Aligned_cols=139  Identities=18%  Similarity=0.225  Sum_probs=101.9

Q ss_pred             cccccCCCCCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCccCCccccCCCCCCEEeccCCCCcccchh-
Q 038398          504 NKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSSTAITHLPIE-  582 (720)
Q Consensus       504 ~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~~~i~~lp~~-  582 (720)
                      +-+...+.+.++.+++.|++++|.++.++. .+..+++|++|+|++|.+ ..++ .+..+++|++|++++|+++.+|.. 
T Consensus         6 ~~i~~~~~~~n~~~lr~L~L~~n~I~~i~~-~~~~l~~L~~L~Ls~N~i-~~l~-~~~~l~~L~~L~ls~N~i~~l~~~~   82 (162)
T d1a9na_           6 ELIEQAAQYTNAVRDRELDLRGYKIPVIEN-LGATLDQFDAIDFSDNEI-RKLD-GFPLLRRLKTLLVNNNRICRIGEGL   82 (162)
T ss_dssp             HHHHTSCEEECTTSCEEEECTTSCCCSCCC-GGGGTTCCSEEECCSSCC-CEEC-CCCCCSSCCEEECCSSCCCEECSCH
T ss_pred             HHHhhhHhccCcCcCcEEECCCCCCCccCc-cccccccCCEEECCCCCC-CccC-CcccCcchhhhhcccccccCCCccc
Confidence            334445556677899999999999998864 468899999999999955 4665 588999999999999999999866 


Q ss_pred             hhcCCCCCEEeccCCcCCCCCch-hhhhccccCceeeccccCCCcccchhcccccCCccccHHHhcCCCCCceeEE
Q 038398          583 LQKLVNLKCLNLEYMNNLNQFPR-LVISAFSKLQVLRMFDCGGSKIERLKINVLFGGHQFLVEELMGMKHLMVLTI  657 (720)
Q Consensus       583 i~~l~~L~~L~l~~~~~l~~lp~-~~~~~l~~L~~L~~~~~~~~~l~~l~~~~~~~~~~~~~~~l~~l~~L~~L~~  657 (720)
                      +..+++|++|++++ +.+..++. ..+..+++|++|++.+   |++...+        ......+..+++|+.|+-
T Consensus        83 ~~~l~~L~~L~L~~-N~i~~~~~l~~l~~l~~L~~L~l~~---N~i~~~~--------~~r~~~i~~lp~L~~LD~  146 (162)
T d1a9na_          83 DQALPDLTELILTN-NSLVELGDLDPLASLKSLTYLCILR---NPVTNKK--------HYRLYVIYKVPQVRVLDF  146 (162)
T ss_dssp             HHHCTTCCEEECCS-CCCCCGGGGGGGGGCTTCCEEECCS---SGGGGST--------THHHHHHHHCTTCSEETT
T ss_pred             cccccccccceecc-ccccccccccccccccccchhhcCC---Ccccccc--------chHHHHHHHCCCcCeeCC
Confidence            56799999999999 46777765 2256667777776665   4443222        111223556677777653

>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=99.28  E-value=5.1e-12  Score=117.71  Aligned_cols=123  Identities=21%  Similarity=0.287  Sum_probs=97.3

Q ss_pred             eEEEecccccccCCCCCCCCcccEEEccCCCCcC-cchHHhccCCcccEEEccCCCCCccCCccccCCCCCCEEeccCCC
Q 038398          497 RRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKM-STDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSSTA  575 (720)
Q Consensus       497 ~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~-~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~~~  575 (720)
                      +.++.+++.+..+|..- .+++++|++++|.++. ++...|.++++|+.|+|++|.+....+..+..+++|++|+|++|+
T Consensus        11 ~~v~Cs~~~L~~iP~~l-p~~l~~L~Ls~N~i~~~~~~~~f~~l~~L~~L~L~~N~i~~~~~~~~~~~~~L~~L~Ls~N~   89 (192)
T d1w8aa_          11 TTVDCTGRGLKEIPRDI-PLHTTELLLNDNELGRISSDGLFGRLPHLVKLELKRNQLTGIEPNAFEGASHIQELQLGENK   89 (192)
T ss_dssp             TEEECTTSCCSSCCSCC-CTTCSEEECCSCCCCSBCCSCSGGGCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSCC
T ss_pred             CEEEEeCCCcCccCCCC-CCCCCEEEeCCCCCcccccccccCCCceEeeeeccccccccccccccccccccceeeecccc
Confidence            36777888887776532 2678889999998865 556668888999999999887777777888888999999999999


Q ss_pred             Ccccchh-hhcCCCCCEEeccCCcCCCCCchhhhhccccCceeeccc
Q 038398          576 ITHLPIE-LQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFD  621 (720)
Q Consensus       576 i~~lp~~-i~~l~~L~~L~l~~~~~l~~lp~~~~~~l~~L~~L~~~~  621 (720)
                      |+.+|+. |.++++|++|+|++ +.+..+|.+.+..+++|++|++.+
T Consensus        90 l~~l~~~~F~~l~~L~~L~L~~-N~l~~i~~~~f~~l~~L~~l~L~~  135 (192)
T d1w8aa_          90 IKEISNKMFLGLHQLKTLNLYD-NQISCVMPGSFEHLNSLTSLNLAS  135 (192)
T ss_dssp             CCEECSSSSTTCTTCCEEECCS-SCCCEECTTSSTTCTTCCEEECTT
T ss_pred             ccccCHHHHhCCCcccccccCC-ccccccCHHHhcCCcccccccccc
Confidence            8888654 78889999999988 577888877677778877777654

>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=99.26  E-value=2.3e-11  Score=120.63  Aligned_cols=197  Identities=16%  Similarity=0.179  Sum_probs=114.7

Q ss_pred             CCCcCchHHHHHHHHHhcCCCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecC-----cCCHHHHHHHHH
Q 038398          126 EPTVGLESTFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSK-----DLQLEKIQEKIG  200 (720)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~-----~~~~~~~~~~i~  200 (720)
                      +.||||+++++++.+.    ..++|.|+|++|+|||||++++.+..   ...   ..|+.+..     ......+...+.
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            6899999999999874    34689999999999999999998876   222   34554422     122333333333


Q ss_pred             HHhC--------------CCC-------------CccCCCChhHHHHHHHHHhccCcEEEEEecccccccc--cccccc-
Q 038398          201 RRIG--------------FFD-------------ESWKNGSLEDKTSDILRILGKKKFLLLLDDIWERVDL--TKVGIP-  250 (720)
Q Consensus       201 ~~l~--------------~~~-------------~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~~--~~l~~~-  250 (720)
                      ....              ...             ......+..+....+. ...++++++|+|++......  ..+... 
T Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~-~~~~~~~~i~id~~~~~~~~~~~~~~~~l  160 (283)
T d2fnaa2          82 KEINKLVKRLPSLLKALKNIQGIVIMGNEIKFNWNRKDRLSFANLLESFE-QASKDNVIIVLDEAQELVKLRGVNLLPAL  160 (283)
T ss_dssp             HHHHHHHHHCTTHHHHTTTSTTEEECSSSEEEC-----CCCHHHHHHHHH-HTCSSCEEEEEETGGGGGGCTTCCCHHHH
T ss_pred             HHhhhhhhhhHHHHHHHHhhhcccccccccccccchhhhhHHHHHHHHHH-hhcccccccccchhhhhcccchHHHHHHH
Confidence            3221              000             0001112222222222 24568999999998542211  111000 


Q ss_pred             --CCCCCCCcEEEEEcCChhHhhhhc------------cCceeeccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHH
Q 038398          251 --FPDPENKSKIVFTTHFLEICGALK------------AHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVA  316 (720)
Q Consensus       251 --~~~~~~gs~iiiTtR~~~v~~~~~------------~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~  316 (720)
                        ..........+++++.........            ....+.+.+++.+++.+++.+.+....... ..    ..+|+
T Consensus       161 ~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~L~~l~~~e~~~~l~~~~~~~~~~~-~~----~~~i~  235 (283)
T d2fnaa2         161 AYAYDNLKRIKFIMSGSEMGLLYDYLRVEDPESPLFGRAFSTVELKPFSREEAIEFLRRGFQEADIDF-KD----YEVVY  235 (283)
T ss_dssp             HHHHHHCTTEEEEEEESSHHHHHHHTTTTCTTSTTTTCCCEEEEECCCCHHHHHHHHHHHHHHHTCCC-CC----HHHHH
T ss_pred             HHHHHhhhhhhhhhccccchHHHHHHHhhhhcchhcccceeEEeeCCCCHHHHHHHHHhhhhhcCCCH-HH----HHHHH
Confidence              011223445555555443322111            124678999999999999988764332111 11    56899


Q ss_pred             HHhCCcchHHHHHHHHHhcCCC
Q 038398          317 QECAGLPLALITIGRAMACKKT  338 (720)
Q Consensus       317 ~~c~GlPLai~~~~~~l~~~~~  338 (720)
                      +.++|+|.++..++..+....+
T Consensus       236 ~~~~G~P~~L~~~~~~~~~~~~  257 (283)
T d2fnaa2         236 EKIGGIPGWLTYFGFIYLDNKN  257 (283)
T ss_dssp             HHHCSCHHHHHHHHHHHHHHCC
T ss_pred             HHhCCCHHHHHHHHHHHHhccc
Confidence            9999999999999876654333

>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=1.5e-11  Score=119.19  Aligned_cols=204  Identities=15%  Similarity=0.175  Sum_probs=149.2

Q ss_pred             eEEEecccccccCCCCCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCccC-CccccCCCCCCEEeccC-C
Q 038398          497 RRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKL-PSGISTLVSLEHLDLSS-T  574 (720)
Q Consensus       497 ~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~l-p~~i~~l~~L~~L~L~~-~  574 (720)
                      +.++.+++.+..+|... .+++++|++++|.++.+++..|.++++|++|++++|.....+ +..+.+++.+++|.+.. +
T Consensus        11 ~~i~c~~~~l~~iP~~l-~~~l~~L~Ls~n~i~~l~~~~f~~l~~L~~L~ls~n~~~~~i~~~~f~~l~~l~~l~~~~~n   89 (242)
T d1xwdc1          11 RVFLCQESKVTEIPSDL-PRNAIELRFVLTKLRVIQKGAFSGFGDLEKIEISQNDVLEVIEADVFSNLPKLHEIRIEKAN   89 (242)
T ss_dssp             SEEEEESCSCSSCCSCS-CSCCSEEEEESCCCCEECTTTTTTCTTCCEEEEESCTTCCEECSSSEESCTTCCEEEEECCT
T ss_pred             CEEEEeCCCCCCcCCCC-CCCCCEEECcCCcCCccChhHhhccchhhhhhhccccccceeeccccccccccccccccccc
Confidence            46777777888777532 258999999999999999888999999999999999776655 44688999999999875 5


Q ss_pred             CCcccc-hhhhcCCCCCEEeccCCcCCCCCchhhhhccccCceeeccccCCCcccchhcccccCCccccHHHhcCCCCCc
Q 038398          575 AITHLP-IELQKLVNLKCLNLEYMNNLNQFPRLVISAFSKLQVLRMFDCGGSKIERLKINVLFGGHQFLVEELMGMKHLM  653 (720)
Q Consensus       575 ~i~~lp-~~i~~l~~L~~L~l~~~~~l~~lp~~~~~~l~~L~~L~~~~~~~~~l~~l~~~~~~~~~~~~~~~l~~l~~L~  653 (720)
                      .+..++ ..+.++++|++|++++| .+...+.  ...+.+++.+.......+.+..++...+.+.          ...+.
T Consensus        90 ~l~~~~~~~~~~l~~L~~l~l~~~-~l~~~~~--~~~~~~l~~l~~~~~~n~~l~~i~~~~~~~~----------~~~l~  156 (242)
T d1xwdc1          90 NLLYINPEAFQNLPNLQYLLISNT-GIKHLPD--VHKIHSLQKVLLDIQDNINIHTIERNSFVGL----------SFESV  156 (242)
T ss_dssp             TCCEECTTSEECCTTCCEEEEESC-CCCSCCC--CTTTCBSSCEEEEEESCTTCCEECTTSSTTS----------BSSCE
T ss_pred             cccccccccccccccccccccchh-hhccccc--ccccccccccccccccccccccccccccccc----------cccce
Confidence            777665 44899999999999994 5666665  5667778888777777776665554333211          13566


Q ss_pred             eeEEEecchhhHHHHhhhhhhhhhccccccccccCCCccccccccccCCcceeeecCCCCCcccc
Q 038398          654 VLTITLKSWQALKELLISQELQRSTQSLFLRCFNDSKSLDIFCLAGLRNLNKLYVAGCKHLEDSQ  718 (720)
Q Consensus       654 ~L~~~~~~~~~l~~l~~~~~~~~~L~~L~l~~~~~l~~l~~~~l~~l~~L~~L~l~~c~~l~~i~  718 (720)
                      .|.+..+.+..+...  ... ..++..+....++.++.++...|.++++|+.|+|++|+ ++.++
T Consensus       157 ~L~l~~n~l~~i~~~--~~~-~~~l~~~~~l~~n~l~~l~~~~f~~l~~L~~L~Ls~N~-l~~l~  217 (242)
T d1xwdc1         157 ILWLNKNGIQEIHNC--AFN-GTQLDELNLSDNNNLEELPNDVFHGASGPVILDISRTR-IHSLP  217 (242)
T ss_dssp             EEECCSSCCCEECTT--TTT-TCCEEEEECTTCTTCCCCCTTTTTTSCCCSEEECTTSC-CCCCC
T ss_pred             eeecccccccccccc--ccc-chhhhccccccccccccccHHHhcCCCCCCEEECCCCc-CCccC
Confidence            677766665543321  122 23555665555578899987779999999999999987 66654

>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=99.20  E-value=1.4e-11  Score=122.25  Aligned_cols=87  Identities=24%  Similarity=0.259  Sum_probs=68.0

Q ss_pred             cCCcccEEEccCCCCCcc-CCccccCCCCCCEEeccCCCCc-ccchhhhcCCCCCEEeccCCcCCCCCch-hhhhccccC
Q 038398          538 SMPSLRVFNMSNNHLLWK-LPSGISTLVSLEHLDLSSTAIT-HLPIELQKLVNLKCLNLEYMNNLNQFPR-LVISAFSKL  614 (720)
Q Consensus       538 ~l~~L~~L~L~~~~~~~~-lp~~i~~l~~L~~L~L~~~~i~-~lp~~i~~l~~L~~L~l~~~~~l~~lp~-~~~~~l~~L  614 (720)
                      ....|++||+++|.+... ++..+..+++|++|++++|.++ ..+..+..+++|++|++++|+.++.-.- .+...+++|
T Consensus        44 ~~~~L~~LdLs~~~i~~~~l~~l~~~c~~L~~L~L~~~~l~~~~~~~l~~~~~L~~L~Ls~c~~itd~~l~~l~~~~~~L  123 (284)
T d2astb2          44 SPFRVQHMDLSNSVIEVSTLHGILSQCSKLQNLSLEGLRLSDPIVNTLAKNSNLVRLNLSGCSGFSEFALQTLLSSCSRL  123 (284)
T ss_dssp             CCBCCCEEECTTCEECHHHHHHHHTTBCCCSEEECTTCBCCHHHHHHHTTCTTCSEEECTTCBSCCHHHHHHHHHHCTTC
T ss_pred             cCCCCCEEECCCCccCHHHHHHHHHhCCCcccccccccCCCcHHHHHHhcCCCCcCccccccccccccccchhhHHHHhc
Confidence            456899999999865533 4556788999999999999876 4567788999999999999976653211 124678999


Q ss_pred             ceeeccccCC
Q 038398          615 QVLRMFDCGG  624 (720)
Q Consensus       615 ~~L~~~~~~~  624 (720)
                      ++|++.+|..
T Consensus       124 ~~L~ls~c~~  133 (284)
T d2astb2         124 DELNLSWCFD  133 (284)
T ss_dssp             CEEECCCCTT
T ss_pred             cccccccccc
Confidence            9999998864

>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=99.17  E-value=1.9e-10  Score=117.89  Aligned_cols=219  Identities=23%  Similarity=0.249  Sum_probs=130.5

Q ss_pred             EEEEcCCCCccCcccccccceeEEEecccccccCCCCCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCcc
Q 038398          476 FLVHAGLGLTEAPEIQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWK  555 (720)
Q Consensus       476 ~~~~~~~~~~~~~~~~~~~~l~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~  555 (720)
                      -+...+.+...+|..  +++|++|++++|.++.+|..  +.+|+.|++.+|.++.++.  +  .+.|++|++++|. +..
T Consensus        42 ~LdLs~~~L~~lp~~--~~~L~~L~Ls~N~l~~lp~~--~~~L~~L~l~~n~l~~l~~--l--p~~L~~L~L~~n~-l~~  112 (353)
T d1jl5a_          42 ELELNNLGLSSLPEL--PPHLESLVASCNSLTELPEL--PQSLKSLLVDNNNLKALSD--L--PPLLEYLGVSNNQ-LEK  112 (353)
T ss_dssp             EEECTTSCCSCCCSC--CTTCSEEECCSSCCSSCCCC--CTTCCEEECCSSCCSCCCS--C--CTTCCEEECCSSC-CSS
T ss_pred             EEEeCCCCCCCCCCC--CCCCCEEECCCCCCcccccc--hhhhhhhhhhhcccchhhh--h--ccccccccccccc-ccc
Confidence            444555555666643  46889999999998888754  4688888888887766543  1  2468888998884 456


Q ss_pred             CCccccCCCCCCEEeccCCCCcccch-------------------hhhcCCCCCEEeccCCcC-----------------
Q 038398          556 LPSGISTLVSLEHLDLSSTAITHLPI-------------------ELQKLVNLKCLNLEYMNN-----------------  599 (720)
Q Consensus       556 lp~~i~~l~~L~~L~L~~~~i~~lp~-------------------~i~~l~~L~~L~l~~~~~-----------------  599 (720)
                      +|. ++.+++|++|+++++.++..|.                   .+..++.++.+++.++..                 
T Consensus       113 lp~-~~~l~~L~~L~l~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~l~~l~~l~~L~l~~n~~~~~~~~~~~~~~l~~~~  191 (353)
T d1jl5a_         113 LPE-LQNSSFLKIIDVDNNSLKKLPDLPPSLEFIAAGNNQLEELPELQNLPFLTAIYADNNSLKKLPDLPLSLESIVAGN  191 (353)
T ss_dssp             CCC-CTTCTTCCEEECCSSCCSCCCCCCTTCCEEECCSSCCSSCCCCTTCTTCCEEECCSSCCSSCCCCCTTCCEEECCS
T ss_pred             ccc-hhhhccceeeccccccccccccccccccchhhccccccccccccccccceeccccccccccccccccccccccccc
Confidence            774 6788888888888877664432                   234455666666655311                 


Q ss_pred             --CCCCchhhhhccccCceeeccccCCCcccch-----------------hc---c---------cccCCc---------
Q 038398          600 --LNQFPRLVISAFSKLQVLRMFDCGGSKIERL-----------------KI---N---------VLFGGH---------  639 (720)
Q Consensus       600 --l~~lp~~~~~~l~~L~~L~~~~~~~~~l~~l-----------------~~---~---------~~~~~~---------  639 (720)
                        +..+|.  ...++.|+.+.+.++....+...                 +.   .         .+.+..         
T Consensus       192 ~~~~~~~~--~~~l~~L~~l~l~~n~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~l~~l~~~~~~~  269 (353)
T d1jl5a_         192 NILEELPE--LQNLPFLTTIYADNNLLKTLPDLPPSLEALNVRDNYLTDLPELPQSLTFLDVSENIFSGLSELPPNLYYL  269 (353)
T ss_dssp             SCCSSCCC--CTTCTTCCEEECCSSCCSSCCSCCTTCCEEECCSSCCSCCCCCCTTCCEEECCSSCCSEESCCCTTCCEE
T ss_pred             cccccccc--ccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccchhccc
Confidence              112222  34455556655543322111000                 00   0         000000         


Q ss_pred             ---cccHHH-hcCCCCCceeEEEecchhhHHHHhhhhhhhhhccccccccccCCCccccccccccCCcceeeecCCCCCc
Q 038398          640 ---QFLVEE-LMGMKHLMVLTITLKSWQALKELLISQELQRSTQSLFLRCFNDSKSLDIFCLAGLRNLNKLYVAGCKHLE  715 (720)
Q Consensus       640 ---~~~~~~-l~~l~~L~~L~~~~~~~~~l~~l~~~~~~~~~L~~L~l~~~~~l~~l~~~~l~~l~~L~~L~l~~c~~l~  715 (720)
                         ...... ...+++|+.|.+++|.+..++      ..+++|+.|++++ +.++.++    ..+++|+.|+|++|+ |+
T Consensus       270 ~~~~~~~~~~~~~~~~L~~L~Ls~N~l~~lp------~~~~~L~~L~L~~-N~L~~l~----~~~~~L~~L~L~~N~-L~  337 (353)
T d1jl5a_         270 NASSNEIRSLCDLPPSLEELNVSNNKLIELP------ALPPRLERLIASF-NHLAEVP----ELPQNLKQLHVEYNP-LR  337 (353)
T ss_dssp             ECCSSCCSEECCCCTTCCEEECCSSCCSCCC------CCCTTCCEEECCS-SCCSCCC----CCCTTCCEEECCSSC-CS
T ss_pred             ccccCccccccccCCCCCEEECCCCccCccc------cccCCCCEEECCC-CcCCccc----cccCCCCEEECcCCc-CC
Confidence               000000 122467888888888766543      1245889999987 4577776    235789999999997 77


Q ss_pred             ccc
Q 038398          716 DSQ  718 (720)
Q Consensus       716 ~i~  718 (720)
                      .+|
T Consensus       338 ~lp  340 (353)
T d1jl5a_         338 EFP  340 (353)
T ss_dssp             SCC
T ss_pred             CCC
Confidence            765

>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=99.16  E-value=7.2e-11  Score=109.70  Aligned_cols=124  Identities=23%  Similarity=0.244  Sum_probs=102.1

Q ss_pred             EEEcCCCCccCcccccccceeEEEeccccccc-CCC--CCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCC
Q 038398          477 LVHAGLGLTEAPEIQNWRNVRRMSLMKNKIEN-LSE--TPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLL  553 (720)
Q Consensus       477 ~~~~~~~~~~~~~~~~~~~l~~L~l~~~~~~~-~~~--~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~  553 (720)
                      +...+.++..+|.- -..++++|+|++|.+.. ++.  +..+++|+.|++++|.+..+++..|..+++|++|+|++|++.
T Consensus        13 v~Cs~~~L~~iP~~-lp~~l~~L~Ls~N~i~~~~~~~~f~~l~~L~~L~L~~N~i~~~~~~~~~~~~~L~~L~Ls~N~l~   91 (192)
T d1w8aa_          13 VDCTGRGLKEIPRD-IPLHTTELLLNDNELGRISSDGLFGRLPHLVKLELKRNQLTGIEPNAFEGASHIQELQLGENKIK   91 (192)
T ss_dssp             EECTTSCCSSCCSC-CCTTCSEEECCSCCCCSBCCSCSGGGCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSCCCC
T ss_pred             EEEeCCCcCccCCC-CCCCCCEEEeCCCCCcccccccccCCCceEeeeeccccccccccccccccccccceeeecccccc
Confidence            44455566666642 23689999999999975 322  367899999999999999999888999999999999999777


Q ss_pred             ccCCccccCCCCCCEEeccCCCCcccchh-hhcCCCCCEEeccCCcCCCC
Q 038398          554 WKLPSGISTLVSLEHLDLSSTAITHLPIE-LQKLVNLKCLNLEYMNNLNQ  602 (720)
Q Consensus       554 ~~lp~~i~~l~~L~~L~L~~~~i~~lp~~-i~~l~~L~~L~l~~~~~l~~  602 (720)
                      ...|..|.++++|++|+|++|.|+.+|+. |..+++|++|+|+++ .+..
T Consensus        92 ~l~~~~F~~l~~L~~L~L~~N~l~~i~~~~f~~l~~L~~l~L~~N-~~~~  140 (192)
T d1w8aa_          92 EISNKMFLGLHQLKTLNLYDNQISCVMPGSFEHLNSLTSLNLASN-PFNC  140 (192)
T ss_dssp             EECSSSSTTCTTCCEEECCSSCCCEECTTSSTTCTTCCEEECTTC-CBCC
T ss_pred             ccCHHHHhCCCcccccccCCccccccCHHHhcCCccccccccccc-cccc
Confidence            66677899999999999999999999765 889999999999984 4443

>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=99.03  E-value=4.8e-10  Score=114.78  Aligned_cols=93  Identities=31%  Similarity=0.346  Sum_probs=77.2

Q ss_pred             cceeEEEecccccccCCCCCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCccCCccccCCCCCCEEeccC
Q 038398          494 RNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSS  573 (720)
Q Consensus       494 ~~l~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~  573 (720)
                      .++++|+++++.+..+|..  .++|++|++++|.++.+|..    +.+|+.|++++|+. ..++. +  .+.|++|++++
T Consensus        38 ~~l~~LdLs~~~L~~lp~~--~~~L~~L~Ls~N~l~~lp~~----~~~L~~L~l~~n~l-~~l~~-l--p~~L~~L~L~~  107 (353)
T d1jl5a_          38 RQAHELELNNLGLSSLPEL--PPHLESLVASCNSLTELPEL----PQSLKSLLVDNNNL-KALSD-L--PPLLEYLGVSN  107 (353)
T ss_dssp             HTCSEEECTTSCCSCCCSC--CTTCSEEECCSSCCSSCCCC----CTTCCEEECCSSCC-SCCCS-C--CTTCCEEECCS
T ss_pred             cCCCEEEeCCCCCCCCCCC--CCCCCEEECCCCCCcccccc----hhhhhhhhhhhccc-chhhh-h--ccccccccccc
Confidence            3688999999999988864  57999999999999988753    56899999999954 35542 1  14699999999


Q ss_pred             CCCcccchhhhcCCCCCEEeccCC
Q 038398          574 TAITHLPIELQKLVNLKCLNLEYM  597 (720)
Q Consensus       574 ~~i~~lp~~i~~l~~L~~L~l~~~  597 (720)
                      |.++.+|. ++++++|++|++++|
T Consensus       108 n~l~~lp~-~~~l~~L~~L~l~~~  130 (353)
T d1jl5a_         108 NQLEKLPE-LQNSSFLKIIDVDNN  130 (353)
T ss_dssp             SCCSSCCC-CTTCTTCCEEECCSS
T ss_pred             cccccccc-hhhhccceeeccccc
Confidence            99999985 688999999999885

>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=98.98  E-value=4.3e-12  Score=118.43  Aligned_cols=105  Identities=27%  Similarity=0.279  Sum_probs=60.0

Q ss_pred             cccccceeEEEecccccccCCCCCCCCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCccCCccccCCCCCCEE
Q 038398          490 IQNWRNVRRMSLMKNKIENLSETPTCPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVSLEHL  569 (720)
Q Consensus       490 ~~~~~~l~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L  569 (720)
                      +..+++|++|++++|.+..++.+..+++|++|++++|.++.+++. +..+++|++|++++|.+. .++ .+..+++|++|
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~~L  120 (198)
T d1m9la_          44 LSTLKACKHLALSTNNIEKISSLSGMENLRILSLGRNLIKKIENL-DAVADTLEELWISYNQIA-SLS-GIEKLVNLRVL  120 (198)
T ss_dssp             HHHTTTCCEEECSEEEESCCCCHHHHTTCCEEECCEEEECSCSSH-HHHHHHCCEEECSEEECC-CHH-HHHHHHHSSEE
T ss_pred             HhcccccceeECcccCCCCcccccCCccccChhhccccccccccc-cccccccccccccccccc-ccc-ccccccccccc
Confidence            445556666666666666655555566666666666655555432 333445666666666332 332 35556666666


Q ss_pred             eccCCCCcccch--hhhcCCCCCEEeccCC
Q 038398          570 DLSSTAITHLPI--ELQKLVNLKCLNLEYM  597 (720)
Q Consensus       570 ~L~~~~i~~lp~--~i~~l~~L~~L~l~~~  597 (720)
                      ++++|+|+.++.  .+..+++|+.|++++|
T Consensus       121 ~L~~N~i~~~~~~~~l~~l~~L~~L~L~~N  150 (198)
T d1m9la_         121 YMSNNKITNWGEIDKLAALDKLEDLLLAGN  150 (198)
T ss_dssp             EESEEECCCHHHHHHHTTTTTCSEEEECSS
T ss_pred             ccccchhccccccccccCCCccceeecCCC
Confidence            666666665542  3556666666666653

>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=98.93  E-value=1.8e-09  Score=96.00  Aligned_cols=101  Identities=17%  Similarity=0.202  Sum_probs=71.2

Q ss_pred             eEEEecccccccCCC-CCCCCcccEEEccCC-CCcCcchHHhccCCcccEEEccCCCCCccCCccccCCCCCCEEeccCC
Q 038398          497 RRMSLMKNKIENLSE-TPTCPHLLSLFLSDN-SLKMSTDDFFQSMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSST  574 (720)
Q Consensus       497 ~~L~l~~~~~~~~~~-~~~~~~L~~L~l~~~-~~~~~~~~~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~~  574 (720)
                      ..+...++.+..++. +..+++|+.|++.+| .++.+++..|.++++|+.|+|++|++...-|..|..+++|++|+|++|
T Consensus        11 ~~l~c~~~~~~~~p~~l~~l~~l~~L~l~~n~~l~~i~~~~f~~l~~L~~L~Ls~N~l~~i~~~~f~~l~~L~~L~Ls~N   90 (156)
T d2ifga3          11 SGLRCTRDGALDSLHHLPGAENLTELYIENQQHLQHLELRDLRGLGELRNLTIVKSGLRFVAPDAFHFTPRLSRLNLSFN   90 (156)
T ss_dssp             SCEECCSSCCCTTTTTSCSCSCCSEEECCSCSSCCEECGGGSCSCCCCSEEECCSSCCCEECTTGGGSCSCCCEEECCSS
T ss_pred             CeEEecCCCCccCcccccCccccCeeecCCCccccccCchhhccccccCcceeeccccCCcccccccccccccceeccCC
Confidence            345666665554433 356677888888665 477777777788888888888888655445666778888888888888


Q ss_pred             CCcccchhhhcCCCCCEEeccCC
Q 038398          575 AITHLPIELQKLVNLKCLNLEYM  597 (720)
Q Consensus       575 ~i~~lp~~i~~l~~L~~L~l~~~  597 (720)
                      +|+.+|.++....+|++|+|++|
T Consensus        91 ~l~~l~~~~~~~~~l~~L~L~~N  113 (156)
T d2ifga3          91 ALESLSWKTVQGLSLQELVLSGN  113 (156)
T ss_dssp             CCSCCCSTTTCSCCCCEEECCSS
T ss_pred             CCcccChhhhccccccccccCCC
Confidence            88888776555557888888773

>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=98.92  E-value=4.8e-08  Score=95.66  Aligned_cols=188  Identities=13%  Similarity=0.140  Sum_probs=117.9

Q ss_pred             CCCcCchHHHHHHHHHhcC------CCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcC-EEEEEEecCcCCHHHHHHH
Q 038398          126 EPTVGLESTFDKVWRCLGE------EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFD-VVIWVVVSKDLQLEKIQEK  198 (720)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~-~~~wv~v~~~~~~~~~~~~  198 (720)
                      ..++|||.++++|.++|..      ...+.+.|+|++|+||||+|+.+++..   ..... ..+|+..............
T Consensus        16 ~~l~~Re~ei~~l~~~l~~~l~~~~~~~~~lll~GppGtGKT~l~~~l~~~l---~~~~~~~~~~~~~~~~~~~~~~~~~   92 (276)
T d1fnna2          16 KRLPHREQQLQQLDILLGNWLRNPGHHYPRATLLGRPGTGKTVTLRKLWELY---KDKTTARFVYINGFIYRNFTAIIGE   92 (276)
T ss_dssp             SCCTTCHHHHHHHHHHHHHHHHSTTSSCCEEEEECCTTSSHHHHHHHHHHHH---TTSCCCEEEEEETTTCCSHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHHHHHHhCCCCCCCceEEECCCCCCHHHHHHHHHHHH---hcccCCcEEEecchhhhhhhhhhhh
Confidence            4589999999999998842      345789999999999999999999987   23332 5567777777888888888


Q ss_pred             HHHHhCCCCCccCCCChhHHHHHHHHHhcc--CcEEEEEeccccccc-----cccccccCC-CCCCCcEEEEEcCChhHh
Q 038398          199 IGRRIGFFDESWKNGSLEDKTSDILRILGK--KKFLLLLDDIWERVD-----LTKVGIPFP-DPENKSKIVFTTHFLEIC  270 (720)
Q Consensus       199 i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~--k~~LlVlDdv~~~~~-----~~~l~~~~~-~~~~gs~iiiTtR~~~v~  270 (720)
                      +....+..... ...........+.+.+..  ....+++|++++...     ...+..... .......+|.++......
T Consensus        93 ~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~  171 (276)
T d1fnna2          93 IARSLNIPFPR-RGLSRDEFLALLVEHLRERDLYMFLVLDDAFNLAPDILSTFIRLGQEADKLGAFRIALVIVGHNDAVL  171 (276)
T ss_dssp             HHHHTTCCCCS-SCCCHHHHHHHHHHHHHHTTCCEEEEEETGGGSCHHHHHHHHHHTTCHHHHSSCCEEEEEEESSTHHH
T ss_pred             hHHhhhhhhhh-hccchhHHHHHHHHHHhhcccccccchhHHHHhhhhhhhhHHHHHhccccccccceEEeecCCchhhh
Confidence            88887765432 334455555555555543  567788888765321     111111111 112233455555543332


Q ss_pred             hhh-------ccCceeeccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHH
Q 038398          271 GAL-------KAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQE  318 (720)
Q Consensus       271 ~~~-------~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~  318 (720)
                      ..+       .....+.+.+++.++.++++.+++.... .....-++..+.|++.
T Consensus       172 ~~~~~~~~~r~~~~~i~~~~~~~~e~~~il~~r~~~~~-~~~~~~~~~l~~ia~~  225 (276)
T d1fnna2         172 NNLDPSTRGIMGKYVIRFSPYTKDQIFDILLDRAKAGL-AEGSYSEDILQMIADI  225 (276)
T ss_dssp             HTSCHHHHHHHTTCEEECCCCBHHHHHHHHHHHHHHHB-CTTSSCHHHHHHHHHH
T ss_pred             hhcchhhhhhhcchhccccchhHHHHHHHHHHHHHHhc-ccccccHHHHHHHHHH
Confidence            211       1234578999999999999988764322 1111224445555554

>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=98.91  E-value=1.1e-09  Score=105.21  Aligned_cols=196  Identities=11%  Similarity=0.133  Sum_probs=115.9

Q ss_pred             CCCCCcCchHHHHHHHHHhcCCCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHHHHHh
Q 038398          124 PCEPTVGLESTFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKIGRRI  203 (720)
Q Consensus       124 ~~~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i~~~l  203 (720)
                      ..++++|.++.++.+..++.....+.+.++|++|+||||+|+.+++..............++.+.......+...+-...
T Consensus        10 ~~~diig~~~~~~~l~~~i~~~~~~~lll~Gp~G~GKTtl~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   89 (237)
T d1sxjd2          10 NLDEVTAQDHAVTVLKKTLKSANLPHMLFYGPPGTGKTSTILALTKELYGPDLMKSRILELNASDERGISIVREKVKNFA   89 (237)
T ss_dssp             STTTCCSCCTTHHHHHHHTTCTTCCCEEEECSTTSSHHHHHHHHHHHHHHHHHHTTSEEEECSSSCCCHHHHTTHHHHHH
T ss_pred             CHHHccCcHHHHHHHHHHHHcCCCCeEEEECCCCCChHHHHHHHHHHHcCCcccccchhheeccccccchHHHHHHHHHh
Confidence            34678999999999999998877777889999999999999999887511111122334445555545444333332221


Q ss_pred             CCCCCccCCCChhHHHHHHHHHhccCcEEEEEecccccc--ccccccccCCCCCCCcEEEEEcCCh-hHh-hhhccCcee
Q 038398          204 GFFDESWKNGSLEDKTSDILRILGKKKFLLLLDDIWERV--DLTKVGIPFPDPENKSKIVFTTHFL-EIC-GALKAHEFL  279 (720)
Q Consensus       204 ~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~--~~~~l~~~~~~~~~gs~iiiTtR~~-~v~-~~~~~~~~~  279 (720)
                      ....   ....    ...+......+.-++|+|+++...  ....+...+......+++++|+... .+. ........+
T Consensus        90 ~~~~---~~~~----~~~~~~~~~~~~~viiiDe~d~l~~~~~~~l~~~~~~~~~~~~~i~~~~~~~~~~~~l~sr~~~i  162 (237)
T d1sxjd2          90 RLTV---SKPS----KHDLENYPCPPYKIIILDEADSMTADAQSALRRTMETYSGVTRFCLICNYVTRIIDPLASQCSKF  162 (237)
T ss_dssp             HSCC---CCCC----TTHHHHSCCCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHHHSEEE
T ss_pred             hhhh---hhhh----HHHHhhccccCceEEEEecccccCHHHHHHHhhccccccccccccccccccccccccccchhhhh
Confidence            1111   0000    111222233445579999987542  2222211122233456666666542 221 112223578


Q ss_pred             eccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCc-chHHHHH
Q 038398          280 KVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGL-PLALITI  329 (720)
Q Consensus       280 ~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~Gl-PLai~~~  329 (720)
                      ++++++.++..+++.+.+.......   -.+..+.|++.++|- .-|+..+
T Consensus       163 ~f~~~~~~~~~~~L~~i~~~e~i~i---~~~~l~~ia~~s~gd~R~ai~~L  210 (237)
T d1sxjd2         163 RFKALDASNAIDRLRFISEQENVKC---DDGVLERILDISAGDLRRGITLL  210 (237)
T ss_dssp             ECCCCCHHHHHHHHHHHHHTTTCCC---CHHHHHHHHHHTSSCHHHHHHHH
T ss_pred             ccccccccccchhhhhhhhhhcCcC---CHHHHHHHHHHcCCCHHHHHHHH
Confidence            9999999999999998876544222   256788899999874 4555544

>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=98.90  E-value=1.5e-10  Score=107.73  Aligned_cols=112  Identities=20%  Similarity=0.260  Sum_probs=76.4

Q ss_pred             HhccCCcccEEEccCCCCCccCCccccCCCCCCEEeccCCCCcccchhhhcCCCCCEEeccCCcCCCCCchhhhhccccC
Q 038398          535 FFQSMPSLRVFNMSNNHLLWKLPSGISTLVSLEHLDLSSTAITHLPIELQKLVNLKCLNLEYMNNLNQFPRLVISAFSKL  614 (720)
Q Consensus       535 ~~~~l~~L~~L~L~~~~~~~~lp~~i~~l~~L~~L~L~~~~i~~lp~~i~~l~~L~~L~l~~~~~l~~lp~~~~~~l~~L  614 (720)
                      .+..+++|++|+|++|.+ ..++ .+..+++|++|++++|.|+.+|..+..+++|+.|++++ +.+..++.  +..+++|
T Consensus        43 sl~~L~~L~~L~Ls~n~I-~~i~-~l~~l~~L~~L~Ls~N~i~~i~~~~~~~~~L~~L~l~~-N~i~~l~~--~~~l~~L  117 (198)
T d1m9la_          43 TLSTLKACKHLALSTNNI-EKIS-SLSGMENLRILSLGRNLIKKIENLDAVADTLEELWISY-NQIASLSG--IEKLVNL  117 (198)
T ss_dssp             HHHHTTTCCEEECSEEEE-SCCC-CHHHHTTCCEEECCEEEECSCSSHHHHHHHCCEEECSE-EECCCHHH--HHHHHHS
T ss_pred             HHhcccccceeECcccCC-CCcc-cccCCccccChhhccccccccccccccccccccccccc-cccccccc--ccccccc
Confidence            377788888888888743 4554 57778888888888888887776556666788888877 46666654  6677777


Q ss_pred             ceeeccccCCCcccchhcccccCCccccHHHhcCCCCCceeEEEecchhh
Q 038398          615 QVLRMFDCGGSKIERLKINVLFGGHQFLVEELMGMKHLMVLTITLKSWQA  664 (720)
Q Consensus       615 ~~L~~~~~~~~~l~~l~~~~~~~~~~~~~~~l~~l~~L~~L~~~~~~~~~  664 (720)
                      +.|++.++   .+..++          .+..+..+++|+.|.+++|.+..
T Consensus       118 ~~L~L~~N---~i~~~~----------~~~~l~~l~~L~~L~L~~N~l~~  154 (198)
T d1m9la_         118 RVLYMSNN---KITNWG----------EIDKLAALDKLEDLLLAGNPLYN  154 (198)
T ss_dssp             SEEEESEE---ECCCHH----------HHHHHTTTTTCSEEEECSSHHHH
T ss_pred             cccccccc---hhcccc----------ccccccCCCccceeecCCCcccc
Confidence            77777653   332211          13456777888888888776543

>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=98.90  E-value=2e-09  Score=102.63  Aligned_cols=177  Identities=15%  Similarity=0.207  Sum_probs=108.1

Q ss_pred             CCCCcCchHHHHHHHHHhcCCCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHHHHHhC
Q 038398          125 CEPTVGLESTFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKIGRRIG  204 (720)
Q Consensus       125 ~~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i~~~l~  204 (720)
                      .+++||.++.++.+..|+..+..+.+.++|++|+||||+|+.+++... .......++-...+...+.............
T Consensus        13 ~~divg~~~~~~~L~~~i~~~~~~~lLl~Gp~G~GKttl~~~la~~l~-~~~~~~~~~e~~~~~~~~~~~~~~~~~~~~~   91 (227)
T d1sxjc2          13 LDEVYGQNEVITTVRKFVDEGKLPHLLFYGPPGTGKTSTIVALAREIY-GKNYSNMVLELNASDDRGIDVVRNQIKDFAS   91 (227)
T ss_dssp             GGGCCSCHHHHHHHHHHHHTTCCCCEEEECSSSSSHHHHHHHHHHHHH-TTSHHHHEEEECTTSCCSHHHHHTHHHHHHH
T ss_pred             HHHccCcHHHHHHHHHHHHcCCCCeEEEECCCCCChhHHHHHHHHHhh-cCCCcceeEEecccccCCeeeeecchhhccc
Confidence            367899999999999999887776678999999999999999998762 1222222333333333333222211111110


Q ss_pred             CCCCccCCCChhHHHHHHHHHhccCcEEEEEecccccc--ccccccccCCCCCCCcEEEEEcCChh-Hhh-hhccCceee
Q 038398          205 FFDESWKNGSLEDKTSDILRILGKKKFLLLLDDIWERV--DLTKVGIPFPDPENKSKIVFTTHFLE-ICG-ALKAHEFLK  280 (720)
Q Consensus       205 ~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~--~~~~l~~~~~~~~~gs~iiiTtR~~~-v~~-~~~~~~~~~  280 (720)
                      ..                 ....+++-++|+|+++...  ....+...+......++++++|.... +.. .......++
T Consensus        92 ~~-----------------~~~~~~~kiiiiDe~d~~~~~~~~~Ll~~le~~~~~~~~~~~~~~~~~i~~~i~sr~~~i~  154 (227)
T d1sxjc2          92 TR-----------------QIFSKGFKLIILDEADAMTNAAQNALRRVIERYTKNTRFCVLANYAHKLTPALLSQCTRFR  154 (227)
T ss_dssp             BC-----------------CSSSCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSEEEE
T ss_pred             cc-----------------cccCCCeEEEEEeccccchhhHHHHHHHHhhhcccceeeccccCcHHHhHHHHHHHHhhhc
Confidence            00                 0112345588999997542  22222222223345677777776533 222 223346789


Q ss_pred             ccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCc
Q 038398          281 VECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGL  322 (720)
Q Consensus       281 l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~Gl  322 (720)
                      +.+++.++-..++.+.+.......   -.+....|++.++|-
T Consensus       155 ~~~~~~~~i~~~l~~I~~~e~i~i---~~~~l~~i~~~s~Gd  193 (227)
T d1sxjc2         155 FQPLPQEAIERRIANVLVHEKLKL---SPNAEKALIELSNGD  193 (227)
T ss_dssp             CCCCCHHHHHHHHHHHHHTTTCCB---CHHHHHHHHHHHTTC
T ss_pred             cccccccccccccccccccccccC---CHHHHHHHHHHcCCc
Confidence            999999999999988876543222   246678899998885

>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=98.87  E-value=2e-09  Score=102.42  Aligned_cols=185  Identities=16%  Similarity=0.167  Sum_probs=113.6

Q ss_pred             CCCCcCchHHHHHHHHHhcCCCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHHHHHhC
Q 038398          125 CEPTVGLESTFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKIGRRIG  204 (720)
Q Consensus       125 ~~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i~~~l~  204 (720)
                      .+++||.++.++.+..|+.++....+.++|++|+||||+|+.+++... ....-..++.++.+...+...+...+.....
T Consensus        14 ~~d~ig~~~~~~~L~~~~~~~~~~~~ll~Gp~G~GKTt~a~~la~~l~-~~~~~~~~~~~n~~~~~~~~~i~~~~~~~~~   92 (224)
T d1sxjb2          14 LSDIVGNKETIDRLQQIAKDGNMPHMIISGMPGIGKTTSVHCLAHELL-GRSYADGVLELNASDDRGIDVVRNQIKHFAQ   92 (224)
T ss_dssp             GGGCCSCTHHHHHHHHHHHSCCCCCEEEECSTTSSHHHHHHHHHHHHH-GGGHHHHEEEECTTSCCSHHHHHTHHHHHHH
T ss_pred             HHHhcCCHHHHHHHHHHHHcCCCCeEEEECCCCCCchhhHHHHHHHHh-ccccccccccccccccCCceehhhHHHHHHH
Confidence            367899999999999999887777788999999999999999988761 1111113444444444444443333322221


Q ss_pred             CCCCccCCCChhHHHHHHHHHhccCcEEEEEecccccc--ccccccccCCCCCCCcEEEEEcCCh-hHhh-hhccCceee
Q 038398          205 FFDESWKNGSLEDKTSDILRILGKKKFLLLLDDIWERV--DLTKVGIPFPDPENKSKIVFTTHFL-EICG-ALKAHEFLK  280 (720)
Q Consensus       205 ~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~--~~~~l~~~~~~~~~gs~iiiTtR~~-~v~~-~~~~~~~~~  280 (720)
                      ....                ...++.-++|+|+++...  ....+...+......++++++|.+. .+.. .......++
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            1100                002355689999997532  2222222222333456666666543 3321 223346789


Q ss_pred             ccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCcch-HHHHH
Q 038398          281 VECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGLPL-ALITI  329 (720)
Q Consensus       281 l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~GlPL-ai~~~  329 (720)
                      +++++.++-...+.+.+.......   -.+....|++.|+|-+- ||..+
T Consensus       157 ~~~~~~~~i~~~l~~i~~~e~~~i---~~~~l~~I~~~s~Gd~R~ai~~L  203 (224)
T d1sxjb2         157 YSKLSDEDVLKRLLQIIKLEDVKY---TNDGLEAIIFTAEGDMRQAINNL  203 (224)
T ss_dssp             CCCCCHHHHHHHHHHHHHHHTCCB---CHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             hcccchhhhHHHHHHHHHhcccCC---CHHHHHHHHHHcCCcHHHHHHHH
Confidence            999999999999988876543222   24567899999998754 44433

>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=98.80  E-value=5.2e-08  Score=93.18  Aligned_cols=183  Identities=15%  Similarity=0.151  Sum_probs=109.1

Q ss_pred             CCCCcCchHHHHHHHHHhcCCC-ceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcC-------------------EEEEE
Q 038398          125 CEPTVGLESTFDKVWRCLGEEQ-VGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFD-------------------VVIWV  184 (720)
Q Consensus       125 ~~~~vGr~~~~~~l~~~L~~~~-~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~-------------------~~~wv  184 (720)
                      ..+++|.++.++.+..++..+. ...+.++|++|+||||+|+.+++.... ....+                   .++.+
T Consensus        11 ~~dlig~~~~~~~L~~~i~~~~~~~~~Ll~Gp~G~GKtt~a~~~~~~l~~-~~~~~~~~~~~~~~~~~i~~~~~~~~~~~   89 (239)
T d1njfa_          11 FADVVGQEHVLTALANGLSLGRIHHAYLFSGTRGVGKTSIARLLAKGLNC-ETGITATPCGVCDNCREIEQGRFVDLIEI   89 (239)
T ss_dssp             GGGSCSCHHHHHHHHHHHHTTCCCSEEEEECSTTSSHHHHHHHHHHHHHC-TTCSCSSCCSCSHHHHHHHHTCCTTEEEE
T ss_pred             HHHccChHHHHHHHHHHHHcCCCCeeEEEECCCCCcHHHHHHHHHHHhcC-ccccccCccccchHHHHHHcCCCCeEEEe
Confidence            3678999999999999997765 456889999999999999998876521 11100                   01222


Q ss_pred             EecCcCCHHHHHHHHHHHhCCCCCccCCCChhHHHHHHHHHhccCcEEEEEecccccc--ccccccccCCCCCCCcEEEE
Q 038398          185 VVSKDLQLEKIQEKIGRRIGFFDESWKNGSLEDKTSDILRILGKKKFLLLLDDIWERV--DLTKVGIPFPDPENKSKIVF  262 (720)
Q Consensus       185 ~v~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~--~~~~l~~~~~~~~~gs~iii  262 (720)
                      ..+.......+ +.+...+....                  ..++..++|||+++...  ....+...+.....++.+|+
T Consensus        90 ~~~~~~~i~~i-r~~~~~~~~~~------------------~~~~~kviiIde~d~l~~~~q~~Llk~lE~~~~~~~~il  150 (239)
T d1njfa_          90 DAASRTKVEDT-RDLLDNVQYAP------------------ARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLL  150 (239)
T ss_dssp             ETTCSSSHHHH-HHHHHSCCCSC------------------SSSSSEEEEEETGGGSCHHHHHHHHHHHHSCCTTEEEEE
T ss_pred             cchhcCCHHHH-HHHHHHHHhcc------------------ccCCCEEEEEECcccCCHHHHHHHHHHHhcCCCCeEEEE
Confidence            22211111111 11222211100                  12355689999998642  22223222323345677777


Q ss_pred             EcCChh-Hhhh-hccCceeeccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCcch-HHHHHH
Q 038398          263 TTHFLE-ICGA-LKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGLPL-ALITIG  330 (720)
Q Consensus       263 TtR~~~-v~~~-~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~GlPL-ai~~~~  330 (720)
                      +|.+.. +... ......+.+.+++.++..+.+...+......   --++....|++.++|.+- |+..+-
T Consensus       151 ~tn~~~~i~~~i~SRc~~i~~~~~~~~~i~~~l~~i~~~e~~~---~~~~~l~~i~~~s~Gd~R~ain~l~  218 (239)
T d1njfa_         151 ATTDPQKLPVTILSRCLQFHLKALDVEQIRHQLEHILNEEHIA---HEPRALQLLARAAEGSLRDALSLTD  218 (239)
T ss_dssp             EESCGGGSCHHHHTTSEEEECCCCCHHHHHHHHHHHHHHHTCC---BCHHHHHHHHHHTTTCHHHHHHHHH
T ss_pred             EcCCccccChhHhhhhcccccccCcHHHhhhHHHHHHhhhccC---CCHHHHHHHHHHcCCCHHHHHHHHH
Confidence            776543 2111 1233678999999999999888877543311   225667889999999774 565553

>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=98.77  E-value=5.5e-09  Score=99.81  Aligned_cols=177  Identities=15%  Similarity=0.132  Sum_probs=105.1

Q ss_pred             CCCCcCchHHHHHHHHHhcCCCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcC-EEEEEEecCcCCHHHHHHHHHHHh
Q 038398          125 CEPTVGLESTFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFD-VVIWVVVSKDLQLEKIQEKIGRRI  203 (720)
Q Consensus       125 ~~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~-~~~wv~v~~~~~~~~~~~~i~~~l  203 (720)
                      .++++|.++.++++..|+..+..+.+.++|++|+||||+|+.+++...  ...+. ..+-++.+...+...+...+....
T Consensus        23 ~~diig~~~~~~~l~~~i~~~~~~~lll~Gp~G~GKTtla~~iak~l~--~~~~~~~~~e~n~s~~~~~~~~~~~~~~~~  100 (231)
T d1iqpa2          23 LDDIVGQEHIVKRLKHYVKTGSMPHLLFAGPPGVGKTTAALALARELF--GENWRHNFLELNASDERGINVIREKVKEFA  100 (231)
T ss_dssp             TTTCCSCHHHHHHHHHHHHHTCCCEEEEESCTTSSHHHHHHHHHHHHH--GGGHHHHEEEEETTCHHHHHTTHHHHHHHH
T ss_pred             HHHccCcHHHHHHHHHHHHcCCCCeEEEECCCCCcHHHHHHHHHHHHH--hcccCCCeeEEecCcccchhHHHHHHHHHH
Confidence            467899999999999999888778889999999999999999988751  11222 122233332211111111111111


Q ss_pred             CCCCCccCCCChhHHHHHHHHHhccCcEEEEEeccccc--cccccccccCCCCCCCcEEEEEcCC-hhHhhh-hccCcee
Q 038398          204 GFFDESWKNGSLEDKTSDILRILGKKKFLLLLDDIWER--VDLTKVGIPFPDPENKSKIVFTTHF-LEICGA-LKAHEFL  279 (720)
Q Consensus       204 ~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~iiiTtR~-~~v~~~-~~~~~~~  279 (720)
                      ...                 .....++.++++||++..  .....+...+........+|.||.. ..+... ......+
T Consensus       101 ~~~-----------------~~~~~~~~iilide~d~~~~~~~~~ll~~l~~~~~~~~~i~~~n~~~~i~~~l~sR~~~i  163 (231)
T d1iqpa2         101 RTK-----------------PIGGASFKIIFLDEADALTQDAQQALRRTMEMFSSNVRFILSCNYSSKIIEPIQSRCAIF  163 (231)
T ss_dssp             HSC-----------------CGGGCSCEEEEEETGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHHTEEEE
T ss_pred             hhh-----------------hccCCCceEEeehhhhhcchhHHHHHhhhcccCCcceEEEeccCChhhchHhHhCccccc
Confidence            000                 011246778999998753  2222222222222234455555543 333222 2233578


Q ss_pred             eccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCcc
Q 038398          280 KVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGLP  323 (720)
Q Consensus       280 ~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~GlP  323 (720)
                      .+.+.+.++....+.+.+......   --.+..+.|++.|+|-.
T Consensus       164 ~~~~~~~~~~~~~l~~~~~~e~i~---i~~~~l~~I~~~~~gdi  204 (231)
T d1iqpa2         164 RFRPLRDEDIAKRLRYIAENEGLE---LTEEGLQAILYIAEGDM  204 (231)
T ss_dssp             ECCCCCHHHHHHHHHHHHHTTTCE---ECHHHHHHHHHHHTTCH
T ss_pred             cccccchhhHHHHHHHHHHHhCCC---CCHHHHHHHHHHcCCCH
Confidence            999999999999998887654321   12456788999998853

>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=98.72  E-value=2.9e-08  Score=87.94  Aligned_cols=104  Identities=17%  Similarity=0.183  Sum_probs=81.4

Q ss_pred             CCcccEEEccCCCCcCcchHHhccCCcccEEEccCCCCCccC-CccccCCCCCCEEeccCCCCcccc-hhhhcCCCCCEE
Q 038398          515 CPHLLSLFLSDNSLKMSTDDFFQSMPSLRVFNMSNNHLLWKL-PSGISTLVSLEHLDLSSTAITHLP-IELQKLVNLKCL  592 (720)
Q Consensus       515 ~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~l-p~~i~~l~~L~~L~L~~~~i~~lp-~~i~~l~~L~~L  592 (720)
                      +.....+..+++.+...+.. +..+++|+.|++++++.+..+ +..|.++++|+.|+|++|+|+.+| ..|..+++|++|
T Consensus         7 c~~~~~l~c~~~~~~~~p~~-l~~l~~l~~L~l~~n~~l~~i~~~~f~~l~~L~~L~Ls~N~l~~i~~~~f~~l~~L~~L   85 (156)
T d2ifga3           7 PHGSSGLRCTRDGALDSLHH-LPGAENLTELYIENQQHLQHLELRDLRGLGELRNLTIVKSGLRFVAPDAFHFTPRLSRL   85 (156)
T ss_dssp             CSSSSCEECCSSCCCTTTTT-SCSCSCCSEEECCSCSSCCEECGGGSCSCCCCSEEECCSSCCCEECTTGGGSCSCCCEE
T ss_pred             cCCCCeEEecCCCCccCccc-ccCccccCeeecCCCccccccCchhhccccccCcceeeccccCCcccccccccccccce
Confidence            44456688888877777665 788899999999877655555 467899999999999999999985 458999999999


Q ss_pred             eccCCcCCCCCchhhhhccccCceeeccc
Q 038398          593 NLEYMNNLNQFPRLVISAFSKLQVLRMFD  621 (720)
Q Consensus       593 ~l~~~~~l~~lp~~~~~~l~~L~~L~~~~  621 (720)
                      +|++ +.+..+|...+..+ +|+.|++.+
T Consensus        86 ~Ls~-N~l~~l~~~~~~~~-~l~~L~L~~  112 (156)
T d2ifga3          86 NLSF-NALESLSWKTVQGL-SLQELVLSG  112 (156)
T ss_dssp             ECCS-SCCSCCCSTTTCSC-CCCEEECCS
T ss_pred             eccC-CCCcccChhhhccc-cccccccCC
Confidence            9998 67888988654433 566666553

>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=98.69  E-value=1.2e-07  Score=90.57  Aligned_cols=155  Identities=18%  Similarity=0.319  Sum_probs=99.8

Q ss_pred             CCCcCchHHHHHHHHHhcCCCceEEEEEcCCCChHHHHHHHHHhhhcC--CCCC-cCEEEEE-EecCcCCHHHHHHHHHH
Q 038398          126 EPTVGLESTFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLG--APNV-FDVVIWV-VVSKDLQLEKIQEKIGR  201 (720)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~--~~~~-f~~~~wv-~v~~~~~~~~~~~~i~~  201 (720)
                      ++.|||++++++++..|......-+.++|++|+|||+++..++.+...  +... .+..+|. +++.-            
T Consensus        18 d~~igRd~Ei~~l~~iL~r~~k~n~lLVG~~GvGKTalv~~la~ri~~~~vp~~l~~~~i~~l~~~~l------------   85 (268)
T d1r6bx2          18 DPLIGREKELERAIQVLCRRRKNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIGSL------------   85 (268)
T ss_dssp             CCCCSCHHHHHHHHHHHTSSSSCEEEEECCTTSSHHHHHHHHHHHHHHTCSCGGGTTCEEEECCCC--------------
T ss_pred             CcccChHHHHHHHHHHHhcCccCCcEEECCCCCcHHHHHHHHHHHHHhCCcccccccceeEEeeechH------------
Confidence            457999999999999998766677789999999999999998877521  1111 2334443 22210            


Q ss_pred             HhCCCCCccCCCChhHHHHHHHHHhc-cCcEEEEEecccccc----------ccccccccCCCCCCCcEEEEEcCChhHh
Q 038398          202 RIGFFDESWKNGSLEDKTSDILRILG-KKKFLLLLDDIWERV----------DLTKVGIPFPDPENKSKIVFTTHFLEIC  270 (720)
Q Consensus       202 ~l~~~~~~~~~~~~~~~~~~l~~~l~-~k~~LlVlDdv~~~~----------~~~~l~~~~~~~~~gs~iiiTtR~~~v~  270 (720)
                       +.  .. ......++....+...+. .+..++++|++....          +...+..++.. ...-++|.||..++..
T Consensus        86 -ia--g~-~~~g~~e~r~~~i~~~~~~~~~iIlfiDeih~l~~~g~~~g~~~d~a~~Lkp~L~-rg~i~vIgatT~eey~  160 (268)
T d1r6bx2          86 -LA--GT-KYRGDFEKRFKALLKQLEQDTNSILFIDEIHTIIGAGAASGGQVDAANLIKPLLS-SGKIRVIGSTTYQEFS  160 (268)
T ss_dssp             --C--CC-CCSSCHHHHHHHHHHHHSSSSCEEEEETTTTTTTTSCCSSSCHHHHHHHHSSCSS-SCCCEEEEEECHHHHH
T ss_pred             -hc--cC-ccchhHHHHHHHHHHHhhccCCceEEecchHHHhcCCCCCCccccHHHHhhHHHh-CCCCeEEEeCCHHHHH
Confidence             00  00 023456666666666554 467899999986531          22223222222 2356888888877764


Q ss_pred             hhhc-------cCceeeccCCChhhHHHHHHHHh
Q 038398          271 GALK-------AHEFLKVECLGPEDAWRLFRENL  297 (720)
Q Consensus       271 ~~~~-------~~~~~~l~~L~~~e~~~Lf~~~~  297 (720)
                      ....       ..+.+.+++++.+++..++....
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       23578999999999999987654

>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=98.69  E-value=1.7e-07  Score=92.16  Aligned_cols=192  Identities=14%  Similarity=0.110  Sum_probs=113.7

Q ss_pred             CCCcCchHHHHHHHHHhcC----C----C-ceEEEEEcCCCChHHHHHHHHHhhhcC---CCCCcCEEEEEEecCcCCHH
Q 038398          126 EPTVGLESTFDKVWRCLGE----E----Q-VGIIGLYGMGGVGKTTLLTKINNKLLG---APNVFDVVIWVVVSKDLQLE  193 (720)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~----~----~-~~vi~I~G~gGiGKTtLa~~v~~~~~~---~~~~f~~~~wv~v~~~~~~~  193 (720)
                      +.++||+.++++|.+++..    +    . ..++.|+|++|+||||+|+.+++...+   .........++.+.......
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            5789999999999887621    1    1 234667899999999999999987521   01222356777877777888


Q ss_pred             HHHHHHHHHhCCCCCccCCCChhHHHHHHHHHhc--cCcEEEEEeccccccc-----------cccccccCC---CCCCC
Q 038398          194 KIQEKIGRRIGFFDESWKNGSLEDKTSDILRILG--KKKFLLLLDDIWERVD-----------LTKVGIPFP---DPENK  257 (720)
Q Consensus       194 ~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~--~k~~LlVlDdv~~~~~-----------~~~l~~~~~---~~~~g  257 (720)
                      .........++..... ...........+.+...  +...++++|.++....           +..+...+.   ....-
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            8888888887654432 33444555555555443  3567788887753210           111111111   11222


Q ss_pred             cEEEEEcCChhHhh------h--hccCceeeccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHh
Q 038398          258 SKIVFTTHFLEICG------A--LKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQEC  319 (720)
Q Consensus       258 s~iiiTtR~~~v~~------~--~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c  319 (720)
                      ..|++++.......      .  ......+.+++++.++..+++..++.... ....--++..+.|+++.
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            33444444332211      1  11235788999999999999998764322 11112245566666655

>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=98.58  E-value=3.5e-08  Score=95.45  Aligned_cols=194  Identities=10%  Similarity=0.138  Sum_probs=99.8

Q ss_pred             CCCcCchHHHHHHHHHhcCC-CceEEEEEcCCCChHHHHHHHHHhhhcCC---CCCcCEEEEEEecCc------------
Q 038398          126 EPTVGLESTFDKVWRCLGEE-QVGIIGLYGMGGVGKTTLLTKINNKLLGA---PNVFDVVIWVVVSKD------------  189 (720)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~-~~~vi~I~G~gGiGKTtLa~~v~~~~~~~---~~~f~~~~wv~v~~~------------  189 (720)
                      ++++|.++..+.+..++... ....+.++|++|+||||+|+++++.....   ...++...|...+..            
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            56899999999998888654 34567799999999999999999875111   111122222111100            


Q ss_pred             ---------CCHHHHHHHHHHHhCCCCCccCCCChhHHHHHHHHHhccCcEEEEEeccccc--cccccccccCCCCCCCc
Q 038398          190 ---------LQLEKIQEKIGRRIGFFDESWKNGSLEDKTSDILRILGKKKFLLLLDDIWER--VDLTKVGIPFPDPENKS  258 (720)
Q Consensus       190 ---------~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~--~~~~~l~~~~~~~~~gs  258 (720)
                               ...................    .    ....-......+.-++|||+++..  .....+...+......+
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    000000111234558999998753  22222222222234556


Q ss_pred             EEEEEcCChh-Hhh-hhccCceeeccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCcch-HHHHH
Q 038398          259 KIVFTTHFLE-ICG-ALKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGLPL-ALITI  329 (720)
Q Consensus       259 ~iiiTtR~~~-v~~-~~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~GlPL-ai~~~  329 (720)
                      ++|+||.+.. +.. ..+....+++.+++.++..+++...+......  ...++....|++.+.|.+- ||..+
T Consensus       163 ~~Il~tn~~~~i~~~l~sR~~~i~~~~~~~~~~~~~l~~i~~~e~~~--~~~~~~l~~i~~~s~Gd~R~ai~~L  234 (252)
T d1sxje2         163 RLIMVCDSMSPIIAPIKSQCLLIRCPAPSDSEISTILSDVVTNERIQ--LETKDILKRIAQASNGNLRVSLLML  234 (252)
T ss_dssp             EEEEEESCSCSSCHHHHTTSEEEECCCCCHHHHHHHHHHHHHHHTCE--ECCSHHHHHHHHHHTTCHHHHHHHH
T ss_pred             cceeeeccccchhhhhhcchheeeecccchhhHHHHHHHHHHHcCCC--CCcHHHHHHHHHHcCCcHHHHHHHH
Confidence            7777775432 211 11122578899999999999998776433211  1124667889999988754 44433

>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=98.52  E-value=7.7e-08  Score=86.62  Aligned_cols=151  Identities=17%  Similarity=0.255  Sum_probs=89.7

Q ss_pred             CCCcCchHHHHHHHHHhcCCCceEEEEEcCCCChHHHHHHHHHhhhc--CCCC-CcCEEEEEEecCcCCHHHHHHHHHHH
Q 038398          126 EPTVGLESTFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLL--GAPN-VFDVVIWVVVSKDLQLEKIQEKIGRR  202 (720)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~--~~~~-~f~~~~wv~v~~~~~~~~~~~~i~~~  202 (720)
                      ++.|||+++++++...|......-+.++|.+|+|||+++..++.+..  ++.. ..+..+|.-     +...+    +..
T Consensus        22 d~~igRd~Ei~~l~~iL~r~~k~n~lLvG~pGVGKTalv~~LA~ri~~~~vp~~L~~~~i~~l-----d~~~L----iAg   92 (195)
T d1jbka_          22 DPVIGRDEEIRRTIQVLQRRTKNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLAL-----DMGAL----VAG   92 (195)
T ss_dssp             CCCCSCHHHHHHHHHHHTSSSSCEEEEECCTTSCHHHHHHHHHHHHHHTCSCGGGTTCEEEEE-----CHHHH----HTT
T ss_pred             CCCcCcHHHHHHHHHHHhccCCCCeEEEecCCcccHHHHHHHHHHHHhCCCCHHHcCceEEEe-----eHHHH----hcc
Confidence            45799999999999999876667788999999999999998887652  1111 223444431     11111    111


Q ss_pred             hCCCCCccCCCChhHHHHHHHHHh-c-cCcEEEEEecccccc---------ccccccccCCCCCCCcEEEEEcCChhHhh
Q 038398          203 IGFFDESWKNGSLEDKTSDILRIL-G-KKKFLLLLDDIWERV---------DLTKVGIPFPDPENKSKIVFTTHFLEICG  271 (720)
Q Consensus       203 l~~~~~~~~~~~~~~~~~~l~~~l-~-~k~~LlVlDdv~~~~---------~~~~l~~~~~~~~~gs~iiiTtR~~~v~~  271 (720)
                      ..      .....++....+.+.+ + ..+++|++|++....         +...+..+... ...-++|.||..+....
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      1112344444444433 2 347999999986531         11122111111 23467888887666543


Q ss_pred             hhc-------cCceeeccCCChhhHHHH
Q 038398          272 ALK-------AHEFLKVECLGPEDAWRL  292 (720)
Q Consensus       272 ~~~-------~~~~~~l~~L~~~e~~~L  292 (720)
                      ...       ..+.+.++.++.+++..+
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            322       236788888888887654

>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=98.48  E-value=4.4e-07  Score=87.52  Aligned_cols=189  Identities=12%  Similarity=0.069  Sum_probs=106.5

Q ss_pred             CCCcCchHHHHHHHHHhcC-----------------CCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecC
Q 038398          126 EPTVGLESTFDKVWRCLGE-----------------EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSK  188 (720)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~-----------------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~  188 (720)
                      .+++|.++.+++|.+++..                 ...+.+.++|++|+||||+|+.+++..   .  + .++++..+.
T Consensus        14 ~dlig~~~~~~~L~~~l~~~~~~~~~~~~~~~~~~~~~~~~lll~GPpG~GKTt~a~~la~~~---~--~-~~~~~~~~~   87 (253)
T d1sxja2          14 QQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVAQEL---G--Y-DILEQNASD   87 (253)
T ss_dssp             GGCCSCHHHHHHHHHHHHTHHHHHHTTTCCCCTTSTTSCSEEEEECSTTSSHHHHHHHHHHHT---T--C-EEEEECTTS
T ss_pred             HHhcCCHHHHHHHHHHHHhhhhcchhhhhhhcccCCCCCceEEEECCCCCCHHHHHHHHHHHH---H--h-hhhcccccc
Confidence            5789999999999998842                 234689999999999999999999986   1  1 245565555


Q ss_pred             cCCHHHHHHHHHHHhCCCCCccCCCChhHHHHHHHHHhccCcEEEEEeccccccc-----cccccccCCCCCCCcEEEEE
Q 038398          189 DLQLEKIQEKIGRRIGFFDESWKNGSLEDKTSDILRILGKKKFLLLLDDIWERVD-----LTKVGIPFPDPENKSKIVFT  263 (720)
Q Consensus       189 ~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~-----~~~l~~~~~~~~~gs~iiiT  263 (720)
                      ..+...+... ................    ........++..++++|++.....     +..+.....  .....+++|
T Consensus        88 ~~~~~~~~~~-~~~~~~~~~~~~~~~~----~~~~~~~~~~~~vi~ide~~~~~~~~~~~~~~~~~~~~--~~~~~ii~i  160 (253)
T d1sxja2          88 VRSKTLLNAG-VKNALDNMSVVGYFKH----NEEAQNLNGKHFVIIMDEVDGMSGGDRGGVGQLAQFCR--KTSTPLILI  160 (253)
T ss_dssp             CCCHHHHHHT-GGGGTTBCCSTTTTTC--------CCSSTTSEEEEECSGGGCCTTSTTHHHHHHHHHH--HCSSCEEEE
T ss_pred             chhhHHHHHH-HHHHhhcchhhhhhhh----hhhcccccccceEEEeeeccccccchhhhhHHHhhhhc--ccccccccc
Confidence            4444433222 2222111100000000    011112345678899999864321     111111100  112234444


Q ss_pred             cC--Chh-HhhhhccCceeeccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCcc-hHHHHHH
Q 038398          264 TH--FLE-ICGALKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGLP-LALITIG  330 (720)
Q Consensus       264 tR--~~~-v~~~~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~GlP-Lai~~~~  330 (720)
                      +.  ... +.........+++.+++.++-...+...+.......+   .+...+|++.++|-. -||..+-
T Consensus       161 ~~~~~~~~~~~l~~~~~~i~f~~~~~~~i~~~l~~i~~~e~i~i~---~~~l~~i~~~s~GDiR~ai~~L~  228 (253)
T d1sxja2         161 CNERNLPKMRPFDRVCLDIQFRRPDANSIKSRLMTIAIREKFKLD---PNVIDRLIQTTRGDIRQVINLLS  228 (253)
T ss_dssp             ESCTTSSTTGGGTTTSEEEECCCCCHHHHHHHHHHHHHHHTCCCC---TTHHHHHHHHTTTCHHHHHHHHT
T ss_pred             cccccccccccccceeeeeeccccchhHHHHHHHHHHHHhCCCCC---HHHHHHHHHhCCCcHHHHHHHHH
Confidence            32  221 2222233467899999999999998887654332222   235788999999955 5555443

>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=98.46  E-value=1.2e-07  Score=96.29  Aligned_cols=213  Identities=15%  Similarity=0.106  Sum_probs=120.0

Q ss_pred             cccccceeEEEecccccccCC------------CCCCCCcccEEEccCCCCcCcc----hHHhccCCcccEEEccCCCCC
Q 038398          490 IQNWRNVRRMSLMKNKIENLS------------ETPTCPHLLSLFLSDNSLKMST----DDFFQSMPSLRVFNMSNNHLL  553 (720)
Q Consensus       490 ~~~~~~l~~L~l~~~~~~~~~------------~~~~~~~L~~L~l~~~~~~~~~----~~~~~~l~~L~~L~L~~~~~~  553 (720)
                      +...++++.+.+.++......            .+..+++|+.|++++|.+....    ...+..+++|+.|++++|.+.
T Consensus        55 l~~~~~L~~l~l~~~~~~~~~~~~~~~~~~l~~~l~~~~~L~~L~L~~n~i~~~~~~~l~~~l~~~~~L~~L~l~~n~l~  134 (344)
T d2ca6a1          55 IASKKDLEIAEFSDIFTGRVKDEIPEALRLLLQALLKCPKLHTVRLSDNAFGPTAQEPLIDFLSKHTPLEHLYLHNNGLG  134 (344)
T ss_dssp             TTTCTTCCEEECCSCCTTSCGGGSHHHHHHHHHHHTTCTTCCEEECCSCCCCTTTHHHHHHHHHHCTTCCEEECCSSCCH
T ss_pred             HHhCCCCCEEECCCCcccccccccchHHHHHHHHHhhCCCcccccccccccccccccchhhhhcccccchheeccccccc
Confidence            345566777777655432211            1245677888888877665432    223456677888888777432


Q ss_pred             ccCC----c---------cccCCCCCCEEeccCCCCc-----ccchhhhcCCCCCEEeccCCcCCCCC-----chhhhhc
Q 038398          554 WKLP----S---------GISTLVSLEHLDLSSTAIT-----HLPIELQKLVNLKCLNLEYMNNLNQF-----PRLVISA  610 (720)
Q Consensus       554 ~~lp----~---------~i~~l~~L~~L~L~~~~i~-----~lp~~i~~l~~L~~L~l~~~~~l~~l-----p~~~~~~  610 (720)
                      ..-.    .         .....+.|+.|.+++|.++     .+...+...++|+.|++++| .+..-     -...+..
T Consensus       135 ~~~~~~l~~~l~~~~~~~~~~~~~~L~~l~l~~n~i~~~~~~~l~~~l~~~~~L~~L~L~~n-~i~~~g~~~~l~~~l~~  213 (344)
T d2ca6a1         135 PQAGAKIARALQELAVNKKAKNAPPLRSIICGRNRLENGSMKEWAKTFQSHRLLHTVKMVQN-GIRPEGIEHLLLEGLAY  213 (344)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHTCCCCCEEECCSSCCTGGGHHHHHHHHHHCTTCCEEECCSS-CCCHHHHHHHHHTTGGG
T ss_pred             ccccccccccccccccccccccCcccceeecccccccccccccccchhhhhhhhcccccccc-cccccccccchhhhhcc
Confidence            1100    0         1124567778888777665     23444666778888888774 22210     0011344


Q ss_pred             cccCceeeccccCCCcccchhcccccCCccccHHHhcCCCCCceeEEEecchhh--HHHHhhhhh--hhhhccccccccc
Q 038398          611 FSKLQVLRMFDCGGSKIERLKINVLFGGHQFLVEELMGMKHLMVLTITLKSWQA--LKELLISQE--LQRSTQSLFLRCF  686 (720)
Q Consensus       611 l~~L~~L~~~~~~~~~l~~l~~~~~~~~~~~~~~~l~~l~~L~~L~~~~~~~~~--l~~l~~~~~--~~~~L~~L~l~~~  686 (720)
                      +++|+.|++.   .|.+....       .......+..+++|+.|.++.|.+..  ...+.....  ....|++|+++++
T Consensus       214 ~~~L~~L~Ls---~N~i~~~g-------~~~L~~~l~~~~~L~~L~Ls~n~i~~~g~~~l~~~l~~~~~~~L~~L~ls~N  283 (344)
T d2ca6a1         214 CQELKVLDLQ---DNTFTHLG-------SSALAIALKSWPNLRELGLNDCLLSARGAAAVVDAFSKLENIGLQTLRLQYN  283 (344)
T ss_dssp             CTTCCEEECC---SSCCHHHH-------HHHHHHHGGGCTTCCEEECTTCCCCHHHHHHHHHHHHTCSSCCCCEEECCSS
T ss_pred             hhhhcccccc---cccccccc-------cccccccccccccchhhhhhcCccCchhhHHHHHHhhhccCCCCCEEECCCC
Confidence            5556666554   34432211       11234556778889999988887643  233333222  2246889999874


Q ss_pred             cCCCccccc----cc-cccCCcceeeecCCCCC
Q 038398          687 NDSKSLDIF----CL-AGLRNLNKLYVAGCKHL  714 (720)
Q Consensus       687 ~~l~~l~~~----~l-~~l~~L~~L~l~~c~~l  714 (720)
                       .+..-...    .+ .++++|+.|+|++|.--
T Consensus       284 -~i~~~~~~~l~~~l~~~~~~L~~L~l~~N~~~  315 (344)
T d2ca6a1         284 -EIELDAVRTLKTVIDEKMPDLLFLELNGNRFS  315 (344)
T ss_dssp             -CCBHHHHHHHHHHHHHHCTTCCEEECTTSBSC
T ss_pred             -cCChHHHHHHHHHHHccCCCCCEEECCCCcCC
Confidence             45432222    23 35788999999988753

>d2ca6a1 c.10.1.2 (A:2-345) Rna1p (RanGAP1), N-terminal domain {Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: Rna1p (RanGAP1), N-terminal domain
domain: Rna1p (RanGAP1), N-terminal domain
species: Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]

Probab=98.45  E-value=1.5e-07  Score=95.52  Aligned_cols=183  Identities=17%  Similarity=0.169  Sum_probs=90.7

Q ss_pred             ccccceeEEEecccccccCC------CCCCCCcccEEEccCCCCcCcchH-------------HhccCCcccEEEccCCC
Q 038398          491 QNWRNVRRMSLMKNKIENLS------ETPTCPHLLSLFLSDNSLKMSTDD-------------FFQSMPSLRVFNMSNNH  551 (720)
Q Consensus       491 ~~~~~l~~L~l~~~~~~~~~------~~~~~~~L~~L~l~~~~~~~~~~~-------------~~~~l~~L~~L~L~~~~  551 (720)
                      ..+++|+.|++++|.+....      .+..+++|+.|.+++|.+......             .....+.|+.|++++|.
T Consensus        90 ~~~~~L~~L~L~~n~i~~~~~~~l~~~l~~~~~L~~L~l~~n~l~~~~~~~l~~~l~~~~~~~~~~~~~~L~~l~l~~n~  169 (344)
T d2ca6a1          90 LKCPKLHTVRLSDNAFGPTAQEPLIDFLSKHTPLEHLYLHNNGLGPQAGAKIARALQELAVNKKAKNAPPLRSIICGRNR  169 (344)
T ss_dssp             TTCTTCCEEECCSCCCCTTTHHHHHHHHHHCTTCCEEECCSSCCHHHHHHHHHHHHHHHHHHHHHHTCCCCCEEECCSSC
T ss_pred             hhCCCcccccccccccccccccchhhhhcccccchheecccccccccccccccccccccccccccccCcccceeeccccc
Confidence            34556777777776654311      012456677777777654321110             11345667777777664


Q ss_pred             CCc----cCCccccCCCCCCEEeccCCCCcc------cchhhhcCCCCCEEeccCCcCCCC-----CchhhhhccccCce
Q 038398          552 LLW----KLPSGISTLVSLEHLDLSSTAITH------LPIELQKLVNLKCLNLEYMNNLNQ-----FPRLVISAFSKLQV  616 (720)
Q Consensus       552 ~~~----~lp~~i~~l~~L~~L~L~~~~i~~------lp~~i~~l~~L~~L~l~~~~~l~~-----lp~~~~~~l~~L~~  616 (720)
                      +..    .+...+....+|++|++++|.++.      +...+..+++|++|++++|. +..     +.. .+..+++|++
T Consensus       170 i~~~~~~~l~~~l~~~~~L~~L~L~~n~i~~~g~~~~l~~~l~~~~~L~~L~Ls~N~-i~~~g~~~L~~-~l~~~~~L~~  247 (344)
T d2ca6a1         170 LENGSMKEWAKTFQSHRLLHTVKMVQNGIRPEGIEHLLLEGLAYCQELKVLDLQDNT-FTHLGSSALAI-ALKSWPNLRE  247 (344)
T ss_dssp             CTGGGHHHHHHHHHHCTTCCEEECCSSCCCHHHHHHHHHTTGGGCTTCCEEECCSSC-CHHHHHHHHHH-HGGGCTTCCE
T ss_pred             ccccccccccchhhhhhhhcccccccccccccccccchhhhhcchhhhccccccccc-ccccccccccc-cccccccchh
Confidence            332    133334456677777777776652      22335566677777776642 211     111 2445556666


Q ss_pred             eeccccCCCcccchhcccccCCccccHHHhc--CCCCCceeEEEecchhh--HHHHhhhh-hhhhhcccccccc
Q 038398          617 LRMFDCGGSKIERLKINVLFGGHQFLVEELM--GMKHLMVLTITLKSWQA--LKELLISQ-ELQRSTQSLFLRC  685 (720)
Q Consensus       617 L~~~~~~~~~l~~l~~~~~~~~~~~~~~~l~--~l~~L~~L~~~~~~~~~--l~~l~~~~-~~~~~L~~L~l~~  685 (720)
                      |++.+|.   +....       ...+...+.  ..+.|+.|++++|.+..  +..+.... ...++|+.|+|++
T Consensus       248 L~Ls~n~---i~~~g-------~~~l~~~l~~~~~~~L~~L~ls~N~i~~~~~~~l~~~l~~~~~~L~~L~l~~  311 (344)
T d2ca6a1         248 LGLNDCL---LSARG-------AAAVVDAFSKLENIGLQTLRLQYNEIELDAVRTLKTVIDEKMPDLLFLELNG  311 (344)
T ss_dssp             EECTTCC---CCHHH-------HHHHHHHHHTCSSCCCCEEECCSSCCBHHHHHHHHHHHHHHCTTCCEEECTT
T ss_pred             hhhhcCc---cCchh-------hHHHHHHhhhccCCCCCEEECCCCcCChHHHHHHHHHHHccCCCCCEEECCC
Confidence            6655443   22111       011122232  23557777777665432  22333322 1334677777765

>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=98.41  E-value=5.9e-06  Score=78.43  Aligned_cols=169  Identities=16%  Similarity=0.097  Sum_probs=97.4

Q ss_pred             CCCCcCchHHHHHHHHHhcC-----CCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHH
Q 038398          125 CEPTVGLESTFDKVWRCLGE-----EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKI  199 (720)
Q Consensus       125 ~~~~vGr~~~~~~l~~~L~~-----~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i  199 (720)
                      .+++||.+..++++..++..     ...+.+.++|++|+||||+|+.+++..   ...|   +.++.+.......+    
T Consensus         8 ~~divGqe~~~~~l~~~i~~~~~~~~~~~~~L~~GPpGtGKT~lA~~la~~~---~~~~---~~~~~~~~~~~~~~----   77 (238)
T d1in4a2           8 LDEFIGQENVKKKLSLALEAAKMRGEVLDHVLLAGPPGLGKTTLAHIIASEL---QTNI---HVTSGPVLVKQGDM----   77 (238)
T ss_dssp             GGGCCSCHHHHHHHHHHHHHHHHHTCCCCCEEEESSTTSSHHHHHHHHHHHH---TCCE---EEEETTTCCSHHHH----
T ss_pred             HHHcCChHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCcHHHHHHHHHhcc---CCCc---ccccCcccccHHHH----
Confidence            36789999999999888742     334568899999999999999999987   2222   22332222222111    


Q ss_pred             HHHhCCCCCccCCCChhHHHHHHHHHhccCcEEEEEeccccccc---------cccccc-----------cCCCCCCCcE
Q 038398          200 GRRIGFFDESWKNGSLEDKTSDILRILGKKKFLLLLDDIWERVD---------LTKVGI-----------PFPDPENKSK  259 (720)
Q Consensus       200 ~~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~---------~~~l~~-----------~~~~~~~gs~  259 (720)
                                         ...+.  ..+++..+++|++.....         .+....           ..........
T Consensus        78 -------------------~~~~~--~~~~~~~~~ide~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  136 (238)
T d1in4a2          78 -------------------AAILT--SLERGDVLFIDEIHRLNKAVEELLYSAIEDFQIDIMIGKGPSAKSIRIDIQPFT  136 (238)
T ss_dssp             -------------------HHHHH--HCCTTCEEEEETGGGCCHHHHHHHHHHHHTSCCCC---------------CCCE
T ss_pred             -------------------HHHHH--hhccCCchHHHHHHHhhhHHHhhcccceeeeeeeeeecCcccccccccCCCCeE
Confidence                               11111  123455667777654210         000000           0000122445


Q ss_pred             EEEEcCChh-Hh--hhhccCceeeccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCcchHHH
Q 038398          260 IVFTTHFLE-IC--GALKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGLPLALI  327 (720)
Q Consensus       260 iiiTtR~~~-v~--~~~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~GlPLai~  327 (720)
                      +|.+|.+.. ..  ........+.++..+.++...++...+....   ....++....|++.++|-+-.+.
T Consensus       137 ~I~at~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~l~~~~~~~~---~~~~~~~l~~i~~~s~gd~R~ai  204 (238)
T d1in4a2         137 LVGATTRSGLLSSPLRSRFGIILELDFYTVKELKEIIKRAASLMD---VEIEDAAAEMIAKRSRGTPRIAI  204 (238)
T ss_dssp             EEEEESCGGGSCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHTT---CCBCHHHHHHHHHTSTTCHHHHH
T ss_pred             EEEecCCCccccccceeeeeEEEEecCCCHHHHHHHHHHhhhhcc---chhhHHHHHHHHHhCCCCHHHHH
Confidence            555554433 21  1122335678999999999999988776533   12235678889999999765443

>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=98.39  E-value=9.2e-06  Score=77.10  Aligned_cols=169  Identities=17%  Similarity=0.074  Sum_probs=95.7

Q ss_pred             CCCCcCchHHHHHHHHHhcC-----CCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHH
Q 038398          125 CEPTVGLESTFDKVWRCLGE-----EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKI  199 (720)
Q Consensus       125 ~~~~vGr~~~~~~l~~~L~~-----~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i  199 (720)
                      .+++||.++.++++..++..     ...+-+.++||+|+||||+|+.+++..   ...   ..+++.+.......     
T Consensus         8 ~ddivGq~~~~~~L~~~i~~~~~~~~~~~~~Ll~GPpG~GKTtla~~la~~~---~~~---~~~~~~~~~~~~~~-----   76 (239)
T d1ixsb2           8 LDEYIGQERLKQKLRVYLEAAKARKEPLEHLLLFGPPGLGKTTLAHVIAHEL---GVN---LRVTSGPAIEKPGD-----   76 (239)
T ss_dssp             GGGSCSCHHHHHHHHHHHHHHTTSSSCCCCEEEECCTTSCHHHHHHHHHHHH---TCC---EEEEETTTCCSHHH-----
T ss_pred             HHHhCCHHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHh---CCC---eEeccCCccccchh-----
Confidence            36789999999988777632     345677899999999999999999887   222   23333222221111     


Q ss_pred             HHHhCCCCCccCCCChhHHHHHHHHHhccCcEEEEEeccccccc---------ccc----cccc-------CCCCCCCcE
Q 038398          200 GRRIGFFDESWKNGSLEDKTSDILRILGKKKFLLLLDDIWERVD---------LTK----VGIP-------FPDPENKSK  259 (720)
Q Consensus       200 ~~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~---------~~~----l~~~-------~~~~~~gs~  259 (720)
                                        ....+...+. ...++++|+++....         .+.    ....       .....+...
T Consensus        77 ------------------~~~~~~~~~~-~~~i~~iDe~~~~~~~~~~~l~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~  137 (239)
T d1ixsb2          77 ------------------LAAILANSLE-EGDILFIDEIHRLSRQAEEHLYPAMEDFVMDIVIGQGPAARTIRLELPRFT  137 (239)
T ss_dssp             ------------------HHHHHHTTCC-TTCEEEEETGGGCCHHHHHHHHHHHHHSEEEEECSCTTCCCEEEEECCCCE
T ss_pred             ------------------hHHHHHhhcc-CCCeeeeecccccchhHHHhhhhhhhhhhhhhhhccchhhhhcccCCCCEE
Confidence                              1111222222 233556677653200         000    0000       000112233


Q ss_pred             EEEEc-CChhH--hhhhccCceeeccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCcchHH
Q 038398          260 IVFTT-HFLEI--CGALKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGLPLAL  326 (720)
Q Consensus       260 iiiTt-R~~~v--~~~~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~GlPLai  326 (720)
                      ++.+| +....  .........+.+...+.++...+....+.....   ....+....|++.++|.+-.+
T Consensus       138 ~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~i~~~~~~~~~i---~~~~~~l~~ia~~s~gd~R~a  204 (239)
T d1ixsb2         138 LIGATTRPGLITAPLLSRFGIVEHLEYYTPEELAQGVMRDARLLGV---RITEEAALEIGRRSRGTMRVA  204 (239)
T ss_dssp             EEEEESCCSSCSCGGGGGCSEEEECCCCCHHHHHHHHHHHHGGGCC---CBCHHHHHHHHHHTTSSHHHH
T ss_pred             EEeeccCcccccchhhcccceeeEeeccChhhhhHHHHHHHHHhCC---ccchHHHHHHHHHcCCCHHHH
Confidence            44444 43222  222233467888999999999988877755431   223668899999999976544

>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=98.25  E-value=3.7e-06  Score=79.82  Aligned_cols=171  Identities=16%  Similarity=0.158  Sum_probs=96.0

Q ss_pred             CCCcCchHHHHHHHHHh---cC---------CCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHH
Q 038398          126 EPTVGLESTFDKVWRCL---GE---------EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLE  193 (720)
Q Consensus       126 ~~~vGr~~~~~~l~~~L---~~---------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~  193 (720)
                      ++++|.++.+++|.+.+   ..         ...+-|.++|++|+|||+||+.+++..   ...   .+.++.+      
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            56789998877655433   21         234678999999999999999999886   222   2333321      


Q ss_pred             HHHHHHHHHhCCCCCccCCCChhHHHHHHHHHh-ccCcEEEEEecccccc----------------ccccccccCC--CC
Q 038398          194 KIQEKIGRRIGFFDESWKNGSLEDKTSDILRIL-GKKKFLLLLDDIWERV----------------DLTKVGIPFP--DP  254 (720)
Q Consensus       194 ~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l-~~k~~LlVlDdv~~~~----------------~~~~l~~~~~--~~  254 (720)
                      .+.    ..        .....+.....+.+.. ...+++|+|||++...                .+..+...+.  ..
T Consensus        77 ~l~----~~--------~~g~~~~~l~~~f~~a~~~~p~Ii~iDeid~l~~~r~~~~~~~~~~~~~~~~~ll~~~d~~~~  144 (247)
T d1ixza_          77 DFV----EM--------FVGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEK  144 (247)
T ss_dssp             HHH----HS--------CTTHHHHHHHHHHHHHTTSSSEEEEEETHHHHHC---------CHHHHHHHHHHHHHHHTCCT
T ss_pred             Hhh----hc--------cccHHHHHHHHHHHHHHHcCCEEEEEEChhhhCccCCCCCCCCcHHHHHHHHHHHHHhhCCCC
Confidence            111    10        0111222233333333 3578999999986310                0111111111  11


Q ss_pred             CCCcEEEEEcCChhH-hhhh----ccCceeeccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCcch
Q 038398          255 ENKSKIVFTTHFLEI-CGAL----KAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGLPL  324 (720)
Q Consensus       255 ~~gs~iiiTtR~~~v-~~~~----~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~GlPL  324 (720)
                      ..+.-||.||..... ...+    .-.+.+++++.+.++-.++|+.+...........    ...+++.|.|+.-
T Consensus       145 ~~~vivi~tTn~~~~ld~al~R~~Rf~~~i~~~~P~~~eR~~il~~~l~~~~~~~~~~----~~~la~~t~g~s~  215 (247)
T d1ixza_         145 DTAIVVMAATNRPDILDPALLRPGRFDRQIAIDAPDVKGREQILRIHARGKPLAEDVD----LALLAKRTPGFVG  215 (247)
T ss_dssp             TCCEEEEEEESCGGGSCGGGGSTTSSCEEEECCSCCHHHHHHHHHHHHTTSCBCTTCC----HHHHHHTCTTCCH
T ss_pred             CCCEEEEEeCCCccccCHhHcCCCCCcEEEEECCcCHHHHHHHHHHHhcccCCccccC----HHHHHHHCCCCCH
Confidence            122233346654332 2222    2346889999999999999998876544233333    4566777887643

>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=98.24  E-value=7.5e-06  Score=75.61  Aligned_cols=179  Identities=11%  Similarity=0.035  Sum_probs=99.7

Q ss_pred             CchHHHHHHHHHhcCCC-ceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHHHHHhCCCC-
Q 038398          130 GLESTFDKVWRCLGEEQ-VGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKIGRRIGFFD-  207 (720)
Q Consensus       130 Gr~~~~~~l~~~L~~~~-~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i~~~l~~~~-  207 (720)
                      +.+...+++.+.+..+. ...+.++|++|+||||+|+.+++...........    .+....+    ...+........ 
T Consensus         6 w~~~~~~~l~~~~~~~~l~h~lLl~Gp~G~GKtt~a~~~a~~l~~~~~~~~~----~~~~~~~----~~~i~~~~~~~~~   77 (207)
T d1a5ta2           6 WLRPDFEKLVASYQAGRGHHALLIQALPGMGDDALIYALSRYLLCQQPQGHK----SCGHCRG----CQLMQAGTHPDYY   77 (207)
T ss_dssp             GGHHHHHHHHHHHHTTCCCSEEEEECCTTSCHHHHHHHHHHHHTCSSCBTTB----CCSCSHH----HHHHHHTCCTTEE
T ss_pred             ccHHHHHHHHHHHHcCCcCeEEEEECCCCCcHHHHHHHHHHhcccccccccc----cccccch----hhhhhhccccccc
Confidence            44566788888887765 4568999999999999999998865210000000    0000000    011111110000 


Q ss_pred             -----CccCCCChhHHHHHHHHHh-----ccCcEEEEEeccccc--cccccccccCCCCCCCcEEEEEcCChh-Hhhhh-
Q 038398          208 -----ESWKNGSLEDKTSDILRIL-----GKKKFLLLLDDIWER--VDLTKVGIPFPDPENKSKIVFTTHFLE-ICGAL-  273 (720)
Q Consensus       208 -----~~~~~~~~~~~~~~l~~~l-----~~k~~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~iiiTtR~~~-v~~~~-  273 (720)
                           ........ +.++.+.+.+     .+++-++|+||++..  .....+...+.....++.+|+||++.. +.... 
T Consensus        78 ~~~~~~~~~~i~~-~~ir~l~~~~~~~~~~~~~kviIide~d~l~~~a~n~Llk~lEep~~~~~fIl~t~~~~~ll~tI~  156 (207)
T d1a5ta2          78 TLAPEKGKNTLGV-DAVREVTEKLNEHARLGGAKVVWVTDAALLTDAAANALLKTLEEPPAETWFFLATREPERLLATLR  156 (207)
T ss_dssp             EECCCTTCSSBCH-HHHHHHHHHTTSCCTTSSCEEEEESCGGGBCHHHHHHHHHHHTSCCTTEEEEEEESCGGGSCHHHH
T ss_pred             hhhhhhccccccc-chhhHHhhhhhhccccCccceEEechhhhhhhhhhHHHHHHHHhhcccceeeeeecChhhhhhhhc
Confidence                 00001111 1222233332     245669999999863  223333333334446778787777643 32222 


Q ss_pred             ccCceeeccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCcchH
Q 038398          274 KAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGLPLA  325 (720)
Q Consensus       274 ~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~GlPLa  325 (720)
                      +-...+.+.+++.++....+.....-        -++.+..|++.++|.|-.
T Consensus       157 SRc~~i~~~~~~~~~~~~~L~~~~~~--------~~~~~~~i~~~s~Gs~r~  200 (207)
T d1a5ta2         157 SRCRLHYLAPPPEQYAVTWLSREVTM--------SQDALLAALRLSAGSPGA  200 (207)
T ss_dssp             TTSEEEECCCCCHHHHHHHHHHHCCC--------CHHHHHHHHHHTTTCHHH
T ss_pred             ceeEEEecCCCCHHHHHHHHHHcCCC--------CHHHHHHHHHHcCCCHHH
Confidence            23367899999999999988765321        146688899999998753

>d1lv7a_ c.37.1.20 (A:) AAA domain of cell division protein FtsH {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: AAA domain of cell division protein FtsH
species: Escherichia coli [TaxId: 562]

Probab=98.24  E-value=1.4e-05  Score=76.14  Aligned_cols=172  Identities=15%  Similarity=0.130  Sum_probs=97.8

Q ss_pred             CCCcCchHHHHHHHHH---hcC---------CCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHH
Q 038398          126 EPTVGLESTFDKVWRC---LGE---------EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLE  193 (720)
Q Consensus       126 ~~~vGr~~~~~~l~~~---L~~---------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~  193 (720)
                      ++++|.++.+++|.+.   +..         ...+.+.++|++|+|||++|+.+++..   ...   .+.+..+.-.+  
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            5789999888877553   321         235678899999999999999999887   222   22232222110  


Q ss_pred             HHHHHHHHHhCCCCCccCCCChhHHHHHHHHHhccCcEEEEEecccccc------------c----cccccccCC--CCC
Q 038398          194 KIQEKIGRRIGFFDESWKNGSLEDKTSDILRILGKKKFLLLLDDIWERV------------D----LTKVGIPFP--DPE  255 (720)
Q Consensus       194 ~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~------------~----~~~l~~~~~--~~~  255 (720)
                                     .+...........+...-...+++|++||++...            .    +..+...+.  ...
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                           0111222222222223334578899999996310            0    011111111  122


Q ss_pred             CCcEEEEEcCChhHh-hhh----ccCceeeccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCcch
Q 038398          256 NKSKIVFTTHFLEIC-GAL----KAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGLPL  324 (720)
Q Consensus       256 ~gs~iiiTtR~~~v~-~~~----~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~GlPL  324 (720)
                      .+.-||.||...... ..+    .-.+.+.++..+.++-.++|+.+..+.......+    ...+++.+.|+.-
T Consensus       149 ~~v~vIatTn~~~~ld~al~R~gRfd~~i~i~~P~~~~R~~il~~~l~~~~~~~~~~----~~~la~~t~G~s~  218 (256)
T d1lv7a_         149 EGIIVIAATNRPDVLDPALLRPGRFDRQVVVGLPDVRGREQILKVHMRRVPLAPDID----AAIIARGTPGFSG  218 (256)
T ss_dssp             SCEEEEEEESCTTTSCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHHTTSCBCTTCC----HHHHHHTCTTCCH
T ss_pred             CCEEEEEeCCCcccCCHhHcCCCCCCEEEECCCcCHHHHHHHHHHhccCCCcCcccC----HHHHHHhCCCCCH
Confidence            333455577654332 222    2346889999999999999988875544233233    3566778888653

>d1e32a2 c.37.1.20 (A:201-458) Membrane fusion ATPase VCP/p97 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Membrane fusion ATPase VCP/p97
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.21  E-value=8.8e-06  Score=78.00  Aligned_cols=177  Identities=13%  Similarity=0.103  Sum_probs=101.7

Q ss_pred             CCCcCchHHHHHHHHHh----cC---------CCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCH
Q 038398          126 EPTVGLESTFDKVWRCL----GE---------EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQL  192 (720)
Q Consensus       126 ~~~vGr~~~~~~l~~~L----~~---------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~  192 (720)
                      ++++|.++.+++|.+.+    ..         ...+-|.++|++|+|||++|+++++..   ..+   .+.+..+.    
T Consensus         4 ~dv~G~~~~k~~l~~~i~~~l~~~~~~~~~g~~~~~giLL~GppGtGKT~l~~ala~~~---~~~---~~~i~~~~----   73 (258)
T d1e32a2           4 DDVGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANET---GAF---FFLINGPE----   73 (258)
T ss_dssp             GGCCSCSHHHHHHHHHHHHHHHCHHHHHHCCCCCCCEEEEECCTTSSHHHHHHHHHHHT---TCE---EEEECHHH----
T ss_pred             hhhccHHHHHHHHHHHHHHHhcCHHHHHhCCCCCCceeEEecCCCCCchHHHHHHHHHh---CCe---EEEEEchh----
Confidence            46789999988887764    21         235678999999999999999999986   222   22222111    


Q ss_pred             HHHHHHHHHHhCCCCCccCCCChhHHHHHHHHHhccCcEEEEEecccccc---------c----cccccccC--CCCCCC
Q 038398          193 EKIQEKIGRRIGFFDESWKNGSLEDKTSDILRILGKKKFLLLLDDIWERV---------D----LTKVGIPF--PDPENK  257 (720)
Q Consensus       193 ~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~---------~----~~~l~~~~--~~~~~g  257 (720)
                                +....   ...............-..++++|++||++...         .    ...+...+  .....+
T Consensus        74 ----------l~~~~---~g~~~~~l~~~f~~A~~~~p~il~iDeid~l~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~  140 (258)
T d1e32a2          74 ----------IMSKL---AGESESNLRKAFEEAEKNAPAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQRAH  140 (258)
T ss_dssp             ----------HTTSC---TTHHHHHHHHHHHHHHHTCSEEEEESSGGGTCCHHHHCCCTTHHHHHHHHHHHHHTCCCSSC
T ss_pred             ----------hcccc---cccHHHHHHHHHHHHHhcCCeEEEehhhhhhccCCCCCCCchHHHHHHHhccccccccccCC
Confidence                      11000   11111112222222334678999999997521         0    01111111  122334


Q ss_pred             cEEEEEcCChhHhhh-h----ccCceeeccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCcchH-HHHH
Q 038398          258 SKIVFTTHFLEICGA-L----KAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGLPLA-LITI  329 (720)
Q Consensus       258 s~iiiTtR~~~v~~~-~----~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~GlPLa-i~~~  329 (720)
                      .-||.||........ .    .-.+.++++..+.++-..+|..+........+..    ...|++.+.|+--| |..+
T Consensus       141 vlvi~tTn~~~~ld~al~r~gRfd~~i~~~~P~~~~R~~il~~~l~~~~~~~~~~----~~~la~~t~G~s~adl~~l  214 (258)
T d1e32a2         141 VIVMAATNRPNSIDPALRRFGRFDREVDIGIPDATGRLEILQIHTKNMKLADDVD----LEQVANETHGHVGADLAAL  214 (258)
T ss_dssp             EEEEEEESCGGGSCGGGTSTTSSCEEEECCCCCHHHHHHHHHHTTTTSCBCTTCC----HHHHHHHCTTCCHHHHHHH
T ss_pred             ccEEEeCCCccccchhhhhcccccceeECCCCCHHHHHHHhhhhccCcccccccc----hhhhhhcccCCCHHHHHHH
Confidence            455668866544221 1    2346889999999999999988875543222222    46788899886433 4444

>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=98.18  E-value=4.2e-06  Score=84.49  Aligned_cols=155  Identities=15%  Similarity=0.207  Sum_probs=89.6

Q ss_pred             CCCcCchHHHHHHHHHhcCCCceEEEEEcCCCChHHHHHHHHHhhhc--CC-CCCcCEEEE-EEecCcCCHHHHHHHHHH
Q 038398          126 EPTVGLESTFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLL--GA-PNVFDVVIW-VVVSKDLQLEKIQEKIGR  201 (720)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~--~~-~~~f~~~~w-v~v~~~~~~~~~~~~i~~  201 (720)
                      +++|||+.++++++..|......-+.++|++|+|||+++..++.+..  .+ ..-.+..+| ++++.-          +.
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 DPVIGRDEEIRRVIQILLRRTKNNPVLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIVSLQMGSL----------LA   91 (387)
T ss_dssp             CCCCSCHHHHHHHHHHHHCSSCCCCEEEECTTSCHHHHHHHHHHHHHHTCSCTTSTTCEEEEECC---------------
T ss_pred             CCCcCcHHHHHHHHHHHhcCCCCCCeEECCCCCCHHHHHHHHHHHHHhCCCCHHHcCceEEEeeHhhh----------hc
Confidence            46799999999999999765555567889999999998877665531  11 222344444 433221          11


Q ss_pred             HhCCCCCccCCCChhHHHHHHHHHhcc--CcEEEEEecccccc---------ccccccccCCCCCCCcEEEEEcCChhHh
Q 038398          202 RIGFFDESWKNGSLEDKTSDILRILGK--KKFLLLLDDIWERV---------DLTKVGIPFPDPENKSKIVFTTHFLEIC  270 (720)
Q Consensus       202 ~l~~~~~~~~~~~~~~~~~~l~~~l~~--k~~LlVlDdv~~~~---------~~~~l~~~~~~~~~gs~iiiTtR~~~v~  270 (720)
                      ...      .....++....+...+..  .+++|++|++....         +...+..+... ...-++|.+|..+...
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------YRGEFEERLKAVIQEVVQSQGEVILFIDELHTVVGAGKAEGAVDAGNMLKPALA-RGELRLIGATTLDEYR  164 (387)
T ss_dssp             ------------CHHHHHHHHHHHHHTTCSSEEEEECCC-------------------HHHHH-TTCCCEEEEECHHHHH
T ss_pred             ccC------cchhHHHHHHHHHHHhccCCCceEEEeccHHHHhcCCCCCCcccHHHHHHHHHh-CCCcceeeecCHHHHH
Confidence            000      123455555555554433  47899999987531         11122111111 2345778777766663


Q ss_pred             hhh------ccCceeeccCCChhhHHHHHHHHh
Q 038398          271 GAL------KAHEFLKVECLGPEDAWRLFRENL  297 (720)
Q Consensus       271 ~~~------~~~~~~~l~~L~~~e~~~Lf~~~~  297 (720)
                      ..-      ...+.+.+++.+.+++..++....
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            211      123678999999999999988665

>d1l8qa2 c.37.1.20 (A:77-289) Chromosomal replication initiation factor DnaA {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Chromosomal replication initiation factor DnaA
species: Aquifex aeolicus [TaxId: 63363]

Probab=98.16  E-value=7.5e-06  Score=75.80  Aligned_cols=169  Identities=18%  Similarity=0.179  Sum_probs=92.9

Q ss_pred             CCC-cCchHHH--HHHHHHhcCC--CceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHHH
Q 038398          126 EPT-VGLESTF--DKVWRCLGEE--QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKIG  200 (720)
Q Consensus       126 ~~~-vGr~~~~--~~l~~~L~~~--~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i~  200 (720)
                      ++| ||-....  ..+.++....  ....+.|+|++|+|||.|++++++..   ......++|++.      .++...+.
T Consensus        10 dnF~vg~~N~~a~~~~~~~~~~~~~~~n~l~l~G~~G~GKTHLl~A~~~~~---~~~~~~~~~~~~------~~~~~~~~   80 (213)
T d1l8qa2          10 ENFIVGEGNRLAYEVVKEALENLGSLYNPIFIYGSVGTGKTHLLQAAGNEA---KKRGYRVIYSSA------DDFAQAMV   80 (213)
T ss_dssp             SSCCCCTTTHHHHHHHHHHHHTTTTSCSSEEEECSSSSSHHHHHHHHHHHH---HHTTCCEEEEEH------HHHHHHHH
T ss_pred             hhccCCCcHHHHHHHHHHHHhCcCCCCCcEEEECCCCCcHHHHHHHHHHHh---ccCccceEEech------HHHHHHHH
Confidence            455 5654433  2233333222  23447899999999999999999987   333445666643      34444444


Q ss_pred             HHhCCCCCccCCCChhHHHHHHHHHhccCcEEEEEeccccc---ccccc-ccccCC-CCCCCcEEEEEcCChhH------
Q 038398          201 RRIGFFDESWKNGSLEDKTSDILRILGKKKFLLLLDDIWER---VDLTK-VGIPFP-DPENKSKIVFTTHFLEI------  269 (720)
Q Consensus       201 ~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~---~~~~~-l~~~~~-~~~~gs~iiiTtR~~~v------  269 (720)
                      ..+...       .    .....+.+. .--+|++||++..   ..|+. +...+. ....|.+||+||+....      
T Consensus        81 ~~~~~~-------~----~~~~~~~~~-~~dll~iDDi~~i~~~~~~~~~lf~lin~~~~~~~~iiits~~~p~~l~~~~  148 (213)
T d1l8qa2          81 EHLKKG-------T----INEFRNMYK-SVDLLLLDDVQFLSGKERTQIEFFHIFNTLYLLEKQIILASDRHPQKLDGVS  148 (213)
T ss_dssp             HHHHHT-------C----HHHHHHHHH-TCSEEEEECGGGGTTCHHHHHHHHHHHHHHHHTTCEEEEEESSCGGGCTTSC
T ss_pred             HHHHcc-------c----hhhHHHHHh-hccchhhhhhhhhcCchHHHHHHHHHHHHHhhccceEEEecCCcchhccccc
Confidence            443211       1    112222232 3458999999743   23332 111111 12357789999985332      


Q ss_pred             ---hhhhccCceeeccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHh
Q 038398          270 ---CGALKAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQEC  319 (720)
Q Consensus       270 ---~~~~~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c  319 (720)
                         .........+.++ ++.++-.+++.+++.......+   +++..-|++.+
T Consensus       149 ~dL~SRL~~g~~~~i~-p~d~~~~~iL~~~a~~rgl~l~---~~v~~yl~~~~  197 (213)
T d1l8qa2         149 DRLVSRFEGGILVEIE-LDNKTRFKIIKEKLKEFNLELR---KEVIDYLLENT  197 (213)
T ss_dssp             HHHHHHHHTSEEEECC-CCHHHHHHHHHHHHHHTTCCCC---HHHHHHHHHHC
T ss_pred             hHHHHHhhCceEEEEC-CCcHHHHHHHHHHHHHcCCCCC---HHHHHHHHHhc
Confidence               2333445667785 5777777778777754332222   35555555554

>d1r7ra3 c.37.1.20 (A:471-735) Membrane fusion ATPase VCP/p97 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Membrane fusion ATPase VCP/p97
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.02  E-value=6.3e-06  Score=79.29  Aligned_cols=172  Identities=17%  Similarity=0.222  Sum_probs=95.4

Q ss_pred             CCCcCchHHHHHHHHHhc----C---------CCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCH
Q 038398          126 EPTVGLESTFDKVWRCLG----E---------EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQL  192 (720)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~----~---------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~  192 (720)
                      .+++|.++.+++|.+.+.    .         ...+.|.++|++|+|||+||+++++..   ..+|     +.++    .
T Consensus         7 ~di~G~~~~k~~l~~~i~~~l~~~~~~~~~g~~~~~giLL~Gp~GtGKT~l~~ala~~~---~~~~-----~~~~----~   74 (265)
T d1r7ra3           7 EDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANEC---QANF-----ISIK----G   74 (265)
T ss_dssp             SSCSSSSCCCCHHHHHTHHHHHCHHHHHHCCCCCCCEEEEBCCTTSSHHHHHHHHHHHT---TCEE-----EEEC----H
T ss_pred             HHhcCHHHHHHHHHHHHHHHhhCHHHHHhCCCCCCCeEEEECCCCCcchhHHHHHHHHh---CCcE-----EEEE----H
Confidence            567888887766665542    1         234678899999999999999999987   2222     2222    1


Q ss_pred             HHHHHHHHHHhCCCCCccCCCChhHHHHH-HHHHhccCcEEEEEecccccc--------c--------cccccccCC--C
Q 038398          193 EKIQEKIGRRIGFFDESWKNGSLEDKTSD-ILRILGKKKFLLLLDDIWERV--------D--------LTKVGIPFP--D  253 (720)
Q Consensus       193 ~~~~~~i~~~l~~~~~~~~~~~~~~~~~~-l~~~l~~k~~LlVlDdv~~~~--------~--------~~~l~~~~~--~  253 (720)
                      ..+.       +.     .....+..... +...-...+++|+|||++...        .        ...+...+.  .
T Consensus        75 ~~l~-------~~-----~~~~~~~~l~~~f~~A~~~~p~il~ideid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~  142 (265)
T d1r7ra3          75 PELL-------TM-----WFGESEANVREIFDKARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMS  142 (265)
T ss_dssp             HHHH-------TS-----CTTTHHHHHHHHHHHHHHTCSEEEEESSGGGTCCHHHHCCCTTHHHHHHHHHHHHHTCC---
T ss_pred             HHhh-------hc-----cccchHHHHHHHHHHHHhcCCcceeHHhhhhccccCCCcCCCCcHHHHHHHHHHHHHhhCcC
Confidence            1111       10     11122222222 223334578999999997421        0        011111221  1


Q ss_pred             CCCCcEEEEEcCChhHh-hhh----ccCceeeccCCChhhHHHHHHHHhccCccCCCCChHHHHHHHHHHhCCcchH
Q 038398          254 PENKSKIVFTTHFLEIC-GAL----KAHEFLKVECLGPEDAWRLFRENLRRDVLDNHPDIPELARSVAQECAGLPLA  325 (720)
Q Consensus       254 ~~~gs~iiiTtR~~~v~-~~~----~~~~~~~l~~L~~~e~~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~GlPLa  325 (720)
                      ...+--||.||....-. ..+    .-...++++..+.++-.++|+.++.......+.+    ..+|++++.|+.-+
T Consensus       143 ~~~~v~vi~ttn~~~~ld~al~r~gRf~~~i~~~~p~~~~R~~il~~~l~~~~~~~~~~----l~~la~~t~g~s~~  215 (265)
T d1r7ra3         143 TKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDEKSRVAILKANLRKSPVAKDVD----LEFLAKMTNGFSGA  215 (265)
T ss_dssp             ---CCEEEECCBSCTTTSCGGGSSTTSEEEEECCCCCCHHHHHHHHHHTTCC----CCC----CHHHHHHHCSSCCH
T ss_pred             CCCCEEEEEeCCCchhCCHHHhCCCCccEEEEecchHHHHHHHHHHHHhccCCchhhhh----HHHHHhcCCCCCHH
Confidence            22344556666654322 221    1346789999999999999988765433222223    35677788886543

>d1d2na_ c.37.1.20 (A:) Hexamerization domain of N-ethylmalemide-sensitive fusion (NSF) protein {Chinese hamster (Cricetulus griseus) [TaxId: 10029]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Hexamerization domain of N-ethylmalemide-sensitive fusion (NSF) protein
species: Chinese hamster (Cricetulus griseus) [TaxId: 10029]

Probab=98.01  E-value=9.3e-05  Score=69.86  Aligned_cols=46  Identities=20%  Similarity=0.128  Sum_probs=35.9

Q ss_pred             CCCcCchHHHHHHHHHhc-------C---CCceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          126 EPTVGLESTFDKVWRCLG-------E---EQVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~-------~---~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ..+||..+.++.+++-..       .   ...+-|.++|++|+|||++|+++++..
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            457888887777655442       1   245678899999999999999999987

>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=97.70  E-value=2.8e-06  Score=75.32  Aligned_cols=84  Identities=26%  Similarity=0.254  Sum_probs=53.6

Q ss_pred             HHhccCCcccEEEccCCCCCcc--CCccccCCCCCCEEeccCCCCcccch-hhhcCCCCCEEeccCCcCCCCCch-----
Q 038398          534 DFFQSMPSLRVFNMSNNHLLWK--LPSGISTLVSLEHLDLSSTAITHLPI-ELQKLVNLKCLNLEYMNNLNQFPR-----  605 (720)
Q Consensus       534 ~~~~~l~~L~~L~L~~~~~~~~--lp~~i~~l~~L~~L~L~~~~i~~lp~-~i~~l~~L~~L~l~~~~~l~~lp~-----  605 (720)
                      ..+..+++|++|+|++|++...  ++..+..+++|++|+|++|.|+.+++ ...+..+|+.|++++|. +.....     
T Consensus        59 ~~~~~~~~L~~L~Ls~N~i~~l~~~~~~~~~l~~L~~L~Ls~N~i~~l~~l~~l~~~~L~~L~L~~Np-l~~~~~~~~~y  137 (162)
T d1koha1          59 IIEENIPELLSLNLSNNRLYRLDDMSSIVQKAPNLKILNLSGNELKSERELDKIKGLKLEELWLDGNS-LSDTFRDQSTY  137 (162)
T ss_dssp             HHHHHCTTCCCCCCCSSCCCCCSGGGTHHHHSTTCCCCCCTTSCCCCGGGHHHHTTCCCSSCCCTTST-TSSSSSSHHHH
T ss_pred             HHHHhCCCCCEeeCCCccccCCchhHHHHhhCCcccccccccCccccchhhhhhhccccceeecCCCC-cCcCcccchhH
Confidence            3356788888888888855432  23446678888888888888887765 23344568888888843 332211     


Q ss_pred             --hhhhccccCceee
Q 038398          606 --LVISAFSKLQVLR  618 (720)
Q Consensus       606 --~~~~~l~~L~~L~  618 (720)
                        .++..+++|+.|+
T Consensus       138 ~~~i~~~~P~L~~LD  152 (162)
T d1koha1         138 ISAIRERFPKLLRLD  152 (162)
T ss_dssp             HHHHHTTSTTCCEET
T ss_pred             HHHHHHHCCCCCEEC
Confidence              2345566666665

>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=97.69  E-value=6.2e-06  Score=86.46  Aligned_cols=104  Identities=19%  Similarity=0.271  Sum_probs=76.0

Q ss_pred             cceeEEEecccccccCC--C-CCCCCcccEEEccCCCCcCcc----hHHhccCCcccEEEccCCCCCc----cCCcccc-
Q 038398          494 RNVRRMSLMKNKIENLS--E-TPTCPHLLSLFLSDNSLKMST----DDFFQSMPSLRVFNMSNNHLLW----KLPSGIS-  561 (720)
Q Consensus       494 ~~l~~L~l~~~~~~~~~--~-~~~~~~L~~L~l~~~~~~~~~----~~~~~~l~~L~~L~L~~~~~~~----~lp~~i~-  561 (720)
                      .+|+.|+++++++....  . .+.++++++|.+++|.++...    ...+..+++|++|||++|.+..    .+...+. 
T Consensus         2 ~~l~~ld~~~~~i~~~~~~~l~~~l~~l~~L~L~~~~i~~~~~~~l~~~L~~~~~L~~LdLs~N~i~~~~~~~l~~~l~~   81 (460)
T d1z7xw1           2 LDIQSLDIQCEELSDARWAELLPLLQQCQVVRLDDCGLTEARCKDISSALRVNPALAELNLRSNELGDVGVHCVLQGLQT   81 (460)
T ss_dssp             EEEEEEEEESCCCCHHHHHHHHHHHTTCSEEEEESSCCCHHHHHHHHHHHHTCTTCCEEECTTCCCHHHHHHHHHHTTCS
T ss_pred             CCCCEEEeeCCcCChHHHHHHHHhCCCCCEEEeCCCCCCHHHHHHHHHHHhcCCCCCEEECcCCcCChHHHHHHHHHHhc
Confidence            36889999999886521  1 256788999999999876432    2346788999999999996532    1223332 


Q ss_pred             CCCCCCEEeccCCCCcc-----cchhhhcCCCCCEEeccCC
Q 038398          562 TLVSLEHLDLSSTAITH-----LPIELQKLVNLKCLNLEYM  597 (720)
Q Consensus       562 ~l~~L~~L~L~~~~i~~-----lp~~i~~l~~L~~L~l~~~  597 (720)
                      ...+|++|+|++|.++.     ++..+..+++|++|++++|
T Consensus        82 ~~~~L~~L~L~~n~it~~~~~~l~~~l~~~~~L~~L~L~~N  122 (460)
T d1z7xw1          82 PSCKIQKLSLQNCCLTGAGCGVLSSTLRTLPTLQELHLSDN  122 (460)
T ss_dssp             TTCCCCEEECTTSCCBGGGHHHHHHHTTSCTTCCEEECCSS
T ss_pred             CCCCCCEEECCCCCccccccccccchhhccccccccccccc
Confidence            23579999999998874     4566788899999999985

>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=97.47  E-value=1.8e-05  Score=69.80  Aligned_cols=80  Identities=29%  Similarity=0.339  Sum_probs=59.1

Q ss_pred             CCCCcccEEEccCCCCcCcch--HHhccCCcccEEEccCCCCCccCCc-cccCCCCCCEEeccCCCCcccc--------h
Q 038398          513 PTCPHLLSLFLSDNSLKMSTD--DFFQSMPSLRVFNMSNNHLLWKLPS-GISTLVSLEHLDLSSTAITHLP--------I  581 (720)
Q Consensus       513 ~~~~~L~~L~l~~~~~~~~~~--~~~~~l~~L~~L~L~~~~~~~~lp~-~i~~l~~L~~L~L~~~~i~~lp--------~  581 (720)
                      ..+++|++|++++|.++.+.+  ..+..+++|++|+|++|.+. .++. ......+|+.|++++|.+....        .
T Consensus        62 ~~~~~L~~L~Ls~N~i~~l~~~~~~~~~l~~L~~L~Ls~N~i~-~l~~l~~l~~~~L~~L~L~~Npl~~~~~~~~~y~~~  140 (162)
T d1koha1          62 ENIPELLSLNLSNNRLYRLDDMSSIVQKAPNLKILNLSGNELK-SERELDKIKGLKLEELWLDGNSLSDTFRDQSTYISA  140 (162)
T ss_dssp             HHCTTCCCCCCCSSCCCCCSGGGTHHHHSTTCCCCCCTTSCCC-CGGGHHHHTTCCCSSCCCTTSTTSSSSSSHHHHHHH
T ss_pred             HhCCCCCEeeCCCccccCCchhHHHHhhCCcccccccccCccc-cchhhhhhhccccceeecCCCCcCcCcccchhHHHH
Confidence            357889999999998887653  44778999999999999544 4443 2334557899999999887542        1


Q ss_pred             hhhcCCCCCEEe
Q 038398          582 ELQKLVNLKCLN  593 (720)
Q Consensus       582 ~i~~l~~L~~L~  593 (720)
                      .+..+++|+.||
T Consensus       141 i~~~~P~L~~LD  152 (162)
T d1koha1         141 IRERFPKLLRLD  152 (162)
T ss_dssp             HHTTSTTCCEET
T ss_pred             HHHHCCCCCEEC
Confidence            266789999998

>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=97.35  E-value=0.0005  Score=62.20  Aligned_cols=114  Identities=11%  Similarity=0.098  Sum_probs=67.2

Q ss_pred             HHHHHHHHhcCCCceEEEEEcCCCChHHHHHHHHHhhhcC-CCCCcCEEEEEEec-CcCCHHHHHHHHHHHhCCCCCccC
Q 038398          134 TFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLG-APNVFDVVIWVVVS-KDLQLEKIQEKIGRRIGFFDESWK  211 (720)
Q Consensus       134 ~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~-~~~~f~~~~wv~v~-~~~~~~~~~~~i~~~l~~~~~~~~  211 (720)
                      .++.+.+++..+....+.++|++|+||||+|..+.+.... ...|.| ++++.-. ....+.++. ++...+....    
T Consensus         2 ~~~~l~~~i~~~~~~~~l~~G~~g~gk~~~a~~l~~~i~~~~~~h~D-~~~i~~~~~~I~Id~IR-~i~~~~~~~~----   75 (198)
T d2gnoa2           2 QLETLKRIIEKSEGISILINGEDLSYPREVSLELPEYVEKFPPKASD-VLEIDPEGENIGIDDIR-TIKDFLNYSP----   75 (198)
T ss_dssp             HHHHHHHHHHTCSSEEEEEECSSSSHHHHHHHHHHHHHHTSCCCTTT-EEEECCSSSCBCHHHHH-HHHHHHTSCC----
T ss_pred             HHHHHHHHHhcCCCceEEEECCCCCCHHHHHHHHHHHHhccccCCCC-EEEEeCCcCCCCHHHHH-HHHHHHhhCc----
Confidence            4566677777777889999999999999999998876521 123334 3344322 222344433 2444443221    


Q ss_pred             CCChhHHHHHHHHHhccCcEEEEEeccccc--cccccccccCCCCCCCcEEEEEcCCh
Q 038398          212 NGSLEDKTSDILRILGKKKFLLLLDDIWER--VDLTKVGIPFPDPENKSKIVFTTHFL  267 (720)
Q Consensus       212 ~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~iiiTtR~~  267 (720)
                                    ..+++-++|+|+++..  .....+...+.....++.+|++|.+.
T Consensus        76 --------------~~~~~KviIId~ad~l~~~aqNaLLK~LEEPp~~t~fiLit~~~  119 (198)
T d2gnoa2          76 --------------ELYTRKYVIVHDCERMTQQAANAFLKALEEPPEYAVIVLNTRRW  119 (198)
T ss_dssp             --------------SSSSSEEEEETTGGGBCHHHHHHTHHHHHSCCTTEEEEEEESCG
T ss_pred             --------------ccCCCEEEEEeCccccchhhhhHHHHHHhCCCCCceeeeccCCh
Confidence                          1245558999999753  33444443343444567777666554

>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=97.23  E-value=9e-05  Score=77.19  Aligned_cols=106  Identities=18%  Similarity=0.199  Sum_probs=75.4

Q ss_pred             CcccEEEccCCCCcCcc-hHHhccCCcccEEEccCCCCCc----cCCccccCCCCCCEEeccCCCCcc-----cchhhh-
Q 038398          516 PHLLSLFLSDNSLKMST-DDFFQSMPSLRVFNMSNNHLLW----KLPSGISTLVSLEHLDLSSTAITH-----LPIELQ-  584 (720)
Q Consensus       516 ~~L~~L~l~~~~~~~~~-~~~~~~l~~L~~L~L~~~~~~~----~lp~~i~~l~~L~~L~L~~~~i~~-----lp~~i~-  584 (720)
                      .+|++|++++|.++... ...+..+++|++|+|++|.+..    .++..+..+++|++|+|++|.|+.     +...+. 
T Consensus         2 ~~l~~ld~~~~~i~~~~~~~l~~~l~~l~~L~L~~~~i~~~~~~~l~~~L~~~~~L~~LdLs~N~i~~~~~~~l~~~l~~   81 (460)
T d1z7xw1           2 LDIQSLDIQCEELSDARWAELLPLLQQCQVVRLDDCGLTEARCKDISSALRVNPALAELNLRSNELGDVGVHCVLQGLQT   81 (460)
T ss_dssp             EEEEEEEEESCCCCHHHHHHHHHHHTTCSEEEEESSCCCHHHHHHHHHHHHTCTTCCEEECTTCCCHHHHHHHHHHTTCS
T ss_pred             CCCCEEEeeCCcCChHHHHHHHHhCCCCCEEEeCCCCCCHHHHHHHHHHHhcCCCCCEEECcCCcCChHHHHHHHHHHhc
Confidence            46899999999887643 3446788999999999996542    345567789999999999999863     222222 


Q ss_pred             cCCCCCEEeccCCcCCCCCch----hhhhccccCceeecccc
Q 038398          585 KLVNLKCLNLEYMNNLNQFPR----LVISAFSKLQVLRMFDC  622 (720)
Q Consensus       585 ~l~~L~~L~l~~~~~l~~lp~----~~~~~l~~L~~L~~~~~  622 (720)
                      ..++|++|++++| .++....    ..+..+++|++|++.++
T Consensus        82 ~~~~L~~L~L~~n-~it~~~~~~l~~~l~~~~~L~~L~L~~N  122 (460)
T d1z7xw1          82 PSCKIQKLSLQNC-CLTGAGCGVLSSTLRTLPTLQELHLSDN  122 (460)
T ss_dssp             TTCCCCEEECTTS-CCBGGGHHHHHHHTTSCTTCCEEECCSS
T ss_pred             CCCCCCEEECCCC-Cccccccccccchhhccccccccccccc
Confidence            2358999999996 3443221    12456777888877653

>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=96.84  E-value=0.00028  Score=63.39  Aligned_cols=25  Identities=20%  Similarity=0.399  Sum_probs=23.3

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ++.|+|.|++|+||||||+.+.+..
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            5789999999999999999999886

>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=96.74  E-value=0.0008  Score=59.10  Aligned_cols=60  Identities=18%  Similarity=0.114  Sum_probs=25.6

Q ss_pred             ccCCcccEEEccCCCCCcc----CCccccCCCCCCEEeccCCCCcc-----cchhhhcCCCCCEEeccC
Q 038398          537 QSMPSLRVFNMSNNHLLWK----LPSGISTLVSLEHLDLSSTAITH-----LPIELQKLVNLKCLNLEY  596 (720)
Q Consensus       537 ~~l~~L~~L~L~~~~~~~~----lp~~i~~l~~L~~L~L~~~~i~~-----lp~~i~~l~~L~~L~l~~  596 (720)
                      ...++|++|+|++|.+...    +...+...+.|+.|+|++|.++.     +-..+...++|++|++++
T Consensus        41 ~~n~~L~~L~Ls~n~l~~~~~~~la~~L~~n~~L~~L~L~~n~i~~~g~~~l~~aL~~n~sL~~L~l~~  109 (167)
T d1pgva_          41 CNSKHIEKFSLANTAISDSEARGLIELIETSPSLRVLNVESNFLTPELLARLLRSTLVTQSIVEFKADN  109 (167)
T ss_dssp             TTCSCCCEEECTTSCCBHHHHTTHHHHHHHCSSCCEEECCSSBCCHHHHHHHHHHTTTTCCCSEEECCC
T ss_pred             hhCCccceeeccccccchhHHHHHhhhhhhcccccceeeehhhcchHHHHHHHHHHHhCCcCCEEECCC
Confidence            3344455555555533211    11222333445555555554441     122233444555555544

>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=96.73  E-value=0.00036  Score=61.44  Aligned_cols=25  Identities=36%  Similarity=0.570  Sum_probs=23.1

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      .+||+|+|+.|+|||||++++.+..
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            4799999999999999999999876

>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=96.72  E-value=0.00037  Score=62.11  Aligned_cols=36  Identities=19%  Similarity=0.015  Sum_probs=27.4

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEE
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWV  184 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv  184 (720)
                      -.+|.++|++|+||||+|+.+.....  ...++...++
T Consensus         6 g~~I~l~G~~GsGKTTia~~La~~L~--~~~~~~~~~~   41 (183)
T d1m8pa3           6 GFTIFLTGYMNSGKDAIARALQVTLN--QQGGRSVSLL   41 (183)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHHH--HHCSSCEEEE
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHh--hcCCCchhhh
Confidence            36889999999999999999998872  2234444444

>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=96.71  E-value=0.00032  Score=61.45  Aligned_cols=24  Identities=33%  Similarity=0.383  Sum_probs=21.9

Q ss_pred             eEEEEEcCCCChHHHHHHHHHhhh
Q 038398          148 GIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      +.|.+.|++|+||||+|+.++...
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            468888999999999999999987

>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=96.67  E-value=0.00046  Score=59.58  Aligned_cols=24  Identities=33%  Similarity=0.296  Sum_probs=21.2

Q ss_pred             eEEEEEcCCCChHHHHHHHHHhhh
Q 038398          148 GIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      .+|.|.|++|+||||+|+.+....
T Consensus         3 klIii~G~pGsGKTTla~~L~~~~   26 (152)
T d1ly1a_           3 KIILTIGCPGSGKSTWAREFIAKN   26 (152)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHHhC
Confidence            578899999999999999987654

>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=96.63  E-value=0.0028  Score=59.78  Aligned_cols=87  Identities=16%  Similarity=0.181  Sum_probs=62.0

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHHHHHhCCCCCcc---CCCChhHHHHHH
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKIGRRIGFFDESW---KNGSLEDKTSDI  222 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i~~~l~~~~~~~---~~~~~~~~~~~l  222 (720)
                      .-+++-|+|++|+||||+|.+++.... ..+  ..++|++....++..     ++++++...+..   ...+.++..+.+
T Consensus        56 ~g~itei~G~~~sGKT~l~l~~~~~aq-k~g--~~v~yiDtE~~~~~~-----~a~~~Gvd~d~i~~~~~~~~E~~~~~~  127 (268)
T d1xp8a1          56 RGRITEIYGPESGGKTTLALAIVAQAQ-KAG--GTCAFIDAEHALDPV-----YARALGVNTDELLVSQPDNGEQALEIM  127 (268)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHHH-HTT--CCEEEEESSCCCCHH-----HHHHTTCCGGGCEEECCSSHHHHHHHH
T ss_pred             CceEEEEecCCccchHHHHHHHHHHHH-hCC--CEEEEEECCccCCHH-----HHHHhCCCchhEEEEcCCCHHHHHHHH
Confidence            347999999999999999999887762 122  358999988888874     667777765431   345566666666


Q ss_pred             HHHhcc-CcEEEEEecccc
Q 038398          223 LRILGK-KKFLLLLDDIWE  240 (720)
Q Consensus       223 ~~~l~~-k~~LlVlDdv~~  240 (720)
                      ....+. ..-|+|+|-+-.
T Consensus       128 ~~l~~~~~~~liIiDSi~a  146 (268)
T d1xp8a1         128 ELLVRSGAIDVVVVDSVAA  146 (268)
T ss_dssp             HHHHTTTCCSEEEEECTTT
T ss_pred             HHHHhcCCCcEEEEecccc
Confidence            665554 456899998744

>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=96.61  E-value=0.00049  Score=60.75  Aligned_cols=24  Identities=29%  Similarity=0.468  Sum_probs=22.1

Q ss_pred             eEEEEEcCCCChHHHHHHHHHhhh
Q 038398          148 GIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ++|.|.|++|+||||+|+.+....
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            579999999999999999998876

>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=96.59  E-value=0.0011  Score=58.22  Aligned_cols=119  Identities=18%  Similarity=0.126  Sum_probs=75.6

Q ss_pred             hccCCcccEEEccCCCCCcc-----CCccccCCCCCCEEeccCCCCc-----ccchhhhcCCCCCEEeccCCcCCCCCc-
Q 038398          536 FQSMPSLRVFNMSNNHLLWK-----LPSGISTLVSLEHLDLSSTAIT-----HLPIELQKLVNLKCLNLEYMNNLNQFP-  604 (720)
Q Consensus       536 ~~~l~~L~~L~L~~~~~~~~-----lp~~i~~l~~L~~L~L~~~~i~-----~lp~~i~~l~~L~~L~l~~~~~l~~lp-  604 (720)
                      ..+.++|+.|+|++++.++.     +-..+...++|++|+|++|.++     .+...+...+.|++|++++| .+..-. 
T Consensus        11 ~~n~~~L~~L~L~~~~~i~~~~~~~l~~~L~~n~~L~~L~Ls~n~l~~~~~~~la~~L~~n~~L~~L~L~~n-~i~~~g~   89 (167)
T d1pgva_          11 REDDTDLKEVNINNMKRVSKERIRSLIEAACNSKHIEKFSLANTAISDSEARGLIELIETSPSLRVLNVESN-FLTPELL   89 (167)
T ss_dssp             HTTCSSCCEEECTTCCSSCHHHHHHHHHHHTTCSCCCEEECTTSCCBHHHHTTHHHHHHHCSSCCEEECCSS-BCCHHHH
T ss_pred             HhCCCCCcEEEeCCCCCCCHHHHHHHHHHHhhCCccceeeccccccchhHHHHHhhhhhhcccccceeeehh-hcchHHH
Confidence            34568899999987543322     3345667789999999999887     33445667799999999996 333210 


Q ss_pred             -h--hhhhccccCceeeccccCCCcccchhcccccCCccccHHHhcCCCCCceeEEEecch
Q 038398          605 -R--LVISAFSKLQVLRMFDCGGSKIERLKINVLFGGHQFLVEELMGMKHLMVLTITLKSW  662 (720)
Q Consensus       605 -~--~~~~~l~~L~~L~~~~~~~~~l~~l~~~~~~~~~~~~~~~l~~l~~L~~L~~~~~~~  662 (720)
                       .  ..+..-++|++|++.++..+.+..-.       ...+...+..++.|+.|++++...
T Consensus        90 ~~l~~aL~~n~sL~~L~l~~n~~~~~g~~~-------~~~l~~~L~~n~sL~~l~l~~~~~  143 (167)
T d1pgva_          90 ARLLRSTLVTQSIVEFKADNQRQSVLGNQV-------EMDMMMAIEENESLLRVGISFASM  143 (167)
T ss_dssp             HHHHHHTTTTCCCSEEECCCCSSCCCCHHH-------HHHHHHHHHHCSSCCEEECCCCCH
T ss_pred             HHHHHHHHhCCcCCEEECCCCcCCCccHHH-------HHHHHHHHHhCCCccEeeCcCCCc
Confidence             0  02344566888888765544321100       112455567788899998877654

>d1rz3a_ c.37.1.6 (A:) Hypothetical protein rbstp0775 {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Hypothetical protein rbstp0775
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=96.56  E-value=0.00086  Score=60.58  Aligned_cols=27  Identities=30%  Similarity=0.507  Sum_probs=24.2

Q ss_pred             CCceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          145 EQVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       145 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      .+.-+|+|.|++|+||||||+.+.+..
T Consensus        20 ~~~~iIgI~G~~GSGKSTla~~L~~~l   46 (198)
T d1rz3a_          20 AGRLVLGIDGLSRSGKTTLANQLSQTL   46 (198)
T ss_dssp             SSSEEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            456689999999999999999998876

>d1rkba_ c.37.1.1 (A:) Adenylate kinase {Human (Homo sapiens), isoenzyme 6 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Human (Homo sapiens), isoenzyme 6 [TaxId: 9606]

Probab=96.54  E-value=0.00047  Score=60.86  Aligned_cols=24  Identities=46%  Similarity=0.444  Sum_probs=21.7

Q ss_pred             eEEEEEcCCCChHHHHHHHHHhhh
Q 038398          148 GIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ..|.|.|++|+||||+|+.+.+..
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

>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=96.54  E-value=0.0046  Score=55.72  Aligned_cols=90  Identities=17%  Similarity=0.181  Sum_probs=51.1

Q ss_pred             CCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCH--HHHHHHHHHHhCCCCCcc-CCCChhHHHHH
Q 038398          145 EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQL--EKIQEKIGRRIGFFDESW-KNGSLEDKTSD  221 (720)
Q Consensus       145 ~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~--~~~~~~i~~~l~~~~~~~-~~~~~~~~~~~  221 (720)
                      ..+.||.++|+.|+||||.+.+++....  +.. ..+..++ .+.+-.  .+-++...+.++.+.... ...+.......
T Consensus         7 ~~p~vi~lvGptGvGKTTTiAKLA~~~~--~~g-~kV~lit-~Dt~R~gA~eQL~~~a~~l~v~~~~~~~~~d~~~~l~~   82 (211)
T d2qy9a2           7 KAPFVILMVGVNGVGKTTTIGKLARQFE--QQG-KSVMLAA-GDTFRAAAVEQLQVWGQRNNIPVIAQHTGADSASVIFD   82 (211)
T ss_dssp             CTTEEEEEECCTTSCHHHHHHHHHHHHH--TTT-CCEEEEC-CCTTCHHHHHHHHHHHHHTTCCEECCSTTCCHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHH--HCC-CcEEEEe-cccccccchhhhhhhhhhcCCcccccccCCCHHHHHHH
Confidence            4568999999999999988877777762  222 2344443 344443  556777788887654211 12233333333


Q ss_pred             HHHHhccCc-EEEEEecc
Q 038398          222 ILRILGKKK-FLLLLDDI  238 (720)
Q Consensus       222 l~~~l~~k~-~LlVlDdv  238 (720)
                      ..+..+.+. =++++|=.
T Consensus        83 ~~~~a~~~~~d~ilIDTa  100 (211)
T d2qy9a2          83 AIQAAKARNIDVLIADTA  100 (211)
T ss_dssp             HHHHHHHTTCSEEEECCC
T ss_pred             HHHHHHHcCCCEEEeccC
Confidence            333222222 36677755

>d1ofha_ c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: HslU
species: Haemophilus influenzae [TaxId: 727]

Probab=96.51  E-value=0.001  Score=64.95  Aligned_cols=45  Identities=22%  Similarity=0.221  Sum_probs=35.8

Q ss_pred             CCcCchHHHHHHHHHhc--------C------CCceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          127 PTVGLESTFDKVWRCLG--------E------EQVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       127 ~~vGr~~~~~~l~~~L~--------~------~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      .++|.++.++.+...+.        .      ...+.+.++||+|+|||.||+++++..
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            46899999888866551        0      135678899999999999999999886

>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=96.50  E-value=0.0042  Score=58.44  Aligned_cols=87  Identities=15%  Similarity=0.178  Sum_probs=60.1

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHHHHHhCCCCCc---cCCCChhHHHHHH
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKIGRRIGFFDES---WKNGSLEDKTSDI  222 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i~~~l~~~~~~---~~~~~~~~~~~~l  222 (720)
                      .-+++-|+|++|+||||+|.+++....   ..-..++|++....++...     +++++...+.   ......++..+.+
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            347999999999999999988776652   2223689999988888654     4556665432   1344566666655


Q ss_pred             HHHhcc-CcEEEEEecccc
Q 038398          223 LRILGK-KKFLLLLDDIWE  240 (720)
Q Consensus       223 ~~~l~~-k~~LlVlDdv~~  240 (720)
                      ....+. +.-|||+|.+-.
T Consensus       131 ~~l~~~~~~~liIiDSi~a  149 (269)
T d1mo6a1         131 DMLIRSGALDIVVIDSVAA  149 (269)
T ss_dssp             HHHHHTTCEEEEEEECSTT
T ss_pred             HHHHhcCCCCEEEEecccc
Confidence            555544 466899998743

>d1qf9a_ c.37.1.1 (A:) UMP/CMP kinase {Dictyostelium discoideum [TaxId: 44689]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: UMP/CMP kinase
species: Dictyostelium discoideum [TaxId: 44689]

Probab=96.48  E-value=0.00077  Score=60.92  Aligned_cols=27  Identities=22%  Similarity=0.301  Sum_probs=24.6

Q ss_pred             CCceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          145 EQVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       145 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ..+.+|.|+|++|+||||+|+.+++..
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            456799999999999999999999887

>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=96.45  E-value=0.0034  Score=59.09  Aligned_cols=85  Identities=15%  Similarity=0.146  Sum_probs=57.9

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHHHHHhCCCCCcc---CCCChhHHHHHHH
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKIGRRIGFFDESW---KNGSLEDKTSDIL  223 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i~~~l~~~~~~~---~~~~~~~~~~~l~  223 (720)
                      -+++-|+|++|+||||+|-+++....   ..=..++|++....++..     .++.++...+..   ...+.++..+.+.
T Consensus        54 g~itei~G~~gsGKTtl~l~~~~~~q---~~g~~~vyidtE~~~~~~-----~a~~~Gvd~d~v~~~~~~~~E~~~~~i~  125 (263)
T d1u94a1          54 GRIVEIYGPESSGKTTLTLQVIAAAQ---REGKTCAFIDAEHALDPI-----YARKLGVDIDNLLCSQPDTGEQALEICD  125 (263)
T ss_dssp             TSEEEEECSTTSSHHHHHHHHHHHHH---HTTCCEEEEESSCCCCHH-----HHHHTTCCGGGCEEECCSSHHHHHHHHH
T ss_pred             ceEEEEecCCCcHHHHHHHHHHHHHH---cCCCEEEEEccccccCHH-----HHHHhCCCHHHEEEecCCCHHHHHHHHH
Confidence            36999999999999999999887762   222357899988887764     356666654321   2344556665555


Q ss_pred             HHhcc-CcEEEEEeccc
Q 038398          224 RILGK-KKFLLLLDDIW  239 (720)
Q Consensus       224 ~~l~~-k~~LlVlDdv~  239 (720)
                      ...+. ..-|+|+|-+-
T Consensus       126 ~l~~~~~~~liViDSi~  142 (263)
T d1u94a1         126 ALARSGAVDVIVVDSVA  142 (263)
T ss_dssp             HHHHHTCCSEEEEECGG
T ss_pred             HHHhcCCCCEEEEECcc
Confidence            55543 34588888874

>d2i3ba1 c.37.1.11 (A:1-189) Cancer-related NTPase, C1orf57 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Cancer-related NTPase, C1orf57
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.42  E-value=0.00061  Score=60.83  Aligned_cols=24  Identities=46%  Similarity=0.517  Sum_probs=22.2

Q ss_pred             eEEEEEcCCCChHHHHHHHHHhhh
Q 038398          148 GIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      +.|.|+|++|+|||||+++++...
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            568999999999999999999887

>d1ukza_ c.37.1.1 (A:) Uridylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Uridylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.35  E-value=0.00096  Score=60.37  Aligned_cols=27  Identities=33%  Similarity=0.423  Sum_probs=24.9

Q ss_pred             CCceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          145 EQVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       145 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      +..++|.|.|++|+||||+|+.+++.+
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            467899999999999999999999887

>d1knqa_ c.37.1.17 (A:) Gluconate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Gluconate kinase
domain: Gluconate kinase
species: Escherichia coli [TaxId: 562]

Probab=96.35  E-value=0.0011  Score=58.38  Aligned_cols=26  Identities=27%  Similarity=0.516  Sum_probs=23.9

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ..+++.|.|++|+||||+|+.+....
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            46889999999999999999999887

>d1gvnb_ c.37.1.21 (B:) Plasmid maintenance system epsilon/zeta, toxin zeta subunit {Streptococcus pyogenes [TaxId: 1314]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Plasmid maintenance system epsilon/zeta, toxin zeta subunit
domain: Plasmid maintenance system epsilon/zeta, toxin zeta subunit
species: Streptococcus pyogenes [TaxId: 1314]

Probab=96.32  E-value=0.0017  Score=61.90  Aligned_cols=26  Identities=31%  Similarity=0.272  Sum_probs=23.6

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      .+..|.++|++|+||||||+.++...
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

>d2iyva1 c.37.1.2 (A:2-166) Shikimate kinase (AroK) {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=96.30  E-value=0.00098  Score=58.40  Aligned_cols=22  Identities=32%  Similarity=0.513  Sum_probs=19.6

Q ss_pred             EEEEcCCCChHHHHHHHHHhhh
Q 038398          150 IGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       150 i~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      |.++||+|+||||+|+.+++..
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            4455999999999999999988

>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=96.29  E-value=0.0067  Score=54.54  Aligned_cols=60  Identities=18%  Similarity=0.215  Sum_probs=43.7

Q ss_pred             CCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecC-cCCHHHHHHHHHHHhCCCC
Q 038398          145 EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSK-DLQLEKIQEKIGRRIGFFD  207 (720)
Q Consensus       145 ~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~-~~~~~~~~~~i~~~l~~~~  207 (720)
                      ++.++|.++|+.|+||||.+.+++.... .. . ..+..|+... .....+.++...+.++.+.
T Consensus         4 ~~~~vi~lvGptGvGKTTTiaKLA~~~~-~~-g-~kV~lit~Dt~R~gA~eQL~~~a~~l~i~~   64 (207)
T d1okkd2           4 PKGRVVLVVGVNGVGKTTTIAKLGRYYQ-NL-G-KKVMFCAGDTFRAAGGTQLSEWGKRLSIPV   64 (207)
T ss_dssp             CSSSEEEEECSTTSSHHHHHHHHHHHHH-TT-T-CCEEEECCCCSSTTHHHHHHHHHHHHTCCE
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHH-HC-C-CcEEEEEeccccccchhhHhhcccccCceE
Confidence            3568999999999999988877777762 22 2 3577776653 3456677888888888764

>d1x6va3 c.37.1.4 (A:34-228) Adenosine-5'phosphosulfate kinase (APS kinase) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Adenosine-5'phosphosulfate kinase (APS kinase)
domain: Adenosine-5'phosphosulfate kinase (APS kinase)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.28  E-value=0.00069  Score=61.15  Aligned_cols=25  Identities=32%  Similarity=0.425  Sum_probs=22.6

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ..+|.++|++|+||||+|+.+....
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            3588899999999999999998876

>d1viaa_ c.37.1.2 (A:) Shikimate kinase (AroK) {Campylobacter jejuni [TaxId: 197]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Campylobacter jejuni [TaxId: 197]

Probab=96.25  E-value=0.001  Score=58.07  Aligned_cols=22  Identities=36%  Similarity=0.548  Sum_probs=20.6

Q ss_pred             EEEEcCCCChHHHHHHHHHhhh
Q 038398          150 IGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       150 i~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      |.|+||+|+||||+|+.++...
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            6788999999999999999998

>d1qhxa_ c.37.1.3 (A:) Chloramphenicol phosphotransferase {Streptomyces venezuelae [TaxId: 54571]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Chloramphenicol phosphotransferase
domain: Chloramphenicol phosphotransferase
species: Streptomyces venezuelae [TaxId: 54571]

Probab=96.24  E-value=0.0011  Score=58.45  Aligned_cols=25  Identities=24%  Similarity=0.349  Sum_probs=23.1

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      .++|.|.|++|+||||+|+.+.+..
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            3689999999999999999999987

>d1xjca_ c.37.1.10 (A:) Molybdopterin-guanine dinucleotide biosynthesis protein MobB {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Molybdopterin-guanine dinucleotide biosynthesis protein MobB
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=96.21  E-value=0.0012  Score=57.85  Aligned_cols=24  Identities=29%  Similarity=0.322  Sum_probs=22.6

Q ss_pred             eEEEEEcCCCChHHHHHHHHHhhh
Q 038398          148 GIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ++++|+|..|+|||||+.++....
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            689999999999999999998887

>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=96.18  E-value=0.002  Score=56.44  Aligned_cols=119  Identities=15%  Similarity=0.097  Sum_probs=63.6

Q ss_pred             hccCCcccEEEccCCCCCc-----cCCccccCCCCCCEEeccCCCCcc-----cchhhhcCCCCCEEeccCCcCCCC---
Q 038398          536 FQSMPSLRVFNMSNNHLLW-----KLPSGISTLVSLEHLDLSSTAITH-----LPIELQKLVNLKCLNLEYMNNLNQ---  602 (720)
Q Consensus       536 ~~~l~~L~~L~L~~~~~~~-----~lp~~i~~l~~L~~L~L~~~~i~~-----lp~~i~~l~~L~~L~l~~~~~l~~---  602 (720)
                      ..+.+.|++|+|+++..++     .+-..+...++|+.|++++|.++.     +-..+...++|+.+++++|..-..   
T Consensus        13 ~~~~~~L~~L~L~~~~~i~~~~~~~l~~al~~n~~L~~L~Ls~n~l~~~~~~~L~~~l~~~~~l~~l~l~~~~~~~~g~~   92 (166)
T d1io0a_          13 QNNDPDLEEVNLNNIMNIPVPTLKACAEALKTNTYVKKFSIVGTRSNDPVAFALAEMLKVNNTLKSLNVESNFISGSGIL   92 (166)
T ss_dssp             HTTCTTCCEEECTTCTTCCHHHHHHHHHHHTTCCSCCEEECTTSCCCHHHHHHHHHHHHHCSSCCEEECCSSCCCHHHHH
T ss_pred             HhcCCCCcEEEcCCCCCCCHHHHHHHHHHHhcCCccCeeeccCCcccHHHHHHHHHHHhhcccchhhhhccccccchhHH
Confidence            3455677777777642221     133344566777777777777652     233355667788888777421100   


Q ss_pred             -CchhhhhccccCceeeccccCCCcccchhcccccCCccccHHHhcCCCCCceeEEEecchh
Q 038398          603 -FPRLVISAFSKLQVLRMFDCGGSKIERLKINVLFGGHQFLVEELMGMKHLMVLTITLKSWQ  663 (720)
Q Consensus       603 -lp~~~~~~l~~L~~L~~~~~~~~~l~~l~~~~~~~~~~~~~~~l~~l~~L~~L~~~~~~~~  663 (720)
                       +.. .+...++|+.+++.. +.|.+.+-.       ...+...+..++.|+.|++.++...
T Consensus        93 ~l~~-~l~~~~~L~~l~L~l-~~n~i~~~~-------~~~La~~L~~n~~L~~L~l~~~~~~  145 (166)
T d1io0a_          93 ALVE-ALQSNTSLIELRIDN-QSQPLGNNV-------EMEIANMLEKNTTLLKFGYHFTQQG  145 (166)
T ss_dssp             HHHH-GGGGCSSCCEEECCC-CSSCCCHHH-------HHHHHHHHHHCSSCCEEECCCSSHH
T ss_pred             HHHH-HHHhCccccEEeecc-CCCcCcHHH-------HHHHHHHHHhCCCcCEEeCcCCCCc
Confidence             111 134445566555542 233332100       1123445667788888888766554

>d1khta_ c.37.1.1 (A:) Adenylate kinase {Archaeon Methanococcus voltae [TaxId: 2188]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Archaeon Methanococcus voltae [TaxId: 2188]

Probab=96.15  E-value=0.0013  Score=58.80  Aligned_cols=24  Identities=29%  Similarity=0.386  Sum_probs=22.7

Q ss_pred             eEEEEEcCCCChHHHHHHHHHhhh
Q 038398          148 GIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ++|+|.|++|+||||+++.+.+..
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

>d1y63a_ c.37.1.1 (A:) Probable kinase LmjF30.1890 {Leishmania major [TaxId: 5664]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Probable kinase LmjF30.1890
species: Leishmania major [TaxId: 5664]

Probab=96.14  E-value=0.0013  Score=58.01  Aligned_cols=25  Identities=32%  Similarity=0.313  Sum_probs=22.4

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ...|.|.|++|+||||+|+.+.+..
T Consensus         5 ~~~I~i~G~~GsGKTT~~~~La~~l   29 (174)
T d1y63a_           5 GINILITGTPGTGKTSMAEMIAAEL   29 (174)
T ss_dssp             SCEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCEEEEEeCCCCCHHHHHHHHHHHh
Confidence            3568899999999999999999876

>d1qvra3 c.37.1.20 (A:536-850) ClpB, AAA+ modules {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Thermus thermophilus [TaxId: 274]

Probab=96.14  E-value=0.0022  Score=62.45  Aligned_cols=45  Identities=27%  Similarity=0.428  Sum_probs=35.6

Q ss_pred             CCcCchHHHHHHHHHhc-------C-C-CceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          127 PTVGLESTFDKVWRCLG-------E-E-QVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       127 ~~vGr~~~~~~l~~~L~-------~-~-~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      .++|.++.++.|...+.       + + ...++.++|+.|+|||.+|+.+.+..
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            46899998888876652       1 1 23478899999999999999998875

>d2jdid3 c.37.1.11 (D:82-357) Central domain of beta subunit of F1 ATP synthase {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Central domain of beta subunit of F1 ATP synthase
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=96.14  E-value=0.019  Score=53.71  Aligned_cols=102  Identities=21%  Similarity=0.267  Sum_probs=62.9

Q ss_pred             HHHHHhcC-CCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCc-CCHHHHHHHHHHHhCCC-CCc----
Q 038398          137 KVWRCLGE-EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKD-LQLEKIQEKIGRRIGFF-DES----  209 (720)
Q Consensus       137 ~l~~~L~~-~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~-~~~~~~~~~i~~~l~~~-~~~----  209 (720)
                      ++++.+.. ..-+.++|.|..|+|||+|+..+.+...  +.+-+.++++-+++. ....++.+++...-... .+.    
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            45555543 2335699999999999999999988751  345567888888765 45667777776642111 000    


Q ss_pred             -----cCCCChhH------HHHHHHHHhc---cCcEEEEEecccc
Q 038398          210 -----WKNGSLED------KTSDILRILG---KKKFLLLLDDIWE  240 (720)
Q Consensus       210 -----~~~~~~~~------~~~~l~~~l~---~k~~LlVlDdv~~  240 (720)
                           ....+...      ..-.+.+++.   ++.+|+++||+-.
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                 01111111      1123445553   6899999999843

>d1zp6a1 c.37.1.25 (A:6-181) Hypothetical protein Atu3015 {Agrobacterium tumefaciens [TaxId: 358]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Atu3015-like
domain: Hypothetical protein Atu3015
species: Agrobacterium tumefaciens [TaxId: 358]

Probab=96.11  E-value=0.0013  Score=58.06  Aligned_cols=25  Identities=32%  Similarity=0.371  Sum_probs=22.4

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      -++|.|.|++|+||||+|+.+.+..
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            4789999999999999999998765

>d1e6ca_ c.37.1.2 (A:) Shikimate kinase (AroK) {Erwinia chrysanthemi [TaxId: 556]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Erwinia chrysanthemi [TaxId: 556]

Probab=96.08  E-value=0.0012  Score=58.08  Aligned_cols=23  Identities=30%  Similarity=0.355  Sum_probs=21.0

Q ss_pred             EEEEEcCCCChHHHHHHHHHhhh
Q 038398          149 IIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      .|.++|++|+||||+|+.+++..
T Consensus         4 ~Iil~G~~GsGKSTia~~LA~~L   26 (170)
T d1e6ca_           4 PIFMVGARGCGMTTVGRELARAL   26 (170)
T ss_dssp             CEEEESCTTSSHHHHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHHHh
Confidence            46688999999999999999988

>d1yj5a2 c.37.1.1 (A:351-522) 5' polynucleotide kinase-3' phosphatase, C-terminal domain {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: 5' polynucleotide kinase-3' phosphatase, C-terminal domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=96.00  E-value=0.0017  Score=57.12  Aligned_cols=27  Identities=19%  Similarity=0.283  Sum_probs=23.2

Q ss_pred             CCceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          145 EQVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       145 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ....+|.++|++|+||||+|+.+....
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            356799999999999999999887654

>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=95.99  E-value=0.0092  Score=53.70  Aligned_cols=59  Identities=19%  Similarity=0.175  Sum_probs=39.8

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCc-CCHHHHHHHHHHHhCCCC
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKD-LQLEKIQEKIGRRIGFFD  207 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~-~~~~~~~~~i~~~l~~~~  207 (720)
                      +.+||.++|+.|+||||.+.+++....  ... ..+..+++... ....+.++...+.++.+.
T Consensus         9 ~~~vi~lvGp~GvGKTTTiaKLA~~~~--~~g-~kV~lit~Dt~R~gA~eQL~~~a~~l~v~~   68 (207)
T d1ls1a2           9 DRNLWFLVGLQGSGKTTTAAKLALYYK--GKG-RRPLLVAADTQRPAAREQLRLLGEKVGVPV   68 (207)
T ss_dssp             SSEEEEEECCTTTTHHHHHHHHHHHHH--HTT-CCEEEEECCSSCHHHHHHHHHHHHHHTCCE
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHH--HCC-CcEEEEecccccchHHHHHHHHHHhcCCcc
Confidence            457899999999999988887777762  222 34556655322 234566777788887654

>d1ye8a1 c.37.1.11 (A:1-178) Hypothetical kinase-like protein Aq_1292 {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Hypothetical kinase-like protein Aq 1292
species: Aquifex aeolicus [TaxId: 63363]

Probab=95.95  E-value=0.0017  Score=57.49  Aligned_cols=23  Identities=52%  Similarity=0.647  Sum_probs=21.1

Q ss_pred             EEEEEcCCCChHHHHHHHHHhhh
Q 038398          149 IIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      -|+|+|++|+|||||++.+....
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            38999999999999999999876

>d1j8yf2 c.37.1.10 (F:87-297) GTPase domain of the signal sequence recognition protein Ffh {Archaeon Acidianus ambivalens [TaxId: 2283]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal sequence recognition protein Ffh
species: Archaeon Acidianus ambivalens [TaxId: 2283]

Probab=95.92  E-value=0.0093  Score=53.71  Aligned_cols=60  Identities=22%  Similarity=0.102  Sum_probs=36.2

Q ss_pred             CCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCc-CCHHHHHHHHHHHhCCCC
Q 038398          145 EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKD-LQLEKIQEKIGRRIGFFD  207 (720)
Q Consensus       145 ~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~-~~~~~~~~~i~~~l~~~~  207 (720)
                      ..+.||.++|+.|+||||.+.+++....  ... ..+..|++... ....+-++.....++.+.
T Consensus        10 k~p~vi~lvGptGvGKTTTiAKLA~~~~--~~g-~kV~lit~Dt~R~ga~eQL~~~a~~l~v~~   70 (211)
T d1j8yf2          10 KIPYVIMLVGVQGTGKATTAGKLAYFYK--KKG-FKVGLVGADVYRPAALEQLQQLGQQIGVPV   70 (211)
T ss_dssp             SSSEEEEEECSCCC----HHHHHHHHHH--HTT-CCEEEEECCCSSHHHHHHHHHHHHHHTCCE
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHH--HCC-CceEEEEeeccccchhHHHHHhccccCcce
Confidence            3578999999999999987777766662  122 24666765432 234456677777777654

>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=95.91  E-value=0.002  Score=58.87  Aligned_cols=25  Identities=28%  Similarity=0.381  Sum_probs=22.4

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      +.+|.++|.+|+||||+|++++...
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

>d1teva_ c.37.1.1 (A:) UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: UMP/CMP kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.91  E-value=0.002  Score=57.96  Aligned_cols=24  Identities=29%  Similarity=0.333  Sum_probs=22.5

Q ss_pred             eEEEEEcCCCChHHHHHHHHHhhh
Q 038398          148 GIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      .+|.|.|++|+||||+|+.+++..
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

>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=95.91  E-value=0.0019  Score=59.61  Aligned_cols=25  Identities=32%  Similarity=0.480  Sum_probs=23.5

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      .+||+|.||+|+||||+|+.+.+++
T Consensus         3 ~piI~I~GppGSGKgT~ak~La~~~   27 (225)
T d1ckea_           3 APVITIDGPSGAGKGTLCKAMAEAL   27 (225)
T ss_dssp             SCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHh
Confidence            4699999999999999999999998

>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=95.88  E-value=0.0068  Score=58.35  Aligned_cols=24  Identities=33%  Similarity=0.612  Sum_probs=21.2

Q ss_pred             eEEEEEcCCCChHHHHHHHHHhhh
Q 038398          148 GIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      .++.++|++|+|||.||+.++...
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            456678999999999999999886

>d1vmaa2 c.37.1.10 (A:82-294) GTPase domain of the signal recognition particle receptor FtsY {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Thermotoga maritima [TaxId: 2336]

Probab=95.84  E-value=0.0088  Score=53.96  Aligned_cols=60  Identities=22%  Similarity=0.203  Sum_probs=41.4

Q ss_pred             CCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCc-CCHHHHHHHHHHHhCCCC
Q 038398          145 EQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKD-LQLEKIQEKIGRRIGFFD  207 (720)
Q Consensus       145 ~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~-~~~~~~~~~i~~~l~~~~  207 (720)
                      ..+.+|.++|+.|+||||.+.+++.+.. .+ . ..+..+++... ....+.++...+.++.+.
T Consensus         9 ~~p~vi~lvGptGvGKTTTiAKLAa~~~-~~-~-~kV~lit~Dt~R~gA~eQL~~~a~~l~i~~   69 (213)
T d1vmaa2           9 EPPFVIMVVGVNGTGKTTSCGKLAKMFV-DE-G-KSVVLAAADTFRAAAIEQLKIWGERVGATV   69 (213)
T ss_dssp             SSCEEEEEECCTTSSHHHHHHHHHHHHH-HT-T-CCEEEEEECTTCHHHHHHHHHHHHHHTCEE
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHH-HC-C-CceEEEeecccccchhHHHHHHhhhcCccc
Confidence            4567999999999999987777776662 12 2 35777766532 344566777778887654

>d1g8pa_ c.37.1.20 (A:) ATPase subunit of magnesium chelatase, BchI {Rhodobacter capsulatus [TaxId: 1061]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ATPase subunit of magnesium chelatase, BchI
species: Rhodobacter capsulatus [TaxId: 1061]

Probab=95.77  E-value=0.002  Score=63.71  Aligned_cols=45  Identities=20%  Similarity=0.257  Sum_probs=33.9

Q ss_pred             CCCCcCchHHHHHHHHHhcCCCceEEEEEcCCCChHHHHHHHHHh
Q 038398          125 CEPTVGLESTFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINN  169 (720)
Q Consensus       125 ~~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~  169 (720)
                      .+.++|.+..+..+.-.....+..-|.+.|++|+||||||+.+..
T Consensus         6 f~~I~Gq~~~kral~laa~~~~~h~vLl~G~pG~GKT~lar~~~~   50 (333)
T d1g8pa_           6 FSAIVGQEDMKLALLLTAVDPGIGGVLVFGDRGTGKSTAVRALAA   50 (333)
T ss_dssp             GGGSCSCHHHHHHHHHHHHCGGGCCEEEECCGGGCTTHHHHHHHH
T ss_pred             hhhccCcHHHHHHHHHHHhccCCCeEEEECCCCccHHHHHHHHHH
Confidence            367799998877655443322334688999999999999999875

>d1sq5a_ c.37.1.6 (A:) Pantothenate kinase PanK {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Pantothenate kinase PanK
species: Escherichia coli [TaxId: 562]

Probab=95.67  E-value=0.032  Score=53.32  Aligned_cols=80  Identities=14%  Similarity=0.013  Sum_probs=45.9

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhhcCCCCCc--CEEEEEEecCcCCHHHHHHHHHHHhCCCCCccCCCChhHHHHHHH
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVF--DVVIWVVVSKDLQLEKIQEKIGRRIGFFDESWKNGSLEDKTSDIL  223 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f--~~~~wv~v~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~  223 (720)
                      .+-+|||.|.+|+||||+|+.+....   ...+  ..+.-|+...-+-....+..  ..+....+-...-+.+.+.+.+.
T Consensus        79 ~P~iIGIaG~sgSGKSTla~~L~~lL---~~~~~~~~v~~Is~D~F~~~~~~l~~--~~~~~~~g~Pes~D~~~L~~~L~  153 (308)
T d1sq5a_          79 IPYIISIAGSVAVGKSTTARVLQALL---SRWPEHRRVELITTDGFLHPNQVLKE--RGLMKKKGFPESYDMHRLVKFVS  153 (308)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHHHH---TTSTTCCCEEEEEGGGGBCCHHHHHH--HTCTTCTTSGGGBCHHHHHHHHH
T ss_pred             CCEEEEEeCCCCCCCcHHHHHHHHHH---hhhcCCCceEEEeeeeeECCchHHHH--hcCCccCCchHhhhHHHHHHHHH
Confidence            45699999999999999999998877   2222  23444554443332222221  11111111113456667777777


Q ss_pred             HHhccCc
Q 038398          224 RILGKKK  230 (720)
Q Consensus       224 ~~l~~k~  230 (720)
                      ....++.
T Consensus       154 ~lk~g~~  160 (308)
T d1sq5a_         154 DLKSGVP  160 (308)
T ss_dssp             HHTTTCS
T ss_pred             HHHcCCC
Confidence            7665543

>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=95.62  E-value=0.003  Score=56.40  Aligned_cols=24  Identities=42%  Similarity=0.576  Sum_probs=22.5

Q ss_pred             eEEEEEcCCCChHHHHHHHHHhhh
Q 038398          148 GIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ++|.|.|++|+||||+|+.+.+..
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            688999999999999999999887

>d1uj2a_ c.37.1.6 (A:) Uridine-cytidine kinase 2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Uridine-cytidine kinase 2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.60  E-value=0.0033  Score=57.50  Aligned_cols=25  Identities=32%  Similarity=0.389  Sum_probs=22.7

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      +-+|||.|..|+||||+|+.+.+..
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

>d1zaka1 c.37.1.1 (A:3-127,A:159-222) Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Maize (Zea mays) [TaxId: 4577]

Probab=95.59  E-value=0.0026  Score=56.92  Aligned_cols=25  Identities=24%  Similarity=0.141  Sum_probs=22.1

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      +..|.|.|++|+||||+|+.+++..
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

>d3adka_ c.37.1.1 (A:) Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Pig (Sus scrofa) [TaxId: 9823]

Probab=95.56  E-value=0.0033  Score=56.47  Aligned_cols=26  Identities=38%  Similarity=0.346  Sum_probs=23.7

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ..++|.|.|++|+||||+|+.+.+..
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            45789999999999999999999886

>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=95.55  E-value=0.0047  Score=53.88  Aligned_cols=59  Identities=19%  Similarity=0.189  Sum_probs=26.9

Q ss_pred             ccCCcccEEEccCCCCCcc----CCccccCCCCCCEEeccCCCCc-----ccchhhhcCCCCCEEecc
Q 038398          537 QSMPSLRVFNMSNNHLLWK----LPSGISTLVSLEHLDLSSTAIT-----HLPIELQKLVNLKCLNLE  595 (720)
Q Consensus       537 ~~l~~L~~L~L~~~~~~~~----lp~~i~~l~~L~~L~L~~~~i~-----~lp~~i~~l~~L~~L~l~  595 (720)
                      ...++|+.|+|++|.+...    +-..+.....|+.+++++|.++     .+-..+...++|+.++|.
T Consensus        43 ~~n~~L~~L~Ls~n~l~~~~~~~L~~~l~~~~~l~~l~l~~~~~~~~g~~~l~~~l~~~~~L~~l~L~  110 (166)
T d1io0a_          43 KTNTYVKKFSIVGTRSNDPVAFALAEMLKVNNTLKSLNVESNFISGSGILALVEALQSNTSLIELRID  110 (166)
T ss_dssp             TTCCSCCEEECTTSCCCHHHHHHHHHHHHHCSSCCEEECCSSCCCHHHHHHHHHGGGGCSSCCEEECC
T ss_pred             hcCCccCeeeccCCcccHHHHHHHHHHHhhcccchhhhhccccccchhHHHHHHHHHhCccccEEeec
Confidence            3445555555555533221    1222334455555555555543     222334445555554443

>d1zina1 c.37.1.1 (A:1-125,A:161-217) Adenylate kinase {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=95.49  E-value=0.0032  Score=55.85  Aligned_cols=22  Identities=36%  Similarity=0.462  Sum_probs=20.7

Q ss_pred             EEEEcCCCChHHHHHHHHHhhh
Q 038398          150 IGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       150 i~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      |.|.|++|+||||+|+.+++..
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            7799999999999999999887

>d1q3ta_ c.37.1.1 (A:) CMP kinase {Streptococcus pneumoniae [TaxId: 1313]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: CMP kinase
species: Streptococcus pneumoniae [TaxId: 1313]

Probab=95.47  E-value=0.0034  Score=57.81  Aligned_cols=23  Identities=26%  Similarity=0.379  Sum_probs=21.8

Q ss_pred             EEEEEcCCCChHHHHHHHHHhhh
Q 038398          149 IIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      +|+|-|++|+||||+|+.+..++
T Consensus         5 ~IaIdGp~GsGKgT~ak~La~~l   27 (223)
T d1q3ta_           5 QIAIDGPASSGKSTVAKIIAKDF   27 (223)
T ss_dssp             EEEEECSSCSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            68899999999999999999998

>d1ak2a1 c.37.1.1 (A:14-146,A:177-233) Adenylate kinase {Cow (Bos taurus), mitochondrial izozyme-2 [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Cow (Bos taurus), mitochondrial izozyme-2 [TaxId: 9913]

Probab=95.47  E-value=0.0037  Score=55.95  Aligned_cols=25  Identities=32%  Similarity=0.465  Sum_probs=21.5

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ++++| |.|++|+||||+|+.+++..
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            34566 78999999999999999887

>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=95.47  E-value=0.0054  Score=58.63  Aligned_cols=51  Identities=27%  Similarity=0.350  Sum_probs=37.2

Q ss_pred             HHHHHHHHhcCCCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEec
Q 038398          134 TFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVS  187 (720)
Q Consensus       134 ~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~  187 (720)
                      ++..+.+.+...+.++|.+.|-||+||||+|..+.....+ .+  ..+.-|...
T Consensus         7 ~~~~~~~~~~~~~~~iii~sGKGGVGKTT~a~nLA~~lA~-~G--~rVllvD~D   57 (279)
T d1ihua2           7 SLSALVDDIARNEHGLIMLMGKGGVGKTTMAAAIAVRLAD-MG--FDVHLTTSD   57 (279)
T ss_dssp             CHHHHHHHHHTTSCEEEEEECSTTSSHHHHHHHHHHHHHH-TT--CCEEEEESC
T ss_pred             cHHHHHHHhhcCCCEEEEEECCCCCCHHHHHHHHHHHHHH-CC--CcEEEEeCC
Confidence            3566777777788899999999999999998887766621 22  235555544

>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=95.38  E-value=0.0037  Score=55.87  Aligned_cols=24  Identities=25%  Similarity=0.396  Sum_probs=21.2

Q ss_pred             eEEEEEcCCCChHHHHHHHHHhhh
Q 038398          148 GIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      -.|.|.|++|+||||+|+.+++..
T Consensus         7 mrIiliG~PGSGKtT~a~~La~~~   30 (189)
T d2ak3a1           7 LRAAIMGAPGSGKGTVSSRITKHF   30 (189)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHB
T ss_pred             eeEEEECCCCCCHHHHHHHHHHHH
Confidence            456688999999999999999887

>d1s3ga1 c.37.1.1 (A:1-125,A:161-217) Adenylate kinase {Bacillus globisporus [TaxId: 1459]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Bacillus globisporus [TaxId: 1459]

Probab=95.34  E-value=0.0042  Score=55.15  Aligned_cols=23  Identities=39%  Similarity=0.482  Sum_probs=21.2

Q ss_pred             EEEEEcCCCChHHHHHHHHHhhh
Q 038398          149 IIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      .|.|.|++|+||||+|+.+++..
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            47789999999999999999987

>d2cdna1 c.37.1.1 (A:1-181) Adenylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=95.33  E-value=0.004  Score=55.24  Aligned_cols=23  Identities=39%  Similarity=0.462  Sum_probs=21.0

Q ss_pred             EEEEEcCCCChHHHHHHHHHhhh
Q 038398          149 IIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      .|.|.|++|+||||+|+.+++..
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            37788999999999999999887

>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=95.29  E-value=0.0088  Score=58.07  Aligned_cols=46  Identities=22%  Similarity=0.356  Sum_probs=37.3

Q ss_pred             CCCcCchHHHHHHHHHhc-------C-C-CceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          126 EPTVGLESTFDKVWRCLG-------E-E-QVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       126 ~~~vGr~~~~~~l~~~L~-------~-~-~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ..++|.+..++.|...+.       + + ...++.++|++|+|||.||+.++.-.
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            357899999998877662       1 2 34588899999999999999999876

>d1m7ga_ c.37.1.4 (A:) Adenosine-5'phosphosulfate kinase (APS kinase) {Fungus (Penicillium chrysogenum) [TaxId: 5076]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Adenosine-5'phosphosulfate kinase (APS kinase)
domain: Adenosine-5'phosphosulfate kinase (APS kinase)
species: Fungus (Penicillium chrysogenum) [TaxId: 5076]

Probab=95.26  E-value=0.007  Score=54.82  Aligned_cols=28  Identities=29%  Similarity=0.423  Sum_probs=24.3

Q ss_pred             CCCceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          144 EEQVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       144 ~~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      .....+|.+.|++|+||||+|+.+....
T Consensus        21 ~~kg~vIwltGlsGsGKTTia~~L~~~l   48 (208)
T d1m7ga_          21 NQRGLTIWLTGLSASGKSTLAVELEHQL   48 (208)
T ss_dssp             TSSCEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            3556799999999999999999998765

>d1lvga_ c.37.1.1 (A:) Guanylate kinase {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=95.25  E-value=0.0042  Score=55.56  Aligned_cols=23  Identities=39%  Similarity=0.514  Sum_probs=20.9

Q ss_pred             EEEEEcCCCChHHHHHHHHHhhh
Q 038398          149 IIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      .|.|+||+|+|||||++++.+..
T Consensus         2 pIvl~GPsGsGK~tl~~~L~~~~   24 (190)
T d1lvga_           2 PVVLSGPSGAGKSTLLKKLFQEH   24 (190)
T ss_dssp             CEEEECCTTSSHHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHhC
Confidence            37799999999999999998876

>d1gkya_ c.37.1.1 (A:) Guanylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=95.21  E-value=0.0045  Score=55.17  Aligned_cols=24  Identities=38%  Similarity=0.486  Sum_probs=21.6

Q ss_pred             eEEEEEcCCCChHHHHHHHHHhhh
Q 038398          148 GIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      +-|.|+|++|+|||||++.+.+..
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            347899999999999999999886

>d1znwa1 c.37.1.1 (A:20-201) Guanylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=95.12  E-value=0.0053  Score=54.42  Aligned_cols=24  Identities=25%  Similarity=0.506  Sum_probs=21.9

Q ss_pred             eEEEEEcCCCChHHHHHHHHHhhh
Q 038398          148 GIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ++|.|+|++|+|||||++.+.++.
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            578899999999999999998876

>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=95.01  E-value=0.0057  Score=54.12  Aligned_cols=22  Identities=27%  Similarity=0.459  Sum_probs=19.9

Q ss_pred             EEEEcCCCChHHHHHHHHHhhh
Q 038398          150 IGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       150 i~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      |.|.|++|+||||+|+.+++..
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            4577999999999999999887

>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=94.93  E-value=0.0096  Score=56.47  Aligned_cols=37  Identities=24%  Similarity=0.407  Sum_probs=28.2

Q ss_pred             eEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEec
Q 038398          148 GIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVS  187 (720)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~  187 (720)
                      +.|+|+|-||+||||+|..+.....  +..+ .+.-|...
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            6899999999999999999988873  2223 45556554

>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=94.92  E-value=0.0065  Score=53.63  Aligned_cols=23  Identities=35%  Similarity=0.193  Sum_probs=20.8

Q ss_pred             EEEEEcCCCChHHHHHHHHHhhh
Q 038398          149 IIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      .|.|.|++|+||||+|+.+++..
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

>d1kgda_ c.37.1.1 (A:) Guanylate kinase-like domain of Cask {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase-like domain of Cask
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.92  E-value=0.0072  Score=53.24  Aligned_cols=24  Identities=25%  Similarity=0.393  Sum_probs=21.8

Q ss_pred             eEEEEEcCCCChHHHHHHHHHhhh
Q 038398          148 GIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      +.|.|+||+|+|||||++++..+.
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            578899999999999999999775

>d1uf9a_ c.37.1.1 (A:) Dephospho-CoA kinase {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Dephospho-CoA kinase
species: Thermus thermophilus [TaxId: 274]

Probab=94.83  E-value=0.007  Score=54.07  Aligned_cols=22  Identities=36%  Similarity=0.466  Sum_probs=19.7

Q ss_pred             ceEEEEEcCCCChHHHHHHHHH
Q 038398          147 VGIIGLYGMGGVGKTTLLTKIN  168 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~  168 (720)
                      +-+|||.|+.|+||||+|+.+-
T Consensus         3 p~IIgitG~~gSGKstva~~l~   24 (191)
T d1uf9a_           3 PIIIGITGNIGSGKSTVAALLR   24 (191)
T ss_dssp             CEEEEEEECTTSCHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHH
Confidence            4689999999999999999773

>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=94.80  E-value=0.014  Score=56.55  Aligned_cols=37  Identities=22%  Similarity=0.360  Sum_probs=28.8

Q ss_pred             HHHHHHHhc--CCCceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          135 FDKVWRCLG--EEQVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       135 ~~~l~~~L~--~~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ..++.+.+.  ..+..+|+|.|++|+|||||..++....
T Consensus        37 ~~~~~~~~~~~~~~~~~igitG~pGaGKSTli~~l~~~~   75 (323)
T d2qm8a1          37 VRDLIDAVLPQTGRAIRVGITGVPGVGKSTTIDALGSLL   75 (323)
T ss_dssp             HHHHHHHHGGGCCCSEEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             HHHHHHHhhhccCCceEEeeeCCCCCCHHHHHHHHHHHH
Confidence            444555442  3467899999999999999999998765

>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=94.74  E-value=0.012  Score=56.69  Aligned_cols=46  Identities=22%  Similarity=0.272  Sum_probs=32.5

Q ss_pred             CCCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCH
Q 038398          144 EEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQL  192 (720)
Q Consensus       144 ~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~  192 (720)
                      ++.+++|.+.|-||+||||+|..++....+ .+  ..+.-|+.....++
T Consensus         5 ~~~p~~i~~sGKGGVGKTTvaa~lA~~lA~-~G--~rVLlvD~Dp~~~l   50 (296)
T d1ihua1           5 QNIPPYLFFTGKGGVGKTSISCATAIRLAE-QG--KRVLLVSTDPASNV   50 (296)
T ss_dssp             SSCCSEEEEECSTTSSHHHHHHHHHHHHHH-TT--CCEEEEECCTTCCH
T ss_pred             CCCCeEEEEECCCcChHHHHHHHHHHHHHH-CC--CCEEEEeCCCCCCH
Confidence            456789999999999999999888777632 11  24666665544443

>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=94.69  E-value=0.016  Score=54.61  Aligned_cols=35  Identities=20%  Similarity=0.120  Sum_probs=28.5

Q ss_pred             HHHHHhcC-CCceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          137 KVWRCLGE-EQVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       137 ~l~~~L~~-~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ++++.+.. ..-+.++|.|..|+|||+|+..+.+..
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 344789999999999999999998765

>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=94.63  E-value=0.013  Score=56.98  Aligned_cols=36  Identities=22%  Similarity=0.307  Sum_probs=28.0

Q ss_pred             HHHHHHhc--CCCceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          136 DKVWRCLG--EEQVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       136 ~~l~~~L~--~~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      .++...+.  .++..+|+|.|++|+|||||...+....
T Consensus        41 ~~ll~~~~~~~~~~~~IgitG~pGaGKSTLi~~l~~~~   78 (327)
T d2p67a1          41 TQLLDAIMPYCGNTLRLGVTGTPGAGKSTFLEAFGMLL   78 (327)
T ss_dssp             HHHHHHHGGGCSCSEEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             HHHHHHhhhccCCceEEEeeCCCCCCHHHHHHHHHHHH
Confidence            34444442  2467899999999999999999998776

>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=94.43  E-value=0.022  Score=52.77  Aligned_cols=40  Identities=23%  Similarity=0.226  Sum_probs=32.1

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecC
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSK  188 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~  188 (720)
                      .-.++.|+|++|+|||++|.+++...   ......++|++...
T Consensus        25 ~gsl~li~G~pGsGKT~l~~qia~~~---~~~~~~~~~is~e~   64 (242)
T d1tf7a2          25 KDSIILATGATGTGKTLLVSRFVENA---CANKERAILFAYEE   64 (242)
T ss_dssp             SSCEEEEEECTTSSHHHHHHHHHHHH---HTTTCCEEEEESSS
T ss_pred             CCeEEEEEeCCCCCHHHHHHHHHHHH---HHhccccceeeccC
Confidence            44799999999999999999999886   34556678887543

>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=94.39  E-value=0.027  Score=53.06  Aligned_cols=83  Identities=13%  Similarity=-0.008  Sum_probs=44.2

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHHHHHhCC-----CCCccCCCChhHHHH
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKIGRRIGF-----FDESWKNGSLEDKTS  220 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i~~~l~~-----~~~~~~~~~~~~~~~  220 (720)
                      .+-+|||.|..|+||||||..+.....+.......++.++...-+-..+-...+......     ..+....-+...+.+
T Consensus        26 ~P~iIGi~G~qGSGKSTl~~~l~~~L~~~~~~~~~v~~iS~DdfY~t~~~r~~L~~~~~~~pl~~~RG~PgThD~~ll~~  105 (286)
T d1odfa_          26 CPLFIFFSGPQGSGKSFTSIQIYNHLMEKYGGEKSIGYASIDDFYLTHEDQLKLNEQFKNNKLLQGRGLPGTHDMKLLQE  105 (286)
T ss_dssp             SCEEEEEECCTTSSHHHHHHHHHHHHHHHHGGGSCEEEEEGGGGBCCHHHHHHHHHHTTTCGGGSSSCSTTSBCHHHHHH
T ss_pred             CCEEEEeECCCCCCHHHHHHHHHHHHHHHhCCCcceEeeccCCCCCCHHHHHHHhhhccccccceecCCCcchhHHHHHH
Confidence            345899999999999999998876651100111245566655443333333444444311     111113345555555


Q ss_pred             HHHHHhcc
Q 038398          221 DILRILGK  228 (720)
Q Consensus       221 ~l~~~l~~  228 (720)
                      .+....++
T Consensus       106 ~l~~l~~~  113 (286)
T d1odfa_         106 VLNTIFNN  113 (286)
T ss_dssp             HHHHHTC-
T ss_pred             HHHHHHhh
Confidence            55555444

>d1um8a_ c.37.1.20 (A:) ClpX {Helicobacter pylori [TaxId: 210]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpX
species: Helicobacter pylori [TaxId: 210]

Probab=94.30  E-value=0.021  Score=56.41  Aligned_cols=45  Identities=24%  Similarity=0.203  Sum_probs=35.0

Q ss_pred             CCcCchHHHHHHHHHhc------------------------------CCCceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          127 PTVGLESTFDKVWRCLG------------------------------EEQVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       127 ~~vGr~~~~~~l~~~L~------------------------------~~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      .+||.++.++.+..++.                              ......+..+||.|+|||.||+.++...
T Consensus        18 ~ViGQd~Akkava~Avrn~~rR~~~~~~~r~~~~~~~~~~~~~~~~~~~p~~niLfiGPTGvGKTElAk~LA~~~   92 (364)
T d1um8a_          18 YVIGQEQAKKVFSVAVYNHYKRLSFKEKLKKQDNQDSNVELEHLEEVELSKSNILLIGPTGSGKTLMAQTLAKHL   92 (364)
T ss_dssp             TCCSCHHHHHHHHHHHHHHHHHHHHHHHHHHHCSHHHHHHHHHHHHTTCCCCCEEEECCTTSSHHHHHHHHHHHT
T ss_pred             eecChHHHHHHHHHHHHHHHHHHHHHHHhhccccccccccccccccccCCCcceeeeCCCCccHHHHHHHHHhhc
Confidence            46899998887765541                              1235668889999999999999998765

>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=94.05  E-value=0.051  Score=50.85  Aligned_cols=90  Identities=11%  Similarity=0.119  Sum_probs=51.8

Q ss_pred             eEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcC-CHHHHHHHHHHHhCCCCC----ccCCCCh-h-----
Q 038398          148 GIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDL-QLEKIQEKIGRRIGFFDE----SWKNGSL-E-----  216 (720)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~-~~~~~~~~i~~~l~~~~~----~~~~~~~-~-----  216 (720)
                      ..++|+|..|+|||+|+.......   ...-+.++++.+.... ...++.+++...=.....    ....... .     
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            568999999999999998865554   3445677888776643 333444444332111100    0011111 1     


Q ss_pred             HHHHHHHHHh--ccCcEEEEEecccc
Q 038398          217 DKTSDILRIL--GKKKFLLLLDDIWE  240 (720)
Q Consensus       217 ~~~~~l~~~l--~~k~~LlVlDdv~~  240 (720)
                      ...-.+.+++  +++++|+++||+-.
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            2223344444  46899999999843

>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=93.95  E-value=0.021  Score=52.93  Aligned_cols=23  Identities=39%  Similarity=0.551  Sum_probs=21.2

Q ss_pred             EEEEEcCCCChHHHHHHHHHhhh
Q 038398          149 IIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ||+|.|+.|+|||||..++.+..
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

>d1ny5a2 c.37.1.20 (A:138-384) Transcriptional activator sigm54 (NtrC1), C-terminal domain {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Transcriptional activator sigm54 (NtrC1), C-terminal domain
species: Aquifex aeolicus [TaxId: 63363]

Probab=93.94  E-value=0.031  Score=51.91  Aligned_cols=45  Identities=16%  Similarity=0.110  Sum_probs=34.7

Q ss_pred             CCcCchHHHHHHHHHhcC--CCceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          127 PTVGLESTFDKVWRCLGE--EQVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       127 ~~vGr~~~~~~l~~~L~~--~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      +|||....++++.+.+..  ....-|.|.|..|+|||++|+.+....
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            478888888888777643  222347899999999999999998754

>d1g2912 c.37.1.12 (1:1-240) Maltose transport protein MalK, N-terminal domain {Archaeon Thermococcus litoralis [TaxId: 2265]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Maltose transport protein MalK, N-terminal domain
species: Archaeon Thermococcus litoralis [TaxId: 2265]

Probab=93.94  E-value=0.014  Score=53.62  Aligned_cols=25  Identities=36%  Similarity=0.337  Sum_probs=21.9

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      -.+++|+|+.|+|||||++.++--.
T Consensus        29 Ge~~~liG~sGaGKSTll~~i~gl~   53 (240)
T d1g2912          29 GEFMILLGPSGCGKTTTLRMIAGLE   53 (240)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHTSS
T ss_pred             CCEEEEECCCCChHHHHHHHHhcCC
Confidence            3689999999999999999987643

>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=93.93  E-value=0.015  Score=52.42  Aligned_cols=24  Identities=17%  Similarity=0.278  Sum_probs=21.9

Q ss_pred             eEEEEEcCCCChHHHHHHHHHhhh
Q 038398          148 GIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      .+|.|+||+|+|||||++.+..+.
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            578899999999999999998876

>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=93.92  E-value=0.014  Score=53.21  Aligned_cols=25  Identities=32%  Similarity=0.377  Sum_probs=21.7

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      -.+++|+|+.|+|||||.+.+.--.
T Consensus        26 Gei~~liGpsGsGKSTLl~~i~Gl~   50 (232)
T d2awna2          26 GEFVVFVGPSGCGKSTLLRMIAGLE   50 (232)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             CCEEEEECCCCChHHHHHHHHhcCC
Confidence            4689999999999999999887543

>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=93.92  E-value=0.012  Score=53.75  Aligned_cols=25  Identities=28%  Similarity=0.460  Sum_probs=21.2

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhh
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNK  170 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~  170 (720)
                      .-.+++|+|+.|+|||||++.+.--
T Consensus        30 ~Ge~~~iiG~sGsGKSTLl~~i~gl   54 (230)
T d1l2ta_          30 EGEFVSIMGPSGSGKSTMLNIIGCL   54 (230)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTS
T ss_pred             CCCEEEEECCCCCCcchhhHhccCC
Confidence            3468999999999999999977653

>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=93.87  E-value=0.012  Score=52.64  Aligned_cols=26  Identities=31%  Similarity=0.230  Sum_probs=22.7

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      .+-+|+|-|..|+||||+|+.+.+..
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            45589999999999999999987765

>d1sgwa_ c.37.1.12 (A:) Putative ABC transporter PF0895 {Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Putative ABC transporter PF0895
species: Pyrococcus furiosus [TaxId: 2261]

Probab=93.81  E-value=0.011  Score=53.08  Aligned_cols=25  Identities=40%  Similarity=0.642  Sum_probs=22.2

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      -.+++|+|+.|+|||||.+.++.-.
T Consensus        27 Gei~~l~G~NGsGKSTLl~~i~gl~   51 (200)
T d1sgwa_          27 GNVVNFHGPNGIGKTTLLKTISTYL   51 (200)
T ss_dssp             TCCEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCChHHHHHHHHhccc
Confidence            4689999999999999999997654

>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=93.77  E-value=0.013  Score=53.82  Aligned_cols=25  Identities=36%  Similarity=0.485  Sum_probs=21.7

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      -.+++|+|+.|+|||||++.++--.
T Consensus        31 Ge~~~iiG~sGsGKSTLl~~i~Gl~   55 (240)
T d3dhwc1          31 GQIYGVIGASGAGKSTLIRCVNLLE   55 (240)
T ss_dssp             SCEEEEEESTTSSHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCCCHHHHHHHHcCCc
Confidence            3689999999999999999986543

>d1v43a3 c.37.1.12 (A:7-245) Hypothetical protein PH0022, N-terminal domain {Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Hypothetical protein PH0022, N-terminal domain
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=93.75  E-value=0.016  Score=53.11  Aligned_cols=26  Identities=35%  Similarity=0.355  Sum_probs=22.3

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      .-.+++|+|+.|+|||||++.+.--.
T Consensus        31 ~Ge~~~liGpsGaGKSTLl~~i~Gl~   56 (239)
T d1v43a3          31 DGEFLVLLGPSGCGKTTTLRMIAGLE   56 (239)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             CCCEEEEECCCCChHHHHHHHHHcCC
Confidence            34689999999999999999887654

>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=93.66  E-value=0.065  Score=49.66  Aligned_cols=49  Identities=24%  Similarity=0.371  Sum_probs=35.1

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhhcCC---CCCcCEEEEEEecCcCCHHHH
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKLLGA---PNVFDVVIWVVVSKDLQLEKI  195 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~---~~~f~~~~wv~v~~~~~~~~~  195 (720)
                      -+++.|.|++|+||||+|.++.......   ......++|+......+...+
T Consensus        36 G~~~li~G~pGsGKT~~~lq~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   87 (254)
T d1pzna2          36 QAITEVFGEFGSGKTQLAHTLAVMVQLPPEEGGLNGSVIWIDTENTFRPERI   87 (254)
T ss_dssp             SEEEEEEESTTSSHHHHHHHHHHHTTSCGGGTSCSCEEEEEESSSCCCHHHH
T ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHhhchHHhcCCCceEEEEeccchhHHHHH
Confidence            4799999999999999999998765211   122357788877766665443

>d1a7ja_ c.37.1.6 (A:) Phosphoribulokinase {Rhodobacter sphaeroides [TaxId: 1063]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Phosphoribulokinase
species: Rhodobacter sphaeroides [TaxId: 1063]

Probab=93.65  E-value=0.01  Score=55.98  Aligned_cols=26  Identities=23%  Similarity=0.418  Sum_probs=20.0

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      +..+|+|.|.+|+||||+|+.+.+.+
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            45799999999999999999887765

>d1r8sa_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARF1 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARF1 [TaxId: 9606]

Probab=93.61  E-value=0.017  Score=49.36  Aligned_cols=22  Identities=36%  Similarity=0.471  Sum_probs=19.4

Q ss_pred             EEEEcCCCChHHHHHHHHHhhh
Q 038398          150 IGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       150 i~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      |.|+|.+|+|||||..++..+.
T Consensus         3 ivlvG~~~vGKSsLi~~l~~~~   24 (160)
T d1r8sa_           3 ILMVGLDAAGKTTILYKLKLGE   24 (160)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHhcCC
Confidence            6799999999999999987654

>d2pmka1 c.37.1.12 (A:467-707) Haemolysin B ATP-binding protein {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Haemolysin B ATP-binding protein
species: Escherichia coli [TaxId: 562]

Probab=93.53  E-value=0.017  Score=53.27  Aligned_cols=25  Identities=36%  Similarity=0.513  Sum_probs=22.0

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      -..|+|+|+.|+|||||++.+..-.
T Consensus        29 Ge~vaIvG~sGsGKSTLl~ll~gl~   53 (241)
T d2pmka1          29 GEVIGIVGRSGSGKSTLTKLIQRFY   53 (241)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhcC
Confidence            3689999999999999999987654

>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=93.47  E-value=0.02  Score=54.86  Aligned_cols=39  Identities=26%  Similarity=0.322  Sum_probs=28.0

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecC
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSK  188 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~  188 (720)
                      .+.|+|.|-||+||||+|..+.....+ . .. .+.-|....
T Consensus         2 Mr~IaisgKGGVGKTT~a~NLA~~LA~-~-G~-rVLlID~Dp   40 (289)
T d2afhe1           2 MRQCAIYGKGGIGKSTTTQNLVAALAE-M-GK-KVMIVGCDP   40 (289)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHHHHH-T-TC-CEEEEEECS
T ss_pred             ccEEEEECCCCCCHHHHHHHHHHHHHH-C-CC-CEEEEecCC
Confidence            367889999999999999988776621 1 12 466666643

>d2onka1 c.37.1.12 (A:1-240) Molybdate/tungstate import ATP-binding protein WtpC (ModC) {Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Molybdate/tungstate import ATP-binding protein WtpC (ModC)
species: Archaeoglobus fulgidus [TaxId: 2234]

Probab=93.45  E-value=0.019  Score=52.47  Aligned_cols=24  Identities=29%  Similarity=0.386  Sum_probs=21.3

Q ss_pred             eEEEEEcCCCChHHHHHHHHHhhh
Q 038398          148 GIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      .+++|+|+.|+|||||++.++.-.
T Consensus        25 e~~~liGpnGaGKSTll~~i~Gl~   48 (240)
T d2onka1          25 DYCVLLGPTGAGKSVFLELIAGIV   48 (240)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEEECCCCChHHHHHHHHHcCC
Confidence            478899999999999999998754

>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=93.45  E-value=0.033  Score=48.49  Aligned_cols=35  Identities=26%  Similarity=0.613  Sum_probs=26.8

Q ss_pred             HHHHHHHhcCCCceEEEEEcCCCChHHHHHHHHHhh
Q 038398          135 FDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNK  170 (720)
Q Consensus       135 ~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~  170 (720)
                      ...+..++..... .|.|+|.+|+|||||+.++...
T Consensus         4 ~~~~~~~~~~k~~-kI~vvG~~~~GKSsLi~rl~~~   38 (177)
T d1zj6a1           4 FTRIWRLFNHQEH-KVIIVGLDNAGKTTILYQFSMN   38 (177)
T ss_dssp             HHHHHHHHTTSCE-EEEEEESTTSSHHHHHHHHHTT
T ss_pred             HHHHHHHhCCCeE-EEEEECCCCCCHHHHHHHHhcC
Confidence            3456666665554 4669999999999999998765

>d3b60a1 c.37.1.12 (A:329-581) Multidrug resistance ABC transporter MsbA, C-terminal domain {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Multidrug resistance ABC transporter MsbA, C-terminal domain
species: Salmonella typhimurium [TaxId: 90371]

Probab=93.43  E-value=0.018  Score=53.60  Aligned_cols=26  Identities=27%  Similarity=0.367  Sum_probs=22.1

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      .-.+++|+|+.|+|||||++.+..-.
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            34689999999999999999986543

>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=93.39  E-value=0.017  Score=52.59  Aligned_cols=26  Identities=27%  Similarity=0.250  Sum_probs=22.5

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      .-.+++|+|+.|+|||||++.+.--.
T Consensus        25 ~Ge~~~liGpsGaGKSTll~~l~Gl~   50 (229)
T d3d31a2          25 SGEYFVILGPTGAGKTLFLELIAGFH   50 (229)
T ss_dssp             TTCEEEEECCCTHHHHHHHHHHHTSS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhcCc
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=93.39  E-value=0.016  Score=53.95  Aligned_cols=25  Identities=36%  Similarity=0.492  Sum_probs=21.7

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhh
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNK  170 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~  170 (720)
                      .-.+++|+|+.|+|||||++.+.--
T Consensus        27 ~GEi~~iiG~sGsGKSTLl~~i~Gl   51 (258)
T d1b0ua_          27 AGDVISIIGSSGSGKSTFLRCINFL   51 (258)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTTS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHHcC
Confidence            3469999999999999999998653

>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=93.30  E-value=0.033  Score=50.25  Aligned_cols=24  Identities=33%  Similarity=0.430  Sum_probs=22.0

Q ss_pred             eEEEEEcCCCChHHHHHHHHHhhh
Q 038398          148 GIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ..|+|-|+.|+||||+|+.+.+..
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            578889999999999999999887

>d1mv5a_ c.37.1.12 (A:) Multidrug resistance ABC transporter LmrA, C-terminal domain {Lactococcus lactis [TaxId: 1358]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Multidrug resistance ABC transporter LmrA, C-terminal domain
species: Lactococcus lactis [TaxId: 1358]

Probab=93.25  E-value=0.021  Score=52.68  Aligned_cols=26  Identities=27%  Similarity=0.423  Sum_probs=22.1

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      .-..++|+|+.|+|||||++.+..-.
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            34799999999999999999986543

>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=93.24  E-value=0.033  Score=54.78  Aligned_cols=26  Identities=23%  Similarity=0.073  Sum_probs=23.9

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ..+.+.++||+|+|||++|+.+++..
T Consensus       153 ~~~~~~~~g~~~~gk~~~~~~~~~~~  178 (362)
T d1svma_         153 KKRYWLFKGPIDSGKTTLAAALLELC  178 (362)
T ss_dssp             TCCEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CcCeEEEECCCCCCHHHHHHHHHHHc
Confidence            45689999999999999999999988

>d1jj7a_ c.37.1.12 (A:) Peptide transporter Tap1, C-terminal ABC domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Peptide transporter Tap1, C-terminal ABC domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.20  E-value=0.02  Score=53.14  Aligned_cols=26  Identities=27%  Similarity=0.385  Sum_probs=22.3

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      .-.+++|+|+.|+|||||++.+..-.
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            34799999999999999999987544

>d1vhta_ c.37.1.1 (A:) Dephospho-CoA kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Dephospho-CoA kinase
species: Escherichia coli [TaxId: 562]

Probab=93.18  E-value=0.021  Score=51.62  Aligned_cols=20  Identities=35%  Similarity=0.486  Sum_probs=18.1

Q ss_pred             EEEEEcCCCChHHHHHHHHH
Q 038398          149 IIGLYGMGGVGKTTLLTKIN  168 (720)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~  168 (720)
                      +|||+|+.|+||||+|+.+-
T Consensus         5 iIgitG~igSGKStv~~~l~   24 (208)
T d1vhta_           5 IVALTGGIGSGKSTVANAFA   24 (208)
T ss_dssp             EEEEECCTTSCHHHHHHHHH
T ss_pred             EEEEECCCcCCHHHHHHHHH
Confidence            89999999999999998653

>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=93.16  E-value=0.021  Score=49.19  Aligned_cols=23  Identities=35%  Similarity=0.522  Sum_probs=20.2

Q ss_pred             EEEEEcCCCChHHHHHHHHHhhh
Q 038398          149 IIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      .|+|+|.+|+|||||..++..+.
T Consensus         7 kI~ivG~~~vGKSSLi~~~~~~~   29 (169)
T d1upta_           7 RILILGLDGAGKTTILYRLQVGE   29 (169)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            37899999999999999987764

>d1r0wa_ c.37.1.12 (A:) Cystic fibrosis transmembrane conductance regulator, CFTR, nucleotide-binding domain {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Cystic fibrosis transmembrane conductance regulator, CFTR, nucleotide-binding domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=93.15  E-value=0.021  Score=53.96  Aligned_cols=26  Identities=35%  Similarity=0.507  Sum_probs=22.8

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      .-.+++|+|+.|+|||||++.+..-.
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            34789999999999999999998655

>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=93.14  E-value=0.025  Score=52.32  Aligned_cols=26  Identities=19%  Similarity=0.267  Sum_probs=23.7

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      +++.|+|-|+-|+||||+++.+.+..
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            46789999999999999999999886

>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=93.01  E-value=0.049  Score=50.24  Aligned_cols=46  Identities=15%  Similarity=0.155  Sum_probs=32.8

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhhcCCCC----CcCEEEEEEecCcCCH
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKLLGAPN----VFDVVIWVVVSKDLQL  192 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~----~f~~~~wv~v~~~~~~  192 (720)
                      .-+++.|.|++|+||||+|.++.... ....    .-..++|+........
T Consensus        33 ~G~~~li~G~pGsGKT~l~lq~~~~~-~~~~~~~~~~~~~~~i~~~~~~~~   82 (251)
T d1szpa2          33 TGSITELFGEFRTGKSQLCHTLAVTC-QIPLDIGGGEGKCLYIDTEGTFRP   82 (251)
T ss_dssp             SSSEEEEEESTTSSHHHHHHHHTTTT-TSCTTTTCCSCEEEEEESSSCCCG
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHh-hhhhhhccCCceEEEEeecchHHH
Confidence            34699999999999999999987654 1111    2246788887666553

>d1jjva_ c.37.1.1 (A:) Dephospho-CoA kinase {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Dephospho-CoA kinase
species: Haemophilus influenzae [TaxId: 727]

Probab=92.88  E-value=0.024  Score=51.04  Aligned_cols=21  Identities=43%  Similarity=0.513  Sum_probs=18.6

Q ss_pred             eEEEEEcCCCChHHHHHHHHH
Q 038398          148 GIIGLYGMGGVGKTTLLTKIN  168 (720)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~  168 (720)
                      -+|||+|..|+||||+|+.+-
T Consensus         3 ~iIgITG~igSGKStv~~~l~   23 (205)
T d1jjva_           3 YIVGLTGGIGSGKTTIANLFT   23 (205)
T ss_dssp             EEEEEECSTTSCHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHH
Confidence            479999999999999998663

>d2a5ja1 c.37.1.8 (A:9-181) Rab2b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab2b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.86  E-value=0.025  Score=49.31  Aligned_cols=23  Identities=35%  Similarity=0.450  Sum_probs=19.7

Q ss_pred             EEEEEcCCCChHHHHHHHHHhhh
Q 038398          149 IIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      -|.|+|.+|+|||||+.++.+..
T Consensus         5 KivvvG~~~vGKTsli~r~~~~~   27 (173)
T d2a5ja1           5 KYIIIGDTGVGKSCLLLQFTDKR   27 (173)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHhcCC
Confidence            37799999999999999987653

>d1svia_ c.37.1.8 (A:) Probable GTPase EngB {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngB
species: Bacillus subtilis [TaxId: 1423]

Probab=92.84  E-value=0.028  Score=50.09  Aligned_cols=26  Identities=27%  Similarity=0.460  Sum_probs=22.5

Q ss_pred             CCceEEEEEcCCCChHHHHHHHHHhh
Q 038398          145 EQVGIIGLYGMGGVGKTTLLTKINNK  170 (720)
Q Consensus       145 ~~~~vi~I~G~gGiGKTtLa~~v~~~  170 (720)
                      ++.+.|+|+|.+|+|||||...+.+.
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            35568999999999999999999853

>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=92.76  E-value=0.019  Score=52.65  Aligned_cols=25  Identities=32%  Similarity=0.408  Sum_probs=22.0

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      -.+++|+|+.|+|||||++.+..-.
T Consensus        31 Ge~~~iiG~sGsGKSTll~~i~gl~   55 (242)
T d1oxxk2          31 GERFGILGPSGAGKTTFMRIIAGLD   55 (242)
T ss_dssp             TCEEEEECSCHHHHHHHHHHHHTSS
T ss_pred             CCEEEEECCCCCcHHHHHHHHHcCc
Confidence            3699999999999999999987643

>d1z06a1 c.37.1.8 (A:32-196) Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-33b
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=92.75  E-value=0.027  Score=48.55  Aligned_cols=23  Identities=30%  Similarity=0.251  Sum_probs=20.0

Q ss_pred             EEEEEcCCCChHHHHHHHHHhhh
Q 038398          149 IIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      -|.++|.+|+|||||+.++.+..
T Consensus         4 Kv~liG~~~vGKTsLl~~~~~~~   26 (165)
T d1z06a1           4 KIIVIGDSNVGKTCLTYRFCAGR   26 (165)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            37899999999999999998653

>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=92.73  E-value=0.031  Score=51.26  Aligned_cols=38  Identities=32%  Similarity=0.358  Sum_probs=29.2

Q ss_pred             ceEEEEE-cCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEec
Q 038398          147 VGIIGLY-GMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVS  187 (720)
Q Consensus       147 ~~vi~I~-G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~  187 (720)
                      .++|+|+ |-||+||||+|..++....   ..-..++.|...
T Consensus         1 ~kvIav~s~KGGvGKTtia~nlA~~la---~~g~~VlliD~D   39 (232)
T d1hyqa_           1 VRTITVASGKGGTGKTTITANLGVALA---QLGHDVTIVDAD   39 (232)
T ss_dssp             CEEEEEEESSSCSCHHHHHHHHHHHHH---HTTCCEEEEECC
T ss_pred             CEEEEEECCCCCChHHHHHHHHHHHHH---hCCCCEEEEeCC
Confidence            3788888 8999999999999888773   222357788764

>d1z0fa1 c.37.1.8 (A:8-173) Rab14 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab14
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.65  E-value=0.028  Score=48.57  Aligned_cols=22  Identities=36%  Similarity=0.463  Sum_probs=19.4

Q ss_pred             EEEEEcCCCChHHHHHHHHHhh
Q 038398          149 IIGLYGMGGVGKTTLLTKINNK  170 (720)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~  170 (720)
                      -|.|+|.+|+|||||+.++.+.
T Consensus         6 KivlvG~~~vGKTsli~~~~~~   27 (166)
T d1z0fa1           6 KYIIIGDMGVGKSCLLHQFTEK   27 (166)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3789999999999999998765

>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=92.63  E-value=0.22  Score=46.48  Aligned_cols=24  Identities=25%  Similarity=0.451  Sum_probs=20.7

Q ss_pred             eEEEEEcCCCChHHHHHHHHHhhh
Q 038398          148 GIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      .+..|+|.+|+||||||..++-..
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            577899999999999998887654

>d1z2aa1 c.37.1.8 (A:8-171) Rab23 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab23
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=92.61  E-value=0.028  Score=48.42  Aligned_cols=21  Identities=24%  Similarity=0.526  Sum_probs=18.8

Q ss_pred             EEEEcCCCChHHHHHHHHHhh
Q 038398          150 IGLYGMGGVGKTTLLTKINNK  170 (720)
Q Consensus       150 i~I~G~gGiGKTtLa~~v~~~  170 (720)
                      |.++|.+|+|||||+.++.+.
T Consensus         5 v~liG~~~vGKSsLi~rl~~~   25 (164)
T d1z2aa1           5 MVVVGNGAVGKSSMIQRYCKG   25 (164)
T ss_dssp             EEEECSTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            779999999999999988764

>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=92.40  E-value=0.11  Score=43.90  Aligned_cols=26  Identities=31%  Similarity=0.326  Sum_probs=23.4

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ...+|.+.|.=|+||||++|.+++..
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

>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=92.38  E-value=0.032  Score=50.85  Aligned_cols=26  Identities=42%  Similarity=0.535  Sum_probs=23.2

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      .++|..|.|+-|+|||||.+++....
T Consensus         2 ~iPv~iitGFLGaGKTTll~~lL~~~   27 (222)
T d1nija1           2 PIAVTLLTGFLGAGKTTLLRHILNEQ   27 (222)
T ss_dssp             CEEEEEEEESSSSSCHHHHHHHHHSC
T ss_pred             CCCEEEEeeCCCCCHHHHHHHHHhcC
Confidence            57899999999999999999998753

>d2erxa1 c.37.1.8 (A:6-176) di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: di-Ras2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.36  E-value=0.031  Score=48.52  Aligned_cols=22  Identities=32%  Similarity=0.761  Sum_probs=19.2

Q ss_pred             EEEEcCCCChHHHHHHHHHhhh
Q 038398          150 IGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       150 i~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      |.|+|.+|+|||||+.++....
T Consensus         5 i~viG~~~vGKTsLi~r~~~~~   26 (171)
T d2erxa1           5 VAVFGAGGVGKSSLVLRFVKGT   26 (171)
T ss_dssp             EEEECCTTSSHHHHHHHHHTCC
T ss_pred             EEEECCCCCCHHHHHHHHHhCC
Confidence            6789999999999999987653

>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=92.35  E-value=0.11  Score=47.99  Aligned_cols=48  Identities=15%  Similarity=0.124  Sum_probs=34.9

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhhcC---CCCCcCEEEEEEecCcCCHH
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKLLG---APNVFDVVIWVVVSKDLQLE  193 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~---~~~~f~~~~wv~v~~~~~~~  193 (720)
                      .-+++.|+|++|+|||++|.+++.....   ....+..+.|+.........
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            3469999999999999999999875421   12345678888776665543

>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=92.33  E-value=0.021  Score=52.88  Aligned_cols=25  Identities=20%  Similarity=0.290  Sum_probs=22.6

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      .+.|+|-|+-|+||||+|+.+.+..
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            4789999999999999999988776

>d1kaoa_ c.37.1.8 (A:) Rap2a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rap2a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.33  E-value=0.033  Score=48.11  Aligned_cols=23  Identities=30%  Similarity=0.498  Sum_probs=20.0

Q ss_pred             EEEEEcCCCChHHHHHHHHHhhh
Q 038398          149 IIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      -|.|+|.+|+|||||+.++.++.
T Consensus         5 Ki~lvG~~~vGKTsLi~r~~~~~   27 (167)
T d1kaoa_           5 KVVVLGSGGVGKSALTVQFVTGT   27 (167)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            47899999999999999988753

>d3raba_ c.37.1.8 (A:) Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab3a
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=92.29  E-value=0.033  Score=48.26  Aligned_cols=22  Identities=32%  Similarity=0.459  Sum_probs=19.4

Q ss_pred             EEEEEcCCCChHHHHHHHHHhh
Q 038398          149 IIGLYGMGGVGKTTLLTKINNK  170 (720)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~  170 (720)
                      -|.++|.+|+|||||+..+.+.
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

>d1gsia_ c.37.1.1 (A:) Thymidylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=92.28  E-value=0.036  Score=49.82  Aligned_cols=23  Identities=35%  Similarity=0.712  Sum_probs=21.2

Q ss_pred             EEEEEcCCCChHHHHHHHHHhhh
Q 038398          149 IIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      .|+|-|+-|+||||+++.+.+..
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            58899999999999999998876

>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=92.24  E-value=0.029  Score=51.60  Aligned_cols=25  Identities=40%  Similarity=0.539  Sum_probs=22.1

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      -.+++|+|+.|.|||||.+.+.--.
T Consensus        32 Gei~~liGpnGaGKSTl~~~i~Gl~   56 (240)
T d1ji0a_          32 GQIVTLIGANGAGKTTTLSAIAGLV   56 (240)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCCcHHHHHHHHhCCC
Confidence            3699999999999999999997654

>d1z08a1 c.37.1.8 (A:17-183) Rab21 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab21
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.23  E-value=0.034  Score=48.06  Aligned_cols=22  Identities=36%  Similarity=0.524  Sum_probs=19.3

Q ss_pred             EEEEEcCCCChHHHHHHHHHhh
Q 038398          149 IIGLYGMGGVGKTTLLTKINNK  170 (720)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~  170 (720)
                      -|.|+|.+|+|||||+.++...
T Consensus         5 KivlvG~~~vGKTsLi~r~~~~   26 (167)
T d1z08a1           5 KVVLLGEGCVGKTSLVLRYCEN   26 (167)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHC
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3789999999999999998764

>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=92.23  E-value=0.035  Score=48.19  Aligned_cols=22  Identities=36%  Similarity=0.531  Sum_probs=19.5

Q ss_pred             EEEEEcCCCChHHHHHHHHHhh
Q 038398          149 IIGLYGMGGVGKTTLLTKINNK  170 (720)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~  170 (720)
                      .|+|+|.+|+|||||+.++...
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

>d2atva1 c.37.1.8 (A:5-172) Ras-like estrogen-regulated growth inhibitor, RERG {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-like estrogen-regulated growth inhibitor, RERG
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.22  E-value=0.035  Score=48.06  Aligned_cols=22  Identities=32%  Similarity=0.705  Sum_probs=19.6

Q ss_pred             EEEEcCCCChHHHHHHHHHhhh
Q 038398          150 IGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       150 i~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      |.++|.+|+|||+|+..+.+..
T Consensus         5 i~lvG~~~vGKTsli~r~~~~~   26 (168)
T d2atva1           5 LAIFGRAGVGKSALVVRFLTKR   26 (168)
T ss_dssp             EEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCCCHHHHHHHHHhCC
Confidence            6789999999999999998754

>d2ew1a1 c.37.1.8 (A:4-174) Rab30 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab30
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.21  E-value=0.034  Score=48.27  Aligned_cols=23  Identities=43%  Similarity=0.609  Sum_probs=20.1

Q ss_pred             EEEEEcCCCChHHHHHHHHHhhh
Q 038398          149 IIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      -|.|+|.+|+|||||++++.+..
T Consensus         7 Ki~lvG~~~vGKTsLi~~l~~~~   29 (171)
T d2ew1a1           7 KIVLIGNAGVGKTCLVRRFTQGL   29 (171)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            47899999999999999988653

>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=92.20  E-value=0.034  Score=47.82  Aligned_cols=22  Identities=32%  Similarity=0.463  Sum_probs=19.3

Q ss_pred             EEEEcCCCChHHHHHHHHHhhh
Q 038398          150 IGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       150 i~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      |.|+|.+|+|||||+.++.+..
T Consensus         3 v~vvG~~~vGKTsLi~r~~~~~   24 (164)
T d1yzqa1           3 LVFLGEQSVGKTSLITRFMYDS   24 (164)
T ss_dssp             EEEEESTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            7789999999999999987643

>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=92.12  E-value=0.031  Score=51.28  Aligned_cols=26  Identities=42%  Similarity=0.579  Sum_probs=22.4

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      .-.+++|+|+.|+|||||.+.+..-.
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            34699999999999999999987654

>d1z0ja1 c.37.1.8 (A:2-168) Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-22a
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=92.11  E-value=0.036  Score=47.84  Aligned_cols=22  Identities=27%  Similarity=0.505  Sum_probs=19.4

Q ss_pred             EEEEcCCCChHHHHHHHHHhhh
Q 038398          150 IGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       150 i~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      |.|+|.+|+|||||+.++.+..
T Consensus         7 i~lvG~~~vGKTsli~rl~~~~   28 (167)
T d1z0ja1           7 VCLLGDTGVGKSSIMWRFVEDS   28 (167)
T ss_dssp             EEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            6789999999999999988654

>d2fn4a1 c.37.1.8 (A:24-196) r-Ras {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: r-Ras
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.04  E-value=0.037  Score=48.15  Aligned_cols=23  Identities=30%  Similarity=0.469  Sum_probs=19.9

Q ss_pred             EEEEEcCCCChHHHHHHHHHhhh
Q 038398          149 IIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      -|.|+|.+|+|||||+..+.+..
T Consensus         8 Kv~lvG~~~vGKTsLi~r~~~~~   30 (173)
T d2fn4a1           8 KLVVVGGGGVGKSALTIQFIQSY   30 (173)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            57799999999999999987653

>d1r2qa_ c.37.1.8 (A:) Rab5a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab5a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.00  E-value=0.037  Score=47.93  Aligned_cols=23  Identities=26%  Similarity=0.395  Sum_probs=19.8

Q ss_pred             EEEEEcCCCChHHHHHHHHHhhh
Q 038398          149 IIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      -|.|+|.+|+|||||+.++.+..
T Consensus         8 Ki~vvG~~~vGKTsLi~~l~~~~   30 (170)
T d1r2qa_           8 KLVLLGESAVGKSSLVLRFVKGQ   30 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            37899999999999999988553

>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=91.96  E-value=0.038  Score=47.90  Aligned_cols=22  Identities=32%  Similarity=0.486  Sum_probs=19.4

Q ss_pred             EEEEEcCCCChHHHHHHHHHhh
Q 038398          149 IIGLYGMGGVGKTTLLTKINNK  170 (720)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~  170 (720)
                      -|.|+|.+|+|||||..++..+
T Consensus         7 Ki~lvG~~~vGKTsLi~r~~~~   28 (171)
T d2erya1           7 RLVVVGGGGVGKSALTIQFIQS   28 (171)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            4788999999999999988765

>d2gjsa1 c.37.1.8 (A:91-258) Rad {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rad
species: Human (Homo sapiens) [TaxId: 9606]

Probab=91.93  E-value=0.037  Score=47.84  Aligned_cols=22  Identities=32%  Similarity=0.406  Sum_probs=18.9

Q ss_pred             EEEEcCCCChHHHHHHHHHhhh
Q 038398          150 IGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       150 i~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      |.|+|.+|+|||||++.+.+..
T Consensus         4 i~lvG~~~vGKTsLi~~~~~~~   25 (168)
T d2gjsa1           4 VLLLGAPGVGKSALARIFGGVE   25 (168)
T ss_dssp             EEEECCTTSSHHHHHHHHHTC-
T ss_pred             EEEECCCCcCHHHHHHHHhCCc
Confidence            7799999999999999987653

>d1ksha_ c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus musculus), ARL2 [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Mouse (Mus musculus), ARL2 [TaxId: 10090]

Probab=91.92  E-value=0.036  Score=47.71  Aligned_cols=23  Identities=35%  Similarity=0.524  Sum_probs=19.5

Q ss_pred             EEEEEcCCCChHHHHHHHHHhhh
Q 038398          149 IIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      -|.|+|.+|+|||||..++....
T Consensus         4 ki~ivG~~~~GKTsLi~~l~~~~   26 (165)
T d1ksha_           4 RLLMLGLDNAGKTTILKKFNGED   26 (165)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTCC
T ss_pred             EEEEECCCCCCHHHHHHHHcCCC
Confidence            37799999999999999986543

>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=91.92  E-value=0.083  Score=47.45  Aligned_cols=24  Identities=33%  Similarity=0.423  Sum_probs=21.8

Q ss_pred             eEEEEEcCCCChHHHHHHHHHhhh
Q 038398          148 GIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      +.|+|-|+.|+||||+++.+.+..
T Consensus         3 kfIviEG~dGsGKsT~~~~L~~~L   26 (210)
T d4tmka_           3 KYIVIEGLEGAGKTTARNVVVETL   26 (210)
T ss_dssp             CEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHH
Confidence            468899999999999999998876

>d1wf3a1 c.37.1.8 (A:3-180) GTPase Era, N-terminal domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Era, N-terminal domain
species: Thermus thermophilus [TaxId: 274]

Probab=91.92  E-value=0.042  Score=48.00  Aligned_cols=24  Identities=33%  Similarity=0.569  Sum_probs=21.7

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhh
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNK  170 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~  170 (720)
                      .+.|+|+|.+|+|||||+..+...
T Consensus         5 ~~~I~lvG~~~~GKSSLin~l~~~   28 (178)
T d1wf3a1           5 SGFVAIVGKPNVGKSTLLNNLLGV   28 (178)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHTS
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCC
Confidence            468999999999999999999865

>d1g6ha_ c.37.1.12 (A:) MJ1267 {Archaeon Methanococcus jannaschii [TaxId: 2190]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: MJ1267
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=91.91  E-value=0.033  Score=51.75  Aligned_cols=25  Identities=32%  Similarity=0.430  Sum_probs=22.1

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      -.+++|+|+.|+|||||++.+.--.
T Consensus        30 Gei~~liG~nGaGKSTLl~~i~Gl~   54 (254)
T d1g6ha_          30 GDVTLIIGPNGSGKSTLINVITGFL   54 (254)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCCcHHHHHHHHHCCC
Confidence            3689999999999999999997654

>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=91.89  E-value=0.039  Score=47.60  Aligned_cols=23  Identities=39%  Similarity=0.499  Sum_probs=19.9

Q ss_pred             EEEEEcCCCChHHHHHHHHHhhh
Q 038398          149 IIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      -|.|+|.+|+|||||+.++....
T Consensus         4 Ki~vvG~~~vGKTSli~~l~~~~   26 (166)
T d1g16a_           4 KILLIGDSGVGKSCLLVRFVEDK   26 (166)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHCC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            37899999999999999987653

>d1ky3a_ c.37.1.8 (A:) Rab-related protein ypt7p {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-related protein ypt7p
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=91.88  E-value=0.04  Score=47.96  Aligned_cols=22  Identities=36%  Similarity=0.572  Sum_probs=19.3

Q ss_pred             EEEEEcCCCChHHHHHHHHHhh
Q 038398          149 IIGLYGMGGVGKTTLLTKINNK  170 (720)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~  170 (720)
                      -|.|+|.+|+|||||+..+.+.
T Consensus         4 Ki~~vG~~~vGKSsLi~~~~~~   25 (175)
T d1ky3a_           4 KVIILGDSGVGKTSLMHRYVND   25 (175)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHcC
Confidence            3789999999999999998754

>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=91.86  E-value=0.087  Score=49.38  Aligned_cols=103  Identities=12%  Similarity=0.058  Sum_probs=54.1

Q ss_pred             HHHHHhcC-CCceEEEEEcCCCChHHHHHHHHHhhhcC----CCCC-cCEEEEEEecCcC-CHHHHHHHHHHHhCCCCC-
Q 038398          137 KVWRCLGE-EQVGIIGLYGMGGVGKTTLLTKINNKLLG----APNV-FDVVIWVVVSKDL-QLEKIQEKIGRRIGFFDE-  208 (720)
Q Consensus       137 ~l~~~L~~-~~~~vi~I~G~gGiGKTtLa~~v~~~~~~----~~~~-f~~~~wv~v~~~~-~~~~~~~~i~~~l~~~~~-  208 (720)
                      ++++.+.. ..-..++|.|.+|+|||+|+..+......    .... =..++++-++... ...++.+.+...-..... 
T Consensus        57 raID~l~pig~GQr~~If~~~g~GKt~ll~~~~~~~~~~~~~~~~~~~~~~v~~~IGer~~E~~e~~~~~~~~~~~~~tv  136 (285)
T d2jdia3          57 KAVDSLVPIGRGQRELIIGDRQTGKTSIAIDTIINQKRFNDGTDEKKKLYCIYVAIGQKRSTVAQLVKRLTDADAMKYTI  136 (285)
T ss_dssp             HHHHHHSCCBTTCBCEEEESTTSSHHHHHHHHHHHTHHHHTSSCTTTCCEEEEEEESCCHHHHHHHHHHHHHTTCGGGEE
T ss_pred             eEEecccCccCCCEEEeecCCCCChHHHHHHHHHhHHhhccccccccceEEEEeeeCccHHHHHHHHHHhcccccccceE
Confidence            34555543 23467899999999999999877654310    1111 1245666666543 345555555443211100 


Q ss_pred             ---ccCCCChhHH------HHHHHHHh--ccCcEEEEEeccc
Q 038398          209 ---SWKNGSLEDK------TSDILRIL--GKKKFLLLLDDIW  239 (720)
Q Consensus       209 ---~~~~~~~~~~------~~~l~~~l--~~k~~LlVlDdv~  239 (720)
                         ..........      .-.+.+++  +++.+|+++||+-
T Consensus       137 vv~~ts~~~~~~r~~~~~~a~tiAEyfrd~G~~VLll~Dslt  178 (285)
T d2jdia3         137 VVSATASDAAPLQYLAPYSGCSMGEYFRDNGKHALIIYDDLS  178 (285)
T ss_dssp             EEEECTTSCHHHHHHHHHHHHHHHHHHHHTTCEEEEEEETHH
T ss_pred             EEEECCCCCHHHHHHHHHHHHHHHHHHHHcCCcEEEEEcChH
Confidence               0011111111      11233333  5789999999984

>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=91.80  E-value=0.044  Score=47.82  Aligned_cols=24  Identities=42%  Similarity=0.668  Sum_probs=21.6

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhh
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNK  170 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~  170 (720)
                      +..|+|+|.+|+|||||..++.+.
T Consensus         5 ~~~I~iiG~~nvGKSSLin~L~~~   28 (179)
T d1egaa1           5 CGFIAIVGRPNVGKSTLLNKLLGQ   28 (179)
T ss_dssp             EEEEEEECSSSSSHHHHHHHHHTC
T ss_pred             ccEEEEECCCCCCHHHHHHHHhCC
Confidence            567999999999999999999864

>d2f7sa1 c.37.1.8 (A:5-190) Rab27b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab27b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=91.78  E-value=0.037  Score=48.74  Aligned_cols=22  Identities=36%  Similarity=0.508  Sum_probs=19.3

Q ss_pred             EEEEEcCCCChHHHHHHHHHhh
Q 038398          149 IIGLYGMGGVGKTTLLTKINNK  170 (720)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~  170 (720)
                      -|.|+|.+|+|||||+..+.+.
T Consensus         7 Ki~ivG~~~vGKTsLi~~l~~~   28 (186)
T d2f7sa1           7 KLLALGDSGVGKTTFLYRYTDN   28 (186)
T ss_dssp             EEEEESCTTSSHHHHHHHHHCS
T ss_pred             EEEEECCCCcCHHHHHHHHhcC
Confidence            3779999999999999998764

>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=91.77  E-value=0.047  Score=50.42  Aligned_cols=24  Identities=29%  Similarity=0.248  Sum_probs=21.8

Q ss_pred             eEEEEEcCCCChHHHHHHHHHhhh
Q 038398          148 GIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      .+|||.|..|+||||+|+.+.+..
T Consensus         2 ~iIgiTG~igSGKsTva~~l~e~~   25 (241)
T d1deka_           2 KLIFLSGVKRSGKDTTADFIMSNY   25 (241)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHHhC
Confidence            689999999999999999997764

>d1ctqa_ c.37.1.8 (A:) cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: cH-p21 Ras protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=91.75  E-value=0.041  Score=47.45  Aligned_cols=22  Identities=32%  Similarity=0.573  Sum_probs=19.5

Q ss_pred             EEEEcCCCChHHHHHHHHHhhh
Q 038398          150 IGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       150 i~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      |.|+|.+|+|||||+.++.+..
T Consensus         6 i~viG~~~vGKTsli~~l~~~~   27 (166)
T d1ctqa_           6 LVVVGAGGVGKSALTIQLIQNH   27 (166)
T ss_dssp             EEEEESTTSSHHHHHHHHHHCC
T ss_pred             EEEECCCCCCHHHHHHHHHhCC
Confidence            7889999999999999988753

>d1c1ya_ c.37.1.8 (A:) Rap1A {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rap1A
species: Human (Homo sapiens) [TaxId: 9606]

Probab=91.70  E-value=0.042  Score=47.42  Aligned_cols=22  Identities=32%  Similarity=0.613  Sum_probs=19.4

Q ss_pred             EEEEcCCCChHHHHHHHHHhhh
Q 038398          150 IGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       150 i~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      |.|+|.+|+|||+|+.++....
T Consensus         6 ivvvG~~~vGKTsli~r~~~~~   27 (167)
T d1c1ya_           6 LVVLGSGGVGKSALTVQFVQGI   27 (167)
T ss_dssp             EEEECSTTSSHHHHHHHHHHCC
T ss_pred             EEEECCCCCCHHHHHHHHHcCC
Confidence            7799999999999999987653

>d1xtqa1 c.37.1.8 (A:3-169) GTP-binding protein RheB {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein RheB
species: Human (Homo sapiens) [TaxId: 9606]

Probab=91.68  E-value=0.042  Score=47.38  Aligned_cols=23  Identities=26%  Similarity=0.413  Sum_probs=20.0

Q ss_pred             eEEEEEcCCCChHHHHHHHHHhh
Q 038398          148 GIIGLYGMGGVGKTTLLTKINNK  170 (720)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~  170 (720)
                      .-|.|+|.+|+|||||+..+.+.
T Consensus         5 ~Kv~liG~~~vGKTsLl~~~~~~   27 (167)
T d1xtqa1           5 RKIAILGYRSVGKSSLTIQFVEG   27 (167)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCcCHHHHHHHHHhC
Confidence            45889999999999999998764

>d2f9la1 c.37.1.8 (A:8-182) Rab11b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab11b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=91.62  E-value=0.043  Score=47.77  Aligned_cols=22  Identities=36%  Similarity=0.631  Sum_probs=19.6

Q ss_pred             EEEEEcCCCChHHHHHHHHHhh
Q 038398          149 IIGLYGMGGVGKTTLLTKINNK  170 (720)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~  170 (720)
                      -|.|+|..|+|||||+.++.+.
T Consensus         6 Ki~vvG~~~vGKTsLi~~~~~~   27 (175)
T d2f9la1           6 KVVLIGDSGVGKSNLLSRFTRN   27 (175)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4789999999999999998765

>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=91.56  E-value=0.044  Score=47.63  Aligned_cols=22  Identities=32%  Similarity=0.446  Sum_probs=19.3

Q ss_pred             EEEEEcCCCChHHHHHHHHHhh
Q 038398          149 IIGLYGMGGVGKTTLLTKINNK  170 (720)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~  170 (720)
                      -|.++|.+|+|||||+.++...
T Consensus         7 KI~lvG~~~vGKTsll~~~~~~   28 (174)
T d2bmea1           7 KFLVIGNAGTGKSCLLHQFIEK   28 (174)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3789999999999999988654

>d1f6ba_ c.37.1.8 (A:) SAR1 {Chinese hamster (Cricetulus griseus) [TaxId: 10029]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: SAR1
species: Chinese hamster (Cricetulus griseus) [TaxId: 10029]

Probab=91.55  E-value=0.06  Score=46.96  Aligned_cols=25  Identities=32%  Similarity=0.599  Sum_probs=20.4

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhh
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNK  170 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~  170 (720)
                      +...|.++|.+|+|||||..++...
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            3456789999999999999887544

>d1nrjb_ c.37.1.8 (B:) Signal recognition particle receptor beta-subunit {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Signal recognition particle receptor beta-subunit
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=91.50  E-value=0.048  Score=48.94  Aligned_cols=24  Identities=33%  Similarity=0.331  Sum_probs=21.3

Q ss_pred             eEEEEEcCCCChHHHHHHHHHhhh
Q 038398          148 GIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      +.|.|+|.+|+|||||..++.+..
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            578999999999999999998653

>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=91.43  E-value=0.046  Score=47.66  Aligned_cols=23  Identities=30%  Similarity=0.365  Sum_probs=19.7

Q ss_pred             EEEEEcCCCChHHHHHHHHHhhh
Q 038398          149 IIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      -|.|+|.+|+|||||+.++.+..
T Consensus         4 KivvvG~~~vGKTsLi~~~~~~~   26 (177)
T d1kmqa_           4 KLVIVGDGACGKTCLLIVNSKDQ   26 (177)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            46789999999999999987653

>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=91.41  E-value=0.05  Score=49.22  Aligned_cols=25  Identities=20%  Similarity=0.246  Sum_probs=22.3

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      -.++.|.|++|+|||++|.+++...
T Consensus        23 G~v~~i~G~~GsGKT~l~l~la~~~   47 (242)
T d1n0wa_          23 GSITEMFGEFRTGKTQICHTLAVTC   47 (242)
T ss_dssp             TSEEEEECCTTSSHHHHHHHHHHHT
T ss_pred             CEEEEEEeCCCCCHHHHHHHHHHHH
Confidence            3699999999999999999998765

>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=91.40  E-value=0.035  Score=50.79  Aligned_cols=23  Identities=39%  Similarity=0.626  Sum_probs=20.9

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHh
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINN  169 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~  169 (720)
                      -.+++|+|+.|+|||||.+.+..
T Consensus        25 Gei~~iiG~nGaGKSTLl~~l~G   47 (231)
T d1l7vc_          25 GEILHLVGPNGAGKSTLLARMAG   47 (231)
T ss_dssp             TCEEECBCCTTSSHHHHHHHHHT
T ss_pred             CCEEEEECCCCCcHHHHHHHHhC
Confidence            36899999999999999998876

>d2fh5b1 c.37.1.8 (B:63-269) Signal recognition particle receptor beta-subunit {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Signal recognition particle receptor beta-subunit
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=91.32  E-value=0.051  Score=48.75  Aligned_cols=24  Identities=21%  Similarity=0.302  Sum_probs=21.0

Q ss_pred             eEEEEEcCCCChHHHHHHHHHhhh
Q 038398          148 GIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      +.|.|+|.+|+|||||..++....
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

>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=91.26  E-value=0.054  Score=46.10  Aligned_cols=23  Identities=35%  Similarity=0.509  Sum_probs=20.1

Q ss_pred             EEEEEcCCCChHHHHHHHHHhhh
Q 038398          149 IIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      -|+++|.+|+|||||+..+....
T Consensus         2 KI~liG~~nvGKSSLln~l~~~~   24 (166)
T d2qtvb1           2 KLLFLGLDNAGKTTLLHMLKNDR   24 (166)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            47899999999999999987653

>d2hyda1 c.37.1.12 (A:324-578) Putative multidrug export ATP-binding/permease protein SAV1866 {Staphylococcus aureus [TaxId: 1280]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Putative multidrug export ATP-binding/permease protein SAV1866
species: Staphylococcus aureus [TaxId: 1280]

Probab=91.24  E-value=0.029  Score=52.01  Aligned_cols=26  Identities=31%  Similarity=0.450  Sum_probs=21.6

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      .-..++|+|+.|+|||||++.+..-.
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            34689999999999999999876443

>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=91.24  E-value=0.05  Score=47.77  Aligned_cols=23  Identities=35%  Similarity=0.400  Sum_probs=20.0

Q ss_pred             EEEEEcCCCChHHHHHHHHHhhh
Q 038398          149 IIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      -|.|+|.+|+|||||+.++..+.
T Consensus         7 KivviG~~~vGKTsli~~~~~~~   29 (183)
T d1mh1a_           7 KCVVVGDGAVGKTCLLISYTTNA   29 (183)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCCCHHHHHHHHHhCC
Confidence            47899999999999999987653

>d1ek0a_ c.37.1.8 (A:) Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ypt51
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=91.21  E-value=0.051  Score=47.00  Aligned_cols=23  Identities=22%  Similarity=0.374  Sum_probs=19.6

Q ss_pred             EEEEEcCCCChHHHHHHHHHhhh
Q 038398          149 IIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      -|.|+|.+|+|||||+.++....
T Consensus         5 Ki~vvG~~~vGKTsLi~~~~~~~   27 (170)
T d1ek0a_           5 KLVLLGEAAVGKSSIVLRFVSND   27 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            36789999999999999987653

>d2atxa1 c.37.1.8 (A:9-193) RhoQ {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoQ
species: Human (Homo sapiens) [TaxId: 9606]

Probab=91.19  E-value=0.051  Score=47.81  Aligned_cols=23  Identities=39%  Similarity=0.432  Sum_probs=19.9

Q ss_pred             EEEEEcCCCChHHHHHHHHHhhh
Q 038398          149 IIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      -|.|+|.+|+|||||+.++.++.
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

>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=91.09  E-value=0.049  Score=47.38  Aligned_cols=23  Identities=39%  Similarity=0.535  Sum_probs=19.6

Q ss_pred             eEEEEEcCCCChHHHHHHHHHhh
Q 038398          148 GIIGLYGMGGVGKTTLLTKINNK  170 (720)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~  170 (720)
                      --|.|+|.+|+|||||+.++...
T Consensus        17 ~kI~vvG~~~vGKSsLi~~l~~~   39 (176)
T d1fzqa_          17 VRILLLGLDNAGKTTLLKQLASE   39 (176)
T ss_dssp             EEEEEEESTTSSHHHHHHHHCCS
T ss_pred             EEEEEECCCCCCHHHHHHHHhcC
Confidence            45789999999999999988554

>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=91.05  E-value=0.084  Score=48.28  Aligned_cols=37  Identities=32%  Similarity=0.345  Sum_probs=28.1

Q ss_pred             eEEEEE-cCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEec
Q 038398          148 GIIGLY-GMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVS  187 (720)
Q Consensus       148 ~vi~I~-G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~  187 (720)
                      ++|+|+ +-||+||||+|..++....   ..-..++.|...
T Consensus         3 ~vIav~~~kGGvGKTtia~nLA~~la---~~g~~VlliD~D   40 (237)
T d1g3qa_           3 RIISIVSGKGGTGKTTVTANLSVALG---DRGRKVLAVDGD   40 (237)
T ss_dssp             EEEEEECSSTTSSHHHHHHHHHHHHH---HTTCCEEEEECC
T ss_pred             eEEEEECCCCCCcHHHHHHHHHHHHH---hCCCCEEEEeCC
Confidence            689999 7799999999999988773   222357777654

>d2bcgy1 c.37.1.8 (Y:3-196) GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Ytp1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=91.02  E-value=0.052  Score=48.16  Aligned_cols=23  Identities=35%  Similarity=0.550  Sum_probs=19.9

Q ss_pred             EEEEEcCCCChHHHHHHHHHhhh
Q 038398          149 IIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      -|.|+|.+|+|||||+..+....
T Consensus         8 KivvvG~~~vGKTsli~~l~~~~   30 (194)
T d2bcgy1           8 KLLLIGNSGVGKSCLLLRFSDDT   30 (194)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHCC
T ss_pred             EEEEECCCCcCHHHHHHHHhhCC
Confidence            37899999999999999988653

>d1g41a_ c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: HslU
species: Haemophilus influenzae [TaxId: 727]

Probab=91.01  E-value=0.12  Score=52.10  Aligned_cols=45  Identities=24%  Similarity=0.262  Sum_probs=34.4

Q ss_pred             CCcCchHHHHHHHHHhc--------CC------CceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          127 PTVGLESTFDKVWRCLG--------EE------QVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       127 ~~vGr~~~~~~l~~~L~--------~~------~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      .+||.++.++.+--++.        ++      ..+-|.++||.|+|||.||+.++...
T Consensus        15 yVvGQ~~AKk~lsvav~nhyrR~~~~~~~~~ei~ksNILliGPTGvGKTlLAr~LAk~l   73 (443)
T d1g41a_          15 HIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLA   73 (443)
T ss_dssp             TCCSCHHHHHHHHHHHHHHHHHHHSCTTTTTTCCCCCEEEECCTTSSHHHHHHHHHHHT
T ss_pred             cccCcHHHHHHHHHHHHHHHHHhhcccccccccccccEEEECCCCCCHHHHHHHHHHHh
Confidence            46898888877644441        11      24579999999999999999999876

>d2g6ba1 c.37.1.8 (A:58-227) Rab26 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab26
species: Human (Homo sapiens) [TaxId: 9606]

Probab=91.00  E-value=0.055  Score=46.79  Aligned_cols=22  Identities=41%  Similarity=0.603  Sum_probs=19.5

Q ss_pred             EEEEEcCCCChHHHHHHHHHhh
Q 038398          149 IIGLYGMGGVGKTTLLTKINNK  170 (720)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~  170 (720)
                      -|.|+|.+|+|||||+.++.+.
T Consensus         8 Ki~vvG~~~vGKTsli~~~~~~   29 (170)
T d2g6ba1           8 KVMLVGDSGVGKTCLLVRFKDG   29 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4889999999999999988764

>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=90.96  E-value=0.12  Score=50.51  Aligned_cols=65  Identities=18%  Similarity=0.123  Sum_probs=36.8

Q ss_pred             hHHHHHHHHHhcCCCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHH
Q 038398          132 ESTFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKI  199 (720)
Q Consensus       132 ~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i  199 (720)
                      +.....+...+.   .++..|.|++|.||||++..+.....+....-...+.+..........+.+.+
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            345555555553   36899999999999998876544331111222334566554443334444333

>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=90.76  E-value=0.06  Score=47.25  Aligned_cols=23  Identities=39%  Similarity=0.550  Sum_probs=19.8

Q ss_pred             EEEEEcCCCChHHHHHHHHHhhh
Q 038398          149 IIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      -|.|+|.+|+|||||+..+.+..
T Consensus         4 Kv~vvG~~~vGKSSLi~~l~~~~   26 (184)
T d1vg8a_           4 KVIILGDSGVGKTSLMNQYVNKK   26 (184)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            37799999999999999987643

>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=90.72  E-value=0.14  Score=46.97  Aligned_cols=25  Identities=24%  Similarity=0.363  Sum_probs=22.5

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      -.++.|.|.+|+|||++|..++...
T Consensus        34 G~l~~i~G~~G~GKT~~~l~~a~~~   58 (258)
T d2i1qa2          34 QSVTEFAGVFGSGKTQIMHQSCVNL   58 (258)
T ss_dssp             TEEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             CeEEEEEeCCCCCHHHHHHHHHHHH
Confidence            3799999999999999999998765

>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=90.69  E-value=0.061  Score=46.40  Aligned_cols=23  Identities=30%  Similarity=0.455  Sum_probs=19.8

Q ss_pred             eEEEEEcCCCChHHHHHHHHHhh
Q 038398          148 GIIGLYGMGGVGKTTLLTKINNK  170 (720)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~  170 (720)
                      --|.|+|.+|+|||||+.++.+.
T Consensus         5 ~KivlvG~~~vGKTsli~~~~~~   27 (168)
T d1u8za_           5 HKVIMVGSGGVGKSALTLQFMYD   27 (168)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCcCHHHHHHHHHhC
Confidence            35789999999999999998754

>d1zd9a1 c.37.1.8 (A:18-181) ADP-ribosylation factor {Human (Homo sapiens), ARL8A [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL8A [TaxId: 9606]

Probab=90.65  E-value=0.062  Score=46.10  Aligned_cols=23  Identities=30%  Similarity=0.358  Sum_probs=19.3

Q ss_pred             EEEEEcCCCChHHHHHHHHHhhh
Q 038398          149 IIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      -|.++|.+|+|||||..++....
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            36789999999999999886653

>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=90.54  E-value=0.063  Score=46.90  Aligned_cols=23  Identities=30%  Similarity=0.316  Sum_probs=19.8

Q ss_pred             EEEEEcCCCChHHHHHHHHHhhh
Q 038398          149 IIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      -|.++|..|+|||+|++.+.+..
T Consensus         4 KivliG~~~vGKTsli~r~~~~~   26 (179)
T d1m7ba_           4 KIVVVGDSQCGKTALLHVFAKDC   26 (179)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            36789999999999999888753

>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=90.52  E-value=0.11  Score=46.78  Aligned_cols=34  Identities=35%  Similarity=0.553  Sum_probs=26.5

Q ss_pred             HHHHHHHhcCCCceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          135 FDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       135 ~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ++++.++|..   ++..++|.+|+|||||..++..+.
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            5666666643   567889999999999999887654

>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=90.51  E-value=0.047  Score=47.72  Aligned_cols=21  Identities=33%  Similarity=0.664  Sum_probs=19.0

Q ss_pred             EEEEcCCCChHHHHHHHHHhh
Q 038398          150 IGLYGMGGVGKTTLLTKINNK  170 (720)
Q Consensus       150 i~I~G~gGiGKTtLa~~v~~~  170 (720)
                      |+|+|.+|+|||||+..+...
T Consensus         4 VaivG~~nvGKSTLin~L~~~   24 (180)
T d1udxa2           4 VGLVGYPNAGKSSLLAAMTRA   24 (180)
T ss_dssp             EEEECCGGGCHHHHHHHHCSS
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            899999999999999998653

>d1wmsa_ c.37.1.8 (A:) Rab9a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab9a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=90.48  E-value=0.066  Score=46.44  Aligned_cols=22  Identities=36%  Similarity=0.635  Sum_probs=19.2

Q ss_pred             EEEEEcCCCChHHHHHHHHHhh
Q 038398          149 IIGLYGMGGVGKTTLLTKINNK  170 (720)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~  170 (720)
                      -|.|+|.+|+|||||+.++.+.
T Consensus         8 KI~vvG~~~vGKSSli~~~~~~   29 (174)
T d1wmsa_           8 KVILLGDGGVGKSSLMNRYVTN   29 (174)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            3789999999999999888764

>d1svsa1 c.37.1.8 (A:32-60,A:182-347) Transducin (alpha subunit) {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=90.45  E-value=0.067  Score=47.18  Aligned_cols=23  Identities=26%  Similarity=0.400  Sum_probs=19.6

Q ss_pred             EEEEEcCCCChHHHHHHHHHhhh
Q 038398          149 IIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      -|.++|.+|+|||||++++....
T Consensus         4 KivllG~~~vGKTsl~~r~~~~~   26 (195)
T d1svsa1           4 KLLLLGAGESGKSTIVKQMKIIH   26 (195)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhhCC
Confidence            36799999999999999886654

>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=90.44  E-value=0.066  Score=46.63  Aligned_cols=22  Identities=36%  Similarity=0.634  Sum_probs=19.3

Q ss_pred             EEEEcCCCChHHHHHHHHHhhh
Q 038398          150 IGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       150 i~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      |.|+|.+|+|||||+.++.+..
T Consensus        10 i~vvG~~~vGKTsli~~l~~~~   31 (177)
T d1x3sa1          10 ILIIGESGVGKSSLLLRFTDDT   31 (177)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            7899999999999999887643

>d2g3ya1 c.37.1.8 (A:73-244) GTP-binding protein GEM {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein GEM
species: Human (Homo sapiens) [TaxId: 9606]

Probab=90.40  E-value=0.067  Score=46.34  Aligned_cols=22  Identities=36%  Similarity=0.436  Sum_probs=19.2

Q ss_pred             EEEEEcCCCChHHHHHHHHHhh
Q 038398          149 IIGLYGMGGVGKTTLLTKINNK  170 (720)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~  170 (720)
                      -|.++|.+|+|||||+..+...
T Consensus         5 Kv~lvG~~~vGKTsLi~~~~~~   26 (172)
T d2g3ya1           5 RVVLIGEQGVGKSTLANIFAGV   26 (172)
T ss_dssp             EEEEECCTTSSHHHHHHHHHCC
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4779999999999999988754

>d1x1ra1 c.37.1.8 (A:10-178) Ras-related protein M-Ras (XRas) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-related protein M-Ras (XRas)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=90.33  E-value=0.07  Score=46.07  Aligned_cols=23  Identities=35%  Similarity=0.557  Sum_probs=19.7

Q ss_pred             EEEEEcCCCChHHHHHHHHHhhh
Q 038398          149 IIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      -|.++|.+|+|||||+..+.++.
T Consensus         6 Ki~lvG~~~vGKTsll~~~~~~~   28 (169)
T d1x1ra1           6 KLVVVGDGGVGKSALTIQFFQKI   28 (169)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            36788999999999999988753

>d2cxxa1 c.37.1.8 (A:2-185) GTP-binding protein engB {Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein engB
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=90.24  E-value=0.059  Score=47.17  Aligned_cols=23  Identities=35%  Similarity=0.494  Sum_probs=20.4

Q ss_pred             EEEEEcCCCChHHHHHHHHHhhh
Q 038398          149 IIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      .|+|+|.+|+|||||..++....
T Consensus         2 ~I~lvG~~nvGKSsLin~l~~~~   24 (184)
T d2cxxa1           2 TIIFAGRSNVGKSTLIYRLTGKK   24 (184)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHSCC
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            58999999999999999998653

>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=90.22  E-value=0.069  Score=47.18  Aligned_cols=23  Identities=35%  Similarity=0.387  Sum_probs=19.5

Q ss_pred             EEEEEcCCCChHHHHHHHHHhhh
Q 038398          149 IIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      -|.++|.+|+|||+|+.++.+..
T Consensus         5 KvvllG~~~vGKTSli~r~~~~~   27 (191)
T d2ngra_           5 KCVVVGDGAVGKTCLLISYTTNK   27 (191)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            36789999999999999887654

>d1zcba2 c.37.1.8 (A:47-75,A:202-372) Transducin (alpha subunit) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=90.16  E-value=0.065  Score=47.59  Aligned_cols=19  Identities=42%  Similarity=0.634  Sum_probs=17.4

Q ss_pred             EEEEEcCCCChHHHHHHHH
Q 038398          149 IIGLYGMGGVGKTTLLTKI  167 (720)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v  167 (720)
                      -|.|+|.+|+|||||+.++
T Consensus         4 KivllG~~~vGKTsll~r~   22 (200)
T d1zcba2           4 KILLLGAGESGKSTFLKQM   22 (200)
T ss_dssp             EEEEECSTTSSHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            4679999999999999988

>d2bmja1 c.37.1.8 (A:66-240) Centaurin gamma 1, G domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Centaurin gamma 1, G domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=90.11  E-value=0.076  Score=46.17  Aligned_cols=23  Identities=22%  Similarity=0.410  Sum_probs=20.2

Q ss_pred             EEEEEcCCCChHHHHHHHHHhhh
Q 038398          149 IIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      -|.|+|.+|+|||||+..+.+..
T Consensus         7 ki~vlG~~~vGKTsLi~~~~~~~   29 (175)
T d2bmja1           7 RLGVLGDARSGKSSLIHRFLTGS   29 (175)
T ss_dssp             EEEEECCTTTTHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHHhCC
Confidence            47899999999999999887754

>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=90.07  E-value=0.091  Score=47.35  Aligned_cols=24  Identities=33%  Similarity=0.409  Sum_probs=22.5

Q ss_pred             eEEEEEcCCCChHHHHHHHHHhhh
Q 038398          148 GIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ..|+|-|+-|+||||+++.+.+..
T Consensus         4 k~I~iEG~DGsGKST~~~~L~~~L   27 (214)
T d1tmka_           4 KLILIEGLDRTGKTTQCNILYKKL   27 (214)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             EEEEEECCCCCcHHHHHHHHHHHH
Confidence            679999999999999999999887

>d2gj8a1 c.37.1.8 (A:216-376) Probable tRNA modification GTPase TrmE (MnmE), G domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable tRNA modification GTPase TrmE (MnmE), G domain
species: Escherichia coli [TaxId: 562]

Probab=89.96  E-value=0.074  Score=45.32  Aligned_cols=22  Identities=23%  Similarity=0.434  Sum_probs=19.3

Q ss_pred             EEEEEcCCCChHHHHHHHHHhh
Q 038398          149 IIGLYGMGGVGKTTLLTKINNK  170 (720)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~  170 (720)
                      -|+|+|.+|+|||||..++...
T Consensus         3 kI~lvG~~nvGKSsLin~l~~~   24 (161)
T d2gj8a1           3 KVVIAGRPNAGKSSLLNALAGR   24 (161)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            3679999999999999999754

>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=89.96  E-value=0.055  Score=47.49  Aligned_cols=22  Identities=41%  Similarity=0.687  Sum_probs=19.3

Q ss_pred             EEEEEcCCCChHHHHHHHHHhh
Q 038398          149 IIGLYGMGGVGKTTLLTKINNK  170 (720)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~  170 (720)
                      -|+|+|.+|+|||||..++...
T Consensus         3 ~VaiiG~~nvGKSSLin~L~~~   24 (185)
T d1lnza2           3 DVGLVGFPSVGKSTLLSVVSSA   24 (185)
T ss_dssp             CEEEESSTTSSHHHHHHHSEEE
T ss_pred             eEEEECCCCCCHHHHHHHHhCC
Confidence            4899999999999999988643

>d1i2ma_ c.37.1.8 (A:) Ran {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ran
species: Human (Homo sapiens) [TaxId: 9606]

Probab=89.92  E-value=0.042  Score=47.63  Aligned_cols=22  Identities=36%  Similarity=0.496  Sum_probs=17.5

Q ss_pred             EEEEEcCCCChHHHHHHHHHhh
Q 038398          149 IIGLYGMGGVGKTTLLTKINNK  170 (720)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~  170 (720)
                      -|.|+|.+|+|||||+.++.+.
T Consensus         5 Ki~vvG~~~vGKTsli~~~~~~   26 (170)
T d1i2ma_           5 KLVLVGDGGTGKTTFVKRHLTG   26 (170)
T ss_dssp             EEEEEECTTSSHHHHHHTTC--
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3778999999999999877554

>d1e0sa_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARF6 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARF6 [TaxId: 9606]

Probab=89.77  E-value=0.072  Score=46.15  Aligned_cols=26  Identities=31%  Similarity=0.473  Sum_probs=20.6

Q ss_pred             CCceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          145 EQVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       145 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ...+ |.++|.+|+|||||..++.+..
T Consensus        11 k~~k-IvlvG~~~vGKTSli~rl~~~~   36 (173)
T d1e0sa_          11 KEMR-ILMLGLDAAGKTTILYKLKLGQ   36 (173)
T ss_dssp             CCEE-EEEEEETTSSHHHHHHHTTCCC
T ss_pred             CeEE-EEEECCCCCCHHHHHHHHhcCC
Confidence            3444 6689999999999999986543

>d2bcjq2 c.37.1.8 (Q:38-66,Q:184-354) Transducin (alpha subunit) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=89.77  E-value=0.081  Score=46.83  Aligned_cols=23  Identities=26%  Similarity=0.397  Sum_probs=19.7

Q ss_pred             EEEEEcCCCChHHHHHHHHHhhh
Q 038398          149 IIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      -|.++|.+|+|||||..++....
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

>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=89.50  E-value=0.11  Score=44.76  Aligned_cols=23  Identities=22%  Similarity=0.252  Sum_probs=20.3

Q ss_pred             eEEEEEcCCCChHHHHHHHHHhh
Q 038398          148 GIIGLYGMGGVGKTTLLTKINNK  170 (720)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~  170 (720)
                      .-|.|.|.+|+||||+|..+..+
T Consensus        15 ~gvl~~G~sG~GKStlal~l~~~   37 (176)
T d1kkma_          15 LGVLITGDSGVGKSETALELVQR   37 (176)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHT
T ss_pred             EEEEEEeCCCCCHHHHHHHHHHc
Confidence            56889999999999999988765

>d1mkya2 c.37.1.8 (A:173-358) Probable GTPase Der, N-terminal and middle domains {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase Der, N-terminal and middle domains
species: Thermotoga maritima [TaxId: 2336]

Probab=89.40  E-value=0.085  Score=46.20  Aligned_cols=22  Identities=41%  Similarity=0.579  Sum_probs=19.7

Q ss_pred             EEEEEcCCCChHHHHHHHHHhh
Q 038398          149 IIGLYGMGGVGKTTLLTKINNK  170 (720)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~  170 (720)
                      .|+|+|.+|+|||||..++...
T Consensus        10 kV~iiG~~~~GKSTLin~l~~~   31 (186)
T d1mkya2          10 KVAIVGRPNVGKSTLFNAILNK   31 (186)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCCCHHHHHHHHHCC
Confidence            4899999999999999998864

>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=88.77  E-value=0.069  Score=46.68  Aligned_cols=24  Identities=33%  Similarity=0.480  Sum_probs=19.4

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHh
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINN  169 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~  169 (720)
                      ..--|.++|.+|+|||||..++..
T Consensus        16 k~~KI~lvG~~~vGKTsLi~~l~~   39 (182)
T d1moza_          16 KELRILILGLDGAGKTTILYRLQI   39 (182)
T ss_dssp             SCEEEEEEEETTSSHHHHHHHTCC
T ss_pred             ceEEEEEECCCCCCHHHHHHHHhc
Confidence            334567999999999999998743

>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=88.77  E-value=0.12  Score=44.40  Aligned_cols=23  Identities=30%  Similarity=0.330  Sum_probs=20.0

Q ss_pred             eEEEEEcCCCChHHHHHHHHHhh
Q 038398          148 GIIGLYGMGGVGKTTLLTKINNK  170 (720)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~  170 (720)
                      .-|.|.|++|+||||+|..+..+
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            56789999999999999988764

>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=88.66  E-value=0.065  Score=46.44  Aligned_cols=22  Identities=36%  Similarity=0.531  Sum_probs=8.7

Q ss_pred             EEEEEcCCCChHHHHHHHHHhh
Q 038398          149 IIGLYGMGGVGKTTLLTKINNK  170 (720)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~  170 (720)
                      -|.|+|.+|+|||||+.++...
T Consensus         8 Ki~vvG~~~vGKTsLi~~l~~~   29 (173)
T d2fu5c1           8 KLLLIGDSGVGKTCVLFRFSED   29 (173)
T ss_dssp             EEEEECCCCC------------
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3779999999999999877654

>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=88.60  E-value=0.078  Score=46.32  Aligned_cols=25  Identities=20%  Similarity=0.331  Sum_probs=21.2

Q ss_pred             CCceEEEEEcCCCChHHHHHHHHHh
Q 038398          145 EQVGIIGLYGMGGVGKTTLLTKINN  169 (720)
Q Consensus       145 ~~~~vi~I~G~gGiGKTtLa~~v~~  169 (720)
                      ++...|+|+|.+++|||||..++..
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            3457799999999999999988754

>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=88.42  E-value=0.12  Score=44.14  Aligned_cols=24  Identities=17%  Similarity=0.185  Sum_probs=20.6

Q ss_pred             eEEEEEcCCCChHHHHHHHHHhhh
Q 038398          148 GIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      .-|.|.|.+|+||||+|-.+..+-
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            568899999999999998887653

>d1azta2 c.37.1.8 (A:35-65,A:202-391) Transducin (alpha subunit) {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Cow (Bos taurus) [TaxId: 9913]

Probab=88.02  E-value=0.12  Score=46.80  Aligned_cols=23  Identities=26%  Similarity=0.395  Sum_probs=19.6

Q ss_pred             eEEEEEcCCCChHHHHHHHHHhh
Q 038398          148 GIIGLYGMGGVGKTTLLTKINNK  170 (720)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~  170 (720)
                      .-|.++|.+|+|||||++++...
T Consensus         7 ~KilllG~~~vGKTsll~~~~~~   29 (221)
T d1azta2           7 HRLLLLGAGESGKSTIVKQMRIL   29 (221)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhcC
Confidence            45789999999999999988644

>d1p9ra_ c.37.1.11 (A:) Extracellular secretion NTPase EpsE {Vibrio cholerae [TaxId: 666]}

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: Extracellular secretion NTPase EpsE
species: Vibrio cholerae [TaxId: 666]

Probab=87.93  E-value=0.45  Score=47.15  Aligned_cols=100  Identities=18%  Similarity=0.187  Sum_probs=59.8

Q ss_pred             cCchHHHHHHHHHhcCCCceEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCH--HHHHHHHHHHhCCC
Q 038398          129 VGLESTFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQL--EKIQEKIGRRIGFF  206 (720)
Q Consensus       129 vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~--~~~~~~i~~~l~~~  206 (720)
                      .|.....-+.+..+.....++|.|.|+.|+||||.+..+.+....   .-..+  +++.+....  ..+     .+..  
T Consensus       140 LG~~~~~~~~l~~l~~~~~GliLvtGpTGSGKSTTl~~~l~~~~~---~~~~i--~tiEdPiE~~~~~~-----~q~~--  207 (401)
T d1p9ra_         140 LGMTAHNHDNFRRLIKRPHGIILVTGPTGSGKSTTLYAGLQELNS---SERNI--LTVEDPIEFDIDGI-----GQTQ--  207 (401)
T ss_dssp             SCCCHHHHHHHHHHHTSSSEEEEEECSTTSCHHHHHHHHHHHHCC---TTSCE--EEEESSCCSCCSSS-----EEEE--
T ss_pred             hcccHHHHHHHHHHHhhhhceEEEEcCCCCCccHHHHHHhhhhcC---CCceE--EEeccCcccccCCC-----Ceee--
Confidence            466554444444455556689999999999999999998887621   11222  333332211  000     0000  


Q ss_pred             CCccCCCChhHHHHHHHHHhccCcEEEEEeccccccc
Q 038398          207 DESWKNGSLEDKTSDILRILGKKKFLLLLDDIWERVD  243 (720)
Q Consensus       207 ~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~  243 (720)
                         ............++..++..+=+|++.++.+.+.
T Consensus       208 ---v~~~~~~~~~~~l~~~lR~dPDvi~igEiRd~~t  241 (401)
T d1p9ra_         208 ---VNPRVDMTFARGLRAILRQDPDVVMVGEIRDLET  241 (401)
T ss_dssp             ---CBGGGTBCHHHHHHHHGGGCCSEEEESCCCSHHH
T ss_pred             ---ecCCcCCCHHHHHHHHHhhcCCEEEecCcCChHH
Confidence               0111223456778888888888999999987543

>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=87.71  E-value=0.18  Score=45.29  Aligned_cols=24  Identities=21%  Similarity=0.088  Sum_probs=21.4

Q ss_pred             eEEEEEcCC-CChHHHHHHHHHhhh
Q 038398          148 GIIGLYGMG-GVGKTTLLTKINNKL  171 (720)
Q Consensus       148 ~vi~I~G~g-GiGKTtLa~~v~~~~  171 (720)
                      +.+.|.|-| |+||||++..++...
T Consensus         2 ~~~~i~gt~~GVGKTtvs~~La~aL   26 (224)
T d1byia_           2 KRYFVTGTDTEVGKTVASCALLQAA   26 (224)
T ss_dssp             EEEEEEESSTTSCHHHHHHHHHHHH
T ss_pred             ceEEEEECCCCccHHHHHHHHHHHH
Confidence            568899998 999999999888877

>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=87.64  E-value=0.059  Score=45.93  Aligned_cols=23  Identities=35%  Similarity=0.460  Sum_probs=20.1

Q ss_pred             EEEEEcCCCChHHHHHHHHHhhh
Q 038398          149 IIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      -|+++|.+|+|||||+.++....
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            37899999999999999997653

>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=87.63  E-value=0.14  Score=47.81  Aligned_cols=26  Identities=27%  Similarity=0.215  Sum_probs=23.1

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      +.|-|+|+|.+|.|||||+.++....
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            56889999999999999999987665

>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=87.32  E-value=0.37  Score=44.96  Aligned_cols=53  Identities=15%  Similarity=0.088  Sum_probs=35.1

Q ss_pred             eEEEEEcCCCChHHHHHHHHHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHHHHHhC
Q 038398          148 GIIGLYGMGGVGKTTLLTKINNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKIGRRIG  204 (720)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i~~~l~  204 (720)
                      .++.|.|.+|+||||+|..+..+.. ....+ .++|++.  ..+..++...++....
T Consensus        36 ~l~vi~G~~G~GKT~~~~~la~~~a-~~~g~-~v~~~s~--E~~~~~~~~r~~~~~~   88 (277)
T d1cr2a_          36 EVIMVTSGSGMGKSTFVRQQALQWG-TAMGK-KVGLAML--EESVEETAEDLIGLHN   88 (277)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHHH-HTSCC-CEEEEES--SSCHHHHHHHHHHHHT
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHhhh-hhccc-ceeEeee--ccchhhHHhHHHHHhh
Confidence            5788999999999999998876541 12222 4555544  4556666666665543

>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=87.15  E-value=0.25  Score=47.47  Aligned_cols=25  Identities=28%  Similarity=0.271  Sum_probs=22.3

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      +-.|.|=|+-|+||||+++.+.+..
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            3568889999999999999999987

>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=87.06  E-value=0.15  Score=46.34  Aligned_cols=24  Identities=21%  Similarity=0.117  Sum_probs=20.2

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHh
Q 038398          146 QVGIIGLYGMGGVGKTTLLTKINN  169 (720)
Q Consensus       146 ~~~vi~I~G~gGiGKTtLa~~v~~  169 (720)
                      .-.++.|.|.+|+|||++|.+++.
T Consensus        25 ~G~~~~I~G~~G~GKT~la~~~~~   48 (242)
T d1tf7a1          25 IGRSTLVSGTSGTGKTLFSIQFLY   48 (242)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHH
T ss_pred             CCeEEEEEeCCCCCHHHHHHHHHH
Confidence            347899999999999999987644

>d2dy1a2 c.37.1.8 (A:8-274) Elongation factor G (EF-G), N-terminal (G) domain {Thermus thermophilus, EF-G-2 [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor G (EF-G), N-terminal (G) domain
species: Thermus thermophilus, EF-G-2 [TaxId: 274]

Probab=85.90  E-value=0.22  Score=46.23  Aligned_cols=24  Identities=38%  Similarity=0.529  Sum_probs=21.0

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhh
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNK  170 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~  170 (720)
                      .|.|+|+|..|.|||||+.++...
T Consensus         2 iRNv~iiGh~~~GKTtL~e~ll~~   25 (267)
T d2dy1a2           2 IRTVALVGHAGSGKTTLTEALLYK   25 (267)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHH
T ss_pred             eeEEEEEcCCCCcHHHHHHHHHHH
Confidence            478999999999999999988543

>d1h65a_ c.37.1.8 (A:) Chloroplast protein translocon GTPase Toc34 {Garden pea (Pisum sativum) [TaxId: 3888]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Chloroplast protein translocon GTPase Toc34
species: Garden pea (Pisum sativum) [TaxId: 3888]

Probab=85.29  E-value=0.33  Score=44.87  Aligned_cols=39  Identities=26%  Similarity=0.339  Sum_probs=28.0

Q ss_pred             HHHHHHHHHhcCC--CceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          133 STFDKVWRCLGEE--QVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       133 ~~~~~l~~~L~~~--~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ..+.++...+.+.  ..-.|.|+|.+|+|||||...++.+.
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            3444555555432  34568899999999999999998653

>d1osna_ c.37.1.1 (A:) Thymidine kinase {Varicella-zoster virus [TaxId: 10335]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidine kinase
species: Varicella-zoster virus [TaxId: 10335]

Probab=84.26  E-value=0.31  Score=46.73  Aligned_cols=24  Identities=33%  Similarity=0.297  Sum_probs=21.6

Q ss_pred             eEEEEEcCCCChHHHHHHHHHhhh
Q 038398          148 GIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      -.|.|=|.-|+||||+++.+.+..
T Consensus         6 lrI~IEG~iGsGKSTl~~~L~~~l   29 (331)
T d1osna_           6 LRIYLDGAYGIGKTTAAEEFLHHF   29 (331)
T ss_dssp             EEEEEEESSSSCTTHHHHHHHHTT
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHH
Confidence            358889999999999999999886

>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=84.22  E-value=0.38  Score=41.92  Aligned_cols=39  Identities=10%  Similarity=0.092  Sum_probs=30.0

Q ss_pred             HHHHHHHHHhcC-CCceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          133 STFDKVWRCLGE-EQVGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       133 ~~~~~l~~~L~~-~~~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      .-+..+..+|.. .....+.++|+++.|||++|..+.+-.
T Consensus        38 ~Fl~~l~~~l~~~PKkn~i~~~GP~~TGKS~f~~sl~~~l   77 (205)
T d1tuea_          38 TFLGALKSFLKGTPKKNCLVFCGPANTGKSYFGMSFIHFI   77 (205)
T ss_dssp             HHHHHHHHHHHTCTTCSEEEEESCGGGCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCCCceEEEEECCCCccHHHHHHHHHHHh
Confidence            345566666643 345789999999999999999888776

>d1g6oa_ c.37.1.11 (A:) Hexameric traffic ATPase, HP0525 {Helicobacter pylori [TaxId: 210]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Hexameric traffic ATPase, HP0525
species: Helicobacter pylori [TaxId: 210]

Probab=84.17  E-value=0.22  Score=47.83  Aligned_cols=24  Identities=29%  Similarity=0.329  Sum_probs=21.0

Q ss_pred             eEEEEEcCCCChHHHHHHHHHhhh
Q 038398          148 GIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      +.|.|.|+.|+||||+++++....
T Consensus       167 ~nili~G~tgSGKTT~l~al~~~i  190 (323)
T d1g6oa_         167 KNVIVCGGTGSGKTTYIKSIMEFI  190 (323)
T ss_dssp             CCEEEEESTTSSHHHHHHHHGGGS
T ss_pred             CCEEEEeeccccchHHHHHHhhhc
Confidence            347899999999999999998765

>d1g7sa4 c.37.1.8 (A:1-227) Initiation factor IF2/eIF5b, N-terminal (G) domain {Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Initiation factor IF2/eIF5b, N-terminal (G) domain
species: Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]

Probab=82.93  E-value=0.34  Score=43.79  Aligned_cols=25  Identities=36%  Similarity=0.452  Sum_probs=21.4

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHhhh
Q 038398          147 VGIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       147 ~~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      .++|+|+|-+++|||||+.++....
T Consensus         5 ~p~IaIiGh~d~GKSTL~~~L~~~~   29 (227)
T d1g7sa4           5 SPIVSVLGHVDHGKTTLLDHIRGSA   29 (227)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCEEEEEeCCCccHHHHHHHHHhhc
Confidence            3579999999999999999886653

>d1wb1a4 c.37.1.8 (A:1-179) Elongation factor SelB, N-terminal domain {Methanococcus maripaludis [TaxId: 39152]}

class: 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 SelB, N-terminal domain
species: Methanococcus maripaludis [TaxId: 39152]

Probab=81.90  E-value=0.36  Score=41.71  Aligned_cols=22  Identities=32%  Similarity=0.465  Sum_probs=19.7

Q ss_pred             EEEEEcCCCChHHHHHHHHHhh
Q 038398          149 IIGLYGMGGVGKTTLLTKINNK  170 (720)
Q Consensus       149 vi~I~G~gGiGKTtLa~~v~~~  170 (720)
                      .|+|+|.+++|||||..++...
T Consensus         7 nIaiiG~~naGKSTL~n~L~~~   28 (179)
T d1wb1a4           7 NLGIFGHIDHGKTTLSKVLTEI   28 (179)
T ss_dssp             EEEEEECTTSSHHHHHHHHHTT
T ss_pred             EEEEEeCCCCcHHHHHHHHHHh
Confidence            5999999999999999998753

>d1t9ha2 c.37.1.8 (A:68-298) Probable GTPase EngC (YjeQ), C-terminal domain {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngC (YjeQ), C-terminal domain
species: Bacillus subtilis [TaxId: 1423]

Probab=81.69  E-value=0.2  Score=45.17  Aligned_cols=24  Identities=38%  Similarity=0.560  Sum_probs=18.7

Q ss_pred             eEEEEEcCCCChHHHHHHHHHhhh
Q 038398          148 GIIGLYGMGGVGKTTLLTKINNKL  171 (720)
Q Consensus       148 ~vi~I~G~gGiGKTtLa~~v~~~~  171 (720)
                      ++..++|.+|+|||||..++..+.
T Consensus        98 ~~~vl~G~SGVGKSSLiN~L~~~~  121 (231)
T d1t9ha2          98 KTTVFAGQSGVGKSSLLNAISPEL  121 (231)
T ss_dssp             SEEEEEESHHHHHHHHHHHHCC--
T ss_pred             ceEEEECCCCccHHHHHHhhccHh
Confidence            445688999999999999887554

>d1pjra1 c.37.1.19 (A:1-318) DEXX box DNA helicase {Bacillus stearothermophilus, PcrA [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: DEXX box DNA helicase
species: Bacillus stearothermophilus, PcrA [TaxId: 1422]

Probab=80.79  E-value=0.78  Score=43.56  Aligned_cols=67  Identities=18%  Similarity=0.212  Sum_probs=33.7

Q ss_pred             chHHHHHHHHHhcCCCceEEEEEcCCCChHHHHHHH-HHhhhcCCCCCcCEEEEEEecCcCCHHHHHHHHHHH
Q 038398          131 LESTFDKVWRCLGEEQVGIIGLYGMGGVGKTTLLTK-INNKLLGAPNVFDVVIWVVVSKDLQLEKIQEKIGRR  202 (720)
Q Consensus       131 r~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~-v~~~~~~~~~~f~~~~wv~v~~~~~~~~~~~~i~~~  202 (720)
                      ...+..++++..  +  ..+.|.|.+|+||||.+.+ +..-.......-..+++++.+.. ....+...+...
T Consensus        12 L~~eQ~~~v~~~--~--g~~lV~g~aGSGKTt~l~~ri~~ll~~~~~~p~~il~lt~t~~-aa~~~~~~~~~~   79 (318)
T d1pjra1          12 LNKEQQEAVRTT--E--GPLLIMAGAGSGKTRVLTHRIAYLMAEKHVAPWNILAITFTNK-AAREMRERVQSL   79 (318)
T ss_dssp             SCHHHHHHHHCC--S--SCEEEEECTTSCHHHHHHHHHHHHHHTTCCCGGGEEEEESSHH-HHHHHHHHHHHH
T ss_pred             CCHHHHHHHhCC--C--CCEEEEecCCccHHHHHHHHHHHHHHcCCCCHHHeEeEeccHH-HHHHHHHHHHhh
Confidence            345555666532  2  2367889999999976543 33222111112235666654432 233344444433