Citrus Sinensis ID: 048743

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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---
Protein Sequence
CFCSSSVQQEKLSWEGSSREVLLRKLESASKNHQVGEAWETFNDFQRLHGIPERHVVNRFITDLCYSAEPHWLQKACDLVLKIQKGKADLLQLDLLAKLSLSLARAQMPVPASMILRLMLGRENLPCSDLLLLVFVHMVKTEIGTCLASNFLIQLCDVFLHLSAEKSNGAELIKPDTMIFNLVLHACVRFGSSLKGQHIMELMSQTGVVADAHSIIILAQIHEMNCQRDELKKFKCYIDQLSTPFAHHYQQFYESLLSLHFKFDDIDAAGELILDMNRYREPLPNPKLRQDAQKPYLISIGSPNLRCGLKLQIMPELLEKDSILKMEGKQELVLFRNGKLLHSNRAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTYKSLLTAYYKVKMFREAEALLKQMRKSCLVQNLSCEMVVSERFSEVADKSASFTDTSSLMDKSDLAESLIQEMREEAALSTIYKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRPTVETFYYLVYGHSSLEMYRDITILWGDIKRNIESGVLAVSRDLYETLLLNFLQGGYFERVMEVIGYMKKQNMYVDKLMYKSEFLKHHKHLYRRLKVSNARTEAQSKRLVNVQAFRKWAGID
Secondary Structure (PSIPRED)
ccccccccccccccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHccccccHHHHHHHHHHHHcccccHHHHHHHHHHHHccccccHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHHHHcccccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHcccccHHHHHHHHHHHHHcccccccccHHHHHHHHHHHcccHHHHHHHHHHHHHccccccccccccccccccccccccccHHHHHHcccccccHHHHHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccccEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccccccccccccccccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHcccccccHHHHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHccc
Secondary Structure Prediction (SSPRO)
ccHHHHHHHHHcccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHHHccccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccEHHHHHHHHHHHHccccHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHcccHHHHHHHHHHHHHccccccccEcccHHHHHHHHHHHHHHHccccccEEHHHHHHHHHHHcccHHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHccccHHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHcccccccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHccccHHHHHHHHHHHHHcccccEEEEHEEEccc
Coil and Loop (DISEMBL)
cfcsssvqqeklswegSSREVLLRKLESASKNHQVGEAWETFNDFQrlhgiperhvVNRFITDlcysaephWLQKACDLVLKIQKGKADLLQLDLLAKLSLSLARAQMPVPASMILRLMlgrenlpcsDLLLLVFVHMVKTEIGTCLASNFLIQLCDVFLHLSaeksngaelikpdtMIFNLVLHACVRFGSSLKGQHIMELMSQTGVVADAHSIIILAQIHEMNCQRDELKKFKCyidqlstpfaHHYQQFYESLLSLHFKFDDIDAAGELILDmnryreplpnpklrqdaqkpylisigspnlrcglklqimpellekdSILKMEGKQELvlfrngkllhSNRAMAKLINGYKKHGKNSELSWLLLSIKKehhsfgestlCSDVIDALIQLGFLEAAHDILDdmelaghpmdstTYKSLLTAYYKVKMFREAEALLKQMRKSCLVQNLSCEMVVSERFsevadksasftdtsslmdkSDLAESLIQEMREEAALSTIYKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRPTVETFYYLVYGHSSLEMYRDITILWGDIKRNIESGVLAVSRDLYETLLLNFLQGGYFERVMEVIGYMKKQNMYVDKLMYKSEFLKHHKHLYRRLKVSNARTEAQSKRLVNVQAFRKWAGID
Flexible Loop (DISEMBL)
cfcsssvqqeklswegssREVLLRKLEsasknhqvgEAWETFNDFQRLHGIPERHVVNRFITDLCYSAEPHWLQKACDLVLKIQKGKADLLQLDLLAKLSLSLARAQMPVPASMILRLMLGRENLPCSDLLLLVFVHMVKTEIGTCLASNFLIQLCDVFLHLSAEKSNGAELIKPDTMIFNLVLHACVRFGSSLKGQHIMELMSQTGVVADAHSIIILAQIHEMNCQRDELKKFKCYIDQLSTPFAHHYQQFYESLLSLHFKFDDIDAAGELILDMNRyreplpnpklrqdaqkPYLISIGSPNLRCGLKLQIMPELLEKDSILKMEGKQELVLFRNGKLLHSNRAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTYKSLLTAYYKVKMFREAEALLKQMRKSCLVQNLSCEMVVSERfsevadksasftdtsslmdkSDLAESLIQEMREEAALSTIYKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRPTVETFYYLVYGHSSLEMYRDITILWGDIKRNIESGVLAVSRDLYETLLLNFLQGGYFERVMEVIGYMKKQNMYVDKLMYKSEFLKHHKHLYRRLKvsnarteaqskrlvnvqafrkwagid
Low Complexity Region (SEG)
CFCSSSVQQEKLSWEGSSREVLLRKLESASKNHQVGEAWETFNDFQRLHGIPERHVVNRFITDLCYSAEPHWLQKACDLVLKIQKGkadllqldllaklslslaraqMPVPASMILRLMLGRENLPCSDLLLLVFVHMVKTEIGTCLASNFLIQLCDVFLHLSAEKSNGAELIKPDTMIFNLVLHACVRFGSSLKGQHIMELMSQTGVVADAHSIIILAQIHEMNCQRDELKKFKCYIDQLSTPFAHHYQQFYESLLSLHFKFDDIDAAGELILDMNRYREPLPNPKLRQDAQKPYLISIGSPNLRCGLKLQIMPELLEKDSILKMEGKQELVLFRNGKLLHSNRAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTYKSLLTAYYKVKMFREAEALLKQMRKSCLVQNLSCEMVVSERFSEVADKSASFTDTSSLMDKSDLAESLIQEMREEAALSTIYKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRPTVETFYYLVYGHSSLEMYRDITILWGDIKRNIESGVLAVSRDLYETLLLNFLQGGYFERVMEVIGYMKKQNMYVDKLMYKSEFLKHHKHLYRRLKVSNARTEAQSKRLVNVQAFRKWAGID
Disordered region (IsUnstruct)
**********************************VGEAWETFNDFQRLHGIPERHVVNRFITDLCYSAEPHWLQKACDLVLKIQKGKADLLQLDLLAKLSLSLARAQMPVPASMILRLMLGRENLPCSDLLLLVFVHMVKTEIGTCLASNFLIQLCDVFLHLSAEKSNGAELIKPDTMIFNLVLHACVRFGSSLKGQHIMELMSQTGVVADAHSIIILAQIHEMNCQRDELKKFKCYIDQLSTPFAHHYQQFYESLLSLHFKFDDIDAAGELILDMNRYR*************KPYLISIGSPNLRCGLKLQIMPELLEKDSILKMEGKQELVLFRNGKLLHSNRAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTYKSLLTAYYKVKMFREAEALLKQMRKSCLVQNLSCEMVVSERF*********************************AALSTIYKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRPTVETFYYLVYGHSSLEMYRDITILWGDIKRNIESGVLAVSRDLYETLLLNFLQGGYFERVMEVIGYMKKQNMYVDKLMYKSEFLKHHKHLYRRLKVSNA*******RLVNVQAFRKW****
Disordered Region (DISOPRED)
******************REVLLRKLESASKNHQVGEAWETFNDFQRLHGIPERHVVNRFITDLCYSAEPHWLQKACDLVLKIQKGKADLLQLDLLAKLSLSLARAQMPVPASMILRLMLGRENLPCSDLLLLVFVHMVKTEIGTCLASNFLIQLCDVFLHLSAEKSNGAELIKPDTMIFNLVLHACVRFGSSLKGQHIMELMSQTGVVADAHSIIILAQIHEMNCQRDELKKFKCYIDQLSTPFAHHYQQFYESLLSLHFKFDDIDAAGELILDMNRYREPLPNPKLRQDAQKPYLISIGSPNLRCGLKLQIMPELLEKDSILKMEGKQELVLFRNGKLLHSNRAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTYKSLLTAYYKVKMFREAEALLKQMRKSCLVQNLSCEMVVSERFSEVADKSASFTDTSSLMDKSDLAESLIQEMREEAALSTIYKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRPTVETFYYLVYGHSSLEMYRDITILWGDIKRNIESGVLAVSRDLYETLLLNFLQGGYFERVMEVIGYMKKQNMYVDKLMYKSEFLKHHKHLYRRLKV*******QSKRLVNVQAFRKWAGID
Disordered Region (DISEMBL)
******************REVLLRKLESASKNHQVGEAWETFNDFQRLHGIPERHVVNRFITDLCYSAEPHWLQKACDLVLKIQKGKADLLQLDLLAKLSLSLARAQMPVPASMILRLMLGRENLPCSDLLLLVFVHMVKTEIGTCLASNFLIQLCDVFLHLSAEKSNGAELIKPDTMIFNLVLHACVRFGSSLKGQHIMELMSQTGVVADAHSIIILAQIHEMNCQRDELKKFKCYIDQLSTPFAHHYQQFYESLLSLHFKFDDIDAAGELILDMNRYREPLPNPKLRQDAQKPYLISIGSPNLRCGLKLQIMPELLEKDSILKMEGKQELVLFRNGKLLHSNRAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTYKSLLTAYYKVKMFREAEALLKQMRKSCLVQNLSCEMVVSERFSEVADKSASFTDTSSLMDKSDLAESLIQEMREEAALSTIYKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRPTVETFYYLVYGHSSLEMYRDITILWGDIKRNIESGVLAVSRDLYETLLLNFLQGGYFERVMEVIGYMKKQNMYVDKLMYKSEFLKHHKHLYRRLKVSNARTEAQSKRLVNVQAFRKWAGID
Disordered Region (DISPRO)
CFCSSSVQQEKLSWEGSSREVLLRKLESASKNHQVGEAWETFNDFQRLHGIPERHVVNRFITDLCYSAEPHWLQKACDLVLKIQKGKADLLQLDLLAKLSLSLARAQMPVPASMILRLMLGRENLPCSDLLLLVFVHMVKTEIGTCLASNFLIQLCDVFLHLSAEKSNGAELIKPDTMIFNLVLHACVRFGSSLKGQHIMELMSQTGVVADAHSIIILAQIHEMNCQRDELKKFKCYIDQLSTPFAHHYQQFYESLLSLHFKFDDIDAAGELILDMNRYREPLPNPKLRQDAQKPYLISIGSPNLRCGLKLQIMPELLEKDSILKMEGKQELVLFRNGKLLHSNRAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTYKSLLTAYYKVKMFREAEALLKQMRKSCLVQNLSCEMVVSERFSEVADKSASFTDTSSLMDKSDLAESLIQEMREEAALSTIYKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRPTVETFYYLVYGHSSLEMYRDITILWGDIKRNIESGVLAVSRDLYETLLLNFLQGGYFERVMEVIGYMKKQNMYVDKLMYKSEFLKHHKHLYRRLKVSNARTEAQSKRLVNVQAFRKWAGID
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
CFCSSSVQQEKLSWEGSSREVLLRKLESASKNHQVGEAWETFNDFQRLHGIPERHVVNRFITDLCYSAEPHWLQKACDLVLKIQKGKADLLQLDLLAKLSLSLARAQMPVPASMILRLMLGRENLPCSDLLLLVFVHMVKTEIGTCLASNFLIQLCDVFLHLSAEKSNGAELIKPDTMIFNLVLHACVRFGSSLKGQHIMELMSQTGVVADAHSIIILAQIHEMNCQRDELKKFKCYIDQLSTPFAHHYQQFYESLLSLHFKFDDIDAAGELILDMNRYREPLPNPKLRQDAQKPYLISIGSPNLRCGLKLQIMPELLEKDSILKMEGKQELVLFRNGKLLHSNRAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTYKSLLTAYYKVKMFREAEALLKQMRKSCLVQNLSCEMVVSERFSEVADKSASFTDTSSLMDKSDLAESLIQEMREEAALSTIYKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRPTVETFYYLVYGHSSLEMYRDITILWGDIKRNIESGVLAVSRDLYETLLLNFLQGGYFERVMEVIGYMKKQNMYVDKLMYKSEFLKHHKHLYRRLKVSNARTEAQSKRLVNVQAFRKWAGID
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	653	2.2.26 [Sep-21-2011]
B3H672	674	Pentatricopeptide repeat-	yes	no	0.966	0.936	0.510	0.0
Q9SA60	793	Pentatricopeptide repeat-	no	no	0.950	0.783	0.290	1e-75
Q9CAA5	619	Pentatricopeptide repeat-	no	no	0.846	0.893	0.224	2e-22
P0C7R4	658	Pentatricopeptide repeat-	no	no	0.457	0.454	0.274	2e-22
Q9SF38	778	Pentatricopeptide repeat-	no	no	0.473	0.397	0.214	4e-18
Q9FMF6	730	Pentatricopeptide repeat-	no	no	0.393	0.352	0.259	6e-11
Q9LPX2	644	Pentatricopeptide repeat-	no	no	0.326	0.330	0.253	5e-10
Q0WVK7	741	Pentatricopeptide repeat-	no	no	0.635	0.560	0.217	2e-09
Q9LFC5	729	Pentatricopeptide repeat-	no	no	0.392	0.351	0.25	9e-09
O04504	606	Pentatricopeptide repeat-	no	no	0.316	0.341	0.217	1e-08

>sp|B3H672|PP317_ARATH Pentatricopeptide repeat-containing protein At4g17616 OS=Arabidopsis thaliana GN=At4g17616 PE=2 SV=1

 Score =  642 bits (1657), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 335/656 (51%), Positives = 465/656 (70%), Gaps = 25/656 (3%)

Query: 2   FCSSSVQQEKLSWEGSSREVLLRKLESASKNHQVGEAWETFNDFQRLHGIPERHVVNRFI 61
           FC+S V+  +L+WE SS+ +L +KLE+A K+H+V +AW+ F DF+RL+G PE  ++NRF+
Sbjct: 38  FCTS-VKPARLNWEVSSQVILKKKLETALKDHRVDDAWDVFKDFKRLYGFPESVIMNRFV 96

Query: 62  TDLCYSAEPHWLQKACDLVLKIQKGKADLLQLDLLAKLSLSLARAQMPVPASMILRLMLG 121
           T L YS++  WL KA DL     K    +L  D+L KLSLSLARAQM   A  ILR+ML 
Sbjct: 97  TVLSYSSDAGWLCKASDLTRLALKQNPGMLSGDVLTKLSLSLARAQMVESACSILRIMLE 156

Query: 122 RENLPCSDLLLLVFVHMVKTEIGTCLASNFLIQLCDVFLHLSAEKSNGA--ELIKPDTMI 179
           +  +  SD+L LV +HMVKTEIGTCLASN+L+Q+CD F+  +  K N +   ++KPDT++
Sbjct: 157 KGYVLTSDVLRLVVMHMVKTEIGTCLASNYLVQVCDRFVEFNVGKRNSSPGNVVKPDTVL 216

Query: 180 FNLVLHACVRFGSSLKGQHIMELMSQTGVVADAHSIIILAQIHEMNCQRDELKKFKCYID 239
           FNLVL +CVRFG SLKGQ ++ELM++  VVADA+SI+I++ I+EMN  RDEL+KFK +I 
Sbjct: 217 FNLVLGSCVRFGFSLKGQELIELMAKVDVVADAYSIVIMSCIYEMNGMRDELRKFKEHIG 276

Query: 240 QLSTPFAHHYQQFYESLLSLHFKFDDIDAAGELILDMNRYREPLPNPKLRQDAQKPYLIS 299
           Q+      HYQ F+++LLSL FKFDDI +AG L LDM + +  +    L  D++KP ++ 
Sbjct: 277 QVPPQLLGHYQHFFDNLLSLEFKFDDIGSAGRLALDMCKSKVLVSVENLGFDSEKPRVLP 336

Query: 300 IGSPNLRCGLKLQIMPELLEKDSILKMEGKQELVLFRNGKLLHSNRAMAKLINGYKKHGK 359
           +GS ++R GLK+ I P+LL++DS L ++ +   V + N KL  +N+ +AKL+ GYK+H  
Sbjct: 337 VGSHHIRSGLKIHISPKLLQRDSSLGVDTEATFVNYSNSKLGITNKTLAKLVYGYKRHDN 396

Query: 360 NSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTYK 419
             ELS LL S+       G S LC+DVIDA + +G+LEAAHDILDDM  AG+PM+  TY+
Sbjct: 397 LPELSKLLFSL-------GGSRLCADVIDACVAIGWLEAAHDILDDMNSAGYPMELATYR 449

Query: 420 SLLTAYYKVKMFREAEALLKQMRKSCLVQNLSCEMVVSERFSEVADKSASFTDTSSLMDK 479
            +L+ YYK KM R AE LLKQM K+ L+ + S E+VVS    E  +K +         + 
Sbjct: 450 MVLSGYYKSKMLRNAEVLLKQMTKAGLITDPSNEIVVS---PETEEKDS---------EN 497

Query: 480 SDLAESLIQEM---REEAALSTIYKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRPTVET 536
           ++L + L+QE+   ++  A S +Y+LNSS+Y+FCK KM GDAL  YR++ +MKI PTV++
Sbjct: 498 TELRDLLVQEINAGKQMKAPSMLYELNSSLYYFCKAKMQGDALITYRKIPKMKIPPTVQS 557

Query: 537 FYYLVYGHSSLEMYRDITILWGDIKRNIESGVLAVSRDLYETLLLNFLQGGYFERVMEVI 596
           F+ L+  +SSL MYR+ITI+WGDIKRNI S  L  ++DL E L++NFL+GGYFERVME+I
Sbjct: 558 FWILIDMYSSLGMYREITIVWGDIKRNIASKNLKTTQDLLEKLVVNFLRGGYFERVMELI 617

Query: 597 GYMKKQNMYVDKLMYKSEFLKHHKHLYRRLKVSNARTEAQSKRLVNVQAFRKWAGI 652
            YMK+ +MY D  MYK+E+LK HK+LYR LK S+A TEAQ++RL +V+ FRK  GI
Sbjct: 618 SYMKENDMYNDLTMYKNEYLKLHKNLYRTLKASDAVTEAQAQRLEHVKTFRKLVGI 673

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SA60|PPR6_ARATH Pentatricopeptide repeat-containing protein At1g03100, mitochondrial OS=Arabidopsis thaliana GN=At1g03100 PE=2 SV=1

 Score =  285 bits (728), Expect = 1e-75,   Method: Compositional matrix adjust.
 Identities = 203/699 (29%), Positives = 351/699 (50%), Gaps = 78/699 (11%)

Query: 25  KLESASKNHQVGEAWETFNDFQRLHGIPERHVVNRFITDLCYSAEPHWLQKACDLVLKI- 83
           +++ A   H+  EAW  F    ++ G P + VVN  +     S + +WLQK   LV +  
Sbjct: 101 EIQIAVDEHRCDEAWRLFEQHMQMEGFPRKSVVNNVVVCFAESLDSNWLQKGYSLVEQAY 160

Query: 84  QKGKADLLQLDLLAKLSLSLARAQMPVPASMILRLMLGRENLPCSDLLLLVFVHMVKTEI 143
           ++GK +LL+ + L  LSL+LA++ M VPAS ILR ++  E  P       V  HM     
Sbjct: 161 EEGKQNLLEKEPLLYLSLALAKSGMAVPASTILRKLVETEEYPHVSAWSAVLAHMSLAGS 220

Query: 144 GTCLASNFLIQLCDVFLH--LSAEKSNGAELI--KPDTMIFNLVLHACVRFGSSLKGQHI 199
           G+ L++  ++++  +F +  +   K + A L+  KP+T + N+ L  C+ FG++ K + +
Sbjct: 221 GSYLSAELVLEIGYLFHNNRVDPRKKSNAPLLAMKPNTQVLNVALAGCLLFGTTRKAEQL 280

Query: 200 MELMSQTGVVADAHSIIILAQIHEMNCQRDELKKFKCYIDQLSTPFAHHYQQFYESLLSL 259
           ++++ + GV ADA+ ++I+A I+E N +R+EL+K + +ID+        + QFY  LL  
Sbjct: 281 LDMIPKIGVKADANLLVIMAHIYERNGRREELRKLQRHIDEACNLNESQFWQFYNCLLMC 340

Query: 260 HFKFDDIDAAGELILDMNR----YREPLPNPKLR---QDAQKPYLISIG----------S 302
           H KF D+++A +++L+M R     R  L    L     D  + Y   +           +
Sbjct: 341 HLKFGDLESASKMVLEMLRRGKVARNSLGAAILEFDTADDGRLYTKRVSGKGSEVKEHDN 400

Query: 303 PNLRCGLKLQIMP--ELLEKDSILKMEGKQ---------------ELVLFRNGKLLHSNR 345
           P  R      ++P  E       LK+E +                EL+    G L  +  
Sbjct: 401 PETRVVSIHSMIPYDEFSRDRKFLKLEAEAKDVLGALLAKLHVQVELITSERGVLQPTEE 460

Query: 346 AMAKLINGYKKHGKNSELSWLLLSIKKEHHSF-GESTLCSDVIDALIQLGFLEAAHDILD 404
              KL   + + GK  EL+  LL  + E      ++++  +VI+A I LG L+ AHD+LD
Sbjct: 461 IYVKLAKAFLESGKMKELAKFLLKAEHEDSPVSSDNSMLINVINACISLGMLDQAHDLLD 520

Query: 405 DMELAGHPMDSTTYKSLLTAYYKVKMFREAEALLKQMRKSCLVQNLSC-EMVVSER---- 459
           +M +AG    S+ Y SLL AY      RE  +LL+  +K+ +  + SC E ++  +    
Sbjct: 521 EMRMAGVRTGSSVYSSLLKAYCNTNQTREVTSLLRDAQKAGIQLDSSCYEALIQSQVIQN 580

Query: 460 --------FSEVAD---------------KSASFTDTSSLMDKSDLAESLIQEMREEAAL 496
                   F E+ +               K       + LM K      L++E+RE  +L
Sbjct: 581 DTHGALNVFKEMKEAKILRGGNQKFEKLLKGCEGNAEAGLMSK------LLREIREVQSL 634

Query: 497 -STIYKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRPTVETFYYLVYGHSSL-EMYRDIT 554
            + ++  N+ I+FF K  ++ DA K  +RM+ +   P  +TF+ +V G++++   Y ++T
Sbjct: 635 DAGVHDWNNVIHFFSKKGLMQDAEKALKRMRSLGHSPNAQTFHSMVTGYAAIGSKYTEVT 694

Query: 555 ILWGDIKR-NIESGVLAVSRDLYETLLLNFLQGGYFERVMEVIGYMKKQNMYVDKLMYKS 613
            LWG++K     +  +   ++L + +L  F++GG+F R  EV+  M+K+NM+VDK  Y+ 
Sbjct: 695 ELWGEMKSIAAATSSMKFDQELLDAVLYTFVRGGFFSRANEVVEMMEKKNMFVDKYKYRM 754

Query: 614 EFLKHHKHLYRRLKVSNARTEAQSKRLVNVQAFRKWAGI 652
            FLK+HK  Y+  K    ++E+Q K+      F+KW G+
Sbjct: 755 LFLKYHKTAYKG-KAPKVQSESQLKKREAGLVFKKWLGL 792

Arabidopsis thaliana (taxid: 3702)

>sp|Q9CAA5|PP109_ARATH Pentatricopeptide repeat-containing protein At1g68980, mitochondrial OS=Arabidopsis thaliana GN=At1g68980 PE=2 SV=1

 Score =  107 bits (268), Expect = 2e-22,   Method: Compositional matrix adjust.
 Identities = 145/645 (22%), Positives = 268/645 (41%), Gaps = 92/645 (14%)

Query: 32  NHQVGEAWETFNDFQRLHGIPERHVVNRFITDLCY-------SAEPHWLQKACDLVLKIQ 84
            H   +AW+ F  F     +P++ ++N  IT L         ++  H L++A      + 
Sbjct: 41  THDTDQAWKVFRSFAAASSLPDKRLLNSLITHLSSFHNTDQNTSLRHRLKRAFVSTTYVI 100

Query: 85  KGKADLLQLDLLAKLSLSLARAQMPVPASMILRLMLGRENLPCSDLLLLVFVHMVKTEIG 144
           +    LL+ + +  +  S+  A+   PA  ++  M         DL   + + + + E G
Sbjct: 101 EKDPILLEFETVRTVLESMKLAKASGPALALVECMFKNRYFVPFDLWGDLLIDVCR-ENG 159

Query: 145 TCLASNFLIQLCDVFLHLSAEKSNGA-----ELIKPDTMIFNLVLHACVRFGSSLK-GQH 198
           +  A          FL +  E    A     + +KPD +  N  L AC R   SL   ++
Sbjct: 160 SLAA----------FLKVFRESCRIAVDEKLDFMKPDLVASNAALEACCRQMESLADAEN 209

Query: 199 IMELMSQTGVVADAHSIIILAQIHEMNCQRDELKKFKCYIDQLSTPFAHHYQQFYESLLS 258
           ++E M   GV  D  S   LA ++     R+++ + +  +D L   FA   +  Y S++S
Sbjct: 210 LIESMDVLGVKPDELSFGFLAYLYARKGLREKISELEDLMDGLG--FASR-RILYSSMIS 266

Query: 259 LHFKFDDIDAAGELIL-------DMNRYREPLPNPKLRQDAQKPYLISIGSPNLRCGLKL 311
            + K  D+D+A ++IL       + + + E      +R          I S ++    KL
Sbjct: 267 GYVKSGDLDSASDVILCSLKGVGEASSFSEETYCELVRG--------FIESKSVESLAKL 318

Query: 312 QIMPELLEKDSILKMEGKQELVLFRNGKLLHSNRAMAKLINGYKKHGKNSELSWLLLSIK 371
            I  + LE  S          ++    KL  S +++   +N     G       +L +  
Sbjct: 319 IIEAQKLESMSTDVGGSVGFGIVNACVKLGFSGKSILDELNAQGGSGGIGVYVPILKAYC 378

Query: 372 KEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTYKSLLTAYYKVKMF 431
           KE  +   + L +++  + +QL                    D  TY +++ A      F
Sbjct: 379 KEGRTSEATQLVTEISSSGLQL--------------------DVETYNTMIEASMTKHDF 418

Query: 432 REAEALLKQMRKSCLVQNLSCEMVVSERFSEVAD-KSASFTDTSSLMD--KSDLAESLIQ 488
             A  L + MR+                 + VAD K    T  + L++  + +L    ++
Sbjct: 419 LSALTLFRDMRE-----------------TRVADLKRCYLTIMTGLLENQRPELMAEFVE 461

Query: 489 EMREEAALST-IYKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRPTVETFYYLVYGHSSL 547
           E+ E+  +    +  NS I+ FCK   +GDA   +RRM  ++  P  +T+  L+ G+ S 
Sbjct: 462 EVMEDPRVEVKSHDWNSIIHAFCKSGRLGDAKSTFRRMTFLQYEPNNQTYLSLINGYVSC 521

Query: 548 EMYRDITILWGDIKRNIESGVLAVSRDLYETLLLNFLQGGYFERVMEVIGYMKKQNMYVD 607
           E Y ++ ++W + K         +   L +  L   ++GG+F   ++VI   ++  ++VD
Sbjct: 522 EKYFEVVVIWKEFKDKKAK----LEHALADAFLNALVKGGFFGTALQVIEKCQEMKIFVD 577

Query: 608 KLMYKSEFLKHHKHLYRRLKVSNARTEAQSKRLVNVQAFRKWAGI 652
           K  YK+ F++  K+L  RL     R   + K++  + AF+ WA I
Sbjct: 578 KWRYKATFMETQKNL--RLPKLRKR---KMKKIEFLDAFKNWARI 617

Arabidopsis thaliana (taxid: 3702)

>sp|P0C7R4|PP110_ARATH Pentatricopeptide repeat-containing protein At1g69290 OS=Arabidopsis thaliana GN=At1g69290 PE=2 SV=1

 Score =  107 bits (268), Expect = 2e-22,   Method: Compositional matrix adjust.
 Identities = 92/335 (27%), Positives = 163/335 (48%), Gaps = 36/335 (10%)

Query: 349 KLINGYKKHGKNSELSWLLLSIKKEHHSFG--ESTLCSDVIDALIQLGFLEAAHDILDDM 406
           +L+ G+ +      L+ ++L  +K   S+   +S++   +I+A + LGF + AH IL++M
Sbjct: 329 ELVKGFIESKSVKSLAKVILEAQKLESSYVGVDSSVGFGIINACVNLGFSDKAHSILEEM 388

Query: 407 -ELAGHPMDSTTYKSLLTAYYKVKMFREAEALLKQMRKSCL-----VQNLSCEMVVSE-- 458
               G  +    Y  +L AY K     EA  L+ ++  S L     + N   E  ++   
Sbjct: 389 IAQGGGSVGIGVYVPILKAYCKEYRTAEATQLVTEISSSGLQLDVEISNALIEASMTNQD 448

Query: 459 -----------RFSEVADKSASF-TDTSSLMD--KSDLAESLIQEMREEAALS-TIYKLN 503
                      R + V D   S+ T  + L++  + +L  + + E+ E+  +    +  N
Sbjct: 449 FISAFTLFRDMRENRVVDLKGSYLTIMTGLLENQRPELMAAFLDEVVEDPRVEVNSHDWN 508

Query: 504 SSIYFFCKGKMIGDALKIYRRMQEMKIRPTVETFYYLVYGHSSLEMYRDITILWGDIKRN 563
           S I+ FCK   + DA + +RRM  ++  P  +T+  L+ G+ S E Y ++ +LW +IK  
Sbjct: 509 SIIHAFCKSGRLEDARRTFRRMVFLRYEPNNQTYLSLINGYVSGEKYFNVLLLWNEIKGK 568

Query: 564 IESGVLAVSRD-----LYETLLLNFLQGGYFERVMEVIGYMKKQNMYVDKLMYKSEFLKH 618
           I S V A  R      L +  L   ++GG+F+  M+V+   ++  ++VDK  YK  F++ 
Sbjct: 569 I-SSVEAEKRSRLDHALVDAFLYALVKGGFFDAAMQVVEKSQEMKIFVDKWRYKQAFMET 627

Query: 619 HKHLYRRLKVSNARTEAQSKRLVNVQAFRKWAGID 653
           HK L  RL     R   + + LV   AF+ WAG++
Sbjct: 628 HKKL--RLPKLRKRNYKKMESLV---AFKNWAGLN 657

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SF38|PP222_ARATH Pentatricopeptide repeat-containing protein At3g09650, chloroplastic OS=Arabidopsis thaliana GN=HCF152 PE=2 SV=1

 Score = 94.0 bits (232), Expect = 4e-18,   Method: Compositional matrix adjust.
 Identities = 75/349 (21%), Positives = 153/349 (43%), Gaps = 40/349 (11%)

Query: 344 NRAMAKLINGYKKHGKNSELSWLLLSIKK--EHHSFGESTLCSDVIDALIQLGFLEAAHD 401
           +R    L+ GY K+G+ ++ + +L ++++  + +S  +    + V+ A +  G ++ A  
Sbjct: 414 SRIYTTLMKGYMKNGRVADTARMLEAMRRQDDRNSHPDEVTYTTVVSAFVNAGLMDRARQ 473

Query: 402 ILDDMELAGHPMDSTTYKSLLTAYYKVKMFREAEALLKQMRKSCLVQN--LSCEMVVS-- 457
           +L +M   G P +  TY  LL  Y K      AE LL++M +   ++   +S  +++   
Sbjct: 474 VLAEMARMGVPANRITYNVLLKGYCKQLQIDRAEDLLREMTEDAGIEPDVVSYNIIIDGC 533

Query: 458 ----------ERFSEVADKSASFTDTS--------SLMDKSDLAESLIQEMREEAALST- 498
                       F+E+  +  + T  S        ++  +  LA  +  EM  +  +   
Sbjct: 534 ILIDDSAGALAFFNEMRTRGIAPTKISYTTLMKAFAMSGQPKLANRVFDEMMNDPRVKVD 593

Query: 499 IYKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRPTVETFYYLVYGHSSLEMYRDITILWG 558
           +   N  +  +C+  +I DA ++  RM+E    P V T+  L  G S      D  +LW 
Sbjct: 594 LIAWNMLVEGYCRLGLIEDAQRVVSRMKENGFYPNVATYGSLANGVSQARKPGDALLLWK 653

Query: 559 DIKR---------------NIESGVLAVSRDLYETLLLNFLQGGYFERVMEVIGYMKKQN 603
           +IK                +    +L     L +TL    ++  +F++ +E+I  M++  
Sbjct: 654 EIKERCAVKKKEAPSDSSSDPAPPMLKPDEGLLDTLADICVRAAFFKKALEIIACMEENG 713

Query: 604 MYVDKLMYKSEFLKHHKHLYRRLKVSNARTEAQSKRLVNVQAFRKWAGI 652
           +  +K  YK  +++ H  ++     S AR + + +R    +AF+ W G+
Sbjct: 714 IPPNKTKYKKIYVEMHSRMFTSKHASQARIDRRVERKRAAEAFKFWLGL 762

Involved in the processing of polycistronic chloroplast psbB-psbT-psbH-petB-petD transcript. Could bind RNA.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FMF6|PP444_ARATH Pentatricopeptide repeat-containing protein At5g64320, mitochondrial OS=Arabidopsis thaliana GN=At5g64320 PE=2 SV=1

 Score = 70.1 bits (170), Expect = 6e-11,   Method: Compositional matrix adjust.
 Identities = 74/285 (25%), Positives = 120/285 (42%), Gaps = 28/285 (9%)

Query: 350 LINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELA 409
           L+NG  K G+      L   I K      E  + + +I   +  G L+ A  +L DM  +
Sbjct: 328 LMNGLCKIGRVDAAKDLFYRIPKP-----EIVIFNTLIHGFVTHGRLDDAKAVLSDMVTS 382

Query: 410 -GHPMDSTTYKSLLTAYYKVKMFREAEALLKQMRKSCLVQNLSCEMVVSERFSEVADKSA 468
            G   D  TY SL+  Y+K  +   A  +L  MR      N+    ++ + F ++     
Sbjct: 383 YGIVPDVCTYNSLIYGYWKEGLVGLALEVLHDMRNKGCKPNVYSYTILVDGFCKLG---- 438

Query: 469 SFTDTSSLMDKSDLAESLIQEMREEAALSTIYKLNSSIYFFCKGKMIGDALKIYRRMQEM 528
                     K D A +++ EM  +         N  I  FCK   I +A++I+R M   
Sbjct: 439 ----------KIDEAYNVLNEMSADGLKPNTVGFNCLISAFCKEHRIPEAVEIFREMPRK 488

Query: 529 KIRPTVETFYYLVYGHSSLEMYRDITILWGDIKRNIESGVLAVSRDLYETLLLNFLQGGY 588
             +P V TF  L+ G   ++  +    L  D+   I  GV+A +   Y TL+  FL+ G 
Sbjct: 489 GCKPDVYTFNSLISGLCEVDEIKHALWLLRDM---ISEGVVA-NTVTYNTLINAFLRRGE 544

Query: 589 FERVMEVIGYMKKQNMYVDKLMYKSEFLKHHKHLYRRLKVSNART 633
            +   +++  M  Q   +D++ Y S      K L R  +V  AR+
Sbjct: 545 IKEARKLVNEMVFQGSPLDEITYNSLI----KGLCRAGEVDKARS 585

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LPX2|PPR39_ARATH Pentatricopeptide repeat-containing protein At1g12775, mitochondrial OS=Arabidopsis thaliana GN=At1g12775 PE=2 SV=1

 Score = 67.0 bits (162), Expect = 5e-10,   Method: Compositional matrix adjust.
 Identities = 66/260 (25%), Positives = 113/260 (43%), Gaps = 47/260 (18%)

Query: 384 SDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTYKSLLTAYYKVKMFREAEALLKQMRK 443
           S +ID L + G L+ A ++ ++ME+ G   D  TY +L+  +     + +   LL+ M K
Sbjct: 267 SIIIDGLCKDGSLDNAFNLFNEMEIKGFKADIITYNTLIGGFCNAGRWDDGAKLLRDMIK 326

Query: 444 SCLVQNLSCEMVVSERFSEVADKSASFTDTSSLMDKSDLAESLIQEMREEAALSTIYKLN 503
             +  N     VV+  FS + D   SF     L +    A+ L++EM +          N
Sbjct: 327 RKISPN-----VVT--FSVLID---SFVKEGKLRE----ADQLLKEMMQRGIAPNTITYN 372

Query: 504 SSIYFFCKGKMIGDALKIYRRMQEMKIRPTVETFYYLVYGH-------SSLEMYRDITIL 556
           S I  FCK   + +A+++   M      P + TF  L+ G+         LE++R+++ L
Sbjct: 373 SLIDGFCKENRLEEAIQMVDLMISKGCDPDIMTFNILINGYCKANRIDDGLELFREMS-L 431

Query: 557 WGDIKRNI----------ESGVLAVSRDL---------------YETLLLNFLQGGYFER 591
            G I   +          +SG L V++ L               Y+ LL      G  E+
Sbjct: 432 RGVIANTVTYNTLVQGFCQSGKLEVAKKLFQEMVSRRVRPDIVSYKILLDGLCDNGELEK 491

Query: 592 VMEVIGYMKKQNMYVDKLMY 611
            +E+ G ++K  M +D  +Y
Sbjct: 492 ALEIFGKIEKSKMELDIGIY 511

Arabidopsis thaliana (taxid: 3702)

>sp|Q0WVK7|PPR12_ARATH Pentatricopeptide repeat-containing protein At1g05670, mitochondrial OS=Arabidopsis thaliana GN=At1g05670 PE=2 SV=1

 Score = 65.1 bits (157), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 103/474 (21%), Positives = 190/474 (40%), Gaps = 59/474 (12%)

Query: 175 PDTMIFNLVLHACVRFGSSLKGQHIMELMSQTGVVADAHSIIILAQIHEMNCQRDELKKF 234
           PD + ++ V++   RFG   K   ++E+M + G+  +++   I   I  + C+       
Sbjct: 279 PDVISYSTVVNGYCRFGELDKVWKLIEVMKRKGLKPNSY---IYGSIIGLLCR------- 328

Query: 235 KCYIDQLSTPFAHHYQQ-------FYESLLSLHFKFDDIDAAGELILDMNRYREPLPNPK 287
            C + +    F+   +Q        Y +L+    K  DI AA +   +M+  R+  P+  
Sbjct: 329 ICKLAEAEEAFSEMIRQGILPDTVVYTTLIDGFCKRGDIRAASKFFYEMHS-RDITPDV- 386

Query: 288 LRQDAQKPYLISIGSPNLRCGLKLQIMPELLEKDSILKME---GKQELVLFRNGKLLHSN 344
           L   A       IG       L  ++  + LE DS+   E   G  +    ++   +H++
Sbjct: 387 LTYTAIISGFCQIGDMVEAGKLFHEMFCKGLEPDSVTFTELINGYCKAGHMKDAFRVHNH 446

Query: 345 RAMA----------KLINGYKKHG---KNSELSWLLLSIKKEHHSFGESTLCSDVIDALI 391
              A           LI+G  K G     +EL   +  I  + + F  ++    +++ L 
Sbjct: 447 MIQAGCSPNVVTYTTLIDGLCKEGDLDSANELLHEMWKIGLQPNIFTYNS----IVNGLC 502

Query: 392 QLGFLEAAHDILDDMELAGHPMDSTTYKSLLTAYYKVKMFREAEALLKQMRKSCLVQNLS 451
           + G +E A  ++ + E AG   D+ TY +L+ AY K     +A+ +LK+M    L   + 
Sbjct: 503 KSGNIEEAVKLVGEFEAAGLNADTVTYTTLMDAYCKSGEMDKAQEILKEMLGKGLQPTIV 562

Query: 452 CEMVVSERFSEVADKSASFTDTSSLMDKSDLAESLIQEMREEAALSTIYKLNSSIYFFCK 511
              V+   F               L    +  E L+  M  +         NS +  +C 
Sbjct: 563 TFNVLMNGF--------------CLHGMLEDGEKLLNWMLAKGIAPNATTFNSLVKQYCI 608

Query: 512 GKMIGDALKIYRRMQEMKIRPTVETFYYLVYGHSSLEMYRDITILWGDIKRNIESGVLAV 571
              +  A  IY+ M    + P  +T+  LV GH      ++   L+ ++K        +V
Sbjct: 609 RNNLKAATAIYKDMCSRGVGPDGKTYENLVKGHCKARNMKEAWFLFQEMK----GKGFSV 664

Query: 572 SRDLYETLLLNFLQGGYFERVMEVIGYMKKQNMYVDKLMYKSEFLKHHKHLYRR 625
           S   Y  L+  FL+   F    EV   M+++ +  DK ++  +F    K+  +R
Sbjct: 665 SVSTYSVLIKGFLKRKKFLEAREVFDQMRREGLAADKEIF--DFFSDTKYKGKR 716

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LFC5|PP360_ARATH Pentatricopeptide repeat-containing protein At5g01110 OS=Arabidopsis thaliana GN=At5g01110 PE=2 SV=1

 Score = 62.8 bits (151), Expect = 9e-09,   Method: Compositional matrix adjust.
 Identities = 71/284 (25%), Positives = 121/284 (42%), Gaps = 28/284 (9%)

Query: 350 LINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELA 409
           LI+ Y   G   E   L+ ++  +  S G  T  + VI+ L + G  E A ++  +M  +
Sbjct: 276 LISAYSSKGLMEEAFELMNAMPGKGFSPGVYTY-NTVINGLCKHGKYERAKEVFAEMLRS 334

Query: 410 GHPMDSTTYKSLLTAYYKVKMFREAEALLKQMRKSCLVQNLSCEMVVSERFSEVA--DKS 467
           G   DSTTY+SLL    K     E E +   MR   +V +L C   +   F+     DK+
Sbjct: 335 GLSPDSTTYRSLLMEACKKGDVVETEKVFSDMRSRDVVPDLVCFSSMMSLFTRSGNLDKA 394

Query: 468 ASFTDT---SSLMDKSDLAESLIQ----------------EMREEAALSTIYKLNSSIYF 508
             + ++   + L+  + +   LIQ                EM ++     +   N+ ++ 
Sbjct: 395 LMYFNSVKEAGLIPDNVIYTILIQGYCRKGMISVAMNLRNEMLQQGCAMDVVTYNTILHG 454

Query: 509 FCKGKMIGDALKIYRRMQEMKIRPTVETFYYLVYGHSSLEMYRDITILWGDIK-RNIESG 567
            CK KM+G+A K++  M E  + P   T   L+ GH  L   ++   L+  +K + I   
Sbjct: 455 LCKRKMLGEADKLFNEMTERALFPDSYTLTILIDGHCKLGNLQNAMELFQKMKEKRIRLD 514

Query: 568 VLAVSRDLYETLLLNFLQGGYFERVMEVIGYMKKQNMYVDKLMY 611
           V+      Y TLL  F + G  +   E+   M  + +    + Y
Sbjct: 515 VVT-----YNTLLDGFGKVGDIDTAKEIWADMVSKEILPTPISY 553

Arabidopsis thaliana (taxid: 3702)

>sp|O04504|PPR27_ARATH Pentatricopeptide repeat-containing protein At1g09820 OS=Arabidopsis thaliana GN=At1g09820 PE=2 SV=1

 Score = 62.4 bits (150), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 50/230 (21%), Positives = 109/230 (47%), Gaps = 23/230 (10%)

Query: 386 VIDALIQLGFLEAAHDILDDMELAGHPMDSTTYKSLLTAYYKV----KMFREAEALLKQM 441
           VI+AL + G +  A D+++DM++ G   +  +Y +L+  Y K+    KM++ A+A+LK+M
Sbjct: 229 VINALCKTGKMNKARDVMEDMKVYGCSPNVVSYNTLIDGYCKLGGNGKMYK-ADAVLKEM 287

Query: 442 RKSCLVQNLSCEMVVSERFSEVADKSASFTDTSSLMDKSDLAESLIQEMREEAALSTIYK 501
            ++ +  NL+   ++ + F +  +   S                + +EM ++     +  
Sbjct: 288 VENDVSPNLTTFNILIDGFWKDDNLPGSM--------------KVFKEMLDQDVKPNVIS 333

Query: 502 LNSSIYFFCKGKMIGDALKIYRRMQEMKIRPTVETFYYLVYGHSSLEMYRDITILWGDIK 561
            NS I   C G  I +A+ +  +M    ++P + T+  L+ G    +M ++   ++G +K
Sbjct: 334 YNSLINGLCNGGKISEAISMRDKMVSAGVQPNLITYNALINGFCKNDMLKEALDMFGSVK 393

Query: 562 RNIESGVLAVSRDLYETLLLNFLQGGYFERVMEVIGYMKKQNMYVDKLMY 611
                G +  +R +Y  L+  + + G  +    +   M+++ +  D   Y
Sbjct: 394 ---GQGAVPTTR-MYNMLIDAYCKLGKIDDGFALKEEMEREGIVPDVGTY 439

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	653
224126605	701	predicted protein [Populus trichocarpa]	0.989	0.921	0.636	0.0
255586271	689	pentatricopeptide repeat-containing prot	0.984	0.933	0.611	0.0
449461311	714	PREDICTED: pentatricopeptide repeat-cont	0.986	0.901	0.540	0.0
356565393	684	PREDICTED: pentatricopeptide repeat-cont	0.981	0.937	0.559	0.0
186511969	674	pentatricopeptide repeat-containing prot	0.966	0.936	0.510	0.0
297804420	1299	hypothetical protein ARALYDRAFT_354992 [	0.966	0.485	0.503	1e-177
359496585	457	PREDICTED: LOW QUALITY PROTEIN: pentatri	0.698	0.997	0.617	1e-159
2245120	1148	hypothetical protein [Arabidopsis thalia	0.912	0.519	0.476	1e-159
147766554	444	hypothetical protein VITISV_018331 [Viti	0.655	0.963	0.656	1e-150
89257692	567	pentatricopeptide (PPR) repeat-containin	0.860	0.991	0.478	1e-147

>gi|224126605|ref|XP_002329596.1| predicted protein [Populus trichocarpa] gi|222870305|gb|EEF07436.1| predicted protein [Populus trichocarpa]

 Score =  819 bits (2115), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 417/655 (63%), Positives = 513/655 (78%), Gaps = 9/655 (1%)

Query: 2   FCSSSVQQE-KLSWEGSSREVLLRKLESASKNHQVGEAWETFNDFQRLHGIPERHVVNRF 60
           F S SV Q  ++ W GSS  VLLRKLE A + HQV EAW TF DF++L+G P   +VN  
Sbjct: 53  FSSGSVSQPGRICWRGSSNVVLLRKLEIALREHQVDEAWVTFIDFKKLYGFPTGSMVNML 112

Query: 61  ITDLCYSAEPHWLQKACDLVLKIQKGKADLLQLDLLAKLSLSLARAQMPVPASMILRLML 120
           I+ L YS++ HWLQKACDLV  I K K  LLQ  +L KLS+SLARAQMPVPASMILR+ML
Sbjct: 113 ISRLSYSSDHHWLQKACDLVFLILKEKPGLLQFPVLTKLSISLARAQMPVPASMILRVML 172

Query: 121 GRENLPCSDLLLLVFVHMVKTEIGTCLASNFLIQLCDVFLHLSAEKSNGAELIKPDTMIF 180
            REN+P   +L  V  HMVKTEIG CLASNFL+Q+CD FLHLSA+ S  A+++KPD MIF
Sbjct: 173 ERENMPPLTILWSVVSHMVKTEIGACLASNFLVQMCDCFLHLSAKGSVRAKVVKPDAMIF 232

Query: 181 NLVLHACVRFGSSLKGQHIMELMSQTGVVADAHSIIILAQIHEMNCQRDELKKFKCYIDQ 240
           NLVL ACV+F SSLKGQ I+ELMS+ GV+ADAHS+II +QIHEMN QRDE+KK K ++D+
Sbjct: 233 NLVLDACVKFKSSLKGQEIVELMSKAGVIADAHSVIIFSQIHEMNGQRDEIKKLKDHVDE 292

Query: 241 LSTPFAHHYQQFYESLLSLHFKFDDIDAAGELILDMNRYREPLPNPKLRQDAQKPYLISI 300
           +  PF  +Y QFY+SLL LHFKFDDID+A +L+LDM++++E +PN KLR D +K  L+ I
Sbjct: 293 VGAPFIGYYCQFYDSLLKLHFKFDDIDSAAQLLLDMHKFQESVPNKKLRMDQEKRLLVPI 352

Query: 301 GSPNLRCGLKLQIMPELLEKDSILKMEGKQELVLFRNGKLLHSNRAMAKLINGYKKHGKN 360
           GS NL+ GLK+Q+MPELL+KDSIL ++ KQELV+FR+GKLL SNRA+AKL+NGY++HG+ 
Sbjct: 353 GSNNLKTGLKIQVMPELLQKDSILTVKHKQELVMFRSGKLLLSNRALAKLVNGYRRHGRT 412

Query: 361 SELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTYKS 420
           ++LS LLL ++++ H  G+S+ CSDVIDA I+LG+LE AHDILDDM+ AG P+ ST + +
Sbjct: 413 TDLSKLLLCMQQDFHVLGQSSFCSDVIDACIRLGWLEMAHDILDDMDAAGAPIGSTLHMA 472

Query: 421 LLTAYYKVKMFREAEALLKQMRKSCLVQNLSCEMVVSERFSEVADKSASFTDTSSLMDKS 480
           LLTAYY  +MF+EA+ALL++MRK+  V NLS EMV +      A  S +  + SS   KS
Sbjct: 473 LLTAYYCREMFKEAKALLRKMRKAGFVVNLSDEMVAT------ACLSEAANNASSSSSKS 526

Query: 481 DLAESLIQEMREE--AALSTIYKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRPTVETFY 538
           DL + LI+EMREE  A  S  Y+LNSSIY+FCK KM+ DALK Y+RMQ MKI+PTV+TF 
Sbjct: 527 DLIDFLIREMREEEKAIPSVGYELNSSIYYFCKAKMMEDALKTYKRMQHMKIQPTVQTFS 586

Query: 539 YLVYGHSSLEMYRDITILWGDIKRNIESGVLAVSRDLYETLLLNFLQGGYFERVMEVIGY 598
           YL+ G SSL MYRDITILWGDIKRN+ S  L VSRDLYE L LNFL+GGYFER MEVIGY
Sbjct: 587 YLIDGFSSLGMYRDITILWGDIKRNVGSKDLEVSRDLYEVLHLNFLRGGYFERAMEVIGY 646

Query: 599 MKKQNMYVDKLMYKSEFLKHHKHLYRRLKVSNARTEAQSKRLVNVQAFRKWAGID 653
           MK++NMY DK MYK EFLK HK+LYR LK S ARTEAQSKRL +V+AFRKW GID
Sbjct: 647 MKERNMYCDKWMYKDEFLKLHKNLYRSLKASEARTEAQSKRLEHVKAFRKWVGID 701

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255586271|ref|XP_002533788.1| pentatricopeptide repeat-containing protein, putative [Ricinus communis] gi|223526289|gb|EEF28601.1| pentatricopeptide repeat-containing protein, putative [Ricinus communis]

 Score =  795 bits (2052), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 398/651 (61%), Positives = 508/651 (78%), Gaps = 8/651 (1%)

Query: 4   SSSVQQEKLSWEGSSREVLLRKLESASKNHQVGEAWETFNDFQRLHGIPERHVVNRFITD 63
           S+  Q E+L WEGSS  VLLRKLE + K+H++ EAW TFNDF+ L+G P+ +VV R + +
Sbjct: 46  STRTQPERLCWEGSSHGVLLRKLEVSLKDHRLNEAWVTFNDFKTLYGFPKGYVVCRLLAE 105

Query: 64  LCYSAEPHWLQKACDLVLKIQKGKADLLQLDLLAKLSLSLARAQMPVPASMILRLMLGRE 123
           L YS++P WLQKAC+LV +I K K+DLL  + L KLSLS ARAQMP+PASM+LR++L RE
Sbjct: 106 LSYSSDPRWLQKACNLVSQIFKEKSDLLPTETLTKLSLSFARAQMPIPASMVLRVILERE 165

Query: 124 NLPCSDLLLLVFVHMVKTEIGTCLASNFLIQLCDVFLHLSAEKSNGAELIKPDTMIFNLV 183
           N P   LL L+  HMVKTE+GTCLASNFLIQ+C+  L +SA +++ A++IK DT+IFNLV
Sbjct: 166 NTPAVSLLRLIVFHMVKTEVGTCLASNFLIQICECLLRISANRNDHAKVIKLDTLIFNLV 225

Query: 184 LHACVRFGSSLKGQHIMELMSQTGVVADAHSIIILAQIHEMNCQRDELKKFKCYIDQLST 243
           L  CVRF SSLKGQ ++E MS+TG++ADAHS++I+A+I+EMN  RDE+KKFK +IDQ+S 
Sbjct: 226 LEGCVRFKSSLKGQELVEWMSRTGIIADAHSVVIIAEIYEMNGLRDEIKKFKDHIDQVSA 285

Query: 244 PFAHHYQQFYESLLSLHFKFDDIDAAGELILDMNRYREPLPNPKLRQDAQKPYLISIGSP 303
           PF  HYQQ YE LL+LHF+FDD+DAA EL+LDMNR+R   PN K + D QKP L+SIGS 
Sbjct: 286 PFVCHYQQLYEVLLNLHFEFDDLDAASELVLDMNRFRGLNPNKKPKND-QKPCLVSIGSQ 344

Query: 304 NLRCGLKLQIMPELLEKDSILKMEGKQELVLFRNGKLLHSNRAMAKLINGYKKHGKNSEL 363
           NLR GLK+QI+PE+L+K+S++++E  + L+  +NGKLL SNRA+A  I+GYK+ G+ SEL
Sbjct: 345 NLRAGLKIQILPEVLQKESVIRVEHGKGLLSSKNGKLLLSNRALANFIHGYKRQGRISEL 404

Query: 364 SWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTYKSLLT 423
           + +LLS++K+  + GES+LCSDVI A   LG+LE AHDILDDME AG P   TTY  LLT
Sbjct: 405 TKVLLSMQKDFQTIGESSLCSDVIGACACLGWLETAHDILDDMETAGSPCSLTTYMVLLT 464

Query: 424 AYYKVKMFREAEALLKQMRKSCLVQNLSCEMVVSERFSEVADKSASFTDTSSLMDKSDLA 483
           AY   +MF+EA+AL++Q+RK+ L++NLS EMV      E AD      ++SS + KSDLA
Sbjct: 465 AYRSREMFKEADALVRQLRKAGLIKNLSVEMVAFTSLLERAD------NSSSSLSKSDLA 518

Query: 484 ESLIQEMREEAALS-TIYKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRPTVETFYYLVY 542
           + +IQE REE  ++ T+++LNSSIYFFCK KM+GDALKIYR+MQ   I+PTV+TF YLVY
Sbjct: 519 DFIIQETREEKEVTPTVHELNSSIYFFCKAKMMGDALKIYRKMQMKGIQPTVQTFAYLVY 578

Query: 543 GHSSLEMYRDITILWGDIKRNIESGVLAVSRDLYETLLLNFLQGGYFERVMEVIGYMKKQ 602
           G+SSL  YRDITILWGDIKRN+++    VSRDLYE LL+NFL+GGYFERVMEV GYMK+ 
Sbjct: 579 GYSSLGSYRDITILWGDIKRNMKNRNFLVSRDLYELLLVNFLRGGYFERVMEVAGYMKEC 638

Query: 603 NMYVDKLMYKSEFLKHHKHLYRRLKVSNARTEAQSKRLVNVQAFRKWAGID 653
            MY DK MYKSEFLK HK+LY+ LK S+ R E Q KRL  VQ FRKW GID
Sbjct: 639 KMYTDKWMYKSEFLKLHKNLYKCLKASDTRNEVQRKRLEFVQTFRKWVGID 689

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449461311|ref|XP_004148385.1| PREDICTED: pentatricopeptide repeat-containing protein At4g17616-like [Cucumis sativus] gi|449530891|ref|XP_004172425.1| PREDICTED: pentatricopeptide repeat-containing protein At4g17616-like [Cucumis sativus]

 Score =  681 bits (1757), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 351/649 (54%), Positives = 462/649 (71%), Gaps = 5/649 (0%)

Query: 4   SSSVQQEKLSWEGSSREVLLRKLESASKNHQVGEAWETFNDFQRLHGIPERHVVNRFITD 63
           S+ V   KL W GSS +VLL KLE A K+HQ+ EAWE F+DF++L+G P  + +   ++ 
Sbjct: 70  STYVHPTKLCWGGSSYDVLLGKLEIALKDHQIDEAWELFSDFRKLYGFPNDNFLLMLVSQ 129

Query: 64  LCYSAEPHWLQKACDLVLKIQKGKADLLQLDLLAKLSLSLARAQMPVPASMILRLMLGRE 123
           L Y+++   L KA +LVL+  K K  +LQLD L KL L LAR+QMP+PAS ILRLML   
Sbjct: 130 LSYTSDCKRLHKAYNLVLQNWKEKPVVLQLDTLTKLVLGLARSQMPIPASEILRLMLQTR 189

Query: 124 NLPCSDLLLLVFVHMVKTEIGTCLASNFLIQLCDVFLHLSAEKSNGAELIKPDTMIFNLV 183
            LP  +LL LV +HMVK+E+GT LASN L+Q+CD FL  +  +++ A+ +KPDTM+FNLV
Sbjct: 190 RLPRMELLQLVILHMVKSEVGTYLASNILVQICDCFLQQATSRNDQAKSMKPDTMLFNLV 249

Query: 184 LHACVRFGSSLKGQHIMELMSQTGVVADAHSIIILAQIHEMNCQRDELKKFKCYIDQLST 243
           LHACVRF  S KGQ ++ELMSQT VVADAH+I+++A+I+EMN QRDELK  K +IDQ+S 
Sbjct: 250 LHACVRFKLSFKGQQLVELMSQTEVVADAHTIVLIARIYEMNDQRDELKNLKTHIDQVSP 309

Query: 244 PFAHHYQQFYESLLSLHFKFDDIDAAGELILDMNRYREPLPNPKLRQDAQKPYLISIGSP 303
               HY QFY++LLSLHFK+DD D+A  L+L++ R+ E     K  ++ QK   + IGS 
Sbjct: 310 SLVCHYCQFYDALLSLHFKYDDFDSAANLMLEICRFGESNSIQKHWRELQKSSFLPIGSR 369

Query: 304 NLRCGLKLQIMPELLEKDSILKMEGKQELVLFRNGKLLHSNRAMAKLINGYKKHGKNSEL 363
           +L+ GLK++IMPELL++DS+L +E K E + ++NGKL+ SN+ +AK I   ++ G+ SEL
Sbjct: 370 HLKDGLKIKIMPELLQRDSVLNVEVKPEFINYKNGKLVASNKTVAKFIVELRRVGETSEL 429

Query: 364 SWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTYKSLLT 423
           S LLL ++K   S   S LCSDV+ A I LG+LE AHDILDD+E  G P+DST Y  LL 
Sbjct: 430 SKLLLQVQKGLASVEGSNLCSDVVKACICLGWLETAHDILDDVEAVGSPLDSTVYFLLLK 489

Query: 424 AYYKVKMFREAEALLKQMRKSCLVQNLSCEMVVSERFSEVADKSASFTDTSSLMDKSDLA 483
           AYYK  M REA+ L KQM K  L  + + +M      S     S        +   + L 
Sbjct: 490 AYYKQDMLREADVLQKQMTKVGLSISTTEDMA-----SSTCSSSRILLPNIEVATHTSLV 544

Query: 484 ESLIQEMREEAALSTIYKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRPTVETFYYLVYG 543
           ESLIQEM+E +++S + K NSSIYFFCK KMI DAL+ Y+RMQ++ I+PT +TF  LV+G
Sbjct: 545 ESLIQEMKETSSMSRVLKFNSSIYFFCKAKMIEDALQAYKRMQQLGIQPTAQTFANLVFG 604

Query: 544 HSSLEMYRDITILWGDIKRNIESGVLAVSRDLYETLLLNFLQGGYFERVMEVIGYMKKQN 603
            S L+MYR+ITILWGDIKR ++S  L +SRDLYE LLL F++GGYFERVME++G M++QN
Sbjct: 605 FSYLQMYRNITILWGDIKRRMQSTHLVLSRDLYECLLLCFIRGGYFERVMEIVGRMEEQN 664

Query: 604 MYVDKLMYKSEFLKHHKHLYRRLKVSNARTEAQSKRLVNVQAFRKWAGI 652
           MY DK MYK EFL  HK+LYR LK S A+TEAQ KRL +V+AF+KW GI
Sbjct: 665 MYTDKRMYKREFLMLHKNLYRSLKPSEAKTEAQKKRLEDVRAFKKWVGI 713

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356565393|ref|XP_003550925.1| PREDICTED: pentatricopeptide repeat-containing protein At4g17616-like [Glycine max]

 Score =  679 bits (1753), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 365/652 (55%), Positives = 471/652 (72%), Gaps = 11/652 (1%)

Query: 4   SSSVQQEKLSWEGSSREVLLRKLESASKNHQVGEAWETFNDFQRLHGIPERHVVNRFITD 63
           S+S   E+LSWE S+ E+LL KL+ A +NHQV EAWE+F+DF+ L+G PE H+VN+ I  
Sbjct: 42  STSGHCERLSWERSTEEILLGKLKFALRNHQVQEAWESFHDFRSLYGYPEVHLVNQLIVQ 101

Query: 64  LCYSAEPHWLQKACDLVLKIQKGKADLLQLDLLAKLSLSLARAQMPVPASMILRLMLGRE 123
           L YS+   W++K CDLVL+I + K+ LL  D L KL+LSLAR QM  PAS++LRLML + 
Sbjct: 102 LSYSSNHAWMRKTCDLVLQIVREKSGLLHADTLTKLALSLARLQMTCPASVVLRLMLDKG 161

Query: 124 NLPCSDLLLLVFVHMVKTEIGTCLASNFLIQLCDVFLHLSAEKSNGAELIKPDTMIFNLV 183
            +P   LL LV  H+ KTEIGT LASN+L Q+CD +  L+ +K N A  ++ DT++FNLV
Sbjct: 162 CVPSMHLLSLVVFHIAKTEIGTYLASNYLFQVCDFYNCLNDKKGNHAVKVELDTLVFNLV 221

Query: 184 LHACVRFGSSLKGQHIMELMSQTGVVADAHSIIILAQIHEMNCQRDELKKFKCYIDQLST 243
           L ACVRF  SLKG  ++ELMS TG VADAHSI+I++QI EMN  RDELK+ K +I ++S+
Sbjct: 222 LDACVRFKLSLKGLSLIELMSMTGTVADAHSIVIISQILEMNGLRDELKELKDHIGRVSS 281

Query: 244 PFAHHYQQFYESLLSLHFKFDDIDAAGELILDMNRYREPLPNPKLRQDAQKPYLISIGSP 303
            +  HY+QFY+SLLSLHFKF+DIDAA +L+LDM          +  +  QKP  I+IGSP
Sbjct: 282 VYVWHYRQFYDSLLSLHFKFNDIDAAAKLVLDMTSSHNYDVKKECEKHLQKPCFIAIGSP 341

Query: 304 NLRCGLKLQIMPELLEKDSILKMEGKQELVLFRNGKLLHSNRAMAKLINGYKKHGKNSEL 363
            LR  LK+ I PELL KDS+LK+E +Q+L+ ++ GKL+ SN A+AK I+GYKK+G+  EL
Sbjct: 342 FLRTVLKIHIEPELLHKDSVLKVESRQDLIFYKGGKLVLSNSALAKFISGYKKYGRIGEL 401

Query: 364 SWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTYKSLLT 423
           S LLLSI+ E +S   S+LCSDVI A IQLG+LE AHDILDD+E  G PM   TY  L++
Sbjct: 402 SKLLLSIQGELNSVAGSSLCSDVIGACIQLGWLECAHDILDDVEATGSPMGRDTYMLLVS 461

Query: 424 AYYKVKMFREAEALLKQMRKSCLVQNLSCEMVVSERFSEVADKSASFTDTSSLMDKSDLA 483
           AY K  M RE +ALLKQM+K  L + LS + +      E         +T + + K+DLA
Sbjct: 462 AYQKGGMQRETKALLKQMKKVGLDKGLSDDAIDEHNLCE---------ETLNSLGKADLA 512

Query: 484 ESLIQEMREE--AALSTIYKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRPTVETFYYLV 541
            +L+Q +++E       +Y LNSSI+FFCK  MI DAL+ YRRM +MKI+PT +TF +L+
Sbjct: 513 IALVQILKDEDQTVFPLVYNLNSSIFFFCKAGMIEDALRAYRRMVDMKIQPTSQTFAFLM 572

Query: 542 YGHSSLEMYRDITILWGDIKRNIESGVLAVSRDLYETLLLNFLQGGYFERVMEVIGYMKK 601
            G+SSL MYR+ITILWGDIKR + SG L  +RDLYE LLLNFL+GGYFERV+EVI +M+ 
Sbjct: 573 CGYSSLGMYREITILWGDIKRFMRSGNLVGNRDLYELLLLNFLRGGYFERVLEVISHMRD 632

Query: 602 QNMYVDKLMYKSEFLKHHKHLYRRLKVSNARTEAQSKRLVNVQAFRKWAGID 653
            NMY DK MYK+EFL+ HK+LYR LK SN RTEAQSKRL +VQ FRKW GID
Sbjct: 633 HNMYPDKWMYKNEFLRLHKNLYRSLKASNTRTEAQSKRLEHVQEFRKWVGID 684

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|186511969|ref|NP_001119002.1| pentatricopeptide repeat-containing protein [Arabidopsis thaliana] gi|223635613|sp|B3H672.1|PP317_ARATH RecName: Full=Pentatricopeptide repeat-containing protein At4g17616 gi|332658523|gb|AEE83923.1| pentatricopeptide repeat-containing protein [Arabidopsis thaliana]

 Score =  642 bits (1657), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 335/656 (51%), Positives = 465/656 (70%), Gaps = 25/656 (3%)

Query: 2   FCSSSVQQEKLSWEGSSREVLLRKLESASKNHQVGEAWETFNDFQRLHGIPERHVVNRFI 61
           FC+S V+  +L+WE SS+ +L +KLE+A K+H+V +AW+ F DF+RL+G PE  ++NRF+
Sbjct: 38  FCTS-VKPARLNWEVSSQVILKKKLETALKDHRVDDAWDVFKDFKRLYGFPESVIMNRFV 96

Query: 62  TDLCYSAEPHWLQKACDLVLKIQKGKADLLQLDLLAKLSLSLARAQMPVPASMILRLMLG 121
           T L YS++  WL KA DL     K    +L  D+L KLSLSLARAQM   A  ILR+ML 
Sbjct: 97  TVLSYSSDAGWLCKASDLTRLALKQNPGMLSGDVLTKLSLSLARAQMVESACSILRIMLE 156

Query: 122 RENLPCSDLLLLVFVHMVKTEIGTCLASNFLIQLCDVFLHLSAEKSNGA--ELIKPDTMI 179
           +  +  SD+L LV +HMVKTEIGTCLASN+L+Q+CD F+  +  K N +   ++KPDT++
Sbjct: 157 KGYVLTSDVLRLVVMHMVKTEIGTCLASNYLVQVCDRFVEFNVGKRNSSPGNVVKPDTVL 216

Query: 180 FNLVLHACVRFGSSLKGQHIMELMSQTGVVADAHSIIILAQIHEMNCQRDELKKFKCYID 239
           FNLVL +CVRFG SLKGQ ++ELM++  VVADA+SI+I++ I+EMN  RDEL+KFK +I 
Sbjct: 217 FNLVLGSCVRFGFSLKGQELIELMAKVDVVADAYSIVIMSCIYEMNGMRDELRKFKEHIG 276

Query: 240 QLSTPFAHHYQQFYESLLSLHFKFDDIDAAGELILDMNRYREPLPNPKLRQDAQKPYLIS 299
           Q+      HYQ F+++LLSL FKFDDI +AG L LDM + +  +    L  D++KP ++ 
Sbjct: 277 QVPPQLLGHYQHFFDNLLSLEFKFDDIGSAGRLALDMCKSKVLVSVENLGFDSEKPRVLP 336

Query: 300 IGSPNLRCGLKLQIMPELLEKDSILKMEGKQELVLFRNGKLLHSNRAMAKLINGYKKHGK 359
           +GS ++R GLK+ I P+LL++DS L ++ +   V + N KL  +N+ +AKL+ GYK+H  
Sbjct: 337 VGSHHIRSGLKIHISPKLLQRDSSLGVDTEATFVNYSNSKLGITNKTLAKLVYGYKRHDN 396

Query: 360 NSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTYK 419
             ELS LL S+       G S LC+DVIDA + +G+LEAAHDILDDM  AG+PM+  TY+
Sbjct: 397 LPELSKLLFSL-------GGSRLCADVIDACVAIGWLEAAHDILDDMNSAGYPMELATYR 449

Query: 420 SLLTAYYKVKMFREAEALLKQMRKSCLVQNLSCEMVVSERFSEVADKSASFTDTSSLMDK 479
            +L+ YYK KM R AE LLKQM K+ L+ + S E+VVS    E  +K +         + 
Sbjct: 450 MVLSGYYKSKMLRNAEVLLKQMTKAGLITDPSNEIVVS---PETEEKDS---------EN 497

Query: 480 SDLAESLIQEM---REEAALSTIYKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRPTVET 536
           ++L + L+QE+   ++  A S +Y+LNSS+Y+FCK KM GDAL  YR++ +MKI PTV++
Sbjct: 498 TELRDLLVQEINAGKQMKAPSMLYELNSSLYYFCKAKMQGDALITYRKIPKMKIPPTVQS 557

Query: 537 FYYLVYGHSSLEMYRDITILWGDIKRNIESGVLAVSRDLYETLLLNFLQGGYFERVMEVI 596
           F+ L+  +SSL MYR+ITI+WGDIKRNI S  L  ++DL E L++NFL+GGYFERVME+I
Sbjct: 558 FWILIDMYSSLGMYREITIVWGDIKRNIASKNLKTTQDLLEKLVVNFLRGGYFERVMELI 617

Query: 597 GYMKKQNMYVDKLMYKSEFLKHHKHLYRRLKVSNARTEAQSKRLVNVQAFRKWAGI 652
            YMK+ +MY D  MYK+E+LK HK+LYR LK S+A TEAQ++RL +V+ FRK  GI
Sbjct: 618 SYMKENDMYNDLTMYKNEYLKLHKNLYRTLKASDAVTEAQAQRLEHVKTFRKLVGI 673

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297804420|ref|XP_002870094.1| hypothetical protein ARALYDRAFT_354992 [Arabidopsis lyrata subsp. lyrata] gi|297315930|gb|EFH46353.1| hypothetical protein ARALYDRAFT_354992 [Arabidopsis lyrata subsp. lyrata]

 Score =  629 bits (1621), Expect = e-177,   Method: Compositional matrix adjust.
 Identities = 330/656 (50%), Positives = 464/656 (70%), Gaps = 25/656 (3%)

Query: 2   FCSSSVQQEKLSWEGSSREVLLRKLESASKNHQVGEAWETFNDFQRLHGIPERHVVNRFI 61
           FC+S ++  +LSWE SS+ +L +KLE+A K+H+V +AW+ F DF+RL+G PE  ++NRF+
Sbjct: 74  FCTS-IEPARLSWEVSSQVILKKKLETALKDHRVDDAWDVFKDFKRLYGFPESVIMNRFV 132

Query: 62  TDLCYSAEPHWLQKACDLVLKIQKGKADLLQLDLLAKLSLSLARAQMPVPASMILRLMLG 121
           T L YS++  WL KA DL     K    +L  D+L KLSLSLARAQM   A  ILR+ML 
Sbjct: 133 TVLSYSSDSGWLCKASDLTRLALKQNPGMLSGDVLTKLSLSLARAQMVESACSILRIMLE 192

Query: 122 RENLPCSDLLLLVFVHMVKTEIGTCLASNFLIQLCDVFLHLSAEKSN--GAELIKPDTMI 179
           ++ +  SD+L LV +H+VKTE+GTCLASN+L+Q+CD F+ L+  K N     ++KPDT +
Sbjct: 193 KDFVLTSDVLRLVVMHLVKTEVGTCLASNYLVQVCDRFVELNVGKRNSSAGNVVKPDTAL 252

Query: 180 FNLVLHACVRFGSSLKGQHIMELMSQTGVVADAHSIIILAQIHEMNCQRDELKKFKCYID 239
           FNLVL +CVRFG SLKGQ ++ELM++  VVADA+SI+I++ I+EMN  RDEL+KFK +I 
Sbjct: 253 FNLVLGSCVRFGFSLKGQELIELMAKVDVVADAYSIVIMSCIYEMNGMRDELRKFKEHIG 312

Query: 240 QLSTPFAHHYQQFYESLLSLHFKFDDIDAAGELILDMNRYREPLPNPKLRQDAQKPYLIS 299
           Q+      HY+  +++LLSL FKFDDI +AG L+LDM + ++ +    L  D++KP ++ 
Sbjct: 313 QVPPQLLCHYRHLFDNLLSLEFKFDDIRSAGRLVLDMCKSKDLVSVQNLGFDSEKPRVLP 372

Query: 300 IGSPNLRCGLKLQIMPELLEKDSILKMEGKQELVLFRNGKLLHSNRAMAKLINGYKKHGK 359
           +GS ++R GLK+ I P+LL++DS L ++ +   V F N KL  +N+ +AKL+ G+K+H  
Sbjct: 373 VGSHHIRSGLKIHISPKLLQRDSSLGVDTEATFVNFSNSKLGITNKTLAKLVYGHKRHDI 432

Query: 360 NSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTYK 419
             ELS LL S+       G S LC+DVIDA + + +LEAAHDILD M  AGHPM+  TY+
Sbjct: 433 LPELSKLLFSL-------GGSRLCADVIDACVTIDWLEAAHDILDVMVSAGHPMELATYR 485

Query: 420 SLLTAYYKVKMFREAEALLKQMRKSCLVQNLSCEMVVSERFSEVADKSASFTDTSSLMDK 479
            +L+ YYK  M R AE LLKQM K+ L+ + S E+VVS   +E  D+           + 
Sbjct: 486 KVLSGYYKSNMLRNAEVLLKQMTKAGLITDPSNEIVVSPE-TEEKDR-----------EN 533

Query: 480 SDLAESLIQEM---REEAALSTIYKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRPTVET 536
           ++L + L+QE+   ++E   S +Y+LNSS+Y+FCK +M GDA+  YR++ +MKI PTV++
Sbjct: 534 TELRDLLVQEINAGKQEKVPSMLYELNSSLYYFCKARMQGDAIITYRKIPKMKIPPTVQS 593

Query: 537 FYYLVYGHSSLEMYRDITILWGDIKRNIESGVLAVSRDLYETLLLNFLQGGYFERVMEVI 596
           F+ L+  +SSL MYR+ITI+WGDIKRNI S  L V++DL E L++NFL+GGYFERVMEVI
Sbjct: 594 FWILIDMYSSLGMYREITIVWGDIKRNIASKNLKVTQDLLEKLVVNFLRGGYFERVMEVI 653

Query: 597 GYMKKQNMYVDKLMYKSEFLKHHKHLYRRLKVSNARTEAQSKRLVNVQAFRKWAGI 652
            YMK+ +M  D  MYK+E+LK HK+LYR LK S+A TEAQ++RL +V+AFRK  GI
Sbjct: 654 SYMKENDMINDLTMYKNEYLKLHKNLYRTLKASDAVTEAQAQRLEHVKAFRKLVGI 709

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359496585|ref|XP_003635270.1| PREDICTED: LOW QUALITY PROTEIN: pentatricopeptide repeat-containing protein At4g17616-like, partial [Vitis vinifera]

 Score =  568 bits (1464), Expect = e-159,   Method: Compositional matrix adjust.
 Identities = 299/484 (61%), Positives = 356/484 (73%), Gaps = 28/484 (5%)

Query: 170 AELIKPDTMIFNLVLHACVRFGSSLKGQHIMELMSQTGVVADAHSIIILAQIHEMNCQRD 229
           A+LIKPDTMIFN+VL  CVR GSS KGQ I+ELM Q  V ADAHSI+I+AQIHE+N QR 
Sbjct: 2   AKLIKPDTMIFNIVLDGCVRCGSSFKGQQIIELMPQVXVGADAHSIVIIAQIHEINGQRL 61

Query: 230 ELKKFKCYIDQLSTPFAHHYQQFYESLLSLHFKFDDIDAAGELILDMNRYREPLPNPKLR 289
           +LKKFKC+IDQ+S     HY++FY+SLLSLHF F+DID A  L+LDM R R+ L   K R
Sbjct: 62  DLKKFKCHIDQVSIQLLRHYRKFYDSLLSLHFTFNDIDDAAGLVLDMCRCRDSLSIRKDR 121

Query: 290 QDAQKPYLISIGSPNLRCGLKLQIMPELLEKDSILKMEGKQELVLFRNGKLLHSNRAMAK 349
            ++ K  L  IGS +LR GLK+QI+PELL+KDS+ KM+ KQELVLF NGK + SN+A+ K
Sbjct: 122 NESYKTCLGPIGSYHLREGLKIQIVPELLQKDSVFKMDSKQELVLFSNGKYVLSNKALVK 181

Query: 350 LINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELA 409
           L+  Y+  G+  ELS L+LS++KE  +     L SDVIDA IQLG+LE AH ILDDMELA
Sbjct: 182 LVIAYQGDGRIGELSRLMLSLQKELGTLEGGGLISDVIDACIQLGWLETAHGILDDMELA 241

Query: 410 GHPMDSTTYKSLLTAYYKVKMFREAEALLKQMRKSCLVQNLSCEMVVSERFSEVADKSAS 469
           G P+ S+TY SLLTAYYK KM REA+ALLKQMRK+  V +LS EMV+             
Sbjct: 242 GAPIGSSTYMSLLTAYYKGKMAREAKALLKQMRKAGFVVDLSDEMVM------------- 288

Query: 470 FTDTSSLMDKSDLAESLIQEMREEAALSTIYKLNSSIYFFCKGKMIGDALKIYRRMQEMK 529
              T+ L+              E+  L  +Y+ NSSIYFFCK K I DAL+IYRRMQE +
Sbjct: 289 ---TTCLLGV------------EKTILPVVYEFNSSIYFFCKAKKIDDALRIYRRMQETE 333

Query: 530 IRPTVETFYYLVYGHSSLEMYRDITILWGDIKRNIESGVLAVSRDLYETLLLNFLQGGYF 589
           I PTV+T   LVYG+S L MYR+ITILWG+IKR+ ESG L V RDLYE L+LNFL+GGYF
Sbjct: 334 IEPTVQTSINLVYGYSCLNMYREITILWGNIKRSRESGSLVVCRDLYEFLVLNFLRGGYF 393

Query: 590 ERVMEVIGYMKKQNMYVDKLMYKSEFLKHHKHLYRRLKVSNARTEAQSKRLVNVQAFRKW 649
           ERVMEVIG+MK+QNMY DK MYKSEFLK HK LYR LK SN RTEAQSKRL  V+AFRKW
Sbjct: 394 ERVMEVIGHMKEQNMYCDKWMYKSEFLKFHKDLYRNLKASNTRTEAQSKRLEYVEAFRKW 453

Query: 650 AGID 653
           AGID
Sbjct: 454 AGID 457

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|2245120|emb|CAB10542.1| hypothetical protein [Arabidopsis thaliana] gi|7268514|emb|CAB78765.1| hypothetical protein [Arabidopsis thaliana]

 Score =  568 bits (1464), Expect = e-159,   Method: Compositional matrix adjust.
 Identities = 313/657 (47%), Positives = 436/657 (66%), Gaps = 61/657 (9%)

Query: 2   FCSSSVQQEKLSWEGSSREVLLRKLESASKNHQVGEAWETFNDFQRLHGIPERHVVNRFI 61
           FC+S V+  +L+WE SS+ +L +KLE+A K+H+V +AW+ F DF+RL+G PE  ++NRF+
Sbjct: 80  FCTS-VKPARLNWEVSSQVILKKKLETALKDHRVDDAWDVFKDFKRLYGFPESVIMNRFV 138

Query: 62  TDLCYSAEPHWLQKACDLVLKIQKGKADLLQLDLLAKLSLSLARAQMPVPASMILRLMLG 121
           T L YS++  WL KA DL     K    +L  D+L KLSLSLARAQM   A  ILR+ML 
Sbjct: 139 TVLSYSSDAGWLCKASDLTRLALKQNPGMLSGDVLTKLSLSLARAQMVESACSILRIMLE 198

Query: 122 RENLPCSDLLLLVFVHMVKTEIGTCLASNFLIQLCDVFLHLSAEKSNGA--ELIKPDTMI 179
           +  +  SD+L LV +HMV                CD F+  +  K N +   ++KPDT++
Sbjct: 199 KGYVLTSDVLRLVVMHMV----------------CDRFVEFNVGKRNSSPGNVVKPDTVL 242

Query: 180 FNLVLHACVRFGSSLKGQHIMELMSQTGVVADAHSIIILAQIHEMNCQRDELKKFKCYID 239
           FNLVL +CVRFG SLKGQ ++ELM++  VVADA+SI+I++ I+EMN  RDEL+KFK +I 
Sbjct: 243 FNLVLGSCVRFGFSLKGQELIELMAKVDVVADAYSIVIMSCIYEMNGMRDELRKFKEHIG 302

Query: 240 QLSTPFAHHYQQFYESLLSLHFKFDDIDAAGELILDMNRYREPLPNPKLRQDAQKPYLIS 299
           Q                    FKFDDI +AG L LDM + +  +    L  D++KP ++ 
Sbjct: 303 Q--------------------FKFDDIGSAGRLALDMCKSKVLVSVENLGFDSEKPRVLP 342

Query: 300 IGSPNLRCGLKLQIMPELLEKDSILKMEGKQELVLFRNGKLLHSNRAMAKLINGYKKHGK 359
           +GS ++R GLK+ I P+LL++DS L ++ +   V + N KL  +N+ +AKL+ GYK+H  
Sbjct: 343 VGSHHIRSGLKIHISPKLLQRDSSLGVDTEATFVNYSNSKLGITNKTLAKLVYGYKRHDN 402

Query: 360 NSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTYK 419
             ELS LL S+       G S LC+DVIDA + +G+LEAAHDILDDM  AG+PM+  TY+
Sbjct: 403 LPELSKLLFSL-------GGSRLCADVIDACVAIGWLEAAHDILDDMNSAGYPMELATYR 455

Query: 420 SLLTAYYKVKMFREAEALLKQMRKSCLVQNLSCEMVVSERFSEVADKSASFTDTSSLMDK 479
            +L+ YYK KM R AE LLKQM K+ L+ + S E+VVS    E  +K +         + 
Sbjct: 456 MVLSGYYKSKMLRNAEVLLKQMTKAGLITDPSNEIVVS---PETEEKDS---------EN 503

Query: 480 SDLAESLIQEM---REEAALSTIYKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRPTVET 536
           ++L + L+QE+   ++  A S +Y+LNSS+Y+FCK KM GDAL  YR++ +MKI PTV++
Sbjct: 504 TELRDLLVQEINAGKQMKAPSMLYELNSSLYYFCKAKMQGDALITYRKIPKMKIPPTVQS 563

Query: 537 FYYLVYGHSSLEMYRDITILWGDIKRNIESGVLAVSRDLYETLLLNFLQGGYFERVMEVI 596
           F+ L+  +SSL MYR+ITI+WGDIKRNI S  L  ++DL E L++NFL+GGYFERVME+I
Sbjct: 564 FWILIDMYSSLGMYREITIVWGDIKRNIASKNLKTTQDLLEKLVVNFLRGGYFERVMELI 623

Query: 597 GYMKKQNMYVDKLMYKSEFLKHHKHLYRRLKVSNARTEAQSKRLVNVQAFRKWAGID 653
            YMK+ +MY D  MYK+E+LK HK+LYR LK S+A TEAQ++RL +V+ FRK    D
Sbjct: 624 SYMKENDMYNDLTMYKNEYLKLHKNLYRTLKASDAVTEAQAQRLEHVKTFRKLVEFD 680

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147766554|emb|CAN69520.1| hypothetical protein VITISV_018331 [Vitis vinifera]

 Score =  537 bits (1384), Expect = e-150,   Method: Compositional matrix adjust.
 Identities = 283/431 (65%), Positives = 331/431 (76%), Gaps = 3/431 (0%)

Query: 225 NCQRDELKKFKCYIDQLSTPFAHHYQQFYESLLSLHFKFDDIDAAGELILDMNRYREPLP 284
           N QRD+LKKFKC+IDQ+S   A HY QFY+SLLSLHFKF+DID A  L+LDM R  + L 
Sbjct: 15  NGQRDDLKKFKCHIDQVSIQLACHYWQFYDSLLSLHFKFNDIDGAAGLVLDMCRCWDSLS 74

Query: 285 NPKLRQDAQKPYLISIGSPNLRCGLKLQIMPELLEKDSILKMEGKQELVLFRNGKLLHSN 344
             K R D  K  L+ I S  L+ GLKLQI+PELL+KDS+ KM+ KQEL+LFRNGK + SN
Sbjct: 75  IQKDRNDPHKTCLVPIESYYLKEGLKLQIVPELLQKDSVFKMDSKQELLLFRNGKYVLSN 134

Query: 345 RAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILD 404
           +A+AKLI  YK+ G+  ELS L+LS++KE  +  E  L SDVIDA IQLG+LE AHDILD
Sbjct: 135 KALAKLIIAYKRDGRIGELSRLMLSLQKELGTL-EGGLISDVIDACIQLGWLETAHDILD 193

Query: 405 DMELAGHPMDSTTYKSLLTAYYKVKMFREAEALLKQMRKSCLVQNLSCEMVVSERFSEVA 464
           DMELAG P  S TY SLLTAYYK KM REA+ALLKQMRK+ L+ +LS EMV++   S V 
Sbjct: 194 DMELAGAPASSITYMSLLTAYYKGKMVREAKALLKQMRKAGLIVDLSDEMVMTTCLSGVV 253

Query: 465 DKSASFTDTSSLMDKSDLAESLIQEMR--EEAALSTIYKLNSSIYFFCKGKMIGDALKIY 522
           DK+   T TS+ + KS LAESL++EM+  E+A L  +YK NSSIYFFCK KMI DAL+IY
Sbjct: 254 DKNRMHTRTSTSIWKSGLAESLVREMKKQEKAILPVVYKFNSSIYFFCKAKMIDDALRIY 313

Query: 523 RRMQEMKIRPTVETFYYLVYGHSSLEMYRDITILWGDIKRNIESGVLAVSRDLYETLLLN 582
            RMQEMKI PTV+TF  LVYG+S L MYR+ITILWGDIK + +SG L V RDLYE L+LN
Sbjct: 314 GRMQEMKIEPTVQTFINLVYGYSCLNMYREITILWGDIKSSRKSGSLVVCRDLYEFLVLN 373

Query: 583 FLQGGYFERVMEVIGYMKKQNMYVDKLMYKSEFLKHHKHLYRRLKVSNARTEAQSKRLVN 642
           FL+GGYFERVMEVIG MK+QNMY DK MYK EFLK HK LYR LK SN RTEAQSKRL  
Sbjct: 374 FLRGGYFERVMEVIGCMKEQNMYCDKWMYKREFLKFHKDLYRNLKASNTRTEAQSKRLEY 433

Query: 643 VQAFRKWAGID 653
           V+AFR WAGID
Sbjct: 434 VEAFRTWAGID 444

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|89257692|gb|ABD65179.1| pentatricopeptide (PPR) repeat-containing protein [Brassica oleracea]

 Score =  530 bits (1364), Expect = e-147,   Method: Compositional matrix adjust.
 Identities = 287/600 (47%), Positives = 407/600 (67%), Gaps = 38/600 (6%)

Query: 57  VNRFITDLCYSAEPHWLQKACDLVLKIQKGKADLLQLDLLAKLSLSLARAQMPVPASMIL 116
           +NRF+T   YS++  WL KA DL     K  + L+  D L KL LSLARAQM   A  IL
Sbjct: 1   MNRFVTVFSYSSDSAWLCKADDLSRLALKQNSGLVNSDALTKLLLSLARAQMSESACNIL 60

Query: 117 RLMLGRENLPCSDLLLLVFVHMVKTEIGTCLASNFLIQLCDVFLHLSAEKSNGAELIKPD 176
           R ML +  +   D+L LV +HMVKTE+GTCLASN+L+Q+C  F+ L   K N + ++KPD
Sbjct: 61  RTMLEKGFVLTPDVLRLVVMHMVKTEVGTCLASNYLVQVCHRFMEL---KRN-SNVMKPD 116

Query: 177 TMIFNLVLHACVRFGSSLKGQHIMELMSQTGVVADAHSIIILAQIHEMNCQRDELKKFKC 236
           T++FNLVL +CVRFG SLKGQ ++ELM++  VVAD HSI+I++ ++EMN  RDELKK K 
Sbjct: 117 TVLFNLVLGSCVRFGFSLKGQELIELMAKADVVADGHSIVIMSCVYEMNGMRDELKKLKE 176

Query: 237 YIDQLSTPFAHHYQQFYESLLSLHFKFDDIDAAGELILDMNRYREPLPNPKLRQDAQKPY 296
            I  + +    HY++ Y++LLSL FKFDDI +AG L+LD+ +  + LP+    Q+ +K  
Sbjct: 177 GIGHVPSQLLCHYRRLYDNLLSLEFKFDDIGSAGRLVLDICKKSKDLPSV---QNLEKVM 233

Query: 297 LISIGSPNLRCGLKLQIMPELLEKDSILKMEGKQELVLFRNGKLLHSNRAMAKLINGYKK 356
           ++ +GS ++R GLK++I PE+L++DS L ++ +   V   + KL  +N+ +AKL+ GYK+
Sbjct: 234 VLPVGSHHIRSGLKIRISPEILQRDSSLGVDSEATFVSCADSKLGVTNKTLAKLVYGYKR 293

Query: 357 HGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDST 416
                ELS LL S+       G + LC+DVIDA + +G+LEAAHDILDD+  AG+PMD  
Sbjct: 294 RENLPELSKLLFSV-------GGTKLCADVIDACVAVGWLEAAHDILDDLVSAGNPMDLV 346

Query: 417 TYKSLLTAYYKVKMFREAEALLKQMRKSCLVQNLSCEMVVSERFSEVADKSASFTDTSSL 476
           TY+ +L+ Y+K KM R AE L++QM K+ LV + S          E+ D           
Sbjct: 347 TYRKVLSGYHKSKMLRNAEVLVRQMTKAGLVTDPS---------DEIKD----------- 386

Query: 477 MDKSDLAESLIQEMR---EEAALSTIYKLNSSIYFFCKGKMIGDALKIYRRMQEMK-IRP 532
            + ++L   L+QE+    +    S +Y+LNSS+Y+FCK KM GDA+  YR++Q+MK I P
Sbjct: 387 CENTELRALLVQEINAGEQTKVPSMLYELNSSLYYFCKAKMQGDAVTTYRKIQKMKTISP 446

Query: 533 TVETFYYLVYGHSSLEMYRDITILWGDIKRNIESGVLAVSRDLYETLLLNFLQGGYFERV 592
           TV++++ LV  +SSL MYR+IT+ WGDIKRN+ S  L V++DL E L++NFL+GGYFERV
Sbjct: 447 TVQSYWILVDMYSSLSMYREITVAWGDIKRNVASRELEVTQDLLEKLVVNFLRGGYFERV 506

Query: 593 MEVIGYMKKQNMYVDKLMYKSEFLKHHKHLYRRLKVSNARTEAQSKRLVNVQAFRKWAGI 652
           MEVI  MK++ MY D  MYK+E+LK H++LYR LK ++A TEAQ++R+ +V+AFRK  GI
Sbjct: 507 MEVISCMKEKGMYNDVAMYKNEYLKVHRNLYRTLKAADAVTEAQAQRVEHVKAFRKLVGI 566

Source: Brassica oleracea

Species: Brassica oleracea

Genus: Brassica

Family: Brassicaceae

Order: Brassicales

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	653
TAIR|locus:4515103412	674	AT4G17616 "AT4G17616" [Arabido	0.966	0.936	0.490	3.3e-157
TAIR|locus:2007549	793	AT1G03100 "AT1G03100" [Arabido	0.393	0.324	0.293	1.7e-55
TAIR|locus:2026454	658	AT1G69290 "AT1G69290" [Arabido	0.289	0.287	0.289	1.8e-25
TAIR|locus:2205440	619	AT1G68980 "AT1G68980" [Arabido	0.375	0.395	0.243	3.8e-24
TAIR|locus:2061310	918	GUN1 "AT2G31400" [Arabidopsis	0.375	0.266	0.255	1.4e-09
TAIR|locus:2074924	778	HCF152 "HIGH CHLOROPHYLL FLUOR	0.261	0.219	0.235	1.8e-09
TAIR|locus:2015218	590	AT1G63070 [Arabidopsis thalian	0.369	0.408	0.245	1.1e-08
TAIR|locus:2173403	730	AT5G64320 "AT5G64320" [Arabido	0.393	0.352	0.259	1.7e-08
TAIR|locus:2083976	754	MEE40 "maternal effect embryo	0.220	0.190	0.284	7.6e-07
TAIR|locus:2038451	323	AT1G63230 [Arabidopsis thalian	0.375	0.758	0.219	2.4e-06

TAIR|locus:4515103412 AT4G17616 "AT4G17616" [Arabidopsis thaliana (taxid:3702)]

 Score = 1532 (544.3 bits), Expect = 3.3e-157, P = 3.3e-157
 Identities = 322/656 (49%), Positives = 450/656 (68%)

Query:     2 FCSSSVQQEKLSWEGSSREVLLRKLESASKNHQVGEAWETFNDFQRLHGIPERHVVNRFI 61
             FC+S V+  +L+WE SS+ +L +KLE+A K+H+V +AW+ F DF+RL+G PE  ++NRF+
Sbjct:    38 FCTS-VKPARLNWEVSSQVILKKKLETALKDHRVDDAWDVFKDFKRLYGFPESVIMNRFV 96

Query:    62 TDLCYSAEPHWLQKACDLVLKIQKGXXXXXXXXXXXXXXXXXXXXXMPVPASMILRLMLG 121
             T L YS++  WL KA DL     K                      M   A  ILR+ML 
Sbjct:    97 TVLSYSSDAGWLCKASDLTRLALKQNPGMLSGDVLTKLSLSLARAQMVESACSILRIMLE 156

Query:   122 RENLPCSDLLLLVFVHMVKTEIGTCLASNFLIQLCDVFLHLSAEKSNGA--ELIKPDTMI 179
             +  +  SD+L LV +HMVKTEIGTCLASN+L+Q+CD F+  +  K N +   ++KPDT++
Sbjct:   157 KGYVLTSDVLRLVVMHMVKTEIGTCLASNYLVQVCDRFVEFNVGKRNSSPGNVVKPDTVL 216

Query:   180 FNLVLHACVRFGSSLKGQHIMELMSQTGVVADAHSIIILAQIHEMNCQRDELKKFKCYID 239
             FNLVL +CVRFG SLKGQ ++ELM++  VVADA+SI+I++ I+EMN  RDEL+KFK +I 
Sbjct:   217 FNLVLGSCVRFGFSLKGQELIELMAKVDVVADAYSIVIMSCIYEMNGMRDELRKFKEHIG 276

Query:   240 QLSTPFAHHYQQFYESLLSLHFKFDDIDAAGELILDMNRYREPLPNPKLRQDAQKPYLIS 299
             Q+      HYQ F+++LLSL FKFDDI +AG L LDM + +  +    L  D++KP ++ 
Sbjct:   277 QVPPQLLGHYQHFFDNLLSLEFKFDDIGSAGRLALDMCKSKVLVSVENLGFDSEKPRVLP 336

Query:   300 IGSPNLRCGLKLQIMPELLEKDSILKMEGKQELVLFRNGKLLHSNRAMAKLINGYKKHGK 359
             +GS ++R GLK+ I P+LL++DS L ++ +   V + N KL  +N+ +AKL+ GYK+H  
Sbjct:   337 VGSHHIRSGLKIHISPKLLQRDSSLGVDTEATFVNYSNSKLGITNKTLAKLVYGYKRHDN 396

Query:   360 NSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTYK 419
               ELS LL S+       G S LC+DVIDA + +G+LEAAHDILDDM  AG+PM+  TY+
Sbjct:   397 LPELSKLLFSL-------GGSRLCADVIDACVAIGWLEAAHDILDDMNSAGYPMELATYR 449

Query:   420 SLLTAYYKVKMFREAEALLKQMRKSCLVQNLSCEMVVSERFSEVADKSASFTDTSSLMDK 479
              +L+ YYK KM R AE LLKQM K+ L+ + S E+VVS    E  +K +         + 
Sbjct:   450 MVLSGYYKSKMLRNAEVLLKQMTKAGLITDPSNEIVVSP---ETEEKDS---------EN 497

Query:   480 SDLAESLIQEM---REEAALSTIYKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRPTVET 536
             ++L + L+QE+   ++  A S +Y+LNSS+Y+FCK KM GDAL  YR++ +MKI PTV++
Sbjct:   498 TELRDLLVQEINAGKQMKAPSMLYELNSSLYYFCKAKMQGDALITYRKIPKMKIPPTVQS 557

Query:   537 FYYLVYGHSSLEMYRDITILWGDIKRNIESGVLAVSRDLYETLLLNFLQGGYFERVMEVI 596
             F+ L+  +SSL MYR+ITI+WGDIKRNI S  L  ++DL E L++NFL+GGYFERVME+I
Sbjct:   558 FWILIDMYSSLGMYREITIVWGDIKRNIASKNLKTTQDLLEKLVVNFLRGGYFERVMELI 617

Query:   597 GYMKKQNMYVDKLMYKSEFLKHHKHLYRRLKVSNARTEAQSKRLVNVQAFRKWAGI 652
              YMK+ +MY D  MYK+E+LK HK+LYR LK S+A TEAQ++RL +V+ FRK  GI
Sbjct:   618 SYMKENDMYNDLTMYKNEYLKLHKNLYRTLKASDAVTEAQAQRLEHVKTFRKLVGI 673

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2007549 AT1G03100 "AT1G03100" [Arabidopsis thaliana (taxid:3702)]

 Score = 347 (127.2 bits), Expect = 1.7e-55, Sum P(2) = 1.7e-55
 Identities = 77/262 (29%), Positives = 136/262 (51%)

Query:    22 LLRKLESASKNHQVGEAWETFNDFQRLHGIPERHVVNRFITDLCYSAEPHWLQKACDLVL 81
             L  +++ A   H+  EAW  F    ++ G P + VVN  +     S + +WLQK   LV 
Sbjct:    98 LNEEIQIAVDEHRCDEAWRLFEQHMQMEGFPRKSVVNNVVVCFAESLDSNWLQKGYSLVE 157

Query:    82 KI-QKGXXXXXXXXXXXXXXXXXXXXXMPVPASMILRLMLGRENLPCSDLLLLVFVHMVK 140
             +  ++G                     M VPAS ILR ++  E  P       V  HM  
Sbjct:   158 QAYEEGKQNLLEKEPLLYLSLALAKSGMAVPASTILRKLVETEEYPHVSAWSAVLAHMSL 217

Query:   141 TEIGTCLASNFLIQLCDVFLH--LSAEKSNGAELI--KPDTMIFNLVLHACVRFGSSLKG 196
                G+ L++  ++++  +F +  +   K + A L+  KP+T + N+ L  C+ FG++ K 
Sbjct:   218 AGSGSYLSAELVLEIGYLFHNNRVDPRKKSNAPLLAMKPNTQVLNVALAGCLLFGTTRKA 277

Query:   197 QHIMELMSQTGVVADAHSIIILAQIHEMNCQRDELKKFKCYIDQLSTPFAHHYQQFYESL 256
             + +++++ + GV ADA+ ++I+A I+E N +R+EL+K + +ID+        + QFY  L
Sbjct:   278 EQLLDMIPKIGVKADANLLVIMAHIYERNGRREELRKLQRHIDEACNLNESQFWQFYNCL 337

Query:   257 LSLHFKFDDIDAAGELILDMNR 278
             L  H KF D+++A +++L+M R
Sbjct:   338 LMCHLKFGDLESASKMVLEMLR 359

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2026454 AT1G69290 "AT1G69290" [Arabidopsis thaliana (taxid:3702)]

 Score = 233 (87.1 bits), Expect = 1.8e-25, Sum P(2) = 1.8e-25
 Identities = 59/204 (28%), Positives = 110/204 (53%)

Query:   459 RFSEVADKSASF-TDTSSLMD--KSDLAESLIQEMREEAALST-IYKLNSSIYFFCKGKM 514
             R + V D   S+ T  + L++  + +L  + + E+ E+  +    +  NS I+ FCK   
Sbjct:   460 RENRVVDLKGSYLTIMTGLLENQRPELMAAFLDEVVEDPRVEVNSHDWNSIIHAFCKSGR 519

Query:   515 IGDALKIYRRMQEMKIRPTVETFYYLVYGHSSLEMYRDITILWGDIKRNIESGVLAVSRD 574
             + DA + +RRM  ++  P  +T+  L+ G+ S E Y ++ +LW +IK  I S V A  R 
Sbjct:   520 LEDARRTFRRMVFLRYEPNNQTYLSLINGYVSGEKYFNVLLLWNEIKGKISS-VEAEKRS 578

Query:   575 -----LYETLLLNFLQGGYFERVMEVIGYMKKQNMYVDKLMYKSEFLKHHKHLYRRLKVS 629
                  L +  L   ++GG+F+  M+V+   ++  ++VDK  YK  F++ HK    +L++ 
Sbjct:   579 RLDHALVDAFLYALVKGGFFDAAMQVVEKSQEMKIFVDKWRYKQAFMETHK----KLRLP 634

Query:   630 NARTEAQSKRLVNVQAFRKWAGID 653
               R +   K++ ++ AF+ WAG++
Sbjct:   635 KLR-KRNYKKMESLVAFKNWAGLN 657

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2205440 AT1G68980 "AT1G68980" [Arabidopsis thaliana (taxid:3702)]

 Score = 222 (83.2 bits), Expect = 3.8e-24, Sum P(3) = 3.8e-24
 Identities = 65/267 (24%), Positives = 124/267 (46%)

Query:   386 VIDALIQLGFLEAAHDILDDMELAGHPMDSTTYKSLLTAYYKVKMFREAEALLKQMRKSC 445
             ++ A  + G    A  ++ ++  +G  +D  TY +++ A      F  A  L + MR++ 
Sbjct:   373 ILKAYCKEGRTSEATQLVTEISSSGLQLDVETYNTMIEASMTKHDFLSALTLFRDMRETR 432

Query:   446 LVQNLSCEMVVSERFSEVADKSASFTDTSSLMDKSDLAESLIQEMREEAALSTIYKLNSS 505
             +     C + +     E             LM  ++  E ++++ R E      +  NS 
Sbjct:   433 VADLKRCYLTIMTGLLE--------NQRPELM--AEFVEEVMEDPRVEVKS---HDWNSI 479

Query:   506 IYFFCKGKMIGDALKIYRRMQEMKIRPTVETFYYLVYGHSSLEMYRDITILWGDIKRNIE 565
             I+ FCK   +GDA   +RRM  ++  P  +T+  L+ G+ S E Y ++ ++W + K    
Sbjct:   480 IHAFCKSGRLGDAKSTFRRMTFLQYEPNNQTYLSLINGYVSCEKYFEVVVIWKEFKDKKA 539

Query:   566 SGVLAVSRDLYETLLLNFLQGGYFERVMEVIGYMKKQNMYVDKLMYKSEFLKHHKHLYRR 625
                  +   L +  L   ++GG+F   ++VI   ++  ++VDK  YK+ F++  K+L  R
Sbjct:   540 K----LEHALADAFLNALVKGGFFGTALQVIEKCQEMKIFVDKWRYKATFMETQKNL--R 593

Query:   626 LKVSNARTEAQSKRLVNVQAFRKWAGI 652
             L     R   + K++  + AF+ WA I
Sbjct:   594 LPKLRKR---KMKKIEFLDAFKNWARI 617

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2061310 GUN1 "AT2G31400" [Arabidopsis thaliana (taxid:3702)]

 Score = 165 (63.1 bits), Expect = 1.4e-09, Sum P(2) = 1.4e-09
 Identities = 66/258 (25%), Positives = 118/258 (45%)

Query:   350 LINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELA 409
             L+ GY K GK  E+  +   +K+EH      T  S +ID   + G  + A +I  + + A
Sbjct:   485 LLGGYGKQGKYDEVKKVFTEMKREHVLPNLLTY-STLIDGYSKGGLYKEAMEIFREFKSA 543

Query:   410 GHPMDSTTYKSLLTAYYKVKMFREAEALLKQMRKSCLVQNLSCEMVVSERFSEVA--DKS 467
             G   D   Y +L+ A  K  +   A +L+ +M K  +  N+     + + F   A  D+S
Sbjct:   544 GLRADVVLYSALIDALCKNGLVGSAVSLIDEMTKEGISPNVVTYNSIIDAFGRSATMDRS 603

Query:   468 ASFTDTSSLMDKSDLAESLIQEMREEAALSTIYKL----NSSIYFFCKGKM--IGDALKI 521
             A +++  SL   S  A S + E      +    +L    N+     C+  M  +   L++
Sbjct:   604 ADYSNGGSLPFSSS-ALSALTETEGNRVIQLFGQLTTESNNRTTKDCEEGMQELSCILEV 662

Query:   522 YRRMQEMKIRPTVETFYYLVYGHSSLEMYRDITILWGDIKRNIESGVLAVSRDLYETLLL 581
             +R+M +++I+P V TF  ++   S    + D ++L  ++ R  ++ V  V   L      
Sbjct:   663 FRKMHQLEIKPNVVTFSAILNACSRCNSFEDASMLLEEL-RLFDNKVYGVVHGLLMGQRE 721

Query:   582 N-FLQG-GYFERVMEVIG 597
             N +LQ    F++V E+ G
Sbjct:   722 NVWLQAQSLFDKVNEMDG 739

GO:0003677 "DNA binding" evidence=IDA

GO:0009507 "chloroplast" evidence=IDA

GO:0031930 "mitochondria-nucleus signaling pathway" evidence=IMP

GO:0010019 "chloroplast-nucleus signaling pathway" evidence=IMP

TAIR|locus:2074924 HCF152 "HIGH CHLOROPHYLL FLUORESCENCE 152" [Arabidopsis thaliana (taxid:3702)]

 Score = 145 (56.1 bits), Expect = 1.8e-09, Sum P(2) = 1.8e-09
 Identities = 44/187 (23%), Positives = 83/187 (44%)

Query:   482 LAESLIQEMREEAALST-IYKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRPTVETFYYL 540
             LA  +  EM  +  +   +   N  +  +C+  +I DA ++  RM+E    P V T+  L
Sbjct:   576 LANRVFDEMMNDPRVKVDLIAWNMLVEGYCRLGLIEDAQRVVSRMKENGFYPNVATYGSL 635

Query:   541 VYGHSSLEMYRDITILWGDIKRNI---------ESG------VLAVSRDLYETLLLNFLQ 585
               G S      D  +LW +IK            +S       +L     L +TL    ++
Sbjct:   636 ANGVSQARKPGDALLLWKEIKERCAVKKKEAPSDSSSDPAPPMLKPDEGLLDTLADICVR 695

Query:   586 GGYFERVMEVIGYMKKQNMYVDKLMYKSEFLKHHKHLYRRLKVSNARTEAQSKRLVNVQA 645
               +F++ +E+I  M++  +  +K  YK  +++ H  ++     S AR + + +R    +A
Sbjct:   696 AAFFKKALEIIACMEENGIPPNKTKYKKIYVEMHSRMFTSKHASQARIDRRVERKRAAEA 755

Query:   646 FRKWAGI 652
             F+ W G+
Sbjct:   756 FKFWLGL 762

GO:0009507 "chloroplast" evidence=ISM

GO:0003729 "mRNA binding" evidence=IDA

GO:0006397 "mRNA processing" evidence=IMP

GO:0009570 "chloroplast stroma" evidence=IDA

GO:0000023 "maltose metabolic process" evidence=RCA

GO:0019252 "starch biosynthetic process" evidence=RCA

TAIR|locus:2015218 AT1G63070 [Arabidopsis thaliana (taxid:3702)]

 Score = 167 (63.8 bits), Expect = 1.1e-08, Sum P(2) = 1.1e-08
 Identities = 65/265 (24%), Positives = 119/265 (44%)

Query:   350 LINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELA 409
             +ING  K G+  +L+  LL+  ++     +  + + +ID L +   ++ A D+ + ME  
Sbjct:   221 VINGLCKRGE-PDLALNLLNKMEKGKIEADVVIYNTIIDGLCKYKHMDDAFDLFNKMETK 279

Query:   410 GHPMDSTTYKSLLTAYYKVKMFREAEALLKQMRKSCLVQNLSCEMVVSERFSEVADKSAS 469
             G   D  TY  L++       + +A  LL  M    L +N++ ++V    F+ + D   +
Sbjct:   280 GIKPDVFTYNPLISCLCNYGRWSDASRLLSDM----LEKNINPDLVF---FNALID---A 329

Query:   470 FTDTSSLMDKSDLAESLIQEM-REEAALSTIYKLNSSIYFFCKGKMIGDALKIYRRMQEM 528
             F     L++    AE L  EM + +     +   N+ I  FCK K + + ++++R M + 
Sbjct:   330 FVKEGKLVE----AEKLYDEMVKSKHCFPDVVAYNTLIKGFCKYKRVEEGMEVFREMSQR 385

Query:   529 KIRPTVETFYYLVYGHSSLEMYRDITILWGDIKRNIESGVLAVSRDL--YETLLLNFLQG 586
              +     T+  L++G       RD        K+ +  GV     D+  Y  LL      
Sbjct:   386 GLVGNTVTYTTLIHGFFQA---RDCDNAQMVFKQMVSDGV---HPDIMTYNILLDGLCNN 439

Query:   587 GYFERVMEVIGYMKKQNMYVDKLMY 611
             G  E  + V  YM+K++M +D + Y
Sbjct:   440 GNVETALVVFEYMQKRDMKLDIVTY 464

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2173403 AT5G64320 "AT5G64320" [Arabidopsis thaliana (taxid:3702)]

 Score = 165 (63.1 bits), Expect = 1.7e-08, Sum P(2) = 1.7e-08
 Identities = 74/285 (25%), Positives = 121/285 (42%)

Query:   350 LINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELA 409
             L+NG  K G+      L   I K      E  + + +I   +  G L+ A  +L DM  +
Sbjct:   328 LMNGLCKIGRVDAAKDLFYRIPKP-----EIVIFNTLIHGFVTHGRLDDAKAVLSDMVTS 382

Query:   410 -GHPMDSTTYKSLLTAYYKVKMFREAEALLKQMRKSCLVQNLSCEMVVSERFSEVADKSA 468
              G   D  TY SL+  Y+K  +   A  +L  MR      N+    ++ + F ++     
Sbjct:   383 YGIVPDVCTYNSLIYGYWKEGLVGLALEVLHDMRNKGCKPNVYSYTILVDGFCKLG---- 438

Query:   469 SFTDTSSLMDKSDLAESLIQEMREEAALSTIYKLNSSIYFFCKGKMIGDALKIYRRMQEM 528
                       K D A +++ EM  +         N  I  FCK   I +A++I+R M   
Sbjct:   439 ----------KIDEAYNVLNEMSADGLKPNTVGFNCLISAFCKEHRIPEAVEIFREMPRK 488

Query:   529 KIRPTVETFYYLVYGHSSLEMYRDITILWGDIKRNIESGVLAVSRDLYETLLLNFLQGGY 588
               +P V TF  L+ G   ++  +    LW  ++  I  GV+A +   Y TL+  FL+ G 
Sbjct:   489 GCKPDVYTFNSLISGLCEVDEIKHA--LWL-LRDMISEGVVA-NTVTYNTLINAFLRRGE 544

Query:   589 FERVMEVIGYMKKQNMYVDKLMYKSEFLKHHKHLYRRLKVSNART 633
              +   +++  M  Q   +D++ Y S      K L R  +V  AR+
Sbjct:   545 IKEARKLVNEMVFQGSPLDEITYNSLI----KGLCRAGEVDKARS 585

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2083976 MEE40 "maternal effect embryo arrest 40" [Arabidopsis thaliana (taxid:3702)]

 Score = 127 (49.8 bits), Expect = 7.6e-07, Sum P(2) = 7.6e-07
 Identities = 45/158 (28%), Positives = 69/158 (43%)

Query:   386 VIDALIQLGFLEAAHDILDDMELAGHPMDSTTYKSLLTAYYKVKMFREAEALLKQMRKSC 445
             +ID+L   G L+ A ++L  MEL+G      TY +L+  + K    REAE +  +M    
Sbjct:   441 LIDSLCSKGKLDEALNMLKQMELSGCARSVITYNTLIDGFCKANKTREAEEIFDEME--- 497

Query:   446 LVQNLSCEMVVSERFSEVADKSASFTDTSSLMDKSDLAESLIQEMREEAALSTIYKLNSS 505
              V  +S   V      +   KS    D + LMD+      +I E ++       Y  NS 
Sbjct:   498 -VHGVSRNSVTYNTLIDGLCKSRRVEDAAQLMDQ------MIMEGQKPDK----YTYNSL 546

Query:   506 IYFFCKGKMIGDALKIYRRMQEMKIRPTVETFYYLVYG 543
             +  FC+G  I  A  I + M      P + T+  L+ G
Sbjct:   547 LTHFCRGGDIKKAADIVQAMTSNGCEPDIVTYGTLISG 584

GO:0005739 "mitochondrion" evidence=ISM

GO:0009793 "embryo development ending in seed dormancy" evidence=RCA;IMP

GO:0009507 "chloroplast" evidence=IDA

GO:0010027 "thylakoid membrane organization" evidence=RCA

GO:0010228 "vegetative to reproductive phase transition of meristem" evidence=RCA

GO:0016226 "iron-sulfur cluster assembly" evidence=RCA

GO:0048481 "ovule development" evidence=RCA

TAIR|locus:2038451 AT1G63230 [Arabidopsis thaliana (taxid:3702)]

 Score = 139 (54.0 bits), Expect = 2.4e-06, P = 2.4e-06
 Identities = 58/264 (21%), Positives = 112/264 (42%)

Query:   350 LINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELA 409
             +ING  K G ++E +  LLS  +E H      + + +ID L + G    A ++  +M   
Sbjct:    47 IINGLCKMG-DTESALNLLSKMEETHIKAHVVIYNAIIDRLCKDGHHIHAQNLFTEMHDK 105

Query:   410 GHPMDSTTYKSLLTAYYKVKMFREAEALLKQMRKSCLVQNLSCEMVVSERFSEVADKSAS 469
             G   D  TY  ++ ++ +   + +AE LL+ M    + + ++ ++V          K   
Sbjct:   106 GIFPDVITYSGMIDSFCRSGRWTDAEQLLRDM----IERQINPDVVTFSALINALVKEGK 161

Query:   470 FTDTSSLMDKSDLAESLIQEMREEAALSTIYKLNSSIYFFCKGKMIGDALKIYRRMQEMK 529
              ++          AE +  +M       T    NS I  FCK   + DA ++   M    
Sbjct:   162 VSE----------AEEIYGDMLRRGIFPTTITYNSMIDGFCKQDRLNDAKRMLDSMASKS 211

Query:   530 IRPTVETFYYLVYGHSSLEMYRDITILWGDIKRNIESGVLAVSRDLYETLLLNFLQGGYF 589
               P V TF  L+ G+   +   +   ++ ++ R    G++A +   Y TL+  F Q G  
Sbjct:   212 CSPDVVTFSTLINGYCKAKRVDNGMEIFCEMHRR---GIVA-NTVTYTTLIHGFCQVGDL 267

Query:   590 ERVMEVIGYMKKQNMYVDKLMYKS 613
             +   +++  M    +  + + ++S
Sbjct:   268 DAAQDLLNVMISSGVAPNYITFQS 291

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
B3H672	PP317_ARATH	No assigned EC number	0.5106	0.9663	0.9362	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

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	653
pfam13041	50	pfam13041, PPR_2, PPR repeat family	2e-04
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	0.004

>gnl|CDD|205222 pfam13041, PPR_2, PPR repeat family

 Score = 38.9 bits (92), Expect = 2e-04
 Identities = 11/42 (26%), Positives = 20/42 (47%)

Query: 386 VIDALIQLGFLEAAHDILDDMELAGHPMDSTTYKSLLTAYYK 427
           +ID   + G +E A  + ++M+  G   +  TY  L+    K
Sbjct: 9   LIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLCK 50

This repeat has no known function. It is about 35 amino acids long and is found in up to 18 copies in some proteins. The family appears to be greatly expanded in plants and fungi. The repeat has been called PPR. Length = 50

>gnl|CDD|215636 PLN03218, PLN03218, maturation of RBCL 1; Provisional

 Score = 40.2 bits (94), Expect = 0.004
 Identities = 39/183 (21%), Positives = 74/183 (40%), Gaps = 27/183 (14%)

Query: 386 VIDALI----QLGFLEAAHDILDDMELAGHPM--DSTTYKSLLTAYYKVKMFREAEALLK 439
           V +ALI    Q G ++ A D+L +M+   HP+  D  T  +L+ A         A+ + +
Sbjct: 544 VFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVYQ 603

Query: 440 QMRKSCLVQNLSCEMVVSERFSEVAD---KSASFTDT------------SSLMD------ 478
            + +  +        +     S+  D     + + D             S+L+D      
Sbjct: 604 MIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAG 663

Query: 479 KSDLAESLIQEMREEAALSTIYKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRPTVETFY 538
             D A  ++Q+ R++         +S +      K    AL++Y  ++ +K+RPTV T  
Sbjct: 664 DLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMN 723

Query: 539 YLV 541
            L+
Sbjct: 724 ALI 726

Length = 1060

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	653
PLN03077	857	Protein ECB2; Provisional	100.0
PLN03218	1060	maturation of RBCL 1; Provisional	100.0
PLN03218	1060	maturation of RBCL 1; Provisional	100.0
PLN03077	857	Protein ECB2; Provisional	100.0
PLN03081	697	pentatricopeptide (PPR) repeat-containing protein;	100.0
PLN03081	697	pentatricopeptide (PPR) repeat-containing protein;	100.0
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	99.96
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	99.96
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	99.86
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.85
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.83
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	99.82
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.8
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.77
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.75
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.75
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.75
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.75
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.71
PRK14574	822	hmsH outer membrane protein; Provisional	99.71
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.7
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.7
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.7
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.7
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.69
PRK14574	822	hmsH outer membrane protein; Provisional	99.6
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.59
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.46
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.44
PF13041	50	PPR_2: PPR repeat family	99.42
PF13041	50	PPR_2: PPR repeat family	99.42
KOG2003	840	consensus TPR repeat-containing protein [General f	99.4
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.35
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.33
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.32
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.31
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.31
KOG2076	895	consensus RNA polymerase III transcription factor	99.3
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.29
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.29
KOG2076	895	consensus RNA polymerase III transcription factor	99.29
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.29
KOG2003	840	consensus TPR repeat-containing protein [General f	99.25
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.22
KOG1915	677	consensus Cell cycle control protein (crooked neck	99.21
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.2
KOG1126	638	consensus DNA-binding cell division cycle control	99.2
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.18
KOG1126	638	consensus DNA-binding cell division cycle control	99.14
KOG2047	835	consensus mRNA splicing factor [RNA processing and	99.14
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.09
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.08
KOG0495	913	consensus HAT repeat protein [RNA processing and m	99.07
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	99.05
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.05
KOG0547	606	consensus Translocase of outer mitochondrial membr	99.04
KOG0495	913	consensus HAT repeat protein [RNA processing and m	99.0
PRK12370	553	invasion protein regulator; Provisional	98.99
KOG0547	606	consensus Translocase of outer mitochondrial membr	98.98
KOG2047	835	consensus mRNA splicing factor [RNA processing and	98.96
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	98.9
PRK12370	553	invasion protein regulator; Provisional	98.9
KOG1915	677	consensus Cell cycle control protein (crooked neck	98.85
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	98.84
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	98.82
PF12854	34	PPR_1: PPR repeat	98.81
KOG1129	478	consensus TPR repeat-containing protein [General f	98.79
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	98.78
KOG1129	478	consensus TPR repeat-containing protein [General f	98.77
PF12854	34	PPR_1: PPR repeat	98.77
KOG3785	557	consensus Uncharacterized conserved protein [Funct	98.72
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	98.69
KOG2376	652	consensus Signal recognition particle, subunit Srp	98.66
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	98.65
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	98.65
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	98.63
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	98.59
KOG3616	1636	consensus Selective LIM binding factor [Transcript	98.59
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	98.59
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	98.58
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	98.53
PRK11189	296	lipoprotein NlpI; Provisional	98.52
PRK11189	296	lipoprotein NlpI; Provisional	98.51
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	98.5
KOG2376	652	consensus Signal recognition particle, subunit Srp	98.49
KOG3785	557	consensus Uncharacterized conserved protein [Funct	98.46
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	98.46
KOG3616	1636	consensus Selective LIM binding factor [Transcript	98.44
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	98.4
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.36
PRK04841	903	transcriptional regulator MalT; Provisional	98.35
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	98.35
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	98.35
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.34
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	98.33
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	98.29
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.25
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	98.22
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.22
KOG4340	459	consensus Uncharacterized conserved protein [Funct	98.19
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.15
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	98.15
KOG4340	459	consensus Uncharacterized conserved protein [Funct	98.11
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	98.1
PRK04841	903	transcriptional regulator MalT; Provisional	98.08
KOG1128	777	consensus Uncharacterized conserved protein, conta	98.03
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	98.02
KOG1128	777	consensus Uncharacterized conserved protein, conta	98.02
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	98.02
PRK14720	906	transcript cleavage factor/unknown domain fusion p	97.95
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	97.95
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	97.93
PLN02789	320	farnesyltranstransferase	97.89
KOG1125	579	consensus TPR repeat-containing protein [General f	97.87
PLN02789	320	farnesyltranstransferase	97.87
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	97.86
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	97.81
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	97.8
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	97.79
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	97.79
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	97.78
PRK14720	906	transcript cleavage factor/unknown domain fusion p	97.76
PRK10370	198	formate-dependent nitrite reductase complex subuni	97.7
PRK10370	198	formate-dependent nitrite reductase complex subuni	97.69
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	97.69
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	97.69
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	97.68
KOG1125	579	consensus TPR repeat-containing protein [General f	97.67
PRK15359	144	type III secretion system chaperone protein SscB;	97.64
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	97.63
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	97.61
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	97.56
PRK15359	144	type III secretion system chaperone protein SscB;	97.53
TIGR02552	135	LcrH_SycD type III secretion low calcium response	97.49
KOG3060	289	consensus Uncharacterized conserved protein [Funct	97.48
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	97.48
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	97.48
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	97.44
TIGR02552	135	LcrH_SycD type III secretion low calcium response	97.43
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	97.41
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	97.4
KOG3060	289	consensus Uncharacterized conserved protein [Funct	97.35
COG4783	484	Putative Zn-dependent protease, contains TPR repea	97.32
COG4783	484	Putative Zn-dependent protease, contains TPR repea	97.27
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	97.26
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	97.26
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	97.25
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	97.18
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	97.18
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	97.17
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	97.12
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	97.11
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	97.1
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	97.09
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	96.98
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	96.97
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	96.97
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	96.79
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	96.79
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	96.79
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	96.74
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	96.7
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	96.66
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	96.62
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	96.62
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	96.61
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	96.6
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	96.55
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	96.49
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	96.43
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	96.41
KOG2041	1189	consensus WD40 repeat protein [General function pr	96.38
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	96.33
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	96.32
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	96.3
PF12688	120	TPR_5: Tetratrico peptide repeat	96.28
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	96.28
KOG2041	1189	consensus WD40 repeat protein [General function pr	96.25
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	96.19
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	96.09
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	96.08
KOG0553	304	consensus TPR repeat-containing protein [General f	96.0
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	95.98
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	95.98
PF03704	146	BTAD: Bacterial transcriptional activator domain;	95.96
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	95.93
PF03704	146	BTAD: Bacterial transcriptional activator domain;	95.87
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	95.83
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	95.78
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	95.76
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	95.76
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	95.69
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	95.66
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	95.65
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	95.59
PF12688	120	TPR_5: Tetratrico peptide repeat	95.58
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	95.56
COG4700	251	Uncharacterized protein conserved in bacteria cont	95.5
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	95.31
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	95.31
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	95.26
PRK10803	263	tol-pal system protein YbgF; Provisional	95.26
PRK10803	263	tol-pal system protein YbgF; Provisional	95.16
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	94.91
PF13371	73	TPR_9: Tetratricopeptide repeat	94.84
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	94.71
KOG0553	304	consensus TPR repeat-containing protein [General f	94.57
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	94.57
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	94.55
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	94.51
KOG3941	406	consensus Intermediate in Toll signal transduction	94.46
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	94.33
COG3898	531	Uncharacterized membrane-bound protein [Function u	94.04
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	93.94
KOG2796	366	consensus Uncharacterized conserved protein [Funct	93.92
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	93.57
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	93.5
PF13512	142	TPR_18: Tetratricopeptide repeat	93.13
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	92.99
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	92.98
KOG3941	406	consensus Intermediate in Toll signal transduction	92.95
PF04097	613	Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic9	92.85
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	92.84
smart00299	140	CLH Clathrin heavy chain repeat homology.	92.84
smart00299	140	CLH Clathrin heavy chain repeat homology.	92.68
COG4105	254	ComL DNA uptake lipoprotein [General function pred	92.5
PF13371	73	TPR_9: Tetratricopeptide repeat	92.47
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	92.4
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	92.36
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	92.29
COG4700	251	Uncharacterized protein conserved in bacteria cont	92.22
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	92.09
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	92.09
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	92.04
PRK15331	165	chaperone protein SicA; Provisional	92.03
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	91.79
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	91.54
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	91.27
KOG0687	393	consensus 26S proteasome regulatory complex, subun	90.68
COG3629	280	DnrI DNA-binding transcriptional activator of the	90.68
COG3629	280	DnrI DNA-binding transcriptional activator of the	90.66
PF13512	142	TPR_18: Tetratricopeptide repeat	90.57
KOG4570	418	consensus Uncharacterized conserved protein [Funct	90.34
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	90.01
PRK15331	165	chaperone protein SicA; Provisional	89.81
KOG4555	175	consensus TPR repeat-containing protein [Function	89.74
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	89.42
KOG0403	645	consensus Neoplastic transformation suppressor Pdc	89.41
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	89.19
KOG2610	491	consensus Uncharacterized conserved protein [Funct	89.07
PF13428	44	TPR_14: Tetratricopeptide repeat	89.01
KOG2796	366	consensus Uncharacterized conserved protein [Funct	88.98
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	88.5
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	88.34
KOG4570	418	consensus Uncharacterized conserved protein [Funct	87.88
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	87.8
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	87.76
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	87.62
PRK11906	458	transcriptional regulator; Provisional	87.54
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	86.7
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	86.57
KOG4555	175	consensus TPR repeat-containing protein [Function	86.55
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	86.52
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	86.23
COG5187	412	RPN7 26S proteasome regulatory complex component,	86.06
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	86.03
KOG2610	491	consensus Uncharacterized conserved protein [Funct	85.7
PF13929	292	mRNA_stabil: mRNA stabilisation	85.62
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	85.55
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	85.41
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	84.32
COG4455	273	ImpE Protein of avirulence locus involved in tempe	84.26
COG3118	304	Thioredoxin domain-containing protein [Posttransla	83.56
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	82.89
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	82.35
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	82.18
KOG1585	308	consensus Protein required for fusion of vesicles	81.77
PF13428	44	TPR_14: Tetratricopeptide repeat	81.31
PF13762	145	MNE1: Mitochondrial splicing apparatus component	81.15
KOG0276	794	consensus Vesicle coat complex COPI, beta' subunit	81.01
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	80.69
PF02259	352	FAT: FAT domain; InterPro: IPR003151 The FAT domai	80.11
KOG2297	412	consensus Predicted translation factor, contains W	80.09
KOG1585	308	consensus Protein required for fusion of vesicles	80.01

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=3.8e-72  Score=626.37  Aligned_cols=593  Identities=15%  Similarity=0.074  Sum_probs=467.6

Q ss_pred             ccchHHHHHHHHHHHHhccchhHHHHHHHHhhhhcCCCCchhH-----------------------------------HH
Q 048743           15 EGSSREVLLRKLESASKNHQVGEAWETFNDFQRLHGIPERHVV-----------------------------------NR   59 (653)
Q Consensus        15 ~~p~~~~~~~~i~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~-----------------------------------~~   59 (653)
                      .+|+..+++.++.++++.|++++|..+|++|.+.+..|+..+|                                   |.
T Consensus        47 ~~~~~~~~n~~i~~l~~~g~~~~A~~l~~~m~~~g~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~n~  126 (857)
T PLN03077         47 SSSSTHDSNSQLRALCSHGQLEQALKLLESMQELRVPVDEDAYVALFRLCEWKRAVEEGSRVCSRALSSHPSLGVRLGNA  126 (857)
T ss_pred             cccchhhHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCCChhHHHHHHHHHhhCCCHHHHHHHHHHHHHcCCCCCchHHHH
Confidence            4667778888999999999999999999998886655555554                                   55


Q ss_pred             HHHHhhccCCcchhhhHHHHHHHHHhccCCchhHHHHHHHHHHHHhcCCCchHHHHHHHHHcCccCCCchhHHHHHHHHh
Q 048743           60 FITDLCYSAEPHWLQKACDLVLKIQKGKADLLQLDLLAKLSLSLARAQMPVPASMILRLMLGRENLPCSDLLLLVFVHMV  139 (653)
Q Consensus        60 ll~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~  139 (653)
                      +|..|++.|+   ++.|+++|.+|.     .||..+||++|.+|++.|++++|+++|++|...|+.||..||+.++.++.
T Consensus       127 li~~~~~~g~---~~~A~~~f~~m~-----~~d~~~~n~li~~~~~~g~~~~A~~~f~~M~~~g~~Pd~~t~~~ll~~~~  198 (857)
T PLN03077        127 MLSMFVRFGE---LVHAWYVFGKMP-----ERDLFSWNVLVGGYAKAGYFDEALCLYHRMLWAGVRPDVYTFPCVLRTCG  198 (857)
T ss_pred             HHHHHHhCCC---hHHHHHHHhcCC-----CCCeeEHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHhC
Confidence            5666666666   678888887773     37899999999999999999999999999999999999999999999886


Q ss_pred             hcccc-----------------cccchHHHHHHHHHhhhhhhhhcCCccCCCCchhhHHHHHHHHHhcCChhhHHHHHHH
Q 048743          140 KTEIG-----------------TCLASNFLIQLCDVFLHLSAEKSNGAELIKPDTMIFNLVLHACVRFGSSLKGQHIMEL  202 (653)
Q Consensus       140 ~~~~~-----------------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~yn~li~~~~~~g~~~~a~~l~~~  202 (653)
                      +.+.-                 +....+.++.++.++|+++.|+++|+.+..||.++||+||.+|++.|++++|+++|++
T Consensus       199 ~~~~~~~~~~~~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~lf~~m~~~d~~s~n~li~~~~~~g~~~eAl~lf~~  278 (857)
T PLN03077        199 GIPDLARGREVHAHVVRFGFELDVDVVNALITMYVKCGDVVSARLVFDRMPRRDCISWNAMISGYFENGECLEGLELFFT  278 (857)
T ss_pred             CccchhhHHHHHHHHHHcCCCcccchHhHHHHHHhcCCCHHHHHHHHhcCCCCCcchhHHHHHHHHhCCCHHHHHHHHHH
Confidence            54321                 3356688999999999999999999999999999999999999999999999999999


Q ss_pred             HHhcCCCccHHHHHHHHHHHHhcCChhhhHHHHHHhhhcCCCcccchhHHHHHHHHhhhccCCHHHHHHHHHHhcccCCC
Q 048743          203 MSQTGVVADAHSIIILAQIHEMNCQRDELKKFKCYIDQLSTPFAHHYQQFYESLLSLHFKFDDIDAAGELILDMNRYREP  282 (653)
Q Consensus       203 m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~  282 (653)
                      |.+.|+.||..||+.++.+|++.|+.+.+.+++..+.+.+   ..+|..+||+||.+|+++|++++|.++|++| ..+++
T Consensus       279 M~~~g~~Pd~~ty~~ll~a~~~~g~~~~a~~l~~~~~~~g---~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m-~~~d~  354 (857)
T PLN03077        279 MRELSVDPDLMTITSVISACELLGDERLGREMHGYVVKTG---FAVDVSVCNSLIQMYLSLGSWGEAEKVFSRM-ETKDA  354 (857)
T ss_pred             HHHcCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHhC---CccchHHHHHHHHHHHhcCCHHHHHHHHhhC-CCCCe
Confidence            9999999999999999999999999999999999999877   5667789999999999999999999999999 55677


Q ss_pred             CCCchhhhcccccchhccCCCcccchhhhccchhhhHHHHHHhhhhhHH--------HHHHhcCCCCCCHHHHHHHHHHH
Q 048743          283 LPNPKLRQDAQKPYLISIGSPNLRCGLKLQIMPELLEKDSILKMEGKQE--------LVLFRNGKLLHSNRAMAKLINGY  354 (653)
Q Consensus       283 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--------~~~~~~~~~~p~~~~~~~li~~~  354 (653)
                      ..|+.++..+...+...............++.|+..+....+..+.+.+        +..+...|+.|+..+|+.||++|
T Consensus       355 ~s~n~li~~~~~~g~~~~A~~lf~~M~~~g~~Pd~~t~~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~~~~~~n~Li~~y  434 (857)
T PLN03077        355 VSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMY  434 (857)
T ss_pred             eeHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCCCceeHHHHHHHHhccchHHHHHHHHHHHHHhCCCcchHHHHHHHHHH
Confidence            7777665444443333222222222222333444444444444333221        11344455555555555555555


Q ss_pred             HhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHH
Q 048743          355 KKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTYKSLLTAYYKVKMFREA  434 (653)
Q Consensus       355 ~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~a  434 (653)
                      ++.|++++|.++|++|.+     +|..+|+.+|.+|++.|+.++|..+|++|.. ++.||..||+.+|.+|++.|..+.+
T Consensus       435 ~k~g~~~~A~~vf~~m~~-----~d~vs~~~mi~~~~~~g~~~eA~~lf~~m~~-~~~pd~~t~~~lL~a~~~~g~l~~~  508 (857)
T PLN03077        435 SKCKCIDKALEVFHNIPE-----KDVISWTSIIAGLRLNNRCFEALIFFRQMLL-TLKPNSVTLIAALSACARIGALMCG  508 (857)
T ss_pred             HHcCCHHHHHHHHHhCCC-----CCeeeHHHHHHHHHHCCCHHHHHHHHHHHHh-CCCCCHhHHHHHHHHHhhhchHHHh
Confidence            555555555555555543     2334455555555555555555555555543 3555555555555555555555555


Q ss_pred             HHHHHHHHHcCCccCchhhHHHHhhHHHHhhhcccccccccccCCHHHHHHHHHHHHHccCCCCHHHHHHHHHHHHcCCC
Q 048743          435 EALLKQMRKSCLVQNLSCEMVVSERFSEVADKSASFTDTSSLMDKSDLAESLIQEMREEAALSTIYKLNSSIYFFCKGKM  514 (653)
Q Consensus       435 ~~~~~~m~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~y~~li~~~~~~g~  514 (653)
                      .+++..|.+.|+.++.....              .++++|+++|++++|..+|+++     .||+.+||+||.+|++.|+
T Consensus       509 ~~i~~~~~~~g~~~~~~~~n--------------aLi~~y~k~G~~~~A~~~f~~~-----~~d~~s~n~lI~~~~~~G~  569 (857)
T PLN03077        509 KEIHAHVLRTGIGFDGFLPN--------------ALLDLYVRCGRMNYAWNQFNSH-----EKDVVSWNILLTGYVAHGK  569 (857)
T ss_pred             HHHHHHHHHhCCCccceech--------------HHHHHHHHcCCHHHHHHHHHhc-----CCChhhHHHHHHHHHHcCC
Confidence            55555555555555541111              1246788899999999999998     4899999999999999999


Q ss_pred             HHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHHhhhCCCccCHHHHHHHHHHHHhCCCHHHHHH
Q 048743          515 IGDALKIYRRMQEMKIRPTVETFYYLVYGHSSLEMYRDITILWGDIKRNIESGVLAVSRDLYETLLLNFLQGGYFERVME  594 (653)
Q Consensus       515 ~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~p~~~~y~~li~~~~~~g~~~~a~~  594 (653)
                      .++|+++|++|.+.|+.||..||+.++.+|++.|++++|.++|+.|.   +..++.|+..+|++++++|++.|++++|.+
T Consensus       570 ~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~v~ea~~~f~~M~---~~~gi~P~~~~y~~lv~~l~r~G~~~eA~~  646 (857)
T PLN03077        570 GSMAVELFNRMVESGVNPDEVTFISLLCACSRSGMVTQGLEYFHSME---EKYSITPNLKHYACVVDLLGRAGKLTEAYN  646 (857)
T ss_pred             HHHHHHHHHHHHHcCCCCCcccHHHHHHHHhhcChHHHHHHHHHHHH---HHhCCCCchHHHHHHHHHHHhCCCHHHHHH
Confidence            99999999999999999999999999999999999999999999996   357999999999999999999999999999


Q ss_pred             HHHHHHhCCCCCCHHhHHHHH--HHhhhhhHHhhhhhHHHHH----------------HHHHhhHhHHHhHHhh
Q 048743          595 VIGYMKKQNMYVDKLMYKSEF--LKHHKHLYRRLKVSNARTE----------------AQSKRLVNVQAFRKWA  650 (653)
Q Consensus       595 ~~~~m~~~g~~p~~~t~~~l~--~~~~~~~~~~~~~~~~~~~----------------~~~~~~~~~~~~~~~~  650 (653)
                      ++++|.   ++||..+|++++  |+.+++++.++.+++.+++                .+.|+|++|.++++..
T Consensus       647 ~~~~m~---~~pd~~~~~aLl~ac~~~~~~e~~e~~a~~l~~l~p~~~~~y~ll~n~ya~~g~~~~a~~vr~~M  717 (857)
T PLN03077        647 FINKMP---ITPDPAVWGALLNACRIHRHVELGELAAQHIFELDPNSVGYYILLCNLYADAGKWDEVARVRKTM  717 (857)
T ss_pred             HHHHCC---CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhhCCCCcchHHHHHHHHHHCCChHHHHHHHHHH
Confidence            999994   899999999999  8999999999999999887                6789999999998753

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=2.2e-66  Score=567.63  Aligned_cols=513  Identities=12%  Similarity=0.068  Sum_probs=454.4

Q ss_pred             chHHHHHHHHHHHHhccchhHHHHHHHHhhhhcCC-CCchhHHHHHHHhhccCCcchhhhHHHHHHHHHhccCCchhHHH
Q 048743           17 SSREVLLRKLESASKNHQVGEAWETFNDFQRLHGI-PERHVVNRFITDLCYSAEPHWLQKACDLVLKIQKGKADLLQLDL   95 (653)
Q Consensus        17 p~~~~~~~~i~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~ll~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~t   95 (653)
                      ++...+..++..+++.|++++|+++|++|.+.+.. ++...++.++..|++.|.   +++|+.++..|.     .||..|
T Consensus       368 ~~~~~~~~~y~~l~r~G~l~eAl~Lfd~M~~~gvv~~~~v~~~~li~~~~~~g~---~~eAl~lf~~M~-----~pd~~T  439 (1060)
T PLN03218        368 RKSPEYIDAYNRLLRDGRIKDCIDLLEDMEKRGLLDMDKIYHAKFFKACKKQRA---VKEAFRFAKLIR-----NPTLST  439 (1060)
T ss_pred             CCchHHHHHHHHHHHCcCHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHCCC---HHHHHHHHHHcC-----CCCHHH
Confidence            45667888888999999999999999999997654 455577889999998887   799999998773     289999


Q ss_pred             HHHHHHHHHhcCCCchHHHHHHHHHcCccCCCchhHHHHHHHHhhcccccccchHHHHHHHHHhhhhhhhhcCCc----c
Q 048743           96 LAKLSLSLARAQMPVPASMILRLMLGRENLPCSDLLLLVFVHMVKTEIGTCLASNFLIQLCDVFLHLSAEKSNGA----E  171 (653)
Q Consensus        96 ~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~----~  171 (653)
                      |+.+|.+|++.|+++.|.++|++|.+.|+.||..+|+.+|..+++.|                  +++.|.++|+    .
T Consensus       440 yn~LL~a~~k~g~~e~A~~lf~~M~~~Gl~pD~~tynsLI~~y~k~G------------------~vd~A~~vf~eM~~~  501 (1060)
T PLN03218        440 FNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSG------------------KVDAMFEVFHEMVNA  501 (1060)
T ss_pred             HHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCc------------------CHHHHHHHHHHHHHc
Confidence            99999999999999999999999999999999999999988777765                  5666666665    4


Q ss_pred             CCCCchhhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCccHHHHHHHHHHHHhcCChhhhHHHHHHhhhcCCCcccchhH
Q 048743          172 LIKPDTMIFNLVLHACVRFGSSLKGQHIMELMSQTGVVADAHSIIILAQIHEMNCQRDELKKFKCYIDQLSTPFAHHYQQ  251 (653)
Q Consensus       172 ~~~~~~~~yn~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~  251 (653)
                      ++.||..+||+||.+|++.|++++|.++|++|.+.|+.||..||+.++.+|++.|++++|.++++.|.... ..+.+|..
T Consensus       502 Gv~PdvvTynaLI~gy~k~G~~eeAl~lf~~M~~~Gv~PD~vTYnsLI~a~~k~G~~deA~~lf~eM~~~~-~gi~PD~v  580 (1060)
T PLN03218        502 GVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAET-HPIDPDHI  580 (1060)
T ss_pred             CCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhc-CCCCCcHH
Confidence            56899999999999999999999999999999999999999999999999999999999999999997632 12556778


Q ss_pred             HHHHHHHhhhccCCHHHHHHHHHHhcccCCCCCCchhhhcccccchhccCCCcccchhhhccchhhhHHHHHHhhhhhHH
Q 048743          252 FYESLLSLHFKFDDIDAAGELILDMNRYREPLPNPKLRQDAQKPYLISIGSPNLRCGLKLQIMPELLEKDSILKMEGKQE  331 (653)
Q Consensus       252 ~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  331 (653)
                      +|++||.+|+++|++++|.++|++|                                                       
T Consensus       581 TynaLI~ay~k~G~ldeA~elf~~M-------------------------------------------------------  605 (1060)
T PLN03218        581 TVGALMKACANAGQVDRAKEVYQMI-------------------------------------------------------  605 (1060)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHH-------------------------------------------------------
Confidence            9999999999999999999999999                                                       


Q ss_pred             HHHHhcCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCC
Q 048743          332 LVLFRNGKLLHSNRAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGH  411 (653)
Q Consensus       332 ~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~  411 (653)
                          ...++.|+..+|+.+|.+|++.|++++|.++|++|.+.| ..||..+|+.+|.+|++.|++++|.++|++|.+.|+
T Consensus       606 ----~e~gi~p~~~tynsLI~ay~k~G~~deAl~lf~eM~~~G-v~PD~~TynsLI~a~~k~G~~eeA~~l~~eM~k~G~  680 (1060)
T PLN03218        606 ----HEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKG-VKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGI  680 (1060)
T ss_pred             ----HHcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC-CCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCC
Confidence                457788999999999999999999999999999999988 777888899999999999999999999999999999


Q ss_pred             CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCccCchhhHHHHhhHHHHhhhcccccccccccCCHHHHHHHHHHHH
Q 048743          412 PMDSTTYKSLLTAYYKVKMFREAEALLKQMRKSCLVQNLSCEMVVSERFSEVADKSASFTDTSSLMDKSDLAESLIQEMR  491 (653)
Q Consensus       412 ~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~  491 (653)
                      .||..+|++||.+|++.|++++|.++|++|.+.|+.||...   +..++.+           |++.|++++|.++|++|.
T Consensus       681 ~pd~~tynsLI~ay~k~G~~eeA~~lf~eM~~~g~~Pdvvt---yN~LI~g-----------y~k~G~~eeAlelf~eM~  746 (1060)
T PLN03218        681 KLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVST---MNALITA-----------LCEGNQLPKALEVLSEMK  746 (1060)
T ss_pred             CCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHH---HHHHHHH-----------HHHCCCHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999998621   2222233           455999999999999999


Q ss_pred             HccCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhc----c-------------------C
Q 048743          492 EEAALSTIYKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRPTVETFYYLVYGHSS----L-------------------E  548 (653)
Q Consensus       492 ~~~~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~----~-------------------~  548 (653)
                      +.|+.||..+|+++|.+|++.|++++|.++|++|.+.|+.||..+|++++..|.+    +                   +
T Consensus       747 ~~Gi~Pd~~Ty~sLL~a~~k~G~le~A~~l~~~M~k~Gi~pd~~tynsLIglc~~~y~ka~~l~~~v~~f~~g~~~~~n~  826 (1060)
T PLN03218        747 RLGLCPNTITYSILLVASERKDDADVGLDLLSQAKEDGIKPNLVMCRCITGLCLRRFEKACALGEPVVSFDSGRPQIENK  826 (1060)
T ss_pred             HcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHhhhhhhhhhhhccccccccc
Confidence            9999999999999999999999999999999999999999999999999876532    1                   1


Q ss_pred             CHHHHHHHHHHHHHHhhhCCCccCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHhhhhhHHhhhh
Q 048743          549 MYRDITILWGDIKRNIESGVLAVSRDLYETLLLNFLQGGYFERVMEVIGYMKKQNMYVDKLMYKSEFLKHHKHLYRRLKV  628 (653)
Q Consensus       549 ~~~~a~~~~~~~~~~~~~~~~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~l~~~~~~~~~~~~~~  628 (653)
                      ..++|..+|++|.    +.|+.||..||+.+|.+++..+..+.+..++++|...+..|+..+|++++..+....++|..+
T Consensus       827 w~~~Al~lf~eM~----~~Gi~Pd~~T~~~vL~cl~~~~~~~~~~~m~~~m~~~~~~~~~~~y~~Li~g~~~~~~~A~~l  902 (1060)
T PLN03218        827 WTSWALMVYRETI----SAGTLPTMEVLSQVLGCLQLPHDATLRNRLIENLGISADSQKQSNLSTLVDGFGEYDPRAFSL  902 (1060)
T ss_pred             hHHHHHHHHHHHH----HCCCCCCHHHHHHHHHHhcccccHHHHHHHHHHhccCCCCcchhhhHHHHHhhccChHHHHHH
Confidence            2357888888885    569999999999999888899999999999999999999999999999996554344577777


Q ss_pred             hHHHHH
Q 048743          629 SNARTE  634 (653)
Q Consensus       629 ~~~~~~  634 (653)
                      .+.+.+
T Consensus       903 ~~em~~  908 (1060)
T PLN03218        903 LEEAAS  908 (1060)
T ss_pred             HHHHHH
Confidence            777766

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=8.5e-65  Score=555.10  Aligned_cols=484  Identities=14%  Similarity=0.115  Sum_probs=436.7

Q ss_pred             cchHHHHHHHHHHHHhccchhHHHHHHHHhhhhcCCCCchhHHHHHHHhhccCCcchhhhHHHHHHHHHhccCCchhHHH
Q 048743           16 GSSREVLLRKLESASKNHQVGEAWETFNDFQRLHGIPERHVVNRFITDLCYSAEPHWLQKACDLVLKIQKGKADLLQLDL   95 (653)
Q Consensus        16 ~p~~~~~~~~i~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~t   95 (653)
                      +|+..++..++..+++.|.+++|+++|+.|..    |+..+|+.+|.+|++.|+   +++|.++|.+|.+ .|..||..+
T Consensus       403 ~~~~v~~~~li~~~~~~g~~~eAl~lf~~M~~----pd~~Tyn~LL~a~~k~g~---~e~A~~lf~~M~~-~Gl~pD~~t  474 (1060)
T PLN03218        403 DMDKIYHAKFFKACKKQRAVKEAFRFAKLIRN----PTLSTFNMLMSVCASSQD---IDGALRVLRLVQE-AGLKADCKL  474 (1060)
T ss_pred             CchHHHHHHHHHHHHHCCCHHHHHHHHHHcCC----CCHHHHHHHHHHHHhCcC---HHHHHHHHHHHHH-cCCCCCHHH
Confidence            46677788889999999999999999999876    999999999999999998   7999999988854 567899999


Q ss_pred             HHHHHHHHHhcCCCchHHHHHHHHHcCccCCCchhHHHHHHHHhhcccccccchHHHHHHHHHhhhhhhhhcCCc----c
Q 048743           96 LAKLSLSLARAQMPVPASMILRLMLGRENLPCSDLLLLVFVHMVKTEIGTCLASNFLIQLCDVFLHLSAEKSNGA----E  171 (653)
Q Consensus        96 ~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~----~  171 (653)
                      |+.+|.+|++.|++++|.++|++|.+.|+.||..||+.+|..+++.|                  ++++|.++|+    .
T Consensus       475 ynsLI~~y~k~G~vd~A~~vf~eM~~~Gv~PdvvTynaLI~gy~k~G------------------~~eeAl~lf~~M~~~  536 (1060)
T PLN03218        475 YTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAG------------------QVAKAFGAYGIMRSK  536 (1060)
T ss_pred             HHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCc------------------CHHHHHHHHHHHHHc
Confidence            99999999999999999999999999999999999999988888775                  4555555554    6


Q ss_pred             CCCCchhhHHHHHHHHHhcCChhhHHHHHHHHHh--cCCCccHHHHHHHHHHHHhcCChhhhHHHHHHhhhcCCCcccch
Q 048743          172 LIKPDTMIFNLVLHACVRFGSSLKGQHIMELMSQ--TGVVADAHSIIILAQIHEMNCQRDELKKFKCYIDQLSTPFAHHY  249 (653)
Q Consensus       172 ~~~~~~~~yn~li~~~~~~g~~~~a~~l~~~m~~--~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~  249 (653)
                      ++.||..+||.||.+|++.|++++|.++|++|.+  .|+.||..||+.++.+|++.|++++|.++|+.|.+.+   +.++
T Consensus       537 Gv~PD~vTYnsLI~a~~k~G~~deA~~lf~eM~~~~~gi~PD~vTynaLI~ay~k~G~ldeA~elf~~M~e~g---i~p~  613 (1060)
T PLN03218        537 NVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVYQMIHEYN---IKGT  613 (1060)
T ss_pred             CCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcC---CCCC
Confidence            6799999999999999999999999999999986  6899999999999999999999999999999999876   5556


Q ss_pred             hHHHHHHHHhhhccCCHHHHHHHHHHhcccCCCCCCchhhhcccccchhccCCCcccchhhhccchhhhHHHHHHhhhhh
Q 048743          250 QQFYESLLSLHFKFDDIDAAGELILDMNRYREPLPNPKLRQDAQKPYLISIGSPNLRCGLKLQIMPELLEKDSILKMEGK  329 (653)
Q Consensus       250 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  329 (653)
                      ..+||.||.+|++.|++++|.++|++|                                                     
T Consensus       614 ~~tynsLI~ay~k~G~~deAl~lf~eM-----------------------------------------------------  640 (1060)
T PLN03218        614 PEVYTIAVNSCSQKGDWDFALSIYDDM-----------------------------------------------------  640 (1060)
T ss_pred             hHHHHHHHHHHHhcCCHHHHHHHHHHH-----------------------------------------------------
Confidence            679999999999999999999999999                                                     


Q ss_pred             HHHHHHhcCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHC
Q 048743          330 QELVLFRNGKLLHSNRAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELA  409 (653)
Q Consensus       330 ~~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  409 (653)
                            ...|+.||..+|+.+|.+|++.|++++|.++|++|.+.| ..++..+|+.||.+|++.|++++|.++|++|.+.
T Consensus       641 ------~~~Gv~PD~~TynsLI~a~~k~G~~eeA~~l~~eM~k~G-~~pd~~tynsLI~ay~k~G~~eeA~~lf~eM~~~  713 (1060)
T PLN03218        641 ------KKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQG-IKLGTVSYSSLMGACSNAKNWKKALELYEDIKSI  713 (1060)
T ss_pred             ------HHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcC-CCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHc
Confidence                  567799999999999999999999999999999999988 7788889999999999999999999999999999


Q ss_pred             CCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCccCc-hhhHHHHhhHHHHhhhcccccccccccCCHHHHHHHHH
Q 048743          410 GHPMDSTTYKSLLTAYYKVKMFREAEALLKQMRKSCLVQNL-SCEMVVSERFSEVADKSASFTDTSSLMDKSDLAESLIQ  488 (653)
Q Consensus       410 g~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~-~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~a~~~~~  488 (653)
                      |+.||..+|++||.+|++.|++++|.++|++|.+.|+.||. ++..++    ..           |++.|+++.|.++|+
T Consensus       714 g~~PdvvtyN~LI~gy~k~G~~eeAlelf~eM~~~Gi~Pd~~Ty~sLL----~a-----------~~k~G~le~A~~l~~  778 (1060)
T PLN03218        714 KLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILL----VA-----------SERKDDADVGLDLLS  778 (1060)
T ss_pred             CCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCHHHHHHHH----HH-----------HHHCCCHHHHHHHHH
Confidence            99999999999999999999999999999999999999997 333332    22           445999999999999


Q ss_pred             HHHHccCCCCHHHHHHHHHHHHc----C-------------------CCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHh
Q 048743          489 EMREEAALSTIYKLNSSIYFFCK----G-------------------KMIGDALKIYRRMQEMKIRPTVETFYYLVYGHS  545 (653)
Q Consensus       489 ~m~~~~~~p~~~~y~~li~~~~~----~-------------------g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~  545 (653)
                      +|.+.|+.||..+|+++|..|.+    .                   +..++|+.+|++|++.|+.||..||+.++.+++
T Consensus       779 ~M~k~Gi~pd~~tynsLIglc~~~y~ka~~l~~~v~~f~~g~~~~~n~w~~~Al~lf~eM~~~Gi~Pd~~T~~~vL~cl~  858 (1060)
T PLN03218        779 QAKEDGIKPNLVMCRCITGLCLRRFEKACALGEPVVSFDSGRPQIENKWTSWALMVYRETISAGTLPTMEVLSQVLGCLQ  858 (1060)
T ss_pred             HHHHcCCCCCHHHHHHHHHHHHHHHHHHhhhhhhhhhhhccccccccchHHHHHHHHHHHHHCCCCCCHHHHHHHHHHhc
Confidence            99999999999999999976432    1                   234689999999999999999999999998888


Q ss_pred             ccCCHHHHHHHHHHHHHHhhhCCCccCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCCHH
Q 048743          546 SLEMYRDITILWGDIKRNIESGVLAVSRDLYETLLLNFLQGGYFERVMEVIGYMKKQNMYVDKL  609 (653)
Q Consensus       546 ~~~~~~~a~~~~~~~~~~~~~~~~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~  609 (653)
                      +.+..+.+..+++.|    ...+..|+..+|+++|+++++.  .++|..++++|.+.|+.|+..
T Consensus       859 ~~~~~~~~~~m~~~m----~~~~~~~~~~~y~~Li~g~~~~--~~~A~~l~~em~~~Gi~p~~~  916 (1060)
T PLN03218        859 LPHDATLRNRLIENL----GISADSQKQSNLSTLVDGFGEY--DPRAFSLLEEAASLGVVPSVS  916 (1060)
T ss_pred             ccccHHHHHHHHHHh----ccCCCCcchhhhHHHHHhhccC--hHHHHHHHHHHHHcCCCCCcc
Confidence            888888887777666    4557889999999999998543  478999999999999999975

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=1.3e-63  Score=557.73  Aligned_cols=526  Identities=13%  Similarity=0.037  Sum_probs=430.4

Q ss_pred             ccchHHHHHHHHHHHHhccchhHHHHHHHHhhhhcCCCCchhH-----------------------------------HH
Q 048743           15 EGSSREVLLRKLESASKNHQVGEAWETFNDFQRLHGIPERHVV-----------------------------------NR   59 (653)
Q Consensus        15 ~~p~~~~~~~~i~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~-----------------------------------~~   59 (653)
                      ..|+..+|+.+|.+|++.|++++|+++|++|.+.+..|+..+|                                   |.
T Consensus       148 ~~~d~~~~n~li~~~~~~g~~~~A~~~f~~M~~~g~~Pd~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~n~  227 (857)
T PLN03077        148 PERDLFSWNVLVGGYAKAGYFDEALCLYHRMLWAGVRPDVYTFPCVLRTCGGIPDLARGREVHAHVVRFGFELDVDVVNA  227 (857)
T ss_pred             CCCCeeEHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHhCCccchhhHHHHHHHHHHcCCCcccchHhH
Confidence            3578889999999999999999999999999887777776665                                   45


Q ss_pred             HHHHhhccCCcchhhhHHHHHHHHHhccCCchhHHHHHHHHHHHHhcCCCchHHHHHHHHHcCccCCCchhHHHHHHHHh
Q 048743           60 FITDLCYSAEPHWLQKACDLVLKIQKGKADLLQLDLLAKLSLSLARAQMPVPASMILRLMLGRENLPCSDLLLLVFVHMV  139 (653)
Q Consensus        60 ll~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~  139 (653)
                      +|.+|++.|+   +++|.++|.+|.     .||..+||++|.+|++.|++++|+++|++|.+.|+.||..||+.++.+++
T Consensus       228 Li~~y~k~g~---~~~A~~lf~~m~-----~~d~~s~n~li~~~~~~g~~~eAl~lf~~M~~~g~~Pd~~ty~~ll~a~~  299 (857)
T PLN03077        228 LITMYVKCGD---VVSARLVFDRMP-----RRDCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACE  299 (857)
T ss_pred             HHHHHhcCCC---HHHHHHHHhcCC-----CCCcchhHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHH
Confidence            5555566666   678888888873     36889999999999999999999999999999999999999999999888


Q ss_pred             hcccc-----------------cccchHHHHHHHHHhhhhhhhhcCCccCCCCchhhHHHHHHHHHhcCChhhHHHHHHH
Q 048743          140 KTEIG-----------------TCLASNFLIQLCDVFLHLSAEKSNGAELIKPDTMIFNLVLHACVRFGSSLKGQHIMEL  202 (653)
Q Consensus       140 ~~~~~-----------------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~yn~li~~~~~~g~~~~a~~l~~~  202 (653)
                      +.+..                 +....+.++.++.+.|+++.|+++|+.+..||.++||++|.+|++.|++++|+++|++
T Consensus       300 ~~g~~~~a~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~d~~s~n~li~~~~~~g~~~~A~~lf~~  379 (857)
T PLN03077        300 LLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMETKDAVSWTAMISGYEKNGLPDKALETYAL  379 (857)
T ss_pred             hcCChHHHHHHHHHHHHhCCccchHHHHHHHHHHHhcCCHHHHHHHHhhCCCCCeeeHHHHHHHHHhCCCHHHHHHHHHH
Confidence            66532                 3356788999999999999999999999999999999999999999999999999999


Q ss_pred             HHhcCCCccHHHHHHHHHHHHhcCChhhhHHHHHHhhhcCCCcccchhHHHHHHHHhhhccCCHHHHHHHHHHhcccCCC
Q 048743          203 MSQTGVVADAHSIIILAQIHEMNCQRDELKKFKCYIDQLSTPFAHHYQQFYESLLSLHFKFDDIDAAGELILDMNRYREP  282 (653)
Q Consensus       203 m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~  282 (653)
                      |.+.|+.||..||+.++.+|++.|+++.+.++++.+.+.+   ..++..+||+||++|+++|++++|.++|++| ..+++
T Consensus       380 M~~~g~~Pd~~t~~~ll~a~~~~g~~~~a~~l~~~~~~~g---~~~~~~~~n~Li~~y~k~g~~~~A~~vf~~m-~~~d~  455 (857)
T PLN03077        380 MEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKG---LISYVVVANALIEMYSKCKCIDKALEVFHNI-PEKDV  455 (857)
T ss_pred             HHHhCCCCCceeHHHHHHHHhccchHHHHHHHHHHHHHhC---CCcchHHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCe
Confidence            9999999999999999999999999999999999999877   4566779999999999999999999999999 45566


Q ss_pred             CCCchhhhcccccchhccCCCcccchhhhccchhhhHHHHHHhhhhhHHHHHHhcCCCCCCHHHHHHHHHHHHhcCChHH
Q 048743          283 LPNPKLRQDAQKPYLISIGSPNLRCGLKLQIMPELLEKDSILKMEGKQELVLFRNGKLLHSNRAMAKLINGYKKHGKNSE  362 (653)
Q Consensus       283 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~  362 (653)
                      .+|+.++..+...+..       .                    ....-+..|. .++.||..||+.+|.+|++.|+++.
T Consensus       456 vs~~~mi~~~~~~g~~-------~--------------------eA~~lf~~m~-~~~~pd~~t~~~lL~a~~~~g~l~~  507 (857)
T PLN03077        456 ISWTSIIAGLRLNNRC-------F--------------------EALIFFRQML-LTLKPNSVTLIAALSACARIGALMC  507 (857)
T ss_pred             eeHHHHHHHHHHCCCH-------H--------------------HHHHHHHHHH-hCCCCCHhHHHHHHHHHhhhchHHH
Confidence            6666543332221111       0                    0001112233 3578888888888888888888888


Q ss_pred             HHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHH
Q 048743          363 LSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTYKSLLTAYYKVKMFREAEALLKQMR  442 (653)
Q Consensus       363 a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~  442 (653)
                      +.+++..+.+.| ..++..++|+||++|+++|++++|.++|++|     .||..+||++|.+|++.|+.++|.++|++|.
T Consensus       508 ~~~i~~~~~~~g-~~~~~~~~naLi~~y~k~G~~~~A~~~f~~~-----~~d~~s~n~lI~~~~~~G~~~~A~~lf~~M~  581 (857)
T PLN03077        508 GKEIHAHVLRTG-IGFDGFLPNALLDLYVRCGRMNYAWNQFNSH-----EKDVVSWNILLTGYVAHGKGSMAVELFNRMV  581 (857)
T ss_pred             hHHHHHHHHHhC-CCccceechHHHHHHHHcCCHHHHHHHHHhc-----CCChhhHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            888888888877 6667777888888888888888888888876     4788888888888888888888888888888


Q ss_pred             HcCCccCc-hhhHHHHhhHHHHhhhcccccccccccCCHHHHHHHHHHHH-HccCCCCHHHHHHHHHHHHcCCCHHHHHH
Q 048743          443 KSCLVQNL-SCEMVVSERFSEVADKSASFTDTSSLMDKSDLAESLIQEMR-EEAALSTIYKLNSSIYFFCKGKMIGDALK  520 (653)
Q Consensus       443 ~~~~~p~~-~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~-~~~~~p~~~~y~~li~~~~~~g~~~~a~~  520 (653)
                      +.|+.||. ++..++.               .|++.|++++|.++|++|. +.|+.|+..+|+.|+++|++.|++++|.+
T Consensus       582 ~~g~~Pd~~T~~~ll~---------------a~~~~g~v~ea~~~f~~M~~~~gi~P~~~~y~~lv~~l~r~G~~~eA~~  646 (857)
T PLN03077        582 ESGVNPDEVTFISLLC---------------ACSRSGMVTQGLEYFHSMEEKYSITPNLKHYACVVDLLGRAGKLTEAYN  646 (857)
T ss_pred             HcCCCCCcccHHHHHH---------------HHhhcChHHHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhCCCHHHHHH
Confidence            88888887 3333332               2345788888888888888 67888888888888888888888888888


Q ss_pred             HHHHHHhcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHHhhhCCCcc-CHHHHHHHHHHHHhCCCHHHHHHHHHHH
Q 048743          521 IYRRMQEMKIRPTVETFYYLVYGHSSLEMYRDITILWGDIKRNIESGVLAV-SRDLYETLLLNFLQGGYFERVMEVIGYM  599 (653)
Q Consensus       521 ~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~p-~~~~y~~li~~~~~~g~~~~a~~~~~~m  599 (653)
                      ++++|.   ++||..+|++|+.+|...|+.+.+....+.+.      .+.| +...|..+...|+..|+|++|.++.+.|
T Consensus       647 ~~~~m~---~~pd~~~~~aLl~ac~~~~~~e~~e~~a~~l~------~l~p~~~~~y~ll~n~ya~~g~~~~a~~vr~~M  717 (857)
T PLN03077        647 FINKMP---ITPDPAVWGALLNACRIHRHVELGELAAQHIF------ELDPNSVGYYILLCNLYADAGKWDEVARVRKTM  717 (857)
T ss_pred             HHHHCC---CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHH------hhCCCCcchHHHHHHHHHHCCChHHHHHHHHHH
Confidence            888873   68888888888888888888888887777665      2344 4455666677888888888888888888


Q ss_pred             HhCCCCCCHHh
Q 048743          600 KKQNMYVDKLM  610 (653)
Q Consensus       600 ~~~g~~p~~~t  610 (653)
                      +++|++++.-.
T Consensus       718 ~~~g~~k~~g~  728 (857)
T PLN03077        718 RENGLTVDPGC  728 (857)
T ss_pred             HHcCCCCCCCc
Confidence            88888877543

>PLN03081 pentatricopeptide (PPR) repeat-containing protein; Provisional

Probab=100.00  E-value=7.8e-63  Score=538.42  Aligned_cols=468  Identities=14%  Similarity=0.118  Sum_probs=427.0

Q ss_pred             CCchhHHHHHHHhhccCCcchhhhHHHHHHHHHhccCCchhHHHHHHHHHHHHhcCCCchHHHHHHHHHcCccCCCchhH
Q 048743           52 PERHVVNRFITDLCYSAEPHWLQKACDLVLKIQKGKADLLQLDLLAKLSLSLARAQMPVPASMILRLMLGRENLPCSDLL  131 (653)
Q Consensus        52 ~~~~~~~~ll~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~  131 (653)
                      ++..+|+.+|.++++.|+   .++|+++|..|....+..||..||+.++.+|++.++++.|.+++..|.+.|+.||..+|
T Consensus        85 ~~~~~~~~~i~~l~~~g~---~~~Al~~f~~m~~~~~~~~~~~t~~~ll~a~~~~~~~~~a~~l~~~m~~~g~~~~~~~~  161 (697)
T PLN03081         85 KSGVSLCSQIEKLVACGR---HREALELFEILEAGCPFTLPASTYDALVEACIALKSIRCVKAVYWHVESSGFEPDQYMM  161 (697)
T ss_pred             CCceeHHHHHHHHHcCCC---HHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCcchHHH
Confidence            455689999999999988   79999999999776667799999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhhcccccccchHHHHHHHHHhhhhhhhhcCCccCCCCchhhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCcc
Q 048743          132 LLVFVHMVKTEIGTCLASNFLIQLCDVFLHLSAEKSNGAELIKPDTMIFNLVLHACVRFGSSLKGQHIMELMSQTGVVAD  211 (653)
Q Consensus       132 ~~li~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~yn~li~~~~~~g~~~~a~~l~~~m~~~g~~p~  211 (653)
                      +.++..+++.                  |+++.|+++|+.+..||.++||+||.+|++.|++++|+++|++|.+.|+.||
T Consensus       162 n~Li~~y~k~------------------g~~~~A~~lf~~m~~~~~~t~n~li~~~~~~g~~~~A~~lf~~M~~~g~~p~  223 (697)
T PLN03081        162 NRVLLMHVKC------------------GMLIDARRLFDEMPERNLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAE  223 (697)
T ss_pred             HHHHHHHhcC------------------CCHHHHHHHHhcCCCCCeeeHHHHHHHHHHCcCHHHHHHHHHHHHHhCCCCC
Confidence            9886665555                  5899999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhcCChhhhHHHHHHhhhcCCCcccchhHHHHHHHHhhhccCCHHHHHHHHHHhcccCCCCCCchhhhc
Q 048743          212 AHSIIILAQIHEMNCQRDELKKFKCYIDQLSTPFAHHYQQFYESLLSLHFKFDDIDAAGELILDMNRYREPLPNPKLRQD  291 (653)
Q Consensus       212 ~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~  291 (653)
                      ..||+.++.+|++.|..+.+.+++..+.+.+   ..+|..+||+||++|+++|++++|.++|++|               
T Consensus       224 ~~t~~~ll~a~~~~~~~~~~~~l~~~~~~~g---~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m---------------  285 (697)
T PLN03081        224 PRTFVVMLRASAGLGSARAGQQLHCCVLKTG---VVGDTFVSCALIDMYSKCGDIEDARCVFDGM---------------  285 (697)
T ss_pred             hhhHHHHHHHHhcCCcHHHHHHHHHHHHHhC---CCccceeHHHHHHHHHHCCCHHHHHHHHHhC---------------
Confidence            9999999999999999999999999998876   4456678999999999999999999999999               


Q ss_pred             ccccchhccCCCcccchhhhccchhhhHHHHHHhhhhhHHHHHHhcCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHH
Q 048743          292 AQKPYLISIGSPNLRCGLKLQIMPELLEKDSILKMEGKQELVLFRNGKLLHSNRAMAKLINGYKKHGKNSELSWLLLSIK  371 (653)
Q Consensus       292 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~  371 (653)
                                                                      ..+|..+||.+|.+|++.|++++|.++|++|.
T Consensus       286 ------------------------------------------------~~~~~vt~n~li~~y~~~g~~~eA~~lf~~M~  317 (697)
T PLN03081        286 ------------------------------------------------PEKTTVAWNSMLAGYALHGYSEEALCLYYEMR  317 (697)
T ss_pred             ------------------------------------------------CCCChhHHHHHHHHHHhCCCHHHHHHHHHHHH
Confidence                                                            34788999999999999999999999999999


Q ss_pred             hcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCccCc-
Q 048743          372 KEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTYKSLLTAYYKVKMFREAEALLKQMRKSCLVQNL-  450 (653)
Q Consensus       372 ~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~-  450 (653)
                      +.| ..||..||+.++.+|++.|+++.|.+++.+|.+.|+.||..+|++||++|++.|++++|.++|++|.+    ||. 
T Consensus       318 ~~g-~~pd~~t~~~ll~a~~~~g~~~~a~~i~~~m~~~g~~~d~~~~~~Li~~y~k~G~~~~A~~vf~~m~~----~d~~  392 (697)
T PLN03081        318 DSG-VSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPR----KNLI  392 (697)
T ss_pred             HcC-CCCCHHHHHHHHHHHHhccchHHHHHHHHHHHHhCCCCCeeehHHHHHHHHHCCCHHHHHHHHHhCCC----CCee
Confidence            988 77888899999999999999999999999999999999999999999999999999999999999964    454 


Q ss_pred             hhhHHHHhhHHHHhhhcccccccccccCCHHHHHHHHHHHHHccCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHh-cC
Q 048743          451 SCEMVVSERFSEVADKSASFTDTSSLMDKSDLAESLIQEMREEAALSTIYKLNSSIYFFCKGKMIGDALKIYRRMQE-MK  529 (653)
Q Consensus       451 ~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~-~g  529 (653)
                      +++.+    +.           .|++.|+.++|.++|++|.+.|+.||..||+++|.+|++.|++++|.++|+.|.+ .|
T Consensus       393 t~n~l----I~-----------~y~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~~~~a~~~f~~m~~~~g  457 (697)
T PLN03081        393 SWNAL----IA-----------GYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHR  457 (697)
T ss_pred             eHHHH----HH-----------HHHHcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcC
Confidence            22222    22           3566999999999999999999999999999999999999999999999999986 69


Q ss_pred             CCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHHhhhCCCccCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCC-H
Q 048743          530 IRPTVETFYYLVYGHSSLEMYRDITILWGDIKRNIESGVLAVSRDLYETLLLNFLQGGYFERVMEVIGYMKKQNMYVD-K  608 (653)
Q Consensus       530 ~~p~~~t~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~-~  608 (653)
                      +.|+..+|++++.+|++.|++++|.++++.|       ++.|+..+|++|+.+|+.+|+++.|..+++++.  ++.|+ .
T Consensus       458 ~~p~~~~y~~li~~l~r~G~~~eA~~~~~~~-------~~~p~~~~~~~Ll~a~~~~g~~~~a~~~~~~l~--~~~p~~~  528 (697)
T PLN03081        458 IKPRAMHYACMIELLGREGLLDEAYAMIRRA-------PFKPTVNMWAALLTACRIHKNLELGRLAAEKLY--GMGPEKL  528 (697)
T ss_pred             CCCCccchHhHHHHHHhcCCHHHHHHHHHHC-------CCCCCHHHHHHHHHHHHHcCCcHHHHHHHHHHh--CCCCCCC
Confidence            9999999999999999999999999998655       689999999999999999999999999999997  55665 5


Q ss_pred             HhHHHHH--HHhhhhhHHhhhhhHHHHHH
Q 048743          609 LMYKSEF--LKHHKHLYRRLKVSNARTEA  635 (653)
Q Consensus       609 ~t~~~l~--~~~~~~~~~~~~~~~~~~~~  635 (653)
                      .+|..++  +...|+++.|.++.+.|.+.
T Consensus       529 ~~y~~L~~~y~~~G~~~~A~~v~~~m~~~  557 (697)
T PLN03081        529 NNYVVLLNLYNSSGRQAEAAKVVETLKRK  557 (697)
T ss_pred             cchHHHHHHHHhCCCHHHHHHHHHHHHHc
Confidence            6888877  66678888888888887764

>PLN03081 pentatricopeptide (PPR) repeat-containing protein; Provisional

Probab=100.00  E-value=3.2e-60  Score=517.87  Aligned_cols=464  Identities=13%  Similarity=0.106  Sum_probs=423.0

Q ss_pred             HHHHHHHHHHhccchhHHHHHHHHhhhhc-CCCCchhHHHHHHHhhccCCcchhhhHHHHHHHHHhccCCchhHHHHHHH
Q 048743           21 VLLRKLESASKNHQVGEAWETFNDFQRLH-GIPERHVVNRFITDLCYSAEPHWLQKACDLVLKIQKGKADLLQLDLLAKL   99 (653)
Q Consensus        21 ~~~~~i~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~ll~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~t~~~l   99 (653)
                      +++..|..+.+.|++++|+++|++|.+.+ ..|+..+|+.++.+|++.++   .+.+..++..+.+ .|..||..+|+.+
T Consensus        89 ~~~~~i~~l~~~g~~~~Al~~f~~m~~~~~~~~~~~t~~~ll~a~~~~~~---~~~a~~l~~~m~~-~g~~~~~~~~n~L  164 (697)
T PLN03081         89 SLCSQIEKLVACGRHREALELFEILEAGCPFTLPASTYDALVEACIALKS---IRCVKAVYWHVES-SGFEPDQYMMNRV  164 (697)
T ss_pred             eHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCC---HHHHHHHHHHHHH-hCCCcchHHHHHH
Confidence            78999999999999999999999998765 46888999999999999988   6888899877754 5688999999999


Q ss_pred             HHHHHhcCCCchHHHHHHHHHcCccCCCchhHHHHHHHHhhcccccccchHHHHHHHHHhhhhhhhhcCCc----cCCCC
Q 048743          100 SLSLARAQMPVPASMILRLMLGRENLPCSDLLLLVFVHMVKTEIGTCLASNFLIQLCDVFLHLSAEKSNGA----ELIKP  175 (653)
Q Consensus       100 i~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~----~~~~~  175 (653)
                      +.+|++.|+++.|.++|++|.+    ||..+|++++..+++.|                  ++++|.++|+    .+..|
T Consensus       165 i~~y~k~g~~~~A~~lf~~m~~----~~~~t~n~li~~~~~~g------------------~~~~A~~lf~~M~~~g~~p  222 (697)
T PLN03081        165 LLMHVKCGMLIDARRLFDEMPE----RNLASWGTIIGGLVDAG------------------NYREAFALFREMWEDGSDA  222 (697)
T ss_pred             HHHHhcCCCHHHHHHHHhcCCC----CCeeeHHHHHHHHHHCc------------------CHHHHHHHHHHHHHhCCCC
Confidence            9999999999999999999964    89999999998888775                  4445555554    56889


Q ss_pred             chhhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCccHHHHHHHHHHHHhcCChhhhHHHHHHhhhcCCCcccchhHHHHH
Q 048743          176 DTMIFNLVLHACVRFGSSLKGQHIMELMSQTGVVADAHSIIILAQIHEMNCQRDELKKFKCYIDQLSTPFAHHYQQFYES  255 (653)
Q Consensus       176 ~~~~yn~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~  255 (653)
                      |..+|+.++.+|++.|+.+.+.+++..|.+.|+.||..+|+.|+.+|++.|++++|.++|+.|..       ++..+||+
T Consensus       223 ~~~t~~~ll~a~~~~~~~~~~~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~-------~~~vt~n~  295 (697)
T PLN03081        223 EPRTFVVMLRASAGLGSARAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMPE-------KTTVAWNS  295 (697)
T ss_pred             ChhhHHHHHHHHhcCCcHHHHHHHHHHHHHhCCCccceeHHHHHHHHHHCCCHHHHHHHHHhCCC-------CChhHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999998854       35568999


Q ss_pred             HHHhhhccCCHHHHHHHHHHhcccCCCCCCchhhhcccccchhccCCCcccchhhhccchhhhHHHHHHhhhhhHHHHHH
Q 048743          256 LLSLHFKFDDIDAAGELILDMNRYREPLPNPKLRQDAQKPYLISIGSPNLRCGLKLQIMPELLEKDSILKMEGKQELVLF  335 (653)
Q Consensus       256 li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  335 (653)
                      ||.+|++.|++++|.++|++|                                                           
T Consensus       296 li~~y~~~g~~~eA~~lf~~M-----------------------------------------------------------  316 (697)
T PLN03081        296 MLAGYALHGYSEEALCLYYEM-----------------------------------------------------------  316 (697)
T ss_pred             HHHHHHhCCCHHHHHHHHHHH-----------------------------------------------------------
Confidence            999999999999999999999                                                           


Q ss_pred             hcCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCH
Q 048743          336 RNGKLLHSNRAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDS  415 (653)
Q Consensus       336 ~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~  415 (653)
                      ...|+.||..||+.++.+|++.|++++|.+++..|.+.| .+++..+|+.||++|+++|++++|.++|++|.+    ||.
T Consensus       317 ~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~i~~~m~~~g-~~~d~~~~~~Li~~y~k~G~~~~A~~vf~~m~~----~d~  391 (697)
T PLN03081        317 RDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTG-FPLDIVANTALVDLYSKWGRMEDARNVFDRMPR----KNL  391 (697)
T ss_pred             HHcCCCCCHHHHHHHHHHHHhccchHHHHHHHHHHHHhC-CCCCeeehHHHHHHHHHCCCHHHHHHHHHhCCC----CCe
Confidence            567899999999999999999999999999999999998 788889999999999999999999999999975    799


Q ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHHcCCccCc-hhhHHHHhhHHHHhhhcccccccccccCCHHHHHHHHHHHHH-c
Q 048743          416 TTYKSLLTAYYKVKMFREAEALLKQMRKSCLVQNL-SCEMVVSERFSEVADKSASFTDTSSLMDKSDLAESLIQEMRE-E  493 (653)
Q Consensus       416 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~-~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~-~  493 (653)
                      .+||+||.+|++.|+.++|.++|++|.+.|+.||. ++..++.               ++++.|.+++|.++|+.|.+ .
T Consensus       392 ~t~n~lI~~y~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~---------------a~~~~g~~~~a~~~f~~m~~~~  456 (697)
T PLN03081        392 ISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLS---------------ACRYSGLSEQGWEIFQSMSENH  456 (697)
T ss_pred             eeHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHH---------------HHhcCCcHHHHHHHHHHHHHhc
Confidence            99999999999999999999999999999999997 3333332               24569999999999999985 6


Q ss_pred             cCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHHhhhCCCccC-
Q 048743          494 AALSTIYKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRPTVETFYYLVYGHSSLEMYRDITILWGDIKRNIESGVLAVS-  572 (653)
Q Consensus       494 ~~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~p~-  572 (653)
                      |+.|+..+|+.||++|++.|++++|.+++++|   ++.||..+|++|+.+|+..|+++.|..+++.+.      ++.|+ 
T Consensus       457 g~~p~~~~y~~li~~l~r~G~~~eA~~~~~~~---~~~p~~~~~~~Ll~a~~~~g~~~~a~~~~~~l~------~~~p~~  527 (697)
T PLN03081        457 RIKPRAMHYACMIELLGREGLLDEAYAMIRRA---PFKPTVNMWAALLTACRIHKNLELGRLAAEKLY------GMGPEK  527 (697)
T ss_pred             CCCCCccchHhHHHHHHhcCCHHHHHHHHHHC---CCCCCHHHHHHHHHHHHHcCCcHHHHHHHHHHh------CCCCCC
Confidence            99999999999999999999999999999876   589999999999999999999999999998875      55664 


Q ss_pred             HHHHHHHHHHHHhCCCHHHHHHHHHHHHhCCCC
Q 048743          573 RDLYETLLLNFLQGGYFERVMEVIGYMKKQNMY  605 (653)
Q Consensus       573 ~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~  605 (653)
                      ..+|..|+..|++.|++++|.+++++|+++|++
T Consensus       528 ~~~y~~L~~~y~~~G~~~~A~~v~~~m~~~g~~  560 (697)
T PLN03081        528 LNNYVVLLNLYNSSGRQAEAAKVVETLKRKGLS  560 (697)
T ss_pred             CcchHHHHHHHHhCCCHHHHHHHHHHHHHcCCc
Confidence            679999999999999999999999999999985

>TIGR02917 PEP_TPR_lipo putative PEP-CTERM system TPR-repeat lipoprotein

Probab=99.96  E-value=3.1e-24  Score=246.14  Aligned_cols=551  Identities=11%  Similarity=0.007  Sum_probs=358.2

Q ss_pred             chHHHHHHHHHHHHhccchhHHHHHHHHhhhhcCCCCchhHHHHHHHhhccCCcchhhhHHHHHHHHHhccCCchhHHHH
Q 048743           17 SSREVLLRKLESASKNHQVGEAWETFNDFQRLHGIPERHVVNRFITDLCYSAEPHWLQKACDLVLKIQKGKADLLQLDLL   96 (653)
Q Consensus        17 p~~~~~~~~i~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~t~   96 (653)
                      .+......+...+.+.|++++|.+.++.+... ...+...+..+...+.+.|+   .++|.+.|.+.....+.  +...+
T Consensus       327 ~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~---~~~A~~~~~~~~~~~~~--~~~~~  400 (899)
T TIGR02917       327 NSHQARRLLASIQLRLGRVDEAIATLSPALGL-DPDDPAALSLLGEAYLALGD---FEKAAEYLAKATELDPE--NAAAR  400 (899)
T ss_pred             CChHHHHHHHHHHHHCCCHHHHHHHHHHHHhc-CCCCHHHHHHHHHHHHHCCC---HHHHHHHHHHHHhcCCC--CHHHH
Confidence            34556666677778888888888888887663 22344567777777777777   67888888877654433  45566


Q ss_pred             HHHHHHHHhcCCCchHHHHHHHHHcCccCCCchhHHHHHHHHh----------------hcccccccchHHHHHHHHHhh
Q 048743           97 AKLSLSLARAQMPVPASMILRLMLGRENLPCSDLLLLVFVHMV----------------KTEIGTCLASNFLIQLCDVFL  160 (653)
Q Consensus        97 ~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~----------------~~~~~~~~~~~~l~~~~~~~~  160 (653)
                      ..+...+...|++++|++.++.+.+....+.. ....++....                ...+........+...+...|
T Consensus       401 ~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~-~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  479 (899)
T TIGR02917       401 TQLGISKLSQGDPSEAIADLETAAQLDPELGR-ADLLLILSYLRSGQFDKALAAAKKLEKKQPDNASLHNLLGAIYLGKG  479 (899)
T ss_pred             HHHHHHHHhCCChHHHHHHHHHHHhhCCcchh-hHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHhCC
Confidence            67777777888888888888877665422211 1111211111                122223334455666666777


Q ss_pred             hhhhhhcCCccCC---CCchhhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCccHHHHHHHHHHHHhcCChhhhHHHHHH
Q 048743          161 HLSAEKSNGAELI---KPDTMIFNLVLHACVRFGSSLKGQHIMELMSQTGVVADAHSIIILAQIHEMNCQRDELKKFKCY  237 (653)
Q Consensus       161 ~~~~a~~~~~~~~---~~~~~~yn~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~  237 (653)
                      +++.|.+.|++..   +.+...+..+...+...|++++|.+.|+.+.+.+ ..+..++..+...+.+.|+.+++...++.
T Consensus       480 ~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~  558 (899)
T TIGR02917       480 DLAKAREAFEKALSIEPDFFPAAANLARIDIQEGNPDDAIQRFEKVLTID-PKNLRAILALAGLYLRTGNEEEAVAWLEK  558 (899)
T ss_pred             CHHHHHHHHHHHHhhCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cCcHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            8888888877442   3455677788888899999999999999988764 23556678888888889999999999888


Q ss_pred             hhhcCCCcccchhHHHHHHHHhhhccCCHHHHHHHHHHhcccCCCCCCchhhhcccccchhccCCCcccchhhhccchhh
Q 048743          238 IDQLSTPFAHHYQQFYESLLSLHFKFDDIDAAGELILDMNRYREPLPNPKLRQDAQKPYLISIGSPNLRCGLKLQIMPEL  317 (653)
Q Consensus       238 ~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  317 (653)
                      +....+...    ..+..+...|.+.|++++|..+++++.+..   |....    .+..+.   ..+...|.        
T Consensus       559 ~~~~~~~~~----~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~---~~~~~----~~~~l~---~~~~~~~~--------  616 (899)
T TIGR02917       559 AAELNPQEI----EPALALAQYYLGKGQLKKALAILNEAADAA---PDSPE----AWLMLG---RAQLAAGD--------  616 (899)
T ss_pred             HHHhCccch----hHHHHHHHHHHHCCCHHHHHHHHHHHHHcC---CCCHH----HHHHHH---HHHHHcCC--------
Confidence            876654333    357788888999999999999998884211   10000    000000   00000000        


Q ss_pred             hHHHHHHhhhhhHHHHHHhcCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHH
Q 048743          318 LEKDSILKMEGKQELVLFRNGKLLHSNRAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLE  397 (653)
Q Consensus       318 ~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~  397 (653)
                        .....     ..+..... ..+.+...+..+...+.+.|++++|...|+++.+..  |.+..++..+...+...|+++
T Consensus       617 --~~~A~-----~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~  686 (899)
T TIGR02917       617 --LNKAV-----SSFKKLLA-LQPDSALALLLLADAYAVMKNYAKAITSLKRALELK--PDNTEAQIGLAQLLLAAKRTE  686 (899)
T ss_pred             --HHHHH-----HHHHHHHH-hCCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--CCCHHHHHHHHHHHHHcCCHH
Confidence              00000     00000000 012244566777777777888888888888777665  666666777788888888888


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCccCchhhHHHHhhHHHHhhhccccccccccc
Q 048743          398 AAHDILDDMELAGHPMDSTTYKSLLTAYYKVKMFREAEALLKQMRKSCLVQNLSCEMVVSERFSEVADKSASFTDTSSLM  477 (653)
Q Consensus       398 ~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~~~~~~  477 (653)
                      +|..+++.+.+.+ +++...+..+...+.+.|++++|...|+.+.+.+  |+........              ..|...
T Consensus       687 ~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~--~~~~~~~~l~--------------~~~~~~  749 (899)
T TIGR02917       687 SAKKIAKSLQKQH-PKAALGFELEGDLYLRQKDYPAAIQAYRKALKRA--PSSQNAIKLH--------------RALLAS  749 (899)
T ss_pred             HHHHHHHHHHhhC-cCChHHHHHHHHHHHHCCCHHHHHHHHHHHHhhC--CCchHHHHHH--------------HHHHHC
Confidence            8888888777654 3466677777777778888888888888777643  3331111111              123457


Q ss_pred             CCHHHHHHHHHHHHHccCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCCHHHHHHHH
Q 048743          478 DKSDLAESLIQEMREEAALSTIYKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRPTVETFYYLVYGHSSLEMYRDITILW  557 (653)
Q Consensus       478 ~~~~~a~~~~~~m~~~~~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~  557 (653)
                      |+.++|...++.+.+... .+...++.+...|...|++++|.++|+++.+.. +.+...+..+...+...|+ .+|..++
T Consensus       750 g~~~~A~~~~~~~l~~~~-~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~~-~~A~~~~  826 (899)
T TIGR02917       750 GNTAEAVKTLEAWLKTHP-NDAVLRTALAELYLAQKDYDKAIKHYRTVVKKA-PDNAVVLNNLAWLYLELKD-PRALEYA  826 (899)
T ss_pred             CCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcCc-HHHHHHH
Confidence            888888888888776541 367778888888888888888888888887753 3466778888888888888 7788888


Q ss_pred             HHHHHHhhhCCCccCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCCHHhHHHHH--HHhhhhhHHhhhhhHHHH
Q 048743          558 GDIKRNIESGVLAVSRDLYETLLLNFLQGGYFERVMEVIGYMKKQNMYVDKLMYKSEF--LKHHKHLYRRLKVSNART  633 (653)
Q Consensus       558 ~~~~~~~~~~~~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~l~--~~~~~~~~~~~~~~~~~~  633 (653)
                      +.+...     .+-+..++..+...+...|++++|.+.++++.+.+.. +..++..+.  ....|+.+.|.+..+.+.
T Consensus       827 ~~~~~~-----~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  898 (899)
T TIGR02917       827 EKALKL-----APNIPAILDTLGWLLVEKGEADRALPLLRKAVNIAPE-AAAIRYHLALALLATGRKAEARKELDKLL  898 (899)
T ss_pred             HHHHhh-----CCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC-ChHHHHHHHHHHHHcCCHHHHHHHHHHHh
Confidence            776532     1224456667777788888888888888888876643 555555544  444566777766666554

This protein family occurs in strictly within a subset of Gram-negative bacterial species with the proposed PEP-CTERM/exosortase system, analogous to the LPXTG/sortase system common in Gram-positive bacteria. This protein occurs in a species if and only if a transmembrane histidine kinase (TIGR02916) and a DNA-binding response regulator (TIGR02915) also occur. The present of tetratricopeptide repeats (TPR) suggests protein-protein interaction, possibly for the regulation of PEP-CTERM protein expression, since many PEP-CTERM proteins in these genomes are preceded by a proposed DNA binding site for the response regulator.

>TIGR02917 PEP_TPR_lipo putative PEP-CTERM system TPR-repeat lipoprotein

Probab=99.96  E-value=1.2e-23  Score=241.37  Aligned_cols=545  Identities=11%  Similarity=-0.029  Sum_probs=398.9

Q ss_pred             HHHHHHHHHHHhccchhHHHHHHHHhhhhcCCCCchhHHHHHHHhhccCCcchhhhHHHHHHHHHhccCCchhHHHHHHH
Q 048743           20 EVLLRKLESASKNHQVGEAWETFNDFQRLHGIPERHVVNRFITDLCYSAEPHWLQKACDLVLKIQKGKADLLQLDLLAKL   99 (653)
Q Consensus        20 ~~~~~~i~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~t~~~l   99 (653)
                      ..+..+...+...|++++|.+.|+...+.. ..+...+..+...+.+.|+   .++|...+.++....+.  +...+..+
T Consensus       296 ~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~-p~~~~~~~~la~~~~~~g~---~~~A~~~~~~~~~~~~~--~~~~~~~l  369 (899)
T TIGR02917       296 PALLLAGASEYQLGNLEQAYQYLNQILKYA-PNSHQARRLLASIQLRLGR---VDEAIATLSPALGLDPD--DPAALSLL  369 (899)
T ss_pred             hHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHCCC---HHHHHHHHHHHHhcCCC--CHHHHHHH
Confidence            344455567788999999999999988742 2234566777788888888   78999999988765543  67788999


Q ss_pred             HHHHHhcCCCchHHHHHHHHHcCccCCCch-hHHHHHHHHhhcc----------------cccccchHHHHHHHHHhhhh
Q 048743          100 SLSLARAQMPVPASMILRLMLGRENLPCSD-LLLLVFVHMVKTE----------------IGTCLASNFLIQLCDVFLHL  162 (653)
Q Consensus       100 i~~~~~~g~~~~a~~~~~~m~~~g~~p~~~-~~~~li~~~~~~~----------------~~~~~~~~~l~~~~~~~~~~  162 (653)
                      ...+.+.|++++|.++|+++.+.  .|+.. .+..+-..+...+                +........+...+...|+.
T Consensus       370 ~~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~  447 (899)
T TIGR02917       370 GEAYLALGDFEKAAEYLAKATEL--DPENAAARTQLGISKLSQGDPSEAIADLETAAQLDPELGRADLLLILSYLRSGQF  447 (899)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHhc--CCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHhhCCcchhhHHHHHHHHHhcCCH
Confidence            99999999999999999999875  34433 2333222222221                11222333455566667788


Q ss_pred             hhhhcCCccC---CCCchhhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCcc-HHHHHHHHHHHHhcCChhhhHHHHHHh
Q 048743          163 SAEKSNGAEL---IKPDTMIFNLVLHACVRFGSSLKGQHIMELMSQTGVVAD-AHSIIILAQIHEMNCQRDELKKFKCYI  238 (653)
Q Consensus       163 ~~a~~~~~~~---~~~~~~~yn~li~~~~~~g~~~~a~~l~~~m~~~g~~p~-~~t~~~ll~~~~~~g~~~~a~~~~~~~  238 (653)
                      +.|.++++..   .+++..+|+.+...+...|++++|.+.|+++.+.  .|+ ...+..+...+...|++++|.+.++.+
T Consensus       448 ~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~  525 (899)
T TIGR02917       448 DKALAAAKKLEKKQPDNASLHNLLGAIYLGKGDLAKAREAFEKALSI--EPDFFPAAANLARIDIQEGNPDDAIQRFEKV  525 (899)
T ss_pred             HHHHHHHHHHHHhCCCCcHHHHHHHHHHHhCCCHHHHHHHHHHHHhh--CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            8888877643   3457788999999999999999999999999875  344 445777888999999999999999999


Q ss_pred             hhcCCCcccchhHHHHHHHHhhhccCCHHHHHHHHHHhcccCCCCCCchhhhcccccchhccCCCcccchhhhccchhhh
Q 048743          239 DQLSTPFAHHYQQFYESLLSLHFKFDDIDAAGELILDMNRYREPLPNPKLRQDAQKPYLISIGSPNLRCGLKLQIMPELL  318 (653)
Q Consensus       239 ~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  318 (653)
                      ....+..    ..++..+...+.+.|+.++|..+|+++.+...   ...       .........+...|.         
T Consensus       526 ~~~~~~~----~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~---~~~-------~~~~~l~~~~~~~~~---------  582 (899)
T TIGR02917       526 LTIDPKN----LRAILALAGLYLRTGNEEEAVAWLEKAAELNP---QEI-------EPALALAQYYLGKGQ---------  582 (899)
T ss_pred             HHhCcCc----HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCc---cch-------hHHHHHHHHHHHCCC---------
Confidence            8765332    34688999999999999999999999843211   000       000000000000000         


Q ss_pred             HHHHHHhhhhhHHHHHHhcCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHH
Q 048743          319 EKDSILKMEGKQELVLFRNGKLLHSNRAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEA  398 (653)
Q Consensus       319 ~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~  398 (653)
                       .      ..............+.+...|..+..++.+.|++++|...|+++.+..  +.+...+..+...+.+.|++++
T Consensus       583 -~------~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~  653 (899)
T TIGR02917       583 -L------KKALAILNEAADAAPDSPEAWLMLGRAQLAAGDLNKAVSSFKKLLALQ--PDSALALLLLADAYAVMKNYAK  653 (899)
T ss_pred             -H------HHHHHHHHHHHHcCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCChHHHHHHHHHHHHcCCHHH
Confidence             0      000001111112234566788999999999999999999999998876  6667778899999999999999


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCccCc-hhhHHHHhhHHHHhhhccccccccccc
Q 048743          399 AHDILDDMELAGHPMDSTTYKSLLTAYYKVKMFREAEALLKQMRKSCLVQNL-SCEMVVSERFSEVADKSASFTDTSSLM  477 (653)
Q Consensus       399 a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~-~~~~~~~~~l~~~~~~~~~~~~~~~~~  477 (653)
                      |..+|+++.+.. +.+..++..+...+...|++++|..+++.+.+.+  |+. .......              ..|...
T Consensus       654 A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~~--------------~~~~~~  716 (899)
T TIGR02917       654 AITSLKRALELK-PDNTEAQIGLAQLLLAAKRTESAKKIAKSLQKQH--PKAALGFELEG--------------DLYLRQ  716 (899)
T ss_pred             HHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC--cCChHHHHHHH--------------HHHHHC
Confidence            999999988753 3467889999999999999999999999998764  332 1111111              123458


Q ss_pred             CCHHHHHHHHHHHHHccCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCCHHHHHHHH
Q 048743          478 DKSDLAESLIQEMREEAALSTIYKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRPTVETFYYLVYGHSSLEMYRDITILW  557 (653)
Q Consensus       478 ~~~~~a~~~~~~m~~~~~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~  557 (653)
                      |++++|...|+.+...+  |+..++..+...+.+.|++++|.+.++++.+.. +.+...+..+...|...|++++|.++|
T Consensus       717 g~~~~A~~~~~~~~~~~--~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~  793 (899)
T TIGR02917       717 KDYPAAIQAYRKALKRA--PSSQNAIKLHRALLASGNTAEAVKTLEAWLKTH-PNDAVLRTALAELYLAQKDYDKAIKHY  793 (899)
T ss_pred             CCHHHHHHHHHHHHhhC--CCchHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCcCHHHHHHHH
Confidence            99999999999998876  655778889999999999999999999998763 456788889999999999999999999


Q ss_pred             HHHHHHhhhCCCccCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCCH-HhHHHH--HHHhhhhhHHhhhhhHHHHH
Q 048743          558 GDIKRNIESGVLAVSRDLYETLLLNFLQGGYFERVMEVIGYMKKQNMYVDK-LMYKSE--FLKHHKHLYRRLKVSNARTE  634 (653)
Q Consensus       558 ~~~~~~~~~~~~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~-~t~~~l--~~~~~~~~~~~~~~~~~~~~  634 (653)
                      +.+.+.     .+.+...++.+...+...|+ .+|+..+++..+.  .|+. .++..+  +....|+.+.|.+.++..++
T Consensus       794 ~~~~~~-----~p~~~~~~~~l~~~~~~~~~-~~A~~~~~~~~~~--~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~  865 (899)
T TIGR02917       794 RTVVKK-----APDNAVVLNNLAWLYLELKD-PRALEYAEKALKL--APNIPAILDTLGWLLVEKGEADRALPLLRKAVN  865 (899)
T ss_pred             HHHHHh-----CCCCHHHHHHHHHHHHhcCc-HHHHHHHHHHHhh--CCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            988732     34577889999999999999 8899999998764  3332 222222  24556888889888888887

This protein family occurs in strictly within a subset of Gram-negative bacterial species with the proposed PEP-CTERM/exosortase system, analogous to the LPXTG/sortase system common in Gram-positive bacteria. This protein occurs in a species if and only if a transmembrane histidine kinase (TIGR02916) and a DNA-binding response regulator (TIGR02915) also occur. The present of tetratricopeptide repeats (TPR) suggests protein-protein interaction, possibly for the regulation of PEP-CTERM protein expression, since many PEP-CTERM proteins in these genomes are preceded by a proposed DNA binding site for the response regulator.

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=99.86  E-value=1.7e-16  Score=182.91  Aligned_cols=565  Identities=12%  Similarity=0.019  Sum_probs=354.2

Q ss_pred             HHHHHHHHHHhccchhHHHHHHHHhhhhcCCCCchhHHHHHHHhh-ccCCcchhhhHHHHHHHHHhccCCchhHHHHHHH
Q 048743           21 VLLRKLESASKNHQVGEAWETFNDFQRLHGIPERHVVNRFITDLC-YSAEPHWLQKACDLVLKIQKGKADLLQLDLLAKL   99 (653)
Q Consensus        21 ~~~~~i~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~-~~~~~~~~~~a~~~~~~~~~~~~~~~~~~t~~~l   99 (653)
                      ........+.+.|++++|.+.|+.+.+. ..|+...-........ ..++   .++|.+.++++.+..|.  +...+..+
T Consensus       114 ~~l~~A~ll~~~g~~~eA~~~~~~~l~~-~p~~~~la~~y~~~~~~~~g~---~~~A~~~L~~ll~~~P~--~~~~~~~L  187 (1157)
T PRK11447        114 QALQQARLLATTGRTEEALASYDKLFNG-APPELDLAVEYWRLVAKLPAQ---RPEAINQLQRLNADYPG--NTGLRNTL  187 (1157)
T ss_pred             hHHHHHHHHHhCCCHHHHHHHHHHHccC-CCCChHHHHHHHHHHhhCCcc---HHHHHHHHHHHHHhCCC--CHHHHHHH
Confidence            3445556788999999999999998873 2233221111222222 2244   78999999999887765  56677888


Q ss_pred             HHHHHhcCCCchHHHHHHHHHcCccCCC--chhH-------------HHHHHHHhhcccccc------------------
Q 048743          100 SLSLARAQMPVPASMILRLMLGRENLPC--SDLL-------------LLVFVHMVKTEIGTC------------------  146 (653)
Q Consensus       100 i~~~~~~g~~~~a~~~~~~m~~~g~~p~--~~~~-------------~~li~~~~~~~~~~~------------------  146 (653)
                      ...+...|+.++|+..++++.+......  ...|             ...+..+...-....                  
T Consensus       188 A~ll~~~g~~~eAl~~l~~~~~~~~~~~~aa~~~~~~l~~~~~~~~~~~~l~~~l~~~p~~~~~~~A~~~L~~~~~~~~d  267 (1157)
T PRK11447        188 ALLLFSSGRRDEGFAVLEQMAKSPAGRDAAAQLWYGQIKDMPVSDASVAALQKYLQVFSDGDSVAAARSQLAEQQKQLAD  267 (1157)
T ss_pred             HHHHHccCCHHHHHHHHHHHhhCCCchHHHHHHHHHHHhccCCChhhHHHHHHHHHHCCCchHHHHHHHHHHHHHHhccC
Confidence            8999999999999999999865321000  0000             000111110000000                  


Q ss_pred             --cchHHHHHHHHHhhhhhhhhcCCccCC---CCchhhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCc-cHHHH-----
Q 048743          147 --LASNFLIQLCDVFLHLSAEKSNGAELI---KPDTMIFNLVLHACVRFGSSLKGQHIMELMSQTGVVA-DAHSI-----  215 (653)
Q Consensus       147 --~~~~~l~~~~~~~~~~~~a~~~~~~~~---~~~~~~yn~li~~~~~~g~~~~a~~l~~~m~~~g~~p-~~~t~-----  215 (653)
                        .........+...|++++|...|++.+   +.+...+..|-.++.+.|++++|...|++..+..-.. +...+     
T Consensus       268 p~~~~~~~G~~~~~~g~~~~A~~~l~~aL~~~P~~~~a~~~Lg~~~~~~g~~~eA~~~l~~Al~~~p~~~~~~~~~~ll~  347 (1157)
T PRK11447        268 PAFRARAQGLAAVDSGQGGKAIPELQQAVRANPKDSEALGALGQAYSQQGDRARAVAQFEKALALDPHSSNRDKWESLLK  347 (1157)
T ss_pred             cchHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCccchhHHHHHHH
Confidence              000111233344567888888887443   3366788899999999999999999999988753211 11111     


Q ss_pred             -------HHHHHHHHhcCChhhhHHHHHHhhhcCCCcccchhHHHHHHHHhhhccCCHHHHHHHHHHhcccCCCCCCchh
Q 048743          216 -------IILAQIHEMNCQRDELKKFKCYIDQLSTPFAHHYQQFYESLLSLHFKFDDIDAAGELILDMNRYREPLPNPKL  288 (653)
Q Consensus       216 -------~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~  288 (653)
                             ......+.+.|++++|.+.++......+.+    ...+..|-.+|...|++++|.+.|++..+..   |....
T Consensus       348 ~~~~~~~~~~g~~~~~~g~~~eA~~~~~~Al~~~P~~----~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~~~---p~~~~  420 (1157)
T PRK11447        348 VNRYWLLIQQGDAALKANNLAQAERLYQQARQVDNTD----SYAVLGLGDVAMARKDYAAAERYYQQALRMD---PGNTN  420 (1157)
T ss_pred             hhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCC----HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC---CCCHH
Confidence                   122445678999999999999998875432    2357788899999999999999999985421   11110


Q ss_pred             hhcccccchhccCCCcccchhhhccchhhhHHHHHHhhhhhHHHHHHhcCCCCCCHHHHHHHHHHHHhcCChHHHHHHHH
Q 048743          289 RQDAQKPYLISIGSPNLRCGLKLQIMPELLEKDSILKMEGKQELVLFRNGKLLHSNRAMAKLINGYKKHGKNSELSWLLL  368 (653)
Q Consensus       289 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~  368 (653)
                          ....+...... .........+.....       ......... ...+  ....+..+...+...|++++|++.|+
T Consensus       421 ----a~~~L~~l~~~-~~~~~A~~~l~~l~~-------~~~~~~~~~-~~~l--~~~~~~~~a~~~~~~g~~~eA~~~~~  485 (1157)
T PRK11447        421 ----AVRGLANLYRQ-QSPEKALAFIASLSA-------SQRRSIDDI-ERSL--QNDRLAQQAEALENQGKWAQAAELQR  485 (1157)
T ss_pred             ----HHHHHHHHHHh-cCHHHHHHHHHhCCH-------HHHHHHHHH-HHHh--hhhHHHHHHHHHHHCCCHHHHHHHHH
Confidence                00000000000 000000000000000       000000000 0000  11245567778889999999999999


Q ss_pred             HHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCcc
Q 048743          369 SIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTYKSLLTAYYKVKMFREAEALLKQMRKSCLVQ  448 (653)
Q Consensus       369 ~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p  448 (653)
                      +..+..  |.+...+..+...|.+.|++++|...+++..+.. +.+...+..+...+...+++++|+..++.+......+
T Consensus       486 ~Al~~~--P~~~~~~~~LA~~~~~~G~~~~A~~~l~~al~~~-P~~~~~~~a~al~l~~~~~~~~Al~~l~~l~~~~~~~  562 (1157)
T PRK11447        486 QRLALD--PGSVWLTYRLAQDLRQAGQRSQADALMRRLAQQK-PNDPEQVYAYGLYLSGSDRDRAALAHLNTLPRAQWNS  562 (1157)
T ss_pred             HHHHhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHhCCCHHHHHHHHHhCCchhcCh
Confidence            999887  7777778889999999999999999999998743 2345555555556778899999999998765432222


Q ss_pred             CchhhHHHHhhHHHHhhhcccccccccccCCHHHHHHHHHHHHHccCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhc
Q 048743          449 NLSCEMVVSERFSEVADKSASFTDTSSLMDKSDLAESLIQEMREEAALSTIYKLNSSIYFFCKGKMIGDALKIYRRMQEM  528 (653)
Q Consensus       449 ~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~  528 (653)
                      +. ..+..........    ...+.+...|+.++|..+++.     ..++...+..+...+.+.|++++|++.|++..+.
T Consensus       563 ~~-~~l~~~l~~~~~l----~~a~~l~~~G~~~eA~~~l~~-----~p~~~~~~~~La~~~~~~g~~~~A~~~y~~al~~  632 (1157)
T PRK11447        563 NI-QELAQRLQSDQVL----ETANRLRDSGKEAEAEALLRQ-----QPPSTRIDLTLADWAQQRGDYAAARAAYQRVLTR  632 (1157)
T ss_pred             hH-HHHHHHHhhhHHH----HHHHHHHHCCCHHHHHHHHHh-----CCCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            11 0000000000000    011234458999999999872     1236667788899999999999999999999886


Q ss_pred             CCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHHhhhCCCcc-CHHHHHHHHHHHHhCCCHHHHHHHHHHHHhCCC--C
Q 048743          529 KIRPTVETFYYLVYGHSSLEMYRDITILWGDIKRNIESGVLAV-SRDLYETLLLNFLQGGYFERVMEVIGYMKKQNM--Y  605 (653)
Q Consensus       529 g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~p-~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~--~  605 (653)
                      . +-+...+..+...+...|+.++|.+.++.+.      ...| +...+..+..++...|++++|.++++++....-  .
T Consensus       633 ~-P~~~~a~~~la~~~~~~g~~~eA~~~l~~ll------~~~p~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~~~~~  705 (1157)
T PRK11447        633 E-PGNADARLGLIEVDIAQGDLAAARAQLAKLP------ATANDSLNTQRRVALAWAALGDTAAAQRTFNRLIPQAKSQP  705 (1157)
T ss_pred             C-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHh------ccCCCChHHHHHHHHHHHhCCCHHHHHHHHHHHhhhCccCC
Confidence            3 3357788899999999999999999998765      2333 455666778888899999999999999976532  2


Q ss_pred             C---CHHhHHHHH--HHhhhhhHHhhhhhHHHH
Q 048743          606 V---DKLMYKSEF--LKHHKHLYRRLKVSNART  633 (653)
Q Consensus       606 p---~~~t~~~l~--~~~~~~~~~~~~~~~~~~  633 (653)
                      |   +...+..+.  ....|+.++|....+...
T Consensus       706 ~~~~~a~~~~~~a~~~~~~G~~~~A~~~y~~Al  738 (1157)
T PRK11447        706 PSMESALVLRDAARFEAQTGQPQQALETYKDAM  738 (1157)
T ss_pred             cchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            2   112333222  344567777777666554

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.85  E-value=2.1e-18  Score=176.98  Aligned_cols=305  Identities=13%  Similarity=0.025  Sum_probs=206.0

Q ss_pred             HHHHhcCChhhHHHHHHHHHhcCCCccH-HHHHHHHHHHHhcCChhhhHHHHHHhhhcCCCcccchhHHHHHHHHhhhcc
Q 048743          185 HACVRFGSSLKGQHIMELMSQTGVVADA-HSIIILAQIHEMNCQRDELKKFKCYIDQLSTPFAHHYQQFYESLLSLHFKF  263 (653)
Q Consensus       185 ~~~~~~g~~~~a~~l~~~m~~~g~~p~~-~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~  263 (653)
                      ..+...|++++|.+.|+++.+.  .|+. .++..+...+...|++++|..+++.+...+.........++..+...|.+.
T Consensus        43 ~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~La~~~~~~  120 (389)
T PRK11788         43 LNFLLNEQPDKAIDLFIEMLKV--DPETVELHLALGNLFRRRGEVDRAIRIHQNLLSRPDLTREQRLLALQELGQDYLKA  120 (389)
T ss_pred             HHHHhcCChHHHHHHHHHHHhc--CcccHHHHHHHHHHHHHcCcHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHC
Confidence            3456789999999999999986  4544 356667777777777777777777666532211111223566667777777


Q ss_pred             CCHHHHHHHHHHhcccCCCCCCchhhhcccccchhccCCCcccchhhhccchhhhHHHHHHhhhhhHHHHHHhcCCCCCC
Q 048743          264 DDIDAAGELILDMNRYREPLPNPKLRQDAQKPYLISIGSPNLRCGLKLQIMPELLEKDSILKMEGKQELVLFRNGKLLHS  343 (653)
Q Consensus       264 g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~  343 (653)
                      |++++|..+|+++.+                                                           . -+++
T Consensus       121 g~~~~A~~~~~~~l~-----------------------------------------------------------~-~~~~  140 (389)
T PRK11788        121 GLLDRAEELFLQLVD-----------------------------------------------------------E-GDFA  140 (389)
T ss_pred             CCHHHHHHHHHHHHc-----------------------------------------------------------C-Ccch
Confidence            777777777776621                                                           0 1123


Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCC---cccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHH
Q 048743          344 NRAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGE---STLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTYKS  420 (653)
Q Consensus       344 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~---~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~  420 (653)
                      ..+++.+...+.+.|++++|.+.++.+.+.+..++.   ...|..+...+.+.|++++|...|+++.+.. +.+...+..
T Consensus       141 ~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~  219 (389)
T PRK11788        141 EGALQQLLEIYQQEKDWQKAIDVAERLEKLGGDSLRVEIAHFYCELAQQALARGDLDAARALLKKALAAD-PQCVRASIL  219 (389)
T ss_pred             HHHHHHHHHHHHHhchHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhHC-cCCHHHHHH
Confidence            445666667777777777777777776655411111   1123445555666666666666666665542 223445555


Q ss_pred             HHHHHHHcCChHHHHHHHHHHHHcCCccCchhhHHHHhhHHHHhhhcccccccccccCCHHHHHHHHHHHHHccCCCCHH
Q 048743          421 LLTAYYKVKMFREAEALLKQMRKSCLVQNLSCEMVVSERFSEVADKSASFTDTSSLMDKSDLAESLIQEMREEAALSTIY  500 (653)
Q Consensus       421 li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~  500 (653)
                      +...+.+.|++++|.++|+++.+.  .|+                                               ....
T Consensus       220 la~~~~~~g~~~~A~~~~~~~~~~--~p~-----------------------------------------------~~~~  250 (389)
T PRK11788        220 LGDLALAQGDYAAAIEALERVEEQ--DPE-----------------------------------------------YLSE  250 (389)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHH--Chh-----------------------------------------------hHHH
Confidence            666666666666666666666542  121                                               1234


Q ss_pred             HHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHHhhhCCCccCHHHHHHHH
Q 048743          501 KLNSSIYFFCKGKMIGDALKIYRRMQEMKIRPTVETFYYLVYGHSSLEMYRDITILWGDIKRNIESGVLAVSRDLYETLL  580 (653)
Q Consensus       501 ~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~p~~~~y~~li  580 (653)
                      +++.++.+|...|++++|.+.++++.+.  .|+...+..+...+.+.|++++|..+++.+.      ...|+...++.++
T Consensus       251 ~~~~l~~~~~~~g~~~~A~~~l~~~~~~--~p~~~~~~~la~~~~~~g~~~~A~~~l~~~l------~~~P~~~~~~~l~  322 (389)
T PRK11788        251 VLPKLMECYQALGDEAEGLEFLRRALEE--YPGADLLLALAQLLEEQEGPEAAQALLREQL------RRHPSLRGFHRLL  322 (389)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCchHHHHHHHHHHHhCCHHHHHHHHHHHH------HhCcCHHHHHHHH
Confidence            5788889999999999999999998875  4676777888899999999999999998776      3468888898888


Q ss_pred             HHHHh---CCCHHHHHHHHHHHHhCCCCCCHH
Q 048743          581 LNFLQ---GGYFERVMEVIGYMKKQNMYVDKL  609 (653)
Q Consensus       581 ~~~~~---~g~~~~a~~~~~~m~~~g~~p~~~  609 (653)
                      ..+..   .|+.+++..++++|.++++.|+..
T Consensus       323 ~~~~~~~~~g~~~~a~~~~~~~~~~~~~~~p~  354 (389)
T PRK11788        323 DYHLAEAEEGRAKESLLLLRDLVGEQLKRKPR  354 (389)
T ss_pred             HHhhhccCCccchhHHHHHHHHHHHHHhCCCC
Confidence            87774   558899999999999888877654

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.83  E-value=8.5e-18  Score=172.52  Aligned_cols=316  Identities=11%  Similarity=0.044  Sum_probs=233.5

Q ss_pred             HHHHHhcCCCchHHHHHHHHHcCccCCCchhHHHHHHHHhhcccccccchHHHHHHHHHhhhhhhhhcCCccCCCCchhh
Q 048743          100 SLSLARAQMPVPASMILRLMLGRENLPCSDLLLLVFVHMVKTEIGTCLASNFLIQLCDVFLHLSAEKSNGAELIKPDTMI  179 (653)
Q Consensus       100 i~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  179 (653)
                      ...+...|++++|+..|+++.+.+                                                  +.+..+
T Consensus        42 g~~~~~~~~~~~A~~~~~~al~~~--------------------------------------------------p~~~~~   71 (389)
T PRK11788         42 GLNFLLNEQPDKAIDLFIEMLKVD--------------------------------------------------PETVEL   71 (389)
T ss_pred             HHHHHhcCChHHHHHHHHHHHhcC--------------------------------------------------cccHHH
Confidence            345667788999999998887642                                                  123456


Q ss_pred             HHHHHHHHHhcCChhhHHHHHHHHHhcCCCcc---HHHHHHHHHHHHhcCChhhhHHHHHHhhhcCCCcccchhHHHHHH
Q 048743          180 FNLVLHACVRFGSSLKGQHIMELMSQTGVVAD---AHSIIILAQIHEMNCQRDELKKFKCYIDQLSTPFAHHYQQFYESL  256 (653)
Q Consensus       180 yn~li~~~~~~g~~~~a~~l~~~m~~~g~~p~---~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l  256 (653)
                      +..+...+.+.|++++|.++++.+.+.+..++   ..++..+...+.+.|+++.|..+++.+.+...    .+..+++.+
T Consensus        72 ~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~La~~~~~~g~~~~A~~~~~~~l~~~~----~~~~~~~~l  147 (389)
T PRK11788         72 HLALGNLFRRRGEVDRAIRIHQNLLSRPDLTREQRLLALQELGQDYLKAGLLDRAEELFLQLVDEGD----FAEGALQQL  147 (389)
T ss_pred             HHHHHHHHHHcCcHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCc----chHHHHHHH
Confidence            77788888899999999999998887543222   24567888888999999999999988876532    234478999


Q ss_pred             HHhhhccCCHHHHHHHHHHhcccCCCCCCchhhhcccccchhccCCCcccchhhhccchhhhHHHHHHhhhhhHHHHHHh
Q 048743          257 LSLHFKFDDIDAAGELILDMNRYREPLPNPKLRQDAQKPYLISIGSPNLRCGLKLQIMPELLEKDSILKMEGKQELVLFR  336 (653)
Q Consensus       257 i~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  336 (653)
                      +..|.+.|++++|.+.++.+.+.. ..++                                                   
T Consensus       148 a~~~~~~g~~~~A~~~~~~~~~~~-~~~~---------------------------------------------------  175 (389)
T PRK11788        148 LEIYQQEKDWQKAIDVAERLEKLG-GDSL---------------------------------------------------  175 (389)
T ss_pred             HHHHHHhchHHHHHHHHHHHHHhc-CCcc---------------------------------------------------
Confidence            999999999999999999983211 0000                                                   


Q ss_pred             cCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHH
Q 048743          337 NGKLLHSNRAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDST  416 (653)
Q Consensus       337 ~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~  416 (653)
                         .......|..+...+.+.|++++|...|+++.+..  +.+...+..+...+.+.|++++|.++|+++.+.+......
T Consensus       176 ---~~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~  250 (389)
T PRK11788        176 ---RVEIAHFYCELAQQALARGDLDAARALLKKALAAD--PQCVRASILLGDLALAQGDYAAAIEALERVEEQDPEYLSE  250 (389)
T ss_pred             ---hHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhHC--cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHChhhHHH
Confidence               00011235667778889999999999999998876  6666678889999999999999999999998764333356


Q ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHHcCCccCchhhHHHHhhHHHHhhhcccccccccccCCHHHHHHHHHHHHHccCC
Q 048743          417 TYKSLLTAYYKVKMFREAEALLKQMRKSCLVQNLSCEMVVSERFSEVADKSASFTDTSSLMDKSDLAESLIQEMREEAAL  496 (653)
Q Consensus       417 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~  496 (653)
                      +++.+..+|.+.|++++|...++.+.+.  .|+........              +.+.+.|++++|..+++++.+..  
T Consensus       251 ~~~~l~~~~~~~g~~~~A~~~l~~~~~~--~p~~~~~~~la--------------~~~~~~g~~~~A~~~l~~~l~~~--  312 (389)
T PRK11788        251 VLPKLMECYQALGDEAEGLEFLRRALEE--YPGADLLLALA--------------QLLEEQEGPEAAQALLREQLRRH--  312 (389)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCchHHHHHH--------------HHHHHhCCHHHHHHHHHHHHHhC--
Confidence            7889999999999999999999999875  45542111111              12334788888888888877653  


Q ss_pred             CCHHHHHHHHHHHHc---CCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCCH
Q 048743          497 STIYKLNSSIYFFCK---GKMIGDALKIYRRMQEMKIRPTVETFYYLVYGHSSLEMY  550 (653)
Q Consensus       497 p~~~~y~~li~~~~~---~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~  550 (653)
                      |+...++.++..+..   .|+.++++.++++|.+.++.|+..      ..|.++|-.
T Consensus       313 P~~~~~~~l~~~~~~~~~~g~~~~a~~~~~~~~~~~~~~~p~------~~c~~cg~~  363 (389)
T PRK11788        313 PSLRGFHRLLDYHLAEAEEGRAKESLLLLRDLVGEQLKRKPR------YRCRNCGFT  363 (389)
T ss_pred             cCHHHHHHHHHHhhhccCCccchhHHHHHHHHHHHHHhCCCC------EECCCCCCC
Confidence            788888888877664   457888888888888877777665      346656543

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=99.82  E-value=5.1e-15  Score=170.73  Aligned_cols=519  Identities=12%  Similarity=0.028  Sum_probs=306.7

Q ss_pred             cccchHHHHHHHHHHHHhccchhHHHHHHHHhhhhcCCCCchhH-----------------HHHHHHhhccCCcchhhhH
Q 048743           14 WEGSSREVLLRKLESASKNHQVGEAWETFNDFQRLHGIPERHVV-----------------NRFITDLCYSAEPHWLQKA   76 (653)
Q Consensus        14 ~~~p~~~~~~~~i~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~-----------------~~ll~~~~~~~~~~~~~~a   76 (653)
                      ..+.++.++...+..+.+.|+.++|.+.++.+.+.  .|+...+                 -...+.+...|+   .++|
T Consensus        57 ~~p~~p~~~~~~~~~~l~~g~~~~A~~~l~~l~~~--~P~~~~~~~~~~~~~~~~~~~~~~l~~A~ll~~~g~---~~eA  131 (1157)
T PRK11447         57 IDPNNPDVIAARFRLLLRQGDSDGAQKLLDRLSQL--APDSNAYRSSRTTMLLSTPEGRQALQQARLLATTGR---TEEA  131 (1157)
T ss_pred             cCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhh--CCCChHHHHHHHHHHhcCCchhhHHHHHHHHHhCCC---HHHH
Confidence            34446677778888888888888888888888773  2333222                 111224555666   6888


Q ss_pred             HHHHHHHHhccCCchhHHHHHHHHHHHHhcCCCchHHHHHHHHHcCccCCCchhHHHHHHHH-hhcccccccchHHHHHH
Q 048743           77 CDLVLKIQKGKADLLQLDLLAKLSLSLARAQMPVPASMILRLMLGRENLPCSDLLLLVFVHM-VKTEIGTCLASNFLIQL  155 (653)
Q Consensus        77 ~~~~~~~~~~~~~~~~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~-~~~~~~~~~~~~~l~~~  155 (653)
                      ...|.+.....+..++.. ...........|+.++|++.|+++.+.  .|+.......+..+ ...+. ...+...+.++
T Consensus       132 ~~~~~~~l~~~p~~~~la-~~y~~~~~~~~g~~~~A~~~L~~ll~~--~P~~~~~~~~LA~ll~~~g~-~~eAl~~l~~~  207 (1157)
T PRK11447        132 LASYDKLFNGAPPELDLA-VEYWRLVAKLPAQRPEAINQLQRLNAD--YPGNTGLRNTLALLLFSSGR-RDEGFAVLEQM  207 (1157)
T ss_pred             HHHHHHHccCCCCChHHH-HHHHHHHhhCCccHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHccCC-HHHHHHHHHHH
Confidence            888888765443222111 111111122357888888888888776  35544333333222 22111 11111111111


Q ss_pred             HHH----------------------------------hh---hhhhhhcCCccC----CCCchhhHHHHHHHHHhcCChh
Q 048743          156 CDV----------------------------------FL---HLSAEKSNGAEL----IKPDTMIFNLVLHACVRFGSSL  194 (653)
Q Consensus       156 ~~~----------------------------------~~---~~~~a~~~~~~~----~~~~~~~yn~li~~~~~~g~~~  194 (653)
                      ...                                  +.   ..+.+...++..    ..|+.. ....-..+...|+++
T Consensus       208 ~~~~~~~~~aa~~~~~~l~~~~~~~~~~~~l~~~l~~~p~~~~~~~A~~~L~~~~~~~~dp~~~-~~~~G~~~~~~g~~~  286 (1157)
T PRK11447        208 AKSPAGRDAAAQLWYGQIKDMPVSDASVAALQKYLQVFSDGDSVAAARSQLAEQQKQLADPAFR-ARAQGLAAVDSGQGG  286 (1157)
T ss_pred             hhCCCchHHHHHHHHHHHhccCCChhhHHHHHHHHHHCCCchHHHHHHHHHHHHHHhccCcchH-HHHHHHHHHHCCCHH
Confidence            000                                  00   000011111000    011111 112234566778888


Q ss_pred             hHHHHHHHHHhcCCCc-cHHHHHHHHHHHHhcCChhhhHHHHHHhhhcCCCcccchh--------H--HHHHHHHhhhcc
Q 048743          195 KGQHIMELMSQTGVVA-DAHSIIILAQIHEMNCQRDELKKFKCYIDQLSTPFAHHYQ--------Q--FYESLLSLHFKF  263 (653)
Q Consensus       195 ~a~~l~~~m~~~g~~p-~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~--------~--~~~~li~~~~~~  263 (653)
                      +|...|++..+.  .| +...+..+..++.+.|+.++|.+.++...+..+.......        .  ....+-..+.+.
T Consensus       287 ~A~~~l~~aL~~--~P~~~~a~~~Lg~~~~~~g~~~eA~~~l~~Al~~~p~~~~~~~~~~ll~~~~~~~~~~~g~~~~~~  364 (1157)
T PRK11447        287 KAIPELQQAVRA--NPKDSEALGALGQAYSQQGDRARAVAQFEKALALDPHSSNRDKWESLLKVNRYWLLIQQGDAALKA  364 (1157)
T ss_pred             HHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCccchhHHHHHHHhhhHHHHHHHHHHHHHC
Confidence            888888888775  45 4556777888888888888888888887765432211000        0  111223456678


Q ss_pred             CCHHHHHHHHHHhcccCCCCCCchhhhcccccchhccCCCcccchhhhccchhhhHHHHHHhhhhhHHHHHHhcCCCCCC
Q 048743          264 DDIDAAGELILDMNRYREPLPNPKLRQDAQKPYLISIGSPNLRCGLKLQIMPELLEKDSILKMEGKQELVLFRNGKLLHS  343 (653)
Q Consensus       264 g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~  343 (653)
                      |++++|...|++..+...                                                            .+
T Consensus       365 g~~~eA~~~~~~Al~~~P------------------------------------------------------------~~  384 (1157)
T PRK11447        365 NNLAQAERLYQQARQVDN------------------------------------------------------------TD  384 (1157)
T ss_pred             CCHHHHHHHHHHHHHhCC------------------------------------------------------------CC
Confidence            888888888888743110                                                            11


Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCccc-----------------------------------------
Q 048743          344 NRAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTL-----------------------------------------  382 (653)
Q Consensus       344 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~-----------------------------------------  382 (653)
                      ...+..+-..+...|++++|++.|++..+..  |.+...                                         
T Consensus       385 ~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~~~--p~~~~a~~~L~~l~~~~~~~~A~~~l~~l~~~~~~~~~~~~~~l~~~  462 (1157)
T PRK11447        385 SYAVLGLGDVAMARKDYAAAERYYQQALRMD--PGNTNAVRGLANLYRQQSPEKALAFIASLSASQRRSIDDIERSLQND  462 (1157)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHhcCHHHHHHHHHhCCHHHHHHHHHHHHHhhhh
Confidence            2233344444444445555544444444433  222222                                         


Q ss_pred             -HHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCccCchhhHHHHhhHH
Q 048743          383 -CSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTYKSLLTAYYKVKMFREAEALLKQMRKSCLVQNLSCEMVVSERFS  461 (653)
Q Consensus       383 -~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~l~  461 (653)
                       +..+...+...|++++|.+.|++..+... -+...+..+...|.+.|++++|...|++..+.  .|+..........+ 
T Consensus       463 ~~~~~a~~~~~~g~~~eA~~~~~~Al~~~P-~~~~~~~~LA~~~~~~G~~~~A~~~l~~al~~--~P~~~~~~~a~al~-  538 (1157)
T PRK11447        463 RLAQQAEALENQGKWAQAAELQRQRLALDP-GSVWLTYRLAQDLRQAGQRSQADALMRRLAQQ--KPNDPEQVYAYGLY-  538 (1157)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc--CCCCHHHHHHHHHH-
Confidence             33344556677888999999888877532 25566777888899999999999999988763  35432111111110 


Q ss_pred             HHhhhcccccccccccCCHHHHHHHHHHHHHccCCCCH---------HHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCC
Q 048743          462 EVADKSASFTDTSSLMDKSDLAESLIQEMREEAALSTI---------YKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRP  532 (653)
Q Consensus       462 ~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~p~~---------~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p  532 (653)
                                  +...++.++|...++.+......++.         ..+..+...+...|+.++|+++++.     .+.
T Consensus       539 ------------l~~~~~~~~Al~~l~~l~~~~~~~~~~~l~~~l~~~~~l~~a~~l~~~G~~~eA~~~l~~-----~p~  601 (1157)
T PRK11447        539 ------------LSGSDRDRAALAHLNTLPRAQWNSNIQELAQRLQSDQVLETANRLRDSGKEAEAEALLRQ-----QPP  601 (1157)
T ss_pred             ------------HHhCCCHHHHHHHHHhCCchhcChhHHHHHHHHhhhHHHHHHHHHHHCCCHHHHHHHHHh-----CCC
Confidence                        22478888998888876543222221         1223456778899999999999882     244


Q ss_pred             CHHHHHHHHHHHhccCCHHHHHHHHHHHHHHhhhCCCccCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCCHHhH-
Q 048743          533 TVETFYYLVYGHSSLEMYRDITILWGDIKRNIESGVLAVSRDLYETLLLNFLQGGYFERVMEVIGYMKKQNMYVDKLMY-  611 (653)
Q Consensus       533 ~~~t~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~-  611 (653)
                      +...+..+...+.+.|++++|+..++.+.+.     -+.+...+..+...|...|++++|++.++...+.  .|+.... 
T Consensus       602 ~~~~~~~La~~~~~~g~~~~A~~~y~~al~~-----~P~~~~a~~~la~~~~~~g~~~eA~~~l~~ll~~--~p~~~~~~  674 (1157)
T PRK11447        602 STRIDLTLADWAQQRGDYAAARAAYQRVLTR-----EPGNADARLGLIEVDIAQGDLAAARAQLAKLPAT--ANDSLNTQ  674 (1157)
T ss_pred             CchHHHHHHHHHHHcCCHHHHHHHHHHHHHh-----CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHhcc--CCCChHHH
Confidence            5566778888999999999999999988732     2336778889999999999999999999988753  4543332 


Q ss_pred             H--HHHHHhhhhhHHhhhhhHHHHH
Q 048743          612 K--SEFLKHHKHLYRRLKVSNARTE  634 (653)
Q Consensus       612 ~--~l~~~~~~~~~~~~~~~~~~~~  634 (653)
                      .  ..+....|+.++|....+.+.+
T Consensus       675 ~~la~~~~~~g~~~eA~~~~~~al~  699 (1157)
T PRK11447        675 RRVALAWAALGDTAAAQRTFNRLIP  699 (1157)
T ss_pred             HHHHHHHHhCCCHHHHHHHHHHHhh
Confidence            2  2224456788888888887766

>KOG4626 consensus O-linked N-acetylglucosamine transferase OGT [Carbohydrate transport and metabolism; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=99.80  E-value=9.8e-16  Score=149.80  Aligned_cols=451  Identities=12%  Similarity=0.022  Sum_probs=330.6

Q ss_pred             cccccccchHHHHHHHHHHHHhccchhHHHHHHHHhhhhcCCCCchhHHHHHHHhhccCCcchhhhHHHHHHHHHhccCC
Q 048743           10 EKLSWEGSSREVLLRKLESASKNHQVGEAWETFNDFQRLHGIPERHVVNRFITDLCYSAEPHWLQKACDLVLKIQKGKAD   89 (653)
Q Consensus        10 ~~l~~~~p~~~~~~~~i~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~a~~~~~~~~~~~~~   89 (653)
                      +.+............+.+..-+.|++.+|.+.....-+.  -|...--..++.+.-..++.  .+....--....+..+ 
T Consensus        39 qq~~~t~~~~~~~l~lah~~yq~gd~~~a~~h~nmv~~~--d~t~~~~llll~ai~~q~~r--~d~s~a~~~~a~r~~~-  113 (966)
T KOG4626|consen   39 QQFNKTHEGSDDRLELAHRLYQGGDYKQAEKHCNMVGQE--DPTNTERLLLLSAIFFQGSR--LDKSSAGSLLAIRKNP-  113 (966)
T ss_pred             HHhccCCccchhHHHHHHHHHhccCHHHHHHHHhHhhcc--CCCcccceeeehhhhhcccc--hhhhhhhhhhhhhccc-
Confidence            333333333334566677777889999999887765552  22222222333333223321  2222211111122222 


Q ss_pred             chhHHHHHHHHHHHHhcCCCchHHHHHHHHHcCccCCCchhHHHHHHHHhhcccccccchHHHHHHHHHhhhhhhhhcCC
Q 048743           90 LLQLDLLAKLSLSLARAQMPVPASMILRLMLGRENLPCSDLLLLVFVHMVKTEIGTCLASNFLIQLCDVFLHLSAEKSNG  169 (653)
Q Consensus        90 ~~~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  169 (653)
                       .-.++|+.+...+-..|+.+.|+.+++.|.+..                                              
T Consensus       114 -q~ae~ysn~aN~~kerg~~~~al~~y~~aiel~----------------------------------------------  146 (966)
T KOG4626|consen  114 -QGAEAYSNLANILKERGQLQDALALYRAAIELK----------------------------------------------  146 (966)
T ss_pred             -hHHHHHHHHHHHHHHhchHHHHHHHHHHHHhcC----------------------------------------------
Confidence             378899999999999999999999999987752                                              


Q ss_pred             ccCCCCchhhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCccHHHHH-HHHHHHHhcCChhhhHHHHHHhhhcCCCcccc
Q 048743          170 AELIKPDTMIFNLVLHACVRFGSSLKGQHIMELMSQTGVVADAHSII-ILAQIHEMNCQRDELKKFKCYIDQLSTPFAHH  248 (653)
Q Consensus       170 ~~~~~~~~~~yn~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~-~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~  248 (653)
                          +..+..|-.+-.++...|+.+.|.+.|.+..+  +.|+.+... -+-......|++.+|...+...........  
T Consensus       147 ----p~fida~inla~al~~~~~~~~a~~~~~~alq--lnP~l~ca~s~lgnLlka~Grl~ea~~cYlkAi~~qp~fA--  218 (966)
T KOG4626|consen  147 ----PKFIDAYINLAAALVTQGDLELAVQCFFEALQ--LNPDLYCARSDLGNLLKAEGRLEEAKACYLKAIETQPCFA--  218 (966)
T ss_pred             ----chhhHHHhhHHHHHHhcCCCcccHHHHHHHHh--cCcchhhhhcchhHHHHhhcccchhHHHHHHHHhhCCcee--
Confidence                22456777888889999999999999988886  468777644 344555567999999988877766543222  


Q ss_pred             hhHHHHHHHHhhhccCCHHHHHHHHHHhcccCCCCCCchhhhcccccchhccCCCcccchhhhccchhhhHHHHHHhhhh
Q 048743          249 YQQFYESLLSLHFKFDDIDAAGELILDMNRYREPLPNPKLRQDAQKPYLISIGSPNLRCGLKLQIMPELLEKDSILKMEG  328 (653)
Q Consensus       249 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  328 (653)
                        .+|+.|-..+-..|++..|++.|++..+                                                  
T Consensus       219 --iawsnLg~~f~~~Gei~~aiq~y~eAvk--------------------------------------------------  246 (966)
T KOG4626|consen  219 --IAWSNLGCVFNAQGEIWLAIQHYEEAVK--------------------------------------------------  246 (966)
T ss_pred             --eeehhcchHHhhcchHHHHHHHHHHhhc--------------------------------------------------
Confidence              3589999999999999999999988732                                                  


Q ss_pred             hHHHHHHhcCCCCCCH-HHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHH
Q 048743          329 KQELVLFRNGKLLHSN-RAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDME  407 (653)
Q Consensus       329 ~~~~~~~~~~~~~p~~-~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~  407 (653)
                                 +.|+- ..|-.|-..|...+.+++|...+.+.....  |....+|..+...|-..|++|.|...+++..
T Consensus       247 -----------ldP~f~dAYiNLGnV~ke~~~~d~Avs~Y~rAl~lr--pn~A~a~gNla~iYyeqG~ldlAI~~Ykral  313 (966)
T KOG4626|consen  247 -----------LDPNFLDAYINLGNVYKEARIFDRAVSCYLRALNLR--PNHAVAHGNLACIYYEQGLLDLAIDTYKRAL  313 (966)
T ss_pred             -----------CCCcchHHHhhHHHHHHHHhcchHHHHHHHHHHhcC--CcchhhccceEEEEeccccHHHHHHHHHHHH
Confidence                       34443 367788888999999999999998887776  7777788889899999999999999999988


Q ss_pred             HCCCCCC-HHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCccCc---hhhHHHHhhHHHHhhhcccccccccccCCHHHH
Q 048743          408 LAGHPMD-STTYKSLLTAYYKVKMFREAEALLKQMRKSCLVQNL---SCEMVVSERFSEVADKSASFTDTSSLMDKSDLA  483 (653)
Q Consensus       408 ~~g~~p~-~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~---~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~a  483 (653)
                      +.  .|+ ...|+.|..++-..|++.+|++.+.+....  .|+-   .+.+-                ..|...|+++.|
T Consensus       314 ~~--~P~F~~Ay~NlanALkd~G~V~ea~~cYnkaL~l--~p~hadam~NLg----------------ni~~E~~~~e~A  373 (966)
T KOG4626|consen  314 EL--QPNFPDAYNNLANALKDKGSVTEAVDCYNKALRL--CPNHADAMNNLG----------------NIYREQGKIEEA  373 (966)
T ss_pred             hc--CCCchHHHhHHHHHHHhccchHHHHHHHHHHHHh--CCccHHHHHHHH----------------HHHHHhccchHH
Confidence            75  343 678999999999999999999999888773  3432   11111                124568899999


Q ss_pred             HHHHHHHHHccCCC-CHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCC-HHHHHHHHHHHhccCCHHHHHHHHHHHH
Q 048743          484 ESLIQEMREEAALS-TIYKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRPT-VETFYYLVYGHSSLEMYRDITILWGDIK  561 (653)
Q Consensus       484 ~~~~~~m~~~~~~p-~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~t~~~li~~~~~~~~~~~a~~~~~~~~  561 (653)
                      ..+|....+-.  | =...+|.|...|-..|++++|+..|++.++  +.|+ ...|+.+-..|-..|+.+.|.+.+....
T Consensus       374 ~~ly~~al~v~--p~~aaa~nNLa~i~kqqgnl~~Ai~~Ykealr--I~P~fAda~~NmGnt~ke~g~v~~A~q~y~rAI  449 (966)
T KOG4626|consen  374 TRLYLKALEVF--PEFAAAHNNLASIYKQQGNLDDAIMCYKEALR--IKPTFADALSNMGNTYKEMGDVSAAIQCYTRAI  449 (966)
T ss_pred             HHHHHHHHhhC--hhhhhhhhhHHHHHHhcccHHHHHHHHHHHHh--cCchHHHHHHhcchHHHHhhhHHHHHHHHHHHH
Confidence            99998777633  4 344688999999999999999999999776  6787 4679999999999999999999997765


Q ss_pred             HHhhhCCCccC-HHHHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCC--HHhHHHHHHH
Q 048743          562 RNIESGVLAVS-RDLYETLLLNFLQGGYFERVMEVIGYMKKQNMYVD--KLMYKSEFLK  617 (653)
Q Consensus       562 ~~~~~~~~~p~-~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~--~~t~~~l~~~  617 (653)
                            .+.|. ...++.|...|-..|++.+|++-+++..+  ++||  ..++|.+.|.
T Consensus       450 ------~~nPt~AeAhsNLasi~kDsGni~~AI~sY~~aLk--lkPDfpdA~cNllh~l  500 (966)
T KOG4626|consen  450 ------QINPTFAEAHSNLASIYKDSGNIPEAIQSYRTALK--LKPDFPDAYCNLLHCL  500 (966)
T ss_pred             ------hcCcHHHHHHhhHHHHhhccCCcHHHHHHHHHHHc--cCCCCchhhhHHHHHH
Confidence                  45564 34677888999999999999999999874  4565  4455555533

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.77  E-value=3.5e-14  Score=133.15  Aligned_cols=439  Identities=10%  Similarity=0.027  Sum_probs=285.6

Q ss_pred             HHHHHHHhccchhHHHHHHHHhhhhcCCCCchhHHHHHHHhhccCCcchhhhHHHHHHHHHhcc---------C------
Q 048743           24 RKLESASKNHQVGEAWETFNDFQRLHGIPERHVVNRFITDLCYSAEPHWLQKACDLVLKIQKGK---------A------   88 (653)
Q Consensus        24 ~~i~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~a~~~~~~~~~~~---------~------   88 (653)
                      .-+.-...+|.+.++.-+|+.|...+...++..-..+++..+......-.---++.|..|...+         |      
T Consensus       120 ~nL~kmIS~~EvKDs~ilY~~m~~e~~~vS~kvq~~L~~LV~~~Ns~~~~~~E~~~Fv~~~~~~E~S~~sWK~G~vAdL~  199 (625)
T KOG4422|consen  120 NNLLKMISSREVKDSCILYERMRSENVDVSEKVQLELFRLVTYYNSSNVPFAEWEEFVGMRNFGEDSTSSWKSGAVADLL  199 (625)
T ss_pred             hHHHHHHhhcccchhHHHHHHHHhcCCCCCHHHHHHHHHHHHhhcCCCCcchhHHHHhhccccccccccccccccHHHHH
Confidence            3344566789999999999999997766666666666666555443222222233343332110         0      


Q ss_pred             ---CchhHHHHHHHHHHHHhcCCCchHHHHHHHHHcCccCCCchhHHHHHHHHhhcccccccchHHHHHHHHHhhhhhhh
Q 048743           89 ---DLLQLDLLAKLSLSLARAQMPVPASMILRLMLGRENLPCSDLLLLVFVHMVKTEIGTCLASNFLIQLCDVFLHLSAE  165 (653)
Q Consensus        89 ---~~~~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  165 (653)
                         ..-+..||.++|.++|+-...+.|.+++++-.....+.+..+||.+|.+..-+..                  -+..
T Consensus       200 ~E~~PKT~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~~~~------------------K~Lv  261 (625)
T KOG4422|consen  200 FETLPKTDETVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSYSVG------------------KKLV  261 (625)
T ss_pred             HhhcCCCchhHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHhhcc------------------HHHH
Confidence               1126789999999999999999999999999888889999999999875443211                  0111


Q ss_pred             hcCCccCCCCchhhHHHHHHHHHhcCChh----hHHHHHHHHHhcCCCccHHHHHHHHHHHHhcCChhhhHHHHHHhhhc
Q 048743          166 KSNGAELIKPDTMIFNLVLHACVRFGSSL----KGQHIMELMSQTGVVADAHSIIILAQIHEMNCQRDELKKFKCYIDQL  241 (653)
Q Consensus       166 ~~~~~~~~~~~~~~yn~li~~~~~~g~~~----~a~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~  241 (653)
                      -++....++||..|||+++.+.++.|+++    .|.+++.+|++-|+.|...+|..+|..+++.++..+.          
T Consensus       262 ~EMisqkm~Pnl~TfNalL~c~akfg~F~~ar~aalqil~EmKeiGVePsLsSyh~iik~f~re~dp~k~----------  331 (625)
T KOG4422|consen  262 AEMISQKMTPNLFTFNALLSCAAKFGKFEDARKAALQILGEMKEIGVEPSLSSYHLIIKNFKRESDPQKV----------  331 (625)
T ss_pred             HHHHHhhcCCchHhHHHHHHHHHHhcchHHHHHHHHHHHHHHHHhCCCcchhhHHHHHHHhcccCCchhh----------
Confidence            11222457899999999999999999775    4678899999999999999988888777665554331          


Q ss_pred             CCCcccchhHHHHHHHHhhhccCCHHHHHHHHHHhcccCCCCCCchhhhcccccchhccCCCcccchhhhccchhhhHHH
Q 048743          242 STPFAHHYQQFYESLLSLHFKFDDIDAAGELILDMNRYREPLPNPKLRQDAQKPYLISIGSPNLRCGLKLQIMPELLEKD  321 (653)
Q Consensus       242 ~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  321 (653)
                                                 |..++.++..+-                          .|.            
T Consensus       332 ---------------------------as~~i~dI~N~l--------------------------tGK------------  346 (625)
T KOG4422|consen  332 ---------------------------ASSWINDIQNSL--------------------------TGK------------  346 (625)
T ss_pred             ---------------------------hHHHHHHHHHhh--------------------------ccC------------
Confidence                                       112222220000                          000            


Q ss_pred             HHHhhhhhHHHHHHhcCCCCC-CHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCC---CCCCc---ccHHHHHHHHHHcC
Q 048743          322 SILKMEGKQELVLFRNGKLLH-SNRAMAKLINGYKKHGKNSELSWLLLSIKKEHH---SFGES---TLCSDVIDALIQLG  394 (653)
Q Consensus       322 ~~~~~~~~~~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~---~~~~~---~~~~~li~~~~~~g  394 (653)
                                    .-.-+.| |..-|...+..|.+..+.+.|.++..-.+...+   ++++.   .-|..+....|+..
T Consensus       347 --------------~fkp~~p~d~~FF~~AM~Ic~~l~d~~LA~~v~~ll~tg~N~~~ig~~~~~~fYyr~~~~licq~e  412 (625)
T KOG4422|consen  347 --------------TFKPITPTDNKFFQSAMSICSSLRDLELAYQVHGLLKTGDNWKFIGPDQHRNFYYRKFFDLICQME  412 (625)
T ss_pred             --------------cccCCCCchhHHHHHHHHHHHHhhhHHHHHHHHHHHHcCCchhhcChHHHHHHHHHHHHHHHHHHH
Confidence                          0011223 334567778888888888888877666554331   22221   22778889999999


Q ss_pred             CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCccCchhhHHHHhhHHHHhhhcccccccc
Q 048743          395 FLEAAHDILDDMELAGHPMDSTTYKSLLTAYYKVKMFREAEALLKQMRKSCLVQNLSCEMVVSERFSEVADKSASFTDTS  474 (653)
Q Consensus       395 ~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~~~  474 (653)
                      ..+..+..|+.|.-+-+-|+..+...++.|....|.++-.-+++.++...|..-.                         
T Consensus       413 s~~~~~~~Y~~lVP~~y~p~~~~m~~~lrA~~v~~~~e~ipRiw~D~~~~ght~r-------------------------  467 (625)
T KOG4422|consen  413 SIDVTLKWYEDLVPSAYFPHSQTMIHLLRALDVANRLEVIPRIWKDSKEYGHTFR-------------------------  467 (625)
T ss_pred             HHHHHHHHHHHhccceecCCchhHHHHHHHHhhcCcchhHHHHHHHHHHhhhhhh-------------------------
Confidence            9999999999998888889999999999999999999999999999988764332                         


Q ss_pred             cccCCHHHHHHHHHHHHHccCCCCHHHHHHHHHHHHc--CCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCCHHH
Q 048743          475 SLMDKSDLAESLIQEMREEAALSTIYKLNSSIYFFCK--GKMIGDALKIYRRMQEMKIRPTVETFYYLVYGHSSLEMYRD  552 (653)
Q Consensus       475 ~~~~~~~~a~~~~~~m~~~~~~p~~~~y~~li~~~~~--~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~  552 (653)
                           -+.-+.++..|......|+...-.-+=...++  ..-.+.....-.+|.+..+.  ....+.+.-.+.+.|+.++
T Consensus       468 -----~~l~eeil~~L~~~k~hp~tp~r~Ql~~~~ak~aad~~e~~e~~~~R~r~~~~~--~t~l~~ia~Ll~R~G~~qk  540 (625)
T KOG4422|consen  468 -----SDLREEILMLLARDKLHPLTPEREQLQVAFAKCAADIKEAYESQPIRQRAQDWP--ATSLNCIAILLLRAGRTQK  540 (625)
T ss_pred             -----HHHHHHHHHHHhcCCCCCCChHHHHHHHHHHHHHHHHHHHHHhhHHHHHhccCC--hhHHHHHHHHHHHcchHHH
Confidence                 22334455555555544543321122222221  11122223334455544444  4455667777889999999


Q ss_pred             HHHHHHHHHHHhhhCCCccCHHHHH---HHHHHHHhCCCHHHHHHHHHHHHhCCC
Q 048743          553 ITILWGDIKRNIESGVLAVSRDLYE---TLLLNFLQGGYFERVMEVIGYMKKQNM  604 (653)
Q Consensus       553 a~~~~~~~~~~~~~~~~~p~~~~y~---~li~~~~~~g~~~~a~~~~~~m~~~g~  604 (653)
                      |.++++.+.+   +.+-.|-....|   -+++.-.+....-.|..+++-|...++
T Consensus       541 A~e~l~l~~~---~~~~ip~~p~lnAm~El~d~a~~~~spsqA~~~lQ~a~~~n~  592 (625)
T KOG4422|consen  541 AWEMLGLFLR---KHNKIPRSPLLNAMAELMDSAKVSNSPSQAIEVLQLASAFNL  592 (625)
T ss_pred             HHHHHHHHHh---cCCcCCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCc
Confidence            9999988863   333333333344   566677778888888888888865543

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.75  E-value=3.9e-12  Score=140.52  Aligned_cols=543  Identities=11%  Similarity=-0.027  Sum_probs=317.8

Q ss_pred             ccccchHHHHHHHHHHHHhccchhHHHHHHHHhhhhcCCCCchhHHHHHHHhhccCCcchhhhHHHHHHHHHhccCCchh
Q 048743           13 SWEGSSREVLLRKLESASKNHQVGEAWETFNDFQRLHGIPERHVVNRFITDLCYSAEPHWLQKACDLVLKIQKGKADLLQ   92 (653)
Q Consensus        13 ~~~~p~~~~~~~~i~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~   92 (653)
                      ...+-+..++..+...|...|+.++|...+++..+.  .|+...|..++..+   ++   ..+|...++++....|..+ 
T Consensus        72 ~~dP~n~~~~~~LA~~yl~~g~~~~A~~~~~kAv~l--dP~n~~~~~~La~i---~~---~~kA~~~ye~l~~~~P~n~-  142 (987)
T PRK09782         72 QQVPDNIPLTLYLAEAYRHFGHDDRARLLLEDQLKR--HPGDARLERSLAAI---PV---EVKSVTTVEELLAQQKACD-  142 (987)
T ss_pred             HhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CcccHHHHHHHHHh---cc---ChhHHHHHHHHHHhCCCCh-
Confidence            334445667788888888888888888888887773  44444444444333   33   4677888888877666533 


Q ss_pred             HHHHHHHHHH--------HHhcCCCchHHHHHHHHHcCccCCCchhHHHH-H----------------HHHhhccccccc
Q 048743           93 LDLLAKLSLS--------LARAQMPVPASMILRLMLGRENLPCSDLLLLV-F----------------VHMVKTEIGTCL  147 (653)
Q Consensus        93 ~~t~~~li~~--------~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~l-i----------------~~~~~~~~~~~~  147 (653)
                       .++..+...        |.+.   +.|.+.++ .......|+..+.... .                ..+.+.+.....
T Consensus       143 -~~~~~la~~~~~~~~l~y~q~---eqAl~AL~-lr~~~~~~~~~vL~L~~~rlY~~l~dw~~Ai~lL~~L~k~~pl~~~  217 (987)
T PRK09782        143 -AVPTLRCRSEVGQNALRLAQL---PVARAQLN-DATFAASPEGKTLRTDLLQRAIYLKQWSQADTLYNEARQQNTLSAA  217 (987)
T ss_pred             -hHHHHHHHHhhccchhhhhhH---HHHHHHHH-HhhhCCCCCcHHHHHHHHHHHHHHhCHHHHHHHHHHHHhcCCCCHH
Confidence             333333333        5554   34444443 2222233343322222 1                122222222222


Q ss_pred             chHHHHHHHHH-hhhhhhhhcCCccCCCCchhhHHHHHHHHHhcCChhhHHHHHHHHHhcCCC-ccHHHHHH--------
Q 048743          148 ASNFLIQLCDV-FLHLSAEKSNGAELIKPDTMIFNLVLHACVRFGSSLKGQHIMELMSQTGVV-ADAHSIII--------  217 (653)
Q Consensus       148 ~~~~l~~~~~~-~~~~~~a~~~~~~~~~~~~~~yn~li~~~~~~g~~~~a~~l~~~m~~~g~~-p~~~t~~~--------  217 (653)
                      ....+...+.. .++ +.+..++....+-+...+..+.+.|.+.|+.++|.++++++...-.. |+..++..        
T Consensus       218 ~~~~L~~ay~q~l~~-~~a~al~~~~lk~d~~l~~ala~~yi~~G~~~~A~~~L~~~~~~~~~~~~~~~~~~~l~r~~~~  296 (987)
T PRK09782        218 ERRQWFDVLLAGQLD-DRLLALQSQGIFTDPQSRITYATALAYRGEKARLQHYLIENKPLFTTDAQEKSWLYLLSKYSAN  296 (987)
T ss_pred             HHHHHHHHHHHhhCH-HHHHHHhchhcccCHHHHHHHHHHHHHCCCHHHHHHHHHhCcccccCCCccHHHHHHHHhccCc
Confidence            22233334444 234 66666666555567888889999999999999999999998754222 33333222        


Q ss_pred             ----------------------HHHHHHhcCChhhhHHHHHHhhhc--------CCCcc-----------------cchh
Q 048743          218 ----------------------LAQIHEMNCQRDELKKFKCYIDQL--------STPFA-----------------HHYQ  250 (653)
Q Consensus       218 ----------------------ll~~~~~~g~~~~a~~~~~~~~~~--------~~~~~-----------------~~~~  250 (653)
                                            ++..+.+.++++.++++.+.-...        ..+..                 +.+.
T Consensus       297 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~y~~~~~~~  376 (987)
T PRK09782        297 PVQALANYTVQFADNRQYVVGATLPVLLKEGQYDAAQKLLATLPANEMLEERYAVSVATRNKAEALRLARLLYQQEPANL  376 (987)
T ss_pred             hhhhccchhhhhHHHHHHHHHHHHHHHHhccHHHHHHHHhcCCCcchHHHHHHhhccccCchhHHHHHHHHHHhcCCCCH
Confidence                                  144455566666555553211000        00000                 0000


Q ss_pred             HHHHHHHHhhhccCCHHHHHHHHHHhccc-CCCCCCchhhhcccccchhccCCCc-----ccchhhhccchhh----hHH
Q 048743          251 QFYESLLSLHFKFDDIDAAGELILDMNRY-REPLPNPKLRQDAQKPYLISIGSPN-----LRCGLKLQIMPEL----LEK  320 (653)
Q Consensus       251 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~-~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~~~~~----~~~  320 (653)
                      ...--+--...+.|+.++|.++|+...+. ++......+.     ..++......     ......+.-..+.    ...
T Consensus       377 ~~l~q~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~l~-----~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~  451 (987)
T PRK09782        377 TRLDQLTWQLMQNGQSREAADLLLQRYPFQGDARLSQTLM-----ARLASLLESHPYLATPAKVAILSKPLPLAEQRQWQ  451 (987)
T ss_pred             HHHHHHHHHHHHcccHHHHHHHHHHhcCCCcccccCHHHH-----HHHHHHHHhCCcccchHHHHHhccccccchhHHHH
Confidence            01111122234567788888888777441 1111111100     0000000000     0000000000000    000


Q ss_pred             HHHHhhhhhHHHHHHhcCCC-CC--CHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHH
Q 048743          321 DSILKMEGKQELVLFRNGKL-LH--SNRAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLE  397 (653)
Q Consensus       321 ~~~~~~~~~~~~~~~~~~~~-~p--~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~  397 (653)
                      .............. ...+. ++  +...|..+-.++.. ++.++|...+.+.....  |.+ .....+...+...|+++
T Consensus       452 ~~~~~~~~~~~~~~-~al~~~p~~~~~~a~~~LG~~l~~-~~~~eAi~a~~~Al~~~--Pd~-~~~L~lA~al~~~Gr~e  526 (987)
T PRK09782        452 SQLPGIADNCPAIV-RLLGDMSPSYDAAAWNRLAKCYRD-TLPGVALYAWLQAEQRQ--PDA-WQHRAVAYQAYQVEDYA  526 (987)
T ss_pred             hhhhhhhhhHHHHH-HhcccCCCCCCHHHHHHHHHHHHh-CCcHHHHHHHHHHHHhC--Cch-HHHHHHHHHHHHCCCHH
Confidence            00000000000000 11122 23  55677777777776 88999999888877665  433 22333445556899999


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCccCchhhHHHHhhHHHHhhhccccccccccc
Q 048743          398 AAHDILDDMELAGHPMDSTTYKSLLTAYYKVKMFREAEALLKQMRKSCLVQNLSCEMVVSERFSEVADKSASFTDTSSLM  477 (653)
Q Consensus       398 ~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~~~~~~  477 (653)
                      +|...|+++...  +|+...+..+..++.+.|++++|...++...+..  |+...  ....+....           ...
T Consensus       527 eAi~~~rka~~~--~p~~~a~~~la~all~~Gd~~eA~~~l~qAL~l~--P~~~~--l~~~La~~l-----------~~~  589 (987)
T PRK09782        527 TALAAWQKISLH--DMSNEDLLAAANTAQAAGNGAARDRWLQQAEQRG--LGDNA--LYWWLHAQR-----------YIP  589 (987)
T ss_pred             HHHHHHHHHhcc--CCCcHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--CccHH--HHHHHHHHH-----------HhC
Confidence            999999997654  4555666777788899999999999999998753  55421  111111111           125


Q ss_pred             CCHHHHHHHHHHHHHccCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCC-HHHHHHHHHHHhccCCHHHHHHH
Q 048743          478 DKSDLAESLIQEMREEAALSTIYKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRPT-VETFYYLVYGHSSLEMYRDITIL  556 (653)
Q Consensus       478 ~~~~~a~~~~~~m~~~~~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~t~~~li~~~~~~~~~~~a~~~  556 (653)
                      |++++|...+++..+..  |+...|..+...+.+.|++++|+..|++..+.  .|+ ...+..+-.++...|+.++|+..
T Consensus       590 Gr~~eAl~~~~~AL~l~--P~~~a~~~LA~~l~~lG~~deA~~~l~~AL~l--~Pd~~~a~~nLG~aL~~~G~~eeAi~~  665 (987)
T PRK09782        590 GQPELALNDLTRSLNIA--PSANAYVARATIYRQRHNVPAAVSDLRAALEL--EPNNSNYQAALGYALWDSGDIAQSREM  665 (987)
T ss_pred             CCHHHHHHHHHHHHHhC--CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHHHH
Confidence            99999999999998766  77888999999999999999999999998885  454 55677777899999999999999


Q ss_pred             HHHHHHHhhhCCCccCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCCH
Q 048743          557 WGDIKRNIESGVLAVSRDLYETLLLNFLQGGYFERVMEVIGYMKKQNMYVDK  608 (653)
Q Consensus       557 ~~~~~~~~~~~~~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~  608 (653)
                      ++...+.     -+-+...+..+..++...|++++|+..+++..+.  .|+.
T Consensus       666 l~~AL~l-----~P~~~~a~~nLA~al~~lGd~~eA~~~l~~Al~l--~P~~  710 (987)
T PRK09782        666 LERAHKG-----LPDDPALIRQLAYVNQRLDDMAATQHYARLVIDD--IDNQ  710 (987)
T ss_pred             HHHHHHh-----CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCC
Confidence            9888632     2335677888999999999999999999999844  4654

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.75  E-value=2.8e-12  Score=141.61  Aligned_cols=560  Identities=11%  Similarity=0.000  Sum_probs=287.2

Q ss_pred             HHHHHHHHHH--hccchhHHHHHHHHhhhhcCCCC-chhHHHHHHHhhccCCcchhhhHHHHHHHHHhccCCchhHHHHH
Q 048743           21 VLLRKLESAS--KNHQVGEAWETFNDFQRLHGIPE-RHVVNRFITDLCYSAEPHWLQKACDLVLKIQKGKADLLQLDLLA   97 (653)
Q Consensus        21 ~~~~~i~~~~--~~~~~~~A~~~~~~~~~~~~~~~-~~~~~~ll~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~t~~   97 (653)
                      ++..++.++.  ..|++++|...|+...+.  .|+ +.++..+...+...|+   .++|...+++..+..|.  |...+.
T Consensus        44 ~~~~f~~a~~~~~~Gd~~~A~~~l~~Al~~--dP~n~~~~~~LA~~yl~~g~---~~~A~~~~~kAv~ldP~--n~~~~~  116 (987)
T PRK09782         44 IYPRLDKALKAQKNNDEATAIREFEYIHQQ--VPDNIPLTLYLAEAYRHFGH---DDRARLLLEDQLKRHPG--DARLER  116 (987)
T ss_pred             HHHHHHHHHHHHhCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCC---HHHHHHHHHHHHhcCcc--cHHHHH
Confidence            4444444443  349999999999998873  343 4578888999999998   78999999998766542  344444


Q ss_pred             HHHHHHHhcCCCchHHHHHHHHHcCccCCCchhHHHHHHHH-hhcccccccchHHHHHHHHHhhhhhhhhcCCccCCCC-
Q 048743           98 KLSLSLARAQMPVPASMILRLMLGRENLPCSDLLLLVFVHM-VKTEIGTCLASNFLIQLCDVFLHLSAEKSNGAELIKP-  175 (653)
Q Consensus        98 ~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~-~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-  175 (653)
                      . +..+   +++++|..+++++.+.  .|+..-...++... +..  +      .  -.+...+....+.+  .+...| 
T Consensus       117 ~-La~i---~~~~kA~~~ye~l~~~--~P~n~~~~~~la~~~~~~--~------~--l~y~q~eqAl~AL~--lr~~~~~  178 (987)
T PRK09782        117 S-LAAI---PVEVKSVTTVEELLAQ--QKACDAVPTLRCRSEVGQ--N------A--LRLAQLPVARAQLN--DATFAAS  178 (987)
T ss_pred             H-HHHh---ccChhHHHHHHHHHHh--CCCChhHHHHHHHHhhcc--c------h--hhhhhHHHHHHHHH--HhhhCCC
Confidence            4 3333   9999999999999887  44433333222211 000  0      0  00233333344444  233334 


Q ss_pred             -chhhHHHH-HHHHHhcCChhhHHHHHHHHHhcCCCccHHHHHHHHHHHHh-cCChhhhHHHHHHhhhcCCCcccchhHH
Q 048743          176 -DTMIFNLV-LHACVRFGSSLKGQHIMELMSQTGVVADAHSIIILAQIHEM-NCQRDELKKFKCYIDQLSTPFAHHYQQF  252 (653)
Q Consensus       176 -~~~~yn~l-i~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~ll~~~~~-~g~~~~a~~~~~~~~~~~~~~~~~~~~~  252 (653)
                       +..+.... .+.|.+.|+++.|++++.++.+.+... ..-...+-.+|.. .++ +++..+++.       ....+..+
T Consensus       179 ~~~~vL~L~~~rlY~~l~dw~~Ai~lL~~L~k~~pl~-~~~~~~L~~ay~q~l~~-~~a~al~~~-------~lk~d~~l  249 (987)
T PRK09782        179 PEGKTLRTDLLQRAIYLKQWSQADTLYNEARQQNTLS-AAERRQWFDVLLAGQLD-DRLLALQSQ-------GIFTDPQS  249 (987)
T ss_pred             CCcHHHHHHHHHHHHHHhCHHHHHHHHHHHHhcCCCC-HHHHHHHHHHHHHhhCH-HHHHHHhch-------hcccCHHH
Confidence             45544444 899999999999999999999986432 2224556567776 366 666666432       22245667


Q ss_pred             HHHHHHhhhccCCHHHHHHHHHHhcccCCCCCCchhhhcccccchhccCCCc---ccchhhhccchhhhHHH--------
Q 048743          253 YESLLSLHFKFDDIDAAGELILDMNRYREPLPNPKLRQDAQKPYLISIGSPN---LRCGLKLQIMPELLEKD--------  321 (653)
Q Consensus       253 ~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~--------  321 (653)
                      +..+...|.+.|+.++|.++++++..-..-.|.+..     +--...-.+..   ..........++....-        
T Consensus       250 ~~ala~~yi~~G~~~~A~~~L~~~~~~~~~~~~~~~-----~~~~l~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  324 (987)
T PRK09782        250 RITYATALAYRGEKARLQHYLIENKPLFTTDAQEKS-----WLYLLSKYSANPVQALANYTVQFADNRQYVVGATLPVLL  324 (987)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHhCcccccCCCccHH-----HHHHHHhccCchhhhccchhhhhHHHHHHHHHHHHHHHH
Confidence            899999999999999999999998432211121110     00000000000   00000000000000000        


Q ss_pred             --------HHHhhh-hhHHHHHHhcCCCC-------------------C-CHHHHHHHHHHHHhcCChHHHHHHHHHHHh
Q 048743          322 --------SILKME-GKQELVLFRNGKLL-------------------H-SNRAMAKLINGYKKHGKNSELSWLLLSIKK  372 (653)
Q Consensus       322 --------~~~~~~-~~~~~~~~~~~~~~-------------------p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  372 (653)
                              ..+..+ ........+.....                   | +.....-+--...+.|+.++|.++|+..-.
T Consensus       325 ~~~~~~~~~~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~y~~~~~~~~~l~q~~~~~~~~~~~~~a~~~~~~~~~  404 (987)
T PRK09782        325 KEGQYDAAQKLLATLPANEMLEERYAVSVATRNKAEALRLARLLYQQEPANLTRLDQLTWQLMQNGQSREAADLLLQRYP  404 (987)
T ss_pred             hccHHHHHHHHhcCCCcchHHHHHHhhccccCchhHHHHHHHHHHhcCCCCHHHHHHHHHHHHHcccHHHHHHHHHHhcC
Confidence                    000000 00000111111110                   1 222222333334578889999999988766


Q ss_pred             -cCCCCCCcccHHHHHHHHHHcCC---HHHHHHH------------HHHH----------HH-CC-CCC--CHHHHHHHH
Q 048743          373 -EHHSFGESTLCSDVIDALIQLGF---LEAAHDI------------LDDM----------EL-AG-HPM--DSTTYKSLL  422 (653)
Q Consensus       373 -~~~~~~~~~~~~~li~~~~~~g~---~~~a~~~------------~~~m----------~~-~g-~~p--~~~~~~~li  422 (653)
                       .+..-.+...-.-++..|.+.+.   ..++..+            ....          .. .+ .++  +...|..+-
T Consensus       405 ~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~al~~~p~~~~~~a~~~LG  484 (987)
T PRK09782        405 FQGDARLSQTLMARLASLLESHPYLATPAKVAILSKPLPLAEQRQWQSQLPGIADNCPAIVRLLGDMSPSYDAAAWNRLA  484 (987)
T ss_pred             CCcccccCHHHHHHHHHHHHhCCcccchHHHHHhccccccchhHHHHhhhhhhhhhHHHHHHhcccCCCCCCHHHHHHHH
Confidence             22112233334466666666655   3333222            1111          00 01 123  455555555


Q ss_pred             HHHHHcCChHHHHHHHHHHHHcCCccCchhhHHHHhhHHH---------Hhhhccc----------ccccccccCCHHHH
Q 048743          423 TAYYKVKMFREAEALLKQMRKSCLVQNLSCEMVVSERFSE---------VADKSAS----------FTDTSSLMDKSDLA  483 (653)
Q Consensus       423 ~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~l~~---------~~~~~~~----------~~~~~~~~~~~~~a  483 (653)
                      .++.. +++++|...+.+....  .|+....+.....+..         .+++...          ....+...|+.+.|
T Consensus       485 ~~l~~-~~~~eAi~a~~~Al~~--~Pd~~~~L~lA~al~~~Gr~eeAi~~~rka~~~~p~~~a~~~la~all~~Gd~~eA  561 (987)
T PRK09782        485 KCYRD-TLPGVALYAWLQAEQR--QPDAWQHRAVAYQAYQVEDYATALAAWQKISLHDMSNEDLLAAANTAQAAGNGAAR  561 (987)
T ss_pred             HHHHh-CCcHHHHHHHHHHHHh--CCchHHHHHHHHHHHHCCCHHHHHHHHHHHhccCCCcHHHHHHHHHHHHCCCHHHH
Confidence            55554 5666666655555442  2443211111100000         0000000          00112335666666


Q ss_pred             HHHHHHHHHccCCC-CHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHH
Q 048743          484 ESLIQEMREEAALS-TIYKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRPTVETFYYLVYGHSSLEMYRDITILWGDIKR  562 (653)
Q Consensus       484 ~~~~~~m~~~~~~p-~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~~~~  562 (653)
                      ...++...+.+  | +...+..+...+.+.|++++|+..+++..+.  .|+...|..+..++.+.|++++|...++... 
T Consensus       562 ~~~l~qAL~l~--P~~~~l~~~La~~l~~~Gr~~eAl~~~~~AL~l--~P~~~a~~~LA~~l~~lG~~deA~~~l~~AL-  636 (987)
T PRK09782        562 DRWLQQAEQRG--LGDNALYWWLHAQRYIPGQPELALNDLTRSLNI--APSANAYVARATIYRQRHNVPAAVSDLRAAL-  636 (987)
T ss_pred             HHHHHHHHhcC--CccHHHHHHHHHHHHhCCCHHHHHHHHHHHHHh--CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHH-
Confidence            66666655543  3 2222222223333446666666666666543  3455566666666666666666666666654 


Q ss_pred             HhhhCCCcc-CHHHHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCCHHhH--HH-HHHHhhhhhHHhhhhhHHHHH
Q 048743          563 NIESGVLAV-SRDLYETLLLNFLQGGYFERVMEVIGYMKKQNMYVDKLMY--KS-EFLKHHKHLYRRLKVSNARTE  634 (653)
Q Consensus       563 ~~~~~~~~p-~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~--~~-l~~~~~~~~~~~~~~~~~~~~  634 (653)
                           ...| +...++.+...+...|++++|++.+++..+.  .|+....  +. .+....|+.+.|...++..++
T Consensus       637 -----~l~Pd~~~a~~nLG~aL~~~G~~eeAi~~l~~AL~l--~P~~~~a~~nLA~al~~lGd~~eA~~~l~~Al~  705 (987)
T PRK09782        637 -----ELEPNNSNYQAALGYALWDSGDIAQSREMLERAHKG--LPDDPALIRQLAYVNQRLDDMAATQHYARLVID  705 (987)
T ss_pred             -----HhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHh
Confidence                 2233 3444555555666666777776666666543  3332211  11 114445666666666666665

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.75  E-value=5.7e-14  Score=151.44  Aligned_cols=358  Identities=10%  Similarity=-0.014  Sum_probs=240.1

Q ss_pred             HHhccchhHHHHHHHHhhhhcCC--CCchhHHHHHHHhhccCCcchhhhHHHHHHHHHhccCCchhHHHHHHHHHHHHhc
Q 048743           29 ASKNHQVGEAWETFNDFQRLHGI--PERHVVNRFITDLCYSAEPHWLQKACDLVLKIQKGKADLLQLDLLAKLSLSLARA  106 (653)
Q Consensus        29 ~~~~~~~~~A~~~~~~~~~~~~~--~~~~~~~~ll~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~t~~~li~~~~~~  106 (653)
                      +.++.+|+...-.|....+..-.  .+..-.-.++..+.+.|+   ..+|..++..+....+.  +...+..++.+....
T Consensus        15 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~---~~~A~~l~~~~l~~~p~--~~~~l~~l~~~~l~~   89 (656)
T PRK15174         15 LLKQEDWEGLCLYFSQHPEKVRDSAGNEQNIILFAIACLRKDE---TDVGLTLLSDRVLTAKN--GRDLLRRWVISPLAS   89 (656)
T ss_pred             hhhhhchhhHhHHhhcccHhhhhhcccccCHHHHHHHHHhcCC---cchhHHHhHHHHHhCCC--chhHHHHHhhhHhhc
Confidence            45778888888888877663211  122234556666777777   68999999888777665  455566666777789


Q ss_pred             CCCchHHHHHHHHHcCccCCCchhHHHHHHHHhhcccccccchHHHHHHHHHhhhhhhhhcCCccCCCCchhhHHHHHHH
Q 048743          107 QMPVPASMILRLMLGRENLPCSDLLLLVFVHMVKTEIGTCLASNFLIQLCDVFLHLSAEKSNGAELIKPDTMIFNLVLHA  186 (653)
Q Consensus       107 g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~yn~li~~  186 (653)
                      |+++.|++.|+++.+.  .|                                                .+...+..+...
T Consensus        90 g~~~~A~~~l~~~l~~--~P------------------------------------------------~~~~a~~~la~~  119 (656)
T PRK15174         90 SQPDAVLQVVNKLLAV--NV------------------------------------------------CQPEDVLLVASV  119 (656)
T ss_pred             CCHHHHHHHHHHHHHh--CC------------------------------------------------CChHHHHHHHHH
Confidence            9999999999998764  22                                                233445666777


Q ss_pred             HHhcCChhhHHHHHHHHHhcCCCccH-HHHHHHHHHHHhcCChhhhHHHHHHhhhcCCCcccchhHHHHHHHHhhhccCC
Q 048743          187 CVRFGSSLKGQHIMELMSQTGVVADA-HSIIILAQIHEMNCQRDELKKFKCYIDQLSTPFAHHYQQFYESLLSLHFKFDD  265 (653)
Q Consensus       187 ~~~~g~~~~a~~l~~~m~~~g~~p~~-~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~  265 (653)
                      +.+.|++++|.+.|+...+.  .|+. ..+..+...+...|+.++|...++.+....+....    .+..+ ..+...|+
T Consensus       120 l~~~g~~~~Ai~~l~~Al~l--~P~~~~a~~~la~~l~~~g~~~eA~~~~~~~~~~~P~~~~----a~~~~-~~l~~~g~  192 (656)
T PRK15174        120 LLKSKQYATVADLAEQAWLA--FSGNSQIFALHLRTLVLMDKELQAISLARTQAQEVPPRGD----MIATC-LSFLNKSR  192 (656)
T ss_pred             HHHcCCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHCCChHHHHHHHHHHHHhCCCCHH----HHHHH-HHHHHcCC
Confidence            88899999999999998864  5554 44667788888888988888888877554332211    23233 23677899


Q ss_pred             HHHHHHHHHHhcccCCCCCCchhhhcccccchhccCCCcccchhhhccchhhhHHHHHHhhhhhHHHHHHhcCCCCCCHH
Q 048743          266 IDAAGELILDMNRYREPLPNPKLRQDAQKPYLISIGSPNLRCGLKLQIMPELLEKDSILKMEGKQELVLFRNGKLLHSNR  345 (653)
Q Consensus       266 ~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~  345 (653)
                      +++|...++.+.+.                                                           ...++..
T Consensus       193 ~~eA~~~~~~~l~~-----------------------------------------------------------~~~~~~~  213 (656)
T PRK15174        193 LPEDHDLARALLPF-----------------------------------------------------------FALERQE  213 (656)
T ss_pred             HHHHHHHHHHHHhc-----------------------------------------------------------CCCcchh
Confidence            99999988887321                                                           0112223


Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHH----HHHHHHHHHHCCCCCCHHHHHHH
Q 048743          346 AMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEA----AHDILDDMELAGHPMDSTTYKSL  421 (653)
Q Consensus       346 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~----a~~~~~~m~~~g~~p~~~~~~~l  421 (653)
                      .+..+..++.+.|++++|...+++.....  |.+...+..+...+...|++++    |...|++..+.. +.+...+..+
T Consensus       214 ~~~~l~~~l~~~g~~~eA~~~~~~al~~~--p~~~~~~~~Lg~~l~~~G~~~eA~~~A~~~~~~Al~l~-P~~~~a~~~l  290 (656)
T PRK15174        214 SAGLAVDTLCAVGKYQEAIQTGESALARG--LDGAALRRSLGLAYYQSGRSREAKLQAAEHWRHALQFN-SDNVRIVTLY  290 (656)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHhcC--CCCHHHHHHHHHHHHHcCCchhhHHHHHHHHHHHHhhC-CCCHHHHHHH
Confidence            44455677888999999999999988776  6777778888888999998885    788888887753 3356788888


Q ss_pred             HHHHHHcCChHHHHHHHHHHHHcCCccCchhhHHHHhhHHHHhhhcccccccccccCCHHHHHHHHHHHHHccCCCCH-H
Q 048743          422 LTAYYKVKMFREAEALLKQMRKSCLVQNLSCEMVVSERFSEVADKSASFTDTSSLMDKSDLAESLIQEMREEAALSTI-Y  500 (653)
Q Consensus       422 i~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~p~~-~  500 (653)
                      ...+.+.|++++|...+++..+.  .|+........   .          ..|...|++++|...|+.+.+.+  |+. .
T Consensus       291 g~~l~~~g~~~eA~~~l~~al~l--~P~~~~a~~~L---a----------~~l~~~G~~~eA~~~l~~al~~~--P~~~~  353 (656)
T PRK15174        291 ADALIRTGQNEKAIPLLQQSLAT--HPDLPYVRAMY---A----------RALRQVGQYTAASDEFVQLAREK--GVTSK  353 (656)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHH---H----------HHHHHCCCHHHHHHHHHHHHHhC--ccchH
Confidence            88899999999999998888763  45531111000   0          11223556666666665555433  322 2


Q ss_pred             HHHHHHHHHHcCCCHHHHHHHHHHHHh
Q 048743          501 KLNSSIYFFCKGKMIGDALKIYRRMQE  527 (653)
Q Consensus       501 ~y~~li~~~~~~g~~~~a~~~~~~m~~  527 (653)
                      .+..+..++...|+.++|.+.|++..+
T Consensus       354 ~~~~~a~al~~~G~~deA~~~l~~al~  380 (656)
T PRK15174        354 WNRYAAAALLQAGKTSEAESVFEHYIQ  380 (656)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            222234455556666666666666554

>TIGR00990 3a0801s09 mitochondrial precursor proteins import receptor (72 kDa mitochondrial outermembrane protein) (mitochondrial import receptor for the ADP/ATP carrier) (translocase of outermembrane tom70)

Probab=99.75  E-value=1.7e-13  Score=148.29  Aligned_cols=417  Identities=9%  Similarity=-0.045  Sum_probs=219.9

Q ss_pred             HHHHHHHHHhccchhHHHHHHHHhhhhcCCCCchhHHHHHHHhhccCCcchhhhHHHHHHHHHhccCCchhHHHHHHHHH
Q 048743           22 LLRKLESASKNHQVGEAWETFNDFQRLHGIPERHVVNRFITDLCYSAEPHWLQKACDLVLKIQKGKADLLQLDLLAKLSL  101 (653)
Q Consensus        22 ~~~~i~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~t~~~li~  101 (653)
                      +...-..+.+.|+++.|+..|+...+.  .|++..|..+-.++.+.|+   .++|++.+.+..+..|.  +...|..+..
T Consensus       130 ~k~~G~~~~~~~~~~~Ai~~y~~al~~--~p~~~~~~n~a~~~~~l~~---~~~Ai~~~~~al~l~p~--~~~a~~~~a~  202 (615)
T TIGR00990       130 LKEKGNKAYRNKDFNKAIKLYSKAIEC--KPDPVYYSNRAACHNALGD---WEKVVEDTTAALELDPD--YSKALNRRAN  202 (615)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhc--CCchHHHHHHHHHHHHhCC---HHHHHHHHHHHHHcCCC--CHHHHHHHHH
Confidence            445566788899999999999998873  5677788888888888888   79999999998776543  6778888999


Q ss_pred             HHHhcCCCchHHHHHHHHHcCccCCCchhHHHHHHHHh------------hcccccccchHHHHHHHHHhhhhhhhhcCC
Q 048743          102 SLARAQMPVPASMILRLMLGRENLPCSDLLLLVFVHMV------------KTEIGTCLASNFLIQLCDVFLHLSAEKSNG  169 (653)
Q Consensus       102 ~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~------------~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  169 (653)
                      +|...|++++|+.-|......+-..+ .....++....            +...........+...+.. ........-+
T Consensus       203 a~~~lg~~~eA~~~~~~~~~~~~~~~-~~~~~~~~~~l~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~  280 (615)
T TIGR00990       203 AYDGLGKYADALLDLTASCIIDGFRN-EQSAQAVERLLKKFAESKAKEILETKPENLPSVTFVGNYLQS-FRPKPRPAGL  280 (615)
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCCCcc-HHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHH-ccCCcchhhh
Confidence            99999999999988876654321111 11111111100            0000000000001000000 0000000000


Q ss_pred             ccCC--CCch-hhHHHHHHH---HHhcCChhhHHHHHHHHHhcC-CCccH-HHHHHHHHHHHhcCChhhhHHHHHHhhhc
Q 048743          170 AELI--KPDT-MIFNLVLHA---CVRFGSSLKGQHIMELMSQTG-VVADA-HSIIILAQIHEMNCQRDELKKFKCYIDQL  241 (653)
Q Consensus       170 ~~~~--~~~~-~~yn~li~~---~~~~g~~~~a~~l~~~m~~~g-~~p~~-~t~~~ll~~~~~~g~~~~a~~~~~~~~~~  241 (653)
                      +...  .+.. ..+..+-..   ....+++++|.+.|+...+.+ ..|+. ..+..+...+...|++++|...++.....
T Consensus       281 ~~~~~~~~~~~~~~~~l~~~~~e~~~~~~y~~A~~~~~~al~~~~~~~~~a~a~~~lg~~~~~~g~~~eA~~~~~kal~l  360 (615)
T TIGR00990       281 EDSNELDEETGNGQLQLGLKSPESKADESYEEAARAFEKALDLGKLGEKEAIALNLRGTFKCLKGKHLEALADLSKSIEL  360 (615)
T ss_pred             hcccccccccccchHHHHHHHHHhhhhhhHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc
Confidence            0000  0000 001111000   012345666666666666543 23332 23445555555566666666666655544


Q ss_pred             CCCcccchhHHHHHHHHhhhccCCHHHHHHHHHHhcccCCCCCCchhhhcccccchhccCCCcccchhhhccchhhhHHH
Q 048743          242 STPFAHHYQQFYESLLSLHFKFDDIDAAGELILDMNRYREPLPNPKLRQDAQKPYLISIGSPNLRCGLKLQIMPELLEKD  321 (653)
Q Consensus       242 ~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  321 (653)
                      .+..    ...|..+...+...|++++|...|++..+                                           
T Consensus       361 ~P~~----~~~~~~la~~~~~~g~~~eA~~~~~~al~-------------------------------------------  393 (615)
T TIGR00990       361 DPRV----TQSYIKRASMNLELGDPDKAEEDFDKALK-------------------------------------------  393 (615)
T ss_pred             CCCc----HHHHHHHHHHHHHCCCHHHHHHHHHHHHH-------------------------------------------
Confidence            3211    12355555555566666666666665521                                           


Q ss_pred             HHHhhhhhHHHHHHhcCCCCC-CHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHH
Q 048743          322 SILKMEGKQELVLFRNGKLLH-SNRAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAH  400 (653)
Q Consensus       322 ~~~~~~~~~~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~  400 (653)
                                        ..| +...|..+...+...|++++|...|++.....  |.+...+..+...+.+.|++++|.
T Consensus       394 ------------------~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l~--P~~~~~~~~la~~~~~~g~~~eA~  453 (615)
T TIGR00990       394 ------------------LNSEDPDIYYHRAQLHFIKGEFAQAGKDYQKSIDLD--PDFIFSHIQLGVTQYKEGSIASSM  453 (615)
T ss_pred             ------------------hCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC--ccCHHHHHHHHHHHHHCCCHHHHH
Confidence                              112 23345555555666666666666666665554  445555555556666666666666


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCccCchhhHHHHhhHHHHhhhcccccccccccCCH
Q 048743          401 DILDDMELAGHPMDSTTYKSLLTAYYKVKMFREAEALLKQMRKSCLVQNLSCEMVVSERFSEVADKSASFTDTSSLMDKS  480 (653)
Q Consensus       401 ~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~  480 (653)
                      ..|++..+. .+-+...|+.+..++...|++++|...|+...+.  .|+.....                          
T Consensus       454 ~~~~~al~~-~P~~~~~~~~lg~~~~~~g~~~~A~~~~~~Al~l--~p~~~~~~--------------------------  504 (615)
T TIGR00990       454 ATFRRCKKN-FPEAPDVYNYYGELLLDQNKFDEAIEKFDTAIEL--EKETKPMY--------------------------  504 (615)
T ss_pred             HHHHHHHHh-CCCChHHHHHHHHHHHHccCHHHHHHHHHHHHhc--CCcccccc--------------------------
Confidence            666665543 2224455555666666666666666666665542  22210000                          


Q ss_pred             HHHHHHHHHHHHccCCCCH-HHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCC-HHHHHHHHHHHhccCCHHHHHHHHH
Q 048743          481 DLAESLIQEMREEAALSTI-YKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRPT-VETFYYLVYGHSSLEMYRDITILWG  558 (653)
Q Consensus       481 ~~a~~~~~~m~~~~~~p~~-~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~t~~~li~~~~~~~~~~~a~~~~~  558 (653)
                                      ++. ..++.....+...|++++|.+++++.....  |+ ...+..+...+...|++++|..+|+
T Consensus       505 ----------------~~~~~l~~~a~~~~~~~~~~~eA~~~~~kAl~l~--p~~~~a~~~la~~~~~~g~~~eAi~~~e  566 (615)
T TIGR00990       505 ----------------MNVLPLINKALALFQWKQDFIEAENLCEKALIID--PECDIAVATMAQLLLQQGDVDEALKLFE  566 (615)
T ss_pred             ----------------ccHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhcC--CCcHHHHHHHHHHHHHccCHHHHHHHHH
Confidence                            000 011222222333567777777777665542  33 3456666677777777777777776


Q ss_pred             HHH
Q 048743          559 DIK  561 (653)
Q Consensus       559 ~~~  561 (653)
                      ...
T Consensus       567 ~A~  569 (615)
T TIGR00990       567 RAA  569 (615)
T ss_pred             HHH
Confidence            654

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.71  E-value=7.2e-13  Score=146.15  Aligned_cols=423  Identities=11%  Similarity=-0.041  Sum_probs=253.1

Q ss_pred             hHHHHHHHHHHHHhccchhHHHHHHHHhhhhcCCCCchhHHHHHHHhhccCCcchhhhHHHHHHHHHhccCCchhHHHHH
Q 048743           18 SREVLLRKLESASKNHQVGEAWETFNDFQRLHGIPERHVVNRFITDLCYSAEPHWLQKACDLVLKIQKGKADLLQLDLLA   97 (653)
Q Consensus        18 ~~~~~~~~i~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~t~~   97 (653)
                      ++....-.+..+...|+.++|++++...... ...+...+..+-..+...|+   .++|..++.+.....|.  +...+.
T Consensus        14 ~~~~~~d~~~ia~~~g~~~~A~~~~~~~~~~-~~~~a~~~~~lA~~~~~~g~---~~~A~~~~~~al~~~P~--~~~a~~   87 (765)
T PRK10049         14 SNNQIADWLQIALWAGQDAEVITVYNRYRVH-MQLPARGYAAVAVAYRNLKQ---WQNSLTLWQKALSLEPQ--NDDYQR   87 (765)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh-CCCCHHHHHHHHHHHHHcCC---HHHHHHHHHHHHHhCCC--CHHHHH
Confidence            4455566677778999999999998887651 12223357777777777777   78899999887766554  455566


Q ss_pred             HHHHHHHhcCCCchHHHHHHHHHcCccCCCchhHHHHHHHHhhcccccccchHHHHHHHHHhhhhhhhhcCCccCCCCch
Q 048743           98 KLSLSLARAQMPVPASMILRLMLGRENLPCSDLLLLVFVHMVKTEIGTCLASNFLIQLCDVFLHLSAEKSNGAELIKPDT  177 (653)
Q Consensus        98 ~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  177 (653)
                      .+...+...|++++|+..+++..+.  .                                                +.+.
T Consensus        88 ~la~~l~~~g~~~eA~~~l~~~l~~--~------------------------------------------------P~~~  117 (765)
T PRK10049         88 GLILTLADAGQYDEALVKAKQLVSG--A------------------------------------------------PDKA  117 (765)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHh--C------------------------------------------------CCCH
Confidence            7888888999999999999887654  1                                                2233


Q ss_pred             hhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCccHHH-HHHHHHHHHhcCChhhhHHHHHHhhhcCCCcc--cchhHHHH
Q 048743          178 MIFNLVLHACVRFGSSLKGQHIMELMSQTGVVADAHS-IIILAQIHEMNCQRDELKKFKCYIDQLSTPFA--HHYQQFYE  254 (653)
Q Consensus       178 ~~yn~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t-~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~--~~~~~~~~  254 (653)
                      . +..+..++...|++++|+..+++..+.  .|+... +..+..++...|..+.|.+.++.+...  |..  ........
T Consensus       118 ~-~~~la~~l~~~g~~~~Al~~l~~al~~--~P~~~~~~~~la~~l~~~~~~e~Al~~l~~~~~~--p~~~~~l~~~~~~  192 (765)
T PRK10049        118 N-LLALAYVYKRAGRHWDELRAMTQALPR--APQTQQYPTEYVQALRNNRLSAPALGAIDDANLT--PAEKRDLEADAAA  192 (765)
T ss_pred             H-HHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCChHHHHHHHHhCCCC--HHHHHHHHHHHHH
Confidence            3 666777788889999999999988875  555544 445666777788888888887766541  111  00000112


Q ss_pred             HHHHhh-----hccCCH---HHHHHHHHHhcccCCCCCCchhhhcccccchhccCCCcccchhhhccchhhhHHHHHHhh
Q 048743          255 SLLSLH-----FKFDDI---DAAGELILDMNRYREPLPNPKLRQDAQKPYLISIGSPNLRCGLKLQIMPELLEKDSILKM  326 (653)
Q Consensus       255 ~li~~~-----~~~g~~---~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  326 (653)
                      .++..+     ...+++   ++|+..++.+.+.....|                                          
T Consensus       193 ~~~r~~~~~~~~~~~r~~~ad~Al~~~~~ll~~~~~~p------------------------------------------  230 (765)
T PRK10049        193 ELVRLSFMPTRSEKERYAIADRALAQYDALEALWHDNP------------------------------------------  230 (765)
T ss_pred             HHHHhhcccccChhHHHHHHHHHHHHHHHHHhhcccCC------------------------------------------
Confidence            222222     222334   677777877732111000                                          


Q ss_pred             hhhHHHHHHhcCCCCCCHH-HHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHH
Q 048743          327 EGKQELVLFRNGKLLHSNR-AMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDD  405 (653)
Q Consensus       327 ~~~~~~~~~~~~~~~p~~~-~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~  405 (653)
                                  ...|... .....+.++...|++++|+..|+.+.+.+...|+. .-..+..+|...|++++|...|++
T Consensus       231 ------------~~~~~~~~a~~d~l~~Ll~~g~~~eA~~~~~~ll~~~~~~P~~-a~~~la~~yl~~g~~e~A~~~l~~  297 (765)
T PRK10049        231 ------------DATADYQRARIDRLGALLARDRYKDVISEYQRLKAEGQIIPPW-AQRWVASAYLKLHQPEKAQSILTE  297 (765)
T ss_pred             ------------ccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhccCCCCCHH-HHHHHHHHHHhcCCcHHHHHHHHH
Confidence                        0111111 11122445567799999999999999876221221 123357789999999999999999


Q ss_pred             HHHCCCCC---CHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCccCchhhHHHHhhHHHHhhhcccccccccccCCHHH
Q 048743          406 MELAGHPM---DSTTYKSLLTAYYKVKMFREAEALLKQMRKSCLVQNLSCEMVVSERFSEVADKSASFTDTSSLMDKSDL  482 (653)
Q Consensus       406 m~~~g~~p---~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~  482 (653)
                      +.+.....   ....+..+..++...|++++|..+++.+.+.  .|........                    .     
T Consensus       298 ~l~~~p~~~~~~~~~~~~L~~a~~~~g~~~eA~~~l~~~~~~--~P~~~~~~~~--------------------~-----  350 (765)
T PRK10049        298 LFYHPETIADLSDEELADLFYSLLESENYPGALTVTAHTINN--SPPFLRLYGS--------------------P-----  350 (765)
T ss_pred             HhhcCCCCCCCChHHHHHHHHHHHhcccHHHHHHHHHHHhhc--CCceEeecCC--------------------C-----
Confidence            87643211   1345667777899999999999999999874  2321000000                    0     


Q ss_pred             HHHHHHHHHHccCCCC---HHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHH
Q 048743          483 AESLIQEMREEAALST---IYKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRPTVETFYYLVYGHSSLEMYRDITILWGD  559 (653)
Q Consensus       483 a~~~~~~m~~~~~~p~---~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~  559 (653)
                                 .-.|+   ...+..+...+...|+.++|+++++++.... +-+...+..+...+...|++++|++.++.
T Consensus       351 -----------~~~p~~~~~~a~~~~a~~l~~~g~~~eA~~~l~~al~~~-P~n~~l~~~lA~l~~~~g~~~~A~~~l~~  418 (765)
T PRK10049        351 -----------TSIPNDDWLQGQSLLSQVAKYSNDLPQAEMRARELAYNA-PGNQGLRIDYASVLQARGWPRAAENELKK  418 (765)
T ss_pred             -----------CCCCCchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Confidence                       00122   1123334444455555555555555554431 22334444555555555555555555554


Q ss_pred             HHHHhhhCCCccC-HHHHHHHHHHHHhCCCHHHHHHHHHHHHh
Q 048743          560 IKRNIESGVLAVS-RDLYETLLLNFLQGGYFERVMEVIGYMKK  601 (653)
Q Consensus       560 ~~~~~~~~~~~p~-~~~y~~li~~~~~~g~~~~a~~~~~~m~~  601 (653)
                      ..      ...|+ ...+-.....+.+.|++++|+.+++++.+
T Consensus       419 al------~l~Pd~~~l~~~~a~~al~~~~~~~A~~~~~~ll~  455 (765)
T PRK10049        419 AE------VLEPRNINLEVEQAWTALDLQEWRQMDVLTDDVVA  455 (765)
T ss_pred             HH------hhCCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            43      22232 33334444455555555555555555553

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.71  E-value=3.1e-12  Score=138.36  Aligned_cols=457  Identities=12%  Similarity=0.027  Sum_probs=256.4

Q ss_pred             ccccccchHHHHHHHHHHHHhccchhHHHHHHHHhhhhcCCCCc--hhHHHHHHHhhccCCcchhhhHHHHHHHHHhccC
Q 048743           11 KLSWEGSSREVLLRKLESASKNHQVGEAWETFNDFQRLHGIPER--HVVNRFITDLCYSAEPHWLQKACDLVLKIQKGKA   88 (653)
Q Consensus        11 ~l~~~~p~~~~~~~~i~~~~~~~~~~~A~~~~~~~~~~~~~~~~--~~~~~ll~~~~~~~~~~~~~~a~~~~~~~~~~~~   88 (653)
                      .+.+..|+..-...  -...+.|+++.|+..|++..+.  .|..  ..+ .++..+...|+   .++|+..+++..  .+
T Consensus        28 ~~~p~~~~~~y~~a--ii~~r~Gd~~~Al~~L~qaL~~--~P~~~~av~-dll~l~~~~G~---~~~A~~~~eka~--~p   97 (822)
T PRK14574         28 VVNPAMADTQYDSL--IIRARAGDTAPVLDYLQEESKA--GPLQSGQVD-DWLQIAGWAGR---DQEVIDVYERYQ--SS   97 (822)
T ss_pred             ccCccchhHHHHHH--HHHHhCCCHHHHHHHHHHHHhh--CccchhhHH-HHHHHHHHcCC---cHHHHHHHHHhc--cC
Confidence            34444555333333  3457999999999999998873  4443  244 77777777777   689999998875  22


Q ss_pred             CchhHHHHHHHHHHHHhcCCCchHHHHHHHHHcCccCCCchhHHHHHHHHhhcccccccchHHHHHHHHHhhhhhhhhcC
Q 048743           89 DLLQLDLLAKLSLSLARAQMPVPASMILRLMLGRENLPCSDLLLLVFVHMVKTEIGTCLASNFLIQLCDVFLHLSAEKSN  168 (653)
Q Consensus        89 ~~~~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  168 (653)
                      .......+..+...|...|++++|+++|+++.+.  .|+.......                 +...+...++.++|.+.
T Consensus        98 ~n~~~~~llalA~ly~~~gdyd~Aiely~kaL~~--dP~n~~~l~g-----------------La~~y~~~~q~~eAl~~  158 (822)
T PRK14574         98 MNISSRGLASAARAYRNEKRWDQALALWQSSLKK--DPTNPDLISG-----------------MIMTQADAGRGGVVLKQ  158 (822)
T ss_pred             CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CCCCHHHHHH-----------------HHHHHhhcCCHHHHHHH
Confidence            2223344444466888889999999999999876  3333211110                 11122222233333333


Q ss_pred             CccCC--CCchhhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCccHHH-HHHHHHHHHhcCChhhhHHHHHHhhhcCCCc
Q 048743          169 GAELI--KPDTMIFNLVLHACVRFGSSLKGQHIMELMSQTGVVADAHS-IIILAQIHEMNCQRDELKKFKCYIDQLSTPF  245 (653)
Q Consensus       169 ~~~~~--~~~~~~yn~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t-~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~  245 (653)
                      +++..  .|+...|-.++..+...++..+|++.++++.+.  .|+... +..+..+..+.|-...|.++.......-.+.
T Consensus       159 l~~l~~~dp~~~~~l~layL~~~~~~~~~AL~~~ekll~~--~P~n~e~~~~~~~~l~~~~~~~~a~~l~~~~p~~f~~~  236 (822)
T PRK14574        159 ATELAERDPTVQNYMTLSYLNRATDRNYDALQASSEAVRL--APTSEEVLKNHLEILQRNRIVEPALRLAKENPNLVSAE  236 (822)
T ss_pred             HHHhcccCcchHHHHHHHHHHHhcchHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCcHHHHHHHHhCccccCHH
Confidence            33222  223223322222222233333355555555544  243322 3344444444554444444433311110000


Q ss_pred             ccchhHHHHHHHHhhhccCCHHHHHHHHHHhcccCCCCCCchhhhcccccchhccCCCcccchhhhccchhhhHHHHHHh
Q 048743          246 AHHYQQFYESLLSLHFKFDDIDAAGELILDMNRYREPLPNPKLRQDAQKPYLISIGSPNLRCGLKLQIMPELLEKDSILK  325 (653)
Q Consensus       246 ~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  325 (653)
                           . +.-|        +.+.|-+..+--.     .+                    ...      ..+  .......
T Consensus       237 -----~-~~~l--------~~~~~a~~vr~a~-----~~--------------------~~~------~~~--r~~~~d~  269 (822)
T PRK14574        237 -----H-YRQL--------ERDAAAEQVRMAV-----LP--------------------TRS------ETE--RFDIADK  269 (822)
T ss_pred             -----H-HHHH--------HHHHHHHHHhhcc-----cc--------------------ccc------chh--hHHHHHH
Confidence                 0 0000        0011111110000     00                    000      000  0000001


Q ss_pred             hhhhHHHHHHhcCCCCCCHH----HHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHH
Q 048743          326 MEGKQELVLFRNGKLLHSNR----AMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHD  401 (653)
Q Consensus       326 ~~~~~~~~~~~~~~~~p~~~----~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~  401 (653)
                      ......-+.-.-...++...    ...--+-++...|++.++++.|+.+...+...|+ .+-..+.++|...+++++|..
T Consensus       270 ala~~~~l~~~~~~~p~~~~~~~~~~~Drl~aL~~r~r~~~vi~~y~~l~~~~~~~P~-y~~~a~adayl~~~~P~kA~~  348 (822)
T PRK14574        270 ALADYQNLLTRWGKDPEAQADYQRARIDRLGALLVRHQTADLIKEYEAMEAEGYKMPD-YARRWAASAYIDRRLPEKAAP  348 (822)
T ss_pred             HHHHHHHHHhhccCCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhhcCCCCCH-HHHHHHHHHHHhcCCcHHHHH
Confidence            11111110011112222222    2235566778899999999999999998843344 458899999999999999999


Q ss_pred             HHHHHHHCC-----CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCC-----------ccCchhhHHHHhhHHHHhh
Q 048743          402 ILDDMELAG-----HPMDSTTYKSLLTAYYKVKMFREAEALLKQMRKSCL-----------VQNLSCEMVVSERFSEVAD  465 (653)
Q Consensus       402 ~~~~m~~~g-----~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~-----------~p~~~~~~~~~~~l~~~~~  465 (653)
                      +|+.+....     .+++......|.-+|...+++++|..+++.+.+..-           .|+..+.-......     
T Consensus       349 l~~~~~~~~~~~~~~~~~~~~~~~L~yA~ld~e~~~~A~~~l~~~~~~~p~~~~~~~~~~~~pn~d~~~~~~l~a-----  423 (822)
T PRK14574        349 ILSSLYYSDGKTFRNSDDLLDADDLYYSLNESEQLDKAYQFAVNYSEQTPYQVGVYGLPGKEPNDDWIEGQTLLV-----  423 (822)
T ss_pred             HHHHHhhccccccCCCcchHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCcEEeccCCCCCCCCccHHHHHHHHH-----
Confidence            999996643     233455567899999999999999999999987311           12221111111011     


Q ss_pred             hcccccccccccCCHHHHHHHHHHHHHccCCC-CHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCC-HHHHHHHHHH
Q 048743          466 KSASFTDTSSLMDKSDLAESLIQEMREEAALS-TIYKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRPT-VETFYYLVYG  543 (653)
Q Consensus       466 ~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~t~~~li~~  543 (653)
                            ..+.-.|++.+|++.++++....  | |......+.+.+...|.+.+|++.++.....  .|+ ..+......+
T Consensus       424 ------~~~~~~gdl~~Ae~~le~l~~~a--P~n~~l~~~~A~v~~~Rg~p~~A~~~~k~a~~l--~P~~~~~~~~~~~~  493 (822)
T PRK14574        424 ------QSLVALNDLPTAQKKLEDLSSTA--PANQNLRIALASIYLARDLPRKAEQELKAVESL--APRSLILERAQAET  493 (822)
T ss_pred             ------HHHHHcCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhh--CCccHHHHHHHHHH
Confidence                  11234788888888888887654  6 8888888888888888888888888665543  444 4556677777


Q ss_pred             HhccCCHHHHHHHHHHHH
Q 048743          544 HSSLEMYRDITILWGDIK  561 (653)
Q Consensus       544 ~~~~~~~~~a~~~~~~~~  561 (653)
                      ....+++++|..+.+.+.
T Consensus       494 al~l~e~~~A~~~~~~l~  511 (822)
T PRK14574        494 AMALQEWHQMELLTDDVI  511 (822)
T ss_pred             HHhhhhHHHHHHHHHHHH
Confidence            788888888888887775

>KOG4626 consensus O-linked N-acetylglucosamine transferase OGT [Carbohydrate transport and metabolism; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=99.70  E-value=2.9e-14  Score=139.69  Aligned_cols=362  Identities=13%  Similarity=0.006  Sum_probs=212.1

Q ss_pred             CchhHHHHHHHhhccCCcchhhhHHHHHHHHHhccCCchhHHHHHHHHHHHHhcCCCchHHHHHHHHHcCccCCCchhHH
Q 048743           53 ERHVVNRFITDLCYSAEPHWLQKACDLVLKIQKGKADLLQLDLLAKLSLSLARAQMPVPASMILRLMLGRENLPCSDLLL  132 (653)
Q Consensus        53 ~~~~~~~ll~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~  132 (653)
                      -..+|+.+-+.+-..|+   +++|++++..+.+..+.  ..+.|..+..++...|+.+.|...|.+..+.  .|+.....
T Consensus       115 ~ae~ysn~aN~~kerg~---~~~al~~y~~aiel~p~--fida~inla~al~~~~~~~~a~~~~~~alql--nP~l~ca~  187 (966)
T KOG4626|consen  115 GAEAYSNLANILKERGQ---LQDALALYRAAIELKPK--FIDAYINLAAALVTQGDLELAVQCFFEALQL--NPDLYCAR  187 (966)
T ss_pred             HHHHHHHHHHHHHHhch---HHHHHHHHHHHHhcCch--hhHHHhhHHHHHHhcCCCcccHHHHHHHHhc--Ccchhhhh
Confidence            34688888888877777   78999999888766543  6788889999999999999999998887664  45544433


Q ss_pred             HHHHHHhhcccccccchHHHHHHHHHhhhhhhhhcCCccC--CCCc-hhhHHHHHHHHHhcCChhhHHHHHHHHHhcCCC
Q 048743          133 LVFVHMVKTEIGTCLASNFLIQLCDVFLHLSAEKSNGAEL--IKPD-TMIFNLVLHACVRFGSSLKGQHIMELMSQTGVV  209 (653)
Q Consensus       133 ~li~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~--~~~~-~~~yn~li~~~~~~g~~~~a~~l~~~m~~~g~~  209 (653)
                      +-+..+.+.                 .|++++|..-+-+-  ..|. .+.|+.|-..+-..|+...|++-|++..+.  .
T Consensus       188 s~lgnLlka-----------------~Grl~ea~~cYlkAi~~qp~fAiawsnLg~~f~~~Gei~~aiq~y~eAvkl--d  248 (966)
T KOG4626|consen  188 SDLGNLLKA-----------------EGRLEEAKACYLKAIETQPCFAIAWSNLGCVFNAQGEIWLAIQHYEEAVKL--D  248 (966)
T ss_pred             cchhHHHHh-----------------hcccchhHHHHHHHHhhCCceeeeehhcchHHhhcchHHHHHHHHHHhhcC--C
Confidence            322222211                 11222222211111  1222 245666666666666666666666666542  4


Q ss_pred             ccHH-HHHHHHHHHHhcCChhhhHHHHHHhhhcCCCcccchhHHHHHHHHhhhccCCHHHHHHHHHHhcccCCCCCCchh
Q 048743          210 ADAH-SIIILAQIHEMNCQRDELKKFKCYIDQLSTPFAHHYQQFYESLLSLHFKFDDIDAAGELILDMNRYREPLPNPKL  288 (653)
Q Consensus       210 p~~~-t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~  288 (653)
                      |+-. .|-.|-..|...+.++.|...+......++..    ..++..|-..|-..|++|-|+..+++...          
T Consensus       249 P~f~dAYiNLGnV~ke~~~~d~Avs~Y~rAl~lrpn~----A~a~gNla~iYyeqG~ldlAI~~Ykral~----------  314 (966)
T KOG4626|consen  249 PNFLDAYINLGNVYKEARIFDRAVSCYLRALNLRPNH----AVAHGNLACIYYEQGLLDLAIDTYKRALE----------  314 (966)
T ss_pred             CcchHHHhhHHHHHHHHhcchHHHHHHHHHHhcCCcc----hhhccceEEEEeccccHHHHHHHHHHHHh----------
Confidence            4432 25555666666666666666655554443211    12355555555566666666666655521          


Q ss_pred             hhcccccchhccCCCcccchhhhccchhhhHHHHHHhhhhhHHHHHHhcCCCCCCH-HHHHHHHHHHHhcCChHHHHHHH
Q 048743          289 RQDAQKPYLISIGSPNLRCGLKLQIMPELLEKDSILKMEGKQELVLFRNGKLLHSN-RAMAKLINGYKKHGKNSELSWLL  367 (653)
Q Consensus       289 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~-~~~~~li~~~~~~~~~~~a~~~~  367 (653)
                                                                         +.|+- ..|+.|-.++-..|++.+|.+.+
T Consensus       315 ---------------------------------------------------~~P~F~~Ay~NlanALkd~G~V~ea~~cY  343 (966)
T KOG4626|consen  315 ---------------------------------------------------LQPNFPDAYNNLANALKDKGSVTEAVDCY  343 (966)
T ss_pred             ---------------------------------------------------cCCCchHHHhHHHHHHHhccchHHHHHHH
Confidence                                                               22322 24566666666666666666666


Q ss_pred             HHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHHcCChHHHHHHHHHHHHcCC
Q 048743          368 LSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMD-STTYKSLLTAYYKVKMFREAEALLKQMRKSCL  446 (653)
Q Consensus       368 ~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~  446 (653)
                      .+...-.  +......+.|-..|...|.++.|..+|....+-  .|. ....+.|...|-..|+.++|..-+++..+  +
T Consensus       344 nkaL~l~--p~hadam~NLgni~~E~~~~e~A~~ly~~al~v--~p~~aaa~nNLa~i~kqqgnl~~Ai~~Ykealr--I  417 (966)
T KOG4626|consen  344 NKALRLC--PNHADAMNNLGNIYREQGKIEEATRLYLKALEV--FPEFAAAHNNLASIYKQQGNLDDAIMCYKEALR--I  417 (966)
T ss_pred             HHHHHhC--CccHHHHHHHHHHHHHhccchHHHHHHHHHHhh--ChhhhhhhhhHHHHHHhcccHHHHHHHHHHHHh--c
Confidence            6555544  444444555666666666666666666555442  222 33455555566666666666666555544  3


Q ss_pred             ccCchhhHHHHhhHHHHhhhcccccccccccCCHHHHHHHHHHHHHccCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHH
Q 048743          447 VQNLSCEMVVSERFSEVADKSASFTDTSSLMDKSDLAESLIQEMREEAALSTIYKLNSSIYFFCKGKMIGDALKIYRRMQ  526 (653)
Q Consensus       447 ~p~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~  526 (653)
                      .|+.                                                ...|+.+-..|-..|+++.|++.+.+.+
T Consensus       418 ~P~f------------------------------------------------Ada~~NmGnt~ke~g~v~~A~q~y~rAI  449 (966)
T KOG4626|consen  418 KPTF------------------------------------------------ADALSNMGNTYKEMGDVSAAIQCYTRAI  449 (966)
T ss_pred             CchH------------------------------------------------HHHHHhcchHHHHhhhHHHHHHHHHHHH
Confidence            4432                                                2345666666677777777777777666


Q ss_pred             hcCCCCC-HHHHHHHHHHHhccCCHHHHHHHHHHHH
Q 048743          527 EMKIRPT-VETFYYLVYGHSSLEMYRDITILWGDIK  561 (653)
Q Consensus       527 ~~g~~p~-~~t~~~li~~~~~~~~~~~a~~~~~~~~  561 (653)
                      ..  .|. ...++.|...|-.+|++.+|+.-+++..
T Consensus       450 ~~--nPt~AeAhsNLasi~kDsGni~~AI~sY~~aL  483 (966)
T KOG4626|consen  450 QI--NPTFAEAHSNLASIYKDSGNIPEAIQSYRTAL  483 (966)
T ss_pred             hc--CcHHHHHHhhHHHHhhccCCcHHHHHHHHHHH
Confidence            53  444 3456677777777777777777776665

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.70  E-value=4.1e-13  Score=144.89  Aligned_cols=327  Identities=10%  Similarity=-0.034  Sum_probs=216.8

Q ss_pred             HHHHHHHhcCChhhHHHHHHHHHhcCCCccHHHHHHHHHHHHhcCChhhhHHHHHHhhhcCCCcccchhHHHHHHHHhhh
Q 048743          182 LVLHACVRFGSSLKGQHIMELMSQTGVVADAHSIIILAQIHEMNCQRDELKKFKCYIDQLSTPFAHHYQQFYESLLSLHF  261 (653)
Q Consensus       182 ~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~li~~~~  261 (653)
                      .++..+.+.|+++.|..+++........+.. .+..++.+....|+.+.|.+.++.+....+....    .+..+...+.
T Consensus        47 ~~~~~~~~~g~~~~A~~l~~~~l~~~p~~~~-~l~~l~~~~l~~g~~~~A~~~l~~~l~~~P~~~~----a~~~la~~l~  121 (656)
T PRK15174         47 LFAIACLRKDETDVGLTLLSDRVLTAKNGRD-LLRRWVISPLASSQPDAVLQVVNKLLAVNVCQPE----DVLLVASVLL  121 (656)
T ss_pred             HHHHHHHhcCCcchhHHHhHHHHHhCCCchh-HHHHHhhhHhhcCCHHHHHHHHHHHHHhCCCChH----HHHHHHHHHH
Confidence            4567777888888888888887766433222 2334445555688888888888888776443322    4677777788


Q ss_pred             ccCCHHHHHHHHHHhcccCCCCCCchhhhcccccchhccCCCcccchhhhccchhhhHHHHHHhhhhhHHHHHHhcCCCC
Q 048743          262 KFDDIDAAGELILDMNRYREPLPNPKLRQDAQKPYLISIGSPNLRCGLKLQIMPELLEKDSILKMEGKQELVLFRNGKLL  341 (653)
Q Consensus       262 ~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  341 (653)
                      ..|++++|...+++..+                                                             +.
T Consensus       122 ~~g~~~~Ai~~l~~Al~-------------------------------------------------------------l~  140 (656)
T PRK15174        122 KSKQYATVADLAEQAWL-------------------------------------------------------------AF  140 (656)
T ss_pred             HcCCHHHHHHHHHHHHH-------------------------------------------------------------hC
Confidence            88888888888887732                                                             23


Q ss_pred             CC-HHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHH
Q 048743          342 HS-NRAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTYKS  420 (653)
Q Consensus       342 p~-~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~  420 (653)
                      |+ ...+..+...+...|++++|...++.+....  |.+...+..+ ..+.+.|++++|...++.+.+....++...+..
T Consensus       141 P~~~~a~~~la~~l~~~g~~~eA~~~~~~~~~~~--P~~~~a~~~~-~~l~~~g~~~eA~~~~~~~l~~~~~~~~~~~~~  217 (656)
T PRK15174        141 SGNSQIFALHLRTLVLMDKELQAISLARTQAQEV--PPRGDMIATC-LSFLNKSRLPEDHDLARALLPFFALERQESAGL  217 (656)
T ss_pred             CCcHHHHHHHHHHHHHCCChHHHHHHHHHHHHhC--CCCHHHHHHH-HHHHHcCCHHHHHHHHHHHHhcCCCcchhHHHH
Confidence            33 3456677777888888888888888776655  4444434333 346777888888888888766543344455555


Q ss_pred             HHHHHHHcCChHHHHHHHHHHHHcCCccCchhhHHHHhhHHHHhhhcccccccccccCCHHH----HHHHHHHHHHccCC
Q 048743          421 LLTAYYKVKMFREAEALLKQMRKSCLVQNLSCEMVVSERFSEVADKSASFTDTSSLMDKSDL----AESLIQEMREEAAL  496 (653)
Q Consensus       421 li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~----a~~~~~~m~~~~~~  496 (653)
                      +..++...|++++|...|+...+.  .|+.......   +.          ..|...|+.++    |...|++..+..  
T Consensus       218 l~~~l~~~g~~~eA~~~~~~al~~--~p~~~~~~~~---Lg----------~~l~~~G~~~eA~~~A~~~~~~Al~l~--  280 (656)
T PRK15174        218 AVDTLCAVGKYQEAIQTGESALAR--GLDGAALRRS---LG----------LAYYQSGRSREAKLQAAEHWRHALQFN--  280 (656)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHhc--CCCCHHHHHH---HH----------HHHHHcCCchhhHHHHHHHHHHHHhhC--
Confidence            566777888888888888887764  3543111110   00          11334667664    777787777654  


Q ss_pred             C-CHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCC-HHHHHHHHHHHhccCCHHHHHHHHHHHHHHhhhCCCccCHH
Q 048743          497 S-TIYKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRPT-VETFYYLVYGHSSLEMYRDITILWGDIKRNIESGVLAVSRD  574 (653)
Q Consensus       497 p-~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~t~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~p~~~  574 (653)
                      | +...+..+...+...|++++|+..+++..+.  .|+ ...+..+..++...|++++|...++.+.+      ..|+..
T Consensus       281 P~~~~a~~~lg~~l~~~g~~~eA~~~l~~al~l--~P~~~~a~~~La~~l~~~G~~~eA~~~l~~al~------~~P~~~  352 (656)
T PRK15174        281 SDNVRIVTLYADALIRTGQNEKAIPLLQQSLAT--HPDLPYVRAMYARALRQVGQYTAASDEFVQLAR------EKGVTS  352 (656)
T ss_pred             CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHH------hCccch
Confidence            5 6667788888888888888888888887764  343 44566677778888888888888877652      234433


Q ss_pred             H-HHHHHHHHHhCCCHHHHHHHHHHHHhC
Q 048743          575 L-YETLLLNFLQGGYFERVMEVIGYMKKQ  602 (653)
Q Consensus       575 ~-y~~li~~~~~~g~~~~a~~~~~~m~~~  602 (653)
                      . +..+..++...|+.++|.+.|++..+.
T Consensus       353 ~~~~~~a~al~~~G~~deA~~~l~~al~~  381 (656)
T PRK15174        353 KWNRYAAAALLQAGKTSEAESVFEHYIQA  381 (656)
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence            3 333456677888888888888877644

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.70  E-value=1.7e-12  Score=143.21  Aligned_cols=419  Identities=9%  Similarity=-0.003  Sum_probs=280.1

Q ss_pred             CchhHHHHHHHhhccCCcchhhhHHHHHHHHHhccCCchhHHHHHHHHHHHHhcCCCchHHHHHHHHHcCccCCCchhHH
Q 048743           53 ERHVVNRFITDLCYSAEPHWLQKACDLVLKIQKGKADLLQLDLLAKLSLSLARAQMPVPASMILRLMLGRENLPCSDLLL  132 (653)
Q Consensus        53 ~~~~~~~ll~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~  132 (653)
                      ++....-.+......|+   .++|++++.+.....+  .+...+..+..++.+.|++++|.+++++..+.  .       
T Consensus        14 ~~~~~~d~~~ia~~~g~---~~~A~~~~~~~~~~~~--~~a~~~~~lA~~~~~~g~~~~A~~~~~~al~~--~-------   79 (765)
T PRK10049         14 SNNQIADWLQIALWAGQ---DAEVITVYNRYRVHMQ--LPARGYAAVAVAYRNLKQWQNSLTLWQKALSL--E-------   79 (765)
T ss_pred             CHHHHHHHHHHHHHcCC---HHHHHHHHHHHHhhCC--CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--C-------
Confidence            44455666677777888   6888888888754222  35667888999999999999999999887653  1       


Q ss_pred             HHHHHHhhcccccccchHHHHHHHHHhhhhhhhhcCCccCCCCchhhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCccH
Q 048743          133 LVFVHMVKTEIGTCLASNFLIQLCDVFLHLSAEKSNGAELIKPDTMIFNLVLHACVRFGSSLKGQHIMELMSQTGVVADA  212 (653)
Q Consensus       133 ~li~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~yn~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~  212 (653)
                                                               +.+...+..+...+...|++++|...+++..+.  .|+.
T Consensus        80 -----------------------------------------P~~~~a~~~la~~l~~~g~~~eA~~~l~~~l~~--~P~~  116 (765)
T PRK10049         80 -----------------------------------------PQNDDYQRGLILTLADAGQYDEALVKAKQLVSG--APDK  116 (765)
T ss_pred             -----------------------------------------CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCC
Confidence                                                     223444556778889999999999999999876  4544


Q ss_pred             HHHHHHHHHHHhcCChhhhHHHHHHhhhcCCCcccchhHHHHHHHHhhhccCCHHHHHHHHHHhcccCCCCCCchhhhcc
Q 048743          213 HSIIILAQIHEMNCQRDELKKFKCYIDQLSTPFAHHYQQFYESLLSLHFKFDDIDAAGELILDMNRYREPLPNPKLRQDA  292 (653)
Q Consensus       213 ~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~  292 (653)
                      ..+..+..++...|+.++|...++.+.+..+...    .++..+..++...|..++|...++....    .|...     
T Consensus       117 ~~~~~la~~l~~~g~~~~Al~~l~~al~~~P~~~----~~~~~la~~l~~~~~~e~Al~~l~~~~~----~p~~~-----  183 (765)
T PRK10049        117 ANLLALAYVYKRAGRHWDELRAMTQALPRAPQTQ----QYPTEYVQALRNNRLSAPALGAIDDANL----TPAEK-----  183 (765)
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCH----HHHHHHHHHHHHCCChHHHHHHHHhCCC----CHHHH-----
Confidence            3377788888999999999999999988754332    2456677888889999999999987721    00000     


Q ss_pred             cccchhccCCCcccchhhhccchhhhHHHHHHhhhhhHHHHHHhcCCCCCCHHHHHHHHHHH-----HhcCCh---HHHH
Q 048743          293 QKPYLISIGSPNLRCGLKLQIMPELLEKDSILKMEGKQELVLFRNGKLLHSNRAMAKLINGY-----KKHGKN---SELS  364 (653)
Q Consensus       293 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~li~~~-----~~~~~~---~~a~  364 (653)
                                                                   ...  .......++...     ...+++   ++|+
T Consensus       184 ---------------------------------------------~~l--~~~~~~~~~r~~~~~~~~~~~r~~~ad~Al  216 (765)
T PRK10049        184 ---------------------------------------------RDL--EADAAAELVRLSFMPTRSEKERYAIADRAL  216 (765)
T ss_pred             ---------------------------------------------HHH--HHHHHHHHHHhhcccccChhHHHHHHHHHH
Confidence                                                         000  000111122222     122334   7788


Q ss_pred             HHHHHHHhcCCCCCCcc-cHH----HHHHHHHHcCCHHHHHHHHHHHHHCCCC-CCHHHHHHHHHHHHHcCChHHHHHHH
Q 048743          365 WLLLSIKKEHHSFGEST-LCS----DVIDALIQLGFLEAAHDILDDMELAGHP-MDSTTYKSLLTAYYKVKMFREAEALL  438 (653)
Q Consensus       365 ~~~~~m~~~~~~~~~~~-~~~----~li~~~~~~g~~~~a~~~~~~m~~~g~~-p~~~~~~~li~~~~~~~~~~~a~~~~  438 (653)
                      +.++.+.+.....|+.. .+.    ..+.++...|++++|...|+.+.+.+.+ |+- .-..+..+|...|++++|+..|
T Consensus       217 ~~~~~ll~~~~~~p~~~~~~~~a~~d~l~~Ll~~g~~~eA~~~~~~ll~~~~~~P~~-a~~~la~~yl~~g~~e~A~~~l  295 (765)
T PRK10049        217 AQYDALEALWHDNPDATADYQRARIDRLGALLARDRYKDVISEYQRLKAEGQIIPPW-AQRWVASAYLKLHQPEKAQSIL  295 (765)
T ss_pred             HHHHHHHhhcccCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhccCCCCCHH-HHHHHHHHHHhcCCcHHHHHHH
Confidence            88888886521122211 111    1134556779999999999999887632 332 2222577899999999999999


Q ss_pred             HHHHHcCCccCc-hh-hHHHHhhHHHHhhhcccccccccccCCHHHHHHHHHHHHHccCCCC-HHHHHHHHHHHHcCCCH
Q 048743          439 KQMRKSCLVQNL-SC-EMVVSERFSEVADKSASFTDTSSLMDKSDLAESLIQEMREEAALST-IYKLNSSIYFFCKGKMI  515 (653)
Q Consensus       439 ~~m~~~~~~p~~-~~-~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~p~-~~~y~~li~~~~~~g~~  515 (653)
                      +.+.+..  |.. .. ......+...           +...|+.++|...++.+.+..  |. ...+.            
T Consensus       296 ~~~l~~~--p~~~~~~~~~~~~L~~a-----------~~~~g~~~eA~~~l~~~~~~~--P~~~~~~~------------  348 (765)
T PRK10049        296 TELFYHP--ETIADLSDEELADLFYS-----------LLESENYPGALTVTAHTINNS--PPFLRLYG------------  348 (765)
T ss_pred             HHHhhcC--CCCCCCChHHHHHHHHH-----------HHhcccHHHHHHHHHHHhhcC--CceEeecC------------
Confidence            9987642  322 00 0111111111           223788888888888887653  32 11111            


Q ss_pred             HHHHHHHHHHHhcCCCCCH---HHHHHHHHHHhccCCHHHHHHHHHHHHHHhhhCCCccCHHHHHHHHHHHHhCCCHHHH
Q 048743          516 GDALKIYRRMQEMKIRPTV---ETFYYLVYGHSSLEMYRDITILWGDIKRNIESGVLAVSRDLYETLLLNFLQGGYFERV  592 (653)
Q Consensus       516 ~~a~~~~~~m~~~g~~p~~---~t~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~p~~~~y~~li~~~~~~g~~~~a  592 (653)
                                 ...-.|+.   ..+..+...+...|+.++|+.+++++...     .+.+...+..+...+...|++++|
T Consensus       349 -----------~~~~~p~~~~~~a~~~~a~~l~~~g~~~eA~~~l~~al~~-----~P~n~~l~~~lA~l~~~~g~~~~A  412 (765)
T PRK10049        349 -----------SPTSIPNDDWLQGQSLLSQVAKYSNDLPQAEMRARELAYN-----APGNQGLRIDYASVLQARGWPRAA  412 (765)
T ss_pred             -----------CCCCCCCchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-----CCCCHHHHHHHHHHHHhcCCHHHH
Confidence                       00114553   34556777888999999999999988632     344667888899999999999999


Q ss_pred             HHHHHHHHhCCCCCCHHhHHHHH---HHhhhhhHHhhhhhHHHHH
Q 048743          593 MEVIGYMKKQNMYVDKLMYKSEF---LKHHKHLYRRLKVSNARTE  634 (653)
Q Consensus       593 ~~~~~~m~~~g~~p~~~t~~~l~---~~~~~~~~~~~~~~~~~~~  634 (653)
                      ++.+++..+  +.||...+....   ....+++++++.+.+.+++
T Consensus       413 ~~~l~~al~--l~Pd~~~l~~~~a~~al~~~~~~~A~~~~~~ll~  455 (765)
T PRK10049        413 ENELKKAEV--LEPRNINLEVEQAWTALDLQEWRQMDVLTDDVVA  455 (765)
T ss_pred             HHHHHHHHh--hCCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            999999885  457754433322   4455789999999999988

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.70  E-value=5e-13  Score=125.55  Aligned_cols=394  Identities=12%  Similarity=0.080  Sum_probs=253.5

Q ss_pred             ccchHHHHHHHHHHHHhccchhHHHHHHHHhhhhcCCCCchhHHHHHHHhhccCCcchhhhHHHHHHHHHhccCCchhHH
Q 048743           15 EGSSREVLLRKLESASKNHQVGEAWETFNDFQRLHGIPERHVVNRFITDLCYSAEPHWLQKACDLVLKIQKGKADLLQLD   94 (653)
Q Consensus        15 ~~p~~~~~~~~i~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~   94 (653)
                      .+.+.+++..+|.++|+-...+.|.+++.+.....+..+..+||.+|.+-+.+..       -+++.+|... ...||..
T Consensus       203 ~PKT~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~~~~-------K~Lv~EMisq-km~Pnl~  274 (625)
T KOG4422|consen  203 LPKTDETVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSYSVG-------KKLVAEMISQ-KMTPNLF  274 (625)
T ss_pred             cCCCchhHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHhhcc-------HHHHHHHHHh-hcCCchH
Confidence            3457789999999999999999999999999998899999999999998776644       5677777554 3679999


Q ss_pred             HHHHHHHHHHhcCCCch----HHHHHHHHHcCccCCCchhHHHHHHHHhhcccccccchHHHHHHHHHhhhhhhhhcCCc
Q 048743           95 LLAKLSLSLARAQMPVP----ASMILRLMLGRENLPCSDLLLLVFVHMVKTEIGTCLASNFLIQLCDVFLHLSAEKSNGA  170 (653)
Q Consensus        95 t~~~li~~~~~~g~~~~----a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  170 (653)
                      |+|++++..++.|+++.    |++++.+|++.|+.|+..+|..+|.-.++.+.....+...+.+....   +  .-+-|.
T Consensus       275 TfNalL~c~akfg~F~~ar~aalqil~EmKeiGVePsLsSyh~iik~f~re~dp~k~as~~i~dI~N~---l--tGK~fk  349 (625)
T KOG4422|consen  275 TFNALLSCAAKFGKFEDARKAALQILGEMKEIGVEPSLSSYHLIIKNFKRESDPQKVASSWINDIQNS---L--TGKTFK  349 (625)
T ss_pred             hHHHHHHHHHHhcchHHHHHHHHHHHHHHHHhCCCcchhhHHHHHHHhcccCCchhhhHHHHHHHHHh---h--ccCccc
Confidence            99999999999998754    67899999999999999999999987776654433333333333221   1  111122


Q ss_pred             cCCCCchhhHHHHHHHHHhcCChhhHHHHHHHHHhcC----CCccHHHHHHHHHHHHhcCChhhhHHHHHHhhhcCCCcc
Q 048743          171 ELIKPDTMIFNLVLHACVRFGSSLKGQHIMELMSQTG----VVADAHSIIILAQIHEMNCQRDELKKFKCYIDQLSTPFA  246 (653)
Q Consensus       171 ~~~~~~~~~yn~li~~~~~~g~~~~a~~l~~~m~~~g----~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~  246 (653)
                      -.-+.|...|-.-+..|.+..|.+-|.++..-.....    +.|+                                   
T Consensus       350 p~~p~d~~FF~~AM~Ic~~l~d~~LA~~v~~ll~tg~N~~~ig~~-----------------------------------  394 (625)
T KOG4422|consen  350 PITPTDNKFFQSAMSICSSLRDLELAYQVHGLLKTGDNWKFIGPD-----------------------------------  394 (625)
T ss_pred             CCCCchhHHHHHHHHHHHHhhhHHHHHHHHHHHHcCCchhhcChH-----------------------------------
Confidence            2223344556666777777777777776655444211    1111                                   


Q ss_pred             cchhHHHHHHHHhhhccCCHHHHHHHHHHhcccCCCCCCchhhhcccccchhccCCCcccchhhhccchhhhHHHHHHhh
Q 048743          247 HHYQQFYESLLSLHFKFDDIDAAGELILDMNRYREPLPNPKLRQDAQKPYLISIGSPNLRCGLKLQIMPELLEKDSILKM  326 (653)
Q Consensus       247 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  326 (653)
                      .....-|..+..+.|....++.-...++.|.                                                 
T Consensus       395 ~~~~fYyr~~~~licq~es~~~~~~~Y~~lV-------------------------------------------------  425 (625)
T KOG4422|consen  395 QHRNFYYRKFFDLICQMESIDVTLKWYEDLV-------------------------------------------------  425 (625)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc-------------------------------------------------
Confidence            1111236667777788888888888888882                                                 


Q ss_pred             hhhHHHHHHhcCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHH
Q 048743          327 EGKQELVLFRNGKLLHSNRAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDM  406 (653)
Q Consensus       327 ~~~~~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m  406 (653)
                                ..-+-|+..+...++.+..-.|.++-.-+++.++...|      ++++..+.           ++++..|
T Consensus       426 ----------P~~y~p~~~~m~~~lrA~~v~~~~e~ipRiw~D~~~~g------ht~r~~l~-----------eeil~~L  478 (625)
T KOG4422|consen  426 ----------PSAYFPHSQTMIHLLRALDVANRLEVIPRIWKDSKEYG------HTFRSDLR-----------EEILMLL  478 (625)
T ss_pred             ----------cceecCCchhHHHHHHHHhhcCcchhHHHHHHHHHHhh------hhhhHHHH-----------HHHHHHH
Confidence                      23345777788888999999999999999999988777      22333332           4455555


Q ss_pred             HHCCCCCCHHHHHHHHHHHHH--cCChHHHHHHHHHHHHcCCccCchhhHHHHhhHHHHhhhcccccccccccCCHHHHH
Q 048743          407 ELAGHPMDSTTYKSLLTAYYK--VKMFREAEALLKQMRKSCLVQNLSCEMVVSERFSEVADKSASFTDTSSLMDKSDLAE  484 (653)
Q Consensus       407 ~~~g~~p~~~~~~~li~~~~~--~~~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~a~  484 (653)
                      .+....|+...-.-+=.+..+  ..-.+..+..-.+|++..+.|.....+.+     -           +.+.|..++|.
T Consensus       479 ~~~k~hp~tp~r~Ql~~~~ak~aad~~e~~e~~~~R~r~~~~~~t~l~~ia~-----L-----------l~R~G~~qkA~  542 (625)
T KOG4422|consen  479 ARDKLHPLTPEREQLQVAFAKCAADIKEAYESQPIRQRAQDWPATSLNCIAI-----L-----------LLRAGRTQKAW  542 (625)
T ss_pred             hcCCCCCCChHHHHHHHHHHHHHHHHHHHHHhhHHHHHhccCChhHHHHHHH-----H-----------HHHcchHHHHH
Confidence            555545543322222222222  12223333344556665555543111111     1           12478888888


Q ss_pred             HHHHHHHHccC-CCCHHHHH---HHHHHHHcCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccC
Q 048743          485 SLIQEMREEAA-LSTIYKLN---SSIYFFCKGKMIGDALKIYRRMQEMKIRPTVETFYYLVYGHSSLE  548 (653)
Q Consensus       485 ~~~~~m~~~~~-~p~~~~y~---~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~  548 (653)
                      ++|.-+.+.+. .|-....|   -+++.-.+.++..+|..+++-|...+..--...-+.++..|.-..
T Consensus       543 e~l~l~~~~~~~ip~~p~lnAm~El~d~a~~~~spsqA~~~lQ~a~~~n~~~~E~La~RI~e~f~iNq  610 (625)
T KOG4422|consen  543 EMLGLFLRKHNKIPRSPLLNAMAELMDSAKVSNSPSQAIEVLQLASAFNLPICEGLAQRIMEDFAINQ  610 (625)
T ss_pred             HHHHHHHhcCCcCCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCchhhhHHHHHHHHhcCcCH
Confidence            88888854433 34333445   445555677788888888888876554333333344444444443

>TIGR00990 3a0801s09 mitochondrial precursor proteins import receptor (72 kDa mitochondrial outermembrane protein) (mitochondrial import receptor for the ADP/ATP carrier) (translocase of outermembrane tom70)

Probab=99.69  E-value=1.4e-12  Score=141.15  Aligned_cols=234  Identities=10%  Similarity=-0.038  Sum_probs=181.1

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 048743          344 NRAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTYKSLLT  423 (653)
Q Consensus       344 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~  423 (653)
                      ...|+.+...+...|++++|+..|++.....  |.....|..+...+...|++++|...|++..+.. +-+..+|..+..
T Consensus       331 a~a~~~lg~~~~~~g~~~eA~~~~~kal~l~--P~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~-p~~~~~~~~lg~  407 (615)
T TIGR00990       331 AIALNLRGTFKCLKGKHLEALADLSKSIELD--PRVTQSYIKRASMNLELGDPDKAEEDFDKALKLN-SEDPDIYYHRAQ  407 (615)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC--CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHH
Confidence            3467788888889999999999999998876  6666678889999999999999999999998763 346788999999


Q ss_pred             HHHHcCChHHHHHHHHHHHHcCCccCchhhHHHHhhHHHHhhhcccccccccccCCHHHHHHHHHHHHHccCCC-CHHHH
Q 048743          424 AYYKVKMFREAEALLKQMRKSCLVQNLSCEMVVSERFSEVADKSASFTDTSSLMDKSDLAESLIQEMREEAALS-TIYKL  502 (653)
Q Consensus       424 ~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~~y  502 (653)
                      .+...|++++|...|++..+  +.|+.........             ..+.+.|+.++|...|++..+..  | +...|
T Consensus       408 ~~~~~g~~~~A~~~~~kal~--l~P~~~~~~~~la-------------~~~~~~g~~~eA~~~~~~al~~~--P~~~~~~  470 (615)
T TIGR00990       408 LHFIKGEFAQAGKDYQKSID--LDPDFIFSHIQLG-------------VTQYKEGSIASSMATFRRCKKNF--PEAPDVY  470 (615)
T ss_pred             HHHHcCCHHHHHHHHHHHHH--cCccCHHHHHHHH-------------HHHHHCCCHHHHHHHHHHHHHhC--CCChHHH
Confidence            99999999999999999987  4566522221111             12345899999999999988653  5 67789


Q ss_pred             HHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCHH------HHHHHHHHHhccCCHHHHHHHHHHHHHHhhhCCCcc-CHHH
Q 048743          503 NSSIYFFCKGKMIGDALKIYRRMQEMKIRPTVE------TFYYLVYGHSSLEMYRDITILWGDIKRNIESGVLAV-SRDL  575 (653)
Q Consensus       503 ~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~------t~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~p-~~~~  575 (653)
                      +.+...+...|++++|++.|++..+.....+..      .++.....+...|++++|.++++....      +.| +...
T Consensus       471 ~~lg~~~~~~g~~~~A~~~~~~Al~l~p~~~~~~~~~~~l~~~a~~~~~~~~~~~eA~~~~~kAl~------l~p~~~~a  544 (615)
T TIGR00990       471 NYYGELLLDQNKFDEAIEKFDTAIELEKETKPMYMNVLPLINKALALFQWKQDFIEAENLCEKALI------IDPECDIA  544 (615)
T ss_pred             HHHHHHHHHccCHHHHHHHHHHHHhcCCccccccccHHHHHHHHHHHHHHhhhHHHHHHHHHHHHh------cCCCcHHH
Confidence            999999999999999999999988743221111      112222233446999999999988752      334 4456


Q ss_pred             HHHHHHHHHhCCCHHHHHHHHHHHHhCC
Q 048743          576 YETLLLNFLQGGYFERVMEVIGYMKKQN  603 (653)
Q Consensus       576 y~~li~~~~~~g~~~~a~~~~~~m~~~g  603 (653)
                      +..+...+.+.|++++|.+.|++..+..
T Consensus       545 ~~~la~~~~~~g~~~eAi~~~e~A~~l~  572 (615)
T TIGR00990       545 VATMAQLLLQQGDVDEALKLFERAAELA  572 (615)
T ss_pred             HHHHHHHHHHccCHHHHHHHHHHHHHHh
Confidence            8889999999999999999999987553

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.60  E-value=1e-10  Score=126.77  Aligned_cols=422  Identities=9%  Similarity=-0.029  Sum_probs=287.1

Q ss_pred             HHHHHhcCCCchHHHHHHHHHcCccCCCch--hHHHHHHHHhhcccccccchHHHHHHHHHhhhhhhhhcCCccCCCCch
Q 048743          100 SLSLARAQMPVPASMILRLMLGRENLPCSD--LLLLVFVHMVKTEIGTCLASNFLIQLCDVFLHLSAEKSNGAELIKPDT  177 (653)
Q Consensus       100 i~~~~~~g~~~~a~~~~~~m~~~g~~p~~~--~~~~li~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  177 (653)
                      +....+.|+++.|++.|++..+.  .|+..  .+ .+                  +..+...|+.++|+..+++-..|+.
T Consensus        41 aii~~r~Gd~~~Al~~L~qaL~~--~P~~~~av~-dl------------------l~l~~~~G~~~~A~~~~eka~~p~n   99 (822)
T PRK14574         41 LIIRARAGDTAPVLDYLQEESKA--GPLQSGQVD-DW------------------LQIAGWAGRDQEVIDVYERYQSSMN   99 (822)
T ss_pred             HHHHHhCCCHHHHHHHHHHHHhh--CccchhhHH-HH------------------HHHHHHcCCcHHHHHHHHHhccCCC
Confidence            44678999999999999999876  45532  22 22                  2333334577777777777666655


Q ss_pred             hhHHHH---HHHHHhcCChhhHHHHHHHHHhcCCCccH-HHHHHHHHHHHhcCChhhhHHHHHHhhhcCCCcccchhHHH
Q 048743          178 MIFNLV---LHACVRFGSSLKGQHIMELMSQTGVVADA-HSIIILAQIHEMNCQRDELKKFKCYIDQLSTPFAHHYQQFY  253 (653)
Q Consensus       178 ~~yn~l---i~~~~~~g~~~~a~~l~~~m~~~g~~p~~-~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~  253 (653)
                      ..|..+   ...|...|++++|.++|+++.+.  .|+. ..+..++..+...++.++|.+.++.+.+....     ...+
T Consensus       100 ~~~~~llalA~ly~~~gdyd~Aiely~kaL~~--dP~n~~~l~gLa~~y~~~~q~~eAl~~l~~l~~~dp~-----~~~~  172 (822)
T PRK14574        100 ISSRGLASAARAYRNEKRWDQALALWQSSLKK--DPTNPDLISGMIMTQADAGRGGVVLKQATELAERDPT-----VQNY  172 (822)
T ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CCCCHHHHHHHHHHHhhcCCHHHHHHHHHHhcccCcc-----hHHH
Confidence            444433   44677789999999999999986  4544 44567788889999999999999998776432     2234


Q ss_pred             HHHHHhhhccCCHHHHHHHHHHhcccCCCCCCchhhhcccccchhccCCCcccchhhhccchhhhHHHHHHhhhhhHHHH
Q 048743          254 ESLLSLHFKFDDIDAAGELILDMNRYREPLPNPKLRQDAQKPYLISIGSPNLRCGLKLQIMPELLEKDSILKMEGKQELV  333 (653)
Q Consensus       254 ~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  333 (653)
                      -.++..+...++..+|++.++++.+                                                       
T Consensus       173 l~layL~~~~~~~~~AL~~~ekll~-------------------------------------------------------  197 (822)
T PRK14574        173 MTLSYLNRATDRNYDALQASSEAVR-------------------------------------------------------  197 (822)
T ss_pred             HHHHHHHHhcchHHHHHHHHHHHHH-------------------------------------------------------
Confidence            4444444446666669999999832                                                       


Q ss_pred             HHhcCCCCCC-HHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccH--HHHHHHHHH---------cCC---HHH
Q 048743          334 LFRNGKLLHS-NRAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLC--SDVIDALIQ---------LGF---LEA  398 (653)
Q Consensus       334 ~~~~~~~~p~-~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~--~~li~~~~~---------~g~---~~~  398 (653)
                            ..|+ ...+..+..+..+.|-...|.++..+-..-  +.+...-+  ...+.-.++         .++   .+.
T Consensus       198 ------~~P~n~e~~~~~~~~l~~~~~~~~a~~l~~~~p~~--f~~~~~~~l~~~~~a~~vr~a~~~~~~~~~r~~~~d~  269 (822)
T PRK14574        198 ------LAPTSEEVLKNHLEILQRNRIVEPALRLAKENPNL--VSAEHYRQLERDAAAEQVRMAVLPTRSETERFDIADK  269 (822)
T ss_pred             ------hCCCCHHHHHHHHHHHHHcCCcHHHHHHHHhCccc--cCHHHHHHHHHHHHHHHHhhcccccccchhhHHHHHH
Confidence                  3464 556788899999999999999887763311  11111000  000111111         122   345


Q ss_pred             HHHHHHHHHHC-CCCCCH-HHH----HHHHHHHHHcCChHHHHHHHHHHHHcCCc-cCchhhHHHHhhHHHHhhhccccc
Q 048743          399 AHDILDDMELA-GHPMDS-TTY----KSLLTAYYKVKMFREAEALLKQMRKSCLV-QNLSCEMVVSERFSEVADKSASFT  471 (653)
Q Consensus       399 a~~~~~~m~~~-g~~p~~-~~~----~~li~~~~~~~~~~~a~~~~~~m~~~~~~-p~~~~~~~~~~~l~~~~~~~~~~~  471 (653)
                      |+.-++.+... +-.|.. .-|    -=.+-++.+.|++.++.+.|+.|...+.. |+- ....              +.
T Consensus       270 ala~~~~l~~~~~~~p~~~~~~~~~~~Drl~aL~~r~r~~~vi~~y~~l~~~~~~~P~y-~~~a--------------~a  334 (822)
T PRK14574        270 ALADYQNLLTRWGKDPEAQADYQRARIDRLGALLVRHQTADLIKEYEAMEAEGYKMPDY-ARRW--------------AA  334 (822)
T ss_pred             HHHHHHHHHhhccCCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhhcCCCCCHH-HHHH--------------HH
Confidence            56666665542 222322 222    23455788999999999999999987754 431 1111              12


Q ss_pred             ccccccCCHHHHHHHHHHHHHcc-----CCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCC-----------CC--C
Q 048743          472 DTSSLMDKSDLAESLIQEMREEA-----ALSTIYKLNSSIYFFCKGKMIGDALKIYRRMQEMKI-----------RP--T  533 (653)
Q Consensus       472 ~~~~~~~~~~~a~~~~~~m~~~~-----~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~-----------~p--~  533 (653)
                      |+|...+++++|+.+++.+....     ..++......|..+|...+++++|..+++.+.+.-.           .|  |
T Consensus       335 dayl~~~~P~kA~~l~~~~~~~~~~~~~~~~~~~~~~~L~yA~ld~e~~~~A~~~l~~~~~~~p~~~~~~~~~~~~pn~d  414 (822)
T PRK14574        335 SAYIDRRLPEKAAPILSSLYYSDGKTFRNSDDLLDADDLYYSLNESEQLDKAYQFAVNYSEQTPYQVGVYGLPGKEPNDD  414 (822)
T ss_pred             HHHHhcCCcHHHHHHHHHHhhccccccCCCcchHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCcEEeccCCCCCCCCcc
Confidence            45667999999999999987543     122444467899999999999999999999987311           12  3


Q ss_pred             HH-HHHHHHHHHhccCCHHHHHHHHHHHHHHhhhCCCccCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCCHHhHH
Q 048743          534 VE-TFYYLVYGHSSLEMYRDITILWGDIKRNIESGVLAVSRDLYETLLLNFLQGGYFERVMEVIGYMKKQNMYVDKLMYK  612 (653)
Q Consensus       534 ~~-t~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~  612 (653)
                      -. .+..++..+...|++.+|++.++++..     .-+-|......+.+.+...|++.+|++.++....  +.|+.....
T Consensus       415 ~~~~~~l~a~~~~~~gdl~~Ae~~le~l~~-----~aP~n~~l~~~~A~v~~~Rg~p~~A~~~~k~a~~--l~P~~~~~~  487 (822)
T PRK14574        415 WIEGQTLLVQSLVALNDLPTAQKKLEDLSS-----TAPANQNLRIALASIYLARDLPRKAEQELKAVES--LAPRSLILE  487 (822)
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHH-----hCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhh--hCCccHHHH
Confidence            22 344567778999999999999999863     2455888889999999999999999999987774  467754444


Q ss_pred             HHH---HHhhhhhHHhhhhhHHHHH
Q 048743          613 SEF---LKHHKHLYRRLKVSNARTE  634 (653)
Q Consensus       613 ~l~---~~~~~~~~~~~~~~~~~~~  634 (653)
                      ...   ....+++.++.++.+.+.+
T Consensus       488 ~~~~~~al~l~e~~~A~~~~~~l~~  512 (822)
T PRK14574        488 RAQAETAMALQEWHQMELLTDDVIS  512 (822)
T ss_pred             HHHHHHHHhhhhHHHHHHHHHHHHh
Confidence            333   3344788899888888877

>KOG2002 consensus TPR-containing nuclear phosphoprotein that regulates K(+) uptake [Inorganic ion transport and metabolism]

Probab=99.59  E-value=2.3e-10  Score=118.87  Aligned_cols=252  Identities=11%  Similarity=0.056  Sum_probs=182.2

Q ss_pred             HHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCh
Q 048743          352 NGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTYKSLLTAYYKVKMF  431 (653)
Q Consensus       352 ~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~  431 (653)
                      ...-..++++.|.+.|..+.+..  |.-+..|--+.......+...+|...+....+. ..-++..++.+-..+.+..++
T Consensus       504 rl~E~l~~~~~A~e~Yk~Ilkeh--p~YId~ylRl~~ma~~k~~~~ea~~~lk~~l~~-d~~np~arsl~G~~~l~k~~~  580 (1018)
T KOG2002|consen  504 RLLEELHDTEVAEEMYKSILKEH--PGYIDAYLRLGCMARDKNNLYEASLLLKDALNI-DSSNPNARSLLGNLHLKKSEW  580 (1018)
T ss_pred             HHHHhhhhhhHHHHHHHHHHHHC--chhHHHHHHhhHHHHhccCcHHHHHHHHHHHhc-ccCCcHHHHHHHHHHHhhhhh
Confidence            33445679999999999999887  554444555553344457888899999888764 334566666666688888889


Q ss_pred             HHHHHHHHHHHHcCC-ccCchhhHHH-HhhHHHHhhhcccccccccccCCHHHHHHHHHHHHHccCCC-CHHHHHHHHHH
Q 048743          432 REAEALLKQMRKSCL-VQNLSCEMVV-SERFSEVADKSASFTDTSSLMDKSDLAESLIQEMREEAALS-TIYKLNSSIYF  508 (653)
Q Consensus       432 ~~a~~~~~~m~~~~~-~p~~~~~~~~-~~~l~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~~y~~li~~  508 (653)
                      ..|..-|....+.-. .+|.+..+.+ ..++..+....+.   .-...+..++|.++|.+.....  | |.+.=|.+--.
T Consensus       581 ~~a~k~f~~i~~~~~~~~D~YsliaLGN~~~~~l~~~~rn---~ek~kk~~~KAlq~y~kvL~~d--pkN~yAANGIgiV  655 (1018)
T KOG2002|consen  581 KPAKKKFETILKKTSTKTDAYSLIALGNVYIQALHNPSRN---PEKEKKHQEKALQLYGKVLRND--PKNMYAANGIGIV  655 (1018)
T ss_pred             cccccHHHHHHhhhccCCchhHHHHhhHHHHHHhcccccC---hHHHHHHHHHHHHHHHHHHhcC--cchhhhccchhhh
Confidence            889887777766422 2454333322 3333333221111   1223556788999999988865  5 88888888889


Q ss_pred             HHcCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHHhhhCCCccCHHHHHHHHHHHHhCCC
Q 048743          509 FCKGKMIGDALKIYRRMQEMKIRPTVETFYYLVYGHSSLEMYRDITILWGDIKRNIESGVLAVSRDLYETLLLNFLQGGY  588 (653)
Q Consensus       509 ~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~p~~~~y~~li~~~~~~g~  588 (653)
                      ++..|++.+|.++|...++... -+..+|..+.++|...|++..|+++|+...+   ...-.-+..+.+.|.+++-+.|.
T Consensus       656 LA~kg~~~~A~dIFsqVrEa~~-~~~dv~lNlah~~~e~~qy~~AIqmYe~~lk---kf~~~~~~~vl~~Lara~y~~~~  731 (1018)
T KOG2002|consen  656 LAEKGRFSEARDIFSQVREATS-DFEDVWLNLAHCYVEQGQYRLAIQMYENCLK---KFYKKNRSEVLHYLARAWYEAGK  731 (1018)
T ss_pred             hhhccCchHHHHHHHHHHHHHh-hCCceeeeHHHHHHHHHHHHHHHHHHHHHHH---HhcccCCHHHHHHHHHHHHHhhh
Confidence            9999999999999999998754 2445688899999999999999999998763   34556688899999999999999


Q ss_pred             HHHHHHHHHHHHhCCCCCCHHhHHHHH
Q 048743          589 FERVMEVIGYMKKQNMYVDKLMYKSEF  615 (653)
Q Consensus       589 ~~~a~~~~~~m~~~g~~p~~~t~~~l~  615 (653)
                      +.+|.+.+.........-..+-||..+
T Consensus       732 ~~eak~~ll~a~~~~p~~~~v~FN~a~  758 (1018)
T KOG2002|consen  732 LQEAKEALLKARHLAPSNTSVKFNLAL  758 (1018)
T ss_pred             HHHHHHHHHHHHHhCCccchHHhHHHH
Confidence            999999988777555444455666655

>KOG4318 consensus Bicoid mRNA stability factor [RNA processing and modification]

Probab=99.46  E-value=6.6e-10  Score=114.16  Aligned_cols=232  Identities=9%  Similarity=-0.034  Sum_probs=142.1

Q ss_pred             ccccchHHHHHHHHHHHHhccchhHHHHHHHHhhhhcCCCCchhHHHHHHHhhccCCcchhhhHHHHHHHHHhccCCchh
Q 048743           13 SWEGSSREVLLRKLESASKNHQVGEAWETFNDFQRLHGIPERHVVNRFITDLCYSAEPHWLQKACDLVLKIQKGKADLLQ   92 (653)
Q Consensus        13 ~~~~p~~~~~~~~i~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~   92 (653)
                      ....|++.||.++|..||..|+.+.|- +|..|.-.....+...++.++.+...+++   .+.            +..|.
T Consensus        19 ~gi~PnRvtyqsLiarYc~~gdieaat-if~fm~~ksLpv~e~vf~~lv~sh~~And---~En------------pkep~   82 (1088)
T KOG4318|consen   19 SGILPNRVTYQSLIARYCTKGDIEAAT-IFPFMEIKSLPVREGVFRGLVASHKEAND---AEN------------PKEPL   82 (1088)
T ss_pred             hcCCCchhhHHHHHHHHcccCCCcccc-chhhhhcccccccchhHHHHHhccccccc---ccC------------CCCCc
Confidence            356788999999999999999999999 99988875455566789999998877776   222            33689


Q ss_pred             HHHHHHHHHHHHhcCCCchHHHHHHH-HH-------cCccCCCchhHHHHHHHHhhcccccccchHHHHHHHHHhhhhhh
Q 048743           93 LDLLAKLSLSLARAQMPVPASMILRL-ML-------GRENLPCSDLLLLVFVHMVKTEIGTCLASNFLIQLCDVFLHLSA  164 (653)
Q Consensus        93 ~~t~~~li~~~~~~g~~~~a~~~~~~-m~-------~~g~~p~~~~~~~li~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  164 (653)
                      ++||+.|+.+|..+|+... ++..++ |.       ..|+.-...-+-..++.+-..   .+.+.|.... ....|.++.
T Consensus        83 aDtyt~Ll~ayr~hGDli~-fe~veqdLe~i~~sfs~~Gvgs~e~~fl~k~~c~p~~---lpda~n~ill-lv~eglwaq  157 (1088)
T KOG4318|consen   83 ADTYTNLLKAYRIHGDLIL-FEVVEQDLESINQSFSDHGVGSPERWFLMKIHCCPHS---LPDAENAILL-LVLEGLWAQ  157 (1088)
T ss_pred             hhHHHHHHHHHHhccchHH-HHHHHHHHHHHHhhhhhhccCcHHHHHHhhcccCccc---chhHHHHHHH-HHHHHHHHH
Confidence            9999999999999999865 322222 22       223322222222111211111   1122222211 111233444


Q ss_pred             hhcCCccCCCCchhhHHH---HHHHHHhcCChhhHHHHHHHHHhcCC-CccHHHHHHHHHHHHhcCChhhhHHHHHHhhh
Q 048743          165 EKSNGAELIKPDTMIFNL---VLHACVRFGSSLKGQHIMELMSQTGV-VADAHSIIILAQIHEMNCQRDELKKFKCYIDQ  240 (653)
Q Consensus       165 a~~~~~~~~~~~~~~yn~---li~~~~~~g~~~~a~~l~~~m~~~g~-~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~  240 (653)
                      +.++....+  ...-++.   +++-+...  ..-..++.+.. +.+. .|++.+|..++++-..+|+.+.|..++..|..
T Consensus       158 llkll~~~P--vsa~~~p~~vfLrqnv~~--ntpvekLl~~c-ksl~e~~~s~~l~a~l~~alaag~~d~Ak~ll~emke  232 (1088)
T KOG4318|consen  158 LLKLLAKVP--VSAWNAPFQVFLRQNVVD--NTPVEKLLNMC-KSLVEAPTSETLHAVLKRALAAGDVDGAKNLLYEMKE  232 (1088)
T ss_pred             HHHHHhhCC--cccccchHHHHHHHhccC--CchHHHHHHHH-HHhhcCCChHHHHHHHHHHHhcCchhhHHHHHHHHHH
Confidence            444443222  1111111   23333332  23334444433 3333 59999999999999999999999999999999


Q ss_pred             cCCCcccchhHHHHHHHHhhhccCCHHHHHHHHHHh
Q 048743          241 LSTPFAHHYQQFYESLLSLHFKFDDIDAAGELILDM  276 (653)
Q Consensus       241 ~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m  276 (653)
                      .+-|...++   |-.|+-+   .++...+..++.-|
T Consensus       233 ~gfpir~Hy---FwpLl~g---~~~~q~~e~vlrgm  262 (1088)
T KOG4318|consen  233 KGFPIRAHY---FWPLLLG---INAAQVFEFVLRGM  262 (1088)
T ss_pred             cCCCccccc---chhhhhc---CccchHHHHHHHHH
Confidence            887666553   4455444   67777777777777

>KOG2002 consensus TPR-containing nuclear phosphoprotein that regulates K(+) uptake [Inorganic ion transport and metabolism]

Probab=99.44  E-value=2.1e-08  Score=104.64  Aligned_cols=528  Identities=11%  Similarity=0.001  Sum_probs=304.4

Q ss_pred             cccccchHHHHHHHHHHHHhcc---chhHHHHHHHHhhhhcCCCCchhHHHHHHHhhccCCcchhhhHHHHHHHHHhccC
Q 048743           12 LSWEGSSREVLLRKLESASKNH---QVGEAWETFNDFQRLHGIPERHVVNRFITDLCYSAEPHWLQKACDLVLKIQKGKA   88 (653)
Q Consensus        12 l~~~~p~~~~~~~~i~~~~~~~---~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~a~~~~~~~~~~~~   88 (653)
                      +.+++.+..++..+-..-....   .+..++.++...-. -...+|.+.+.|-+.+...|+   .+.++.+...+.+..-
T Consensus       226 lqLdp~~v~alv~L~~~~l~~~d~~s~~~~~~ll~~ay~-~n~~nP~~l~~LAn~fyfK~d---y~~v~~la~~ai~~t~  301 (1018)
T KOG2002|consen  226 LQLDPTCVSALVALGEVDLNFNDSDSYKKGVQLLQRAYK-ENNENPVALNHLANHFYFKKD---YERVWHLAEHAIKNTE  301 (1018)
T ss_pred             HhcChhhHHHHHHHHHHHHHccchHHHHHHHHHHHHHHh-hcCCCcHHHHHHHHHHhhccc---HHHHHHHHHHHHHhhh
Confidence            3444445555544433333333   34455555554433 123466777888888777777   6788888877654332


Q ss_pred             Cc-hhHHHHHHHHHHHHhcCCCchHHHHHHHHHcCccCCCchhHHHHHHHHhhcccccccchHHHHHHHHHhhhhhhhhc
Q 048743           89 DL-LQLDLLAKLSLSLARAQMPVPASMILRLMLGRENLPCSDLLLLVFVHMVKTEIGTCLASNFLIQLCDVFLHLSAEKS  167 (653)
Q Consensus        89 ~~-~~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  167 (653)
                      .. .-...|-.+..+|-..|++++|...|.+-...  .|+.+++..+                -+.+++-..|.++.+..
T Consensus       302 ~~~~~aes~Y~~gRs~Ha~Gd~ekA~~yY~~s~k~--~~d~~~l~~~----------------GlgQm~i~~~dle~s~~  363 (1018)
T KOG2002|consen  302 NKSIKAESFYQLGRSYHAQGDFEKAFKYYMESLKA--DNDNFVLPLV----------------GLGQMYIKRGDLEESKF  363 (1018)
T ss_pred             hhHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHcc--CCCCcccccc----------------chhHHHHHhchHHHHHH
Confidence            22 24566777888888888888888888665543  5666665544                35677777777777777


Q ss_pred             CCccCC---CCchhhHHHHHHHHHhcC----ChhhHHHHHHHHHhcCCCccHHHHHHHHHHHHhcCChhhhHHHHHHhh-
Q 048743          168 NGAELI---KPDTMIFNLVLHACVRFG----SSLKGQHIMELMSQTGVVADAHSIIILAQIHEMNCQRDELKKFKCYID-  239 (653)
Q Consensus       168 ~~~~~~---~~~~~~yn~li~~~~~~g----~~~~a~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~-  239 (653)
                      .|++..   +-+..+--+|-..|+..+    ..+.|..++....+.- .-|...|..+...+.. ++.-....++.... 
T Consensus       364 ~fEkv~k~~p~~~etm~iLG~Lya~~~~~~~~~d~a~~~l~K~~~~~-~~d~~a~l~laql~e~-~d~~~sL~~~~~A~d  441 (1018)
T KOG2002|consen  364 CFEKVLKQLPNNYETMKILGCLYAHSAKKQEKRDKASNVLGKVLEQT-PVDSEAWLELAQLLEQ-TDPWASLDAYGNALD  441 (1018)
T ss_pred             HHHHHHHhCcchHHHHHHHHhHHHhhhhhhHHHHHHHHHHHHHHhcc-cccHHHHHHHHHHHHh-cChHHHHHHHHHHHH
Confidence            777443   233345555555555554    3345555555444432 2244445555555543 33333344433332 


Q ss_pred             ---hcCCCcccchhHHHHHHHHhhhccCCHHHHHHHHHHhcccCCCCCCchhhhcccccchhccCCCcccchhhhccchh
Q 048743          240 ---QLSTPFAHHYQQFYESLLSLHFKFDDIDAAGELILDMNRYREPLPNPKLRQDAQKPYLISIGSPNLRCGLKLQIMPE  316 (653)
Q Consensus       240 ---~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  316 (653)
                         ....+ ++  ..+.|.+-..+...|.++.|...|++....-....+...  +-...-...+..+...+         
T Consensus       442 ~L~~~~~~-ip--~E~LNNvaslhf~~g~~~~A~~~f~~A~~~~~~~~n~de--~~~~~lt~~YNlarl~E---------  507 (1018)
T KOG2002|consen  442 ILESKGKQ-IP--PEVLNNVASLHFRLGNIEKALEHFKSALGKLLEVANKDE--GKSTNLTLKYNLARLLE---------  507 (1018)
T ss_pred             HHHHcCCC-CC--HHHHHhHHHHHHHhcChHHHHHHHHHHhhhhhhhcCccc--cccchhHHHHHHHHHHH---------
Confidence               22222 22  235788888888888888888888877544111111110  00000000000000000         


Q ss_pred             hhHHHHHHhhhhhHHHHHHhcCCCCCCHH-HHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCC
Q 048743          317 LLEKDSILKMEGKQELVLFRNGKLLHSNR-AMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGF  395 (653)
Q Consensus       317 ~~~~~~~~~~~~~~~~~~~~~~~~~p~~~-~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~  395 (653)
                            .+..+......--.--...|+-+ .|-.+....-..+...+|...+.+....+  ..++..++.+-..+.+...
T Consensus       508 ------~l~~~~~A~e~Yk~Ilkehp~YId~ylRl~~ma~~k~~~~ea~~~lk~~l~~d--~~np~arsl~G~~~l~k~~  579 (1018)
T KOG2002|consen  508 ------ELHDTEVAEEMYKSILKEHPGYIDAYLRLGCMARDKNNLYEASLLLKDALNID--SSNPNARSLLGNLHLKKSE  579 (1018)
T ss_pred             ------hhhhhhHHHHHHHHHHHHCchhHHHHHHhhHHHHhccCcHHHHHHHHHHHhcc--cCCcHHHHHHHHHHHhhhh
Confidence                  00000000000000011234443 33333333334577889999999988877  5666667888878888888


Q ss_pred             HHHHHHHHHHHHHCC-CCCCHHHHHHHHHHHHH------------cCChHHHHHHHHHHHHcCCccCchhhHHHHhhHHH
Q 048743          396 LEAAHDILDDMELAG-HPMDSTTYKSLLTAYYK------------VKMFREAEALLKQMRKSCLVQNLSCEMVVSERFSE  462 (653)
Q Consensus       396 ~~~a~~~~~~m~~~g-~~p~~~~~~~li~~~~~------------~~~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~l~~  462 (653)
                      +..|.+-|....+.- ..+|..+.-+|-+.|..            .+..++|+++|....+.  .|...+..-...++  
T Consensus       580 ~~~a~k~f~~i~~~~~~~~D~YsliaLGN~~~~~l~~~~rn~ek~kk~~~KAlq~y~kvL~~--dpkN~yAANGIgiV--  655 (1018)
T KOG2002|consen  580 WKPAKKKFETILKKTSTKTDAYSLIALGNVYIQALHNPSRNPEKEKKHQEKALQLYGKVLRN--DPKNMYAANGIGIV--  655 (1018)
T ss_pred             hcccccHHHHHHhhhccCCchhHHHHhhHHHHHHhcccccChHHHHHHHHHHHHHHHHHHhc--Ccchhhhccchhhh--
Confidence            888888776664432 22566655555554432            23467888888887763  34431111111111  


Q ss_pred             HhhhcccccccccccCCHHHHHHHHHHHHHccCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHh-cCCCCCHHHHHHHH
Q 048743          463 VADKSASFTDTSSLMDKSDLAESLIQEMREEAALSTIYKLNSSIYFFCKGKMIGDALKIYRRMQE-MKIRPTVETFYYLV  541 (653)
Q Consensus       463 ~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~-~g~~p~~~t~~~li  541 (653)
                                 ++..|+++.|..+|....+... -...+|-.+..+|...|++..|+++|+.-.. ..-.-+......|.
T Consensus       656 -----------LA~kg~~~~A~dIFsqVrEa~~-~~~dv~lNlah~~~e~~qy~~AIqmYe~~lkkf~~~~~~~vl~~La  723 (1018)
T KOG2002|consen  656 -----------LAEKGRFSEARDIFSQVREATS-DFEDVWLNLAHCYVEQGQYRLAIQMYENCLKKFYKKNRSEVLHYLA  723 (1018)
T ss_pred             -----------hhhccCchHHHHHHHHHHHHHh-hCCceeeeHHHHHHHHHHHHHHHHHHHHHHHHhcccCCHHHHHHHH
Confidence                       2348999999999999998654 1334678899999999999999999998766 44455677888999


Q ss_pred             HHHhccCCHHHHHHHHHHHHHHhhhCCCccCHHHHHHHHHH------------------HHhCCCHHHHHHHHHHHHhCC
Q 048743          542 YGHSSLEMYRDITILWGDIKRNIESGVLAVSRDLYETLLLN------------------FLQGGYFERVMEVIGYMKKQN  603 (653)
Q Consensus       542 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~p~~~~y~~li~~------------------~~~~g~~~~a~~~~~~m~~~g  603 (653)
                      +++.+.|.+.+|.+..-.....    ...-....||..+..                  ....+..+.|.++|.+|...+
T Consensus       724 ra~y~~~~~~eak~~ll~a~~~----~p~~~~v~FN~a~v~kkla~s~lr~~k~t~eev~~a~~~le~a~r~F~~ls~~~  799 (1018)
T KOG2002|consen  724 RAWYEAGKLQEAKEALLKARHL----APSNTSVKFNLALVLKKLAESILRLEKRTLEEVLEAVKELEEARRLFTELSKNG  799 (1018)
T ss_pred             HHHHHhhhHHHHHHHHHHHHHh----CCccchHHhHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence            9999999999998887655421    111123345543321                  112334678999999998776


Q ss_pred             CC
Q 048743          604 MY  605 (653)
Q Consensus       604 ~~  605 (653)
                      -+
T Consensus       800 d~  801 (1018)
T KOG2002|consen  800 DK  801 (1018)
T ss_pred             CC
Confidence            44

>PF13041 PPR_2: PPR repeat family

Probab=99.42  E-value=4.4e-13  Score=90.99  Aligned_cols=50  Identities=26%  Similarity=0.499  Sum_probs=48.3

Q ss_pred             CCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhc
Q 048743          497 STIYKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRPTVETFYYLVYGHSS  546 (653)
Q Consensus       497 p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~  546 (653)
                      ||+.+||++|++|++.|++++|.++|++|.+.|++||..||+.+|++|++
T Consensus         1 P~~~~yn~li~~~~~~~~~~~a~~l~~~M~~~g~~P~~~Ty~~li~~~~k   50 (50)
T PF13041_consen    1 PDVVTYNTLISGYCKAGKFEEALKLFKEMKKRGIKPDSYTYNILINGLCK   50 (50)
T ss_pred             CchHHHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHcC
Confidence            89999999999999999999999999999999999999999999999985

>PF13041 PPR_2: PPR repeat family

Probab=99.42  E-value=3.7e-13  Score=91.33  Aligned_cols=50  Identities=18%  Similarity=0.288  Sum_probs=48.4

Q ss_pred             CchhhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCccHHHHHHHHHHHHh
Q 048743          175 PDTMIFNLVLHACVRFGSSLKGQHIMELMSQTGVVADAHSIIILAQIHEM  224 (653)
Q Consensus       175 ~~~~~yn~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~ll~~~~~  224 (653)
                      ||+++||++|++|++.|++++|+++|++|++.|+.||..||++++++|++
T Consensus         1 P~~~~yn~li~~~~~~~~~~~a~~l~~~M~~~g~~P~~~Ty~~li~~~~k   50 (50)
T PF13041_consen    1 PDVVTYNTLISGYCKAGKFEEALKLFKEMKKRGIKPDSYTYNILINGLCK   50 (50)
T ss_pred             CchHHHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHcC
Confidence            89999999999999999999999999999999999999999999999874

>KOG2003 consensus TPR repeat-containing protein [General function prediction only]

Probab=99.40  E-value=4e-09  Score=100.36  Aligned_cols=494  Identities=10%  Similarity=0.055  Sum_probs=268.0

Q ss_pred             hHHHHHHHHHHHHhccchhHHHHHHHHhhhhcCCCCchhHH-HHHHHhhccCCcchhhhHHHHHHHHHhccCCc---hhH
Q 048743           18 SREVLLRKLESASKNHQVGEAWETFNDFQRLHGIPERHVVN-RFITDLCYSAEPHWLQKACDLVLKIQKGKADL---LQL   93 (653)
Q Consensus        18 ~~~~~~~~i~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~-~ll~~~~~~~~~~~~~~a~~~~~~~~~~~~~~---~~~   93 (653)
                      +..++..+..-|.......+|+..|+-+.+..-+|+..... .+-+.+.+.+.   +.+|++.+.-...+-|..   ...
T Consensus       200 tfsvl~nlaqqy~~ndm~~ealntyeiivknkmf~nag~lkmnigni~~kkr~---fskaikfyrmaldqvpsink~~ri  276 (840)
T KOG2003|consen  200 TFSVLFNLAQQYEANDMTAEALNTYEIIVKNKMFPNAGILKMNIGNIHFKKRE---FSKAIKFYRMALDQVPSINKDMRI  276 (840)
T ss_pred             hHHHHHHHHHHhhhhHHHHHHhhhhhhhhcccccCCCceeeeeecceeeehhh---HHHHHHHHHHHHhhccccchhhHH
Confidence            44566677777888888999999999988888888876442 23333444444   678888874333332211   234


Q ss_pred             HHHHHHHHHHHhcCCCchHHHHHHHHHcCccCCCchhHHHHHHHHhhcccccccchHHHHHHHHHhhhhhhhhcCCccCC
Q 048743           94 DLLAKLSLSLARAQMPVPASMILRLMLGRENLPCSDLLLLVFVHMVKTEIGTCLASNFLIQLCDVFLHLSAEKSNGAELI  173 (653)
Q Consensus        94 ~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  173 (653)
                      ...+.+-..|.+.|+++.|+.-|+...+.  .|+-.+--.++-....-|. .......+.++...-+.++.-.-+- ..-
T Consensus       277 kil~nigvtfiq~gqy~dainsfdh~m~~--~pn~~a~~nl~i~~f~i~d-~ekmkeaf~kli~ip~~~dddkyi~-~~d  352 (840)
T KOG2003|consen  277 KILNNIGVTFIQAGQYDDAINSFDHCMEE--APNFIAALNLIICAFAIGD-AEKMKEAFQKLIDIPGEIDDDKYIK-EKD  352 (840)
T ss_pred             HHHhhcCeeEEecccchhhHhhHHHHHHh--CccHHhhhhhhhhheecCc-HHHHHHHHHHHhcCCCCCCcccccC-CcC
Confidence            45666667788999999999999888765  6776654333322221111 0011112222222222222211111 122


Q ss_pred             CCchhhHHHHH-----HHHHhcC--ChhhHHHHHHHHHhcCCCccHHH-HHHHHHHHHhcCChhhhHHHHHHhhhcCCCc
Q 048743          174 KPDTMIFNLVL-----HACVRFG--SSLKGQHIMELMSQTGVVADAHS-IIILAQIHEMNCQRDELKKFKCYIDQLSTPF  245 (653)
Q Consensus       174 ~~~~~~yn~li-----~~~~~~g--~~~~a~~l~~~m~~~g~~p~~~t-~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~  245 (653)
                      .|+....|--|     +..-+.+  +-+++.-.--.+..--+.||-.. |.-.+.........+-|..+           
T Consensus       353 dp~~~ll~eai~nd~lk~~ek~~ka~aek~i~ta~kiiapvi~~~fa~g~dwcle~lk~s~~~~la~dl-----------  421 (840)
T KOG2003|consen  353 DPDDNLLNEAIKNDHLKNMEKENKADAEKAIITAAKIIAPVIAPDFAAGCDWCLESLKASQHAELAIDL-----------  421 (840)
T ss_pred             CcchHHHHHHHhhHHHHHHHHhhhhhHHHHHHHHHHHhccccccchhcccHHHHHHHHHhhhhhhhhhh-----------
Confidence            34444333333     2222222  12222222222222223444332 22222221111111111111           


Q ss_pred             ccchhHHHHHHHHhhhccCCHHHHHHHHHHhcccCCCCCCchhhhcccccchhccCCCcccchhhhccchhhhHHHHHHh
Q 048743          246 AHHYQQFYESLLSLHFKFDDIDAAGELILDMNRYREPLPNPKLRQDAQKPYLISIGSPNLRCGLKLQIMPELLEKDSILK  325 (653)
Q Consensus       246 ~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  325 (653)
                       .     .|. ..-|.+.||++.|.++++-+.++.+-.                                          
T Consensus       422 -e-----i~k-a~~~lk~~d~~~aieilkv~~~kdnk~------------------------------------------  452 (840)
T KOG2003|consen  422 -E-----INK-AGELLKNGDIEGAIEILKVFEKKDNKT------------------------------------------  452 (840)
T ss_pred             -h-----hhH-HHHHHhccCHHHHHHHHHHHHhccchh------------------------------------------
Confidence             0     111 223567899999999888873322111                                          


Q ss_pred             hhhhHHHHHHhcCCCCCCHHHHHHHHHHHHh-cCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHH
Q 048743          326 MEGKQELVLFRNGKLLHSNRAMAKLINGYKK-HGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILD  404 (653)
Q Consensus       326 ~~~~~~~~~~~~~~~~p~~~~~~~li~~~~~-~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~  404 (653)
                                      .+...-|...--|.+ -.++..|.+.-+......  ..+....+.--......|++++|.+.++
T Consensus       453 ----------------~saaa~nl~~l~flqggk~~~~aqqyad~aln~d--ryn~~a~~nkgn~~f~ngd~dka~~~yk  514 (840)
T KOG2003|consen  453 ----------------ASAAANNLCALRFLQGGKDFADAQQYADIALNID--RYNAAALTNKGNIAFANGDLDKAAEFYK  514 (840)
T ss_pred             ----------------hHHHhhhhHHHHHHhcccchhHHHHHHHHHhccc--ccCHHHhhcCCceeeecCcHHHHHHHHH
Confidence                            111111111122222 234555555554443322  1111111111222334678888888887


Q ss_pred             HHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCccCchhhHHHHhhHHHHhhhcccccccccccCCHHHHH
Q 048743          405 DMELAGHPMDSTTYKSLLTAYYKVKMFREAEALLKQMRKSCLVQNLSCEMVVSERFSEVADKSASFTDTSSLMDKSDLAE  484 (653)
Q Consensus       405 ~m~~~g~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~a~  484 (653)
                      +.....-.-....||+=+ .+-+.|+.++|++.|-.+..  +..+..-.++-.+-+             |-...+..+|.
T Consensus       515 eal~ndasc~ealfnigl-t~e~~~~ldeald~f~klh~--il~nn~evl~qiani-------------ye~led~aqai  578 (840)
T KOG2003|consen  515 EALNNDASCTEALFNIGL-TAEALGNLDEALDCFLKLHA--ILLNNAEVLVQIANI-------------YELLEDPAQAI  578 (840)
T ss_pred             HHHcCchHHHHHHHHhcc-cHHHhcCHHHHHHHHHHHHH--HHHhhHHHHHHHHHH-------------HHHhhCHHHHH
Confidence            776652222223333322 34566778888877766643  222221111111112             22244666777


Q ss_pred             HHHHHHHHccCCC-CHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHH
Q 048743          485 SLIQEMREEAALS-TIYKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRPTVETFYYLVYGHSSLEMYRDITILWGDIKRN  563 (653)
Q Consensus       485 ~~~~~m~~~~~~p-~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~~~~~  563 (653)
                      +++.....  +.| |..+..-|.+.|-+.|+-.+|.+.+-+-.+. ++-|..|...|..-|....-++.++.+|+...  
T Consensus       579 e~~~q~~s--lip~dp~ilskl~dlydqegdksqafq~~ydsyry-fp~nie~iewl~ayyidtqf~ekai~y~ekaa--  653 (840)
T KOG2003|consen  579 ELLMQANS--LIPNDPAILSKLADLYDQEGDKSQAFQCHYDSYRY-FPCNIETIEWLAAYYIDTQFSEKAINYFEKAA--  653 (840)
T ss_pred             HHHHHhcc--cCCCCHHHHHHHHHHhhcccchhhhhhhhhhcccc-cCcchHHHHHHHHHHHhhHHHHHHHHHHHHHH--
Confidence            66654433  445 7788889999999999999999887654433 56678888888888888888999999998763  


Q ss_pred             hhhCCCccCHHHHHHHHHHH-HhCCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHhhhhhH
Q 048743          564 IESGVLAVSRDLYETLLLNF-LQGGYFERVMEVIGYMKKQNMYVDKLMYKSEFLKHHKHLY  623 (653)
Q Consensus       564 ~~~~~~~p~~~~y~~li~~~-~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~l~~~~~~~~~  623 (653)
                          -+.|+..-|..||..| .|.|++.+|.++++....+ + |....+.-++.+..+|+.
T Consensus       654 ----liqp~~~kwqlmiasc~rrsgnyqka~d~yk~~hrk-f-pedldclkflvri~~dlg  708 (840)
T KOG2003|consen  654 ----LIQPNQSKWQLMIASCFRRSGNYQKAFDLYKDIHRK-F-PEDLDCLKFLVRIAGDLG  708 (840)
T ss_pred             ----hcCccHHHHHHHHHHHHHhcccHHHHHHHHHHHHHh-C-ccchHHHHHHHHHhcccc
Confidence                5889999999888765 4689999999999998633 4 555555556666666653

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.35  E-value=2.3e-09  Score=109.17  Aligned_cols=220  Identities=10%  Similarity=-0.046  Sum_probs=127.9

Q ss_pred             HHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCH-------HHHHHHHH
Q 048743          351 INGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDS-------TTYKSLLT  423 (653)
Q Consensus       351 i~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~-------~~~~~li~  423 (653)
                      ...+...|+++.|...++++.+..  |.+..++..+...|.+.|+++.|.+++..+.+.+..++.       .+|..++.
T Consensus       160 a~l~l~~g~~~~Al~~l~~~~~~~--P~~~~al~ll~~~~~~~gdw~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~l~~  237 (398)
T PRK10747        160 VRIQLARNENHAARHGVDKLLEVA--PRHPEVLRLAEQAYIRTGAWSSLLDILPSMAKAHVGDEEHRAMLEQQAWIGLMD  237 (398)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHhcC--CCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHH
Confidence            445666677777777777766666  666666666777777777777777777777665544222       12222233


Q ss_pred             HHHHcCChHHHHHHHHHHHHcCCccCc-hhhHHHHhhHHHHhhhcccccccccccCCHHHHHHHHHHHHHccCCCCHHHH
Q 048743          424 AYYKVKMFREAEALLKQMRKSCLVQNL-SCEMVVSERFSEVADKSASFTDTSSLMDKSDLAESLIQEMREEAALSTIYKL  502 (653)
Q Consensus       424 ~~~~~~~~~~a~~~~~~m~~~~~~p~~-~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~y  502 (653)
                      ......+.+...++++.+.+.  .|+. .......              ..+...|+.++|..++++..+..  |+..  
T Consensus       238 ~~~~~~~~~~l~~~w~~lp~~--~~~~~~~~~~~A--------------~~l~~~g~~~~A~~~L~~~l~~~--~~~~--  297 (398)
T PRK10747        238 QAMADQGSEGLKRWWKNQSRK--TRHQVALQVAMA--------------EHLIECDDHDTAQQIILDGLKRQ--YDER--  297 (398)
T ss_pred             HHHHhcCHHHHHHHHHhCCHH--HhCCHHHHHHHH--------------HHHHHCCCHHHHHHHHHHHHhcC--CCHH--
Confidence            223333334444444443221  1211 1111110              11234667777777776666532  3332  


Q ss_pred             HHHHHHHHcCCCHHHHHHHHHHHHhcCCCCC-HHHHHHHHHHHhccCCHHHHHHHHHHHHHHhhhCCCccCHHHHHHHHH
Q 048743          503 NSSIYFFCKGKMIGDALKIYRRMQEMKIRPT-VETFYYLVYGHSSLEMYRDITILWGDIKRNIESGVLAVSRDLYETLLL  581 (653)
Q Consensus       503 ~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~t~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~p~~~~y~~li~  581 (653)
                      -.++.+....++.+++++..+...+.  .|+ ...+..+-+.|.+.+++++|.+.|+...      ...|+...|..+..
T Consensus       298 l~~l~~~l~~~~~~~al~~~e~~lk~--~P~~~~l~l~lgrl~~~~~~~~~A~~~le~al------~~~P~~~~~~~La~  369 (398)
T PRK10747        298 LVLLIPRLKTNNPEQLEKVLRQQIKQ--HGDTPLLWSTLGQLLMKHGEWQEASLAFRAAL------KQRPDAYDYAWLAD  369 (398)
T ss_pred             HHHHHhhccCCChHHHHHHHHHHHhh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHH------hcCCCHHHHHHHHH
Confidence            12344445567777777777777754  344 3446677777778888888888877665      45677777777777


Q ss_pred             HHHhCCCHHHHHHHHHHHH
Q 048743          582 NFLQGGYFERVMEVIGYMK  600 (653)
Q Consensus       582 ~~~~~g~~~~a~~~~~~m~  600 (653)
                      .+.+.|+.++|.+++++-.
T Consensus       370 ~~~~~g~~~~A~~~~~~~l  388 (398)
T PRK10747        370 ALDRLHKPEEAAAMRRDGL  388 (398)
T ss_pred             HHHHcCCHHHHHHHHHHHH
Confidence            7788888888877777553

>KOG1155 consensus Anaphase-promoting complex (APC), Cdc23 subunit [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=99.33  E-value=1.6e-07  Score=90.18  Aligned_cols=299  Identities=13%  Similarity=0.019  Sum_probs=216.8

Q ss_pred             HHHHHHhcCChhhHHHHHHHHHhcCCCccHHHHHHHHHHHHhcCChhhhHHHHHHhhhcCCCcccchhHHHHHHHHhhhc
Q 048743          183 VLHACVRFGSSLKGQHIMELMSQTGVVADAHSIIILAQIHEMNCQRDELKKFKCYIDQLSTPFAHHYQQFYESLLSLHFK  262 (653)
Q Consensus       183 li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~  262 (653)
                      +..++......+++.+=.......|+.-+...-+....+.-...|++.|+.+|+.+.+. +|.--.|..+|..++-.--.
T Consensus       233 ~~~a~~el~q~~e~~~k~e~l~~~gf~~~~~i~~~~A~~~y~~rDfD~a~s~Feei~kn-DPYRl~dmdlySN~LYv~~~  311 (559)
T KOG1155|consen  233 LKKAYQELHQHEEALQKKERLSSVGFPNSMYIKTQIAAASYNQRDFDQAESVFEEIRKN-DPYRLDDMDLYSNVLYVKND  311 (559)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhccCCccHHHHHHHHHHHhhhhhHHHHHHHHHHHHhc-CCCcchhHHHHhHHHHHHhh
Confidence            34566667788888888888888886655555455555566778888888888888887 45444455566666543322


Q ss_pred             cCCHH-HHHHHHHHhcccCCCCCCchhhhcccccchhccCCCcccchhhhccchhhhHHHHHHhhhhhHHHHHHhcCCCC
Q 048743          263 FDDID-AAGELILDMNRYREPLPNPKLRQDAQKPYLISIGSPNLRCGLKLQIMPELLEKDSILKMEGKQELVLFRNGKLL  341 (653)
Q Consensus       263 ~g~~~-~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  341 (653)
                      +.++. -|..++                                                              .-.+..
T Consensus       312 ~skLs~LA~~v~--------------------------------------------------------------~idKyR  329 (559)
T KOG1155|consen  312 KSKLSYLAQNVS--------------------------------------------------------------NIDKYR  329 (559)
T ss_pred             hHHHHHHHHHHH--------------------------------------------------------------HhccCC
Confidence            21111 111111                                                              112233


Q ss_pred             CCHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHH
Q 048743          342 HSNRAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTYKSL  421 (653)
Q Consensus       342 p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~l  421 (653)
                      |.  |...+-+-|+-.++.++|...|+...+-+  |.....|+.+-.-|....+...|.+-++...+- .+.|-..|-.|
T Consensus       330 ~E--TCCiIaNYYSlr~eHEKAv~YFkRALkLN--p~~~~aWTLmGHEyvEmKNt~AAi~sYRrAvdi-~p~DyRAWYGL  404 (559)
T KOG1155|consen  330 PE--TCCIIANYYSLRSEHEKAVMYFKRALKLN--PKYLSAWTLMGHEYVEMKNTHAAIESYRRAVDI-NPRDYRAWYGL  404 (559)
T ss_pred             cc--ceeeehhHHHHHHhHHHHHHHHHHHHhcC--cchhHHHHHhhHHHHHhcccHHHHHHHHHHHhc-CchhHHHHhhh
Confidence            32  44566667778889999999999999888  777777999999999999999999999998885 34588889999


Q ss_pred             HHHHHHcCChHHHHHHHHHHHHcCCccCchhhHHHHhhHHHHhhhcccccccccccCCHHHHHHHHHHHHHccCCCCHHH
Q 048743          422 LTAYYKVKMFREAEALLKQMRKSCLVQNLSCEMVVSERFSEVADKSASFTDTSSLMDKSDLAESLIQEMREEAALSTIYK  501 (653)
Q Consensus       422 i~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~  501 (653)
                      -.+|.-.+.+.=|+-.|++..+  +.|+                                                |...
T Consensus       405 GQaYeim~Mh~YaLyYfqkA~~--~kPn------------------------------------------------DsRl  434 (559)
T KOG1155|consen  405 GQAYEIMKMHFYALYYFQKALE--LKPN------------------------------------------------DSRL  434 (559)
T ss_pred             hHHHHHhcchHHHHHHHHHHHh--cCCC------------------------------------------------chHH
Confidence            9999999999999988888876  4564                                                7788


Q ss_pred             HHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHHhhhCCCccCHHH--HHHH
Q 048743          502 LNSSIYFFCKGKMIGDALKIYRRMQEMKIRPTVETFYYLVYGHSSLEMYRDITILWGDIKRNIESGVLAVSRDL--YETL  579 (653)
Q Consensus       502 y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~p~~~~--y~~l  579 (653)
                      |.+|-.+|.+.++.++|++.|+.....|-. +...|..|.+.|-+.++.++|..++..-.+.....|...+...  --.|
T Consensus       435 w~aLG~CY~kl~~~~eAiKCykrai~~~dt-e~~~l~~LakLye~l~d~~eAa~~yek~v~~~~~eg~~~~~t~ka~~fL  513 (559)
T KOG1155|consen  435 WVALGECYEKLNRLEEAIKCYKRAILLGDT-EGSALVRLAKLYEELKDLNEAAQYYEKYVEVSELEGEIDDETIKARLFL  513 (559)
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHHhcccc-chHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhhcccchHHHHHHHHH
Confidence            999999999999999999999998886533 6678999999999999999999999877654433343333222  2224


Q ss_pred             HHHHHhCCCHHHHHHHHHHHH
Q 048743          580 LLNFLQGGYFERVMEVIGYMK  600 (653)
Q Consensus       580 i~~~~~~g~~~~a~~~~~~m~  600 (653)
                      ..-+.+.+++++|........
T Consensus       514 A~~f~k~~~~~~As~Ya~~~~  534 (559)
T KOG1155|consen  514 AEYFKKMKDFDEASYYATLVL  534 (559)
T ss_pred             HHHHHhhcchHHHHHHHHHHh
Confidence            455778888888877655544

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.32  E-value=2e-09  Score=109.54  Aligned_cols=280  Identities=11%  Similarity=0.051  Sum_probs=186.7

Q ss_pred             hhhhhhhcCCccCCCC--c-hhhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCccHHHHH--HHHHHHHhcCChhhhHHH
Q 048743          160 LHLSAEKSNGAELIKP--D-TMIFNLVLHACVRFGSSLKGQHIMELMSQTGVVADAHSII--ILAQIHEMNCQRDELKKF  234 (653)
Q Consensus       160 ~~~~~a~~~~~~~~~~--~-~~~yn~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~--~ll~~~~~~g~~~~a~~~  234 (653)
                      |+++.|++........  + ...|-....+..+.|+++.|.+.|.++.+.  .|+...+.  .....+...|+.+.|.+.
T Consensus        98 Gd~~~A~k~l~~~~~~~~~p~l~~llaA~aA~~~g~~~~A~~~l~~A~~~--~~~~~~~~~l~~a~l~l~~g~~~~Al~~  175 (398)
T PRK10747         98 GDYQQVEKLMTRNADHAEQPVVNYLLAAEAAQQRGDEARANQHLERAAEL--ADNDQLPVEITRVRIQLARNENHAARHG  175 (398)
T ss_pred             CCHHHHHHHHHHHHhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCcchHHHHHHHHHHHHHCCCHHHHHHH
Confidence            4666666665544332  2 233433345558899999999999999874  66765433  446788899999999999


Q ss_pred             HHHhhhcCCCcccchhHHHHHHHHhhhccCCHHHHHHHHHHhcccCCCCCCchhhhcccccchhccCCCcccchhhhccc
Q 048743          235 KCYIDQLSTPFAHHYQQFYESLLSLHFKFDDIDAAGELILDMNRYREPLPNPKLRQDAQKPYLISIGSPNLRCGLKLQIM  314 (653)
Q Consensus       235 ~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  314 (653)
                      ++.+.+..+..    ..++..+...|.+.|++++|.+++..+.+....                                
T Consensus       176 l~~~~~~~P~~----~~al~ll~~~~~~~gdw~~a~~~l~~l~k~~~~--------------------------------  219 (398)
T PRK10747        176 VDKLLEVAPRH----PEVLRLAEQAYIRTGAWSSLLDILPSMAKAHVG--------------------------------  219 (398)
T ss_pred             HHHHHhcCCCC----HHHHHHHHHHHHHHHhHHHHHHHHHHHHHcCCC--------------------------------
Confidence            99998765333    236889999999999999999999999431111                                


Q ss_pred             hhhhHHHHHHhhhhhHHHHHHhcCCCCCCH------HHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHH
Q 048743          315 PELLEKDSILKMEGKQELVLFRNGKLLHSN------RAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVID  388 (653)
Q Consensus       315 ~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~------~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~  388 (653)
                                                .|..      .+|..++.......+.+...++++.+.+.-  +.++.....+..
T Consensus       220 --------------------------~~~~~~~l~~~a~~~l~~~~~~~~~~~~l~~~w~~lp~~~--~~~~~~~~~~A~  271 (398)
T PRK10747        220 --------------------------DEEHRAMLEQQAWIGLMDQAMADQGSEGLKRWWKNQSRKT--RHQVALQVAMAE  271 (398)
T ss_pred             --------------------------CHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHhCCHHH--hCCHHHHHHHHH
Confidence                                      1110      133344444445555666667777665544  556666777888


Q ss_pred             HHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCccCchhhHHHHhhHHHHhhhcc
Q 048743          389 ALIQLGFLEAAHDILDDMELAGHPMDSTTYKSLLTAYYKVKMFREAEALLKQMRKSCLVQNLSCEMVVSERFSEVADKSA  468 (653)
Q Consensus       389 ~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~l~~~~~~~~  468 (653)
                      ++...|+.++|.+++++..+.  +||..  -.++.+....++++++++..+...+.  .|+                   
T Consensus       272 ~l~~~g~~~~A~~~L~~~l~~--~~~~~--l~~l~~~l~~~~~~~al~~~e~~lk~--~P~-------------------  326 (398)
T PRK10747        272 HLIECDDHDTAQQIILDGLKR--QYDER--LVLLIPRLKTNNPEQLEKVLRQQIKQ--HGD-------------------  326 (398)
T ss_pred             HHHHCCCHHHHHHHHHHHHhc--CCCHH--HHHHHhhccCCChHHHHHHHHHHHhh--CCC-------------------
Confidence            888888888888888777763  34442  12233444557777777777777653  344                   


Q ss_pred             cccccccccCCHHHHHHHHHHHHHccCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccC
Q 048743          469 SFTDTSSLMDKSDLAESLIQEMREEAALSTIYKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRPTVETFYYLVYGHSSLE  548 (653)
Q Consensus       469 ~~~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~  548 (653)
                                                   |...+..+-..|.+.|++++|.+.|+...+.  .|+..+|..+...+.+.|
T Consensus       327 -----------------------------~~~l~l~lgrl~~~~~~~~~A~~~le~al~~--~P~~~~~~~La~~~~~~g  375 (398)
T PRK10747        327 -----------------------------TPLLWSTLGQLLMKHGEWQEASLAFRAALKQ--RPDAYDYAWLADALDRLH  375 (398)
T ss_pred             -----------------------------CHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCHHHHHHHHHHHHHcC
Confidence                                         3444556666677777777777777777653  577777777777777777


Q ss_pred             CHHHHHHHHHHHH
Q 048743          549 MYRDITILWGDIK  561 (653)
Q Consensus       549 ~~~~a~~~~~~~~  561 (653)
                      +.++|.+++++-.
T Consensus       376 ~~~~A~~~~~~~l  388 (398)
T PRK10747        376 KPEEAAAMRRDGL  388 (398)
T ss_pred             CHHHHHHHHHHHH
Confidence            7777777776543

>KOG4318 consensus Bicoid mRNA stability factor [RNA processing and modification]

Probab=99.31  E-value=3.7e-09  Score=108.81  Aligned_cols=338  Identities=11%  Similarity=0.023  Sum_probs=201.7

Q ss_pred             cCCCCchhhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCccHHHHHHHHHHHHhcCChhhhHHHHHHhhhcCCCcccchh
Q 048743          171 ELIKPDTMIFNLVLHACVRFGSSLKGQHIMELMSQTGVVADAHSIIILAQIHEMNCQRDELKKFKCYIDQLSTPFAHHYQ  250 (653)
Q Consensus       171 ~~~~~~~~~yn~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~  250 (653)
                      .|+.||.+||..+|.-||..|+.+.|- +|.-|+-+.+.-+...|+.++.+....++.+.++              .+-.
T Consensus        19 ~gi~PnRvtyqsLiarYc~~gdieaat-if~fm~~ksLpv~e~vf~~lv~sh~~And~Enpk--------------ep~a   83 (1088)
T KOG4318|consen   19 SGILPNRVTYQSLIARYCTKGDIEAAT-IFPFMEIKSLPVREGVFRGLVASHKEANDAENPK--------------EPLA   83 (1088)
T ss_pred             hcCCCchhhHHHHHHHHcccCCCcccc-chhhhhcccccccchhHHHHHhcccccccccCCC--------------CCch
Confidence            567788888888888888888888887 8888877776667777888888877777766555              1222


Q ss_pred             HHHHHHHHhhhccCCHHHHHHHHHH-hcccCCCCCCchhhhcccccchhccCCCcccchhhhccchhhhHHHHHHhhhhh
Q 048743          251 QFYESLLSLHFKFDDIDAAGELILD-MNRYREPLPNPKLRQDAQKPYLISIGSPNLRCGLKLQIMPELLEKDSILKMEGK  329 (653)
Q Consensus       251 ~~~~~li~~~~~~g~~~~A~~~~~~-m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  329 (653)
                      .+|+.|..+|...||+.. .+..++ |..-                                   ...++.........+
T Consensus        84 Dtyt~Ll~ayr~hGDli~-fe~veqdLe~i-----------------------------------~~sfs~~Gvgs~e~~  127 (1088)
T KOG4318|consen   84 DTYTNLLKAYRIHGDLIL-FEVVEQDLESI-----------------------------------NQSFSDHGVGSPERW  127 (1088)
T ss_pred             hHHHHHHHHHHhccchHH-HHHHHHHHHHH-----------------------------------HhhhhhhccCcHHHH
Confidence            368888888888888765 222222 2100                                   000000000000000


Q ss_pred             HHHHHHhcCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcC-CHHHHHHHHHHHHH
Q 048743          330 QELVLFRNGKLLHSNRAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLG-FLEAAHDILDDMEL  408 (653)
Q Consensus       330 ~~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g-~~~~a~~~~~~m~~  408 (653)
                      .-+..--..+..||..   .++.-..-.|.++.+++++..+.......|  .  -.+++-+.... .+++-..+-....+
T Consensus       128 fl~k~~c~p~~lpda~---n~illlv~eglwaqllkll~~~Pvsa~~~p--~--~vfLrqnv~~ntpvekLl~~cksl~e  200 (1088)
T KOG4318|consen  128 FLMKIHCCPHSLPDAE---NAILLLVLEGLWAQLLKLLAKVPVSAWNAP--F--QVFLRQNVVDNTPVEKLLNMCKSLVE  200 (1088)
T ss_pred             HHhhcccCcccchhHH---HHHHHHHHHHHHHHHHHHHhhCCcccccch--H--HHHHHHhccCCchHHHHHHHHHHhhc
Confidence            0000011334455554   445556667888888888887765441111  1  11344443322 23343444333333


Q ss_pred             CCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCccCc-hhhHHHHhhHHHHhhhcccccccccccCCHHHHHHHH
Q 048743          409 AGHPMDSTTYKSLLTAYYKVKMFREAEALLKQMRKSCLVQNL-SCEMVVSERFSEVADKSASFTDTSSLMDKSDLAESLI  487 (653)
Q Consensus       409 ~g~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~-~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~a~~~~  487 (653)
                         .|+..+|.+++++-..+|+.+.|..++.+|.+.|+..+. ++.-++.                  ..++...++.++
T Consensus       201 ---~~~s~~l~a~l~~alaag~~d~Ak~ll~emke~gfpir~HyFwpLl~------------------g~~~~q~~e~vl  259 (1088)
T KOG4318|consen  201 ---APTSETLHAVLKRALAAGDVDGAKNLLYEMKEKGFPIRAHYFWPLLL------------------GINAAQVFEFVL  259 (1088)
T ss_pred             ---CCChHHHHHHHHHHHhcCchhhHHHHHHHHHHcCCCcccccchhhhh------------------cCccchHHHHHH
Confidence               589999999999999999999999999999999988776 3333321                  168888999999


Q ss_pred             HHHHHccCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCCHHHHHHHHH---------
Q 048743          488 QEMREEAALSTIYKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRPTVETFYYLVYGHSSLEMYRDITILWG---------  558 (653)
Q Consensus       488 ~~m~~~~~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~---------  558 (653)
                      .-|.+.|+.|+..|+...+-.+...|....+.        .| .++...+++-+.+-.-.|  ..|...++         
T Consensus       260 rgmqe~gv~p~seT~adyvip~l~N~~t~~~~--------e~-sq~~hg~tAavrsaa~rg--~~a~k~l~~nl~~~v~~  328 (1088)
T KOG4318|consen  260 RGMQEKGVQPGSETQADYVIPQLSNGQTKYGE--------EG-SQLAHGFTAAVRSAACRG--LLANKRLRQNLRKSVIG  328 (1088)
T ss_pred             HHHHHhcCCCCcchhHHHHHhhhcchhhhhcc--------cc-cchhhhhhHHHHHHHhcc--cHhHHHHHHHHHHHHHH
Confidence            99999999999999999888888866522221        22 223333333333322223  22222222         


Q ss_pred             HHHHHhhhCCCccCHHHHHHHHHHHHhCCCHHHHHHHHHHHH
Q 048743          559 DIKRNIESGVLAVSRDLYETLLLNFLQGGYFERVMEVIGYMK  600 (653)
Q Consensus       559 ~~~~~~~~~~~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~  600 (653)
                      ...+.+- .|+.-...+|...+ -...+|+-++++++...|.
T Consensus       329 s~k~~fL-lg~d~~~aiws~c~-~l~hQgk~e~veqlvg~l~  368 (1088)
T KOG4318|consen  329 STKKLFL-LGTDILEAIWSMCE-KLRHQGKGEEVEQLVGQLL  368 (1088)
T ss_pred             HhhHHHH-hccccchHHHHHHH-HHHHcCCCchHHHHHhhhc
Confidence            1211111 13333334444333 3444899999999998885

>PF13429 TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2_B

Probab=99.31  E-value=1.8e-11  Score=118.89  Aligned_cols=63  Identities=5%  Similarity=-0.118  Sum_probs=28.9

Q ss_pred             CHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHH
Q 048743          498 TIYKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRPTVETFYYLVYGHSSLEMYRDITILWGDIK  561 (653)
Q Consensus       498 ~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~~~  561 (653)
                      |...|..+..+|...|+.++|+.+|++..... +-|......+..++...|+.++|.++...+.
T Consensus       213 ~~~~~~~la~~~~~lg~~~~Al~~~~~~~~~~-p~d~~~~~~~a~~l~~~g~~~~A~~~~~~~~  275 (280)
T PF13429_consen  213 DPDLWDALAAAYLQLGRYEEALEYLEKALKLN-PDDPLWLLAYADALEQAGRKDEALRLRRQAL  275 (280)
T ss_dssp             SCCHCHHHHHHHHHHT-HHHHHHHHHHHHHHS-TT-HHHHHHHHHHHT----------------
T ss_pred             HHHHHHHHHHHhcccccccccccccccccccc-ccccccccccccccccccccccccccccccc
Confidence            33455666777777777777777777766531 2356666677777777777777777665543

>KOG2076 consensus RNA polymerase III transcription factor TFIIIC [Transcription]

Probab=99.30  E-value=1.3e-06  Score=91.02  Aligned_cols=506  Identities=11%  Similarity=0.024  Sum_probs=267.0

Q ss_pred             HHHHHHHHHhccchhHHHHHHHHhhhhcCCCCchhHHHHHHHhhccCCcchhhhHHHHHHHHHhccCCchhHHHHHHHHH
Q 048743           22 LLRKLESASKNHQVGEAWETFNDFQRLHGIPERHVVNRFITDLCYSAEPHWLQKACDLVLKIQKGKADLLQLDLLAKLSL  101 (653)
Q Consensus        22 ~~~~i~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~t~~~li~  101 (653)
                      +......+.-.|+.++|.+++.+.++. .......|-.|-..+-..|+   .++++..+.-..+-+|.  |..-|-.+-.
T Consensus       142 ll~eAN~lfarg~~eeA~~i~~EvIkq-dp~~~~ay~tL~~IyEqrGd---~eK~l~~~llAAHL~p~--d~e~W~~lad  215 (895)
T KOG2076|consen  142 LLGEANNLFARGDLEEAEEILMEVIKQ-DPRNPIAYYTLGEIYEQRGD---IEKALNFWLLAAHLNPK--DYELWKRLAD  215 (895)
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHHh-CccchhhHHHHHHHHHHccc---HHHHHHHHHHHHhcCCC--ChHHHHHHHH
Confidence            333333444458888888888888773 22344577777777777776   67777776655554443  5677777777


Q ss_pred             HHHhcCCCchHHHHHHHHHcCccCCCchhHHHHHHHHhhcccccccchHHHHHHHHHhhhhhhhhcCCccCCCCchhhHH
Q 048743          102 SLARAQMPVPASMILRLMLGRENLPCSDLLLLVFVHMVKTEIGTCLASNFLIQLCDVFLHLSAEKSNGAELIKPDTMIFN  181 (653)
Q Consensus       102 ~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~yn  181 (653)
                      .....|.++.|.-.|.+.++..  |+                                                +...+-
T Consensus       216 ls~~~~~i~qA~~cy~rAI~~~--p~------------------------------------------------n~~~~~  245 (895)
T KOG2076|consen  216 LSEQLGNINQARYCYSRAIQAN--PS------------------------------------------------NWELIY  245 (895)
T ss_pred             HHHhcccHHHHHHHHHHHHhcC--Cc------------------------------------------------chHHHH
Confidence            7788888888888887776652  22                                                222222


Q ss_pred             HHHHHHHhcCChhhHHHHHHHHHhcCCCccHHH-----HHHHHHHHHhcCChhhhHHHHHHhhhc-CCCcccchhHHHHH
Q 048743          182 LVLHACVRFGSSLKGQHIMELMSQTGVVADAHS-----IIILAQIHEMNCQRDELKKFKCYIDQL-STPFAHHYQQFYES  255 (653)
Q Consensus       182 ~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t-----~~~ll~~~~~~g~~~~a~~~~~~~~~~-~~~~~~~~~~~~~~  255 (653)
                      -=..-|-+.|+...|.+-|.+|....- |...-     --.+++.+...++-+.|.+.++..... .+....+   .++.
T Consensus       246 ers~L~~~~G~~~~Am~~f~~l~~~~p-~~d~er~~d~i~~~~~~~~~~~~~e~a~~~le~~~s~~~~~~~~e---d~ni  321 (895)
T KOG2076|consen  246 ERSSLYQKTGDLKRAMETFLQLLQLDP-PVDIERIEDLIRRVAHYFITHNERERAAKALEGALSKEKDEASLE---DLNI  321 (895)
T ss_pred             HHHHHHHHhChHHHHHHHHHHHHhhCC-chhHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhhcccccccc---HHHH
Confidence            224456777888888888888876531 22222     223455666666667777666555442 2222222   4788


Q ss_pred             HHHhhhccCCHHHHHHHHHHhcccCCCCCCchhhhcccccchhccCCCcccchhhhccchhhhHHHHHHhhhhhHHHHHH
Q 048743          256 LLSLHFKFDDIDAAGELILDMNRYREPLPNPKLRQDAQKPYLISIGSPNLRCGLKLQIMPELLEKDSILKMEGKQELVLF  335 (653)
Q Consensus       256 li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  335 (653)
                      +...|.+...++.|......+.. +...++..-.+.........  ....                             .
T Consensus       322 ~ael~l~~~q~d~~~~~i~~~~~-r~~e~d~~e~~~~~~~~~~~--~~~~-----------------------------~  369 (895)
T KOG2076|consen  322 LAELFLKNKQSDKALMKIVDDRN-RESEKDDSEWDTDERRREEP--NALC-----------------------------E  369 (895)
T ss_pred             HHHHHHHhHHHHHhhHHHHHHhc-cccCCChhhhhhhhhccccc--cccc-----------------------------c
Confidence            88999999999999988888743 22211111000000000000  0000                             0


Q ss_pred             hcCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCC-CCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCC
Q 048743          336 RNGKLLHSNRAMAKLINGYKKHGKNSELSWLLLSIKKEHH-SFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMD  414 (653)
Q Consensus       336 ~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~-~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~  414 (653)
                      ....+.++..++ .+.-++......+....+......... ...+...|..+..+|...|.+..|+.+|..+...-..-+
T Consensus       370 ~~~~~s~~l~v~-rl~icL~~L~~~e~~e~ll~~l~~~n~~~~d~~dL~~d~a~al~~~~~~~~Al~~l~~i~~~~~~~~  448 (895)
T KOG2076|consen  370 VGKELSYDLRVI-RLMICLVHLKERELLEALLHFLVEDNVWVSDDVDLYLDLADALTNIGKYKEALRLLSPITNREGYQN  448 (895)
T ss_pred             CCCCCCccchhH-hHhhhhhcccccchHHHHHHHHHHhcCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHhcCccccc
Confidence            112222333221 122222233333333333333333331 222233466666666666777777777666665544445


Q ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCccCchhhHHHHhhHHHHhhhcccccccccccCCHHHHHHHHHHHHH--
Q 048743          415 STTYKSLLTAYYKVKMFREAEALLKQMRKSCLVQNLSCEMVVSERFSEVADKSASFTDTSSLMDKSDLAESLIQEMRE--  492 (653)
Q Consensus       415 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~--  492 (653)
                      ...|-.+..+|...|.+++|.+.|+....  ..|+.....+..+.             .|-..|+.++|.+.+..+..  
T Consensus       449 ~~vw~~~a~c~~~l~e~e~A~e~y~kvl~--~~p~~~D~Ri~Las-------------l~~~~g~~EkalEtL~~~~~~D  513 (895)
T KOG2076|consen  449 AFVWYKLARCYMELGEYEEAIEFYEKVLI--LAPDNLDARITLAS-------------LYQQLGNHEKALETLEQIINPD  513 (895)
T ss_pred             hhhhHHHHHHHHHHhhHHHHHHHHHHHHh--cCCCchhhhhhHHH-------------HHHhcCCHHHHHHHHhcccCCC
Confidence            55666666666666667777666666655  34544211111111             12236666666666666442  


Q ss_pred             ------ccCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcC----------------------CCCCHHHHHHHHHHH
Q 048743          493 ------EAALSTIYKLNSSIYFFCKGKMIGDALKIYRRMQEMK----------------------IRPTVETFYYLVYGH  544 (653)
Q Consensus       493 ------~~~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g----------------------~~p~~~t~~~li~~~  544 (653)
                            .+..|+...--...+.+...|+.++-+++-.+|....                      ..-+..+...++.+-
T Consensus       514 ~~~~e~~a~~~e~ri~~~r~d~l~~~gk~E~fi~t~~~Lv~~~~~~~~~f~~~~k~r~~~~~~~~~~~~~~~~~~~~~~~  593 (895)
T KOG2076|consen  514 GRNAEACAWEPERRILAHRCDILFQVGKREEFINTASTLVDDFLKKRYIFPRNKKKRRRAIAGTTSKRYSELLKQIIRAR  593 (895)
T ss_pred             ccchhhccccHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHhcchHHHHHHHhhccccccccchhHHHHHHHH
Confidence                  1123334444445555666777666555555554311                      122333334444444


Q ss_pred             hccCCHHHHHHHHHHH--HHHhhhCCCccC--HHHHHHHHHHHHhCCCHHHHHHHHHHHHhCCC--CCCHH----hHHHH
Q 048743          545 SSLEMYRDITILWGDI--KRNIESGVLAVS--RDLYETLLLNFLQGGYFERVMEVIGYMKKQNM--YVDKL----MYKSE  614 (653)
Q Consensus       545 ~~~~~~~~a~~~~~~~--~~~~~~~~~~p~--~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~--~p~~~----t~~~l  614 (653)
                      .+.++..........-  .+.....++..+  -..+.-++..+++.|++++|+.+...+...-+  .++..    -|-.+
T Consensus       594 ~k~~~~~~~~~~l~d~~~~~~~e~~~Lsiddwfel~~e~i~~L~k~~r~qeAl~vv~~a~~~~~f~~~~~~~k~l~~~~l  673 (895)
T KOG2076|consen  594 EKATDDNVMEKALSDGTEFRAVELRGLSIDDWFELFRELILSLAKLQRVQEALSVVFTALEAYIFFQDSEIRKELQFLGL  673 (895)
T ss_pred             hccCchHHhhhcccchhhhhhhhhccCcHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHhhhhhhccHHHHHHHHHHHH
Confidence            4444433322222111  000011122211  13355678889999999999999888875532  22221    12222


Q ss_pred             H-HHhhhhhHHhhhhhHHHHHH
Q 048743          615 F-LKHHKHLYRRLKVSNARTEA  635 (653)
Q Consensus       615 ~-~~~~~~~~~~~~~~~~~~~~  635 (653)
                      . +.+.+|...+..-...++..
T Consensus       674 ~~s~~~~d~~~a~~~lR~~i~~  695 (895)
T KOG2076|consen  674 KASLYARDPGDAFSYLRSVITQ  695 (895)
T ss_pred             HHHHhcCCHHHHHHHHHHHHHH
Confidence            2 44667777777777666664

>TIGR00540 hemY_coli hemY protein

Probab=99.29  E-value=1.7e-08  Score=103.32  Aligned_cols=298  Identities=9%  Similarity=0.010  Sum_probs=178.8

Q ss_pred             hHHHHHHHHH--hcCChhhHHHHHHHHHhcCCCccHHH-HHHHHHHHHhcCChhhhHHHHHHhhhcCC-CcccchhHHHH
Q 048743          179 IFNLVLHACV--RFGSSLKGQHIMELMSQTGVVADAHS-IIILAQIHEMNCQRDELKKFKCYIDQLST-PFAHHYQQFYE  254 (653)
Q Consensus       179 ~yn~li~~~~--~~g~~~~a~~l~~~m~~~g~~p~~~t-~~~ll~~~~~~g~~~~a~~~~~~~~~~~~-~~~~~~~~~~~  254 (653)
                      .+..+.++..  ..|+++.|.+.+....+.  .|+... +.....+....|+.+.+.+.+....+..+ +.+.    +.-
T Consensus        84 ~~~~~~~glla~~~g~~~~A~~~l~~~~~~--~~~~~~~~llaA~aa~~~g~~~~A~~~l~~a~~~~p~~~l~----~~~  157 (409)
T TIGR00540        84 AQKQTEEALLKLAEGDYAKAEKLIAKNADH--AAEPVLNLIKAAEAAQQRGDEARANQHLEEAAELAGNDNIL----VEI  157 (409)
T ss_pred             HHHHHHHHHHHHhCCCHHHHHHHHHHHhhc--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCcCchH----HHH
Confidence            3444555554  489999999999877664  465444 44556777788899998888888755321 1111    223


Q ss_pred             HHHHhhhccCCHHHHHHHHHHhcccCCCCCCchhhhcccccchhccCCCcccchhhhccchhhhHHHHHHhhhhhHHHHH
Q 048743          255 SLLSLHFKFDDIDAAGELILDMNRYREPLPNPKLRQDAQKPYLISIGSPNLRCGLKLQIMPELLEKDSILKMEGKQELVL  334 (653)
Q Consensus       255 ~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  334 (653)
                      .....+...|+++.|...++.+.+                                                        
T Consensus       158 ~~a~l~l~~~~~~~Al~~l~~l~~--------------------------------------------------------  181 (409)
T TIGR00540       158 ARTRILLAQNELHAARHGVDKLLE--------------------------------------------------------  181 (409)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHH--------------------------------------------------------
Confidence            346667778888888888888832                                                        


Q ss_pred             HhcCCCCC-CHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHH-HHHHH---HHcCCHHHHHHHHHHHHHC
Q 048743          335 FRNGKLLH-SNRAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSD-VIDAL---IQLGFLEAAHDILDDMELA  409 (653)
Q Consensus       335 ~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~-li~~~---~~~g~~~~a~~~~~~m~~~  409 (653)
                           ..| +...+..+...+...|++++|.+++..+.+.+  ..+...+.. -..++   ...+..+.+.+.+..+.+.
T Consensus       182 -----~~P~~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~~--~~~~~~~~~l~~~a~~~~l~~~~~~~~~~~L~~~~~~  254 (409)
T TIGR00540       182 -----MAPRHKEVLKLAEEAYIRSGAWQALDDIIDNMAKAG--LFDDEEFADLEQKAEIGLLDEAMADEGIDGLLNWWKN  254 (409)
T ss_pred             -----hCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcC--CCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHH
Confidence                 224 33466788888888899988888888888876  222222321 11111   2222333333455555443


Q ss_pred             CC---CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCccCchhhHHHHhhHHHHhhhcccccccccccCCHHHHHHH
Q 048743          410 GH---PMDSTTYKSLLTAYYKVKMFREAEALLKQMRKSCLVQNLSCEMVVSERFSEVADKSASFTDTSSLMDKSDLAESL  486 (653)
Q Consensus       410 g~---~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~a~~~  486 (653)
                      ..   +.+...+..+...+...|++++|.+++++..+.  .||.......  .+....         ....++.+.+.+.
T Consensus       255 ~p~~~~~~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~--~pd~~~~~~~--~l~~~~---------~l~~~~~~~~~~~  321 (409)
T TIGR00540       255 QPRHRRHNIALKIALAEHLIDCDDHDSAQEIIFDGLKK--LGDDRAISLP--LCLPIP---------RLKPEDNEKLEKL  321 (409)
T ss_pred             CCHHHhCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhh--CCCcccchhH--HHHHhh---------hcCCCChHHHHHH
Confidence            21   137778888888888888888888888888774  3443110000  000000         0113455566666


Q ss_pred             HHHHHHccCCC-CH--HHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHH
Q 048743          487 IQEMREEAALS-TI--YKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRPTVETFYYLVYGHSSLEMYRDITILWGDI  560 (653)
Q Consensus       487 ~~~m~~~~~~p-~~--~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~~  560 (653)
                      ++...+..  | |.  ....++-..+.+.|++++|.+.|+........|+...+..+...+.+.|+.++|.++|++.
T Consensus       322 ~e~~lk~~--p~~~~~~ll~sLg~l~~~~~~~~~A~~~le~a~a~~~~p~~~~~~~La~ll~~~g~~~~A~~~~~~~  396 (409)
T TIGR00540       322 IEKQAKNV--DDKPKCCINRALGQLLMKHGEFIEAADAFKNVAACKEQLDANDLAMAADAFDQAGDKAEAAAMRQDS  396 (409)
T ss_pred             HHHHHHhC--CCChhHHHHHHHHHHHHHcccHHHHHHHHHHhHHhhcCCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            65555432  4 22  3445666666667777777776664333334566666666666666777777776666654

This is an uncharacterized protein encoded next to a heme-biosynthetic enzyme in two gamma division proteobacteria (E. coli and H. influenzae). It is known in no other species. The gene symbol hemY is unfortunate in that an unrelated protein, protoporphyrinogen oxidase, is designated as HemG in E. coli but as HemY in Bacillus subtilis.

>TIGR00540 hemY_coli hemY protein

Probab=99.29  E-value=6e-09  Score=106.71  Aligned_cols=205  Identities=18%  Similarity=0.115  Sum_probs=142.1

Q ss_pred             chhhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCccHHHHHHHHHHH---HhcCChhhhHHHHHHhhhcCCCcccchhHH
Q 048743          176 DTMIFNLVLHACVRFGSSLKGQHIMELMSQTGVVADAHSIIILAQIH---EMNCQRDELKKFKCYIDQLSTPFAHHYQQF  252 (653)
Q Consensus       176 ~~~~yn~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~ll~~~---~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~  252 (653)
                      +...+..+...+.+.|++++|.+++..+.+.++.+.......-..++   ...+..+.+.+.+..+....+.....+...
T Consensus       186 ~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~~l~~~~~~~~~~~L~~~~~~~p~~~~~~~~l  265 (409)
T TIGR00540       186 HKEVLKLAEEAYIRSGAWQALDDIIDNMAKAGLFDDEEFADLEQKAEIGLLDEAMADEGIDGLLNWWKNQPRHRRHNIAL  265 (409)
T ss_pred             CHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHCCHHHhCCHHH
Confidence            55677788999999999999999999999987543332211111111   222222222233333333222112234457


Q ss_pred             HHHHHHhhhccCCHHHHHHHHHHhcccCCCCCCchhhhcccccchhccCCCcccchhhhccchhhhHHHHHHhhhhhHHH
Q 048743          253 YESLLSLHFKFDDIDAAGELILDMNRYREPLPNPKLRQDAQKPYLISIGSPNLRCGLKLQIMPELLEKDSILKMEGKQEL  332 (653)
Q Consensus       253 ~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  332 (653)
                      +..+...+...|+.++|.+++++..+                                                      
T Consensus       266 ~~~~a~~l~~~g~~~~A~~~l~~~l~------------------------------------------------------  291 (409)
T TIGR00540       266 KIALAEHLIDCDDHDSAQEIIFDGLK------------------------------------------------------  291 (409)
T ss_pred             HHHHHHHHHHCCChHHHHHHHHHHHh------------------------------------------------------
Confidence            88899999999999999999999843                                                      


Q ss_pred             HHHhcCCCCCCHHH---HHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCc--ccHHHHHHHHHHcCCHHHHHHHHHHHH
Q 048743          333 VLFRNGKLLHSNRA---MAKLINGYKKHGKNSELSWLLLSIKKEHHSFGES--TLCSDVIDALIQLGFLEAAHDILDDME  407 (653)
Q Consensus       333 ~~~~~~~~~p~~~~---~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~--~~~~~li~~~~~~g~~~~a~~~~~~m~  407 (653)
                             ..|+...   ...........++.+.+.+.++...+..  |.+.  ....++-..+.+.|++++|.+.|+...
T Consensus       292 -------~~pd~~~~~~~~l~~~~~l~~~~~~~~~~~~e~~lk~~--p~~~~~~ll~sLg~l~~~~~~~~~A~~~le~a~  362 (409)
T TIGR00540       292 -------KLGDDRAISLPLCLPIPRLKPEDNEKLEKLIEKQAKNV--DDKPKCCINRALGQLLMKHGEFIEAADAFKNVA  362 (409)
T ss_pred             -------hCCCcccchhHHHHHhhhcCCCChHHHHHHHHHHHHhC--CCChhHHHHHHHHHHHHHcccHHHHHHHHHHhH
Confidence                   2233321   1122222234577788899998888776  6776  667788999999999999999999644


Q ss_pred             HCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHH
Q 048743          408 LAGHPMDSTTYKSLLTAYYKVKMFREAEALLKQMRK  443 (653)
Q Consensus       408 ~~g~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  443 (653)
                      .....|+...+..+...+.+.|+.++|.+++++-..
T Consensus       363 a~~~~p~~~~~~~La~ll~~~g~~~~A~~~~~~~l~  398 (409)
T TIGR00540       363 ACKEQLDANDLAMAADAFDQAGDKAEAAAMRQDSLG  398 (409)
T ss_pred             HhhcCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            444568999999999999999999999999987643

This is an uncharacterized protein encoded next to a heme-biosynthetic enzyme in two gamma division proteobacteria (E. coli and H. influenzae). It is known in no other species. The gene symbol hemY is unfortunate in that an unrelated protein, protoporphyrinogen oxidase, is designated as HemG in E. coli but as HemY in Bacillus subtilis.

>KOG2076 consensus RNA polymerase III transcription factor TFIIIC [Transcription]

Probab=99.29  E-value=5.2e-08  Score=101.11  Aligned_cols=352  Identities=12%  Similarity=0.047  Sum_probs=241.9

Q ss_pred             CCchhhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCccH-HHHHHHHHHHHhcCChhhhHHHHHHhhhcCCCcccchhHH
Q 048743          174 KPDTMIFNLVLHACVRFGSSLKGQHIMELMSQTGVVADA-HSIIILAQIHEMNCQRDELKKFKCYIDQLSTPFAHHYQQF  252 (653)
Q Consensus       174 ~~~~~~yn~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~-~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~  252 (653)
                      +.+...|-+|-..|-..|+.+++...+--.-  .+.|.. .-|..+.....+.|.++.|.-.+....+..+++..    .
T Consensus       170 p~~~~ay~tL~~IyEqrGd~eK~l~~~llAA--HL~p~d~e~W~~ladls~~~~~i~qA~~cy~rAI~~~p~n~~----~  243 (895)
T KOG2076|consen  170 PRNPIAYYTLGEIYEQRGDIEKALNFWLLAA--HLNPKDYELWKRLADLSEQLGNINQARYCYSRAIQANPSNWE----L  243 (895)
T ss_pred             ccchhhHHHHHHHHHHcccHHHHHHHHHHHH--hcCCCChHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCcchH----H
Confidence            4566789999999999999999987765444  345544 44888999999999999999999999988766544    3


Q ss_pred             HHHHHHhhhccCCHHHHHHHHHHhcccCCCCCCchhhhcccccchhccCCCcccchhhhccchhhhHHHHHHhhhhhHHH
Q 048743          253 YESLLSLHFKFDDIDAAGELILDMNRYREPLPNPKLRQDAQKPYLISIGSPNLRCGLKLQIMPELLEKDSILKMEGKQEL  332 (653)
Q Consensus       253 ~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  332 (653)
                      +-.-+..|-+.|+...|..-|.++.+....+.|..                                             
T Consensus       244 ~~ers~L~~~~G~~~~Am~~f~~l~~~~p~~d~er---------------------------------------------  278 (895)
T KOG2076|consen  244 IYERSSLYQKTGDLKRAMETFLQLLQLDPPVDIER---------------------------------------------  278 (895)
T ss_pred             HHHHHHHHHHhChHHHHHHHHHHHHhhCCchhHHH---------------------------------------------
Confidence            45556788899999999999999843111000000                                             


Q ss_pred             HHHhcCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCC--
Q 048743          333 VLFRNGKLLHSNRAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAG--  410 (653)
Q Consensus       333 ~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g--  410 (653)
                                -....-.+++.+...++-+.|.+.++.....+.-..+...++++...|.+..+++.|.....++....  
T Consensus       279 ----------~~d~i~~~~~~~~~~~~~e~a~~~le~~~s~~~~~~~~ed~ni~ael~l~~~q~d~~~~~i~~~~~r~~e  348 (895)
T KOG2076|consen  279 ----------IEDLIRRVAHYFITHNERERAAKALEGALSKEKDEASLEDLNILAELFLKNKQSDKALMKIVDDRNRESE  348 (895)
T ss_pred             ----------HHHHHHHHHHHHHHhhHHHHHHHHHHHHHhhccccccccHHHHHHHHHHHhHHHHHhhHHHHHHhccccC
Confidence                      01122345666777777788888888877644334444558899999999999999888888776521  


Q ss_pred             -------------------------CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCccCchhhHHHHhhHHHHhh
Q 048743          411 -------------------------HPMDSTTYKSLLTAYYKVKMFREAEALLKQMRKSCLVQNLSCEMVVSERFSEVAD  465 (653)
Q Consensus       411 -------------------------~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~l~~~~~  465 (653)
                                               +.++... -.++-++.+....+....+...+.+....|+....++..        
T Consensus       349 ~d~~e~~~~~~~~~~~~~~~~~~~~~s~~l~v-~rl~icL~~L~~~e~~e~ll~~l~~~n~~~~d~~dL~~d--------  419 (895)
T KOG2076|consen  349 KDDSEWDTDERRREEPNALCEVGKELSYDLRV-IRLMICLVHLKERELLEALLHFLVEDNVWVSDDVDLYLD--------  419 (895)
T ss_pred             CChhhhhhhhhccccccccccCCCCCCccchh-HhHhhhhhcccccchHHHHHHHHHHhcCChhhhHHHHHH--------
Confidence                                     2222222 123334555555566666666666665555443223222        


Q ss_pred             hcccccccccccCCHHHHHHHHHHHHHccCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCH-HHHHHHHHHH
Q 048743          466 KSASFTDTSSLMDKSDLAESLIQEMREEAALSTIYKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRPTV-ETFYYLVYGH  544 (653)
Q Consensus       466 ~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~-~t~~~li~~~  544 (653)
                          +.++|...|++..|..+|..+.....--+...|--+..+|...|.+++|.+.|+.....  .|+. ..-..|-..+
T Consensus       420 ----~a~al~~~~~~~~Al~~l~~i~~~~~~~~~~vw~~~a~c~~~l~e~e~A~e~y~kvl~~--~p~~~D~Ri~Lasl~  493 (895)
T KOG2076|consen  420 ----LADALTNIGKYKEALRLLSPITNREGYQNAFVWYKLARCYMELGEYEEAIEFYEKVLIL--APDNLDARITLASLY  493 (895)
T ss_pred             ----HHHHHHhcccHHHHHHHHHHHhcCccccchhhhHHHHHHHHHHhhHHHHHHHHHHHHhc--CCCchhhhhhHHHHH
Confidence                22456678999999999999987655457888999999999999999999999988864  3442 2333455667


Q ss_pred             hccCCHHHHHHHHHHHHHH----hhhCCCccCHHHHHHHHHHHHhCCCHHHHHHHHHHHHh
Q 048743          545 SSLEMYRDITILWGDIKRN----IESGVLAVSRDLYETLLLNFLQGGYFERVMEVIGYMKK  601 (653)
Q Consensus       545 ~~~~~~~~a~~~~~~~~~~----~~~~~~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~  601 (653)
                      -..|+.++|.+.+..+...    .+..+..|+...--...+.+...|+.++-+.+..+|..
T Consensus       494 ~~~g~~EkalEtL~~~~~~D~~~~e~~a~~~e~ri~~~r~d~l~~~gk~E~fi~t~~~Lv~  554 (895)
T KOG2076|consen  494 QQLGNHEKALETLEQIINPDGRNAEACAWEPERRILAHRCDILFQVGKREEFINTASTLVD  554 (895)
T ss_pred             HhcCCHHHHHHHHhcccCCCccchhhccccHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence            8899999999888765311    13335566677777777888889998887766666653

>PF13429 TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2_B

Probab=99.29  E-value=2.1e-11  Score=118.36  Aligned_cols=260  Identities=17%  Similarity=0.085  Sum_probs=109.8

Q ss_pred             HHHHHHHhcCCCchHHHHHHHHHcCccCCCchhHHHHHHHHhhcccccccchHHHHHHHHHhhhhhhhhcCCccCCCC--
Q 048743           98 KLSLSLARAQMPVPASMILRLMLGRENLPCSDLLLLVFVHMVKTEIGTCLASNFLIQLCDVFLHLSAEKSNGAELIKP--  175 (653)
Q Consensus        98 ~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--  175 (653)
                      .+...+.+.|++++|++++.+-....-.|+...|-.+                 +...+...++.+.|.+.+++....  
T Consensus        13 ~~A~~~~~~~~~~~Al~~L~~~~~~~~~~~~~~~~~~-----------------~a~La~~~~~~~~A~~ay~~l~~~~~   75 (280)
T PF13429_consen   13 RLARLLYQRGDYEKALEVLKKAAQKIAPPDDPEYWRL-----------------LADLAWSLGDYDEAIEAYEKLLASDK   75 (280)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             ccccccccccccccccccccccccccccccccccccc-----------------cccccccccccccccccccccccccc
Confidence            3355666777777777777544333223343333332                 222333334555666666544422  


Q ss_pred             -chhhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCccHHHHHHHHHHHHhcCChhhhHHHHHHhhhcCCCcccchhHHHH
Q 048743          176 -DTMIFNLVLHACVRFGSSLKGQHIMELMSQTGVVADAHSIIILAQIHEMNCQRDELKKFKCYIDQLSTPFAHHYQQFYE  254 (653)
Q Consensus       176 -~~~~yn~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~  254 (653)
                       +...|..++.. ...+++++|.+++....+.  .++...+..++..+.+.++++++.++++.+.....  ...+..+|.
T Consensus        76 ~~~~~~~~l~~l-~~~~~~~~A~~~~~~~~~~--~~~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~--~~~~~~~~~  150 (280)
T PF13429_consen   76 ANPQDYERLIQL-LQDGDPEEALKLAEKAYER--DGDPRYLLSALQLYYRLGDYDEAEELLEKLEELPA--APDSARFWL  150 (280)
T ss_dssp             ---------------------------------------------H-HHHTT-HHHHHHHHHHHHH-T-----T-HHHHH
T ss_pred             cccccccccccc-ccccccccccccccccccc--ccccchhhHHHHHHHHHhHHHHHHHHHHHHHhccC--CCCCHHHHH
Confidence             33456666666 6889999999988877655  35666677788888899999999999888775322  234556788


Q ss_pred             HHHHhhhccCCHHHHHHHHHHhcccCCCCCCchhhhcccccchhccCCCcccchhhhccchhhhHHHHHHhhhhhHHHHH
Q 048743          255 SLLSLHFKFDDIDAAGELILDMNRYREPLPNPKLRQDAQKPYLISIGSPNLRCGLKLQIMPELLEKDSILKMEGKQELVL  334 (653)
Q Consensus       255 ~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  334 (653)
                      .+...+.+.|+.++|.+.+++..+                                                        
T Consensus       151 ~~a~~~~~~G~~~~A~~~~~~al~--------------------------------------------------------  174 (280)
T PF13429_consen  151 ALAEIYEQLGDPDKALRDYRKALE--------------------------------------------------------  174 (280)
T ss_dssp             HHHHHHHHCCHHHHHHHHHHHHHH--------------------------------------------------------
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHH--------------------------------------------------------
Confidence            888899999999999999998842                                                        


Q ss_pred             HhcCCCCCC-HHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCC
Q 048743          335 FRNGKLLHS-NRAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPM  413 (653)
Q Consensus       335 ~~~~~~~p~-~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p  413 (653)
                           ..|+ ....+.++..+...|+.+++..+++...+..  +.+...+..+..+|...|+.++|+.+|++..... +.
T Consensus       175 -----~~P~~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~--~~~~~~~~~la~~~~~lg~~~~Al~~~~~~~~~~-p~  246 (280)
T PF13429_consen  175 -----LDPDDPDARNALAWLLIDMGDYDEAREALKRLLKAA--PDDPDLWDALAAAYLQLGRYEEALEYLEKALKLN-PD  246 (280)
T ss_dssp             -----H-TT-HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH---HTSCCHCHHHHHHHHHHT-HHHHHHHHHHHHHHS-TT
T ss_pred             -----cCCCCHHHHHHHHHHHHHCCChHHHHHHHHHHHHHC--cCHHHHHHHHHHHhcccccccccccccccccccc-cc
Confidence                 4465 5567888999999999999999999888876  6777778999999999999999999999988743 34


Q ss_pred             CHHHHHHHHHHHHHcCChHHHHHHHHHHHH
Q 048743          414 DSTTYKSLLTAYYKVKMFREAEALLKQMRK  443 (653)
Q Consensus       414 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  443 (653)
                      |+.....+.+++...|+.++|.++.++..+
T Consensus       247 d~~~~~~~a~~l~~~g~~~~A~~~~~~~~~  276 (280)
T PF13429_consen  247 DPLWLLAYADALEQAGRKDEALRLRRQALR  276 (280)
T ss_dssp             -HHHHHHHHHHHT-----------------
T ss_pred             cccccccccccccccccccccccccccccc
Confidence            888888999999999999999998876643

>KOG2003 consensus TPR repeat-containing protein [General function prediction only]

Probab=99.25  E-value=2.7e-08  Score=94.77  Aligned_cols=256  Identities=9%  Similarity=0.020  Sum_probs=174.7

Q ss_pred             HHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHH-H-cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCC
Q 048743          353 GYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALI-Q-LGFLEAAHDILDDMELAGHPMDSTTYKSLLTAYYKVKM  430 (653)
Q Consensus       353 ~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~-~-~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~  430 (653)
                      -+.++|+++.|.++++-+.+......... -+.|-..+. + -.++..|.+.-+...... +-+......--+.-..+|+
T Consensus       428 ~~lk~~d~~~aieilkv~~~kdnk~~saa-a~nl~~l~flqggk~~~~aqqyad~aln~d-ryn~~a~~nkgn~~f~ngd  505 (840)
T KOG2003|consen  428 ELLKNGDIEGAIEILKVFEKKDNKTASAA-ANNLCALRFLQGGKDFADAQQYADIALNID-RYNAAALTNKGNIAFANGD  505 (840)
T ss_pred             HHHhccCHHHHHHHHHHHHhccchhhHHH-hhhhHHHHHHhcccchhHHHHHHHHHhccc-ccCHHHhhcCCceeeecCc
Confidence            46789999999999999988774443333 333322222 2 235666766665544321 1122222222223345689


Q ss_pred             hHHHHHHHHHHHHcCCccCchhhHHHHhhHHHHhhhcccccccccccCCHHHHHHHHHHHHHccCCCCHHHHHHHHHHHH
Q 048743          431 FREAEALLKQMRKSCLVQNLSCEMVVSERFSEVADKSASFTDTSSLMDKSDLAESLIQEMREEAALSTIYKLNSSIYFFC  510 (653)
Q Consensus       431 ~~~a~~~~~~m~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~y~~li~~~~  510 (653)
                      +++|.+.+++....    |.+.+-.+...=+           .+-..|++++|+..|-++..--. -++.+.-.+...|-
T Consensus       506 ~dka~~~ykeal~n----dasc~ealfnigl-----------t~e~~~~ldeald~f~klh~il~-nn~evl~qianiye  569 (840)
T KOG2003|consen  506 LDKAAEFYKEALNN----DASCTEALFNIGL-----------TAEALGNLDEALDCFLKLHAILL-NNAEVLVQIANIYE  569 (840)
T ss_pred             HHHHHHHHHHHHcC----chHHHHHHHHhcc-----------cHHHhcCHHHHHHHHHHHHHHHH-hhHHHHHHHHHHHH
Confidence            99999999988764    2222222211111           13358999999999977664211 26667777888888


Q ss_pred             cCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHHhhhCCCccCHHHHHHHHHHHHhCCCHH
Q 048743          511 KGKMIGDALKIYRRMQEMKIRPTVETFYYLVYGHSSLEMYRDITILWGDIKRNIESGVLAVSRDLYETLLLNFLQGGYFE  590 (653)
Q Consensus       511 ~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~p~~~~y~~li~~~~~~g~~~  590 (653)
                      ...+..+|++++-+.... ++-|.....-|...|-+.|+-..|.+.+-+-.+     -++-+..+...|..-|.....++
T Consensus       570 ~led~aqaie~~~q~~sl-ip~dp~ilskl~dlydqegdksqafq~~ydsyr-----yfp~nie~iewl~ayyidtqf~e  643 (840)
T KOG2003|consen  570 LLEDPAQAIELLMQANSL-IPNDPAILSKLADLYDQEGDKSQAFQCHYDSYR-----YFPCNIETIEWLAAYYIDTQFSE  643 (840)
T ss_pred             HhhCHHHHHHHHHHhccc-CCCCHHHHHHHHHHhhcccchhhhhhhhhhccc-----ccCcchHHHHHHHHHHHhhHHHH
Confidence            899999999998765432 444677888999999999999999887754332     35668889998998899999999


Q ss_pred             HHHHHHHHHHhCCCCCCHHhHHHHH---HHhhhhhHHhhhhhHHHHH
Q 048743          591 RVMEVIGYMKKQNMYVDKLMYKSEF---LKHHKHLYRRLKVSNARTE  634 (653)
Q Consensus       591 ~a~~~~~~m~~~g~~p~~~t~~~l~---~~~~~~~~~~~~~~~~~~~  634 (653)
                      +++.+|++.-  =+.|+..-|-.++   .+..|+..++..+...+.-
T Consensus       644 kai~y~ekaa--liqp~~~kwqlmiasc~rrsgnyqka~d~yk~~hr  688 (840)
T KOG2003|consen  644 KAINYFEKAA--LIQPNQSKWQLMIASCFRRSGNYQKAFDLYKDIHR  688 (840)
T ss_pred             HHHHHHHHHH--hcCccHHHHHHHHHHHHHhcccHHHHHHHHHHHHH
Confidence            9999999764  5789999999988   3456788888877776654

>COG2956 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]

Probab=99.22  E-value=4.8e-08  Score=89.48  Aligned_cols=298  Identities=12%  Similarity=0.025  Sum_probs=170.7

Q ss_pred             hcCChhhHHHHHHHHHhcCCCccHH-HHHHHHHHHHhcCChhhhHHHHHHhhhcCCCcccchhHHHHHHHHhhhccCCHH
Q 048743          189 RFGSSLKGQHIMELMSQTGVVADAH-SIIILAQIHEMNCQRDELKKFKCYIDQLSTPFAHHYQQFYESLLSLHFKFDDID  267 (653)
Q Consensus       189 ~~g~~~~a~~l~~~m~~~g~~p~~~-t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~  267 (653)
                      -+.+.++|.++|-+|.+.  .|..+ +..+|-+.|.+.|..|.|.+++..+...++.....-....-.|-.=|...|-+|
T Consensus        47 Ls~Q~dKAvdlF~e~l~~--d~~t~e~~ltLGnLfRsRGEvDRAIRiHQ~L~~spdlT~~qr~lAl~qL~~Dym~aGl~D  124 (389)
T COG2956          47 LSNQPDKAVDLFLEMLQE--DPETFEAHLTLGNLFRSRGEVDRAIRIHQTLLESPDLTFEQRLLALQQLGRDYMAAGLLD  124 (389)
T ss_pred             hhcCcchHHHHHHHHHhc--CchhhHHHHHHHHHHHhcchHHHHHHHHHHHhcCCCCchHHHHHHHHHHHHHHHHhhhhh
Confidence            367899999999999974  33332 345788888899999999999988877554332222223334445555566666


Q ss_pred             HHHHHHHHhcccCCCCCCchhhhcccccchhccCCCcccchhhhccchhhhHHHHHHhhhhhHHHHHHhcCCCCCCHHHH
Q 048743          268 AAGELILDMNRYREPLPNPKLRQDAQKPYLISIGSPNLRCGLKLQIMPELLEKDSILKMEGKQELVLFRNGKLLHSNRAM  347 (653)
Q Consensus       268 ~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~  347 (653)
                      .|+.+|..+.+....                                                            -....
T Consensus       125 RAE~~f~~L~de~ef------------------------------------------------------------a~~Al  144 (389)
T COG2956         125 RAEDIFNQLVDEGEF------------------------------------------------------------AEGAL  144 (389)
T ss_pred             HHHHHHHHHhcchhh------------------------------------------------------------hHHHH
Confidence            666666655210100                                                            01122


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHH
Q 048743          348 AKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTYKSLLTAYYK  427 (653)
Q Consensus       348 ~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~  427 (653)
                      -.|+..|-...+|++|++.-+++.+.++.+.     +.-|                           ...|.-|...+..
T Consensus       145 qqLl~IYQ~treW~KAId~A~~L~k~~~q~~-----~~eI---------------------------AqfyCELAq~~~~  192 (389)
T COG2956         145 QQLLNIYQATREWEKAIDVAERLVKLGGQTY-----RVEI---------------------------AQFYCELAQQALA  192 (389)
T ss_pred             HHHHHHHHHhhHHHHHHHHHHHHHHcCCccc-----hhHH---------------------------HHHHHHHHHHHhh
Confidence            3455555566666666666555555442111     1111                           0122233333334


Q ss_pred             cCChHHHHHHHHHHHHcCCccCc-hhhHHHHhhHHHHhhhcccccccccccCCHHHHHHHHHHHHHccCCCCHHHHHHHH
Q 048743          428 VKMFREAEALLKQMRKSCLVQNL-SCEMVVSERFSEVADKSASFTDTSSLMDKSDLAESLIQEMREEAALSTIYKLNSSI  506 (653)
Q Consensus       428 ~~~~~~a~~~~~~m~~~~~~p~~-~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~y~~li  506 (653)
                      ..+.+.|..++.+..+.  .|.. ..+++..              +.+...|++..|.+.++...+.+..--..+...|.
T Consensus       193 ~~~~d~A~~~l~kAlqa--~~~cvRAsi~lG--------------~v~~~~g~y~~AV~~~e~v~eQn~~yl~evl~~L~  256 (389)
T COG2956         193 SSDVDRARELLKKALQA--DKKCVRASIILG--------------RVELAKGDYQKAVEALERVLEQNPEYLSEVLEMLY  256 (389)
T ss_pred             hhhHHHHHHHHHHHHhh--Cccceehhhhhh--------------HHHHhccchHHHHHHHHHHHHhChHHHHHHHHHHH
Confidence            44445555555444432  1222 1112211              11222455555555555555544322345667899


Q ss_pred             HHHHcCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHHhhhCCCccCHHHHHHHHHHHHh-
Q 048743          507 YFFCKGKMIGDALKIYRRMQEMKIRPTVETFYYLVYGHSSLEMYRDITILWGDIKRNIESGVLAVSRDLYETLLLNFLQ-  585 (653)
Q Consensus       507 ~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~p~~~~y~~li~~~~~-  585 (653)
                      .+|...|+.++.+..+..+.+....++..  ..+-+--....-.+.|..++.+-.      .-+|+...+..+|+.-.. 
T Consensus       257 ~~Y~~lg~~~~~~~fL~~~~~~~~g~~~~--l~l~~lie~~~G~~~Aq~~l~~Ql------~r~Pt~~gf~rl~~~~l~d  328 (389)
T COG2956         257 ECYAQLGKPAEGLNFLRRAMETNTGADAE--LMLADLIELQEGIDAAQAYLTRQL------RRKPTMRGFHRLMDYHLAD  328 (389)
T ss_pred             HHHHHhCCHHHHHHHHHHHHHccCCccHH--HHHHHHHHHhhChHHHHHHHHHHH------hhCCcHHHHHHHHHhhhcc
Confidence            99999999999999999998864444433  333343344445666666665443      457999999999987553 


Q ss_pred             --CCCHHHHHHHHHHHHhCCC
Q 048743          586 --GGYFERVMEVIGYMKKQNM  604 (653)
Q Consensus       586 --~g~~~~a~~~~~~m~~~g~  604 (653)
                        -|..++-..++..|....+
T Consensus       329 aeeg~~k~sL~~lr~mvge~l  349 (389)
T COG2956         329 AEEGRAKESLDLLRDMVGEQL  349 (389)
T ss_pred             ccccchhhhHHHHHHHHHHHH
Confidence              3557778888888875543

>KOG1915 consensus Cell cycle control protein (crooked neck) [Cell cycle control, cell division, chromosome partitioning]

Probab=99.21  E-value=1.3e-06  Score=84.30  Aligned_cols=439  Identities=9%  Similarity=-0.003  Sum_probs=294.7

Q ss_pred             hhhHHHHHHHHHhccCCchhHHHHHHHHHHHHhcCCCchHHHHHHHHHcCccCCCchhHHHHHHHHhhcccccccchHHH
Q 048743           73 LQKACDLVLKIQKGKADLLQLDLLAKLSLSLARAQMPVPASMILRLMLGRENLPCSDLLLLVFVHMVKTEIGTCLASNFL  152 (653)
Q Consensus        73 ~~~a~~~~~~~~~~~~~~~~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~~~~l  152 (653)
                      +.+|..+|++.....  ..+...|-..+.+=.++..+..|..++++....-...|.                   .+--.
T Consensus        89 ~~RARSv~ERALdvd--~r~itLWlkYae~Emknk~vNhARNv~dRAvt~lPRVdq-------------------lWyKY  147 (677)
T KOG1915|consen   89 IQRARSVFERALDVD--YRNITLWLKYAEFEMKNKQVNHARNVWDRAVTILPRVDQ-------------------LWYKY  147 (677)
T ss_pred             HHHHHHHHHHHHhcc--cccchHHHHHHHHHHhhhhHhHHHHHHHHHHHhcchHHH-------------------HHHHH
Confidence            677888888765432  235556666777778888888888888887654222121                   11223


Q ss_pred             HHHHHHhhhhhhhhcCCccC--CCCchhhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCccHHHHHHHHHHHHhcCChhh
Q 048743          153 IQLCDVFLHLSAEKSNGAEL--IKPDTMIFNLVLHACVRFGSSLKGQHIMELMSQTGVVADAHSIIILAQIHEMNCQRDE  230 (653)
Q Consensus       153 ~~~~~~~~~~~~a~~~~~~~--~~~~~~~yn~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~  230 (653)
                      +-+....|++..|+++|++-  ..|+..+|++.|+-=.+-+.++.|..+|+...-  +.|+..+|.-...--.+.|....
T Consensus       148 ~ymEE~LgNi~gaRqiferW~~w~P~eqaW~sfI~fElRykeieraR~IYerfV~--~HP~v~~wikyarFE~k~g~~~~  225 (677)
T KOG1915|consen  148 IYMEEMLGNIAGARQIFERWMEWEPDEQAWLSFIKFELRYKEIERARSIYERFVL--VHPKVSNWIKYARFEEKHGNVAL  225 (677)
T ss_pred             HHHHHHhcccHHHHHHHHHHHcCCCcHHHHHHHHHHHHHhhHHHHHHHHHHHHhe--ecccHHHHHHHHHHHHhcCcHHH
Confidence            45556677889999999844  589999999999999999999999999999886  46999999988888888999999


Q ss_pred             hHHHHHHhhhcCCCcccchhHHHHHHHHhhhccCCHHHHHHHHHHhcccCCCCCCchhhhcccccchhccCCCcccchhh
Q 048743          231 LKKFKCYIDQLSTPFAHHYQQFYESLLSLHFKFDDIDAAGELILDMNRYREPLPNPKLRQDAQKPYLISIGSPNLRCGLK  310 (653)
Q Consensus       231 a~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  310 (653)
                      +.+++......-..+ .....++.+...-=.++..++.|.-+|+-...   ..|.+                        
T Consensus       226 aR~VyerAie~~~~d-~~~e~lfvaFA~fEe~qkE~ERar~iykyAld---~~pk~------------------------  277 (677)
T KOG1915|consen  226 ARSVYERAIEFLGDD-EEAEILFVAFAEFEERQKEYERARFIYKYALD---HIPKG------------------------  277 (677)
T ss_pred             HHHHHHHHHHHhhhH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---hcCcc------------------------
Confidence            999988776542111 11112233332222344555666555544311   00000                        


Q ss_pred             hccchhhhHHHHHHhhhhhHHHHHHhcCCCCCCHHHHHHHHHHHHhcCC---hHHHHHH-----HHHHHhcCCCCCCccc
Q 048743          311 LQIMPELLEKDSILKMEGKQELVLFRNGKLLHSNRAMAKLINGYKKHGK---NSELSWL-----LLSIKKEHHSFGESTL  382 (653)
Q Consensus       311 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~li~~~~~~~~---~~~a~~~-----~~~m~~~~~~~~~~~~  382 (653)
                                                     -....|.....-=-+-|+   .+.++--     ++.+.+.+  |.|-.+
T Consensus       278 -------------------------------raeeL~k~~~~fEKqfGd~~gIEd~Iv~KRk~qYE~~v~~n--p~nYDs  324 (677)
T KOG1915|consen  278 -------------------------------RAEELYKKYTAFEKQFGDKEGIEDAIVGKRKFQYEKEVSKN--PYNYDS  324 (677)
T ss_pred             -------------------------------cHHHHHHHHHHHHHHhcchhhhHHHHhhhhhhHHHHHHHhC--CCCchH
Confidence                                           001122222222223333   3333322     55666666  777777


Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHH--HHHHHH--------HHHHHcCChHHHHHHHHHHHHcCCccCchh
Q 048743          383 CSDVIDALIQLGFLEAAHDILDDMELAGHPMDST--TYKSLL--------TAYYKVKMFREAEALLKQMRKSCLVQNLSC  452 (653)
Q Consensus       383 ~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~--~~~~li--------~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~  452 (653)
                      |-..++.-...|+.+...++|++.... ++|-..  .|...|        -.-....+++.+.++|+...+  +.|...+
T Consensus       325 WfdylrL~e~~g~~~~Ire~yErAIan-vpp~~ekr~W~RYIYLWinYalyeEle~ed~ertr~vyq~~l~--lIPHkkF  401 (677)
T KOG1915|consen  325 WFDYLRLEESVGDKDRIRETYERAIAN-VPPASEKRYWRRYIYLWINYALYEELEAEDVERTRQVYQACLD--LIPHKKF  401 (677)
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHcc-CCchhHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHh--hcCcccc
Confidence            888888888899999999999998864 555321  222222        122355788999999999988  6777644


Q ss_pred             hHHHHhhHHHHhhhcccccccccccCCHHHHHHHHHHHHHccCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCC
Q 048743          453 EMVVSERFSEVADKSASFTDTSSLMDKSDLAESLIQEMREEAALSTIYKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRP  532 (653)
Q Consensus       453 ~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p  532 (653)
                      +..-..++.+..         -.+..++..|.+++-...  |..|-..+|...|..=.+.+.++.+..++++.++.+. -
T Consensus       402 tFaKiWlmyA~f---------eIRq~~l~~ARkiLG~AI--G~cPK~KlFk~YIelElqL~efDRcRkLYEkfle~~P-e  469 (677)
T KOG1915|consen  402 TFAKIWLMYAQF---------EIRQLNLTGARKILGNAI--GKCPKDKLFKGYIELELQLREFDRCRKLYEKFLEFSP-E  469 (677)
T ss_pred             hHHHHHHHHHHH---------HHHHcccHHHHHHHHHHh--ccCCchhHHHHHHHHHHHHhhHHHHHHHHHHHHhcCh-H
Confidence            443333333322         235778899999887654  4558888999999999999999999999999998642 2


Q ss_pred             CHHHHHHHHHHHhccCCHHHHHHHHHHHHHHhhhCCCccCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCCHHhHH
Q 048743          533 TVETFYYLVYGHSSLEMYRDITILWGDIKRNIESGVLAVSRDLYETLLLNFLQGGYFERVMEVIGYMKKQNMYVDKLMYK  612 (653)
Q Consensus       533 ~~~t~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~  612 (653)
                      |-.+|.....-=...|+.+.|..+|....+   ...+..-...|.+.|+-=...|.+++|..+++.+.+..  +-...|-
T Consensus       470 ~c~~W~kyaElE~~LgdtdRaRaifelAi~---qp~ldmpellwkaYIdFEi~~~E~ekaR~LYerlL~rt--~h~kvWi  544 (677)
T KOG1915|consen  470 NCYAWSKYAELETSLGDTDRARAIFELAIS---QPALDMPELLWKAYIDFEIEEGEFEKARALYERLLDRT--QHVKVWI  544 (677)
T ss_pred             hhHHHHHHHHHHHHhhhHHHHHHHHHHHhc---CcccccHHHHHHHhhhhhhhcchHHHHHHHHHHHHHhc--ccchHHH
Confidence            566777777777788999999999988762   22333345567777777778999999999999998663  2233454


Q ss_pred             HHH
Q 048743          613 SEF  615 (653)
Q Consensus       613 ~l~  615 (653)
                      +..
T Consensus       545 sFA  547 (677)
T KOG1915|consen  545 SFA  547 (677)
T ss_pred             hHH
Confidence            444

>COG3071 HemY Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]

Probab=99.20  E-value=7e-08  Score=91.25  Aligned_cols=235  Identities=12%  Similarity=-0.029  Sum_probs=168.5

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCH-------
Q 048743          343 SNRAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDS-------  415 (653)
Q Consensus       343 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~-------  415 (653)
                      +...+-+........|+...|..-+.++.+.+  |.++.+......+|.+.|++.....++..|.+.|.--|.       
T Consensus       152 ~l~v~ltrarlll~~~d~~aA~~~v~~ll~~~--pr~~~vlrLa~r~y~~~g~~~~ll~~l~~L~ka~~l~~~e~~~le~  229 (400)
T COG3071         152 TLAVELTRARLLLNRRDYPAARENVDQLLEMT--PRHPEVLRLALRAYIRLGAWQALLAILPKLRKAGLLSDEEAARLEQ  229 (400)
T ss_pred             hHHHHHHHHHHHHhCCCchhHHHHHHHHHHhC--cCChHHHHHHHHHHHHhccHHHHHHHHHHHHHccCCChHHHHHHHH
Confidence            33445566667778888888888888888887  777777888899999999999999999999888876554       


Q ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHHc-CCccCchhhHHHHhhHHHHhhhcccccccccccCCHHHHHHHHHHHHHcc
Q 048743          416 TTYKSLLTAYYKVKMFREAEALLKQMRKS-CLVQNLSCEMVVSERFSEVADKSASFTDTSSLMDKSDLAESLIQEMREEA  494 (653)
Q Consensus       416 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~-~~~p~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~~  494 (653)
                      .+|..+++-....+..+.-...++..... .-.|.....++.     .           +..+|+.+.|.++..+-.+.+
T Consensus       230 ~a~~glL~q~~~~~~~~gL~~~W~~~pr~lr~~p~l~~~~a~-----~-----------li~l~~~~~A~~~i~~~Lk~~  293 (400)
T COG3071         230 QAWEGLLQQARDDNGSEGLKTWWKNQPRKLRNDPELVVAYAE-----R-----------LIRLGDHDEAQEIIEDALKRQ  293 (400)
T ss_pred             HHHHHHHHHHhccccchHHHHHHHhccHHhhcChhHHHHHHH-----H-----------HHHcCChHHHHHHHHHHHHhc
Confidence            36666666666656555555555555432 122332222221     1           334889999999998888887


Q ss_pred             CCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHh-cCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHHhhhCCCccCH
Q 048743          495 ALSTIYKLNSSIYFFCKGKMIGDALKIYRRMQE-MKIRPTVETFYYLVYGHSSLEMYRDITILWGDIKRNIESGVLAVSR  573 (653)
Q Consensus       495 ~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~-~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~p~~  573 (653)
                      -.|+..    ..-.+.+-++.+.-++..+.... .+..|  ..+..|-.-|.+.+.|.+|..+|+...      ...|+.
T Consensus       294 ~D~~L~----~~~~~l~~~d~~~l~k~~e~~l~~h~~~p--~L~~tLG~L~~k~~~w~kA~~~leaAl------~~~~s~  361 (400)
T COG3071         294 WDPRLC----RLIPRLRPGDPEPLIKAAEKWLKQHPEDP--LLLSTLGRLALKNKLWGKASEALEAAL------KLRPSA  361 (400)
T ss_pred             cChhHH----HHHhhcCCCCchHHHHHHHHHHHhCCCCh--hHHHHHHHHHHHhhHHHHHHHHHHHHH------hcCCCh
Confidence            766522    22344567777777777776654 44444  667788889999999999999998665      678999


Q ss_pred             HHHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCC
Q 048743          574 DLYETLLLNFLQGGYFERVMEVIGYMKKQNMYVD  607 (653)
Q Consensus       574 ~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~  607 (653)
                      .+|+.+.+++.+.|+.++|.++.++-.-.-.+|+
T Consensus       362 ~~~~~la~~~~~~g~~~~A~~~r~e~L~~~~~~~  395 (400)
T COG3071         362 SDYAELADALDQLGEPEEAEQVRREALLLTRQPN  395 (400)
T ss_pred             hhHHHHHHHHHHcCChHHHHHHHHHHHHHhcCCC
Confidence            9999999999999999999999888764434443

>KOG1126 consensus DNA-binding cell division cycle control protein [Cell cycle control, cell division, chromosome partitioning]

Probab=99.20  E-value=9.2e-09  Score=103.26  Aligned_cols=279  Identities=12%  Similarity=0.043  Sum_probs=179.8

Q ss_pred             ChhhHHHHHHHHHhcCCCccH-HHHHHHHHHHHhcCChhhhHHHHHHhhhcCCCcccchhHHHHHHHHhhhccCCHH-HH
Q 048743          192 SSLKGQHIMELMSQTGVVADA-HSIIILAQIHEMNCQRDELKKFKCYIDQLSTPFAHHYQQFYESLLSLHFKFDDID-AA  269 (653)
Q Consensus       192 ~~~~a~~l~~~m~~~g~~p~~-~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~-~A  269 (653)
                      +..+|..+|....+.  .+|. .....+..+|-+.++.++++++|+.+.+.. |....+..+|.+.+.-+-+.-.+. -|
T Consensus       334 ~~~~A~~~~~klp~h--~~nt~wvl~q~GrayFEl~~Y~~a~~~F~~~r~~~-p~rv~~meiyST~LWHLq~~v~Ls~La  410 (638)
T KOG1126|consen  334 NCREALNLFEKLPSH--HYNTGWVLSQLGRAYFELIEYDQAERIFSLVRRIE-PYRVKGMEIYSTTLWHLQDEVALSYLA  410 (638)
T ss_pred             HHHHHHHHHHhhHHh--cCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc-cccccchhHHHHHHHHHHhhHHHHHHH
Confidence            456777777774443  3343 334467777778888888888888777654 223334445666655432211100 11


Q ss_pred             HHHHHHhcccCCCCCCchhhhcccccchhccCCCcccchhhhccchhhhHHHHHHhhhhhHHHHHHhcCCCCCCHHHHHH
Q 048743          270 GELILDMNRYREPLPNPKLRQDAQKPYLISIGSPNLRCGLKLQIMPELLEKDSILKMEGKQELVLFRNGKLLHSNRAMAK  349 (653)
Q Consensus       270 ~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~  349 (653)
                      ..+.+.                                                                -+-++.+|..
T Consensus       411 q~Li~~----------------------------------------------------------------~~~sPesWca  426 (638)
T KOG1126|consen  411 QDLIDT----------------------------------------------------------------DPNSPESWCA  426 (638)
T ss_pred             HHHHhh----------------------------------------------------------------CCCCcHHHHH
Confidence            111111                                                                1234568999


Q ss_pred             HHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHH---HHHHHH
Q 048743          350 LINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTYKS---LLTAYY  426 (653)
Q Consensus       350 li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~---li~~~~  426 (653)
                      +-++|.-+++.+.|++.|++..+-+  |....+|+.+-.-+.....+|.|...|+....    .|+..||+   |--.|.
T Consensus       427 ~GNcfSLQkdh~~Aik~f~RAiQld--p~faYayTLlGhE~~~~ee~d~a~~~fr~Al~----~~~rhYnAwYGlG~vy~  500 (638)
T KOG1126|consen  427 LGNCFSLQKDHDTAIKCFKRAIQLD--PRFAYAYTLLGHESIATEEFDKAMKSFRKALG----VDPRHYNAWYGLGTVYL  500 (638)
T ss_pred             hcchhhhhhHHHHHHHHHHHhhccC--CccchhhhhcCChhhhhHHHHhHHHHHHhhhc----CCchhhHHHHhhhhhee
Confidence            9999999999999999999998877  77778899888888899999999999987665    46666665   556788


Q ss_pred             HcCChHHHHHHHHHHHHcCCccCchhhHHHHhhHHHHhhhcccccccccccCCHHHHHHHHHHHHHccCCCCHHHHHHHH
Q 048743          427 KVKMFREAEALLKQMRKSCLVQNLSCEMVVSERFSEVADKSASFTDTSSLMDKSDLAESLIQEMREEAALSTIYKLNSSI  506 (653)
Q Consensus       427 ~~~~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~y~~li  506 (653)
                      +.++++.|+-.|+...+  +.|...  .++. ++...          +-+.|+.++|++++++....+-+ |+..---.+
T Consensus       501 Kqek~e~Ae~~fqkA~~--INP~ns--vi~~-~~g~~----------~~~~k~~d~AL~~~~~A~~ld~k-n~l~~~~~~  564 (638)
T KOG1126|consen  501 KQEKLEFAEFHFQKAVE--INPSNS--VILC-HIGRI----------QHQLKRKDKALQLYEKAIHLDPK-NPLCKYHRA  564 (638)
T ss_pred             ccchhhHHHHHHHhhhc--CCccch--hHHh-hhhHH----------HHHhhhhhHHHHHHHHHHhcCCC-CchhHHHHH
Confidence            99999999999988866  556532  2221 11111          22366777777777776654421 333333344


Q ss_pred             HHHHcCCCHHHHHHHHHHHHhcCCCCCH-HHHHHHHHHHhccCCHHHHHHHHHHHH
Q 048743          507 YFFCKGKMIGDALKIYRRMQEMKIRPTV-ETFYYLVYGHSSLEMYRDITILWGDIK  561 (653)
Q Consensus       507 ~~~~~~g~~~~a~~~~~~m~~~g~~p~~-~t~~~li~~~~~~~~~~~a~~~~~~~~  561 (653)
                      ..+...+++++|+..++++++.  .|+. ..|..+...|.+.|+.+.|+.-|..+.
T Consensus       565 ~il~~~~~~~eal~~LEeLk~~--vP~es~v~~llgki~k~~~~~~~Al~~f~~A~  618 (638)
T KOG1126|consen  565 SILFSLGRYVEALQELEELKEL--VPQESSVFALLGKIYKRLGNTDLALLHFSWAL  618 (638)
T ss_pred             HHHHhhcchHHHHHHHHHHHHh--CcchHHHHHHHHHHHHHHccchHHHHhhHHHh
Confidence            4455567777777777777663  4443 445566667777777777777666654

>COG2956 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]

Probab=99.18  E-value=2.4e-07  Score=85.03  Aligned_cols=293  Identities=12%  Similarity=0.074  Sum_probs=194.3

Q ss_pred             hhhHHHHHHHHHhccCCchhHHHHHHHHHHHHhcCCCchHHHHHHHHHcCccCCCchhHHHHHHHHhhcccccccchHHH
Q 048743           73 LQKACDLVLKIQKGKADLLQLDLLAKLSLSLARAQMPVPASMILRLMLGRENLPCSDLLLLVFVHMVKTEIGTCLASNFL  152 (653)
Q Consensus        73 ~~~a~~~~~~~~~~~~~~~~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~~~~l  152 (653)
                      .++|.++|.+|.+..+.  +.++.-+|-+.|-+.|.++.|+++.+.+.++   ||.. +..                   
T Consensus        51 ~dKAvdlF~e~l~~d~~--t~e~~ltLGnLfRsRGEvDRAIRiHQ~L~~s---pdlT-~~q-------------------  105 (389)
T COG2956          51 PDKAVDLFLEMLQEDPE--TFEAHLTLGNLFRSRGEVDRAIRIHQTLLES---PDLT-FEQ-------------------  105 (389)
T ss_pred             cchHHHHHHHHHhcCch--hhHHHHHHHHHHHhcchHHHHHHHHHHHhcC---CCCc-hHH-------------------
Confidence            47899999999876543  6777788888999999999999999888764   3321 110                   


Q ss_pred             HHHHHHhhhhhhhhcCCccCCCCchhhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCccHHHHHHHHHHHHhcCChhhhH
Q 048743          153 IQLCDVFLHLSAEKSNGAELIKPDTMIFNLVLHACVRFGSSLKGQHIMELMSQTGVVADAHSIIILAQIHEMNCQRDELK  232 (653)
Q Consensus       153 ~~~~~~~~~~~~a~~~~~~~~~~~~~~yn~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~  232 (653)
                                             -...--.|-+-|...|-++.|+++|..+.+.|.. -...                  
T Consensus       106 -----------------------r~lAl~qL~~Dym~aGl~DRAE~~f~~L~de~ef-a~~A------------------  143 (389)
T COG2956         106 -----------------------RLLALQQLGRDYMAAGLLDRAEDIFNQLVDEGEF-AEGA------------------  143 (389)
T ss_pred             -----------------------HHHHHHHHHHHHHHhhhhhHHHHHHHHHhcchhh-hHHH------------------
Confidence                                   0112234566688899999999999998875421 1111                  


Q ss_pred             HHHHHhhhcCCCcccchhHHHHHHHHhhhccCCHHHHHHHHHHhcccCCCCCCchhhhcccccchhccCCCcccchhhhc
Q 048743          233 KFKCYIDQLSTPFAHHYQQFYESLLSLHFKFDDIDAAGELILDMNRYREPLPNPKLRQDAQKPYLISIGSPNLRCGLKLQ  312 (653)
Q Consensus       233 ~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  312 (653)
                                          ..-|+..|-...+|++|.++-+++.+..+ .+                            
T Consensus       144 --------------------lqqLl~IYQ~treW~KAId~A~~L~k~~~-q~----------------------------  174 (389)
T COG2956         144 --------------------LQQLLNIYQATREWEKAIDVAERLVKLGG-QT----------------------------  174 (389)
T ss_pred             --------------------HHHHHHHHHHhhHHHHHHHHHHHHHHcCC-cc----------------------------
Confidence                                23445555555566666665555521000 00                            


Q ss_pred             cchhhhHHHHHHhhhhhHHHHHHhcCCCCCCH-HHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHH
Q 048743          313 IMPELLEKDSILKMEGKQELVLFRNGKLLHSN-RAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALI  391 (653)
Q Consensus       313 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~-~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~  391 (653)
                                                 ..... .-|.-|-..+.-..+++.|..++.+..+.+  +.....--.+-+.+.
T Consensus       175 ---------------------------~~~eIAqfyCELAq~~~~~~~~d~A~~~l~kAlqa~--~~cvRAsi~lG~v~~  225 (389)
T COG2956         175 ---------------------------YRVEIAQFYCELAQQALASSDVDRARELLKKALQAD--KKCVRASIILGRVEL  225 (389)
T ss_pred             ---------------------------chhHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHhhC--ccceehhhhhhHHHH
Confidence                                       00001 124555666667788899999999888877  555554455667788


Q ss_pred             HcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCccCchhhHHHHhhHHHHhhhccccc
Q 048743          392 QLGFLEAAHDILDDMELAGHPMDSTTYKSLLTAYYKVKMFREAEALLKQMRKSCLVQNLSCEMVVSERFSEVADKSASFT  471 (653)
Q Consensus       392 ~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~  471 (653)
                      ..|+++.|.+.++...+.+..--..+...|..+|.+.|++++.+..+..+.+....++.  ..++.-.+..         
T Consensus       226 ~~g~y~~AV~~~e~v~eQn~~yl~evl~~L~~~Y~~lg~~~~~~~fL~~~~~~~~g~~~--~l~l~~lie~---------  294 (389)
T COG2956         226 AKGDYQKAVEALERVLEQNPEYLSEVLEMLYECYAQLGKPAEGLNFLRRAMETNTGADA--ELMLADLIEL---------  294 (389)
T ss_pred             hccchHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHccCCccH--HHHHHHHHHH---------
Confidence            88999999999999988865445567888999999999999999999999886554543  1222111111         


Q ss_pred             ccccccCCHHHHHHHHHHHHHccCCCCHHHHHHHHHHHHc---CCCHHHHHHHHHHHHhc
Q 048743          472 DTSSLMDKSDLAESLIQEMREEAALSTIYKLNSSIYFFCK---GKMIGDALKIYRRMQEM  528 (653)
Q Consensus       472 ~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~y~~li~~~~~---~g~~~~a~~~~~~m~~~  528 (653)
                           ....+.|...+.+-..+.  |+...+..+|+.-..   .|...+-+.+++.|...
T Consensus       295 -----~~G~~~Aq~~l~~Ql~r~--Pt~~gf~rl~~~~l~daeeg~~k~sL~~lr~mvge  347 (389)
T COG2956         295 -----QEGIDAAQAYLTRQLRRK--PTMRGFHRLMDYHLADAEEGRAKESLDLLRDMVGE  347 (389)
T ss_pred             -----hhChHHHHHHHHHHHhhC--CcHHHHHHHHHhhhccccccchhhhHHHHHHHHHH
Confidence                 344566666665555443  889889999886653   34566777778888754

>KOG1126 consensus DNA-binding cell division cycle control protein [Cell cycle control, cell division, chromosome partitioning]

Probab=99.14  E-value=2.1e-08  Score=100.79  Aligned_cols=50  Identities=10%  Similarity=-0.013  Sum_probs=25.9

Q ss_pred             cCCHHHHHHHHHHHHHccCCC-CHHHHHHHHHHHHcCCCHHHHHHHHHHHHhc
Q 048743          477 MDKSDLAESLIQEMREEAALS-TIYKLNSSIYFFCKGKMIGDALKIYRRMQEM  528 (653)
Q Consensus       477 ~~~~~~a~~~~~~m~~~~~~p-~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~  528 (653)
                      .++.++|...|+++.+.-  | +...|-.+...|-+.|+.+.|+.-|.-+.+.
T Consensus       570 ~~~~~eal~~LEeLk~~v--P~es~v~~llgki~k~~~~~~~Al~~f~~A~~l  620 (638)
T KOG1126|consen  570 LGRYVEALQELEELKELV--PQESSVFALLGKIYKRLGNTDLALLHFSWALDL  620 (638)
T ss_pred             hcchHHHHHHHHHHHHhC--cchHHHHHHHHHHHHHHccchHHHHhhHHHhcC
Confidence            344444444444444321  3 4444555666666666666666666555543

>KOG2047 consensus mRNA splicing factor [RNA processing and modification]

Probab=99.14  E-value=1.2e-05  Score=80.71  Aligned_cols=504  Identities=11%  Similarity=0.018  Sum_probs=295.8

Q ss_pred             hHHHHHHHHHHHHhccchhHHHHHHHHhhhhc------CCCCchhHHHHHHHhhccCCcchhhhHHHHHHHHHhccCCch
Q 048743           18 SREVLLRKLESASKNHQVGEAWETFNDFQRLH------GIPERHVVNRFITDLCYSAEPHWLQKACDLVLKIQKGKADLL   91 (653)
Q Consensus        18 ~~~~~~~~i~~~~~~~~~~~A~~~~~~~~~~~------~~~~~~~~~~ll~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~   91 (653)
                      +++..+..|..+++.+++++|.+.+.......      +..+...|..+-+.+++..+...--..-.++....   +.-+
T Consensus       168 ~P~~~eeyie~L~~~d~~~eaa~~la~vln~d~f~sk~gkSn~qlw~elcdlis~~p~~~~slnvdaiiR~gi---~rft  244 (835)
T KOG2047|consen  168 APEAREEYIEYLAKSDRLDEAAQRLATVLNQDEFVSKKGKSNHQLWLELCDLISQNPDKVQSLNVDAIIRGGI---RRFT  244 (835)
T ss_pred             CHHHHHHHHHHHHhccchHHHHHHHHHhcCchhhhhhcccchhhHHHHHHHHHHhCcchhcccCHHHHHHhhc---ccCc
Confidence            34456677888889999999999888876532      22333466666666655543211112222332222   1223


Q ss_pred             h--HHHHHHHHHHHHhcCCCchHHHHHHHHHcCccCCCchhHHHHHHHHhhcccccccchHHHHHHHH-Hhh------hh
Q 048743           92 Q--LDLLAKLSLSLARAQMPVPASMILRLMLGRENLPCSDLLLLVFVHMVKTEIGTCLASNFLIQLCD-VFL------HL  162 (653)
Q Consensus        92 ~--~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~~~~l~~~~~-~~~------~~  162 (653)
                      |  ...|.+|...|.+.|.+++|..+|++-...  .-+...|+.+...++.-....   ....+++.. ..+      ++
T Consensus       245 Dq~g~Lw~SLAdYYIr~g~~ekarDvyeeai~~--v~tvrDFt~ifd~Ya~FEE~~---~~~~me~a~~~~~n~ed~~dl  319 (835)
T KOG2047|consen  245 DQLGFLWCSLADYYIRSGLFEKARDVYEEAIQT--VMTVRDFTQIFDAYAQFEESC---VAAKMELADEESGNEEDDVDL  319 (835)
T ss_pred             HHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHh--heehhhHHHHHHHHHHHHHHH---HHHHHhhhhhcccChhhhhhH
Confidence            4  346899999999999999999999988765  233444555544333110000   000000000 000      00


Q ss_pred             hhhhcCCc---------------cCCCCchhhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCcc-----HHH-HHHHHHH
Q 048743          163 SAEKSNGA---------------ELIKPDTMIFNLVLHACVRFGSSLKGQHIMELMSQTGVVAD-----AHS-IIILAQI  221 (653)
Q Consensus       163 ~~a~~~~~---------------~~~~~~~~~yn~li~~~~~~g~~~~a~~l~~~m~~~g~~p~-----~~t-~~~ll~~  221 (653)
                      +....-|+               +..+-++..|..-+.  +..|+..+....|.+..+. +.|-     ..+ |..+.+.
T Consensus       320 ~~~~a~~e~lm~rr~~~lNsVlLRQn~~nV~eW~kRV~--l~e~~~~~~i~tyteAv~~-vdP~ka~Gs~~~Lw~~fakl  396 (835)
T KOG2047|consen  320 ELHMARFESLMNRRPLLLNSVLLRQNPHNVEEWHKRVK--LYEGNAAEQINTYTEAVKT-VDPKKAVGSPGTLWVEFAKL  396 (835)
T ss_pred             HHHHHHHHHHHhccchHHHHHHHhcCCccHHHHHhhhh--hhcCChHHHHHHHHHHHHc-cCcccCCCChhhHHHHHHHH
Confidence            00000011               111223333433222  3467778888888888764 3332     223 7788888


Q ss_pred             HHhcCChhhhHHHHHHhhhcCCCcccchhHHHHHHHHhhhccCCHHHHHHHHHHhcccCCCCCCchhhhcccccchhccC
Q 048743          222 HEMNCQRDELKKFKCYIDQLSTPFAHHYQQFYESLLSLHFKFDDIDAAGELILDMNRYREPLPNPKLRQDAQKPYLISIG  301 (653)
Q Consensus       222 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~  301 (653)
                      |-+.|+++.|..+|+...+.+-+.+..-..+|-.-..+=.+..+++.|+++.++.    -.+|.+..+            
T Consensus       397 Ye~~~~l~~aRvifeka~~V~y~~v~dLa~vw~~waemElrh~~~~~Al~lm~~A----~~vP~~~~~------------  460 (835)
T KOG2047|consen  397 YENNGDLDDARVIFEKATKVPYKTVEDLAEVWCAWAEMELRHENFEAALKLMRRA----THVPTNPEL------------  460 (835)
T ss_pred             HHhcCcHHHHHHHHHHhhcCCccchHHHHHHHHHHHHHHHhhhhHHHHHHHHHhh----hcCCCchhh------------
Confidence            9999999999999999988766665544556666666667778888888877665    223322100            


Q ss_pred             CCcccchhhhccchhhhHHHHHHhhhhhHHHHHHhcCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcc
Q 048743          302 SPNLRCGLKLQIMPELLEKDSILKMEGKQELVLFRNGKLLHSNRAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGEST  381 (653)
Q Consensus       302 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~  381 (653)
                       .+...+..                         .+..+.-+...|...++.--..|-++....+++.+..-.+..|-+.
T Consensus       461 -~~yd~~~p-------------------------vQ~rlhrSlkiWs~y~DleEs~gtfestk~vYdriidLriaTPqii  514 (835)
T KOG2047|consen  461 -EYYDNSEP-------------------------VQARLHRSLKIWSMYADLEESLGTFESTKAVYDRIIDLRIATPQII  514 (835)
T ss_pred             -hhhcCCCc-------------------------HHHHHHHhHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhcCCHHHH
Confidence             00000000                         0111334556777777777778899999999999988874333322


Q ss_pred             cHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHH-HHHHHHHHHHHc---CChHHHHHHHHHHHHcCCccCchhhHH-H
Q 048743          382 LCSDVIDALIQLGFLEAAHDILDDMELAGHPMDST-TYKSLLTAYYKV---KMFREAEALLKQMRKSCLVQNLSCEMV-V  456 (653)
Q Consensus       382 ~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~-~~~~li~~~~~~---~~~~~a~~~~~~m~~~~~~p~~~~~~~-~  456 (653)
                        -.....+-...-++++.+++++-...=-.|++. .|+.-+.-+.+.   ..++.|..+|++..+ |.+|...-++. .
T Consensus       515 --~NyAmfLEeh~yfeesFk~YErgI~LFk~p~v~diW~tYLtkfi~rygg~klEraRdLFEqaL~-~Cpp~~aKtiyLl  591 (835)
T KOG2047|consen  515 --INYAMFLEEHKYFEESFKAYERGISLFKWPNVYDIWNTYLTKFIKRYGGTKLERARDLFEQALD-GCPPEHAKTIYLL  591 (835)
T ss_pred             --HHHHHHHHhhHHHHHHHHHHHcCCccCCCccHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHh-cCCHHHHHHHHHH
Confidence              222223335566788888887644432345543 556655554442   468999999999998 67776533322 2


Q ss_pred             HhhHHHHhhhcccccccccccCCHHHHHHHHHHHHHccCCC--CHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCH
Q 048743          457 SERFSEVADKSASFTDTSSLMDKSDLAESLIQEMREEAALS--TIYKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRPTV  534 (653)
Q Consensus       457 ~~~l~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~p--~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~  534 (653)
                      .+-+..             +-|....|..++++... ++++  -...||+.|.-.+..=-+.....+|++.++.  -||.
T Consensus       592 YA~lEE-------------e~GLar~amsiyerat~-~v~~a~~l~myni~I~kaae~yGv~~TR~iYekaIe~--Lp~~  655 (835)
T KOG2047|consen  592 YAKLEE-------------EHGLARHAMSIYERATS-AVKEAQRLDMYNIYIKKAAEIYGVPRTREIYEKAIES--LPDS  655 (835)
T ss_pred             HHHHHH-------------HhhHHHHHHHHHHHHHh-cCCHHHHHHHHHHHHHHHHHHhCCcccHHHHHHHHHh--CChH
Confidence            222211             35777889999988543 3444  3456899888666544455666777777764  5665


Q ss_pred             HHHH---HHHHHHhccCCHHHHHHHHHHHHHHhhhCCCccCHHHHHHHHHHHHhCCCHHHHHHHHHHHH
Q 048743          535 ETFY---YLVYGHSSLEMYRDITILWGDIKRNIESGVLAVSRDLYETLLLNFLQGGYFERVMEVIGYMK  600 (653)
Q Consensus       535 ~t~~---~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~  600 (653)
                      ..-.   -.-..=++.|.++.|..++..-.   +-..-..+...|.+.=.-=.++|+-    +.+++|.
T Consensus       656 ~~r~mclrFAdlEtklGEidRARaIya~~s---q~~dPr~~~~fW~twk~FEvrHGne----dT~keML  717 (835)
T KOG2047|consen  656 KAREMCLRFADLETKLGEIDRARAIYAHGS---QICDPRVTTEFWDTWKEFEVRHGNE----DTYKEML  717 (835)
T ss_pred             HHHHHHHHHHHHhhhhhhHHHHHHHHHhhh---hcCCCcCChHHHHHHHHHHHhcCCH----HHHHHHH
Confidence            5433   23334568899999999886543   1123334666788777777899983    4455554

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.09  E-value=5.7e-08  Score=91.70  Aligned_cols=202  Identities=8%  Similarity=-0.052  Sum_probs=163.7

Q ss_pred             CchhhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCcc-HHHHHHHHHHHHhcCChhhhHHHHHHhhhcCCCcccchhHHH
Q 048743          175 PDTMIFNLVLHACVRFGSSLKGQHIMELMSQTGVVAD-AHSIIILAQIHEMNCQRDELKKFKCYIDQLSTPFAHHYQQFY  253 (653)
Q Consensus       175 ~~~~~yn~li~~~~~~g~~~~a~~l~~~m~~~g~~p~-~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~  253 (653)
                      .....+..+...+...|++++|.+.|++..+..  |+ ...+..+...+...|+.++|.+.++......+..    ...+
T Consensus        29 ~~~~~~~~la~~~~~~~~~~~A~~~~~~~l~~~--p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~----~~~~  102 (234)
T TIGR02521        29 KAAKIRVQLALGYLEQGDLEVAKENLDKALEHD--PDDYLAYLALALYYQQLGELEKAEDSFRRALTLNPNN----GDVL  102 (234)
T ss_pred             cHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCC----HHHH
Confidence            345678888999999999999999999998753  44 4567788899999999999999999887764322    2367


Q ss_pred             HHHHHhhhccCCHHHHHHHHHHhcccCCCCCCchhhhcccccchhccCCCcccchhhhccchhhhHHHHHHhhhhhHHHH
Q 048743          254 ESLLSLHFKFDDIDAAGELILDMNRYREPLPNPKLRQDAQKPYLISIGSPNLRCGLKLQIMPELLEKDSILKMEGKQELV  333 (653)
Q Consensus       254 ~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  333 (653)
                      ..+...+...|++++|.+.|++....                                                      
T Consensus       103 ~~~~~~~~~~g~~~~A~~~~~~~~~~------------------------------------------------------  128 (234)
T TIGR02521       103 NNYGTFLCQQGKYEQAMQQFEQAIED------------------------------------------------------  128 (234)
T ss_pred             HHHHHHHHHcccHHHHHHHHHHHHhc------------------------------------------------------
Confidence            88888999999999999999998321                                                      


Q ss_pred             HHhcCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCC
Q 048743          334 LFRNGKLLHSNRAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPM  413 (653)
Q Consensus       334 ~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p  413 (653)
                          .........+..+...+...|++++|...+.+.....  +.+...+..+...+...|++++|...+++..+. .+.
T Consensus       129 ----~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~--~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~-~~~  201 (234)
T TIGR02521       129 ----PLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQID--PQRPESLLELAELYYLRGQYKDARAYLERYQQT-YNQ  201 (234)
T ss_pred             ----cccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--cCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-CCC
Confidence                0011223456667788899999999999999998876  556667889999999999999999999999876 445


Q ss_pred             CHHHHHHHHHHHHHcCChHHHHHHHHHHHH
Q 048743          414 DSTTYKSLLTAYYKVKMFREAEALLKQMRK  443 (653)
Q Consensus       414 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  443 (653)
                      +...+..+...+...|+.++|..+.+.+..
T Consensus       202 ~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~  231 (234)
T TIGR02521       202 TAESLWLGIRIARALGDVAAAQRYGAQLQK  231 (234)
T ss_pred             CHHHHHHHHHHHHHHhhHHHHHHHHHHHHh
Confidence            677788888899999999999999888765

Members of this family are designated PilF in ref (PubMed:8973346) and PilW in ref (PubMed:15612916). This outer membrane protein is required both for pilus stability and for pilus function such as adherence to human cells. Members of this family contain copies of the TPR (tetratricopeptide repeat) domain.

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.08  E-value=1.3e-07  Score=89.22  Aligned_cols=201  Identities=13%  Similarity=0.025  Sum_probs=130.4

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 048743          343 SNRAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTYKSLL  422 (653)
Q Consensus       343 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li  422 (653)
                      ....+..+...+...|++++|...+++..+..  |.+...+..+...+...|++++|.+.+++..+.. +.+...+..+.
T Consensus        30 ~~~~~~~la~~~~~~~~~~~A~~~~~~~l~~~--p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~~  106 (234)
T TIGR02521        30 AAKIRVQLALGYLEQGDLEVAKENLDKALEHD--PDDYLAYLALALYYQQLGELEKAEDSFRRALTLN-PNNGDVLNNYG  106 (234)
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHH
Confidence            34566777788888888888888888887765  5666667788888888888888888888887653 23556677777


Q ss_pred             HHHHHcCChHHHHHHHHHHHHcCCccCchhhHHHHhhHHHHhhhcccccccccccCCHHHHHHHHHHHHHccCCCCHHHH
Q 048743          423 TAYYKVKMFREAEALLKQMRKSCLVQNLSCEMVVSERFSEVADKSASFTDTSSLMDKSDLAESLIQEMREEAALSTIYKL  502 (653)
Q Consensus       423 ~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~y  502 (653)
                      ..+...|++++|...++...+....|.                                                ....+
T Consensus       107 ~~~~~~g~~~~A~~~~~~~~~~~~~~~------------------------------------------------~~~~~  138 (234)
T TIGR02521       107 TFLCQQGKYEQAMQQFEQAIEDPLYPQ------------------------------------------------PARSL  138 (234)
T ss_pred             HHHHHcccHHHHHHHHHHHHhcccccc------------------------------------------------chHHH
Confidence            788888888888888888765321111                                                12233


Q ss_pred             HHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHHhhhCCCccCHHHHHHHHHH
Q 048743          503 NSSIYFFCKGKMIGDALKIYRRMQEMKIRPTVETFYYLVYGHSSLEMYRDITILWGDIKRNIESGVLAVSRDLYETLLLN  582 (653)
Q Consensus       503 ~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~p~~~~y~~li~~  582 (653)
                      ..+...+...|++++|.+.+.+..... +.+...+..+...+...|++++|..+++...+.     ...+...+..+...
T Consensus       139 ~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~-----~~~~~~~~~~~~~~  212 (234)
T TIGR02521       139 ENAGLCALKAGDFDKAEKYLTRALQID-PQRPESLLELAELYYLRGQYKDARAYLERYQQT-----YNQTAESLWLGIRI  212 (234)
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHhC-cCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-----CCCCHHHHHHHHHH
Confidence            444555566666666666666665532 113445556666666666666666666655422     12344445555556


Q ss_pred             HHhCCCHHHHHHHHHHHH
Q 048743          583 FLQGGYFERVMEVIGYMK  600 (653)
Q Consensus       583 ~~~~g~~~~a~~~~~~m~  600 (653)
                      +...|+.++|..+.+.+.
T Consensus       213 ~~~~~~~~~a~~~~~~~~  230 (234)
T TIGR02521       213 ARALGDVAAAQRYGAQLQ  230 (234)
T ss_pred             HHHHhhHHHHHHHHHHHH
Confidence            666666666666666554

Members of this family are designated PilF in ref (PubMed:8973346) and PilW in ref (PubMed:15612916). This outer membrane protein is required both for pilus stability and for pilus function such as adherence to human cells. Members of this family contain copies of the TPR (tetratricopeptide repeat) domain.

>KOG0495 consensus HAT repeat protein [RNA processing and modification]

Probab=99.07  E-value=2.7e-05  Score=78.48  Aligned_cols=455  Identities=10%  Similarity=-0.037  Sum_probs=297.0

Q ss_pred             HHHhccchhHHHHHHHHhhhhcCCCCchhHHHHHHHhhccCCcchhhhHHHHHHHHHhccCCchhHHHHHHHHHHHHhcC
Q 048743           28 SASKNHQVGEAWETFNDFQRLHGIPERHVVNRFITDLCYSAEPHWLQKACDLVLKIQKGKADLLQLDLLAKLSLSLARAQ  107 (653)
Q Consensus        28 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~t~~~li~~~~~~g  107 (653)
                      +...-...+.|.-+++...+.  .|..   ..|.-++++...   ++.|-.++.+..+.-|.  +...|.+....=-.+|
T Consensus       385 aAVelE~~~darilL~rAvec--cp~s---~dLwlAlarLet---YenAkkvLNkaRe~ipt--d~~IWitaa~LEE~ng  454 (913)
T KOG0495|consen  385 AAVELEEPEDARILLERAVEC--CPQS---MDLWLALARLET---YENAKKVLNKAREIIPT--DREIWITAAKLEEANG  454 (913)
T ss_pred             HHHhccChHHHHHHHHHHHHh--ccch---HHHHHHHHHHHH---HHHHHHHHHHHHhhCCC--ChhHHHHHHHHHHhcC
Confidence            334455666688888877763  2322   133344555544   67788888877654433  6677777777777788


Q ss_pred             CCchHHHHHHHH----HcCccCCCchhHHHHHHHHhhcccccccchHHHHHHHHHhhhhhhhhcCCccCCCCchhhHHHH
Q 048743          108 MPVPASMILRLM----LGRENLPCSDLLLLVFVHMVKTEIGTCLASNFLIQLCDVFLHLSAEKSNGAELIKPDTMIFNLV  183 (653)
Q Consensus       108 ~~~~a~~~~~~m----~~~g~~p~~~~~~~li~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~yn~l  183 (653)
                      +++.+..++++-    ...|+..+..-|-.=-..|-..|....+  -.++...-..|.-          ..--..+|+.-
T Consensus       455 n~~mv~kii~rgl~~L~~ngv~i~rdqWl~eAe~~e~agsv~Tc--QAIi~avigigvE----------eed~~~tw~~d  522 (913)
T KOG0495|consen  455 NVDMVEKIIDRGLSELQANGVEINRDQWLKEAEACEDAGSVITC--QAIIRAVIGIGVE----------EEDRKSTWLDD  522 (913)
T ss_pred             CHHHHHHHHHHHHHHHhhcceeecHHHHHHHHHHHhhcCChhhH--HHHHHHHHhhccc----------cchhHhHHhhh
Confidence            888888777554    3457777666665444444333211110  0111111111100          01224578888


Q ss_pred             HHHHHhcCChhhHHHHHHHHHhcCCCccHH-HHHHHHHHHHhcCChhhhHHHHHHhhhcCCCcccchhHHHHHHHHhhhc
Q 048743          184 LHACVRFGSSLKGQHIMELMSQTGVVADAH-SIIILAQIHEMNCQRDELKKFKCYIDQLSTPFAHHYQQFYESLLSLHFK  262 (653)
Q Consensus       184 i~~~~~~g~~~~a~~l~~~m~~~g~~p~~~-t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~  262 (653)
                      -+.|.+.+-++-|..+|....+.  -|... .|.-....-...|..+....+++.....-+ ..   ...|-.....+-.
T Consensus       523 a~~~~k~~~~~carAVya~alqv--fp~k~slWlra~~~ek~hgt~Esl~Allqkav~~~p-ka---e~lwlM~ake~w~  596 (913)
T KOG0495|consen  523 AQSCEKRPAIECARAVYAHALQV--FPCKKSLWLRAAMFEKSHGTRESLEALLQKAVEQCP-KA---EILWLMYAKEKWK  596 (913)
T ss_pred             HHHHHhcchHHHHHHHHHHHHhh--ccchhHHHHHHHHHHHhcCcHHHHHHHHHHHHHhCC-cc---hhHHHHHHHHHHh
Confidence            89999999999999999988864  45444 477777777778999999998888876532 11   2346666777788


Q ss_pred             cCCHHHHHHHHHHhcccCCCCCCchhhhcccccchhccCCCcccchhhhccchhhhHHHHHHhhhhhHHHHHHhcCCCCC
Q 048743          263 FDDIDAAGELILDMNRYREPLPNPKLRQDAQKPYLISIGSPNLRCGLKLQIMPELLEKDSILKMEGKQELVLFRNGKLLH  342 (653)
Q Consensus       263 ~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p  342 (653)
                      .||+..|..++....+                                                             ..|
T Consensus       597 agdv~~ar~il~~af~-------------------------------------------------------------~~p  615 (913)
T KOG0495|consen  597 AGDVPAARVILDQAFE-------------------------------------------------------------ANP  615 (913)
T ss_pred             cCCcHHHHHHHHHHHH-------------------------------------------------------------hCC
Confidence            8999999999988722                                                             223


Q ss_pred             -CHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHH
Q 048743          343 -SNRAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTYKSL  421 (653)
Q Consensus       343 -~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~l  421 (653)
                       +...|-..+..-..+..++.|..+|.+....+   +...+|.--+..---.+..++|.+++++..+. ++--...|..+
T Consensus       616 nseeiwlaavKle~en~e~eraR~llakar~~s---gTeRv~mKs~~~er~ld~~eeA~rllEe~lk~-fp~f~Kl~lml  691 (913)
T KOG0495|consen  616 NSEEIWLAAVKLEFENDELERARDLLAKARSIS---GTERVWMKSANLERYLDNVEEALRLLEEALKS-FPDFHKLWLML  691 (913)
T ss_pred             CcHHHHHHHHHHhhccccHHHHHHHHHHHhccC---CcchhhHHHhHHHHHhhhHHHHHHHHHHHHHh-CCchHHHHHHH
Confidence             45688888899999999999999999988765   34445777777777789999999999888774 43345577788


Q ss_pred             HHHHHHcCChHHHHHHHHHHHHcCCccCchhhHHHHhhHHHHhhhcccccccccccCCHHHHHHHHHHHHHccCCC-CHH
Q 048743          422 LTAYYKVKMFREAEALLKQMRKSCLVQNLSCEMVVSERFSEVADKSASFTDTSSLMDKSDLAESLIQEMREEAALS-TIY  500 (653)
Q Consensus       422 i~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~  500 (653)
                      -..+-+.++.+.|...|..-.+  ..|..   +.+...+..+-+          +.|++-.|..+|+.-.-++  | |..
T Consensus       692 GQi~e~~~~ie~aR~aY~~G~k--~cP~~---ipLWllLakleE----------k~~~~~rAR~ildrarlkN--Pk~~~  754 (913)
T KOG0495|consen  692 GQIEEQMENIEMAREAYLQGTK--KCPNS---IPLWLLLAKLEE----------KDGQLVRARSILDRARLKN--PKNAL  754 (913)
T ss_pred             hHHHHHHHHHHHHHHHHHhccc--cCCCC---chHHHHHHHHHH----------HhcchhhHHHHHHHHHhcC--CCcch
Confidence            8889999999999888876544  34543   223333333333          4678899999999887666  5 888


Q ss_pred             HHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHHhhhCCCccCHHHHHHHH
Q 048743          501 KLNSSIYFFCKGKMIGDALKIYRRMQEMKIRPTVETFYYLVYGHSSLEMYRDITILWGDIKRNIESGVLAVSRDLYETLL  580 (653)
Q Consensus       501 ~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~p~~~~y~~li  580 (653)
                      .|-..|+.=.+.|..+.|..+..+..+. ++-+...|.--|...-+.++-....   +.++      ...-|..+.-.+.
T Consensus       755 lwle~Ir~ElR~gn~~~a~~lmakALQe-cp~sg~LWaEaI~le~~~~rkTks~---DALk------kce~dphVllaia  824 (913)
T KOG0495|consen  755 LWLESIRMELRAGNKEQAELLMAKALQE-CPSSGLLWAEAIWLEPRPQRKTKSI---DALK------KCEHDPHVLLAIA  824 (913)
T ss_pred             hHHHHHHHHHHcCCHHHHHHHHHHHHHh-CCccchhHHHHHHhccCcccchHHH---HHHH------hccCCchhHHHHH
Confidence            9999999999999999999888877664 2333344555555544444422222   2221      1223444455555


Q ss_pred             HHHHhCCCHHHHHHHHHHHHhC
Q 048743          581 LNFLQGGYFERVMEVIGYMKKQ  602 (653)
Q Consensus       581 ~~~~~~g~~~~a~~~~~~m~~~  602 (653)
                      ..|-...++++|.+-|.+..+.
T Consensus       825 ~lfw~e~k~~kar~Wf~Ravk~  846 (913)
T KOG0495|consen  825 KLFWSEKKIEKAREWFERAVKK  846 (913)
T ss_pred             HHHHHHHHHHHHHHHHHHHHcc
Confidence            5555666666666666666543

>KOG1173 consensus Anaphase-promoting complex (APC), Cdc16 subunit [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=99.05  E-value=2.8e-06  Score=84.05  Aligned_cols=490  Identities=11%  Similarity=0.011  Sum_probs=297.4

Q ss_pred             chHHHHHHHHHHHHhccchhHHHHHHHHhhhhcCCCCchhHHHHHHHhhccCCcchhhhHHHHHHHHHhccCCchhHHHH
Q 048743           17 SSREVLLRKLESASKNHQVGEAWETFNDFQRLHGIPERHVVNRFITDLCYSAEPHWLQKACDLVLKIQKGKADLLQLDLL   96 (653)
Q Consensus        17 p~~~~~~~~i~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~t~   96 (653)
                      -+.+-+.++++-+..+.++..|.-+-+......  -++..--++..++.-.++   .++|..+...-.-   ...|..+.
T Consensus        14 ~s~~~~~~~~r~~l~q~~y~~a~f~adkV~~l~--~dp~d~~~~aq~l~~~~~---y~ra~~lit~~~l---e~~d~~cr   85 (611)
T KOG1173|consen   14 LSLEKYRRLVRDALMQHRYKTALFWADKVAGLT--NDPADIYWLAQVLYLGRQ---YERAAHLITTYKL---EKRDIACR   85 (611)
T ss_pred             ccHHHHHHHHHHHHHHHhhhHHHHHHHHHHhcc--CChHHHHHHHHHHHhhhH---HHHHHHHHHHhhh---hhhhHHHH
Confidence            345566777778888889999988888777654  344444466666666666   6777776654311   22477788


Q ss_pred             HHHHHHHHhcCCCchHHHHHHHHH--cCccCCCchh-HHHHHHHHhhcccccccchHHHHH-------HHHHhhhhhhhh
Q 048743           97 AKLSLSLARAQMPVPASMILRLML--GRENLPCSDL-LLLVFVHMVKTEIGTCLASNFLIQ-------LCDVFLHLSAEK  166 (653)
Q Consensus        97 ~~li~~~~~~g~~~~a~~~~~~m~--~~g~~p~~~~-~~~li~~~~~~~~~~~~~~~~l~~-------~~~~~~~~~~a~  166 (653)
                      ......+.+..+++.|..++..-.  ..++.-+..+ -+.+    -..+.......+....       .+....+.+.|+
T Consensus        86 yL~~~~l~~lk~~~~al~vl~~~~~~~~~f~yy~~~~~~~l----~~n~~~~~~~~~~essic~lRgk~y~al~n~~~ar  161 (611)
T KOG1173|consen   86 YLAAKCLVKLKEWDQALLVLGRGHVETNPFSYYEKDAANTL----ELNSAGEDLMINLESSICYLRGKVYVALDNREEAR  161 (611)
T ss_pred             HHHHHHHHHHHHHHHHHHHhcccchhhcchhhcchhhhcee----ccCcccccccccchhceeeeeeehhhhhccHHHHH
Confidence            888889999999999999997321  0111111111 0000    0000000000000111       111112344444


Q ss_pred             cCCccCCCCchhhHHHHHHHHHhcCChhhHHHHHHHHHhcCC----CccHHHHHHHHHHHH-hcCChhhhHHHHHHhhhc
Q 048743          167 SNGAELIKPDTMIFNLVLHACVRFGSSLKGQHIMELMSQTGV----VADAHSIIILAQIHE-MNCQRDELKKFKCYIDQL  241 (653)
Q Consensus       167 ~~~~~~~~~~~~~yn~li~~~~~~g~~~~a~~l~~~m~~~g~----~p~~~t~~~ll~~~~-~~g~~~~a~~~~~~~~~~  241 (653)
                      ..|......|+..|..+..--..  ..-.+.+.|+.+.....    .-+......+..... +..+.+.....-    +.
T Consensus       162 ~~Y~~Al~~D~~c~Ea~~~lvs~--~mlt~~Ee~~ll~~l~~a~~~~ed~e~l~~lyel~~~k~~n~~~~~r~~----~~  235 (611)
T KOG1173|consen  162 DKYKEALLADAKCFEAFEKLVSA--HMLTAQEEFELLESLDLAMLTKEDVERLEILYELKLCKNRNEESLTRNE----DE  235 (611)
T ss_pred             HHHHHHHhcchhhHHHHHHHHHH--HhcchhHHHHHHhcccHHhhhhhHHHHHHHHHHhhhhhhccccccccCc----hh
Confidence            44444445555555444332211  11122222222221110    111111111111110 000000000000    00


Q ss_pred             CCCcccchhHHHHHHHHhhhccCCHHHHHHHHHHhcccCCCCCCchhhhcccccchhccCCCcccchhhhccchhhhHHH
Q 048743          242 STPFAHHYQQFYESLLSLHFKFDDIDAAGELILDMNRYREPLPNPKLRQDAQKPYLISIGSPNLRCGLKLQIMPELLEKD  321 (653)
Q Consensus       242 ~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  321 (653)
                      .......+..+...-.+-+...+++.+..++++...+                                           
T Consensus       236 sl~~l~~~~dll~~~ad~~y~~c~f~~c~kit~~lle-------------------------------------------  272 (611)
T KOG1173|consen  236 SLIGLAENLDLLAEKADRLYYGCRFKECLKITEELLE-------------------------------------------  272 (611)
T ss_pred             hhhhhhhcHHHHHHHHHHHHHcChHHHHHHHhHHHHh-------------------------------------------
Confidence            0001122223344455556667788888888777732                                           


Q ss_pred             HHHhhhhhHHHHHHhcCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHH
Q 048743          322 SILKMEGKQELVLFRNGKLLHSNRAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHD  401 (653)
Q Consensus       322 ~~~~~~~~~~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~  401 (653)
                                     .  .++....+..-|.++...|+..+-..+=.++.+..  |....+|-++---|--.|+..+|.+
T Consensus       273 ---------------~--dpfh~~~~~~~ia~l~el~~~n~Lf~lsh~LV~~y--P~~a~sW~aVg~YYl~i~k~seARr  333 (611)
T KOG1173|consen  273 ---------------K--DPFHLPCLPLHIACLYELGKSNKLFLLSHKLVDLY--PSKALSWFAVGCYYLMIGKYSEARR  333 (611)
T ss_pred             ---------------h--CCCCcchHHHHHHHHHHhcccchHHHHHHHHHHhC--CCCCcchhhHHHHHHHhcCcHHHHH
Confidence                           1  22333445556678888999888888888888887  8888889999998988999999999


Q ss_pred             HHHHHHHCCCCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHHc--C-CccCchhhHHHHhhHHHHhhhccccccccccc
Q 048743          402 ILDDMELAGHPM-DSTTYKSLLTAYYKVKMFREAEALLKQMRKS--C-LVQNLSCEMVVSERFSEVADKSASFTDTSSLM  477 (653)
Q Consensus       402 ~~~~m~~~g~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~--~-~~p~~~~~~~~~~~l~~~~~~~~~~~~~~~~~  477 (653)
                      .|.+...-  .| =...|-.+-..|+-.|+.|+|...+....+.  | ..|..+  +-+.                |.+.
T Consensus       334 y~SKat~l--D~~fgpaWl~fghsfa~e~EhdQAmaaY~tAarl~~G~hlP~LY--lgme----------------y~~t  393 (611)
T KOG1173|consen  334 YFSKATTL--DPTFGPAWLAFGHSFAGEGEHDQAMAAYFTAARLMPGCHLPSLY--LGME----------------YMRT  393 (611)
T ss_pred             HHHHHhhc--CccccHHHHHHhHHhhhcchHHHHHHHHHHHHHhccCCcchHHH--HHHH----------------HHHh
Confidence            99986542  22 2357788888999999999999988877652  2 233211  1111                4557


Q ss_pred             CCHHHHHHHHHHHHHccCCC-CHHHHHHHHHHHHcCCCHHHHHHHHHHHHhc--CCC----CCHHHHHHHHHHHhccCCH
Q 048743          478 DKSDLAESLIQEMREEAALS-TIYKLNSSIYFFCKGKMIGDALKIYRRMQEM--KIR----PTVETFYYLVYGHSSLEMY  550 (653)
Q Consensus       478 ~~~~~a~~~~~~m~~~~~~p-~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~--g~~----p~~~t~~~li~~~~~~~~~  550 (653)
                      ++...|.+.|.+...  +.| |+..++-+--.....+.+.+|..+|+.....  .+.    .-..+++.|..+|.+.+.+
T Consensus       394 ~n~kLAe~Ff~~A~a--i~P~Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rkl~~~  471 (611)
T KOG1173|consen  394 NNLKLAEKFFKQALA--IAPSDPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYRKLNKY  471 (611)
T ss_pred             ccHHHHHHHHHHHHh--cCCCcchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHHHHHHHhhH
Confidence            899999999987665  336 7777777766667788999999999988731  111    1345788999999999999


Q ss_pred             HHHHHHHHHHHHHhhhCCCccCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCCHHhHHHHH
Q 048743          551 RDITILWGDIKRNIESGVLAVSRDLYETLLLNFLQGGYFERVMEVIGYMKKQNMYVDKLMYKSEF  615 (653)
Q Consensus       551 ~~a~~~~~~~~~~~~~~~~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~l~  615 (653)
                      ++|+..++.....     .+-+..+|.++.-.|...|+++.|.+.|.+..  ++.||..+.+.++
T Consensus       472 ~eAI~~~q~aL~l-----~~k~~~~~asig~iy~llgnld~Aid~fhKaL--~l~p~n~~~~~lL  529 (611)
T KOG1173|consen  472 EEAIDYYQKALLL-----SPKDASTHASIGYIYHLLGNLDKAIDHFHKAL--ALKPDNIFISELL  529 (611)
T ss_pred             HHHHHHHHHHHHc-----CCCchhHHHHHHHHHHHhcChHHHHHHHHHHH--hcCCccHHHHHHH
Confidence            9999999887632     34578889999999999999999999999887  7899998888887

>COG3071 HemY Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]

Probab=99.05  E-value=1.6e-06  Score=82.37  Aligned_cols=286  Identities=15%  Similarity=0.067  Sum_probs=201.8

Q ss_pred             hhhHHHHHHHHHhccCCchhHHHHHHHHHHHHhcCCCchHHHHHHHHHcCccCCCchhHHHHHHHHhhcccccccchHHH
Q 048743           73 LQKACDLVLKIQKGKADLLQLDLLAKLSLSLARAQMPVPASMILRLMLGRENLPCSDLLLLVFVHMVKTEIGTCLASNFL  152 (653)
Q Consensus        73 ~~~a~~~~~~~~~~~~~~~~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~~~~l  152 (653)
                      +.+|.+++.+-.+ .+.. -.-.|..-..+--..|+.+.+-.++.+..+.--.++...+-+.-+.....+          
T Consensus       100 ~~qAEkl~~rnae-~~e~-p~l~~l~aA~AA~qrgd~~~an~yL~eaae~~~~~~l~v~ltrarlll~~~----------  167 (400)
T COG3071         100 FQQAEKLLRRNAE-HGEQ-PVLAYLLAAEAAQQRGDEDRANRYLAEAAELAGDDTLAVELTRARLLLNRR----------  167 (400)
T ss_pred             HHHHHHHHHHhhh-cCcc-hHHHHHHHHHHHHhcccHHHHHHHHHHHhccCCCchHHHHHHHHHHHHhCC----------
Confidence            6888888877533 3222 233455556677778899999999988887633444444443333333332          


Q ss_pred             HHHHHHhhhhhhhhcCCc---cCCCCchhhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCccHH-------HHHHHHHHH
Q 048743          153 IQLCDVFLHLSAEKSNGA---ELIKPDTMIFNLVLHACVRFGSSLKGQHIMELMSQTGVVADAH-------SIIILAQIH  222 (653)
Q Consensus       153 ~~~~~~~~~~~~a~~~~~---~~~~~~~~~yn~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~-------t~~~ll~~~  222 (653)
                              +...|+.-.+   .+-+.++..-....++|.+.|++.....++..|.+.|+--|..       +|..+++-+
T Consensus       168 --------d~~aA~~~v~~ll~~~pr~~~vlrLa~r~y~~~g~~~~ll~~l~~L~ka~~l~~~e~~~le~~a~~glL~q~  239 (400)
T COG3071         168 --------DYPAARENVDQLLEMTPRHPEVLRLALRAYIRLGAWQALLAILPKLRKAGLLSDEEAARLEQQAWEGLLQQA  239 (400)
T ss_pred             --------CchhHHHHHHHHHHhCcCChHHHHHHHHHHHHhccHHHHHHHHHHHHHccCCChHHHHHHHHHHHHHHHHHH
Confidence                    2222222222   2345577888999999999999999999999999999754443       466777777


Q ss_pred             HhcCChhhhHHHHHHhhhcCCCcccchhHHHHHHHHhhhccCCHHHHHHHHHHhcccCCCCCCchhhhcccccchhccCC
Q 048743          223 EMNCQRDELKKFKCYIDQLSTPFAHHYQQFYESLLSLHFKFDDIDAAGELILDMNRYREPLPNPKLRQDAQKPYLISIGS  302 (653)
Q Consensus       223 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~  302 (653)
                      ...+..+...+.++......    ..+..+-.+++.-+.++|+.++|.++.++-.+                        
T Consensus       240 ~~~~~~~gL~~~W~~~pr~l----r~~p~l~~~~a~~li~l~~~~~A~~~i~~~Lk------------------------  291 (400)
T COG3071         240 RDDNGSEGLKTWWKNQPRKL----RNDPELVVAYAERLIRLGDHDEAQEIIEDALK------------------------  291 (400)
T ss_pred             hccccchHHHHHHHhccHHh----hcChhHHHHHHHHHHHcCChHHHHHHHHHHHH------------------------
Confidence            77777777777777765442    22223457888889999999999999988732                        


Q ss_pred             CcccchhhhccchhhhHHHHHHhhhhhHHHHHHhcCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCccc
Q 048743          303 PNLRCGLKLQIMPELLEKDSILKMEGKQELVLFRNGKLLHSNRAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTL  382 (653)
Q Consensus       303 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~  382 (653)
                                                         ....|+    -...-.+.+-++.+.-++..++-.+..  +.++-.
T Consensus       292 -----------------------------------~~~D~~----L~~~~~~l~~~d~~~l~k~~e~~l~~h--~~~p~L  330 (400)
T COG3071         292 -----------------------------------RQWDPR----LCRLIPRLRPGDPEPLIKAAEKWLKQH--PEDPLL  330 (400)
T ss_pred             -----------------------------------hccChh----HHHHHhhcCCCCchHHHHHHHHHHHhC--CCChhH
Confidence                                               222233    233344566777777777777766666  566677


Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCccC
Q 048743          383 CSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTYKSLLTAYYKVKMFREAEALLKQMRKSCLVQN  449 (653)
Q Consensus       383 ~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~  449 (653)
                      +.+|-..|.+.+.+.+|...|+.-.+.  .|+..+|+-+-+++.+.|++.+|.+.+++-...-.+|+
T Consensus       331 ~~tLG~L~~k~~~w~kA~~~leaAl~~--~~s~~~~~~la~~~~~~g~~~~A~~~r~e~L~~~~~~~  395 (400)
T COG3071         331 LSTLGRLALKNKLWGKASEALEAALKL--RPSASDYAELADALDQLGEPEEAEQVRREALLLTRQPN  395 (400)
T ss_pred             HHHHHHHHHHhhHHHHHHHHHHHHHhc--CCChhhHHHHHHHHHHcCChHHHHHHHHHHHHHhcCCC
Confidence            999999999999999999999976664  68999999999999999999999999988775444443

>KOG0547 consensus Translocase of outer mitochondrial membrane complex, subunit TOM70/TOM72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.04  E-value=6.3e-06  Score=80.11  Aligned_cols=219  Identities=9%  Similarity=-0.018  Sum_probs=149.6

Q ss_pred             hcCChhhhHHHHHHhhhcCCCcccchhHHHHHHHHhhhccCCHHHHHHHHHHhcccCCCCCCchhhhcccccchhccCCC
Q 048743          224 MNCQRDELKKFKCYIDQLSTPFAHHYQQFYESLLSLHFKFDDIDAAGELILDMNRYREPLPNPKLRQDAQKPYLISIGSP  303 (653)
Q Consensus       224 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~  303 (653)
                      -.|+.-.+.+-|+........+..    .|--+-.+|....+.++-+..|++...                         
T Consensus       338 L~g~~~~a~~d~~~~I~l~~~~~~----lyI~~a~~y~d~~~~~~~~~~F~~A~~-------------------------  388 (606)
T KOG0547|consen  338 LKGDSLGAQEDFDAAIKLDPAFNS----LYIKRAAAYADENQSEKMWKDFNKAED-------------------------  388 (606)
T ss_pred             hcCCchhhhhhHHHHHhcCcccch----HHHHHHHHHhhhhccHHHHHHHHHHHh-------------------------
Confidence            357777777777777665443333    266666777888888888888877621                         


Q ss_pred             cccchhhhccchhhhHHHHHHhhhhhHHHHHHhcCCCCC-CHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCccc
Q 048743          304 NLRCGLKLQIMPELLEKDSILKMEGKQELVLFRNGKLLH-SNRAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTL  382 (653)
Q Consensus       304 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~  382 (653)
                                                          +.| ++.+|..--..+.-.+++++|..=|++..+-.  |.+...
T Consensus       389 ------------------------------------ldp~n~dvYyHRgQm~flL~q~e~A~aDF~Kai~L~--pe~~~~  430 (606)
T KOG0547|consen  389 ------------------------------------LDPENPDVYYHRGQMRFLLQQYEEAIADFQKAISLD--PENAYA  430 (606)
T ss_pred             ------------------------------------cCCCCCchhHhHHHHHHHHHHHHHHHHHHHHHhhcC--hhhhHH
Confidence                                                223 33356666666666788999999999998877  777778


Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCccCch------hhHHH
Q 048743          383 CSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTYKSLLTAYYKVKMFREAEALLKQMRKSCLVQNLS------CEMVV  456 (653)
Q Consensus       383 ~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~------~~~~~  456 (653)
                      |-.+.-+..+.++++++...|++..++ ++-.+..|+.....+...+++++|.+.|+...+  +.|+..      ..++.
T Consensus       431 ~iQl~~a~Yr~~k~~~~m~~Fee~kkk-FP~~~Evy~~fAeiLtDqqqFd~A~k~YD~ai~--LE~~~~~~~v~~~plV~  507 (606)
T KOG0547|consen  431 YIQLCCALYRQHKIAESMKTFEEAKKK-FPNCPEVYNLFAEILTDQQQFDKAVKQYDKAIE--LEPREHLIIVNAAPLVH  507 (606)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHh-CCCCchHHHHHHHHHhhHHhHHHHHHHHHHHHh--hccccccccccchhhhh
Confidence            888888888999999999999998875 677788999999999999999999999998876  455521      11111


Q ss_pred             HhhHHHHhhhcccccccccccCCHHHHHHHHHHHHHccCCC-CHHHHHHHHHHHHcCCCHHHHHHHHHHHH
Q 048743          457 SERFSEVADKSASFTDTSSLMDKSDLAESLIQEMREEAALS-TIYKLNSSIYFFCKGKMIGDALKIYRRMQ  526 (653)
Q Consensus       457 ~~~l~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~~y~~li~~~~~~g~~~~a~~~~~~m~  526 (653)
                      ...+.-..            .+++..|..++.+..+.+  | ....|-+|-..-.+.|+.++|+++|++-.
T Consensus       508 Ka~l~~qw------------k~d~~~a~~Ll~KA~e~D--pkce~A~~tlaq~~lQ~~~i~eAielFEksa  564 (606)
T KOG0547|consen  508 KALLVLQW------------KEDINQAENLLRKAIELD--PKCEQAYETLAQFELQRGKIDEAIELFEKSA  564 (606)
T ss_pred             hhHhhhch------------hhhHHHHHHHHHHHHccC--chHHHHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence            11111100            255666666666555543  3 34455666666666666666666666544

>KOG0495 consensus HAT repeat protein [RNA processing and modification]

Probab=99.00  E-value=5.1e-05  Score=76.62  Aligned_cols=327  Identities=12%  Similarity=0.025  Sum_probs=156.2

Q ss_pred             chhhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCccH-HHHHHHHHHHHhcCChhhhHHHHHHhhhcCCCcccchhHHHH
Q 048743          176 DTMIFNLVLHACVRFGSSLKGQHIMELMSQTGVVADA-HSIIILAQIHEMNCQRDELKKFKCYIDQLSTPFAHHYQQFYE  254 (653)
Q Consensus       176 ~~~~yn~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~-~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~  254 (653)
                      +...|......=-..|..+....+|++....  .|-. ..|.....-+-..|+...|..++...-+..+.    +..+|-
T Consensus       549 k~slWlra~~~ek~hgt~Esl~Allqkav~~--~pkae~lwlM~ake~w~agdv~~ar~il~~af~~~pn----seeiwl  622 (913)
T KOG0495|consen  549 KKSLWLRAAMFEKSHGTRESLEALLQKAVEQ--CPKAEILWLMYAKEKWKAGDVPAARVILDQAFEANPN----SEEIWL  622 (913)
T ss_pred             hhHHHHHHHHHHHhcCcHHHHHHHHHHHHHh--CCcchhHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCC----cHHHHH
Confidence            3344444444334455555555566555544  2222 22334444444556666666655555443221    122455


Q ss_pred             HHHHhhhccCCHHHHHHHHHHhcccCCCCCCchhhhcccccchhccCCCcccchhhhccchhhhHHHHHHhhhhhHHHHH
Q 048743          255 SLLSLHFKFDDIDAAGELILDMNRYREPLPNPKLRQDAQKPYLISIGSPNLRCGLKLQIMPELLEKDSILKMEGKQELVL  334 (653)
Q Consensus       255 ~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  334 (653)
                      +-+..-.....++.|..+|.+.                                                          
T Consensus       623 aavKle~en~e~eraR~llaka----------------------------------------------------------  644 (913)
T KOG0495|consen  623 AAVKLEFENDELERARDLLAKA----------------------------------------------------------  644 (913)
T ss_pred             HHHHHhhccccHHHHHHHHHHH----------------------------------------------------------
Confidence            5555555666666666666554                                                          


Q ss_pred             HhcCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCC
Q 048743          335 FRNGKLLHSNRAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMD  414 (653)
Q Consensus       335 ~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~  414 (653)
                         ....|+...|..-+..-.-.++.++|.+++++..+.-  |.-...|-.+-..+-+.++++.|...|..-.+. ++-.
T Consensus       645 ---r~~sgTeRv~mKs~~~er~ld~~eeA~rllEe~lk~f--p~f~Kl~lmlGQi~e~~~~ie~aR~aY~~G~k~-cP~~  718 (913)
T KOG0495|consen  645 ---RSISGTERVWMKSANLERYLDNVEEALRLLEEALKSF--PDFHKLWLMLGQIEEQMENIEMAREAYLQGTKK-CPNS  718 (913)
T ss_pred             ---hccCCcchhhHHHhHHHHHhhhHHHHHHHHHHHHHhC--CchHHHHHHHhHHHHHHHHHHHHHHHHHhcccc-CCCC
Confidence               1134555555544444445555666666665555443  333334555555555555555555555443321 3333


Q ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCccCchhhHHHHhhHHHHhhhcccccccccccCCHHHHHHHHHHHHHcc
Q 048743          415 STTYKSLLTAYYKVKMFREAEALLKQMRKSCLVQNLSCEMVVSERFSEVADKSASFTDTSSLMDKSDLAESLIQEMREEA  494 (653)
Q Consensus       415 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~~  494 (653)
                      +..|-.|...--+.|.+-.|..+|+.-+-.+  |+.  ..+....+.           +-.+.|+.+.|..++.+....-
T Consensus       719 ipLWllLakleEk~~~~~rAR~ildrarlkN--Pk~--~~lwle~Ir-----------~ElR~gn~~~a~~lmakALQec  783 (913)
T KOG0495|consen  719 IPLWLLLAKLEEKDGQLVRARSILDRARLKN--PKN--ALLWLESIR-----------MELRAGNKEQAELLMAKALQEC  783 (913)
T ss_pred             chHHHHHHHHHHHhcchhhHHHHHHHHHhcC--CCc--chhHHHHHH-----------HHHHcCCHHHHHHHHHHHHHhC
Confidence            3444444445555555666666665554432  332  111111111           1123566666655554443321


Q ss_pred             CCC-CHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHHhhhCCCcc-C
Q 048743          495 ALS-TIYKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRPTVETFYYLVYGHSSLEMYRDITILWGDIKRNIESGVLAV-S  572 (653)
Q Consensus       495 ~~p-~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~p-~  572 (653)
                        | +-..|.--|....+.++-.+..+-+++     ++-|.+..-.+-..+-...+++.|.+.|....      .+.| +
T Consensus       784 --p~sg~LWaEaI~le~~~~rkTks~DALkk-----ce~dphVllaia~lfw~e~k~~kar~Wf~Rav------k~d~d~  850 (913)
T KOG0495|consen  784 --PSSGLLWAEAIWLEPRPQRKTKSIDALKK-----CEHDPHVLLAIAKLFWSEKKIEKAREWFERAV------KKDPDN  850 (913)
T ss_pred             --CccchhHHHHHHhccCcccchHHHHHHHh-----ccCCchhHHHHHHHHHHHHHHHHHHHHHHHHH------ccCCcc
Confidence              2 334455555555555543333333332     22344444445555555555666666665443      2223 2


Q ss_pred             HHHHHHHHHHHHhCCCHHHHHHHHHHHH
Q 048743          573 RDLYETLLLNFLQGGYFERVMEVIGYMK  600 (653)
Q Consensus       573 ~~~y~~li~~~~~~g~~~~a~~~~~~m~  600 (653)
                      ..+|..+..-+.++|.-+.-.++++.-.
T Consensus       851 GD~wa~fykfel~hG~eed~kev~~~c~  878 (913)
T KOG0495|consen  851 GDAWAWFYKFELRHGTEEDQKEVLKKCE  878 (913)
T ss_pred             chHHHHHHHHHHHhCCHHHHHHHHHHHh
Confidence            2345555555556665555555555544

>PRK12370 invasion protein regulator; Provisional

Probab=98.99  E-value=2.9e-07  Score=98.17  Aligned_cols=263  Identities=11%  Similarity=-0.049  Sum_probs=181.6

Q ss_pred             CHHHHHHHHHHHHh-----cCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHH---------cCCHHHHHHHHHHHHH
Q 048743          343 SNRAMAKLINGYKK-----HGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQ---------LGFLEAAHDILDDMEL  408 (653)
Q Consensus       343 ~~~~~~~li~~~~~-----~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~---------~g~~~~a~~~~~~m~~  408 (653)
                      +...|...+.+-..     .+++++|..+|++..+..  |.+...|..+..+|..         .+++++|...+++..+
T Consensus       255 ~~da~~~~lrg~~~~~~~~~~~~~~A~~~~~~Al~ld--P~~a~a~~~La~~~~~~~~~g~~~~~~~~~~A~~~~~~Al~  332 (553)
T PRK12370        255 SIDSTMVYLRGKHELNQYTPYSLQQALKLLTQCVNMS--PNSIAPYCALAECYLSMAQMGIFDKQNAMIKAKEHAIKATE  332 (553)
T ss_pred             ChHHHHHHHHhHHHHHccCHHHHHHHHHHHHHHHhcC--CccHHHHHHHHHHHHHHHHcCCcccchHHHHHHHHHHHHHh
Confidence            44556566665322     244689999999999887  6666667666655442         2458899999999987


Q ss_pred             CCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCccCchhhHHHHhhHHHHhhhcccccccccccCCHHHHHHHHH
Q 048743          409 AGHPMDSTTYKSLLTAYYKVKMFREAEALLKQMRKSCLVQNLSCEMVVSERFSEVADKSASFTDTSSLMDKSDLAESLIQ  488 (653)
Q Consensus       409 ~g~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~a~~~~~  488 (653)
                      ... -+...+..+-..+...|++++|...|++..+.  .|+.........             ..+...|+.++|...++
T Consensus       333 ldP-~~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l--~P~~~~a~~~lg-------------~~l~~~G~~~eAi~~~~  396 (553)
T PRK12370        333 LDH-NNPQALGLLGLINTIHSEYIVGSLLFKQANLL--SPISADIKYYYG-------------WNLFMAGQLEEALQTIN  396 (553)
T ss_pred             cCC-CCHHHHHHHHHHHHHccCHHHHHHHHHHHHHh--CCCCHHHHHHHH-------------HHHHHCCCHHHHHHHHH
Confidence            642 36778888888889999999999999999884  576522111111             11334899999999999


Q ss_pred             HHHHccCCCC-HHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCC-HHHHHHHHHHHhccCCHHHHHHHHHHHHHHhhh
Q 048743          489 EMREEAALST-IYKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRPT-VETFYYLVYGHSSLEMYRDITILWGDIKRNIES  566 (653)
Q Consensus       489 ~m~~~~~~p~-~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~t~~~li~~~~~~~~~~~a~~~~~~~~~~~~~  566 (653)
                      +..+.+  |+ ...+..+...+...|++++|+..+++..... .|+ ...+..+..++...|+.++|...+..+.     
T Consensus       397 ~Al~l~--P~~~~~~~~~~~~~~~~g~~eeA~~~~~~~l~~~-~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~-----  468 (553)
T PRK12370        397 ECLKLD--PTRAAAGITKLWITYYHTGIDDAIRLGDELRSQH-LQDNPILLSMQVMFLSLKGKHELARKLTKEIS-----  468 (553)
T ss_pred             HHHhcC--CCChhhHHHHHHHHHhccCHHHHHHHHHHHHHhc-cccCHHHHHHHHHHHHhCCCHHHHHHHHHHhh-----
Confidence            998876  53 2233344555677899999999999987653 344 4446677778889999999999997764     


Q ss_pred             CCCccC-HHHHHHHHHHHHhCCCHHHHHHHHHHHHhC-CCCCCHHhHHHHHHHhhhhhHHhhhhhHHHHHH
Q 048743          567 GVLAVS-RDLYETLLLNFLQGGYFERVMEVIGYMKKQ-NMYVDKLMYKSEFLKHHKHLYRRLKVSNARTEA  635 (653)
Q Consensus       567 ~~~~p~-~~~y~~li~~~~~~g~~~~a~~~~~~m~~~-g~~p~~~t~~~l~~~~~~~~~~~~~~~~~~~~~  635 (653)
                       ...|+ ....+.+...|+..|  ++|...++.+.+. +-.|....+..++...+|+-+.+... +.+.+.
T Consensus       469 -~~~~~~~~~~~~l~~~~~~~g--~~a~~~l~~ll~~~~~~~~~~~~~~~~~~~~g~~~~~~~~-~~~~~~  535 (553)
T PRK12370        469 -TQEITGLIAVNLLYAEYCQNS--ERALPTIREFLESEQRIDNNPGLLPLVLVAHGEAIAEKMW-NKFKNE  535 (553)
T ss_pred             -hccchhHHHHHHHHHHHhccH--HHHHHHHHHHHHHhhHhhcCchHHHHHHHHHhhhHHHHHH-HHhhcc
Confidence             22333 334555566677777  5888878777553 34455555566777888887777554 555543

>KOG0547 consensus Translocase of outer mitochondrial membrane complex, subunit TOM70/TOM72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.98  E-value=2.5e-05  Score=76.14  Aligned_cols=399  Identities=9%  Similarity=-0.030  Sum_probs=222.8

Q ss_pred             HHHHHHHhcCChhhHHHHHHHHHhcCCCcc-HHHHHHHHHHHHhcCChhhhHHHHHHhhhcCCCcccchhHHHHHHHHhh
Q 048743          182 LVLHACVRFGSSLKGQHIMELMSQTGVVAD-AHSIIILAQIHEMNCQRDELKKFKCYIDQLSTPFAHHYQQFYESLLSLH  260 (653)
Q Consensus       182 ~li~~~~~~g~~~~a~~l~~~m~~~g~~p~-~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~li~~~  260 (653)
                      ..-+-|.++|.+++|++.|.+..+.  .|| +.-|.....+|...|+++.+.+.-....+..+..+    -.+..--.++
T Consensus       120 ~~GN~~f~~kkY~eAIkyY~~AI~l--~p~epiFYsNraAcY~~lgd~~~Vied~TkALEl~P~Y~----KAl~RRA~A~  193 (606)
T KOG0547|consen  120 TKGNKFFRNKKYDEAIKYYTQAIEL--CPDEPIFYSNRAACYESLGDWEKVIEDCTKALELNPDYV----KALLRRASAH  193 (606)
T ss_pred             hhhhhhhhcccHHHHHHHHHHHHhc--CCCCchhhhhHHHHHHHHhhHHHHHHHHHHHhhcCcHHH----HHHHHHHHHH
Confidence            4456688899999999999999875  688 56688899999999999999888777776553322    2456666777


Q ss_pred             hccCCHHHHHHHHHHhcccCCCCCCchhhhcccccchhccCCCcccchhhhccchhhhHHHHHHhhhhhHHHHHHhcCCC
Q 048743          261 FKFDDIDAAGELILDMNRYREPLPNPKLRQDAQKPYLISIGSPNLRCGLKLQIMPELLEKDSILKMEGKQELVLFRNGKL  340 (653)
Q Consensus       261 ~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  340 (653)
                      -..|++++|+.=+--..                +.      .++..... ..+....+.........   ....-...-+
T Consensus       194 E~lg~~~eal~D~tv~c----------------i~------~~F~n~s~-~~~~eR~Lkk~a~~ka~---e~~k~nr~p~  247 (606)
T KOG0547|consen  194 EQLGKFDEALFDVTVLC----------------IL------EGFQNASI-EPMAERVLKKQAMKKAK---EKLKENRPPV  247 (606)
T ss_pred             HhhccHHHHHHhhhHHH----------------Hh------hhcccchh-HHHHHHHHHHHHHHHHH---HhhcccCCCC
Confidence            77788887754322220                00      00000000 00000000000000000   0000001112


Q ss_pred             CCCHHHHH-----------------------HHHHHHHh--cC---ChHHHHHHHHHHHhcCCCCCCcc---------cH
Q 048743          341 LHSNRAMA-----------------------KLINGYKK--HG---KNSELSWLLLSIKKEHHSFGEST---------LC  383 (653)
Q Consensus       341 ~p~~~~~~-----------------------~li~~~~~--~~---~~~~a~~~~~~m~~~~~~~~~~~---------~~  383 (653)
                      .|+....+                       .+..++..  .+   .+.+|...+.+-.......++..         .-
T Consensus       248 lPS~~fi~syf~sF~~~~~~~~~~~~~ksDa~l~~~l~~l~~~~~e~Y~~a~~~~te~~~~~~~~~~~n~~d~~le~~A~  327 (606)
T KOG0547|consen  248 LPSATFIASYFGSFHADPKPLFDNKSDKSDAALAEALEALEKGLEEGYLKAYDKATEECLGSESSLSVNEIDAELEYMAE  327 (606)
T ss_pred             CCcHHHHHHHHhhccccccccccCCCccchhhHHHHHHHHHhhCchhHHHHHHHHHHHhhhhhhhccccccchhHHHHHH
Confidence            23322222                       22222211  11   23333333333211111111100         01


Q ss_pred             HHHH--HHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcC-CccCchhhHHHHhhH
Q 048743          384 SDVI--DALIQLGFLEAAHDILDDMELAGHPMDSTTYKSLLTAYYKVKMFREAEALLKQMRKSC-LVQNLSCEMVVSERF  460 (653)
Q Consensus       384 ~~li--~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~-~~p~~~~~~~~~~~l  460 (653)
                      ..++  ..+.-.|+.-.|..-|+..+.....++. .|--+-..|...++.++....|.+..+.. -.||.++.---..++
T Consensus       328 al~~~gtF~fL~g~~~~a~~d~~~~I~l~~~~~~-lyI~~a~~y~d~~~~~~~~~~F~~A~~ldp~n~dvYyHRgQm~fl  406 (606)
T KOG0547|consen  328 ALLLRGTFHFLKGDSLGAQEDFDAAIKLDPAFNS-LYIKRAAAYADENQSEKMWKDFNKAEDLDPENPDVYYHRGQMRFL  406 (606)
T ss_pred             HHHHhhhhhhhcCCchhhhhhHHHHHhcCcccch-HHHHHHHHHhhhhccHHHHHHHHHHHhcCCCCCchhHhHHHHHHH
Confidence            1112  2233357888888888888876433322 26666677888888889888888887632 123333222211111


Q ss_pred             HHHhhhcccccccccccCCHHHHHHHHHHHHHccCCC-CHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCHHHHHH
Q 048743          461 SEVADKSASFTDTSSLMDKSDLAESLIQEMREEAALS-TIYKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRPTVETFYY  539 (653)
Q Consensus       461 ~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~  539 (653)
                                      .++++.|..-|++.....  | +++.|--+--+..+.+++++++..|++.+.+ ++-.+..|+.
T Consensus       407 ----------------L~q~e~A~aDF~Kai~L~--pe~~~~~iQl~~a~Yr~~k~~~~m~~Fee~kkk-FP~~~Evy~~  467 (606)
T KOG0547|consen  407 ----------------LQQYEEAIADFQKAISLD--PENAYAYIQLCCALYRQHKIAESMKTFEEAKKK-FPNCPEVYNL  467 (606)
T ss_pred             ----------------HHHHHHHHHHHHHHhhcC--hhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-CCCCchHHHH
Confidence                            457788888888877654  5 6666666666666888999999999998775 4445678888


Q ss_pred             HHHHHhccCCHHHHHHHHHHHHHHhhh-CCCccCHHH--HHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCCHHhHHHHH-
Q 048743          540 LVYGHSSLEMYRDITILWGDIKRNIES-GVLAVSRDL--YETLLLNFLQGGYFERVMEVIGYMKKQNMYVDKLMYKSEF-  615 (653)
Q Consensus       540 li~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~p~~~~--y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~l~-  615 (653)
                      ....+...++++.|.+.++...+.-.. .++..+...  -..++..- =.+++..|++++.+..+..-+ ....|-++. 
T Consensus       468 fAeiLtDqqqFd~A~k~YD~ai~LE~~~~~~~v~~~plV~Ka~l~~q-wk~d~~~a~~Ll~KA~e~Dpk-ce~A~~tlaq  545 (606)
T KOG0547|consen  468 FAEILTDQQQFDKAVKQYDKAIELEPREHLIIVNAAPLVHKALLVLQ-WKEDINQAENLLRKAIELDPK-CEQAYETLAQ  545 (606)
T ss_pred             HHHHHhhHHhHHHHHHHHHHHHhhccccccccccchhhhhhhHhhhc-hhhhHHHHHHHHHHHHccCch-HHHHHHHHHH
Confidence            889999999999999999887643111 111112211  12222222 237888888888888754422 244555555 


Q ss_pred             -HHhhhhhHHhhhhhHHHHH
Q 048743          616 -LKHHKHLYRRLKVSNARTE  634 (653)
Q Consensus       616 -~~~~~~~~~~~~~~~~~~~  634 (653)
                       ....+++++|.++++.-..
T Consensus       546 ~~lQ~~~i~eAielFEksa~  565 (606)
T KOG0547|consen  546 FELQRGKIDEAIELFEKSAQ  565 (606)
T ss_pred             HHHHHhhHHHHHHHHHHHHH
Confidence             4456778888777776555

>KOG2047 consensus mRNA splicing factor [RNA processing and modification]

Probab=98.96  E-value=7.7e-05  Score=75.22  Aligned_cols=228  Identities=10%  Similarity=0.023  Sum_probs=113.0

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCccCchhhHHHHhhHHH
Q 048743          383 CSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTYKSLLTAYYKVKMFREAEALLKQMRKSCLVQNLSCEMVVSERFSE  462 (653)
Q Consensus       383 ~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~l~~  462 (653)
                      |...++---..|-++....+++++.+..+-......|- ..-+-.+..++++.+++++-...--.|..  .-+....+..
T Consensus       480 Ws~y~DleEs~gtfestk~vYdriidLriaTPqii~Ny-AmfLEeh~yfeesFk~YErgI~LFk~p~v--~diW~tYLtk  556 (835)
T KOG2047|consen  480 WSMYADLEESLGTFESTKAVYDRIIDLRIATPQIIINY-AMFLEEHKYFEESFKAYERGISLFKWPNV--YDIWNTYLTK  556 (835)
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHHHHhcCCHHHHHHH-HHHHHhhHHHHHHHHHHHcCCccCCCccH--HHHHHHHHHH
Confidence            55555555556777777777777777655322222222 11233445567777776654432112222  1111111111


Q ss_pred             HhhhcccccccccccCCHHHHHHHHHHHHHccCCCCHHHHHHHHHHHH----cCCCHHHHHHHHHHHHhcCCCCCH--HH
Q 048743          463 VADKSASFTDTSSLMDKSDLAESLIQEMREEAALSTIYKLNSSIYFFC----KGKMIGDALKIYRRMQEMKIRPTV--ET  536 (653)
Q Consensus       463 ~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~y~~li~~~~----~~g~~~~a~~~~~~m~~~g~~p~~--~t  536 (653)
                      ..++.        ..-.++.|..+|++..+ |++|...  -++--.|+    +.|....|+.++++.. .++++..  ..
T Consensus       557 fi~ry--------gg~klEraRdLFEqaL~-~Cpp~~a--KtiyLlYA~lEEe~GLar~amsiyerat-~~v~~a~~l~m  624 (835)
T KOG2047|consen  557 FIKRY--------GGTKLERARDLFEQALD-GCPPEHA--KTIYLLYAKLEEEHGLARHAMSIYERAT-SAVKEAQRLDM  624 (835)
T ss_pred             HHHHh--------cCCCHHHHHHHHHHHHh-cCCHHHH--HHHHHHHHHHHHHhhHHHHHHHHHHHHH-hcCCHHHHHHH
Confidence            11100        13468889999998888 6655221  11222232    4678888888888854 3455543  35


Q ss_pred             HHHHHHHHhccCCHHHHHHHHHHHHHHhhhCCCccCHHHHH---HHHHHHHhCCCHHHHHHHHHHHHhC-CCCCCHHhHH
Q 048743          537 FYYLVYGHSSLEMYRDITILWGDIKRNIESGVLAVSRDLYE---TLLLNFLQGGYFERVMEVIGYMKKQ-NMYVDKLMYK  612 (653)
Q Consensus       537 ~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~p~~~~y~---~li~~~~~~g~~~~a~~~~~~m~~~-g~~p~~~t~~  612 (653)
                      |++.|.--...=-+.....++++..+      .-|+...-.   .+.+.=++.|..++|..++..--+- .-+.+..-|.
T Consensus       625 yni~I~kaae~yGv~~TR~iYekaIe------~Lp~~~~r~mclrFAdlEtklGEidRARaIya~~sq~~dPr~~~~fW~  698 (835)
T KOG2047|consen  625 YNIYIKKAAEIYGVPRTREIYEKAIE------SLPDSKAREMCLRFADLETKLGEIDRARAIYAHGSQICDPRVTTEFWD  698 (835)
T ss_pred             HHHHHHHHHHHhCCcccHHHHHHHHH------hCChHHHHHHHHHHHHHhhhhhhHHHHHHHHHhhhhcCCCcCChHHHH
Confidence            77666533332223333444544431      223333222   2334445678888888887654321 1122333344


Q ss_pred             HHH--HHhhhhhHHhhhhhHH
Q 048743          613 SEF--LKHHKHLYRRLKVSNA  631 (653)
Q Consensus       613 ~l~--~~~~~~~~~~~~~~~~  631 (653)
                      +.-  ...|||-+.-.++...
T Consensus       699 twk~FEvrHGnedT~keMLRi  719 (835)
T KOG2047|consen  699 TWKEFEVRHGNEDTYKEMLRI  719 (835)
T ss_pred             HHHHHHHhcCCHHHHHHHHHH
Confidence            422  4456665444444433

>KOG1155 consensus Anaphase-promoting complex (APC), Cdc23 subunit [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=98.90  E-value=1.9e-05  Score=76.37  Aligned_cols=268  Identities=11%  Similarity=-0.012  Sum_probs=187.7

Q ss_pred             CCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCC-CCCCcccHHHHHHHHHHcCCHH-HHHHHHHHHHHCCCCCCH
Q 048743          338 GKLLHSNRAMAKLINGYKKHGKNSELSWLLLSIKKEHH-SFGESTLCSDVIDALIQLGFLE-AAHDILDDMELAGHPMDS  415 (653)
Q Consensus       338 ~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~-~~~~~~~~~~li~~~~~~g~~~-~a~~~~~~m~~~g~~p~~  415 (653)
                      .|+.-+...-+..-.+.-...++++|+.+|+++.+... ...|..+|+.++..--.+..+. .|..++.-   ...  -+
T Consensus       256 ~gf~~~~~i~~~~A~~~y~~rDfD~a~s~Feei~knDPYRl~dmdlySN~LYv~~~~skLs~LA~~v~~i---dKy--R~  330 (559)
T KOG1155|consen  256 VGFPNSMYIKTQIAAASYNQRDFDQAESVFEEIRKNDPYRLDDMDLYSNVLYVKNDKSKLSYLAQNVSNI---DKY--RP  330 (559)
T ss_pred             ccCCccHHHHHHHHHHHhhhhhHHHHHHHHHHHHhcCCCcchhHHHHhHHHHHHhhhHHHHHHHHHHHHh---ccC--Cc
Confidence            33433333334444445578899999999999998873 4466777888776543332222 23333221   122  34


Q ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHHcCCccCchhhHHHHhhHHHHhhhcccccccccccCCHHHHHHHHHHHHHccC
Q 048743          416 TTYKSLLTAYYKVKMFREAEALLKQMRKSCLVQNLSCEMVVSERFSEVADKSASFTDTSSLMDKSDLAESLIQEMREEAA  495 (653)
Q Consensus       416 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~  495 (653)
                      .|..++.+-|.-.++.++|...|+...+.  .|..  .......=+.+.           ...+...|..-++...+-+ 
T Consensus       331 ETCCiIaNYYSlr~eHEKAv~YFkRALkL--Np~~--~~aWTLmGHEyv-----------EmKNt~AAi~sYRrAvdi~-  394 (559)
T KOG1155|consen  331 ETCCIIANYYSLRSEHEKAVMYFKRALKL--NPKY--LSAWTLMGHEYV-----------EMKNTHAAIESYRRAVDIN-  394 (559)
T ss_pred             cceeeehhHHHHHHhHHHHHHHHHHHHhc--Ccch--hHHHHHhhHHHH-----------HhcccHHHHHHHHHHHhcC-
Confidence            56677777888889999999999999873  4543  122211223333           3788899999999888754 


Q ss_pred             CC-CHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCC-CHHHHHHHHHHHhccCCHHHHHHHHHHHHHHhhhCCCccCH
Q 048743          496 LS-TIYKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRP-TVETFYYLVYGHSSLEMYRDITILWGDIKRNIESGVLAVSR  573 (653)
Q Consensus       496 ~p-~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p-~~~t~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~p~~  573 (653)
                       | |-..|-.|-++|.-.+.+.-|+-.|++....  +| |+..|.+|.++|.+.++.++|+..|.....     .-..+.
T Consensus       395 -p~DyRAWYGLGQaYeim~Mh~YaLyYfqkA~~~--kPnDsRlw~aLG~CY~kl~~~~eAiKCykrai~-----~~dte~  466 (559)
T KOG1155|consen  395 -PRDYRAWYGLGQAYEIMKMHFYALYYFQKALEL--KPNDSRLWVALGECYEKLNRLEEAIKCYKRAIL-----LGDTEG  466 (559)
T ss_pred             -chhHHHHhhhhHHHHHhcchHHHHHHHHHHHhc--CCCchHHHHHHHHHHHHhccHHHHHHHHHHHHh-----ccccch
Confidence             6 8899999999999999999999999998774  45 688999999999999999999999976652     122356


Q ss_pred             HHHHHHHHHHHhCCCHHHHHHHHHHHHh----CCCCCCHHhHHHHH----HHhhhhhHHhhhhhHHHHH
Q 048743          574 DLYETLLLNFLQGGYFERVMEVIGYMKK----QNMYVDKLMYKSEF----LKHHKHLYRRLKVSNARTE  634 (653)
Q Consensus       574 ~~y~~li~~~~~~g~~~~a~~~~~~m~~----~g~~p~~~t~~~l~----~~~~~~~~~~~~~~~~~~~  634 (653)
                      ..|..+.+.|-+.++.++|.+.|+.-.+    .|..-|......++    ...+++.++|..-+.....
T Consensus       467 ~~l~~LakLye~l~d~~eAa~~yek~v~~~~~eg~~~~~t~ka~~fLA~~f~k~~~~~~As~Ya~~~~~  535 (559)
T KOG1155|consen  467 SALVRLAKLYEELKDLNEAAQYYEKYVEVSELEGEIDDETIKARLFLAEYFKKMKDFDEASYYATLVLK  535 (559)
T ss_pred             HHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhhcccchHHHHHHHHHHHHHHhhcchHHHHHHHHHHhc
Confidence            7899999999999999999888776544    45544433333333    4456788888775555554

>PRK12370 invasion protein regulator; Provisional

Probab=98.90  E-value=1.5e-06  Score=92.80  Aligned_cols=218  Identities=9%  Similarity=-0.068  Sum_probs=156.4

Q ss_pred             cCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHH
Q 048743          357 HGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTYKSLLTAYYKVKMFREAEA  436 (653)
Q Consensus       357 ~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~a~~  436 (653)
                      .+++++|...+++..+.+  |.+...+..+-..+...|++++|...|++..+.+ +.+...+..+...+...|++++|..
T Consensus       317 ~~~~~~A~~~~~~Al~ld--P~~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~-P~~~~a~~~lg~~l~~~G~~~eAi~  393 (553)
T PRK12370        317 QNAMIKAKEHAIKATELD--HNNPQALGLLGLINTIHSEYIVGSLLFKQANLLS-PISADIKYYYGWNLFMAGQLEEALQ  393 (553)
T ss_pred             chHHHHHHHHHHHHHhcC--CCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHH
Confidence            345899999999999988  8888888899889999999999999999998864 3356778888899999999999999


Q ss_pred             HHHHHHHcCCccCchhhHHHHhhHHHHhhhcccccccccccCCHHHHHHHHHHHHHccCCC-CHHHHHHHHHHHHcCCCH
Q 048743          437 LLKQMRKSCLVQNLSCEMVVSERFSEVADKSASFTDTSSLMDKSDLAESLIQEMREEAALS-TIYKLNSSIYFFCKGKMI  515 (653)
Q Consensus       437 ~~~~m~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~~y~~li~~~~~~g~~  515 (653)
                      .+++..+.  .|+..........  .           +...|+.++|...+++...... | +...+..+..+|...|+.
T Consensus       394 ~~~~Al~l--~P~~~~~~~~~~~--~-----------~~~~g~~eeA~~~~~~~l~~~~-p~~~~~~~~la~~l~~~G~~  457 (553)
T PRK12370        394 TINECLKL--DPTRAAAGITKLW--I-----------TYYHTGIDDAIRLGDELRSQHL-QDNPILLSMQVMFLSLKGKH  457 (553)
T ss_pred             HHHHHHhc--CCCChhhHHHHHH--H-----------HHhccCHHHHHHHHHHHHHhcc-ccCHHHHHHHHHHHHhCCCH
Confidence            99999874  4654211111100  1           1226889999999999876542 4 455577788888999999


Q ss_pred             HHHHHHHHHHHhcCCCCCHHH-HHHHHHHHhccCCHHHHHHHHHHHHHHhhhCCCccCHHHHHHHHHHHHhCCCHHHHHH
Q 048743          516 GDALKIYRRMQEMKIRPTVET-FYYLVYGHSSLEMYRDITILWGDIKRNIESGVLAVSRDLYETLLLNFLQGGYFERVME  594 (653)
Q Consensus       516 ~~a~~~~~~m~~~g~~p~~~t-~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~p~~~~y~~li~~~~~~g~~~~a~~  594 (653)
                      ++|...+.++...  .|+..+ .+.+...++..|  +.|...++.+.+.....   +...-+  +-..+.-.|+.+.+..
T Consensus       458 ~eA~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g--~~a~~~l~~ll~~~~~~---~~~~~~--~~~~~~~~g~~~~~~~  528 (553)
T PRK12370        458 ELARKLTKEISTQ--EITGLIAVNLLYAEYCQNS--ERALPTIREFLESEQRI---DNNPGL--LPLVLVAHGEAIAEKM  528 (553)
T ss_pred             HHHHHHHHHhhhc--cchhHHHHHHHHHHHhccH--HHHHHHHHHHHHHhhHh---hcCchH--HHHHHHHHhhhHHHHH
Confidence            9999999987654  455444 344555667777  58888888776543322   222222  3334455677666665


Q ss_pred             HHHHHHhCC
Q 048743          595 VIGYMKKQN  603 (653)
Q Consensus       595 ~~~~m~~~g  603 (653)
                      + +++.+.|
T Consensus       529 ~-~~~~~~~  536 (553)
T PRK12370        529 W-NKFKNED  536 (553)
T ss_pred             H-HHhhccc
Confidence            5 8887664

>KOG1915 consensus Cell cycle control protein (crooked neck) [Cell cycle control, cell division, chromosome partitioning]

Probab=98.85  E-value=0.00013  Score=71.02  Aligned_cols=466  Identities=10%  Similarity=0.048  Sum_probs=273.9

Q ss_pred             hccchhHHHHHHHHhhhhcCCCCchhHHHHHHHhhccCCcchhhhHHHHHHHHHhccCCchhHHHHHHHHHHHHhcCCCc
Q 048743           31 KNHQVGEAWETFNDFQRLHGIPERHVVNRFITDLCYSAEPHWLQKACDLVLKIQKGKADLLQLDLLAKLSLSLARAQMPV  110 (653)
Q Consensus        31 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~t~~~li~~~~~~g~~~  110 (653)
                      .++++..|..+|+..... ...+...|--.+..=.+...   +..|..++.+....-|- .|. .|-..+..=-..|++.
T Consensus        85 sq~e~~RARSv~ERALdv-d~r~itLWlkYae~Emknk~---vNhARNv~dRAvt~lPR-Vdq-lWyKY~ymEE~LgNi~  158 (677)
T KOG1915|consen   85 SQKEIQRARSVFERALDV-DYRNITLWLKYAEFEMKNKQ---VNHARNVWDRAVTILPR-VDQ-LWYKYIYMEEMLGNIA  158 (677)
T ss_pred             hHHHHHHHHHHHHHHHhc-ccccchHHHHHHHHHHhhhh---HhHHHHHHHHHHHhcch-HHH-HHHHHHHHHHHhcccH
Confidence            456778888999988773 24455556555555444444   77888888877554322 122 2333344445578899


Q ss_pred             hHHHHHHHHHcCccCCCchhHHHHHHHHhhcccccccchHHHHHHHHHhhhhhhhhcCCcc--CCCCchhhHHHHHHHHH
Q 048743          111 PASMILRLMLGRENLPCSDLLLLVFVHMVKTEIGTCLASNFLIQLCDVFLHLSAEKSNGAE--LIKPDTMIFNLVLHACV  188 (653)
Q Consensus       111 ~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~--~~~~~~~~yn~li~~~~  188 (653)
                      -|.++|++-.+.  .|+.-.|.+.                  ++...++..++.|+.++++  ..+|++.+|---.+-=-
T Consensus       159 gaRqiferW~~w--~P~eqaW~sf------------------I~fElRykeieraR~IYerfV~~HP~v~~wikyarFE~  218 (677)
T KOG1915|consen  159 GARQIFERWMEW--EPDEQAWLSF------------------IKFELRYKEIERARSIYERFVLVHPKVSNWIKYARFEE  218 (677)
T ss_pred             HHHHHHHHHHcC--CCcHHHHHHH------------------HHHHHHhhHHHHHHHHHHHHheecccHHHHHHHHHHHH
Confidence            999999888775  7888887766                  4445556677888888774  45788888877777777


Q ss_pred             hcCChhhHHHHHHHHHhcCCCccHHH----HHHHHHHHHhcCChhhhHHHHHHhhhcCCCcccchhHHHHHHHHhhhccC
Q 048743          189 RFGSSLKGQHIMELMSQTGVVADAHS----IIILAQIHEMNCQRDELKKFKCYIDQLSTPFAHHYQQFYESLLSLHFKFD  264 (653)
Q Consensus       189 ~~g~~~~a~~l~~~m~~~g~~p~~~t----~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g  264 (653)
                      ++|+...|..+|+...+.  ..|...    |.+...--.++...+.|.-+++.....-+.+-.  ...|..+...=-+-|
T Consensus       219 k~g~~~~aR~VyerAie~--~~~d~~~e~lfvaFA~fEe~qkE~ERar~iykyAld~~pk~ra--eeL~k~~~~fEKqfG  294 (677)
T KOG1915|consen  219 KHGNVALARSVYERAIEF--LGDDEEAEILFVAFAEFEERQKEYERARFIYKYALDHIPKGRA--EELYKKYTAFEKQFG  294 (677)
T ss_pred             hcCcHHHHHHHHHHHHHH--hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcccH--HHHHHHHHHHHHHhc
Confidence            888888888888887754  223332    333333333566677777777766554322111  112333332222233


Q ss_pred             CH---HHHHHHHHHhcccCCCCCCchhhhcccccchhccCCCcccchhh-hccchhhhHHHHHHhhhhhHHHHHHhcCCC
Q 048743          265 DI---DAAGELILDMNRYREPLPNPKLRQDAQKPYLISIGSPNLRCGLK-LQIMPELLEKDSILKMEGKQELVLFRNGKL  340 (653)
Q Consensus       265 ~~---~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  340 (653)
                      |.   +++.--=.++                .+...+.........-.. +.+....-..+.+-..      ..-.-.++
T Consensus       295 d~~gIEd~Iv~KRk~----------------qYE~~v~~np~nYDsWfdylrL~e~~g~~~~Ire~------yErAIanv  352 (677)
T KOG1915|consen  295 DKEGIEDAIVGKRKF----------------QYEKEVSKNPYNYDSWFDYLRLEESVGDKDRIRET------YERAIANV  352 (677)
T ss_pred             chhhhHHHHhhhhhh----------------HHHHHHHhCCCCchHHHHHHHHHHhcCCHHHHHHH------HHHHHccC
Confidence            33   3332222222                000001000000000000 0000000000000000      01112345


Q ss_pred             CCCH-------HHH---HHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHH----HHHHHcCCHHHHHHHHHHH
Q 048743          341 LHSN-------RAM---AKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVI----DALIQLGFLEAAHDILDDM  406 (653)
Q Consensus       341 ~p~~-------~~~---~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li----~~~~~~g~~~~a~~~~~~m  406 (653)
                      +|-.       .+|   |..+-.=....+.+.+.++|+....  .+|....|+.-+=    ..-.++.++..|.+++...
T Consensus       353 pp~~ekr~W~RYIYLWinYalyeEle~ed~ertr~vyq~~l~--lIPHkkFtFaKiWlmyA~feIRq~~l~~ARkiLG~A  430 (677)
T KOG1915|consen  353 PPASEKRYWRRYIYLWINYALYEELEAEDVERTRQVYQACLD--LIPHKKFTFAKIWLMYAQFEIRQLNLTGARKILGNA  430 (677)
T ss_pred             CchhHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHh--hcCcccchHHHHHHHHHHHHHHHcccHHHHHHHHHH
Confidence            5533       122   1122222357889999999999887  3566666665553    3444678899999999876


Q ss_pred             HHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCccCchhhHHHHhhHHHHhhhcccccccccccCCHHHHHHH
Q 048743          407 ELAGHPMDSTTYKSLLTAYYKVKMFREAEALLKQMRKSCLVQNLSCEMVVSERFSEVADKSASFTDTSSLMDKSDLAESL  486 (653)
Q Consensus       407 ~~~g~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~a~~~  486 (653)
                      .  |..|-..+|...|..-.+.+++|.+..+++....-  .|.....-+-.+-+             -...|+.+.|..+
T Consensus       431 I--G~cPK~KlFk~YIelElqL~efDRcRkLYEkfle~--~Pe~c~~W~kyaEl-------------E~~LgdtdRaRai  493 (677)
T KOG1915|consen  431 I--GKCPKDKLFKGYIELELQLREFDRCRKLYEKFLEF--SPENCYAWSKYAEL-------------ETSLGDTDRARAI  493 (677)
T ss_pred             h--ccCCchhHHHHHHHHHHHHhhHHHHHHHHHHHHhc--ChHhhHHHHHHHHH-------------HHHhhhHHHHHHH
Confidence            5  67899999999999999999999999999999874  46542211111111             1247999999999


Q ss_pred             HHHHHHcc-CCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHH--H-Hh--ccC-----------C
Q 048743          487 IQEMREEA-ALSTIYKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRPTVETFYYLVY--G-HS--SLE-----------M  549 (653)
Q Consensus       487 ~~~m~~~~-~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~--~-~~--~~~-----------~  549 (653)
                      |.-..... ..-....|-+.|+.=...|.+++|..+++.+.+..-  -...|..+..  + ..  ..+           .
T Consensus       494 felAi~qp~ldmpellwkaYIdFEi~~~E~ekaR~LYerlL~rt~--h~kvWisFA~fe~s~~~~~~~~~~~~~e~~~~~  571 (677)
T KOG1915|consen  494 FELAISQPALDMPELLWKAYIDFEIEEGEFEKARALYERLLDRTQ--HVKVWISFAKFEASASEGQEDEDLAELEITDEN  571 (677)
T ss_pred             HHHHhcCcccccHHHHHHHhhhhhhhcchHHHHHHHHHHHHHhcc--cchHHHhHHHHhccccccccccchhhhhcchhH
Confidence            98777543 222667888999988899999999999999997522  2223333322  1 11  222           4


Q ss_pred             HHHHHHHHHHHHHHhhhCCC
Q 048743          550 YRDITILWGDIKRNIESGVL  569 (653)
Q Consensus       550 ~~~a~~~~~~~~~~~~~~~~  569 (653)
                      +..|..+|+.....+++.+-
T Consensus       572 ~~~AR~iferAn~~~k~~~~  591 (677)
T KOG1915|consen  572 IKRARKIFERANTYLKESTP  591 (677)
T ss_pred             HHHHHHHHHHHHHHHHhcCc
Confidence            55778888877666555543

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=98.84  E-value=5.3e-06  Score=84.49  Aligned_cols=244  Identities=16%  Similarity=0.118  Sum_probs=171.1

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHhc-----CCCCCCcc-cHHHHHHHHHHcCCHHHHHHHHHHHHHC-----C-CC
Q 048743          345 RAMAKLINGYKKHGKNSELSWLLLSIKKE-----HHSFGEST-LCSDVIDALIQLGFLEAAHDILDDMELA-----G-HP  412 (653)
Q Consensus       345 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~-----~~~~~~~~-~~~~li~~~~~~g~~~~a~~~~~~m~~~-----g-~~  412 (653)
                      .+...+...|...|++++|+.+++...+.     |...+... ..+.+-..|...+++++|..+|+++..-     | ..
T Consensus       200 ~~~~~La~~y~~~g~~e~A~~l~k~Al~~l~k~~G~~hl~va~~l~~~a~~y~~~~k~~eAv~ly~~AL~i~e~~~G~~h  279 (508)
T KOG1840|consen  200 RTLRNLAEMYAVQGRLEKAEPLCKQALRILEKTSGLKHLVVASMLNILALVYRSLGKYDEAVNLYEEALTIREEVFGEDH  279 (508)
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHccCccCHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHhcCCCC
Confidence            46667999999999999999999986654     20111111 1344566788889999999999998542     2 12


Q ss_pred             CC-HHHHHHHHHHHHHcCChHHHHHHHHHHHHc-----CCccCchhhHHHHhhHHHHhhhcccccccccccCCHHHHHHH
Q 048743          413 MD-STTYKSLLTAYYKVKMFREAEALLKQMRKS-----CLVQNLSCEMVVSERFSEVADKSASFTDTSSLMDKSDLAESL  486 (653)
Q Consensus       413 p~-~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-----~~~p~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~a~~~  486 (653)
                      |. ..+++.|-.+|.+.|++++|...++...+-     |..+.. ....+.....           .+...++.++|..+
T Consensus       280 ~~va~~l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~-v~~~l~~~~~-----------~~~~~~~~Eea~~l  347 (508)
T KOG1840|consen  280 PAVAATLNNLAVLYYKQGKFAEAEEYCERALEIYEKLLGASHPE-VAAQLSELAA-----------ILQSMNEYEEAKKL  347 (508)
T ss_pred             HHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHHhhccChHH-HHHHHHHHHH-----------HHHHhcchhHHHHH
Confidence            22 347788888999999999999988776541     111111 1111111111           13357899999888


Q ss_pred             HHHHHHc---cCCC----CHHHHHHHHHHHHcCCCHHHHHHHHHHHHhc------CCCCC-HHHHHHHHHHHhccCCHHH
Q 048743          487 IQEMREE---AALS----TIYKLNSSIYFFCKGKMIGDALKIYRRMQEM------KIRPT-VETFYYLVYGHSSLEMYRD  552 (653)
Q Consensus       487 ~~~m~~~---~~~p----~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~------g~~p~-~~t~~~li~~~~~~~~~~~  552 (653)
                      ++...+.   -..+    ...+|+.|-..|.+.|++++|.+++++.+..      +..+. ...++.|-..|.+.+++++
T Consensus       348 ~q~al~i~~~~~g~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~~~~~l~~la~~~~~~k~~~~  427 (508)
T KOG1840|consen  348 LQKALKIYLDAPGEDNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQILRELLGKKDYGVGKPLNQLAEAYEELKKYEE  427 (508)
T ss_pred             HHHHHHHHHhhccccchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCcChhhhHHHHHHHHHHHHhcccch
Confidence            8755431   1112    3467999999999999999999999988752      12233 4567888889999999999


Q ss_pred             HHHHHHHHHHHhhhCCCc--cCHHHHHHHHHHHHhCCCHHHHHHHHHHHH
Q 048743          553 ITILWGDIKRNIESGVLA--VSRDLYETLLLNFLQGGYFERVMEVIGYMK  600 (653)
Q Consensus       553 a~~~~~~~~~~~~~~~~~--p~~~~y~~li~~~~~~g~~~~a~~~~~~m~  600 (653)
                      |.++|.+...-++..|..  -...+|..|...|.+.|+++.|+++.+...
T Consensus       428 a~~l~~~~~~i~~~~g~~~~~~~~~~~nL~~~Y~~~g~~e~a~~~~~~~~  477 (508)
T KOG1840|consen  428 AEQLFEEAKDIMKLCGPDHPDVTYTYLNLAALYRAQGNYEAAEELEEKVL  477 (508)
T ss_pred             HHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHcccHHHHHHHHHHHH
Confidence            999999876554444432  234578899999999999999999987664

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=98.82  E-value=1.4e-06  Score=88.62  Aligned_cols=250  Identities=13%  Similarity=0.070  Sum_probs=180.5

Q ss_pred             hhHHHHHHHHHhcCChhhHHHHHHHHHhc-----C-CCccHHHH-HHHHHHHHhcCChhhhHHHHHHhhhcCC----Ccc
Q 048743          178 MIFNLVLHACVRFGSSLKGQHIMELMSQT-----G-VVADAHSI-IILAQIHEMNCQRDELKKFKCYIDQLST----PFA  246 (653)
Q Consensus       178 ~~yn~li~~~~~~g~~~~a~~l~~~m~~~-----g-~~p~~~t~-~~ll~~~~~~g~~~~a~~~~~~~~~~~~----~~~  246 (653)
                      .+...|...|...|+++.|..+++...+.     | ..|...+. +.+...|...+++++|..+|+.+.....    +.-
T Consensus       200 ~~~~~La~~y~~~g~~e~A~~l~k~Al~~l~k~~G~~hl~va~~l~~~a~~y~~~~k~~eAv~ly~~AL~i~e~~~G~~h  279 (508)
T KOG1840|consen  200 RTLRNLAEMYAVQGRLEKAEPLCKQALRILEKTSGLKHLVVASMLNILALVYRSLGKYDEAVNLYEEALTIREEVFGEDH  279 (508)
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHccCccCHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHhcCCCC
Confidence            34555999999999999999999998764     2 25666664 4578889999999999999988876522    333


Q ss_pred             cchhHHHHHHHHhhhccCCHHHHHHHHHHhcccCCCCCCchhhhcccccchhccCCCcccchhhhccchhhhHHHHHHhh
Q 048743          247 HHYQQFYESLLSLHFKFDDIDAAGELILDMNRYREPLPNPKLRQDAQKPYLISIGSPNLRCGLKLQIMPELLEKDSILKM  326 (653)
Q Consensus       247 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  326 (653)
                      +....+++.|-.+|.+.|++++|...+++.++....                                            
T Consensus       280 ~~va~~l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~--------------------------------------------  315 (508)
T KOG1840|consen  280 PAVAATLNNLAVLYYKQGKFAEAEEYCERALEIYEK--------------------------------------------  315 (508)
T ss_pred             HHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHH--------------------------------------------
Confidence            444568899999999999999999999887431100                                            


Q ss_pred             hhhHHHHHHhcCCCCCCHH-HHHHHHHHHHhcCChHHHHHHHHHHHhcCC---CCCC---cccHHHHHHHHHHcCCHHHH
Q 048743          327 EGKQELVLFRNGKLLHSNR-AMAKLINGYKKHGKNSELSWLLLSIKKEHH---SFGE---STLCSDVIDALIQLGFLEAA  399 (653)
Q Consensus       327 ~~~~~~~~~~~~~~~p~~~-~~~~li~~~~~~~~~~~a~~~~~~m~~~~~---~~~~---~~~~~~li~~~~~~g~~~~a  399 (653)
                               ......|... .++.+...|+..+++++|..+++...+.-.   -+.+   ..+|+.|-..|-+.|++.+|
T Consensus       316 ---------~~~~~~~~v~~~l~~~~~~~~~~~~~Eea~~l~q~al~i~~~~~g~~~~~~a~~~~nl~~l~~~~gk~~ea  386 (508)
T KOG1840|consen  316 ---------LLGASHPEVAAQLSELAAILQSMNEYEEAKKLLQKALKIYLDAPGEDNVNLAKIYANLAELYLKMGKYKEA  386 (508)
T ss_pred             ---------hhccChHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHhcchhHH
Confidence                     0111223333 457788888899999999999886443211   1122   33588899999999999999


Q ss_pred             HHHHHHHHHC------CCCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHHcC--CccCchhhHHHHhhHHHHhhhcccc
Q 048743          400 HDILDDMELA------GHPM-DSTTYKSLLTAYYKVKMFREAEALLKQMRKSC--LVQNLSCEMVVSERFSEVADKSASF  470 (653)
Q Consensus       400 ~~~~~~m~~~------g~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~--~~p~~~~~~~~~~~l~~~~~~~~~~  470 (653)
                      .++|++....      +..+ ....++.|-.+|.+.+++.+|.++|.+-..-.  +.|+.                    
T Consensus       387 ~~~~k~ai~~~~~~~~~~~~~~~~~l~~la~~~~~~k~~~~a~~l~~~~~~i~~~~g~~~--------------------  446 (508)
T KOG1840|consen  387 EELYKKAIQILRELLGKKDYGVGKPLNQLAEAYEELKKYEEAEQLFEEAKDIMKLCGPDH--------------------  446 (508)
T ss_pred             HHHHHHHHHHHHhcccCcChhhhHHHHHHHHHHHHhcccchHHHHHHHHHHHHHHhCCCC--------------------
Confidence            9999887432      1122 24577888888888888998988887765421  11221                    


Q ss_pred             cccccccCCHHHHHHHHHHHHHccCCC-CHHHHHHHHHHHHcCCCHHHHHHHHHHHH
Q 048743          471 TDTSSLMDKSDLAESLIQEMREEAALS-TIYKLNSSIYFFCKGKMIGDALKIYRRMQ  526 (653)
Q Consensus       471 ~~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~~y~~li~~~~~~g~~~~a~~~~~~m~  526 (653)
                                                | ...+|..|...|.+.|++++|+++.+...
T Consensus       447 --------------------------~~~~~~~~nL~~~Y~~~g~~e~a~~~~~~~~  477 (508)
T KOG1840|consen  447 --------------------------PDVTYTYLNLAALYRAQGNYEAAEELEEKVL  477 (508)
T ss_pred             --------------------------CchHHHHHHHHHHHHHcccHHHHHHHHHHHH
Confidence                                      3 45679999999999999999999887766

>PF12854 PPR_1: PPR repeat

Probab=98.81  E-value=5.5e-09  Score=63.35  Aligned_cols=33  Identities=18%  Similarity=0.432  Sum_probs=24.6

Q ss_pred             cCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHH
Q 048743          494 AALSTIYKLNSSIYFFCKGKMIGDALKIYRRMQ  526 (653)
Q Consensus       494 ~~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~  526 (653)
                      |+.||..+||+||.+||+.|++++|.++|++|.
T Consensus         2 G~~Pd~~ty~~lI~~~Ck~G~~~~A~~l~~~M~   34 (34)
T PF12854_consen    2 GCEPDVVTYNTLIDGYCKAGRVDEAFELFDEMK   34 (34)
T ss_pred             CCCCcHhHHHHHHHHHHHCCCHHHHHHHHHhCc
Confidence            566777777777777777777777777777763

>KOG1129 consensus TPR repeat-containing protein [General function prediction only]

Probab=98.79  E-value=6.5e-07  Score=82.23  Aligned_cols=229  Identities=10%  Similarity=-0.017  Sum_probs=175.2

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHH-HHHHHHHH
Q 048743          348 AKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTY-KSLLTAYY  426 (653)
Q Consensus       348 ~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~-~~li~~~~  426 (653)
                      +.+-++|.+.|.+.+|.+.|+.-....   +.+.||-.|-++|.+..++..|+.++.+-.+.  .|-.+|| .-+...+-
T Consensus       227 ~Q~gkCylrLgm~r~AekqlqssL~q~---~~~dTfllLskvY~ridQP~~AL~~~~~gld~--fP~~VT~l~g~ARi~e  301 (478)
T KOG1129|consen  227 QQMGKCYLRLGMPRRAEKQLQSSLTQF---PHPDTFLLLSKVYQRIDQPERALLVIGEGLDS--FPFDVTYLLGQARIHE  301 (478)
T ss_pred             HHHHHHHHHhcChhhhHHHHHHHhhcC---CchhHHHHHHHHHHHhccHHHHHHHHhhhhhc--CCchhhhhhhhHHHHH
Confidence            467788889999999999888876654   44556888999999999999999999888775  3555555 45667788


Q ss_pred             HcCChHHHHHHHHHHHHcCCccCchhhHHHHhhHHHHhhhcccccccccccCCHHHHHHHHHHHHHccCCCCHHHHHHHH
Q 048743          427 KVKMFREAEALLKQMRKSCLVQNLSCEMVVSERFSEVADKSASFTDTSSLMDKSDLAESLIQEMREEAALSTIYKLNSSI  506 (653)
Q Consensus       427 ~~~~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~y~~li  506 (653)
                      ..++.++|.++++...+.  .|...   -..+|+          ...|.-.++++.|+..++++..-|+ -+...|+.+-
T Consensus       302 am~~~~~a~~lYk~vlk~--~~~nv---EaiAci----------a~~yfY~~~PE~AlryYRRiLqmG~-~speLf~Nig  365 (478)
T KOG1129|consen  302 AMEQQEDALQLYKLVLKL--HPINV---EAIACI----------AVGYFYDNNPEMALRYYRRILQMGA-QSPELFCNIG  365 (478)
T ss_pred             HHHhHHHHHHHHHHHHhc--CCccc---eeeeee----------eeccccCCChHHHHHHHHHHHHhcC-CChHHHhhHH
Confidence            889999999999988773  23220   001111          1224457889999999999998887 3677889999


Q ss_pred             HHHHcCCCHHHHHHHHHHHHhcCCCCCH--HHHHHHHHHHhccCCHHHHHHHHHHHHHHhhhCCCccCHHHHHHHHHHHH
Q 048743          507 YFFCKGKMIGDALKIYRRMQEMKIRPTV--ETFYYLVYGHSSLEMYRDITILWGDIKRNIESGVLAVSRDLYETLLLNFL  584 (653)
Q Consensus       507 ~~~~~~g~~~~a~~~~~~m~~~g~~p~~--~t~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~p~~~~y~~li~~~~  584 (653)
                      -+|.-.+++|-++.-|++....--.|+.  ..|-.|-......|++..|.+.|+....     .-.-....+|.|...-.
T Consensus       366 LCC~yaqQ~D~~L~sf~RAlstat~~~~aaDvWYNlg~vaV~iGD~nlA~rcfrlaL~-----~d~~h~ealnNLavL~~  440 (478)
T KOG1129|consen  366 LCCLYAQQIDLVLPSFQRALSTATQPGQAADVWYNLGFVAVTIGDFNLAKRCFRLALT-----SDAQHGEALNNLAVLAA  440 (478)
T ss_pred             HHHHhhcchhhhHHHHHHHHhhccCcchhhhhhhccceeEEeccchHHHHHHHHHHhc-----cCcchHHHHHhHHHHHh
Confidence            9999999999999999998876555664  3577777788889999999999987652     12335567888888888


Q ss_pred             hCCCHHHHHHHHHHHHhC
Q 048743          585 QGGYFERVMEVIGYMKKQ  602 (653)
Q Consensus       585 ~~g~~~~a~~~~~~m~~~  602 (653)
                      +.|+++.|..+++.....
T Consensus       441 r~G~i~~Arsll~~A~s~  458 (478)
T KOG1129|consen  441 RSGDILGARSLLNAAKSV  458 (478)
T ss_pred             hcCchHHHHHHHHHhhhh
Confidence            999999999999988743

>PF12569 NARP1: NMDA receptor-regulated protein 1 ; InterPro: IPR021183 This group represents N-terminal acetyltransferase A (NatA) auxiliary subunit and represents a non-catalytic component of the NatA N-terminal acetyltransferase, which catalyzes acetylation of proteins beginning with Met-Ser, Met-Gly and Met-Ala

Probab=98.78  E-value=2e-05  Score=81.44  Aligned_cols=265  Identities=13%  Similarity=0.087  Sum_probs=177.1

Q ss_pred             CCCHHH-HHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcC-----CHHHHHHHHHHHHHCCCCCC
Q 048743          341 LHSNRA-MAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLG-----FLEAAHDILDDMELAGHPMD  414 (653)
Q Consensus       341 ~p~~~~-~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g-----~~~~a~~~~~~m~~~g~~p~  414 (653)
                      .+|... ....-..+.+.|+.++|..++..+...+  |.+..-|..+..+..-..     +.+....+++++...-  |.
T Consensus        34 I~Dk~~~~E~rA~ll~kLg~~~eA~~~y~~Li~rN--Pdn~~Yy~~L~~~~g~~~~~~~~~~~~~~~~y~~l~~~y--p~  109 (517)
T PF12569_consen   34 ILDKLAVLEKRAELLLKLGRKEEAEKIYRELIDRN--PDNYDYYRGLEEALGLQLQLSDEDVEKLLELYDELAEKY--PR  109 (517)
T ss_pred             CCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC--CCcHHHHHHHHHHHhhhcccccccHHHHHHHHHHHHHhC--cc
Confidence            345443 4567778889999999999999999999  888776777777774333     5778889999887653  43


Q ss_pred             HHHHHHHHHHHHHcCCh-HHHHHHHHHHHHcCCccCchhhHHHHhhHHHHhhhcccccccccccCCHHHHHHHHHHHHHc
Q 048743          415 STTYKSLLTAYYKVKMF-REAEALLKQMRKSCLVQNLSCEMVVSERFSEVADKSASFTDTSSLMDKSDLAESLIQEMREE  493 (653)
Q Consensus       415 ~~~~~~li~~~~~~~~~-~~a~~~~~~m~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~  493 (653)
                      ......+.-.+.....+ ..+..++..+...|+++ ....+      ..+          |....+......++......
T Consensus       110 s~~~~rl~L~~~~g~~F~~~~~~yl~~~l~KgvPs-lF~~l------k~L----------y~d~~K~~~i~~l~~~~~~~  172 (517)
T PF12569_consen  110 SDAPRRLPLDFLEGDEFKERLDEYLRPQLRKGVPS-LFSNL------KPL----------YKDPEKAAIIESLVEEYVNS  172 (517)
T ss_pred             ccchhHhhcccCCHHHHHHHHHHHHHHHHhcCCch-HHHHH------HHH----------HcChhHHHHHHHHHHHHHHh
Confidence            33333333223322233 24555667777777643 21111      111          22233444455555544321


Q ss_pred             ----c----------CCCCHH--HHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCC-HHHHHHHHHHHhccCCHHHHHHH
Q 048743          494 ----A----------ALSTIY--KLNSSIYFFCKGKMIGDALKIYRRMQEMKIRPT-VETFYYLVYGHSSLEMYRDITIL  556 (653)
Q Consensus       494 ----~----------~~p~~~--~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~t~~~li~~~~~~~~~~~a~~~  556 (653)
                          +          -.|+..  ++.-+...|...|++++|++++++.++.  .|+ +..|..-.+.+-+.|++.+|.+.
T Consensus       173 l~~~~~~~~~~~~~~~~p~~~lw~~~~lAqhyd~~g~~~~Al~~Id~aI~h--tPt~~ely~~KarilKh~G~~~~Aa~~  250 (517)
T PF12569_consen  173 LESNGSFSNGDDEEKEPPSTLLWTLYFLAQHYDYLGDYEKALEYIDKAIEH--TPTLVELYMTKARILKHAGDLKEAAEA  250 (517)
T ss_pred             hcccCCCCCccccccCCchHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhc--CCCcHHHHHHHHHHHHHCCCHHHHHHH
Confidence                1          124443  4455677888999999999999998886  566 55677888889999999999999


Q ss_pred             HHHHHHHhhhCCCcc-CHHHHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCCHHhHH--HHH--------HHhhhhhHHh
Q 048743          557 WGDIKRNIESGVLAV-SRDLYETLLLNFLQGGYFERVMEVIGYMKKQNMYVDKLMYK--SEF--------LKHHKHLYRR  625 (653)
Q Consensus       557 ~~~~~~~~~~~~~~p-~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~--~l~--------~~~~~~~~~~  625 (653)
                      .+..+      .+.+ |...-+-.+..+.|+|++++|.+++......+..|-...+.  .++        +...|+...|
T Consensus       251 ~~~Ar------~LD~~DRyiNsK~aKy~LRa~~~e~A~~~~~~Ftr~~~~~~~~L~~mQc~Wf~~e~a~a~~r~~~~~~A  324 (517)
T PF12569_consen  251 MDEAR------ELDLADRYINSKCAKYLLRAGRIEEAEKTASLFTREDVDPLSNLNDMQCMWFETECAEAYLRQGDYGLA  324 (517)
T ss_pred             HHHHH------hCChhhHHHHHHHHHHHHHCCCHHHHHHHHHhhcCCCCCcccCHHHHHHHHHHHHHHHHHHHHhhHHHH
Confidence            98886      3333 56666677888999999999999999998777644332221  122        3345778888


Q ss_pred             hhhhHHHHH
Q 048743          626 LKVSNARTE  634 (653)
Q Consensus       626 ~~~~~~~~~  634 (653)
                      .+.+..+.+
T Consensus       325 Lk~~~~v~k  333 (517)
T PF12569_consen  325 LKRFHAVLK  333 (517)
T ss_pred             HHHHHHHHH
Confidence            887777776

N-terminal acetylation plays a role in normal eukaryotic translation and processing, protect against proteolytic degradation and protein turnover. NAT1 anchors ARD1 and NAT5 to the ribosome and may present the N- terminal of nascent polypeptides for acetylation [], [].

>KOG1129 consensus TPR repeat-containing protein [General function prediction only]

Probab=98.77  E-value=8e-07  Score=81.65  Aligned_cols=230  Identities=8%  Similarity=-0.095  Sum_probs=169.8

Q ss_pred             HHHHHHHHhcCChhhhHHHHHHhhhcCCCcccchhHHHHHHHHhhhccCCHHHHHHHHHHhcccCCCCCCchhhhccccc
Q 048743          216 IILAQIHEMNCQRDELKKFKCYIDQLSTPFAHHYQQFYESLLSLHFKFDDIDAAGELILDMNRYREPLPNPKLRQDAQKP  295 (653)
Q Consensus       216 ~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~  295 (653)
                      .-+.++|.+.|.+.+|.+.++...+...     ...+|-.|-.+|.+.++++.|+.+|.+-.+                 
T Consensus       227 ~Q~gkCylrLgm~r~AekqlqssL~q~~-----~~dTfllLskvY~ridQP~~AL~~~~~gld-----------------  284 (478)
T KOG1129|consen  227 QQMGKCYLRLGMPRRAEKQLQSSLTQFP-----HPDTFLLLSKVYQRIDQPERALLVIGEGLD-----------------  284 (478)
T ss_pred             HHHHHHHHHhcChhhhHHHHHHHhhcCC-----chhHHHHHHHHHHHhccHHHHHHHHhhhhh-----------------
Confidence            4688889999999999988877665431     112688888999999999999998877622                 


Q ss_pred             chhccCCCcccchhhhccchhhhHHHHHHhhhhhHHHHHHhcCCCCCCHHHH-HHHHHHHHhcCChHHHHHHHHHHHhcC
Q 048743          296 YLISIGSPNLRCGLKLQIMPELLEKDSILKMEGKQELVLFRNGKLLHSNRAM-AKLINGYKKHGKNSELSWLLLSIKKEH  374 (653)
Q Consensus       296 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~-~~li~~~~~~~~~~~a~~~~~~m~~~~  374 (653)
                                                                  ..|-.+|| .-.-..+-..++.++|.++++...+..
T Consensus       285 --------------------------------------------~fP~~VT~l~g~ARi~eam~~~~~a~~lYk~vlk~~  320 (478)
T KOG1129|consen  285 --------------------------------------------SFPFDVTYLLGQARIHEAMEQQEDALQLYKLVLKLH  320 (478)
T ss_pred             --------------------------------------------cCCchhhhhhhhHHHHHHHHhHHHHHHHHHHHHhcC
Confidence                                                        33555555 345556667788999999999998887


Q ss_pred             CCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCccCchhhH
Q 048743          375 HSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTYKSLLTAYYKVKMFREAEALLKQMRKSCLVQNLSCEM  454 (653)
Q Consensus       375 ~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~  454 (653)
                        +.++.....+...|.-.++++.|+..++++.+.|+. ++..|+.+--+|.-.+++|-++.-|++....--.|+....+
T Consensus       321 --~~nvEaiAcia~~yfY~~~PE~AlryYRRiLqmG~~-speLf~NigLCC~yaqQ~D~~L~sf~RAlstat~~~~aaDv  397 (478)
T KOG1129|consen  321 --PINVEAIACIAVGYFYDNNPEMALRYYRRILQMGAQ-SPELFCNIGLCCLYAQQIDLVLPSFQRALSTATQPGQAADV  397 (478)
T ss_pred             --CccceeeeeeeeccccCCChHHHHHHHHHHHHhcCC-ChHHHhhHHHHHHhhcchhhhHHHHHHHHhhccCcchhhhh
Confidence              777777888888899999999999999999999986 78888888888888899999988888776643334431111


Q ss_pred             HHHhhHHHHhhhcccccccccccCCHHHHHHHHHHHHHccCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHh
Q 048743          455 VVSERFSEVADKSASFTDTSSLMDKSDLAESLIQEMREEAALSTIYKLNSSIYFFCKGKMIGDALKIYRRMQE  527 (653)
Q Consensus       455 ~~~~~l~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~  527 (653)
                      -+..-            ......|++..|.+.|+-....+- -+...+|.|.-.-.+.|++++|..+++....
T Consensus       398 WYNlg------------~vaV~iGD~nlA~rcfrlaL~~d~-~h~ealnNLavL~~r~G~i~~Arsll~~A~s  457 (478)
T KOG1129|consen  398 WYNLG------------FVAVTIGDFNLAKRCFRLALTSDA-QHGEALNNLAVLAARSGDILGARSLLNAAKS  457 (478)
T ss_pred             hhccc------------eeEEeccchHHHHHHHHHHhccCc-chHHHHHhHHHHHhhcCchHHHHHHHHHhhh
Confidence            11000            001136888888888887766542 2566788887777888888888888887655

>PF12854 PPR_1: PPR repeat

Probab=98.77  E-value=7.8e-09  Score=62.69  Aligned_cols=34  Identities=15%  Similarity=0.315  Sum_probs=29.9

Q ss_pred             cCCCCchhhHHHHHHHHHhcCChhhHHHHHHHHH
Q 048743          171 ELIKPDTMIFNLVLHACVRFGSSLKGQHIMELMS  204 (653)
Q Consensus       171 ~~~~~~~~~yn~li~~~~~~g~~~~a~~l~~~m~  204 (653)
                      +|..||.++||+||++||+.|++++|.++|++|+
T Consensus         1 ~G~~Pd~~ty~~lI~~~Ck~G~~~~A~~l~~~M~   34 (34)
T PF12854_consen    1 RGCEPDVVTYNTLIDGYCKAGRVDEAFELFDEMK   34 (34)
T ss_pred             CCCCCcHhHHHHHHHHHHHCCCHHHHHHHHHhCc
Confidence            3678999999999999999999999999999884

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.72  E-value=0.00019  Score=67.18  Aligned_cols=214  Identities=13%  Similarity=0.099  Sum_probs=96.2

Q ss_pred             HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCccCchhhHHHHhhHHHHhhhccccccccc
Q 048743          396 LEAAHDILDDMELAGHPMDSTTYKSLLTAYYKVKMFREAEALLKQMRKSCLVQNLSCEMVVSERFSEVADKSASFTDTSS  475 (653)
Q Consensus       396 ~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~~~~  475 (653)
                      -+.|++++-.+.+.  -|  ..--.|+--|.+.+++.+|..+.+++     .|......++...+.....      +-.+
T Consensus       270 gEgALqVLP~L~~~--IP--EARlNL~iYyL~q~dVqeA~~L~Kdl-----~PttP~EyilKgvv~aalG------Qe~g  334 (557)
T KOG3785|consen  270 GEGALQVLPSLMKH--IP--EARLNLIIYYLNQNDVQEAISLCKDL-----DPTTPYEYILKGVVFAALG------QETG  334 (557)
T ss_pred             CccHHHhchHHHhh--Ch--HhhhhheeeecccccHHHHHHHHhhc-----CCCChHHHHHHHHHHHHhh------hhcC
Confidence            35566666555442  11  12223344456667777666655433     3444333333222221111      0011


Q ss_pred             ccCCHHHHHHHHHHHHHccCCCCH-HHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCCHHHHH
Q 048743          476 LMDKSDLAESLIQEMREEAALSTI-YKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRPTVETFYYLVYGHSSLEMYRDIT  554 (653)
Q Consensus       476 ~~~~~~~a~~~~~~m~~~~~~p~~-~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~  554 (653)
                      +...+..|.+.|+-..+.+..-|+ .---++..++.-..++++++-.++.....-..-|...| .+.++.+..|.+.+|+
T Consensus       335 SreHlKiAqqffqlVG~Sa~ecDTIpGRQsmAs~fFL~~qFddVl~YlnSi~sYF~NdD~Fn~-N~AQAk~atgny~eaE  413 (557)
T KOG3785|consen  335 SREHLKIAQQFFQLVGESALECDTIPGRQSMASYFFLSFQFDDVLTYLNSIESYFTNDDDFNL-NLAQAKLATGNYVEAE  413 (557)
T ss_pred             cHHHHHHHHHHHHHhcccccccccccchHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcchhhh-HHHHHHHHhcChHHHH
Confidence            223344455555555544433221 12334444444555566666666655544222233222 3456666666666666


Q ss_pred             HHHHHHHHHhhhCCCccCHHHHHH-HHHHHHhCCCHHHHHHHHHHHHhCCCCCCHHhHHHHH---HHhhhhhHHhhhhhH
Q 048743          555 ILWGDIKRNIESGVLAVSRDLYET-LLLNFLQGGYFERVMEVIGYMKKQNMYVDKLMYKSEF---LKHHKHLYRRLKVSN  630 (653)
Q Consensus       555 ~~~~~~~~~~~~~~~~p~~~~y~~-li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~l~---~~~~~~~~~~~~~~~  630 (653)
                      ++|-.+.    ...+ -|..+|.+ +.++|.+.++++-|.+++-.+   ..+-+..+..-+|   |-..+.+.-+.++++
T Consensus       414 elf~~is----~~~i-kn~~~Y~s~LArCyi~nkkP~lAW~~~lk~---~t~~e~fsLLqlIAn~CYk~~eFyyaaKAFd  485 (557)
T KOG3785|consen  414 ELFIRIS----GPEI-KNKILYKSMLARCYIRNKKPQLAWDMMLKT---NTPSERFSLLQLIANDCYKANEFYYAAKAFD  485 (557)
T ss_pred             HHHhhhc----Chhh-hhhHHHHHHHHHHHHhcCCchHHHHHHHhc---CCchhHHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence            6663331    1111 23444443 344566666666554443332   3333344444444   445555555555554


Q ss_pred             HHH
Q 048743          631 ART  633 (653)
Q Consensus       631 ~~~  633 (653)
                      .+.
T Consensus       486 ~lE  488 (557)
T KOG3785|consen  486 ELE  488 (557)
T ss_pred             HHH
Confidence            443

>KOG1174 consensus Anaphase-promoting complex (APC), subunit 7 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=98.69  E-value=0.00037  Score=66.76  Aligned_cols=288  Identities=11%  Similarity=-0.038  Sum_probs=179.9

Q ss_pred             HHhcCChhhHHHHHHHHHhcCCCccHHH-HHHHHHHHHhcCChhhhHHHHHHhhhcCCCcccchhHHHHHHHHhhhccCC
Q 048743          187 CVRFGSSLKGQHIMELMSQTGVVADAHS-IIILAQIHEMNCQRDELKKFKCYIDQLSTPFAHHYQQFYESLLSLHFKFDD  265 (653)
Q Consensus       187 ~~~~g~~~~a~~l~~~m~~~g~~p~~~t-~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~  265 (653)
                      .+..++...|...+-.......-||.+. ...+.+++...|+.+.+...|+......+ ......-.|..|+   .+.|+
T Consensus       206 q~~~~~hs~a~~t~l~le~~~~lr~NvhLl~~lak~~~~~Gdn~~a~~~Fe~~~~~dp-y~i~~MD~Ya~LL---~~eg~  281 (564)
T KOG1174|consen  206 QMFNFKHSDASQTFLMLHDNTTLRCNEHLMMALGKCLYYNGDYFQAEDIFSSTLCANP-DNVEAMDLYAVLL---GQEGG  281 (564)
T ss_pred             HHHhcccchhhhHHHHHHhhccCCccHHHHHHHhhhhhhhcCchHHHHHHHHHhhCCh-hhhhhHHHHHHHH---HhccC
Confidence            3345555555555555554444454443 56777777788888888777777655432 2221222344443   45677


Q ss_pred             HHHHHHHHHHhcccCCCCCCchhhhcccccchhccCCCcccchhhhccchhhhHHHHHHhhhhhHHHHHHhcCCCCCCHH
Q 048743          266 IDAAGELILDMNRYREPLPNPKLRQDAQKPYLISIGSPNLRCGLKLQIMPELLEKDSILKMEGKQELVLFRNGKLLHSNR  345 (653)
Q Consensus       266 ~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~  345 (653)
                      .+....+...+...                                                            ..-+..
T Consensus       282 ~e~~~~L~~~Lf~~------------------------------------------------------------~~~ta~  301 (564)
T KOG1174|consen  282 CEQDSALMDYLFAK------------------------------------------------------------VKYTAS  301 (564)
T ss_pred             HhhHHHHHHHHHhh------------------------------------------------------------hhcchh
Confidence            77666666665210                                                            001122


Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 048743          346 AMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTYKSLLTAY  425 (653)
Q Consensus       346 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~  425 (653)
                      .|..-.......++++.|+.+-++..+..  +.+...|-.--..+...|++++|.-.|+...... +-+...|.-|+..|
T Consensus       302 ~wfV~~~~l~~~K~~~rAL~~~eK~I~~~--~r~~~alilKG~lL~~~~R~~~A~IaFR~Aq~La-p~rL~~Y~GL~hsY  378 (564)
T KOG1174|consen  302 HWFVHAQLLYDEKKFERALNFVEKCIDSE--PRNHEALILKGRLLIALERHTQAVIAFRTAQMLA-PYRLEIYRGLFHSY  378 (564)
T ss_pred             hhhhhhhhhhhhhhHHHHHHHHHHHhccC--cccchHHHhccHHHHhccchHHHHHHHHHHHhcc-hhhHHHHHHHHHHH
Confidence            23333344456788999999999888766  5555545555567778899999999999876542 23678999999999


Q ss_pred             HHcCChHHHHHHHHHHHHcCCccCc--hhhHHH-HhhHHHHhhhcccccccccccCCHHHHHHHHHHHHHccCCC-CHHH
Q 048743          426 YKVKMFREAEALLKQMRKSCLVQNL--SCEMVV-SERFSEVADKSASFTDTSSLMDKSDLAESLIQEMREEAALS-TIYK  501 (653)
Q Consensus       426 ~~~~~~~~a~~~~~~m~~~~~~p~~--~~~~~~-~~~l~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~~  501 (653)
                      ...|++.+|...-+...+.  -|..  +.+++. ..|              +-....-++|..++++-....  | -+..
T Consensus       379 LA~~~~kEA~~~An~~~~~--~~~sA~~LtL~g~~V~--------------~~dp~~rEKAKkf~ek~L~~~--P~Y~~A  440 (564)
T KOG1174|consen  379 LAQKRFKEANALANWTIRL--FQNSARSLTLFGTLVL--------------FPDPRMREKAKKFAEKSLKIN--PIYTPA  440 (564)
T ss_pred             HhhchHHHHHHHHHHHHHH--hhcchhhhhhhcceee--------------ccCchhHHHHHHHHHhhhccC--CccHHH
Confidence            9999999998776655442  2322  222221 111              001233466777776655433  4 2334


Q ss_pred             HHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHH
Q 048743          502 LNSSIYFFCKGKMIGDALKIYRRMQEMKIRPTVETFYYLVYGHSSLEMYRDITILWGDIK  561 (653)
Q Consensus       502 y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~~~  561 (653)
                      -+.+...+...|..+.++.+++.-..  ..||....+.|-+.+...+.+.+|...|....
T Consensus       441 V~~~AEL~~~Eg~~~D~i~LLe~~L~--~~~D~~LH~~Lgd~~~A~Ne~Q~am~~y~~AL  498 (564)
T KOG1174|consen  441 VNLIAELCQVEGPTKDIIKLLEKHLI--IFPDVNLHNHLGDIMRAQNEPQKAMEYYYKAL  498 (564)
T ss_pred             HHHHHHHHHhhCccchHHHHHHHHHh--hccccHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            56666777778888888888887655  36787777888888888888888887776654

>KOG2376 consensus Signal recognition particle, subunit Srp72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.66  E-value=0.00046  Score=69.22  Aligned_cols=372  Identities=12%  Similarity=-0.001  Sum_probs=195.5

Q ss_pred             hHHHHHHHHHHHHhcCCCchHHHHHHHHHcCccCCCchhHHHHHHHHhhcccccccchHHHHHHHHHhhhhhhhhcCCcc
Q 048743           92 QLDLLAKLSLSLARAQMPVPASMILRLMLGRENLPCSDLLLLVFVHMVKTEIGTCLASNFLIQLCDVFLHLSAEKSNGAE  171 (653)
Q Consensus        92 ~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  171 (653)
                      |..+...-.+.+-|.|++++|+.+|+.+.+.+.. +   +..-+.+-+            +.......++      +.+.
T Consensus       109 ~~~ll~L~AQvlYrl~~ydealdiY~~L~kn~~d-d---~d~~~r~nl------------~a~~a~l~~~------~~q~  166 (652)
T KOG2376|consen  109 DDKLLELRAQVLYRLERYDEALDIYQHLAKNNSD-D---QDEERRANL------------LAVAAALQVQ------LLQS  166 (652)
T ss_pred             chHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCc-h---HHHHHHHHH------------HHHHHhhhHH------HHHh
Confidence            3345556667788899999999999999776421 2   222111100            0000000000      0111


Q ss_pred             CCCCchhhHHHHHH---HHHhcCChhhHHHHHHHHHhcC-------------CCccHHHH-HHHHHHHHhcCChhhhHHH
Q 048743          172 LIKPDTMIFNLVLH---ACVRFGSSLKGQHIMELMSQTG-------------VVADAHSI-IILAQIHEMNCQRDELKKF  234 (653)
Q Consensus       172 ~~~~~~~~yn~li~---~~~~~g~~~~a~~l~~~m~~~g-------------~~p~~~t~-~~ll~~~~~~g~~~~a~~~  234 (653)
                      .+.....+|..+-+   .+...|++.+|+++++...+-+             +.-+..+. .-+.-.+...|+-+++.++
T Consensus       167 v~~v~e~syel~yN~Ac~~i~~gky~qA~elL~kA~~~~~e~l~~~d~~eEeie~el~~IrvQlayVlQ~~Gqt~ea~~i  246 (652)
T KOG2376|consen  167 VPEVPEDSYELLYNTACILIENGKYNQAIELLEKALRICREKLEDEDTNEEEIEEELNPIRVQLAYVLQLQGQTAEASSI  246 (652)
T ss_pred             ccCCCcchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHhhcccccchhhHHHHHHHHHHHHHHHHHHhcchHHHHHH
Confidence            11112335554443   4566899999999999883221             11111221 1234445567888888888


Q ss_pred             HHHhhhcCCCcccchhHHHHHHHHhhhccCCHH-HHHHHHHHhcccCCCCCCchhhhcccccchhccCCCcccchhhhcc
Q 048743          235 KCYIDQLSTPFAHHYQQFYESLLSLHFKFDDID-AAGELILDMNRYREPLPNPKLRQDAQKPYLISIGSPNLRCGLKLQI  313 (653)
Q Consensus       235 ~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~-~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  313 (653)
                      +..+.+...++...-...-|.|+.+-....-++ .++..++....                                  .
T Consensus       247 y~~~i~~~~~D~~~~Av~~NNLva~~~d~~~~d~~~l~~k~~~~~----------------------------------~  292 (652)
T KOG2376|consen  247 YVDIIKRNPADEPSLAVAVNNLVALSKDQNYFDGDLLKSKKSQVF----------------------------------K  292 (652)
T ss_pred             HHHHHHhcCCCchHHHHHhcchhhhccccccCchHHHHHHHHHHH----------------------------------H
Confidence            888877776666555555566655543333333 22222222200                                  0


Q ss_pred             chhhhHHHHHHhhhhhHHHHHHhcCCCCCCHHHHH-HHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHH
Q 048743          314 MPELLEKDSILKMEGKQELVLFRNGKLLHSNRAMA-KLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQ  392 (653)
Q Consensus       314 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~-~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~  392 (653)
                      .++..     ......          -.-.....| .++..|..  ..+.+.++-......   .|. +.+.+++..+.+
T Consensus       293 l~~~~-----l~~Ls~----------~qk~~i~~N~~lL~l~tn--k~~q~r~~~a~lp~~---~p~-~~~~~ll~~~t~  351 (652)
T KOG2376|consen  293 LAEFL-----LSKLSK----------KQKQAIYRNNALLALFTN--KMDQVRELSASLPGM---SPE-SLFPILLQEATK  351 (652)
T ss_pred             hHHHH-----HHHHHH----------HHHHHHHHHHHHHHHHhh--hHHHHHHHHHhCCcc---Cch-HHHHHHHHHHHH
Confidence            00000     000000          000111122 33333332  234444444433322   233 336777766665


Q ss_pred             cC--CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHH--------HHHHcCCccCchhhHHHHhhHHH
Q 048743          393 LG--FLEAAHDILDDMELAGHPMDSTTYKSLLTAYYKVKMFREAEALLK--------QMRKSCLVQNLSCEMVVSERFSE  462 (653)
Q Consensus       393 ~g--~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~a~~~~~--------~m~~~~~~p~~~~~~~~~~~l~~  462 (653)
                      ..  ....+.+++...-+....-.....-.++......|+++.|.+++.        .+.+.+..|....+++.      
T Consensus       352 ~~~~~~~ka~e~L~~~~~~~p~~s~~v~L~~aQl~is~gn~~~A~~il~~~~~~~~ss~~~~~~~P~~V~aiv~------  425 (652)
T KOG2376|consen  352 VREKKHKKAIELLLQFADGHPEKSKVVLLLRAQLKISQGNPEVALEILSLFLESWKSSILEAKHLPGTVGAIVA------  425 (652)
T ss_pred             HHHHHHhhhHHHHHHHhccCCchhHHHHHHHHHHHHhcCCHHHHHHHHHHHhhhhhhhhhhhccChhHHHHHHH------
Confidence            42  356677777777665333335566677888889999999999998        55555555543222211      


Q ss_pred             HhhhcccccccccccCCHHHHHHHHHHHHHc--cCCCCHHHHHHHHH----HHHcCCCHHHHHHHHHHHHhcCCCCCHHH
Q 048743          463 VADKSASFTDTSSLMDKSDLAESLIQEMREE--AALSTIYKLNSSIY----FFCKGKMIGDALKIYRRMQEMKIRPTVET  536 (653)
Q Consensus       463 ~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~--~~~p~~~~y~~li~----~~~~~g~~~~a~~~~~~m~~~g~~p~~~t  536 (653)
                                +|.+.++.+.|-.++++....  .-.+.....++++.    .-.++|+-++|..+++++.+. .++|..+
T Consensus       426 ----------l~~~~~~~~~a~~vl~~Ai~~~~~~~t~s~~l~~~~~~aa~f~lr~G~~~ea~s~leel~k~-n~~d~~~  494 (652)
T KOG2376|consen  426 ----------LYYKIKDNDSASAVLDSAIKWWRKQQTGSIALLSLMREAAEFKLRHGNEEEASSLLEELVKF-NPNDTDL  494 (652)
T ss_pred             ----------HHHhccCCccHHHHHHHHHHHHHHhcccchHHHhHHHHHhHHHHhcCchHHHHHHHHHHHHh-CCchHHH
Confidence                      233456666666666554421  00112223333333    334678999999999998875 3668888


Q ss_pred             HHHHHHHHhccCCHHHHHHHHH
Q 048743          537 FYYLVYGHSSLEMYRDITILWG  558 (653)
Q Consensus       537 ~~~li~~~~~~~~~~~a~~~~~  558 (653)
                      ...++.+|++. +++.|..+-.
T Consensus       495 l~~lV~a~~~~-d~eka~~l~k  515 (652)
T KOG2376|consen  495 LVQLVTAYARL-DPEKAESLSK  515 (652)
T ss_pred             HHHHHHHHHhc-CHHHHHHHhh
Confidence            88888888876 4566665543

>KOG4162 consensus Predicted calmodulin-binding protein [Signal transduction mechanisms]

Probab=98.65  E-value=0.00092  Score=69.33  Aligned_cols=241  Identities=10%  Similarity=-0.014  Sum_probs=127.8

Q ss_pred             hHHHHHHHHHHHHhccchhHHHHHHHHhhhhcCCCCchhHHHHHHHhhccCCcchhhhHHHHHHHHHhccCCchhHHHHH
Q 048743           18 SREVLLRKLESASKNHQVGEAWETFNDFQRLHGIPERHVVNRFITDLCYSAEPHWLQKACDLVLKIQKGKADLLQLDLLA   97 (653)
Q Consensus        18 ~~~~~~~~i~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~t~~   97 (653)
                      ++.+|..+.-++.+.|++..+.+.|++... ..+.....|..+-..+.-+|.   -..|+.+++.-....+..+|...+-
T Consensus       322 d~ai~d~Lt~al~~~g~f~~lae~fE~~~~-~~~~~~e~w~~~als~saag~---~s~Av~ll~~~~~~~~~ps~~s~~L  397 (799)
T KOG4162|consen  322 DAAIFDHLTFALSRCGQFEVLAEQFEQALP-FSFGEHERWYQLALSYSAAGS---DSKAVNLLRESLKKSEQPSDISVLL  397 (799)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHhH-hhhhhHHHHHHHHHHHHHhcc---chHHHHHHHhhcccccCCCcchHHH
Confidence            456777777777788888888888887655 233444566666666655665   3577777766544443233455555


Q ss_pred             HHHHHHHh-cCCCchHHHHHHHHHcC--c----cCCCchhHHHHHHHH-hhcccccccchHHHHHHHHHh--hhhhhhhc
Q 048743           98 KLSLSLAR-AQMPVPASMILRLMLGR--E----NLPCSDLLLLVFVHM-VKTEIGTCLASNFLIQLCDVF--LHLSAEKS  167 (653)
Q Consensus        98 ~li~~~~~-~g~~~~a~~~~~~m~~~--g----~~p~~~~~~~li~~~-~~~~~~~~~~~~~l~~~~~~~--~~~~~a~~  167 (653)
                      ..-..|.+ -+.+++++..-.+..+.  |    +.|-...+.-+--.. .+.. .    ....-+.+.+.  ..++++.+
T Consensus       398 masklc~e~l~~~eegldYA~kai~~~~~~~~~l~~~~~l~lGi~y~~~A~~a-~----~~seR~~~h~kslqale~av~  472 (799)
T KOG4162|consen  398 MASKLCIERLKLVEEGLDYAQKAISLLGGQRSHLKPRGYLFLGIAYGFQARQA-N----LKSERDALHKKSLQALEEAVQ  472 (799)
T ss_pred             HHHHHHHhchhhhhhHHHHHHHHHHHhhhhhhhhhhhHHHHHHHHHHhHhhcC-C----ChHHHHHHHHHHHHHHHHHHh
Confidence            44444444 35556666555555441  1    112111111110000 0000 0    00111111110  02233322


Q ss_pred             CCccCCCCchhhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCccHHHHHHHHHHHHhcCChhhhHHHHHHhhhc-CCCcc
Q 048743          168 NGAELIKPDTMIFNLVLHACVRFGSSLKGQHIMELMSQTGVVADAHSIIILAQIHEMNCQRDELKKFKCYIDQL-STPFA  246 (653)
Q Consensus       168 ~~~~~~~~~~~~yn~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~-~~~~~  246 (653)
                      .  .+-.|++.-|-++  -|+..++++.|.+..++..+-+-.-+...|..+.-.+...+++.+|..+.+..... +....
T Consensus       473 ~--d~~dp~~if~lal--q~A~~R~l~sAl~~~~eaL~l~~~~~~~~whLLALvlSa~kr~~~Al~vvd~al~E~~~N~~  548 (799)
T KOG4162|consen  473 F--DPTDPLVIFYLAL--QYAEQRQLTSALDYAREALALNRGDSAKAWHLLALVLSAQKRLKEALDVVDAALEEFGDNHV  548 (799)
T ss_pred             c--CCCCchHHHHHHH--HHHHHHhHHHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHhhhhhh
Confidence            1  2334555555333  46677889999999888888755667777888888888888888888876655432 21111


Q ss_pred             cchhHHHHHHHHhhhccCCHHHHHHHHHHh
Q 048743          247 HHYQQFYESLLSLHFKFDDIDAAGELILDM  276 (653)
Q Consensus       247 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~m  276 (653)
                      -.     ..-++.=..-+|.++|......+
T Consensus       549 l~-----~~~~~i~~~~~~~e~~l~t~~~~  573 (799)
T KOG4162|consen  549 LM-----DGKIHIELTFNDREEALDTCIHK  573 (799)
T ss_pred             hc-----hhhhhhhhhcccHHHHHHHHHHH
Confidence            00     01111122357777777766665

>PF12569 NARP1: NMDA receptor-regulated protein 1 ; InterPro: IPR021183 This group represents N-terminal acetyltransferase A (NatA) auxiliary subunit and represents a non-catalytic component of the NatA N-terminal acetyltransferase, which catalyzes acetylation of proteins beginning with Met-Ser, Met-Gly and Met-Ala

Probab=98.65  E-value=5.2e-05  Score=78.35  Aligned_cols=238  Identities=9%  Similarity=0.020  Sum_probs=147.8

Q ss_pred             CCCCHHHHHHHHHHHH------hcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCH-HHHHHHHHHHHHCCCC
Q 048743          340 LLHSNRAMAKLINGYK------KHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFL-EAAHDILDDMELAGHP  412 (653)
Q Consensus       340 ~~p~~~~~~~li~~~~------~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~-~~a~~~~~~m~~~g~~  412 (653)
                      ..|+...|...+..+.      ...+.+....+++++....  |.... ...+.-.+.....+ ..+...+..+...|++
T Consensus        67 rNPdn~~Yy~~L~~~~g~~~~~~~~~~~~~~~~y~~l~~~y--p~s~~-~~rl~L~~~~g~~F~~~~~~yl~~~l~KgvP  143 (517)
T PF12569_consen   67 RNPDNYDYYRGLEEALGLQLQLSDEDVEKLLELYDELAEKY--PRSDA-PRRLPLDFLEGDEFKERLDEYLRPQLRKGVP  143 (517)
T ss_pred             HCCCcHHHHHHHHHHHhhhcccccccHHHHHHHHHHHHHhC--ccccc-hhHhhcccCCHHHHHHHHHHHHHHHHhcCCc
Confidence            3466666644444443      1235677788888887665  32222 22222222222223 3466677777888875


Q ss_pred             CCHHHHHHHHHHHHHcCChHHHHHHHHHHHHc----CCc-------cCchhhHHHHhhHHHHhhhcccccccccccCCHH
Q 048743          413 MDSTTYKSLLTAYYKVKMFREAEALLKQMRKS----CLV-------QNLSCEMVVSERFSEVADKSASFTDTSSLMDKSD  481 (653)
Q Consensus       413 p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----~~~-------p~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~  481 (653)
                      +   +|+.|-..|....+.+-..+++......    +-.       .....+.+....+.+         ..|...|+.+
T Consensus       144 s---lF~~lk~Ly~d~~K~~~i~~l~~~~~~~l~~~~~~~~~~~~~~~~p~~~lw~~~~lA---------qhyd~~g~~~  211 (517)
T PF12569_consen  144 S---LFSNLKPLYKDPEKAAIIESLVEEYVNSLESNGSFSNGDDEEKEPPSTLLWTLYFLA---------QHYDYLGDYE  211 (517)
T ss_pred             h---HHHHHHHHHcChhHHHHHHHHHHHHHHhhcccCCCCCccccccCCchHHHHHHHHHH---------HHHHHhCCHH
Confidence            3   4555555666555566666666665542    111       111122222222222         2355689999


Q ss_pred             HHHHHHHHHHHccCCCC-HHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHH
Q 048743          482 LAESLIQEMREEAALST-IYKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRPTVETFYYLVYGHSSLEMYRDITILWGDI  560 (653)
Q Consensus       482 ~a~~~~~~m~~~~~~p~-~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~~  560 (653)
                      +|...+++..+..  |+ +..|..-.+.|-+.|++.+|.+.++..+..... |...-+-....+.++|++++|.+++...
T Consensus       212 ~Al~~Id~aI~ht--Pt~~ely~~KarilKh~G~~~~Aa~~~~~Ar~LD~~-DRyiNsK~aKy~LRa~~~e~A~~~~~~F  288 (517)
T PF12569_consen  212 KALEYIDKAIEHT--PTLVELYMTKARILKHAGDLKEAAEAMDEARELDLA-DRYINSKCAKYLLRAGRIEEAEKTASLF  288 (517)
T ss_pred             HHHHHHHHHHhcC--CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhCChh-hHHHHHHHHHHHHHCCCHHHHHHHHHhh
Confidence            9999999888765  64 667888888999999999999999998876433 6666677788889999999999999777


Q ss_pred             HHHhhhCCCcc--CHH----HH--HHHHHHHHhCCCHHHHHHHHHHH
Q 048743          561 KRNIESGVLAV--SRD----LY--ETLLLNFLQGGYFERVMEVIGYM  599 (653)
Q Consensus       561 ~~~~~~~~~~p--~~~----~y--~~li~~~~~~g~~~~a~~~~~~m  599 (653)
                      .+.    +..|  |..    +|  .....+|.+.|++..|++-|...
T Consensus       289 tr~----~~~~~~~L~~mQc~Wf~~e~a~a~~r~~~~~~ALk~~~~v  331 (517)
T PF12569_consen  289 TRE----DVDPLSNLNDMQCMWFETECAEAYLRQGDYGLALKRFHAV  331 (517)
T ss_pred             cCC----CCCcccCHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHH
Confidence            522    2223  222    12  23456788999988877665544

N-terminal acetylation plays a role in normal eukaryotic translation and processing, protect against proteolytic degradation and protein turnover. NAT1 anchors ARD1 and NAT5 to the ribosome and may present the N- terminal of nascent polypeptides for acetylation [], [].

>cd05804 StaR_like StaR_like; a well-conserved protein found in bacteria, plants, and animals

Probab=98.63  E-value=0.0002  Score=72.51  Aligned_cols=63  Identities=14%  Similarity=0.160  Sum_probs=37.3

Q ss_pred             HHHHHHhccCCHHHHHHHHHHHHHHhhh---CCCccCHHHHHHHHH--HHHhCCCHHHHHHHHHHHHhC
Q 048743          539 YLVYGHSSLEMYRDITILWGDIKRNIES---GVLAVSRDLYETLLL--NFLQGGYFERVMEVIGYMKKQ  602 (653)
Q Consensus       539 ~li~~~~~~~~~~~a~~~~~~~~~~~~~---~~~~p~~~~y~~li~--~~~~~g~~~~a~~~~~~m~~~  602 (653)
                      ....++...|+.+.|..+++.+....+.   .+... ..+-..++.  ++...|++++|.+++.+....
T Consensus       269 ~~a~~~~~~~~~~~a~~~L~~l~~~~~~~~~~~~~~-~~~~~~~l~A~~~~~~g~~~~A~~~L~~al~~  336 (355)
T cd05804         269 HAALALAGAGDKDALDKLLAALKGRASSADDNKQPA-RDVGLPLAEALYAFAEGNYATALELLGPVRDD  336 (355)
T ss_pred             HHHHHHhcCCCHHHHHHHHHHHHHHHhccCchhhhH-HhhhHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            4566677788888888888777654333   11111 111122333  345788888888888776543

A family member from Streptomyces toyocaensis, StaR is part of a gene cluster involved in the biosynthesis of glycopeptide antibiotics (GPAs), specifically A47934. It has been speculated that StaR could be a flavoprotein hydroxylating a tyrosine sidechain. Some family members have been annotated as proteins containing tetratricopeptide (TPR) repeats, which may at least indicate mostly alpha-helical secondary structure.

>cd05804 StaR_like StaR_like; a well-conserved protein found in bacteria, plants, and animals

Probab=98.59  E-value=0.00044  Score=69.96  Aligned_cols=310  Identities=7%  Similarity=-0.078  Sum_probs=179.0

Q ss_pred             hhhHHHHHHHHHhcCChhhHHHHHHHHHhcC-CCccHHHH-HHHHHHHHhcCChhhhHHHHHHhhhcCCCcccchhHHHH
Q 048743          177 TMIFNLVLHACVRFGSSLKGQHIMELMSQTG-VVADAHSI-IILAQIHEMNCQRDELKKFKCYIDQLSTPFAHHYQQFYE  254 (653)
Q Consensus       177 ~~~yn~li~~~~~~g~~~~a~~l~~~m~~~g-~~p~~~t~-~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~  254 (653)
                      ...|..+...+...|+.+.+.+-+....+.. ..++.... ......+...|+.+++.++++......+.+.    ..++
T Consensus         6 ~~a~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~a~~~~~~g~~~~A~~~~~~~l~~~P~~~----~a~~   81 (355)
T cd05804           6 ALGHAAAALLLLLGGERPAAAAKAAAAAQALAARATERERAHVEALSAWIAGDLPKALALLEQLLDDYPRDL----LALK   81 (355)
T ss_pred             HHHHHHHHHHHHhcCCcchHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCcH----HHHH
Confidence            3456666666667777877766666655432 12232222 2223344567888888888887766532221    1222


Q ss_pred             H---HHHhhhccCCHHHHHHHHHHhcccCCCCCCchhhhcccccchhccCCCcccchhhhccchhhhHHHHHHhhhhhHH
Q 048743          255 S---LLSLHFKFDDIDAAGELILDMNRYREPLPNPKLRQDAQKPYLISIGSPNLRCGLKLQIMPELLEKDSILKMEGKQE  331 (653)
Q Consensus       255 ~---li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  331 (653)
                      .   +.......+..+.+.+.+...                                                       
T Consensus        82 ~~~~~~~~~~~~~~~~~~~~~l~~~-------------------------------------------------------  106 (355)
T cd05804          82 LHLGAFGLGDFSGMRDHVARVLPLW-------------------------------------------------------  106 (355)
T ss_pred             HhHHHHHhcccccCchhHHHHHhcc-------------------------------------------------------
Confidence            1   111112233444443333221                                                       


Q ss_pred             HHHHhcCCCCCCH-HHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCC
Q 048743          332 LVLFRNGKLLHSN-RAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAG  410 (653)
Q Consensus       332 ~~~~~~~~~~p~~-~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g  410 (653)
                            ....|+. .....+...+...|++++|...+++..+..  |.+...+..+...+...|++++|...+++..+..
T Consensus       107 ------~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~~--p~~~~~~~~la~i~~~~g~~~eA~~~l~~~l~~~  178 (355)
T cd05804         107 ------APENPDYWYLLGMLAFGLEEAGQYDRAEEAARRALELN--PDDAWAVHAVAHVLEMQGRFKEGIAFMESWRDTW  178 (355)
T ss_pred             ------CcCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC--CCCcHHHHHHHHHHHHcCCHHHHHHHHHhhhhcc
Confidence                  1122333 344556677889999999999999999887  7777778899999999999999999999987643


Q ss_pred             C-CCCH--HHHHHHHHHHHHcCChHHHHHHHHHHHHcCCccCchhhHHHHhhHHHHhhhcccccccccccCCHHHHHHH-
Q 048743          411 H-PMDS--TTYKSLLTAYYKVKMFREAEALLKQMRKSCLVQNLSCEMVVSERFSEVADKSASFTDTSSLMDKSDLAESL-  486 (653)
Q Consensus       411 ~-~p~~--~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~a~~~-  486 (653)
                      . .|+.  ..|..+...+...|++++|..++++.......+...........+.....          ..|..+.+.+. 
T Consensus       179 ~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~----------~~g~~~~~~~w~  248 (355)
T cd05804         179 DCSSMLRGHNWWHLALFYLERGDYEAALAIYDTHIAPSAESDPALDLLDAASLLWRLE----------LAGHVDVGDRWE  248 (355)
T ss_pred             CCCcchhHHHHHHHHHHHHHCCCHHHHHHHHHHHhccccCCChHHHHhhHHHHHHHHH----------hcCCCChHHHHH
Confidence            2 2332  34567888899999999999999998643211121111101101111111          12322222222 


Q ss_pred             --HHHHHHccC-CCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCC---C---HHHHHHHHH--HHhccCCHHHHHH
Q 048743          487 --IQEMREEAA-LSTIYKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRP---T---VETFYYLVY--GHSSLEMYRDITI  555 (653)
Q Consensus       487 --~~~m~~~~~-~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p---~---~~t~~~li~--~~~~~~~~~~a~~  555 (653)
                        ...-..... .......-....++...|+.++|..+++.+......+   .   ..+-..++.  ++...|+.++|.+
T Consensus       249 ~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~a~~~L~~l~~~~~~~~~~~~~~~~~~~~~l~A~~~~~~g~~~~A~~  328 (355)
T cd05804         249 DLADYAAWHFPDHGLAFNDLHAALALAGAGDKDALDKLLAALKGRASSADDNKQPARDVGLPLAEALYAFAEGNYATALE  328 (355)
T ss_pred             HHHHHHHhhcCcccchHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhccCchhhhHHhhhHHHHHHHHHHHcCCHHHHHH
Confidence              111111100 1112222357777788999999999999987633221   1   112222333  4568899999999


Q ss_pred             HHHHHHHH
Q 048743          556 LWGDIKRN  563 (653)
Q Consensus       556 ~~~~~~~~  563 (653)
                      .+......
T Consensus       329 ~L~~al~~  336 (355)
T cd05804         329 LLGPVRDD  336 (355)
T ss_pred             HHHHHHHH
Confidence            98877643

A family member from Streptomyces toyocaensis, StaR is part of a gene cluster involved in the biosynthesis of glycopeptide antibiotics (GPAs), specifically A47934. It has been speculated that StaR could be a flavoprotein hydroxylating a tyrosine sidechain. Some family members have been annotated as proteins containing tetratricopeptide (TPR) repeats, which may at least indicate mostly alpha-helical secondary structure.

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=98.59  E-value=0.00036  Score=71.45  Aligned_cols=212  Identities=14%  Similarity=0.130  Sum_probs=130.6

Q ss_pred             HHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCccCchhhHHHHhhHHHHhhh
Q 048743          387 IDALIQLGFLEAAHDILDDMELAGHPMDSTTYKSLLTAYYKVKMFREAEALLKQMRKSCLVQNLSCEMVVSERFSEVADK  466 (653)
Q Consensus       387 i~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~l~~~~~~  466 (653)
                      -..+...|+++.|...|-+...         .-..|.+-....+|.+|..+++.+++.+.... ++.             
T Consensus       713 g~hl~~~~q~daainhfiea~~---------~~kaieaai~akew~kai~ildniqdqk~~s~-yy~-------------  769 (1636)
T KOG3616|consen  713 GDHLEQIGQLDAAINHFIEANC---------LIKAIEAAIGAKEWKKAISILDNIQDQKTASG-YYG-------------  769 (1636)
T ss_pred             hHHHHHHHhHHHHHHHHHHhhh---------HHHHHHHHhhhhhhhhhHhHHHHhhhhccccc-cch-------------
Confidence            4455566777777766654322         12345666777889999999998887653322 121             


Q ss_pred             cccccccccccCCHHHHHHHHHHHHHccCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhc
Q 048743          467 SASFTDTSSLMDKSDLAESLIQEMREEAALSTIYKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRPTVETFYYLVYGHSS  546 (653)
Q Consensus       467 ~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~  546 (653)
                        .+.+.|+..|+++.|+++|-+-.         .++-.|..|.+.|+|+.|.++-.+  -.|.+.....|..-..-+-+
T Consensus       770 --~iadhyan~~dfe~ae~lf~e~~---------~~~dai~my~k~~kw~da~kla~e--~~~~e~t~~~yiakaedlde  836 (1636)
T KOG3616|consen  770 --EIADHYANKGDFEIAEELFTEAD---------LFKDAIDMYGKAGKWEDAFKLAEE--CHGPEATISLYIAKAEDLDE  836 (1636)
T ss_pred             --HHHHHhccchhHHHHHHHHHhcc---------hhHHHHHHHhccccHHHHHHHHHH--hcCchhHHHHHHHhHHhHHh
Confidence              22366888999999999886533         356778889999999999888655  34445556667666667788


Q ss_pred             cCCHHHHHHHHHHHHHHhhhCCCccCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHhhhhhHHhh
Q 048743          547 LEMYRDITILWGDIKRNIESGVLAVSRDLYETLLLNFLQGGYFERVMEVIGYMKKQNMYVDKLMYKSEFLKHHKHLYRRL  626 (653)
Q Consensus       547 ~~~~~~a~~~~~~~~~~~~~~~~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~l~~~~~~~~~~~~  626 (653)
                      .|++.+|.+++-.+        -.|+.     .|..|-+.|..+..+++.++-...-+.-....+..- ....|++..++
T Consensus       837 hgkf~eaeqlyiti--------~~p~~-----aiqmydk~~~~ddmirlv~k~h~d~l~dt~~~f~~e-~e~~g~lkaae  902 (1636)
T KOG3616|consen  837 HGKFAEAEQLYITI--------GEPDK-----AIQMYDKHGLDDDMIRLVEKHHGDHLHDTHKHFAKE-LEAEGDLKAAE  902 (1636)
T ss_pred             hcchhhhhheeEEc--------cCchH-----HHHHHHhhCcchHHHHHHHHhChhhhhHHHHHHHHH-HHhccChhHHH
Confidence            88888888877322        13333     577888888888888887755322111111111111 22335554443


Q ss_pred             hhhHHHHH--------HHHHhhHhHHHhHH
Q 048743          627 KVSNARTE--------AQSKRLVNVQAFRK  648 (653)
Q Consensus       627 ~~~~~~~~--------~~~~~~~~~~~~~~  648 (653)
                      +-+=...+        ...+.|++|-++.|
T Consensus       903 ~~flea~d~kaavnmyk~s~lw~dayriak  932 (1636)
T KOG3616|consen  903 EHFLEAGDFKAAVNMYKASELWEDAYRIAK  932 (1636)
T ss_pred             HHHHhhhhHHHHHHHhhhhhhHHHHHHHHh
Confidence            32111111        45677888777655

>KOG1156 consensus N-terminal acetyltransferase [Chromatin structure and dynamics]

Probab=98.59  E-value=0.0012  Score=67.12  Aligned_cols=98  Identities=6%  Similarity=-0.029  Sum_probs=65.7

Q ss_pred             CchhhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCccHHH-HHHHHHHHHhcCChhhhHHHHHHhhhcCCCcccchhHHH
Q 048743          175 PDTMIFNLVLHACVRFGSSLKGQHIMELMSQTGVVADAHS-IIILAQIHEMNCQRDELKKFKCYIDQLSTPFAHHYQQFY  253 (653)
Q Consensus       175 ~~~~~yn~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t-~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~  253 (653)
                      .+.++|..+--.+....++++|.+.|......  .||... +--+--.-+..|+++........+.+..+    .....|
T Consensus        73 ~S~vCwHv~gl~~R~dK~Y~eaiKcy~nAl~~--~~dN~qilrDlslLQ~QmRd~~~~~~tr~~LLql~~----~~ra~w  146 (700)
T KOG1156|consen   73 KSHVCWHVLGLLQRSDKKYDEAIKCYRNALKI--EKDNLQILRDLSLLQIQMRDYEGYLETRNQLLQLRP----SQRASW  146 (700)
T ss_pred             ccchhHHHHHHHHhhhhhHHHHHHHHHHHHhc--CCCcHHHHHHHHHHHHHHHhhhhHHHHHHHHHHhhh----hhHHHH
Confidence            45567777777777778888888888887764  455554 43333333445666666665555544332    223458


Q ss_pred             HHHHHhhhccCCHHHHHHHHHHhcc
Q 048743          254 ESLLSLHFKFDDIDAAGELILDMNR  278 (653)
Q Consensus       254 ~~li~~~~~~g~~~~A~~~~~~m~~  278 (653)
                      ..+..++.-.|+...|..+++...+
T Consensus       147 ~~~Avs~~L~g~y~~A~~il~ef~~  171 (700)
T KOG1156|consen  147 IGFAVAQHLLGEYKMALEILEEFEK  171 (700)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            8888888888999999999988844

>KOG1173 consensus Anaphase-promoting complex (APC), Cdc16 subunit [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=98.58  E-value=0.00023  Score=70.95  Aligned_cols=250  Identities=12%  Similarity=0.011  Sum_probs=150.1

Q ss_pred             CCchhhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCc-cHHHHHHHHHHHHhcCChhhhHHHHHHhhhcCCCcccchhHH
Q 048743          174 KPDTMIFNLVLHACVRFGSSLKGQHIMELMSQTGVVA-DAHSIIILAQIHEMNCQRDELKKFKCYIDQLSTPFAHHYQQF  252 (653)
Q Consensus       174 ~~~~~~yn~li~~~~~~g~~~~a~~l~~~m~~~g~~p-~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~  252 (653)
                      ++....+..=|..+...|+..+-..+=..|.+.  -| ...+|-++...|...|+..+|++.|.......+..-+    .
T Consensus       275 pfh~~~~~~~ia~l~el~~~n~Lf~lsh~LV~~--yP~~a~sW~aVg~YYl~i~k~seARry~SKat~lD~~fgp----a  348 (611)
T KOG1173|consen  275 PFHLPCLPLHIACLYELGKSNKLFLLSHKLVDL--YPSKALSWFAVGCYYLMIGKYSEARRYFSKATTLDPTFGP----A  348 (611)
T ss_pred             CCCcchHHHHHHHHHHhcccchHHHHHHHHHHh--CCCCCcchhhHHHHHHHhcCcHHHHHHHHHHhhcCccccH----H
Confidence            344445555566666666666666666666654  33 3355666666666667777777776666554432222    4


Q ss_pred             HHHHHHhhhccCCHHHHHHHHHHhcccCCCCCCchhhhcccccchhccCCCcccchhhhccchhhhHHHHHHhhhhhHHH
Q 048743          253 YESLLSLHFKFDDIDAAGELILDMNRYREPLPNPKLRQDAQKPYLISIGSPNLRCGLKLQIMPELLEKDSILKMEGKQEL  332 (653)
Q Consensus       253 ~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  332 (653)
                      |-..-+.|+-.|.-|+|+..+...-+                                                      
T Consensus       349 Wl~fghsfa~e~EhdQAmaaY~tAar------------------------------------------------------  374 (611)
T KOG1173|consen  349 WLAFGHSFAGEGEHDQAMAAYFTAAR------------------------------------------------------  374 (611)
T ss_pred             HHHHhHHhhhcchHHHHHHHHHHHHH------------------------------------------------------
Confidence            66666667767777776666554411                                                      


Q ss_pred             HHHhcCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHC---
Q 048743          333 VLFRNGKLLHSNRAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELA---  409 (653)
Q Consensus       333 ~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~---  409 (653)
                        +..+.-.|    +--+---|.+.++++.|.++|.+.....  |.|+.+.+-+--...+.+.+.+|..+|+.....   
T Consensus       375 --l~~G~hlP----~LYlgmey~~t~n~kLAe~Ff~~A~ai~--P~Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~  446 (611)
T KOG1173|consen  375 --LMPGCHLP----SLYLGMEYMRTNNLKLAEKFFKQALAIA--PSDPLVLHELGVVAYTYEEYPEALKYFQKALEVIKS  446 (611)
T ss_pred             --hccCCcch----HHHHHHHHHHhccHHHHHHHHHHHHhcC--CCcchhhhhhhheeehHhhhHHHHHHHHHHHHHhhh
Confidence              00011111    1223334666777777777777766555  667776777766666777777777777766421   


Q ss_pred             ---CCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCccCchhhHHHHhhHHHHhhhcccccccccccCCHHHHHHH
Q 048743          410 ---GHPMDSTTYKSLLTAYYKVKMFREAEALLKQMRKSCLVQNLSCEMVVSERFSEVADKSASFTDTSSLMDKSDLAESL  486 (653)
Q Consensus       410 ---g~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~a~~~  486 (653)
                         ...-...+++.|-.+|.+.+++++|...++.....  .|.                                     
T Consensus       447 ~~~e~~~w~p~~~NLGH~~Rkl~~~~eAI~~~q~aL~l--~~k-------------------------------------  487 (611)
T KOG1173|consen  447 VLNEKIFWEPTLNNLGHAYRKLNKYEEAIDYYQKALLL--SPK-------------------------------------  487 (611)
T ss_pred             ccccccchhHHHHhHHHHHHHHhhHHHHHHHHHHHHHc--CCC-------------------------------------
Confidence               01113445666677777777777777777666542  222                                     


Q ss_pred             HHHHHHccCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHH
Q 048743          487 IQEMREEAALSTIYKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRPTVETFYYLVYG  543 (653)
Q Consensus       487 ~~~m~~~~~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~  543 (653)
                                 +..+|.++--.|...|+++.|.+.|++-..  +.||-.+...++..
T Consensus       488 -----------~~~~~asig~iy~llgnld~Aid~fhKaL~--l~p~n~~~~~lL~~  531 (611)
T KOG1173|consen  488 -----------DASTHASIGYIYHLLGNLDKAIDHFHKALA--LKPDNIFISELLKL  531 (611)
T ss_pred             -----------chhHHHHHHHHHHHhcChHHHHHHHHHHHh--cCCccHHHHHHHHH
Confidence                       556667777777777777777777776543  56776665555553

>KOG1156 consensus N-terminal acetyltransferase [Chromatin structure and dynamics]

Probab=98.53  E-value=0.0017  Score=66.11  Aligned_cols=440  Identities=13%  Similarity=0.052  Sum_probs=239.1

Q ss_pred             HHHHHHHHHHHHhccchhHHHHHHHHhhhhcCCCC-chhHHHHHHHhhccCCcchhhhHHHHHHHHHhccCCchhHHHHH
Q 048743           19 REVLLRKLESASKNHQVGEAWETFNDFQRLHGIPE-RHVVNRFITDLCYSAEPHWLQKACDLVLKIQKGKADLLQLDLLA   97 (653)
Q Consensus        19 ~~~~~~~i~~~~~~~~~~~A~~~~~~~~~~~~~~~-~~~~~~ll~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~t~~   97 (653)
                      ...+-..+.-+-..+++...+.+.+.+..  .+|. +.+....--.+...|+   .++|.+.+..-.+.  ..-+...|.
T Consensus         7 E~~lF~~~lk~yE~kQYkkgLK~~~~iL~--k~~eHgeslAmkGL~L~~lg~---~~ea~~~vr~glr~--d~~S~vCwH   79 (700)
T KOG1156|consen    7 ENALFRRALKCYETKQYKKGLKLIKQILK--KFPEHGESLAMKGLTLNCLGK---KEEAYELVRLGLRN--DLKSHVCWH   79 (700)
T ss_pred             HHHHHHHHHHHHHHHHHHhHHHHHHHHHH--hCCccchhHHhccchhhcccc---hHHHHHHHHHHhcc--CcccchhHH
Confidence            33344444444566788888888888777  2333 3344333333444555   57888888654432  223556666


Q ss_pred             HHHHHHHhcCCCchHHHHHHHHHcCccCCCchhHHHHHHHHhhcccccccchHHHHHHHHHhhhhhhhhcCCccCCCCch
Q 048743           98 KLSLSLARAQMPVPASMILRLMLGRENLPCSDLLLLVFVHMVKTEIGTCLASNFLIQLCDVFLHLSAEKSNGAELIKPDT  177 (653)
Q Consensus        98 ~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  177 (653)
                      .+--.+-...++++|+..|......+  ||...   ++..+.--          -+++-...|..+.-.+++ ...+...
T Consensus        80 v~gl~~R~dK~Y~eaiKcy~nAl~~~--~dN~q---ilrDlslL----------Q~QmRd~~~~~~tr~~LL-ql~~~~r  143 (700)
T KOG1156|consen   80 VLGLLQRSDKKYDEAIKCYRNALKIE--KDNLQ---ILRDLSLL----------QIQMRDYEGYLETRNQLL-QLRPSQR  143 (700)
T ss_pred             HHHHHHhhhhhHHHHHHHHHHHHhcC--CCcHH---HHHHHHHH----------HHHHHhhhhHHHHHHHHH-HhhhhhH
Confidence            66666666788999999999987763  44321   11111000          011111111111111111 1123345


Q ss_pred             hhHHHHHHHHHhcCChhhHHHHHHHHHhcC-CCccHHHHHHHHHHHHhcCChhhhHHHHHHhhhcCCCcccchhHHHHHH
Q 048743          178 MIFNLVLHACVRFGSSLKGQHIMELMSQTG-VVADAHSIIILAQIHEMNCQRDELKKFKCYIDQLSTPFAHHYQQFYESL  256 (653)
Q Consensus       178 ~~yn~li~~~~~~g~~~~a~~l~~~m~~~g-~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l  256 (653)
                      ..|..+..++.-.|+...|..++++..+.. -.|+...|.-.....                              |.. 
T Consensus       144 a~w~~~Avs~~L~g~y~~A~~il~ef~~t~~~~~s~~~~e~se~~L------------------------------y~n-  192 (700)
T KOG1156|consen  144 ASWIGFAVAQHLLGEYKMALEILEEFEKTQNTSPSKEDYEHSELLL------------------------------YQN-  192 (700)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCCHHHHHHHHHHH------------------------------HHH-
Confidence            678888888888999999999999988764 256666654322221                              111 


Q ss_pred             HHhhhccCCHHHHHHHHHHhcccCCCCCCchhhhcccccchhccCCCcccchhhhccchhhhHHHHHHhhhhhHHHHHHh
Q 048743          257 LSLHFKFDDIDAAGELILDMNRYREPLPNPKLRQDAQKPYLISIGSPNLRCGLKLQIMPELLEKDSILKMEGKQELVLFR  336 (653)
Q Consensus       257 i~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  336 (653)
                       ....+.|.+++|.+.+..-.+                                                          
T Consensus       193 -~i~~E~g~~q~ale~L~~~e~----------------------------------------------------------  213 (700)
T KOG1156|consen  193 -QILIEAGSLQKALEHLLDNEK----------------------------------------------------------  213 (700)
T ss_pred             -HHHHHcccHHHHHHHHHhhhh----------------------------------------------------------
Confidence             112345556666665544410                                                          


Q ss_pred             cCCCCCCHHHH-HHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHc-CCHHHHHHHHHHHHHC---CC
Q 048743          337 NGKLLHSNRAM-AKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQL-GFLEAAHDILDDMELA---GH  411 (653)
Q Consensus       337 ~~~~~p~~~~~-~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~-g~~~~a~~~~~~m~~~---g~  411 (653)
                         ...|...| -+--..+.+.+++++|..++..+..+.  |.+...|-.+..++.+- +..+....+|....+.   .-
T Consensus       214 ---~i~Dkla~~e~ka~l~~kl~~lEeA~~~y~~Ll~rn--Pdn~~Yy~~l~~~lgk~~d~~~~lk~ly~~ls~~y~r~e  288 (700)
T KOG1156|consen  214 ---QIVDKLAFEETKADLLMKLGQLEEAVKVYRRLLERN--PDNLDYYEGLEKALGKIKDMLEALKALYAILSEKYPRHE  288 (700)
T ss_pred             ---HHHHHHHHhhhHHHHHHHHhhHHhHHHHHHHHHhhC--chhHHHHHHHHHHHHHHhhhHHHHHHHHHHHhhcCcccc
Confidence               00111111 123344566777777777777777776  66666455555555432 3333333555554432   11


Q ss_pred             CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCccCchhhHHHHhhHHHHhhhcccccccccccCCHHH----HHHHH
Q 048743          412 PMDSTTYKSLLTAYYKVKMFREAEALLKQMRKSCLVQNLSCEMVVSERFSEVADKSASFTDTSSLMDKSDL----AESLI  487 (653)
Q Consensus       412 ~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~----a~~~~  487 (653)
                      .|-....+    ......-.+..-.++..+.+.|+++-. ..+      ..+.+          ...+.+-    +..+.
T Consensus       289 ~p~Rlpls----vl~~eel~~~vdkyL~~~l~Kg~p~vf-~dl------~SLyk----------~p~k~~~le~Lvt~y~  347 (700)
T KOG1156|consen  289 CPRRLPLS----VLNGEELKEIVDKYLRPLLSKGVPSVF-KDL------RSLYK----------DPEKVAFLEKLVTSYQ  347 (700)
T ss_pred             cchhccHH----HhCcchhHHHHHHHHHHHhhcCCCchh-hhh------HHHHh----------chhHhHHHHHHHHHHH
Confidence            11111111    111123334444555666666654421 000      00000          0000111    11111


Q ss_pred             HHHHHcc----------CCCCHHHHHH--HHHHHHcCCCHHHHHHHHHHHHhcCCCCCHH-HHHHHHHHHhccCCHHHHH
Q 048743          488 QEMREEA----------ALSTIYKLNS--SIYFFCKGKMIGDALKIYRRMQEMKIRPTVE-TFYYLVYGHSSLEMYRDIT  554 (653)
Q Consensus       488 ~~m~~~~----------~~p~~~~y~~--li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~-t~~~li~~~~~~~~~~~a~  554 (653)
                      +.+...|          -.|++..|+.  ++..|-+.|+++.|+.+++..+.+  .|+.+ -|..=.+.+.+.|++++|.
T Consensus       348 ~~L~~~~~f~~~D~~~~E~PttllWt~y~laqh~D~~g~~~~A~~yId~AIdH--TPTliEly~~KaRI~kH~G~l~eAa  425 (700)
T KOG1156|consen  348 HSLSGTGMFNFLDDGKQEPPTTLLWTLYFLAQHYDKLGDYEVALEYIDLAIDH--TPTLIELYLVKARIFKHAGLLDEAA  425 (700)
T ss_pred             hhcccccCCCcccccccCCchHHHHHHHHHHHHHHHcccHHHHHHHHHHHhcc--CchHHHHHHHHHHHHHhcCChHHHH
Confidence            1111111          1356655554  677888999999999999987764  77754 3444557899999999999


Q ss_pred             HHHHHHHHHhhhCCCccCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhCCC
Q 048743          555 ILWGDIKRNIESGVLAVSRDLYETLLLNFLQGGYFERVMEVIGYMKKQNM  604 (653)
Q Consensus       555 ~~~~~~~~~~~~~~~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~  604 (653)
                      .++++..+.     =.+|+..-..-..-..++.+.++|.++.......|.
T Consensus       426 ~~l~ea~el-----D~aDR~INsKcAKYmLrAn~i~eA~~~~skFTr~~~  470 (700)
T KOG1156|consen  426 AWLDEAQEL-----DTADRAINSKCAKYMLRANEIEEAEEVLSKFTREGF  470 (700)
T ss_pred             HHHHHHHhc-----cchhHHHHHHHHHHHHHccccHHHHHHHHHhhhccc
Confidence            999888522     234554444566667789999999999999988886

>PRK11189 lipoprotein NlpI; Provisional

Probab=98.52  E-value=0.00015  Score=70.74  Aligned_cols=97  Identities=13%  Similarity=-0.048  Sum_probs=78.1

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 048743          345 RAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTYKSLLTA  424 (653)
Q Consensus       345 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~  424 (653)
                      ..|..+-..+.+.|++++|...|++..+..  |.+...|+.+...+...|+++.|...|++..+... -+..+|..+..+
T Consensus        65 ~~~~~~g~~~~~~g~~~~A~~~~~~Al~l~--P~~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~P-~~~~a~~~lg~~  141 (296)
T PRK11189         65 QLHYERGVLYDSLGLRALARNDFSQALALR--PDMADAYNYLGIYLTQAGNFDAAYEAFDSVLELDP-TYNYAYLNRGIA  141 (296)
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHcC--CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHH
Confidence            456677777888899999999998888877  77777888888899999999999999988876432 246677778888


Q ss_pred             HHHcCChHHHHHHHHHHHHc
Q 048743          425 YYKVKMFREAEALLKQMRKS  444 (653)
Q Consensus       425 ~~~~~~~~~a~~~~~~m~~~  444 (653)
                      +...|++++|.+.|+...+.
T Consensus       142 l~~~g~~~eA~~~~~~al~~  161 (296)
T PRK11189        142 LYYGGRYELAQDDLLAFYQD  161 (296)
T ss_pred             HHHCCCHHHHHHHHHHHHHh
Confidence            88889999998888888763

>PRK11189 lipoprotein NlpI; Provisional

Probab=98.51  E-value=7.9e-05  Score=72.64  Aligned_cols=171  Identities=12%  Similarity=-0.069  Sum_probs=98.1

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 048743          344 NRAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTYKSLLT  423 (653)
Q Consensus       344 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~  423 (653)
                      ...|+.+-..+...|++++|...|++..+..  |.+..+|..+..++...|++++|.+.|+...+..  |+.........
T Consensus        98 ~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~--P~~~~a~~~lg~~l~~~g~~~eA~~~~~~al~~~--P~~~~~~~~~~  173 (296)
T PRK11189         98 ADAYNYLGIYLTQAGNFDAAYEAFDSVLELD--PTYNYAYLNRGIALYYGGRYELAQDDLLAFYQDD--PNDPYRALWLY  173 (296)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CCCHHHHHHHH
Confidence            4567777777777777777777777777665  5566667777777777777777777777776643  32221111111


Q ss_pred             HHHHcCChHHHHHHHHHHHHcCCccCchhhHHHHhhHHHHhhhcccccccccccCCHHHHHHHHHHHHHc---c--CCC-
Q 048743          424 AYYKVKMFREAEALLKQMRKSCLVQNLSCEMVVSERFSEVADKSASFTDTSSLMDKSDLAESLIQEMREE---A--ALS-  497 (653)
Q Consensus       424 ~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~---~--~~p-  497 (653)
                      .+...+++++|...|.+.... ..|+.....+..                 ...|+.+.+ ..+..+.+.   .  ..| 
T Consensus       174 l~~~~~~~~~A~~~l~~~~~~-~~~~~~~~~~~~-----------------~~lg~~~~~-~~~~~~~~~~~~~~~l~~~  234 (296)
T PRK11189        174 LAESKLDPKQAKENLKQRYEK-LDKEQWGWNIVE-----------------FYLGKISEE-TLMERLKAGATDNTELAER  234 (296)
T ss_pred             HHHccCCHHHHHHHHHHHHhh-CCccccHHHHHH-----------------HHccCCCHH-HHHHHHHhcCCCcHHHHHH
Confidence            233456677777777654432 223221111110                 013343333 233333311   0  011 


Q ss_pred             CHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCHHHHH
Q 048743          498 TIYKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRPTVETFY  538 (653)
Q Consensus       498 ~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~  538 (653)
                      ....|..+-..+.+.|++++|+..|++..+.+ .||-+-+.
T Consensus       235 ~~ea~~~Lg~~~~~~g~~~~A~~~~~~Al~~~-~~~~~e~~  274 (296)
T PRK11189        235 LCETYFYLAKYYLSLGDLDEAAALFKLALANN-VYNFVEHR  274 (296)
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CchHHHHH
Confidence            34568888888899999999999999888654 33544333

>COG3063 PilF Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=98.50  E-value=0.00011  Score=64.93  Aligned_cols=198  Identities=8%  Similarity=-0.066  Sum_probs=163.9

Q ss_pred             hHHHHHHHHHhcCChhhHHHHHHHHHhcCCCccH-HHHHHHHHHHHhcCChhhhHHHHHHhhhcCCCcccchhHHHHHHH
Q 048743          179 IFNLVLHACVRFGSSLKGQHIMELMSQTGVVADA-HSIIILAQIHEMNCQRDELKKFKCYIDQLSTPFAHHYQQFYESLL  257 (653)
Q Consensus       179 ~yn~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~-~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~li  257 (653)
                      ++-.|--+|.+.|+...|..-+++..+.  .|+. .+|..+...|.+.|..+.|.+.|+...+..+.+-.    +.|..-
T Consensus        37 arlqLal~YL~~gd~~~A~~nlekAL~~--DPs~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~p~~Gd----VLNNYG  110 (250)
T COG3063          37 ARLQLALGYLQQGDYAQAKKNLEKALEH--DPSYYLAHLVRAHYYQKLGENDLADESYRKALSLAPNNGD----VLNNYG  110 (250)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHh--CcccHHHHHHHHHHHHHcCChhhHHHHHHHHHhcCCCccc----hhhhhh
Confidence            4566777899999999999999999986  5655 45889999999999999999999999887543322    578888


Q ss_pred             HhhhccCCHHHHHHHHHHhcccCCCCCCchhhhcccccchhccCCCcccchhhhccchhhhHHHHHHhhhhhHHHHHHhc
Q 048743          258 SLHFKFDDIDAAGELILDMNRYREPLPNPKLRQDAQKPYLISIGSPNLRCGLKLQIMPELLEKDSILKMEGKQELVLFRN  337 (653)
Q Consensus       258 ~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  337 (653)
                      ..+|..|++++|...|++-+....                                                        
T Consensus       111 ~FLC~qg~~~eA~q~F~~Al~~P~--------------------------------------------------------  134 (250)
T COG3063         111 AFLCAQGRPEEAMQQFERALADPA--------------------------------------------------------  134 (250)
T ss_pred             HHHHhCCChHHHHHHHHHHHhCCC--------------------------------------------------------
Confidence            889999999999999998843221                                                        


Q ss_pred             CCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHH
Q 048743          338 GKLLHSNRAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTT  417 (653)
Q Consensus       338 ~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~  417 (653)
                        ..--..+|..+.-+..+.|+++.|...|++-.+..  +....+.-.+.....+.|++-.|...++.....+. ++..+
T Consensus       135 --Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~d--p~~~~~~l~~a~~~~~~~~y~~Ar~~~~~~~~~~~-~~A~s  209 (250)
T COG3063         135 --YGEPSDTLENLGLCALKAGQFDQAEEYLKRALELD--PQFPPALLELARLHYKAGDYAPARLYLERYQQRGG-AQAES  209 (250)
T ss_pred             --CCCcchhhhhhHHHHhhcCCchhHHHHHHHHHHhC--cCCChHHHHHHHHHHhcccchHHHHHHHHHHhccc-ccHHH
Confidence              22223467778888889999999999999998887  66666788899999999999999999999888766 89998


Q ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHH
Q 048743          418 YKSLLTAYYKVKMFREAEALLKQMRK  443 (653)
Q Consensus       418 ~~~li~~~~~~~~~~~a~~~~~~m~~  443 (653)
                      .-..|..-...|+.+.+-+.=..+.+
T Consensus       210 L~L~iriak~~gd~~~a~~Y~~qL~r  235 (250)
T COG3063         210 LLLGIRIAKRLGDRAAAQRYQAQLQR  235 (250)
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHHH
Confidence            88889888899999988877666665

>KOG2376 consensus Signal recognition particle, subunit Srp72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.49  E-value=0.002  Score=64.86  Aligned_cols=474  Identities=12%  Similarity=0.039  Sum_probs=239.2

Q ss_pred             HHHHHHhhccCCcchhhhHHHHHHHHHhccCCchhHHHHHHHHHHHHhcCCCchHHHHHHHHHcCccCCCchhHHHHHHH
Q 048743           58 NRFITDLCYSAEPHWLQKACDLVLKIQKGKADLLQLDLLAKLSLSLARAQMPVPASMILRLMLGRENLPCSDLLLLVFVH  137 (653)
Q Consensus        58 ~~ll~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~  137 (653)
                      ..++..+-+.+..+.+++|+....++....+.  |...+..=+.++...+++++|+.+.+.=..      ..++++.   
T Consensus        13 ~~l~t~ln~~~~~~e~e~a~k~~~Kil~~~pd--d~~a~~cKvValIq~~ky~~ALk~ikk~~~------~~~~~~~---   81 (652)
T KOG2376|consen   13 EALLTDLNRHGKNGEYEEAVKTANKILSIVPD--DEDAIRCKVVALIQLDKYEDALKLIKKNGA------LLVINSF---   81 (652)
T ss_pred             HHHHHHHHHhccchHHHHHHHHHHHHHhcCCC--cHhhHhhhHhhhhhhhHHHHHHHHHHhcch------hhhcchh---
Confidence            34555555555555577777777776544322  444555556667777777777754432110      0111111   


Q ss_pred             HhhcccccccchHHHHHHHHHh--hhhhhhhcCCccCCCC-chhhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCccHHH
Q 048743          138 MVKTEIGTCLASNFLIQLCDVF--LHLSAEKSNGAELIKP-DTMIFNLVLHACVRFGSSLKGQHIMELMSQTGVVADAHS  214 (653)
Q Consensus       138 ~~~~~~~~~~~~~~l~~~~~~~--~~~~~a~~~~~~~~~~-~~~~yn~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t  214 (653)
                                   .+-.+|..+  +..++|.+.++ +..+ +..+-..=-..+-+.|++++|+.+|+.+.+.+. +|...
T Consensus        82 -------------~fEKAYc~Yrlnk~Dealk~~~-~~~~~~~~ll~L~AQvlYrl~~ydealdiY~~L~kn~~-dd~d~  146 (652)
T KOG2376|consen   82 -------------FFEKAYCEYRLNKLDEALKTLK-GLDRLDDKLLELRAQVLYRLERYDEALDIYQHLAKNNS-DDQDE  146 (652)
T ss_pred             -------------hHHHHHHHHHcccHHHHHHHHh-cccccchHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCC-chHHH
Confidence                         022333332  25566666555 3323 222333345667889999999999999987763 23222


Q ss_pred             --HHHHHHHHHhcCChhhhHHHHHHhhhcCCCcccchhHHHHHHHHhhhccCCHHHHHHHHHHhcccCCCCCCchhhhcc
Q 048743          215 --IIILAQIHEMNCQRDELKKFKCYIDQLSTPFAHHYQQFYESLLSLHFKFDDIDAAGELILDMNRYREPLPNPKLRQDA  292 (653)
Q Consensus       215 --~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~  292 (653)
                        -..++.+-.    .-.+. +.   ..............||.- ..++..|++.+|+++++..++.             
T Consensus       147 ~~r~nl~a~~a----~l~~~-~~---q~v~~v~e~syel~yN~A-c~~i~~gky~qA~elL~kA~~~-------------  204 (652)
T KOG2376|consen  147 ERRANLLAVAA----ALQVQ-LL---QSVPEVPEDSYELLYNTA-CILIENGKYNQAIELLEKALRI-------------  204 (652)
T ss_pred             HHHHHHHHHHH----hhhHH-HH---HhccCCCcchHHHHHHHH-HHHHhcccHHHHHHHHHHHHHH-------------
Confidence              111221111    01111 11   111111122233345543 4457789999999999877210             


Q ss_pred             cccchhccCCCcccchhhhccchhhhHHHHHHhhhhhHHHHHHhcCCCCCCHH-HHHHHHHHHHhcCChHHHHHHHHHHH
Q 048743          293 QKPYLISIGSPNLRCGLKLQIMPELLEKDSILKMEGKQELVLFRNGKLLHSNR-AMAKLINGYKKHGKNSELSWLLLSIK  371 (653)
Q Consensus       293 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~-~~~~li~~~~~~~~~~~a~~~~~~m~  371 (653)
                                  .++-+..+-             .        .+.++.-... +---|...+-..|+.++|..++....
T Consensus       205 ------------~~e~l~~~d-------------~--------~eEeie~el~~IrvQlayVlQ~~Gqt~ea~~iy~~~i  251 (652)
T KOG2376|consen  205 ------------CREKLEDED-------------T--------NEEEIEEELNPIRVQLAYVLQLQGQTAEASSIYVDII  251 (652)
T ss_pred             ------------HHHhhcccc-------------c--------chhhHHHHHHHHHHHHHHHHHHhcchHHHHHHHHHHH
Confidence                        000000000             0        0000000111 11234445667899999999999999


Q ss_pred             hcCCCCCCcccHHHHHHHHHHcC---C-HH-HHHHHHHHHHHCCC----------CCCHHHHHHHHHHHHHcCChHHHHH
Q 048743          372 KEHHSFGESTLCSDVIDALIQLG---F-LE-AAHDILDDMELAGH----------PMDSTTYKSLLTAYYKVKMFREAEA  436 (653)
Q Consensus       372 ~~~~~~~~~~~~~~li~~~~~~g---~-~~-~a~~~~~~m~~~g~----------~p~~~~~~~li~~~~~~~~~~~a~~  436 (653)
                      +..  ++|...-.+..+.+....   + ++ .++..++.......          .-.....|..+-.+ ..+..+.+.+
T Consensus       252 ~~~--~~D~~~~Av~~NNLva~~~d~~~~d~~~l~~k~~~~~~l~~~~l~~Ls~~qk~~i~~N~~lL~l-~tnk~~q~r~  328 (652)
T KOG2376|consen  252 KRN--PADEPSLAVAVNNLVALSKDQNYFDGDLLKSKKSQVFKLAEFLLSKLSKKQKQAIYRNNALLAL-FTNKMDQVRE  328 (652)
T ss_pred             Hhc--CCCchHHHHHhcchhhhccccccCchHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHH-HhhhHHHHHH
Confidence            988  666653333322222211   1 11 12222222211100          00122223222222 2233444444


Q ss_pred             HHHHHHHcCCccCchhhHHHHhhHHHHhhhcccccccccccCCHHHHHHHHHHHHHccCCCCHHHHHHHHHHHHcCCCHH
Q 048743          437 LLKQMRKSCLVQNLSCEMVVSERFSEVADKSASFTDTSSLMDKSDLAESLIQEMREEAALSTIYKLNSSIYFFCKGKMIG  516 (653)
Q Consensus       437 ~~~~m~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~y~~li~~~~~~g~~~  516 (653)
                      +....  .+-.|...+.++...+....             ......+..++....+..-.-...+--+++......|+++
T Consensus       329 ~~a~l--p~~~p~~~~~~ll~~~t~~~-------------~~~~~ka~e~L~~~~~~~p~~s~~v~L~~aQl~is~gn~~  393 (652)
T KOG2376|consen  329 LSASL--PGMSPESLFPILLQEATKVR-------------EKKHKKAIELLLQFADGHPEKSKVVLLLRAQLKISQGNPE  393 (652)
T ss_pred             HHHhC--CccCchHHHHHHHHHHHHHH-------------HHHHhhhHHHHHHHhccCCchhHHHHHHHHHHHHhcCCHH
Confidence            43322  12233333333333222211             2246667777777776542223455666777778899999


Q ss_pred             HHHHHHH--------HHHhcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHHhhhCCCc-c-CHHHHHHHHHHHHhC
Q 048743          517 DALKIYR--------RMQEMKIRPTVETFYYLVYGHSSLEMYRDITILWGDIKRNIESGVLA-V-SRDLYETLLLNFLQG  586 (653)
Q Consensus       517 ~a~~~~~--------~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-p-~~~~y~~li~~~~~~  586 (653)
                      .|++++.        ...+.+..|..+  ..++..+.+.++-+.|..++++.....+..... + -..++.-+..--.++
T Consensus       394 ~A~~il~~~~~~~~ss~~~~~~~P~~V--~aiv~l~~~~~~~~~a~~vl~~Ai~~~~~~~t~s~~l~~~~~~aa~f~lr~  471 (652)
T KOG2376|consen  394 VALEILSLFLESWKSSILEAKHLPGTV--GAIVALYYKIKDNDSASAVLDSAIKWWRKQQTGSIALLSLMREAAEFKLRH  471 (652)
T ss_pred             HHHHHHHHHhhhhhhhhhhhccChhHH--HHHHHHHHhccCCccHHHHHHHHHHHHHHhcccchHHHhHHHHHhHHHHhc
Confidence            9999998        555555556554  456666777777777777777665432222111 1 112233333344578


Q ss_pred             CCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHhh-hhhHHhhhhhHHHH
Q 048743          587 GYFERVMEVIGYMKKQNMYVDKLMYKSEFLKHH-KHLYRRLKVSNART  633 (653)
Q Consensus       587 g~~~~a~~~~~~m~~~g~~p~~~t~~~l~~~~~-~~~~~~~~~~~~~~  633 (653)
                      |+-++|..+++++.+.. ++|..+...++..+. =|.++|+.+...+.
T Consensus       472 G~~~ea~s~leel~k~n-~~d~~~l~~lV~a~~~~d~eka~~l~k~L~  518 (652)
T KOG2376|consen  472 GNEEEASSLLEELVKFN-PNDTDLLVQLVTAYARLDPEKAESLSKKLP  518 (652)
T ss_pred             CchHHHHHHHHHHHHhC-CchHHHHHHHHHHHHhcCHHHHHHHhhcCC
Confidence            99999999999998643 466666666664433 36667766655544

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.46  E-value=0.00074  Score=63.37  Aligned_cols=393  Identities=11%  Similarity=0.029  Sum_probs=198.0

Q ss_pred             HHHHHhcCChhhHHHHHHHHHhcCCCccHHHHHHHHHHHHhcCChhhhHHHHHHhhhcCCCcccchhHHHHHHHHhhhcc
Q 048743          184 LHACVRFGSSLKGQHIMELMSQTGVVADAHSIIILAQIHEMNCQRDELKKFKCYIDQLSTPFAHHYQQFYESLLSLHFKF  263 (653)
Q Consensus       184 i~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~  263 (653)
                      +.-+..+.|+..|..+++.-...+-+-...+-.-+..++-..|+.++|...+..+....+++..    ++-.|..++.-.
T Consensus        29 Ledfls~rDytGAislLefk~~~~~EEE~~~~lWia~C~fhLgdY~~Al~~Y~~~~~~~~~~~e----l~vnLAcc~FyL  104 (557)
T KOG3785|consen   29 LEDFLSNRDYTGAISLLEFKLNLDREEEDSLQLWIAHCYFHLGDYEEALNVYTFLMNKDDAPAE----LGVNLACCKFYL  104 (557)
T ss_pred             HHHHHhcccchhHHHHHHHhhccchhhhHHHHHHHHHHHHhhccHHHHHHHHHHHhccCCCCcc----cchhHHHHHHHH
Confidence            4555667777777777766554332222222223444555778888888777777665544443    344455555556


Q ss_pred             CCHHHHHHHHHHhcccCCCCCCchhhhcccccchhccCCCcccchhhhccchhhhHHHHHHhhhhhHHHHHHhcCCCCCC
Q 048743          264 DDIDAAGELILDMNRYREPLPNPKLRQDAQKPYLISIGSPNLRCGLKLQIMPELLEKDSILKMEGKQELVLFRNGKLLHS  343 (653)
Q Consensus       264 g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~  343 (653)
                      |.+.+|..+-.+..       .+.+    ...-++...       ..+.--....+..+.                +.-+
T Consensus       105 g~Y~eA~~~~~ka~-------k~pL----~~RLlfhla-------hklndEk~~~~fh~~----------------LqD~  150 (557)
T KOG3785|consen  105 GQYIEAKSIAEKAP-------KTPL----CIRLLFHLA-------HKLNDEKRILTFHSS----------------LQDT  150 (557)
T ss_pred             HHHHHHHHHHhhCC-------CChH----HHHHHHHHH-------HHhCcHHHHHHHHHH----------------Hhhh
Confidence            77777776655541       1000    000000000       000000000000000                0000


Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHH-HHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 048743          344 NRAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVI-DALIQLGFLEAAHDILDDMELAGHPMDSTTYKSLL  422 (653)
Q Consensus       344 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li-~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li  422 (653)
                      ..---+|.......-.+.+|++++..+...+  + +-...|.-+ -.|.+..-++-+.++++-..+. ++-+....|...
T Consensus       151 ~EdqLSLAsvhYmR~HYQeAIdvYkrvL~dn--~-ey~alNVy~ALCyyKlDYydvsqevl~vYL~q-~pdStiA~NLka  226 (557)
T KOG3785|consen  151 LEDQLSLASVHYMRMHYQEAIDVYKRVLQDN--P-EYIALNVYMALCYYKLDYYDVSQEVLKVYLRQ-FPDSTIAKNLKA  226 (557)
T ss_pred             HHHHHhHHHHHHHHHHHHHHHHHHHHHHhcC--h-hhhhhHHHHHHHHHhcchhhhHHHHHHHHHHh-CCCcHHHHHHHH
Confidence            0111233333333446788888888887665  2 222234333 3455566677777777766654 333445555444


Q ss_pred             HHHHHcCChHHHHHHHHHHHHcCCccCchhhHHHHhhHH--------------------HHhhhcccccccccccCCHHH
Q 048743          423 TAYYKVKMFREAEALLKQMRKSCLVQNLSCEMVVSERFS--------------------EVADKSASFTDTSSLMDKSDL  482 (653)
Q Consensus       423 ~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~l~--------------------~~~~~~~~~~~~~~~~~~~~~  482 (653)
                      ....+.=+-..|++-.+++.+.+-.   .+..+...|-+                    ...+..--++=.|-+.+++.+
T Consensus       227 cn~fRl~ngr~ae~E~k~ladN~~~---~~~f~~~l~rHNLVvFrngEgALqVLP~L~~~IPEARlNL~iYyL~q~dVqe  303 (557)
T KOG3785|consen  227 CNLFRLINGRTAEDEKKELADNIDQ---EYPFIEYLCRHNLVVFRNGEGALQVLPSLMKHIPEARLNLIIYYLNQNDVQE  303 (557)
T ss_pred             HHHhhhhccchhHHHHHHHHhcccc---cchhHHHHHHcCeEEEeCCccHHHhchHHHhhChHhhhhheeeecccccHHH
Confidence            4443332222333333333332211   01111111100                    000000011234667899999


Q ss_pred             HHHHHHHHHHccCCCCHHHHHHHHHHH-----HcCCCHHHHHHHHHHHHhcCCCCCHHH-HHHHHHHHhccCCHHHHHHH
Q 048743          483 AESLIQEMREEAALSTIYKLNSSIYFF-----CKGKMIGDALKIYRRMQEMKIRPTVET-FYYLVYGHSSLEMYRDITIL  556 (653)
Q Consensus       483 a~~~~~~m~~~~~~p~~~~y~~li~~~-----~~~g~~~~a~~~~~~m~~~g~~p~~~t-~~~li~~~~~~~~~~~a~~~  556 (653)
                      |..+.+++...  .|-.+....++.+-     .......-|.+.|+..-+.+..-|... -.++...+.-..++++.+-+
T Consensus       304 A~~L~Kdl~Pt--tP~EyilKgvv~aalGQe~gSreHlKiAqqffqlVG~Sa~ecDTIpGRQsmAs~fFL~~qFddVl~Y  381 (557)
T KOG3785|consen  304 AISLCKDLDPT--TPYEYILKGVVFAALGQETGSREHLKIAQQFFQLVGESALECDTIPGRQSMASYFFLSFQFDDVLTY  381 (557)
T ss_pred             HHHHHhhcCCC--ChHHHHHHHHHHHHhhhhcCcHHHHHHHHHHHHHhcccccccccccchHHHHHHHHHHHHHHHHHHH
Confidence            99888776532  13222222222211     112235567777766555555544332 23455556667788898888


Q ss_pred             HHHHHHHhhhCCCccCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCCHHhHHHHH--HH-hhhhhHHhhhhh
Q 048743          557 WGDIKRNIESGVLAVSRDLYETLLLNFLQGGYFERVMEVIGYMKKQNMYVDKLMYKSEF--LK-HHKHLYRRLKVS  629 (653)
Q Consensus       557 ~~~~~~~~~~~~~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~l~--~~-~~~~~~~~~~~~  629 (653)
                      ++.+.    +.-...|...|| +.++++..|.+.+|+++|-......+ -|..+|.+++  |. ..|..+.|..+.
T Consensus       382 lnSi~----sYF~NdD~Fn~N-~AQAk~atgny~eaEelf~~is~~~i-kn~~~Y~s~LArCyi~nkkP~lAW~~~  451 (557)
T KOG3785|consen  382 LNSIE----SYFTNDDDFNLN-LAQAKLATGNYVEAEELFIRISGPEI-KNKILYKSMLARCYIRNKKPQLAWDMM  451 (557)
T ss_pred             HHHHH----HHhcCcchhhhH-HHHHHHHhcChHHHHHHHhhhcChhh-hhhHHHHHHHHHHHHhcCCchHHHHHH
Confidence            87775    445556666676 78899999999999999987764443 4678888887  44 345565665443

>COG3063 PilF Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=98.46  E-value=0.00014  Score=64.26  Aligned_cols=191  Identities=12%  Similarity=-0.052  Sum_probs=112.1

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 048743          346 AMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTYKSLLTAY  425 (653)
Q Consensus       346 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~  425 (653)
                      +..-|--+|.+.|+...|..-+++..+.+  |.+..+|..+...|-+.|+.+.|.+-|+...+... -+....|..-.=+
T Consensus        37 arlqLal~YL~~gd~~~A~~nlekAL~~D--Ps~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~p-~~GdVLNNYG~FL  113 (250)
T COG3063          37 ARLQLALGYLQQGDYAQAKKNLEKALEHD--PSYYLAHLVRAHYYQKLGENDLADESYRKALSLAP-NNGDVLNNYGAFL  113 (250)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhC--cccHHHHHHHHHHHHHcCChhhHHHHHHHHHhcCC-CccchhhhhhHHH
Confidence            45566777888888888888888888877  77777788888888888888888888888766432 2445566666667


Q ss_pred             HHcCChHHHHHHHHHHHHcCCccCc--hhhHHHHhhHHHHhhhcccccccccccCCHHHHHHHHHHHHHccCCC-CHHHH
Q 048743          426 YKVKMFREAEALLKQMRKSCLVQNL--SCEMVVSERFSEVADKSASFTDTSSLMDKSDLAESLIQEMREEAALS-TIYKL  502 (653)
Q Consensus       426 ~~~~~~~~a~~~~~~m~~~~~~p~~--~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~~y  502 (653)
                      |..|++++|...|+.....-.-|..  ++..+.      +|         ..+.|+.+.|...|++-.+..  | ...+.
T Consensus       114 C~qg~~~eA~q~F~~Al~~P~Y~~~s~t~eN~G------~C---------al~~gq~~~A~~~l~raL~~d--p~~~~~~  176 (250)
T COG3063         114 CAQGRPEEAMQQFERALADPAYGEPSDTLENLG------LC---------ALKAGQFDQAEEYLKRALELD--PQFPPAL  176 (250)
T ss_pred             HhCCChHHHHHHHHHHHhCCCCCCcchhhhhhH------HH---------HhhcCCchhHHHHHHHHHHhC--cCCChHH
Confidence            8888888888888887764222221  111110      01         112455555555555444433  2 22333


Q ss_pred             HHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCCHHHHHHHH
Q 048743          503 NSSIYFFCKGKMIGDALKIYRRMQEMKIRPTVETFYYLVYGHSSLEMYRDITILW  557 (653)
Q Consensus       503 ~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~  557 (653)
                      -.+.....+.|++..|..+++.....+. ++.......|+.--+.|+.+.+-++=
T Consensus       177 l~~a~~~~~~~~y~~Ar~~~~~~~~~~~-~~A~sL~L~iriak~~gd~~~a~~Y~  230 (250)
T COG3063         177 LELARLHYKAGDYAPARLYLERYQQRGG-AQAESLLLGIRIAKRLGDRAAAQRYQ  230 (250)
T ss_pred             HHHHHHHHhcccchHHHHHHHHHHhccc-ccHHHHHHHHHHHHHhccHHHHHHHH
Confidence            4444444455555555555554444433 45554444444444555544444443

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=98.44  E-value=0.0014  Score=67.27  Aligned_cols=198  Identities=11%  Similarity=0.050  Sum_probs=139.7

Q ss_pred             HHHHHHHHHHhccchhHHHHHHHHhhhhcCCCCchhHHHHHHHhhccCCcchhhhHHHHHHHHHhccCCchhHHHHHHHH
Q 048743           21 VLLRKLESASKNHQVGEAWETFNDFQRLHGIPERHVVNRFITDLCYSAEPHWLQKACDLVLKIQKGKADLLQLDLLAKLS  100 (653)
Q Consensus        21 ~~~~~i~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~t~~~li  100 (653)
                      .....|.+..+...|..|+.+++.++.+  .....-|..+-..++..|+   .+.|.++|.+.          ..++-.|
T Consensus       734 ~~~kaieaai~akew~kai~ildniqdq--k~~s~yy~~iadhyan~~d---fe~ae~lf~e~----------~~~~dai  798 (1636)
T KOG3616|consen  734 CLIKAIEAAIGAKEWKKAISILDNIQDQ--KTASGYYGEIADHYANKGD---FEIAEELFTEA----------DLFKDAI  798 (1636)
T ss_pred             hHHHHHHHHhhhhhhhhhHhHHHHhhhh--ccccccchHHHHHhccchh---HHHHHHHHHhc----------chhHHHH
Confidence            3455677888889999999999988773  2233467888888888887   78899998663          1345568


Q ss_pred             HHHHhcCCCchHHHHHHHHHcCccCCCchhHHHHHHHHhhcccccccchHHHHHHHHHhhhhhhhhcCCccCCCCchhhH
Q 048743          101 LSLARAQMPVPASMILRLMLGRENLPCSDLLLLVFVHMVKTEIGTCLASNFLIQLCDVFLHLSAEKSNGAELIKPDTMIF  180 (653)
Q Consensus       101 ~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~y  180 (653)
                      ..|.++|++..|.++-++....  ......|..-                  .+-...+|++.+|++++-..-.|+.   
T Consensus       799 ~my~k~~kw~da~kla~e~~~~--e~t~~~yiak------------------aedldehgkf~eaeqlyiti~~p~~---  855 (1636)
T KOG3616|consen  799 DMYGKAGKWEDAFKLAEECHGP--EATISLYIAK------------------AEDLDEHGKFAEAEQLYITIGEPDK---  855 (1636)
T ss_pred             HHHhccccHHHHHHHHHHhcCc--hhHHHHHHHh------------------HHhHHhhcchhhhhheeEEccCchH---
Confidence            8999999999999998766432  2222222211                  2233556788888888877777765   


Q ss_pred             HHHHHHHHhcCChhhHHHHHHHHHhcCCCccH--HHHHHHHHHHHhcCChhhhHHHHHHhhhcCCCcccchhHHHHHHHH
Q 048743          181 NLVLHACVRFGSSLKGQHIMELMSQTGVVADA--HSIIILAQIHEMNCQRDELKKFKCYIDQLSTPFAHHYQQFYESLLS  258 (653)
Q Consensus       181 n~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~--~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~li~  258 (653)
                        -|..|-+.|..+..+++.+.-     .||.  .|..-+..-+...|++..|+.-|-....            |.+-++
T Consensus       856 --aiqmydk~~~~ddmirlv~k~-----h~d~l~dt~~~f~~e~e~~g~lkaae~~flea~d------------~kaavn  916 (1636)
T KOG3616|consen  856 --AIQMYDKHGLDDDMIRLVEKH-----HGDHLHDTHKHFAKELEAEGDLKAAEEHFLEAGD------------FKAAVN  916 (1636)
T ss_pred             --HHHHHHhhCcchHHHHHHHHh-----ChhhhhHHHHHHHHHHHhccChhHHHHHHHhhhh------------HHHHHH
Confidence              367788888888887776542     2232  3455666777788999998877655433            778888


Q ss_pred             hhhccCCHHHHHHHHHH
Q 048743          259 LHFKFDDIDAAGELILD  275 (653)
Q Consensus       259 ~~~~~g~~~~A~~~~~~  275 (653)
                      +|-..+.+++|.++-+.
T Consensus       917 myk~s~lw~dayriakt  933 (1636)
T KOG3616|consen  917 MYKASELWEDAYRIAKT  933 (1636)
T ss_pred             HhhhhhhHHHHHHHHhc
Confidence            89888888888877643

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=98.40  E-value=0.0031  Score=65.82  Aligned_cols=214  Identities=11%  Similarity=-0.018  Sum_probs=114.8

Q ss_pred             cccchHHHHHHHH--HHHHhccchhHHHHHHHHhhhhcCCCCchhHHHHHHHhhccCCcchhhhHHHHHHHHHhccC---
Q 048743           14 WEGSSREVLLRKL--ESASKNHQVGEAWETFNDFQRLHGIPERHVVNRFITDLCYSAEPHWLQKACDLVLKIQKGKA---   88 (653)
Q Consensus        14 ~~~p~~~~~~~~i--~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~a~~~~~~~~~~~~---   88 (653)
                      ++.-+..|-..++  ..|...|+++.|.+-++.++      +..+|..|-+.|.+..+   ++-|---+-.|..-.|   
T Consensus       721 le~Cd~~TRkaml~FSfyvtiG~MD~AfksI~~Ik------S~~vW~nmA~McVkT~R---LDVAkVClGhm~~aRgaRA  791 (1416)
T KOG3617|consen  721 LENCDESTRKAMLDFSFYVTIGSMDAAFKSIQFIK------SDSVWDNMASMCVKTRR---LDVAKVCLGHMKNARGARA  791 (1416)
T ss_pred             ccccCHHHHHhhhceeEEEEeccHHHHHHHHHHHh------hhHHHHHHHHHhhhhcc---ccHHHHhhhhhhhhhhHHH
Confidence            4444555555554  34556677777766655432      34566666666666654   2222211111110000   


Q ss_pred             -----CchhHHHHHHHHHHHHhcCCCchHHHHHHHHHcCccCCCchhHHHHHHHHhhcccccccchHHHHHHHHHhhhhh
Q 048743           89 -----DLLQLDLLAKLSLSLARAQMPVPASMILRLMLGRENLPCSDLLLLVFVHMVKTEIGTCLASNFLIQLCDVFLHLS  163 (653)
Q Consensus        89 -----~~~~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~~~~l~~~~~~~~~~~  163 (653)
                           ..++ ++=..+.......|..++|+.+|.+-++.                           +.+-+.|.-.|.++
T Consensus       792 lR~a~q~~~-e~eakvAvLAieLgMlEeA~~lYr~ckR~---------------------------DLlNKlyQs~g~w~  843 (1416)
T KOG3617|consen  792 LRRAQQNGE-EDEAKVAVLAIELGMLEEALILYRQCKRY---------------------------DLLNKLYQSQGMWS  843 (1416)
T ss_pred             HHHHHhCCc-chhhHHHHHHHHHhhHHHHHHHHHHHHHH---------------------------HHHHHHHHhcccHH
Confidence                 0011 22222223334566677777777665543                           23444555556666


Q ss_pred             hhhcCCccCCCCc-hhhHHHHHHHHHhcCChhhHHHHHHHHHh----------cC---------CCccHHHHHHHHHHHH
Q 048743          164 AEKSNGAELIKPD-TMIFNLVLHACVRFGSSLKGQHIMELMSQ----------TG---------VVADAHSIIILAQIHE  223 (653)
Q Consensus       164 ~a~~~~~~~~~~~-~~~yn~li~~~~~~g~~~~a~~l~~~m~~----------~g---------~~p~~~t~~~ll~~~~  223 (653)
                      +|.++-+..-+.. ..||-.-..-+-..+|.+.|++.|+.-..          ..         -.-|...|.-......
T Consensus       844 eA~eiAE~~DRiHLr~Tyy~yA~~Lear~Di~~AleyyEK~~~hafev~rmL~e~p~~~e~Yv~~~~d~~L~~WWgqYlE  923 (1416)
T KOG3617|consen  844 EAFEIAETKDRIHLRNTYYNYAKYLEARRDIEAALEYYEKAGVHAFEVFRMLKEYPKQIEQYVRRKRDESLYSWWGQYLE  923 (1416)
T ss_pred             HHHHHHhhccceehhhhHHHHHHHHHhhccHHHHHHHHHhcCChHHHHHHHHHhChHHHHHHHHhccchHHHHHHHHHHh
Confidence            6666654322111 12444445555556777776666653221          10         1224444555666666


Q ss_pred             hcCChhhhHHHHHHhhhcCCCcccchhHHHHHHHHhhhccCCHHHHHHHHHHh
Q 048743          224 MNCQRDELKKFKCYIDQLSTPFAHHYQQFYESLLSLHFKFDDIDAAGELILDM  276 (653)
Q Consensus       224 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m  276 (653)
                      ..|+++.|..++.....            |-+++...|-.|++++|-++-++-
T Consensus       924 S~GemdaAl~~Y~~A~D------------~fs~VrI~C~qGk~~kAa~iA~es  964 (1416)
T KOG3617|consen  924 SVGEMDAALSFYSSAKD------------YFSMVRIKCIQGKTDKAARIAEES  964 (1416)
T ss_pred             cccchHHHHHHHHHhhh------------hhhheeeEeeccCchHHHHHHHhc
Confidence            77888888888876655            667777777788888887777665

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.36  E-value=5.4e-07  Score=55.77  Aligned_cols=35  Identities=14%  Similarity=0.340  Sum_probs=33.2

Q ss_pred             hhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCccH
Q 048743          178 MIFNLVLHACVRFGSSLKGQHIMELMSQTGVVADA  212 (653)
Q Consensus       178 ~~yn~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~  212 (653)
                      .+||++|.+|++.|++++|.++|++|.+.|+.||.
T Consensus         1 ~~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~~   35 (35)
T TIGR00756         1 VTYNTLIDGLCKAGRVEEALELFKEMLERGIEPDV   35 (35)
T ss_pred             CcHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCC
Confidence            47999999999999999999999999999999984

This family has a similar consensus to the TPR domain (tetratricopeptide), pfam pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR.

>PRK04841 transcriptional regulator MalT; Provisional

Probab=98.35  E-value=0.013  Score=67.67  Aligned_cols=427  Identities=9%  Similarity=-0.029  Sum_probs=235.2

Q ss_pred             CchHHHHHHHHHcCccC--C---C--chhHHHHHHHHhhcccc---cccc---hHHHHHHHHHhhhhhhhhcCCccCCCC
Q 048743          109 PVPASMILRLMLGRENL--P---C--SDLLLLVFVHMVKTEIG---TCLA---SNFLIQLCDVFLHLSAEKSNGAELIKP  175 (653)
Q Consensus       109 ~~~a~~~~~~m~~~g~~--p---~--~~~~~~li~~~~~~~~~---~~~~---~~~l~~~~~~~~~~~~a~~~~~~~~~~  175 (653)
                      .+.+.++++++.+.|.-  |   +  .+.|+-++..++.....   ....   .......+...|.+..+.........+
T Consensus       291 ~~~~~~~L~~l~~~~l~~~~~~~~~~~yr~H~L~r~~l~~~l~~~~~~~~~~lh~raa~~~~~~g~~~~Al~~a~~a~d~  370 (903)
T PRK04841        291 EENGQMRLEELERQGLFIQRMDDSGEWFRYHPLFASFLRHRCQWELAQELPELHRAAAEAWLAQGFPSEAIHHALAAGDA  370 (903)
T ss_pred             CCcHHHHHHHHHHCCCeeEeecCCCCEEehhHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHCCCHHHHHHHHHHCCCH
Confidence            45567888888887751  2   1  35577777766654321   1111   111122222233433332222111111


Q ss_pred             chhh--HHHHHHHHHhcCChhhHHHHHHHHHhcCCCccHHHHHHHHHHHHhcCChhhhHHHHHHhhhcCCC-----cccc
Q 048743          176 DTMI--FNLVLHACVRFGSSLKGQHIMELMSQTGVVADAHSIIILAQIHEMNCQRDELKKFKCYIDQLSTP-----FAHH  248 (653)
Q Consensus       176 ~~~~--yn~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~-----~~~~  248 (653)
                      ....  ...........|+++.+...++.+.......+..........+...|+.+++...+......-..     ....
T Consensus       371 ~~~~~ll~~~a~~l~~~g~~~~l~~~l~~lp~~~~~~~~~l~~~~a~~~~~~g~~~~a~~~l~~a~~~~~~~~~~~~~~~  450 (903)
T PRK04841        371 QLLRDILLQHGWSLFNQGELSLLEECLNALPWEVLLENPRLVLLQAWLAQSQHRYSEVNTLLARAEQELKDRNIELDGTL  450 (903)
T ss_pred             HHHHHHHHHhHHHHHhcCChHHHHHHHHhCCHHHHhcCcchHHHHHHHHHHCCCHHHHHHHHHHHHHhccccCcccchhH
Confidence            1111  11112234456777776666665532211112222233344455678888888877766443111     0000


Q ss_pred             hhHHHHHHHHhhhccCCHHHHHHHHHHhcccCCCCCCchhhhcccccchhccCCCcccchhhhccchhhhHHHHHHhhhh
Q 048743          249 YQQFYESLLSLHFKFDDIDAAGELILDMNRYREPLPNPKLRQDAQKPYLISIGSPNLRCGLKLQIMPELLEKDSILKMEG  328 (653)
Q Consensus       249 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  328 (653)
                      .......+-..+...|++++|...+++.....   +                                            
T Consensus       451 ~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~---~--------------------------------------------  483 (903)
T PRK04841        451 QAEFNALRAQVAINDGDPEEAERLAELALAEL---P--------------------------------------------  483 (903)
T ss_pred             HHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcC---C--------------------------------------------
Confidence            11122223344567889999988888762200   0                                            


Q ss_pred             hHHHHHHhcCCCCC-CHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCC--CC--CcccHHHHHHHHHHcCCHHHHHHHH
Q 048743          329 KQELVLFRNGKLLH-SNRAMAKLINGYKKHGKNSELSWLLLSIKKEHHS--FG--ESTLCSDVIDALIQLGFLEAAHDIL  403 (653)
Q Consensus       329 ~~~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~--~~--~~~~~~~li~~~~~~g~~~~a~~~~  403 (653)
                               .+..+ -....+.+-..+...|++++|...+++.......  .+  ...++..+...+...|+++.|...+
T Consensus       484 ---------~~~~~~~~~a~~~lg~~~~~~G~~~~A~~~~~~al~~~~~~g~~~~~~~~~~~la~~~~~~G~~~~A~~~~  554 (903)
T PRK04841        484 ---------LTWYYSRIVATSVLGEVHHCKGELARALAMMQQTEQMARQHDVYHYALWSLLQQSEILFAQGFLQAAYETQ  554 (903)
T ss_pred             ---------CccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHCCCHHHHHHHH
Confidence                     00000 0123455666677899999999998887643211  11  1123455667778899999999998


Q ss_pred             HHHHH----CCCC--C-CHHHHHHHHHHHHHcCChHHHHHHHHHHHHcC--CccCchhhHHHHhhHHHHhhhcccccccc
Q 048743          404 DDMEL----AGHP--M-DSTTYKSLLTAYYKVKMFREAEALLKQMRKSC--LVQNLSCEMVVSERFSEVADKSASFTDTS  474 (653)
Q Consensus       404 ~~m~~----~g~~--p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~--~~p~~~~~~~~~~~l~~~~~~~~~~~~~~  474 (653)
                      ++..+    .|..  + ....+..+...+...|++++|...+.+.....  ..+...  . ......+         ..+
T Consensus       555 ~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~--~-~~~~~la---------~~~  622 (903)
T PRK04841        555 EKAFQLIEEQHLEQLPMHEFLLRIRAQLLWEWARLDEAEQCARKGLEVLSNYQPQQQ--L-QCLAMLA---------KIS  622 (903)
T ss_pred             HHHHHHHHHhccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHhHHhhhccCchHH--H-HHHHHHH---------HHH
Confidence            87644    2221  1 22344455566777899999999998876531  112111  1 1111111         112


Q ss_pred             cccCCHHHHHHHHHHHHHccCCC-CHHHH-----HHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCH---HHHHHHHHHHh
Q 048743          475 SLMDKSDLAESLIQEMREEAALS-TIYKL-----NSSIYFFCKGKMIGDALKIYRRMQEMKIRPTV---ETFYYLVYGHS  545 (653)
Q Consensus       475 ~~~~~~~~a~~~~~~m~~~~~~p-~~~~y-----~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~---~t~~~li~~~~  545 (653)
                      ...|+.+.|...+++........ ....+     ...+..+...|+.+.|.+++............   ..+..+..++.
T Consensus       623 ~~~G~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~a~~~~  702 (903)
T PRK04841        623 LARGDLDNARRYLNRLENLLGNGRYHSDWIANADKVRLIYWQMTGDKEAAANWLRQAPKPEFANNHFLQGQWRNIARAQI  702 (903)
T ss_pred             HHcCCHHHHHHHHHHHHHHHhcccccHhHhhHHHHHHHHHHHHCCCHHHHHHHHHhcCCCCCccchhHHHHHHHHHHHHH
Confidence            34799999999988775421101 11111     11234455689999999998775542211111   11345667788


Q ss_pred             ccCCHHHHHHHHHHHHHHhhhCCCccC-HHHHHHHHHHHHhCCCHHHHHHHHHHHHhCC
Q 048743          546 SLEMYRDITILWGDIKRNIESGVLAVS-RDLYETLLLNFLQGGYFERVMEVIGYMKKQN  603 (653)
Q Consensus       546 ~~~~~~~a~~~~~~~~~~~~~~~~~p~-~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g  603 (653)
                      ..|+.++|..+++......+..+..++ ..+...+..++.+.|+.++|...+.+..+..
T Consensus       703 ~~g~~~~A~~~l~~al~~~~~~g~~~~~a~~~~~la~a~~~~G~~~~A~~~L~~Al~la  761 (903)
T PRK04841        703 LLGQFDEAEIILEELNENARSLRLMSDLNRNLILLNQLYWQQGRKSEAQRVLLEALKLA  761 (903)
T ss_pred             HcCCHHHHHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHh
Confidence            999999999999988766555555443 2456666777889999999999999887654

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=98.35  E-value=0.006  Score=63.80  Aligned_cols=250  Identities=12%  Similarity=0.047  Sum_probs=149.6

Q ss_pred             hhhHHHHHHHHHhccCCchhHHHHHHHHHHHHhcCCCchHHHHHHHHHcC-ccCCCchhHHHHHHHHhhcccccccchHH
Q 048743           73 LQKACDLVLKIQKGKADLLQLDLLAKLSLSLARAQMPVPASMILRLMLGR-ENLPCSDLLLLVFVHMVKTEIGTCLASNF  151 (653)
Q Consensus        73 ~~~a~~~~~~~~~~~~~~~~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~-g~~p~~~~~~~li~~~~~~~~~~~~~~~~  151 (653)
                      ++.|++-.+-+       .+...|..+.+.|.+.++.+-|.-.+..|... |.           +               
T Consensus       744 MD~AfksI~~I-------kS~~vW~nmA~McVkT~RLDVAkVClGhm~~aRga-----------R---------------  790 (1416)
T KOG3617|consen  744 MDAAFKSIQFI-------KSDSVWDNMASMCVKTRRLDVAKVCLGHMKNARGA-----------R---------------  790 (1416)
T ss_pred             HHHHHHHHHHH-------hhhHHHHHHHHHhhhhccccHHHHhhhhhhhhhhH-----------H---------------
Confidence            66666665444       25567777788888888888777777777543 10           0               


Q ss_pred             HHHHHHHhhhhhhhhcCCccCCCCc-hhhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCccHHHHHHHHHHHHhcCChhh
Q 048743          152 LIQLCDVFLHLSAEKSNGAELIKPD-TMIFNLVLHACVRFGSSLKGQHIMELMSQTGVVADAHSIIILAQIHEMNCQRDE  230 (653)
Q Consensus       152 l~~~~~~~~~~~~a~~~~~~~~~~~-~~~yn~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~  230 (653)
                               .+..|.+      .|+ ...-  +.......|.+++|+.+|.+-++.         ..|-+.|...|.+++
T Consensus       791 ---------AlR~a~q------~~~e~eak--vAvLAieLgMlEeA~~lYr~ckR~---------DLlNKlyQs~g~w~e  844 (1416)
T KOG3617|consen  791 ---------ALRRAQQ------NGEEDEAK--VAVLAIELGMLEEALILYRQCKRY---------DLLNKLYQSQGMWSE  844 (1416)
T ss_pred             ---------HHHHHHh------CCcchhhH--HHHHHHHHhhHHHHHHHHHHHHHH---------HHHHHHHHhcccHHH
Confidence                     1111111      121 1111  111224578888888888887763         345566777888888


Q ss_pred             hHHHHHHhhhcCCCcccchhHHHHHHHHhhhccCCHHHHHHHHHHhcccCCCCCCchhhhcccccchhccCCCcccchhh
Q 048743          231 LKKFKCYIDQLSTPFAHHYQQFYESLLSLHFKFDDIDAAGELILDMNRYREPLPNPKLRQDAQKPYLISIGSPNLRCGLK  310 (653)
Q Consensus       231 a~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  310 (653)
                      |.++-+.-.+.      +-..+|..-..-+-..+|++.|+++|++--.    ..                          
T Consensus       845 A~eiAE~~DRi------HLr~Tyy~yA~~Lear~Di~~AleyyEK~~~----ha--------------------------  888 (1416)
T KOG3617|consen  845 AFEIAETKDRI------HLRNTYYNYAKYLEARRDIEAALEYYEKAGV----HA--------------------------  888 (1416)
T ss_pred             HHHHHhhccce------ehhhhHHHHHHHHHhhccHHHHHHHHHhcCC----hH--------------------------
Confidence            88876553332      1122455555555567888899888887610    00                          


Q ss_pred             hccchhhhHHHHHHhhhhhHHHHHHhcCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHH
Q 048743          311 LQIMPELLEKDSILKMEGKQELVLFRNGKLLHSNRAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDAL  390 (653)
Q Consensus       311 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~  390 (653)
                      .++..-+.+.-..+.        ....  -..|...|.-.-.-.-..|+++.|+.+|...+.          |-.+++..
T Consensus       889 fev~rmL~e~p~~~e--------~Yv~--~~~d~~L~~WWgqYlES~GemdaAl~~Y~~A~D----------~fs~VrI~  948 (1416)
T KOG3617|consen  889 FEVFRMLKEYPKQIE--------QYVR--RKRDESLYSWWGQYLESVGEMDAALSFYSSAKD----------YFSMVRIK  948 (1416)
T ss_pred             HHHHHHHHhChHHHH--------HHHH--hccchHHHHHHHHHHhcccchHHHHHHHHHhhh----------hhhheeeE
Confidence            000000000000000        0001  112333444444444568999999999987653          77888888


Q ss_pred             HHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHH
Q 048743          391 IQLGFLEAAHDILDDMELAGHPMDSTTYKSLLTAYYKVKMFREAEALLKQMRK  443 (653)
Q Consensus       391 ~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  443 (653)
                      |-.|+.++|-++-++   .   .|....-.|...|-+.|++.+|..+|-+.+.
T Consensus       949 C~qGk~~kAa~iA~e---s---gd~AAcYhlaR~YEn~g~v~~Av~FfTrAqa  995 (1416)
T KOG3617|consen  949 CIQGKTDKAARIAEE---S---GDKAACYHLARMYENDGDVVKAVKFFTRAQA  995 (1416)
T ss_pred             eeccCchHHHHHHHh---c---ccHHHHHHHHHHhhhhHHHHHHHHHHHHHHH
Confidence            889999999888765   2   2666667788889999999999999877654

>PF04733 Coatomer_E: Coatomer epsilon subunit; InterPro: IPR006822 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=98.35  E-value=3.6e-05  Score=73.89  Aligned_cols=153  Identities=16%  Similarity=0.050  Sum_probs=96.6

Q ss_pred             HHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCccCchhhHHHHhhHHHHhhhc
Q 048743          388 DALIQLGFLEAAHDILDDMELAGHPMDSTTYKSLLTAYYKVKMFREAEALLKQMRKSCLVQNLSCEMVVSERFSEVADKS  467 (653)
Q Consensus       388 ~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~l~~~~~~~  467 (653)
                      ..+...|+++.|++++..-      .+.......+..|.+.++++.|.+.++.|.+.  ..|...+.+..+.+. +.   
T Consensus       110 ~i~~~~~~~~~AL~~l~~~------~~lE~~al~Vqi~L~~~R~dlA~k~l~~~~~~--~eD~~l~qLa~awv~-l~---  177 (290)
T PF04733_consen  110 TILFHEGDYEEALKLLHKG------GSLELLALAVQILLKMNRPDLAEKELKNMQQI--DEDSILTQLAEAWVN-LA---  177 (290)
T ss_dssp             HHHCCCCHHHHHHCCCTTT------TCHHHHHHHHHHHHHTT-HHHHHHHHHHHHCC--SCCHHHHHHHHHHHH-HH---
T ss_pred             HHHHHcCCHHHHHHHHHcc------CcccHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCcHHHHHHHHHHHH-HH---
Confidence            3444567788877777542      35666677777888888888888888888653  344322222222211 11   


Q ss_pred             ccccccccccCCHHHHHHHHHHHHHccCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhcc
Q 048743          468 ASFTDTSSLMDKSDLAESLIQEMREEAALSTIYKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRPTVETFYYLVYGHSSL  547 (653)
Q Consensus       468 ~~~~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~  547 (653)
                             .-.+++..|..+|+++.+. ..+++.+.|.+.-++...|++++|.+++.+..+.. +-|..|...++......
T Consensus       178 -------~g~e~~~~A~y~f~El~~~-~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al~~~-~~~~d~LaNliv~~~~~  248 (290)
T PF04733_consen  178 -------TGGEKYQDAFYIFEELSDK-FGSTPKLLNGLAVCHLQLGHYEEAEELLEEALEKD-PNDPDTLANLIVCSLHL  248 (290)
T ss_dssp             -------HTTTCCCHHHHHHHHHHCC-S--SHHHHHHHHHHHHHCT-HHHHHHHHHHHCCC--CCHHHHHHHHHHHHHHT
T ss_pred             -------hCchhHHHHHHHHHHHHhc-cCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhc-cCCHHHHHHHHHHHHHh
Confidence                   1124577788888887654 33677888888888888899999998888876543 22456667777777777


Q ss_pred             CCH-HHHHHHHHHHH
Q 048743          548 EMY-RDITILWGDIK  561 (653)
Q Consensus       548 ~~~-~~a~~~~~~~~  561 (653)
                      |+. +.+.+++..+.
T Consensus       249 gk~~~~~~~~l~qL~  263 (290)
T PF04733_consen  249 GKPTEAAERYLSQLK  263 (290)
T ss_dssp             T-TCHHHHHHHHHCH
T ss_pred             CCChhHHHHHHHHHH
Confidence            776 56777777665

This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. While clathrin mediates endocytic protein transport, and transport from ER to Golgi, coatomers primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. For example, the coatomer COP1 (coat protein complex 1) is responsible for reverse transport of recycled proteins from Golgi and pre-Golgi compartments back to the ER, while COPII buds vesicles from the ER to the Golgi []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Activated small guanine triphosphatases (GTPases) attract coat proteins to specific membrane export sites, thereby linking coatomers to export cargos. As coat proteins polymerise, vesicles are formed and budded from membrane-bound organelles. Coatomer complexes also influence Golgi structural integrity, as well as the processing, activity, and endocytic recycling of LDL receptors. In mammals, coatomer complexes can only be recruited by membranes associated to ADP-ribosylation factors (ARFs), which are small GTP-binding proteins. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the epsilon subunit of the coatomer complex, which is involved in the regulation of intracellular protein trafficking between the endoplasmic reticulum and the Golgi complex []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0005198 structural molecule activity, 0006890 retrograde vesicle-mediated transport, Golgi to ER, 0030126 COPI vesicle coat; PDB: 3MV2_B 3MV3_F 3MKR_A.

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=98.34  E-value=7.4e-07  Score=54.65  Aligned_cols=34  Identities=24%  Similarity=0.479  Sum_probs=32.4

Q ss_pred             hhhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCc
Q 048743          177 TMIFNLVLHACVRFGSSLKGQHIMELMSQTGVVA  210 (653)
Q Consensus       177 ~~~yn~li~~~~~~g~~~~a~~l~~~m~~~g~~p  210 (653)
                      +.+||++|++|++.|+++.|.++|++|++.|++|
T Consensus         1 v~ty~~ll~a~~~~g~~~~a~~~~~~M~~~gv~P   34 (34)
T PF13812_consen    1 VHTYNALLRACAKAGDPDAALQLFDEMKEQGVKP   34 (34)
T ss_pred             CcHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCC
Confidence            3689999999999999999999999999999988

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.33  E-value=0.0078  Score=64.46  Aligned_cols=212  Identities=11%  Similarity=0.026  Sum_probs=119.2

Q ss_pred             HHHHHHHhhccCCcchhhhHHHHHHHHHhccCCchhHHHHHHHHHHHHhcCCCchHHHHHHHHHcCccCCCchhH-HHHH
Q 048743           57 VNRFITDLCYSAEPHWLQKACDLVLKIQKGKADLLQLDLLAKLSLSLARAQMPVPASMILRLMLGRENLPCSDLL-LLVF  135 (653)
Q Consensus        57 ~~~ll~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~-~~li  135 (653)
                      |-.+|+.+.+..    .+++.+....+.+..+.   ...++.+...+........+...+-...+.. .|+.... +.++
T Consensus       513 ymflLq~l~r~s----PD~~~qFa~~l~Q~~~~---~~die~I~DlFme~N~iQq~TSFLLdaLK~~-~Pd~g~LQTrLL  584 (1666)
T KOG0985|consen  513 YMFLLQQLKRSS----PDQALQFAMMLVQDEEP---LADIEQIVDLFMELNLIQQCTSFLLDALKLN-SPDEGHLQTRLL  584 (1666)
T ss_pred             HHHHHHHHHccC----hhHHHHHHHHhhccCCC---cccHHHHHHHHHHHHhhhhhHHHHHHHhcCC-ChhhhhHHHHHH
Confidence            556677776654    35666666555554432   2223444555555555555555544443322 3333321 1122


Q ss_pred             HHHhhccc-----------ccccchHHHHHHHHHhhhhhhhhcCCccC--CCCchhhHHHH----HHHHHhcCChhhHHH
Q 048743          136 VHMVKTEI-----------GTCLASNFLIQLCDVFLHLSAEKSNGAEL--IKPDTMIFNLV----LHACVRFGSSLKGQH  198 (653)
Q Consensus       136 ~~~~~~~~-----------~~~~~~~~l~~~~~~~~~~~~a~~~~~~~--~~~~~~~yn~l----i~~~~~~g~~~~a~~  198 (653)
                      ......++           -+..-+-.+.+.|.+.|-...|.+.+...  ++..++.-+.|    +-.|.-.-.++.+.+
T Consensus       585 E~NL~~aPqVADAILgN~mFtHyDra~IAqLCEKAGL~qraLehytDl~DIKR~vVhth~L~pEwLv~yFg~lsve~s~e  664 (1666)
T KOG0985|consen  585 EMNLVHAPQVADAILGNDMFTHYDRAEIAQLCEKAGLLQRALEHYTDLYDIKRVVVHTHLLNPEWLVNYFGSLSVEDSLE  664 (1666)
T ss_pred             HHHhccchHHHHHHHhccccccccHHHHHHHHHhcchHHHHHHhcccHHHHHHHHHHhccCCHHHHHHHHHhcCHHHHHH
Confidence            11111111           11122456778888888777777665532  12222221111    234555567889999


Q ss_pred             HHHHHHhcCCCccHHHHHHHHHHHHhcCChhhhHHHHHHhhhcC--------CCcccchhHHHHHHHHhhhccCCHHHHH
Q 048743          199 IMELMSQTGVVADAHSIIILAQIHEMNCQRDELKKFKCYIDQLS--------TPFAHHYQQFYESLLSLHFKFDDIDAAG  270 (653)
Q Consensus       199 l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~--------~~~~~~~~~~~~~li~~~~~~g~~~~A~  270 (653)
                      .++.|...+++-|..+..-+..-|...-..+...++|+......        .-+...|..+.-..|.+-|+.|++.+..
T Consensus       665 clkaml~~NirqNlQi~VQvatky~eqlg~~~li~lFE~fks~eGL~yfLgSivn~seDpevh~KYIqAA~kt~QikEvE  744 (1666)
T KOG0985|consen  665 CLKAMLSANIRQNLQIVVQVATKYHEQLGAQALIELFESFKSYEGLYYFLGSIVNFSEDPEVHFKYIQAACKTGQIKEVE  744 (1666)
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHHHhCHHHHHHHHHhhccchhHHHHHHHHhccccCchHHHHHHHHHHhhccHHHHH
Confidence            99999999888888777766666666666666667766665431        1222333345567889999999999888


Q ss_pred             HHHHHh
Q 048743          271 ELILDM  276 (653)
Q Consensus       271 ~~~~~m  276 (653)
                      ++.++-
T Consensus       745 Ricres  750 (1666)
T KOG0985|consen  745 RICRES  750 (1666)
T ss_pred             HHHhcc
Confidence            876554

>PF04733 Coatomer_E: Coatomer epsilon subunit; InterPro: IPR006822 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=98.29  E-value=4.4e-05  Score=73.35  Aligned_cols=200  Identities=14%  Similarity=0.144  Sum_probs=130.4

Q ss_pred             cCCCCchhhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCc-cHHHHHHHHHHHHhcCChhhhHHHHHHhhhcCCCcccch
Q 048743          171 ELIKPDTMIFNLVLHACVRFGSSLKGQHIMELMSQTGVVA-DAHSIIILAQIHEMNCQRDELKKFKCYIDQLSTPFAHHY  249 (653)
Q Consensus       171 ~~~~~~~~~yn~li~~~~~~g~~~~a~~l~~~m~~~g~~p-~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~  249 (653)
                      ....|.......+...+...++-+.++.-+++....+..+ +..........+...|++++|.+++....     ..   
T Consensus        60 ~~~~~~l~av~~la~y~~~~~~~e~~l~~l~~~~~~~~~~~~~~~~~~~A~i~~~~~~~~~AL~~l~~~~-----~l---  131 (290)
T PF04733_consen   60 KSSSPELQAVRLLAEYLSSPSDKESALEELKELLADQAGESNEIVQLLAATILFHEGDYEEALKLLHKGG-----SL---  131 (290)
T ss_dssp             TTSSCCCHHHHHHHHHHCTSTTHHCHHHHHHHCCCTS---CHHHHHHHHHHHHCCCCHHHHHHCCCTTTT-----CH---
T ss_pred             cCCChhHHHHHHHHHHHhCccchHHHHHHHHHHHHhccccccHHHHHHHHHHHHHcCCHHHHHHHHHccC-----cc---
Confidence            3346666666555544444355566666555544444332 33333344456667899999888876531     12   


Q ss_pred             hHHHHHHHHhhhccCCHHHHHHHHHHhcccCCCCCCchhhhcccccchhccCCCcccchhhhccchhhhHHHHHHhhhhh
Q 048743          250 QQFYESLLSLHFKFDDIDAAGELILDMNRYREPLPNPKLRQDAQKPYLISIGSPNLRCGLKLQIMPELLEKDSILKMEGK  329 (653)
Q Consensus       250 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  329 (653)
                       ......+..|.+.++++.|.+.++.|.+                                                   
T Consensus       132 -E~~al~Vqi~L~~~R~dlA~k~l~~~~~---------------------------------------------------  159 (290)
T PF04733_consen  132 -ELLALAVQILLKMNRPDLAEKELKNMQQ---------------------------------------------------  159 (290)
T ss_dssp             -HHHHHHHHHHHHTT-HHHHHHHHHHHHC---------------------------------------------------
T ss_pred             -cHHHHHHHHHHHcCCHHHHHHHHHHHHh---------------------------------------------------
Confidence             2356778899999999999999999932                                                   


Q ss_pred             HHHHHHhcCCCCCCHHHHHHHHHHH----HhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHH
Q 048743          330 QELVLFRNGKLLHSNRAMAKLINGY----KKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDD  405 (653)
Q Consensus       330 ~~~~~~~~~~~~p~~~~~~~li~~~----~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~  405 (653)
                                ...|. +...+..++    .-...+.+|..+|+++....  ++++.+.+.+..++...|++++|.+++.+
T Consensus       160 ----------~~eD~-~l~qLa~awv~l~~g~e~~~~A~y~f~El~~~~--~~t~~~lng~A~~~l~~~~~~eAe~~L~~  226 (290)
T PF04733_consen  160 ----------IDEDS-ILTQLAEAWVNLATGGEKYQDAFYIFEELSDKF--GSTPKLLNGLAVCHLQLGHYEEAEELLEE  226 (290)
T ss_dssp             ----------CSCCH-HHHHHHHHHHHHHHTTTCCCHHHHHHHHHHCCS----SHHHHHHHHHHHHHCT-HHHHHHHHHH
T ss_pred             ----------cCCcH-HHHHHHHHHHHHHhCchhHHHHHHHHHHHHhcc--CCCHHHHHHHHHHHHHhCCHHHHHHHHHH
Confidence                      11232 222333333    33456899999999988765  56777788899999999999999999999


Q ss_pred             HHHCCCCCCHHHHHHHHHHHHHcCCh-HHHHHHHHHHHHc
Q 048743          406 MELAGHPMDSTTYKSLLTAYYKVKMF-REAEALLKQMRKS  444 (653)
Q Consensus       406 m~~~g~~p~~~~~~~li~~~~~~~~~-~~a~~~~~~m~~~  444 (653)
                      ..+... -++.+...++.+....|+. +.+.+++.++...
T Consensus       227 al~~~~-~~~d~LaNliv~~~~~gk~~~~~~~~l~qL~~~  265 (290)
T PF04733_consen  227 ALEKDP-NDPDTLANLIVCSLHLGKPTEAAERYLSQLKQS  265 (290)
T ss_dssp             HCCC-C-CHHHHHHHHHHHHHHTT-TCHHHHHHHHHCHHH
T ss_pred             HHHhcc-CCHHHHHHHHHHHHHhCCChhHHHHHHHHHHHh
Confidence            876543 3677888888888888887 6778888888774

This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. While clathrin mediates endocytic protein transport, and transport from ER to Golgi, coatomers primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. For example, the coatomer COP1 (coat protein complex 1) is responsible for reverse transport of recycled proteins from Golgi and pre-Golgi compartments back to the ER, while COPII buds vesicles from the ER to the Golgi []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Activated small guanine triphosphatases (GTPases) attract coat proteins to specific membrane export sites, thereby linking coatomers to export cargos. As coat proteins polymerise, vesicles are formed and budded from membrane-bound organelles. Coatomer complexes also influence Golgi structural integrity, as well as the processing, activity, and endocytic recycling of LDL receptors. In mammals, coatomer complexes can only be recruited by membranes associated to ADP-ribosylation factors (ARFs), which are small GTP-binding proteins. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the epsilon subunit of the coatomer complex, which is involved in the regulation of intracellular protein trafficking between the endoplasmic reticulum and the Golgi complex []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0005198 structural molecule activity, 0006890 retrograde vesicle-mediated transport, Golgi to ER, 0030126 COPI vesicle coat; PDB: 3MV2_B 3MV3_F 3MKR_A.

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.25  E-value=1.6e-06  Score=53.52  Aligned_cols=34  Identities=32%  Similarity=0.552  Sum_probs=32.2

Q ss_pred             HHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCH
Q 048743          501 KLNSSIYFFCKGKMIGDALKIYRRMQEMKIRPTV  534 (653)
Q Consensus       501 ~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~  534 (653)
                      +||++|.+|++.|++++|.++|++|.+.|+.||.
T Consensus         2 ~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~~   35 (35)
T TIGR00756         2 TYNTLIDGLCKAGRVEEALELFKEMLERGIEPDV   35 (35)
T ss_pred             cHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCC
Confidence            7999999999999999999999999999999983

This family has a similar consensus to the TPR domain (tetratricopeptide), pfam pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR.

>KOG0624 consensus dsRNA-activated protein kinase inhibitor P58, contains TPR and DnaJ domains [Defense mechanisms]

Probab=98.22  E-value=0.0039  Score=58.51  Aligned_cols=211  Identities=10%  Similarity=0.000  Sum_probs=130.2

Q ss_pred             HHHHHHHhcCChhhHHHHHHHHHhcCCCccHHH-HHHHHHHHHhcCChhhhHHHHHHhhhcCCCcccchhHHHHHHHHhh
Q 048743          182 LVLHACVRFGSSLKGQHIMELMSQTGVVADAHS-IIILAQIHEMNCQRDELKKFKCYIDQLSTPFAHHYQQFYESLLSLH  260 (653)
Q Consensus       182 ~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t-~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~li~~~  260 (653)
                      -|-+.+..+|.+..|+.-|....+-  .|+.+. +---...|...|+-..|..=++.+.+..+....    ..----..+
T Consensus        43 ElGk~lla~~Q~sDALt~yHaAve~--dp~~Y~aifrRaT~yLAmGksk~al~Dl~rVlelKpDF~~----ARiQRg~vl  116 (504)
T KOG0624|consen   43 ELGKELLARGQLSDALTHYHAAVEG--DPNNYQAIFRRATVYLAMGKSKAALQDLSRVLELKPDFMA----ARIQRGVVL  116 (504)
T ss_pred             HHHHHHHHhhhHHHHHHHHHHHHcC--CchhHHHHHHHHHHHhhhcCCccchhhHHHHHhcCccHHH----HHHHhchhh
Confidence            3455566677777777777766643  344332 222234455566666666666665554322211    111122445


Q ss_pred             hccCCHHHHHHHHHHhcccCCCCCCchhhhcccccchhccCCCcccchhhhccchhhhHHHHHHhhhhhHHHHHHhcCCC
Q 048743          261 FKFDDIDAAGELILDMNRYREPLPNPKLRQDAQKPYLISIGSPNLRCGLKLQIMPELLEKDSILKMEGKQELVLFRNGKL  340 (653)
Q Consensus       261 ~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  340 (653)
                      .+.|.+++|..=|+...+..   |.+.                     ..             ..          ....+
T Consensus       117 lK~Gele~A~~DF~~vl~~~---~s~~---------------------~~-------------~e----------aqskl  149 (504)
T KOG0624|consen  117 LKQGELEQAEADFDQVLQHE---PSNG---------------------LV-------------LE----------AQSKL  149 (504)
T ss_pred             hhcccHHHHHHHHHHHHhcC---CCcc---------------------hh-------------HH----------HHHHH
Confidence            67888999888888874311   1100                     00             00          01112


Q ss_pred             CCCHHHH--HHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHH
Q 048743          341 LHSNRAM--AKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTY  418 (653)
Q Consensus       341 ~p~~~~~--~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~  418 (653)
                      .+....|  ...+..+.-.|+...|+.....+.+-.  |-+...|..-..+|...|++..|..=++...+..- -+..++
T Consensus       150 ~~~~e~~~l~~ql~s~~~~GD~~~ai~~i~~llEi~--~Wda~l~~~Rakc~i~~~e~k~AI~Dlk~askLs~-DnTe~~  226 (504)
T KOG0624|consen  150 ALIQEHWVLVQQLKSASGSGDCQNAIEMITHLLEIQ--PWDASLRQARAKCYIAEGEPKKAIHDLKQASKLSQ-DNTEGH  226 (504)
T ss_pred             HhHHHHHHHHHHHHHHhcCCchhhHHHHHHHHHhcC--cchhHHHHHHHHHHHhcCcHHHHHHHHHHHHhccc-cchHHH
Confidence            2222222  345666677899999999999988876  77777788888999999999999877766655432 245555


Q ss_pred             HHHHHHHHHcCChHHHHHHHHHHHHcCCccCc
Q 048743          419 KSLLTAYYKVKMFREAEALLKQMRKSCLVQNL  450 (653)
Q Consensus       419 ~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~  450 (653)
                      --+-..+...|+.+.++...++..+  +.||-
T Consensus       227 ykis~L~Y~vgd~~~sL~~iRECLK--ldpdH  256 (504)
T KOG0624|consen  227 YKISQLLYTVGDAENSLKEIRECLK--LDPDH  256 (504)
T ss_pred             HHHHHHHHhhhhHHHHHHHHHHHHc--cCcch
Confidence            5667778889999998888888776  56764

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=98.22  E-value=2e-06  Score=52.67  Aligned_cols=33  Identities=21%  Similarity=0.330  Sum_probs=30.5

Q ss_pred             HHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCC
Q 048743          500 YKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRP  532 (653)
Q Consensus       500 ~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p  532 (653)
                      .+||++|.+|++.|+++.|.++|++|.+.|++|
T Consensus         2 ~ty~~ll~a~~~~g~~~~a~~~~~~M~~~gv~P   34 (34)
T PF13812_consen    2 HTYNALLRACAKAGDPDAALQLFDEMKEQGVKP   34 (34)
T ss_pred             cHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCC
Confidence            589999999999999999999999999999887

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.19  E-value=0.0028  Score=58.25  Aligned_cols=337  Identities=12%  Similarity=0.048  Sum_probs=190.4

Q ss_pred             HHHHHHHHHhcCChhhHHHHHHHHHhcCCCc-cHHHHHHHHHHHHhcCChhhhHHHHHHhhhcCCCcccchhHHHHH-HH
Q 048743          180 FNLVLHACVRFGSSLKGQHIMELMSQTGVVA-DAHSIIILAQIHEMNCQRDELKKFKCYIDQLSTPFAHHYQQFYES-LL  257 (653)
Q Consensus       180 yn~li~~~~~~g~~~~a~~l~~~m~~~g~~p-~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~-li  257 (653)
                      +++++..+.+..+++.|.+++..-.+.  .| +....+.+..+|-...++..|-..++++.+.-+.. .    -|.. -.
T Consensus        13 ftaviy~lI~d~ry~DaI~~l~s~~Er--~p~~rAgLSlLgyCYY~~Q~f~~AA~CYeQL~ql~P~~-~----qYrlY~A   85 (459)
T KOG4340|consen   13 FTAVVYRLIRDARYADAIQLLGSELER--SPRSRAGLSLLGYCYYRLQEFALAAECYEQLGQLHPEL-E----QYRLYQA   85 (459)
T ss_pred             hHHHHHHHHHHhhHHHHHHHHHHHHhc--CccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhChHH-H----HHHHHHH
Confidence            566777778888999999988877765  34 55557788888888889999998888887643211 1    1211 12


Q ss_pred             HhhhccCCHHHHHHHHHHhcccCCCCCCchhhhcccccchhccCCCcccchhhhccchhhhHHHHHHhhhhhHHHHHHhc
Q 048743          258 SLHFKFDDIDAAGELILDMNRYREPLPNPKLRQDAQKPYLISIGSPNLRCGLKLQIMPELLEKDSILKMEGKQELVLFRN  337 (653)
Q Consensus       258 ~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  337 (653)
                      ..+-+.+.+..|+++...|...                                                          
T Consensus        86 QSLY~A~i~ADALrV~~~~~D~----------------------------------------------------------  107 (459)
T KOG4340|consen   86 QSLYKACIYADALRVAFLLLDN----------------------------------------------------------  107 (459)
T ss_pred             HHHHHhcccHHHHHHHHHhcCC----------------------------------------------------------
Confidence            3345667888888888877210                                                          


Q ss_pred             CCCCCCHHHHHHHHHH--HHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHC-CCCCC
Q 048743          338 GKLLHSNRAMAKLING--YKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELA-GHPMD  414 (653)
Q Consensus       338 ~~~~p~~~~~~~li~~--~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~-g~~p~  414 (653)
                          |+...-..-+.+  ....+++-.+..++++....+    +..+.+..--...+.|+.+.|.+-|+...+- |.. .
T Consensus       108 ----~~L~~~~lqLqaAIkYse~Dl~g~rsLveQlp~en----~Ad~~in~gCllykegqyEaAvqkFqaAlqvsGyq-p  178 (459)
T KOG4340|consen  108 ----PALHSRVLQLQAAIKYSEGDLPGSRSLVEQLPSEN----EADGQINLGCLLYKEGQYEAAVQKFQAALQVSGYQ-P  178 (459)
T ss_pred             ----HHHHHHHHHHHHHHhcccccCcchHHHHHhccCCC----ccchhccchheeeccccHHHHHHHHHHHHhhcCCC-c
Confidence                000000111111  224677777777777765444    1222333333445778888888888777553 444 4


Q ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCcc-------------Cc-h--hhHHHHhhHHHHhhhcccccccccccC
Q 048743          415 STTYKSLLTAYYKVKMFREAEALLKQMRKSCLVQ-------------NL-S--CEMVVSERFSEVADKSASFTDTSSLMD  478 (653)
Q Consensus       415 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p-------------~~-~--~~~~~~~~l~~~~~~~~~~~~~~~~~~  478 (653)
                      ...||..+ +..+.++++.|+++..++.++|+.-             |. +  ++..+  -..++...-+...-.+.+.+
T Consensus       179 llAYniAL-aHy~~~qyasALk~iSEIieRG~r~HPElgIGm~tegiDvrsvgNt~~l--h~Sal~eAfNLKaAIeyq~~  255 (459)
T KOG4340|consen  179 LLAYNLAL-AHYSSRQYASALKHISEIIERGIRQHPELGIGMTTEGIDVRSVGNTLVL--HQSALVEAFNLKAAIEYQLR  255 (459)
T ss_pred             hhHHHHHH-HHHhhhhHHHHHHHHHHHHHhhhhcCCccCccceeccCchhcccchHHH--HHHHHHHHhhhhhhhhhhcc
Confidence            56676655 3445577888888888887777532             11 0  11100  00111111111122345678


Q ss_pred             CHHHHHHHHHHHHHccC-CCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCCHHHHHHHH
Q 048743          479 KSDLAESLIQEMREEAA-LSTIYKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRPTVETFYYLVYGHSSLEMYRDITILW  557 (653)
Q Consensus       479 ~~~~a~~~~~~m~~~~~-~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~  557 (653)
                      +.+.|.+-+-.|..+.- ..|++|...+.-.=+ .+++.+..+-+.-+.+.+. .-..||..++-.||+..-++.|-.++
T Consensus       256 n~eAA~eaLtDmPPRaE~elDPvTLHN~Al~n~-~~~p~~g~~KLqFLL~~nP-fP~ETFANlLllyCKNeyf~lAADvL  333 (459)
T KOG4340|consen  256 NYEAAQEALTDMPPRAEEELDPVTLHNQALMNM-DARPTEGFEKLQFLLQQNP-FPPETFANLLLLYCKNEYFDLAADVL  333 (459)
T ss_pred             cHHHHHHHhhcCCCcccccCCchhhhHHHHhcc-cCCccccHHHHHHHHhcCC-CChHHHHHHHHHHhhhHHHhHHHHHH
Confidence            88889888888873221 225555544433222 3444444444444444432 34678999999999999888888777


Q ss_pred             HHHHHHhhhCCCccCHHHHHHHHHHHHhC-CCHHHHHHHHHHH
Q 048743          558 GDIKRNIESGVLAVSRDLYETLLLNFLQG-GYFERVMEVIGYM  599 (653)
Q Consensus       558 ~~~~~~~~~~~~~p~~~~y~~li~~~~~~-g~~~~a~~~~~~m  599 (653)
                      .+-...   .-...+...|+ +++++... -..++|.+-++.+
T Consensus       334 AEn~~l---Tyk~L~~Yly~-LLdaLIt~qT~pEea~KKL~~L  372 (459)
T KOG4340|consen  334 AENAHL---TYKFLTPYLYD-LLDALITCQTAPEEAFKKLDGL  372 (459)
T ss_pred             hhCcch---hHHHhhHHHHH-HHHHHHhCCCCHHHHHHHHHHH
Confidence            432100   00112344454 55555543 4456665544433

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=98.15  E-value=0.00071  Score=63.80  Aligned_cols=101  Identities=12%  Similarity=-0.005  Sum_probs=64.5

Q ss_pred             CCHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCc---ccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCH--H
Q 048743          342 HSNRAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGES---TLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDS--T  416 (653)
Q Consensus       342 p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~---~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~--~  416 (653)
                      .....+..+...+.+.|++++|...|+++....  |.+.   ..+..+...+.+.|+++.|...++++.+.......  .
T Consensus        31 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~--p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~  108 (235)
T TIGR03302        31 WPAEELYEEAKEALDSGDYTEAIKYFEALESRY--PFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLHPNHPDADY  108 (235)
T ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCchHH
Confidence            344566777777888888888888888877765  4332   24566777888888888888888888764321111  1


Q ss_pred             HHHHHHHHHHHc--------CChHHHHHHHHHHHHc
Q 048743          417 TYKSLLTAYYKV--------KMFREAEALLKQMRKS  444 (653)
Q Consensus       417 ~~~~li~~~~~~--------~~~~~a~~~~~~m~~~  444 (653)
                      ++..+-.++...        |++++|.+.|+.+.+.
T Consensus       109 a~~~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~  144 (235)
T TIGR03302       109 AYYLRGLSNYNQIDRVDRDQTAAREAFEAFQELIRR  144 (235)
T ss_pred             HHHHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHH
Confidence            333333344433        5566677777666653

Members of this protein family include YfiO, a near-essential protein of the outer membrane, part of a complex involved in protein insertion into the bacterial outer membrane. Many proteins in this family are annotated as ComL, based on the involvement of this protein in natural transformation with exogenous DNA in Neisseria gonorrhoeae. This protein family shows sequence similarity to, but is distinct from, the tol-pal system protein YbgF (TIGR02795).

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.15  E-value=0.02  Score=61.59  Aligned_cols=207  Identities=11%  Similarity=0.083  Sum_probs=119.5

Q ss_pred             ccchHHHHHHHHHHHHhccchhHHHHHHHHhhhhc-CC-CCchhHHHHHHHhhccCCcchhhhHHHHHHHHHhccCCchh
Q 048743           15 EGSSREVLLRKLESASKNHQVGEAWETFNDFQRLH-GI-PERHVVNRFITDLCYSAEPHWLQKACDLVLKIQKGKADLLQ   92 (653)
Q Consensus        15 ~~p~~~~~~~~i~~~~~~~~~~~A~~~~~~~~~~~-~~-~~~~~~~~ll~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~   92 (653)
                      +..+++.....+.++-..+-..+.+++++.+.-.. .+ -+...-|.+|-...++.+    .+..+...++-.  -..|+
T Consensus       980 E~~dPe~vS~tVkAfMtadLp~eLIELLEKIvL~~S~Fse~~nLQnLLiLtAikad~----trVm~YI~rLdn--yDa~~ 1053 (1666)
T KOG0985|consen  980 ETQDPEEVSVTVKAFMTADLPNELIELLEKIVLDNSVFSENRNLQNLLILTAIKADR----TRVMEYINRLDN--YDAPD 1053 (1666)
T ss_pred             ccCChHHHHHHHHHHHhcCCcHHHHHHHHHHhcCCcccccchhhhhhHHHHHhhcCh----HHHHHHHHHhcc--CCchh
Confidence            34455555566666666666777777777654321 11 112233555555444433    334444444311  11122


Q ss_pred             HHHHHHHHHHHHhcCCCchHHHHHHHHHcCccCCCchhHHHHHHHHhhcccccccchHHHHHHHHHhhhhhhhhcCCccC
Q 048743           93 LDLLAKLSLSLARAQMPVPASMILRLMLGRENLPCSDLLLLVFVHMVKTEIGTCLASNFLIQLCDVFLHLSAEKSNGAEL  172 (653)
Q Consensus        93 ~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  172 (653)
                            +...+..++-+++|+.+|....-     +......+|..+                     ++++.|.+.-++.
T Consensus      1054 ------ia~iai~~~LyEEAF~ifkkf~~-----n~~A~~VLie~i---------------------~~ldRA~efAe~~ 1101 (1666)
T KOG0985|consen 1054 ------IAEIAIENQLYEEAFAIFKKFDM-----NVSAIQVLIENI---------------------GSLDRAYEFAERC 1101 (1666)
T ss_pred             ------HHHHHhhhhHHHHHHHHHHHhcc-----cHHHHHHHHHHh---------------------hhHHHHHHHHHhh
Confidence                  22334455666777777765522     222233332221                     2333333332232


Q ss_pred             CCCchhhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCccHHHHHHHHHHHHhcCChhhhHHHHHHhhhcC-CCcccchhH
Q 048743          173 IKPDTMIFNLVLHACVRFGSSLKGQHIMELMSQTGVVADAHSIIILAQIHEMNCQRDELKKFKCYIDQLS-TPFAHHYQQ  251 (653)
Q Consensus       173 ~~~~~~~yn~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~-~~~~~~~~~  251 (653)
                      .+  ...|..+..+-.+.|...+|.+-|-..      -|+..|.-++..+.+.|.+++..+.+....+.. .|.+.    
T Consensus      1102 n~--p~vWsqlakAQL~~~~v~dAieSyika------dDps~y~eVi~~a~~~~~~edLv~yL~MaRkk~~E~~id---- 1169 (1666)
T KOG0985|consen 1102 NE--PAVWSQLAKAQLQGGLVKDAIESYIKA------DDPSNYLEVIDVASRTGKYEDLVKYLLMARKKVREPYID---- 1169 (1666)
T ss_pred             CC--hHHHHHHHHHHHhcCchHHHHHHHHhc------CCcHHHHHHHHHHHhcCcHHHHHHHHHHHHHhhcCccch----
Confidence            23  357888889988999888888766432      255668889999999999999888887776653 35554    


Q ss_pred             HHHHHHHhhhccCCHHHHHHHH
Q 048743          252 FYESLLSLHFKFDDIDAAGELI  273 (653)
Q Consensus       252 ~~~~li~~~~~~g~~~~A~~~~  273 (653)
                        +.||-+|++.+++.+-.+++
T Consensus      1170 --~eLi~AyAkt~rl~elE~fi 1189 (1666)
T KOG0985|consen 1170 --SELIFAYAKTNRLTELEEFI 1189 (1666)
T ss_pred             --HHHHHHHHHhchHHHHHHHh
Confidence              78999999999888776654

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.11  E-value=0.00073  Score=61.88  Aligned_cols=290  Identities=10%  Similarity=0.001  Sum_probs=186.4

Q ss_pred             HHHHHHHHHhcCChhhhHHHHHHhhhcCCCcccchhHHHHHHHHhhhccCCHHHHHHHHHHhcccCCCCCCchhhhcccc
Q 048743          215 IIILAQIHEMNCQRDELKKFKCYIDQLSTPFAHHYQQFYESLLSLHFKFDDIDAAGELILDMNRYREPLPNPKLRQDAQK  294 (653)
Q Consensus       215 ~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~  294 (653)
                      +..++..+.+..++..+.+++..-.+..+...    .-...|-.+|-...++..|-..++++.+                
T Consensus        13 ftaviy~lI~d~ry~DaI~~l~s~~Er~p~~r----AgLSlLgyCYY~~Q~f~~AA~CYeQL~q----------------   72 (459)
T KOG4340|consen   13 FTAVVYRLIRDARYADAIQLLGSELERSPRSR----AGLSLLGYCYYRLQEFALAAECYEQLGQ----------------   72 (459)
T ss_pred             hHHHHHHHHHHhhHHHHHHHHHHHHhcCccch----HHHHHHHHHHHHHHHHHHHHHHHHHHHh----------------
Confidence            45556666677788888888777665543222    2477888889999999999999999822                


Q ss_pred             cchhccCCCcccchhhhccchhhhHHHHHHhhhhhHHHHHHhcCCCCCCHHHHH-HHHHHHHhcCChHHHHHHHHHHHhc
Q 048743          295 PYLISIGSPNLRCGLKLQIMPELLEKDSILKMEGKQELVLFRNGKLLHSNRAMA-KLINGYKKHGKNSELSWLLLSIKKE  373 (653)
Q Consensus       295 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~-~li~~~~~~~~~~~a~~~~~~m~~~  373 (653)
                                                                   ..|...-|. .--..+.+.+.+..|+++...|...
T Consensus        73 ---------------------------------------------l~P~~~qYrlY~AQSLY~A~i~ADALrV~~~~~D~  107 (459)
T KOG4340|consen   73 ---------------------------------------------LHPELEQYRLYQAQSLYKACIYADALRVAFLLLDN  107 (459)
T ss_pred             ---------------------------------------------hChHHHHHHHHHHHHHHHhcccHHHHHHHHHhcCC
Confidence                                                         335444442 2234556778889999999888653


Q ss_pred             CCCCCCcccHHHHHHHHH--HcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHH-cCCccCc
Q 048743          374 HHSFGESTLCSDVIDALI--QLGFLEAAHDILDDMELAGHPMDSTTYKSLLTAYYKVKMFREAEALLKQMRK-SCLVQNL  450 (653)
Q Consensus       374 ~~~~~~~~~~~~li~~~~--~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~-~~~~p~~  450 (653)
                      .    +...-..-+.+..  ..+++..+..+++.....|   +..+.+..--...+.|+++.|.+-|+...+ .|..|-.
T Consensus       108 ~----~L~~~~lqLqaAIkYse~Dl~g~rsLveQlp~en---~Ad~~in~gCllykegqyEaAvqkFqaAlqvsGyqpll  180 (459)
T KOG4340|consen  108 P----ALHSRVLQLQAAIKYSEGDLPGSRSLVEQLPSEN---EADGQINLGCLLYKEGQYEAAVQKFQAALQVSGYQPLL  180 (459)
T ss_pred             H----HHHHHHHHHHHHHhcccccCcchHHHHHhccCCC---ccchhccchheeeccccHHHHHHHHHHHHhhcCCCchh
Confidence            2    1111111122222  3578888888887765432   344444444445789999999999999887 6778765


Q ss_pred             hhhHHHHhhHHHHhhhcccccccccccCCHHHHHHHHHHHHHccCC-------------CCHH--------HHHHHHHH-
Q 048743          451 SCEMVVSERFSEVADKSASFTDTSSLMDKSDLAESLIQEMREEAAL-------------STIY--------KLNSSIYF-  508 (653)
Q Consensus       451 ~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~-------------p~~~--------~y~~li~~-  508 (653)
                      .+++.+.                ..+.++.+.|.+...++.++|+.             ||+.        .-+.++.+ 
T Consensus       181 AYniALa----------------Hy~~~qyasALk~iSEIieRG~r~HPElgIGm~tegiDvrsvgNt~~lh~Sal~eAf  244 (459)
T KOG4340|consen  181 AYNLALA----------------HYSSRQYASALKHISEIIERGIRQHPELGIGMTTEGIDVRSVGNTLVLHQSALVEAF  244 (459)
T ss_pred             HHHHHHH----------------HHhhhhHHHHHHHHHHHHHhhhhcCCccCccceeccCchhcccchHHHHHHHHHHHh
Confidence            4444332                22478999999999999988871             2211        22334443 


Q ss_pred             ------HHcCCCHHHHHHHHHHHHh-cCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHHhhhCCCcc-CHHHHHHHH
Q 048743          509 ------FCKGKMIGDALKIYRRMQE-MKIRPTVETFYYLVYGHSSLEMYRDITILWGDIKRNIESGVLAV-SRDLYETLL  580 (653)
Q Consensus       509 ------~~~~g~~~~a~~~~~~m~~-~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~p-~~~~y~~li  580 (653)
                            +.+.|+.+.|.+-+-+|-- ..-..|++|...+.-.-.. +++-+..+-+.-+.      ++.| -..||..++
T Consensus       245 NLKaAIeyq~~n~eAA~eaLtDmPPRaE~elDPvTLHN~Al~n~~-~~p~~g~~KLqFLL------~~nPfP~ETFANlL  317 (459)
T KOG4340|consen  245 NLKAAIEYQLRNYEAAQEALTDMPPRAEEELDPVTLHNQALMNMD-ARPTEGFEKLQFLL------QQNPFPPETFANLL  317 (459)
T ss_pred             hhhhhhhhhcccHHHHHHHhhcCCCcccccCCchhhhHHHHhccc-CCccccHHHHHHHH------hcCCCChHHHHHHH
Confidence                  3567889999988888863 2345677887654332222 22333333333333      2222 456888888


Q ss_pred             HHHHhCCCHHHHHHHHHHH
Q 048743          581 LNFLQGGYFERVMEVIGYM  599 (653)
Q Consensus       581 ~~~~~~g~~~~a~~~~~~m  599 (653)
                      -.||+..-++-|-+++-+=
T Consensus       318 llyCKNeyf~lAADvLAEn  336 (459)
T KOG4340|consen  318 LLYCKNEYFDLAADVLAEN  336 (459)
T ss_pred             HHHhhhHHHhHHHHHHhhC
Confidence            8999999999998888654

>KOG1070 consensus rRNA processing protein Rrp5 [RNA processing and modification]

Probab=98.10  E-value=0.0022  Score=70.84  Aligned_cols=230  Identities=11%  Similarity=0.051  Sum_probs=169.6

Q ss_pred             HHHHHHHhhhccCCHHHHHHHHHHhcccCCCCCCchhhhcccccchhccCCCcccchhhhccchhhhHHHHHHhhhhhHH
Q 048743          252 FYESLLSLHFKFDDIDAAGELILDMNRYREPLPNPKLRQDAQKPYLISIGSPNLRCGLKLQIMPELLEKDSILKMEGKQE  331 (653)
Q Consensus       252 ~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  331 (653)
                      .|-..|.-+...+++++|.+++++..+.-+..                       ++.                      
T Consensus      1460 ~WI~YMaf~LelsEiekAR~iaerAL~tIN~R-----------------------Eee---------------------- 1494 (1710)
T KOG1070|consen 1460 LWIRYMAFHLELSEIEKARKIAERALKTINFR-----------------------EEE---------------------- 1494 (1710)
T ss_pred             HHHHHHHHHhhhhhhHHHHHHHHHHhhhCCcc-----------------------hhH----------------------
Confidence            58888888999999999999999884211100                       000                      


Q ss_pred             HHHHhcCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCC
Q 048743          332 LVLFRNGKLLHSNRAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGH  411 (653)
Q Consensus       332 ~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~  411 (653)
                                --...|.++++.-.--|.-+...++|++..+..   ....+|..|...|.+.+..++|-++|+.|.+. +
T Consensus      1495 ----------EKLNiWiA~lNlEn~yG~eesl~kVFeRAcqyc---d~~~V~~~L~~iy~k~ek~~~A~ell~~m~KK-F 1560 (1710)
T KOG1070|consen 1495 ----------EKLNIWIAYLNLENAYGTEESLKKVFERACQYC---DAYTVHLKLLGIYEKSEKNDEADELLRLMLKK-F 1560 (1710)
T ss_pred             ----------HHHHHHHHHHhHHHhhCcHHHHHHHHHHHHHhc---chHHHHHHHHHHHHHhhcchhHHHHHHHHHHH-h
Confidence                      001256677777777777888999999988765   33445999999999999999999999999874 3


Q ss_pred             CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCccCc-hhhHHHHhhHHHHhhhcccccccccccCCHHHHHHHHHHH
Q 048743          412 PMDSTTYKSLLTAYYKVKMFREAEALLKQMRKSCLVQNL-SCEMVVSERFSEVADKSASFTDTSSLMDKSDLAESLIQEM  490 (653)
Q Consensus       412 ~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~-~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m  490 (653)
                      .-....|...+..+.+.++-+.|..++.+..+.  .|.. -...+....            ++-.+.|+.+++..+|+..
T Consensus      1561 ~q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~--lPk~eHv~~IskfA------------qLEFk~GDaeRGRtlfEgl 1626 (1710)
T KOG1070|consen 1561 GQTRKVWIMYADFLLRQNEAEAARELLKRALKS--LPKQEHVEFISKFA------------QLEFKYGDAERGRTLFEGL 1626 (1710)
T ss_pred             cchhhHHHHHHHHHhcccHHHHHHHHHHHHHhh--cchhhhHHHHHHHH------------HHHhhcCCchhhHHHHHHH
Confidence            357789999999999999999999999998874  3442 222222211            1223589999999999998


Q ss_pred             HHccCCC-CHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCHH--HHHHHHHHHhccCCHHHHHHH
Q 048743          491 REEAALS-TIYKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRPTVE--TFYYLVYGHSSLEMYRDITIL  556 (653)
Q Consensus       491 ~~~~~~p-~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~--t~~~li~~~~~~~~~~~a~~~  556 (653)
                      ....  | -.-.|+..|+.=.++|+.+.+..+|++.+..++.|-..  .|.-.+.-=-..|+-..++.+
T Consensus      1627 l~ay--PKRtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l~~kkmKfffKkwLeyEk~~Gde~~vE~V 1693 (1710)
T KOG1070|consen 1627 LSAY--PKRTDLWSVYIDMEIKHGDIKYVRDLFERVIELKLSIKKMKFFFKKWLEYEKSHGDEKNVEYV 1693 (1710)
T ss_pred             HhhC--ccchhHHHHHHHHHHccCCHHHHHHHHHHHHhcCCChhHhHHHHHHHHHHHHhcCchhhHHHH
Confidence            8765  4 56689999999999999999999999999988877643  344444444445554444433

>PRK04841 transcriptional regulator MalT; Provisional

Probab=98.08  E-value=0.026  Score=65.10  Aligned_cols=350  Identities=11%  Similarity=-0.054  Sum_probs=185.6

Q ss_pred             HHHHHHHHHHHhccchhHHHHHHHHhhhhcCCCCc-hhHHHHHHHhhccCCcchhhhHHHHHHHHHhccCCchhHHHHHH
Q 048743           20 EVLLRKLESASKNHQVGEAWETFNDFQRLHGIPER-HVVNRFITDLCYSAEPHWLQKACDLVLKIQKGKADLLQLDLLAK   98 (653)
Q Consensus        20 ~~~~~~i~~~~~~~~~~~A~~~~~~~~~~~~~~~~-~~~~~ll~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~t~~~   98 (653)
                      ..+.+....+...|++.+|..........   +.. .........+...|+   ...+...+..+.... ...+......
T Consensus       342 ~lh~raa~~~~~~g~~~~Al~~a~~a~d~---~~~~~ll~~~a~~l~~~g~---~~~l~~~l~~lp~~~-~~~~~~l~~~  414 (903)
T PRK04841        342 ELHRAAAEAWLAQGFPSEAIHHALAAGDA---QLLRDILLQHGWSLFNQGE---LSLLEECLNALPWEV-LLENPRLVLL  414 (903)
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHCCCH---HHHHHHHHHhHHHHHhcCC---hHHHHHHHHhCCHHH-HhcCcchHHH
Confidence            44555566777889988887755543321   110 111112223334454   445555554431110 1112223344


Q ss_pred             HHHHHHhcCCCchHHHHHHHHHcCc--cC-CCchhHHHHHHHHhhcccccccchHHHHHHHHHhhhhhhhhcCCccC---
Q 048743           99 LSLSLARAQMPVPASMILRLMLGRE--NL-PCSDLLLLVFVHMVKTEIGTCLASNFLIQLCDVFLHLSAEKSNGAEL---  172 (653)
Q Consensus        99 li~~~~~~g~~~~a~~~~~~m~~~g--~~-p~~~~~~~li~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~---  172 (653)
                      ....+...|++++|..+++...+.-  .. .+.......+...             ....+...|+++.+...++..   
T Consensus       415 ~a~~~~~~g~~~~a~~~l~~a~~~~~~~~~~~~~~~~~~~~~~-------------~a~~~~~~g~~~~A~~~~~~al~~  481 (903)
T PRK04841        415 QAWLAQSQHRYSEVNTLLARAEQELKDRNIELDGTLQAEFNAL-------------RAQVAINDGDPEEAERLAELALAE  481 (903)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhccccCcccchhHHHHHHHH-------------HHHHHHhCCCHHHHHHHHHHHHhc
Confidence            5556678899999999998875431  11 0011111111110             001111122333332222211   


Q ss_pred             -CCCc----hhhHHHHHHHHHhcCChhhHHHHHHHHHhcCC---Ccc--HHHHHHHHHHHHhcCChhhhHHHHHHhhhc-
Q 048743          173 -IKPD----TMIFNLVLHACVRFGSSLKGQHIMELMSQTGV---VAD--AHSIIILAQIHEMNCQRDELKKFKCYIDQL-  241 (653)
Q Consensus       173 -~~~~----~~~yn~li~~~~~~g~~~~a~~l~~~m~~~g~---~p~--~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~-  241 (653)
                       ...+    ....+.+...+...|+++.|...+++.....-   .+.  ..++..+...+...|+++.|...++..... 
T Consensus       482 ~~~~~~~~~~~a~~~lg~~~~~~G~~~~A~~~~~~al~~~~~~g~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~  561 (903)
T PRK04841        482 LPLTWYYSRIVATSVLGEVHHCKGELARALAMMQQTEQMARQHDVYHYALWSLLQQSEILFAQGFLQAAYETQEKAFQLI  561 (903)
T ss_pred             CCCccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHH
Confidence             1111    23456666777889999999999988875311   111  233455666778899999999887776543 


Q ss_pred             ---CCCcccchhHHHHHHHHhhhccCCHHHHHHHHHHhcccCCCCCCchhhhcccccchhccCCCcccchhhhccchhhh
Q 048743          242 ---STPFAHHYQQFYESLLSLHFKFDDIDAAGELILDMNRYREPLPNPKLRQDAQKPYLISIGSPNLRCGLKLQIMPELL  318 (653)
Q Consensus       242 ---~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  318 (653)
                         +.+.......++..+...+...|++++|...+++.....                                      
T Consensus       562 ~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~--------------------------------------  603 (903)
T PRK04841        562 EEQHLEQLPMHEFLLRIRAQLLWEWARLDEAEQCARKGLEVL--------------------------------------  603 (903)
T ss_pred             HHhccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHhHHhh--------------------------------------
Confidence               111111122344555666777899999999888773200                                      


Q ss_pred             HHHHHHhhhhhHHHHHHhcCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccH-----HHHHHHHHHc
Q 048743          319 EKDSILKMEGKQELVLFRNGKLLHSNRAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLC-----SDVIDALIQL  393 (653)
Q Consensus       319 ~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~-----~~li~~~~~~  393 (653)
                                       ...+.......+..+...+...|+.+.|.+.+.+.............+     ...+..+...
T Consensus       604 -----------------~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~  666 (903)
T PRK04841        604 -----------------SNYQPQQQLQCLAMLAKISLARGDLDNARRYLNRLENLLGNGRYHSDWIANADKVRLIYWQMT  666 (903)
T ss_pred             -----------------hccCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccHhHhhHHHHHHHHHHHHC
Confidence                             001100112244456667778999999999888875432111111101     1122444557


Q ss_pred             CCHHHHHHHHHHHHHCCCCCCH---HHHHHHHHHHHHcCChHHHHHHHHHHHHc
Q 048743          394 GFLEAAHDILDDMELAGHPMDS---TTYKSLLTAYYKVKMFREAEALLKQMRKS  444 (653)
Q Consensus       394 g~~~~a~~~~~~m~~~g~~p~~---~~~~~li~~~~~~~~~~~a~~~~~~m~~~  444 (653)
                      |+.+.|...+............   ..+..+..++...|++++|...+++....
T Consensus       667 g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~l~~al~~  720 (903)
T PRK04841        667 GDKEAAANWLRQAPKPEFANNHFLQGQWRNIARAQILLGQFDEAEIILEELNEN  720 (903)
T ss_pred             CCHHHHHHHHHhcCCCCCccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            8888888887775442211111   11345566777888888888888877653

>KOG1128 consensus Uncharacterized conserved protein, contains TPR repeats [General function prediction only]

Probab=98.03  E-value=0.0009  Score=69.01  Aligned_cols=97  Identities=10%  Similarity=-0.015  Sum_probs=85.3

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 048743          345 RAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTYKSLLTA  424 (653)
Q Consensus       345 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~  424 (653)
                      .+|..+-.++.+.++++.|.+.|.....-.  |.+...||.+-.+|.+.++-.+|...+.+..+.+ .-+...|-.-+..
T Consensus       520 ~~wf~~G~~ALqlek~q~av~aF~rcvtL~--Pd~~eaWnNls~ayi~~~~k~ra~~~l~EAlKcn-~~~w~iWENymlv  596 (777)
T KOG1128|consen  520 GTWFGLGCAALQLEKEQAAVKAFHRCVTLE--PDNAEAWNNLSTAYIRLKKKKRAFRKLKEALKCN-YQHWQIWENYMLV  596 (777)
T ss_pred             hHHHhccHHHHHHhhhHHHHHHHHHHhhcC--CCchhhhhhhhHHHHHHhhhHHHHHHHHHHhhcC-CCCCeeeechhhh
Confidence            477778888889999999999999988776  8888889999999999999999999999999887 4466777777888


Q ss_pred             HHHcCChHHHHHHHHHHHHc
Q 048743          425 YYKVKMFREAEALLKQMRKS  444 (653)
Q Consensus       425 ~~~~~~~~~a~~~~~~m~~~  444 (653)
                      ..+.|.+++|.+.+.++.+.
T Consensus       597 svdvge~eda~~A~~rll~~  616 (777)
T KOG1128|consen  597 SVDVGEFEDAIKAYHRLLDL  616 (777)
T ss_pred             hhhcccHHHHHHHHHHHHHh
Confidence            89999999999999988763

>KOG1070 consensus rRNA processing protein Rrp5 [RNA processing and modification]

Probab=98.02  E-value=0.00038  Score=76.54  Aligned_cols=207  Identities=14%  Similarity=0.090  Sum_probs=164.0

Q ss_pred             chhhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCcc-----HHHHHHHHHHHHhcCChhhhHHHHHHhhhcCCCcccchh
Q 048743          176 DTMIFNLVLHACVRFGSSLKGQHIMELMSQTGVVAD-----AHSIIILAQIHEMNCQRDELKKFKCYIDQLSTPFAHHYQ  250 (653)
Q Consensus       176 ~~~~yn~li~~~~~~g~~~~a~~l~~~m~~~g~~p~-----~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~  250 (653)
                      +.+.|-..|.-+...++.++|.+++++.... +.|.     ...|.++++.--.-|.-+...++|++..+..++..    
T Consensus      1457 SSi~WI~YMaf~LelsEiekAR~iaerAL~t-IN~REeeEKLNiWiA~lNlEn~yG~eesl~kVFeRAcqycd~~~---- 1531 (1710)
T KOG1070|consen 1457 SSILWIRYMAFHLELSEIEKARKIAERALKT-INFREEEEKLNIWIAYLNLENAYGTEESLKKVFERACQYCDAYT---- 1531 (1710)
T ss_pred             cchHHHHHHHHHhhhhhhHHHHHHHHHHhhh-CCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHHHHHHHhcchHH----
Confidence            3456878888899999999999999998864 3221     12366677766677888889999999999876665    


Q ss_pred             HHHHHHHHhhhccCCHHHHHHHHHHhcccCCCCCCchhhhcccccchhccCCCcccchhhhccchhhhHHHHHHhhhhhH
Q 048743          251 QFYESLLSLHFKFDDIDAAGELILDMNRYREPLPNPKLRQDAQKPYLISIGSPNLRCGLKLQIMPELLEKDSILKMEGKQ  330 (653)
Q Consensus       251 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  330 (653)
                       +|..|...|.+.++.++|.++|+.|.++                                                   
T Consensus      1532 -V~~~L~~iy~k~ek~~~A~ell~~m~KK--------------------------------------------------- 1559 (1710)
T KOG1070|consen 1532 -VHLKLLGIYEKSEKNDEADELLRLMLKK--------------------------------------------------- 1559 (1710)
T ss_pred             -HHHHHHHHHHHhhcchhHHHHHHHHHHH---------------------------------------------------
Confidence             4999999999999999999999999431                                                   


Q ss_pred             HHHHHhcCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCC
Q 048743          331 ELVLFRNGKLLHSNRAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAG  410 (653)
Q Consensus       331 ~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g  410 (653)
                               ..-....|...+..+.+..+-+.|..++.+..+.-..........-.+..-.+.|+.+.+..+|+.....-
T Consensus      1560 ---------F~q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~lPk~eHv~~IskfAqLEFk~GDaeRGRtlfEgll~ay 1630 (1710)
T KOG1070|consen 1560 ---------FGQTRKVWIMYADFLLRQNEAEAARELLKRALKSLPKQEHVEFISKFAQLEFKYGDAERGRTLFEGLLSAY 1630 (1710)
T ss_pred             ---------hcchhhHHHHHHHHHhcccHHHHHHHHHHHHHhhcchhhhHHHHHHHHHHHhhcCCchhhHHHHHHHHhhC
Confidence                     12344578899999999999999999999877654111233345556666678899999999999988753


Q ss_pred             CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCccC
Q 048743          411 HPMDSTTYKSLLTAYYKVKMFREAEALLKQMRKSCLVQN  449 (653)
Q Consensus       411 ~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~  449 (653)
                       +--...|+..|+.-.+.|+.+.+..+|++....++.|.
T Consensus      1631 -PKRtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l~~k 1668 (1710)
T KOG1070|consen 1631 -PKRTDLWSVYIDMEIKHGDIKYVRDLFERVIELKLSIK 1668 (1710)
T ss_pred             -ccchhHHHHHHHHHHccCCHHHHHHHHHHHHhcCCChh
Confidence             33577899999999999999999999999999888775

>KOG1128 consensus Uncharacterized conserved protein, contains TPR repeats [General function prediction only]

Probab=98.02  E-value=0.00085  Score=69.17  Aligned_cols=216  Identities=12%  Similarity=0.045  Sum_probs=163.7

Q ss_pred             HHHHHHHHhhhccCCHHHHHHHHHHhcccCCCCCCchhhhcccccchhccCCCcccchhhhccchhhhHHHHHHhhhhhH
Q 048743          251 QFYESLLSLHFKFDDIDAAGELILDMNRYREPLPNPKLRQDAQKPYLISIGSPNLRCGLKLQIMPELLEKDSILKMEGKQ  330 (653)
Q Consensus       251 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  330 (653)
                      ..-..+...+...|-+..|..+|+++.                                                     
T Consensus       399 q~q~~laell~slGitksAl~I~Erle-----------------------------------------------------  425 (777)
T KOG1128|consen  399 QLQRLLAELLLSLGITKSALVIFERLE-----------------------------------------------------  425 (777)
T ss_pred             hHHHHHHHHHHHcchHHHHHHHHHhHH-----------------------------------------------------
Confidence            345677788888999999999999982                                                     


Q ss_pred             HHHHHhcCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCC
Q 048743          331 ELVLFRNGKLLHSNRAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAG  410 (653)
Q Consensus       331 ~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g  410 (653)
                                     .|..+|.+|+..|+..+|..+..+-.+ .  +|+...|..+.+......-+++|.++++..... 
T Consensus       426 ---------------mw~~vi~CY~~lg~~~kaeei~~q~le-k--~~d~~lyc~LGDv~~d~s~yEkawElsn~~sar-  486 (777)
T KOG1128|consen  426 ---------------MWDPVILCYLLLGQHGKAEEINRQELE-K--DPDPRLYCLLGDVLHDPSLYEKAWELSNYISAR-  486 (777)
T ss_pred             ---------------HHHHHHHHHHHhcccchHHHHHHHHhc-C--CCcchhHHHhhhhccChHHHHHHHHHhhhhhHH-
Confidence                           477899999999999999999888777 3  677777999999888888889999998875432 


Q ss_pred             CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHc-CCccCchhhHHHHhhHHHHhhhcccccccccccCCHHHHHHHHHH
Q 048743          411 HPMDSTTYKSLLTAYYKVKMFREAEALLKQMRKS-CLVQNLSCEMVVSERFSEVADKSASFTDTSSLMDKSDLAESLIQE  489 (653)
Q Consensus       411 ~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-~~~p~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~a~~~~~~  489 (653)
                            .-..+-....+.++++++.+.|+.-.+. .+.+...+..  ..|              +-+.++++.|.+.|..
T Consensus       487 ------A~r~~~~~~~~~~~fs~~~~hle~sl~~nplq~~~wf~~--G~~--------------ALqlek~q~av~aF~r  544 (777)
T KOG1128|consen  487 ------AQRSLALLILSNKDFSEADKHLERSLEINPLQLGTWFGL--GCA--------------ALQLEKEQAAVKAFHR  544 (777)
T ss_pred             ------HHHhhccccccchhHHHHHHHHHHHhhcCccchhHHHhc--cHH--------------HHHHhhhHHHHHHHHH
Confidence                  1111111223468899999998877652 2333322111  111              1236788999999998


Q ss_pred             HHHccCCC-CHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHH
Q 048743          490 MREEAALS-TIYKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRPTVETFYYLVYGHSSLEMYRDITILWGDIKRN  563 (653)
Q Consensus       490 m~~~~~~p-~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~~~~~  563 (653)
                      .....  | +...||.+-.+|.+.|+-.+|...+++..+.+ .-+-..|...+....+.|.+++|.+.+..+...
T Consensus       545 cvtL~--Pd~~eaWnNls~ayi~~~~k~ra~~~l~EAlKcn-~~~w~iWENymlvsvdvge~eda~~A~~rll~~  616 (777)
T KOG1128|consen  545 CVTLE--PDNAEAWNNLSTAYIRLKKKKRAFRKLKEALKCN-YQHWQIWENYMLVSVDVGEFEDAIKAYHRLLDL  616 (777)
T ss_pred             HhhcC--CCchhhhhhhhHHHHHHhhhHHHHHHHHHHhhcC-CCCCeeeechhhhhhhcccHHHHHHHHHHHHHh
Confidence            88754  6 67789999999999999999999999998876 445566777888889999999999999888654

>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat

Probab=98.02  E-value=5.8e-06  Score=49.31  Aligned_cols=31  Identities=13%  Similarity=0.411  Sum_probs=29.1

Q ss_pred             hhHHHHHHHHHhcCChhhHHHHHHHHHhcCC
Q 048743          178 MIFNLVLHACVRFGSSLKGQHIMELMSQTGV  208 (653)
Q Consensus       178 ~~yn~li~~~~~~g~~~~a~~l~~~m~~~g~  208 (653)
                      ++||+||++|++.|++++|.++|++|.+.|+
T Consensus         1 v~y~~li~~~~~~~~~~~a~~~~~~M~~~g~   31 (31)
T PF01535_consen    1 VTYNSLISGYCKMGQFEEALEVFDEMRERGI   31 (31)
T ss_pred             CcHHHHHHHHHccchHHHHHHHHHHHhHCcC
Confidence            4899999999999999999999999999875

Pentatricopeptide repeat (PPR) proteins are characterised by tandem repeats of a degenerate 35 amino acid motif []. Most of PPR proteins have roles in mitochondria or plastid []. PPR repeats were discovered while screening Arabidopsis proteins for those predicted to be targeted to mitochondria or chloroplast [, ]. Some of these proteins have been shown to play a role in post-transcriptional processes within organelles and they are thought to be sequence-specific RNA-binding proteins [, , ]. Plant genomes have between one hundred to five hundred PPR genes per genome whereas non-plant genomes encode two to six PPR proteins. Although no PPR structures are yet known, the motif is predicted to fold into a helix-turn-helix structure similar to those found in the tetratricopeptide repeat (TPR) family (see PDOC50005 from PROSITEDOC) []. The plant PPR protein family has been divided in two subfamilies on the basis of their motif content and organisation [, ]. Examples of PPR repeat-containing proteins include PET309 P32522 from SWISSPROT, which may be involved in RNA stabilisation [], and crp1, which is involved in RNA processing []. The repeat is associated with a predicted plant protein O49549 from SWISSPROT that has a domain organisation similar to the human BRCA1 protein.

>PRK14720 transcript cleavage factor/unknown domain fusion protein; Provisional

Probab=97.95  E-value=0.0048  Score=67.48  Aligned_cols=170  Identities=11%  Similarity=0.044  Sum_probs=124.5

Q ss_pred             CCchhhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCccHHHHH-HHHHHHHhcCChhhhHHHHHHhhhcCCCcccchhHH
Q 048743          174 KPDTMIFNLVLHACVRFGSSLKGQHIMELMSQTGVVADAHSII-ILAQIHEMNCQRDELKKFKCYIDQLSTPFAHHYQQF  252 (653)
Q Consensus       174 ~~~~~~yn~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~-~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~  252 (653)
                      +.+...+-.|+..+...+++++|.++.+.-.+.  .|+...+- .+...+...++.+.+..+                  
T Consensus        28 p~n~~a~~~Li~~~~~~~~~deai~i~~~~l~~--~P~~i~~yy~~G~l~~q~~~~~~~~lv------------------   87 (906)
T PRK14720         28 LSKFKELDDLIDAYKSENLTDEAKDICEEHLKE--HKKSISALYISGILSLSRRPLNDSNLL------------------   87 (906)
T ss_pred             cchHHHHHHHHHHHHhcCCHHHHHHHHHHHHHh--CCcceehHHHHHHHHHhhcchhhhhhh------------------
Confidence            345668999999999999999999999966654  67766633 222244455554333332                  


Q ss_pred             HHHHHHhhhccCCHHHHHHHHHHhcccCCCCCCchhhhcccccchhccCCCcccchhhhccchhhhHHHHHHhhhhhHHH
Q 048743          253 YESLLSLHFKFDDIDAAGELILDMNRYREPLPNPKLRQDAQKPYLISIGSPNLRCGLKLQIMPELLEKDSILKMEGKQEL  332 (653)
Q Consensus       253 ~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  332 (653)
                        .+++.+....++..+..+...|..                                                      
T Consensus        88 --~~l~~~~~~~~~~~ve~~~~~i~~------------------------------------------------------  111 (906)
T PRK14720         88 --NLIDSFSQNLKWAIVEHICDKILL------------------------------------------------------  111 (906)
T ss_pred             --hhhhhcccccchhHHHHHHHHHHh------------------------------------------------------
Confidence              344444444555444444444411                                                      


Q ss_pred             HHHhcCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCC
Q 048743          333 VLFRNGKLLHSNRAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHP  412 (653)
Q Consensus       333 ~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~  412 (653)
                             ..-+...+..+..+|-+.|+.++|..+++++.+..  +.|+.+.|.+...|+.. ++++|.+++.+....   
T Consensus       112 -------~~~~k~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D--~~n~~aLNn~AY~~ae~-dL~KA~~m~~KAV~~---  178 (906)
T PRK14720        112 -------YGENKLALRTLAEAYAKLNENKKLKGVWERLVKAD--RDNPEIVKKLATSYEEE-DKEKAITYLKKAIYR---  178 (906)
T ss_pred             -------hhhhhHHHHHHHHHHHHcCChHHHHHHHHHHHhcC--cccHHHHHHHHHHHHHh-hHHHHHHHHHHHHHH---
Confidence                   11222366788999999999999999999999998  88999999999999999 999999999887764   


Q ss_pred             CCHHHHHHHHHHHHHcCChHHHHHHHHHHHHc
Q 048743          413 MDSTTYKSLLTAYYKVKMFREAEALLKQMRKS  444 (653)
Q Consensus       413 p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  444 (653)
                                  +....++.++++++.++...
T Consensus       179 ------------~i~~kq~~~~~e~W~k~~~~  198 (906)
T PRK14720        179 ------------FIKKKQYVGIEEIWSKLVHY  198 (906)
T ss_pred             ------------HHhhhcchHHHHHHHHHHhc
Confidence                        77778999999999999874

>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat

Probab=97.95  E-value=9.4e-06  Score=48.39  Aligned_cols=31  Identities=32%  Similarity=0.468  Sum_probs=27.4

Q ss_pred             HHHHHHHHHHHcCCCHHHHHHHHHHHHhcCC
Q 048743          500 YKLNSSIYFFCKGKMIGDALKIYRRMQEMKI  530 (653)
Q Consensus       500 ~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~  530 (653)
                      ++||++|++|++.|++++|.++|++|.+.|+
T Consensus         1 v~y~~li~~~~~~~~~~~a~~~~~~M~~~g~   31 (31)
T PF01535_consen    1 VTYNSLISGYCKMGQFEEALEVFDEMRERGI   31 (31)
T ss_pred             CcHHHHHHHHHccchHHHHHHHHHHHhHCcC
Confidence            3789999999999999999999999998774

Pentatricopeptide repeat (PPR) proteins are characterised by tandem repeats of a degenerate 35 amino acid motif []. Most of PPR proteins have roles in mitochondria or plastid []. PPR repeats were discovered while screening Arabidopsis proteins for those predicted to be targeted to mitochondria or chloroplast [, ]. Some of these proteins have been shown to play a role in post-transcriptional processes within organelles and they are thought to be sequence-specific RNA-binding proteins [, , ]. Plant genomes have between one hundred to five hundred PPR genes per genome whereas non-plant genomes encode two to six PPR proteins. Although no PPR structures are yet known, the motif is predicted to fold into a helix-turn-helix structure similar to those found in the tetratricopeptide repeat (TPR) family (see PDOC50005 from PROSITEDOC) []. The plant PPR protein family has been divided in two subfamilies on the basis of their motif content and organisation [, ]. Examples of PPR repeat-containing proteins include PET309 P32522 from SWISSPROT, which may be involved in RNA stabilisation [], and crp1, which is involved in RNA processing []. The repeat is associated with a predicted plant protein O49549 from SWISSPROT that has a domain organisation similar to the human BRCA1 protein.

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=97.93  E-value=0.0018  Score=61.09  Aligned_cols=85  Identities=13%  Similarity=0.035  Sum_probs=64.2

Q ss_pred             CChHHHHHHHHHHHhcCCCCCCcccH-----------------HHHHHHHHHcCCHHHHHHHHHHHHHCCC--CCCHHHH
Q 048743          358 GKNSELSWLLLSIKKEHHSFGESTLC-----------------SDVIDALIQLGFLEAAHDILDDMELAGH--PMDSTTY  418 (653)
Q Consensus       358 ~~~~~a~~~~~~m~~~~~~~~~~~~~-----------------~~li~~~~~~g~~~~a~~~~~~m~~~g~--~p~~~~~  418 (653)
                      |+.++|.+.|+.+....  |.+...+                 ..+...|.+.|++++|...+.+..+...  +.....+
T Consensus       129 ~~~~~A~~~~~~~~~~~--p~~~~~~~a~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~a~  206 (235)
T TIGR03302       129 TAAREAFEAFQELIRRY--PNSEYAPDAKKRMDYLRNRLAGKELYVARFYLKRGAYVAAINRFETVVENYPDTPATEEAL  206 (235)
T ss_pred             HHHHHHHHHHHHHHHHC--CCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHCCCCcchHHHH
Confidence            56777777777777665  4443322                 1345667888999999999999987532  2245788


Q ss_pred             HHHHHHHHHcCChHHHHHHHHHHHHc
Q 048743          419 KSLLTAYYKVKMFREAEALLKQMRKS  444 (653)
Q Consensus       419 ~~li~~~~~~~~~~~a~~~~~~m~~~  444 (653)
                      ..+..++.+.|++++|...++.+...
T Consensus       207 ~~l~~~~~~lg~~~~A~~~~~~l~~~  232 (235)
T TIGR03302       207 ARLVEAYLKLGLKDLAQDAAAVLGAN  232 (235)
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            89999999999999999999988764

Members of this protein family include YfiO, a near-essential protein of the outer membrane, part of a complex involved in protein insertion into the bacterial outer membrane. Many proteins in this family are annotated as ComL, based on the involvement of this protein in natural transformation with exogenous DNA in Neisseria gonorrhoeae. This protein family shows sequence similarity to, but is distinct from, the tol-pal system protein YbgF (TIGR02795).

>PLN02789 farnesyltranstransferase

Probab=97.89  E-value=0.011  Score=57.81  Aligned_cols=65  Identities=9%  Similarity=-0.065  Sum_probs=46.5

Q ss_pred             HHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHc
Q 048743          361 SELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTYKSLLTAYYKV  428 (653)
Q Consensus       361 ~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~  428 (653)
                      +++..+++++.+..  +.+.++|+...-++.+.|+++++++.++++.+.... |...|+.....+.+.
T Consensus       125 ~~el~~~~kal~~d--pkNy~AW~~R~w~l~~l~~~~eeL~~~~~~I~~d~~-N~sAW~~R~~vl~~~  189 (320)
T PLN02789        125 NKELEFTRKILSLD--AKNYHAWSHRQWVLRTLGGWEDELEYCHQLLEEDVR-NNSAWNQRYFVITRS  189 (320)
T ss_pred             HHHHHHHHHHHHhC--cccHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHCCC-chhHHHHHHHHHHhc
Confidence            56677777777777  777777888777777888888888888888776543 566666655554443

>KOG1125 consensus TPR repeat-containing protein [General function prediction only]

Probab=97.87  E-value=0.0046  Score=62.29  Aligned_cols=228  Identities=10%  Similarity=0.000  Sum_probs=162.0

Q ss_pred             HHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHH
Q 048743          354 YKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTYKSLLTAYYKVKMFRE  433 (653)
Q Consensus       354 ~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~  433 (653)
                      +.+.|++.+|.-.|+...++.  |.+...|--|-......++-..|+..+++..+... -|......|.-.|...|.-.+
T Consensus       295 lm~nG~L~~A~LafEAAVkqd--P~haeAW~~LG~~qaENE~E~~ai~AL~rcl~LdP-~NleaLmaLAVSytNeg~q~~  371 (579)
T KOG1125|consen  295 LMKNGDLSEAALAFEAAVKQD--PQHAEAWQKLGITQAENENEQNAISALRRCLELDP-TNLEALMALAVSYTNEGLQNQ  371 (579)
T ss_pred             HHhcCCchHHHHHHHHHHhhC--hHHHHHHHHhhhHhhhccchHHHHHHHHHHHhcCC-ccHHHHHHHHHHHhhhhhHHH
Confidence            568999999999999999998  88889999999999999999999999999988532 366788888889999999999


Q ss_pred             HHHHHHHHHHcCCccCchhhHHHHhhHHHHhhhcccccccccccCCHHHHHHHHHHHH-HccCCCCHHHHHHHHHHHHcC
Q 048743          434 AEALLKQMRKSCLVQNLSCEMVVSERFSEVADKSASFTDTSSLMDKSDLAESLIQEMR-EEAALSTIYKLNSSIYFFCKG  512 (653)
Q Consensus       434 a~~~~~~m~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~-~~~~~p~~~~y~~li~~~~~~  512 (653)
                      |+..|+.-....  |.-. .+.. .-..+...    ..+.+.....+....++|-++. ..+..+|..++..|--.|--.
T Consensus       372 Al~~L~~Wi~~~--p~y~-~l~~-a~~~~~~~----~~~s~~~~~~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls  443 (579)
T KOG1125|consen  372 ALKMLDKWIRNK--PKYV-HLVS-AGENEDFE----NTKSFLDSSHLAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLS  443 (579)
T ss_pred             HHHHHHHHHHhC--ccch-hccc-cCcccccc----CCcCCCCHHHHHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcc
Confidence            999999887643  1100 0000 00000000    0000111233445556665555 445345666777777778889


Q ss_pred             CCHHHHHHHHHHHHhcCCCCC-HHHHHHHHHHHhccCCHHHHHHHHHHHHHHhhhCCCccCHHHHHHHHHHHHhCCCHHH
Q 048743          513 KMIGDALKIYRRMQEMKIRPT-VETFYYLVYGHSSLEMYRDITILWGDIKRNIESGVLAVSRDLYETLLLNFLQGGYFER  591 (653)
Q Consensus       513 g~~~~a~~~~~~m~~~g~~p~-~~t~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~p~~~~y~~li~~~~~~g~~~~  591 (653)
                      |++++|.+.|+..+..  +|+ ..+||.|-..++...+..+|+..++..++.  .-++  -..=|| |--.|...|.+++
T Consensus       444 ~efdraiDcf~~AL~v--~Pnd~~lWNRLGAtLAN~~~s~EAIsAY~rALqL--qP~y--VR~RyN-lgIS~mNlG~ykE  516 (579)
T KOG1125|consen  444 GEFDRAVDCFEAALQV--KPNDYLLWNRLGATLANGNRSEEAISAYNRALQL--QPGY--VRVRYN-LGISCMNLGAYKE  516 (579)
T ss_pred             hHHHHHHHHHHHHHhc--CCchHHHHHHhhHHhcCCcccHHHHHHHHHHHhc--CCCe--eeeehh-hhhhhhhhhhHHH
Confidence            9999999999988774  565 567999999999999999999999887643  1111  122355 5558999999999


Q ss_pred             HHHHHHHH
Q 048743          592 VMEVIGYM  599 (653)
Q Consensus       592 a~~~~~~m  599 (653)
                      |.+.|-+.
T Consensus       517 A~~hlL~A  524 (579)
T KOG1125|consen  517 AVKHLLEA  524 (579)
T ss_pred             HHHHHHHH
Confidence            98887544

>PLN02789 farnesyltranstransferase

Probab=97.87  E-value=0.021  Score=55.78  Aligned_cols=215  Identities=10%  Similarity=-0.044  Sum_probs=143.0

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcC-CHHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 048743          346 AMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLG-FLEAAHDILDDMELAGHPMDSTTYKSLLTA  424 (653)
Q Consensus       346 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g-~~~~a~~~~~~m~~~g~~p~~~~~~~li~~  424 (653)
                      ++..+-..+...+..++|+.+..++.+..  |.+..+|+.--..+...| ++++++..++++.+... .+..+|+..-..
T Consensus        39 a~~~~ra~l~~~e~serAL~lt~~aI~ln--P~~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~~np-knyqaW~~R~~~  115 (320)
T PLN02789         39 AMDYFRAVYASDERSPRALDLTADVIRLN--PGNYTVWHFRRLCLEALDADLEEELDFAEDVAEDNP-KNYQIWHHRRWL  115 (320)
T ss_pred             HHHHHHHHHHcCCCCHHHHHHHHHHHHHC--chhHHHHHHHHHHHHHcchhHHHHHHHHHHHHHHCC-cchHHhHHHHHH
Confidence            45566666777889999999999999988  777777887777777777 68999999999987643 366678776666


Q ss_pred             HHHcCCh--HHHHHHHHHHHHcCCccCchhhHHHHhhHHHHhhhcccccccccccCCHHHHHHHHHHHHHccCCCCHHHH
Q 048743          425 YYKVKMF--REAEALLKQMRKSCLVQNLSCEMVVSERFSEVADKSASFTDTSSLMDKSDLAESLIQEMREEAALSTIYKL  502 (653)
Q Consensus       425 ~~~~~~~--~~a~~~~~~m~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~y  502 (653)
                      +.+.|+.  ++++.+++.+.+.  .|..+..-.....+.             ...|+++++++.++++.+.+.. |...|
T Consensus       116 l~~l~~~~~~~el~~~~kal~~--dpkNy~AW~~R~w~l-------------~~l~~~~eeL~~~~~~I~~d~~-N~sAW  179 (320)
T PLN02789        116 AEKLGPDAANKELEFTRKILSL--DAKNYHAWSHRQWVL-------------RTLGGWEDELEYCHQLLEEDVR-NNSAW  179 (320)
T ss_pred             HHHcCchhhHHHHHHHHHHHHh--CcccHHHHHHHHHHH-------------HHhhhHHHHHHHHHHHHHHCCC-chhHH
Confidence            6666653  6778888888763  455422111111111             1357788999999999887632 56667


Q ss_pred             HHHHHHHHcC---CC----HHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhcc----CCHHHHHHHHHHHHHHhhhCCCcc
Q 048743          503 NSSIYFFCKG---KM----IGDALKIYRRMQEMKIRPTVETFYYLVYGHSSL----EMYRDITILWGDIKRNIESGVLAV  571 (653)
Q Consensus       503 ~~li~~~~~~---g~----~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~----~~~~~a~~~~~~~~~~~~~~~~~p  571 (653)
                      +.....+.+.   |.    .++.+++..+++... +-|...|+.+...+...    +...+|.+.+.+...     .-..
T Consensus       180 ~~R~~vl~~~~~l~~~~~~~e~el~y~~~aI~~~-P~N~SaW~Yl~~ll~~~~~~l~~~~~~~~~~~~~~~-----~~~~  253 (320)
T PLN02789        180 NQRYFVITRSPLLGGLEAMRDSELKYTIDAILAN-PRNESPWRYLRGLFKDDKEALVSDPEVSSVCLEVLS-----KDSN  253 (320)
T ss_pred             HHHHHHHHhccccccccccHHHHHHHHHHHHHhC-CCCcCHHHHHHHHHhcCCcccccchhHHHHHHHhhc-----ccCC
Confidence            7766655544   22    246677776766642 22556677777777663    334567777766541     1233


Q ss_pred             CHHHHHHHHHHHHh
Q 048743          572 SRDLYETLLLNFLQ  585 (653)
Q Consensus       572 ~~~~y~~li~~~~~  585 (653)
                      +......|++.|+.
T Consensus       254 s~~al~~l~d~~~~  267 (320)
T PLN02789        254 HVFALSDLLDLLCE  267 (320)
T ss_pred             cHHHHHHHHHHHHh
Confidence            56677778888775

>PF10037 MRP-S27: Mitochondrial 28S ribosomal protein S27; InterPro: IPR019266 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=97.86  E-value=0.025  Score=56.82  Aligned_cols=113  Identities=14%  Similarity=0.171  Sum_probs=96.7

Q ss_pred             CCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCC-CCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHH
Q 048743          338 GKLLHSNRAMAKLINGYKKHGKNSELSWLLLSIKKEHH-SFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDST  416 (653)
Q Consensus       338 ~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~-~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~  416 (653)
                      .+.+.+......+++.+....+++.+..++.+.+.... ...-..|..++|+.|.+.|..+.++.+++.=...|+-||..
T Consensus        60 ~~~~vS~~dld~fvn~~~~~~~~d~~~~~L~k~R~s~~~~~~~~~t~ha~vR~~l~~~~~~~~l~~L~n~~~yGiF~D~~  139 (429)
T PF10037_consen   60 RKKPVSSLDLDIFVNNVESKDDLDEVEDVLYKFRHSPNCSYLLPSTHHALVRQCLELGAEDELLELLKNRLQYGIFPDNF  139 (429)
T ss_pred             cCCCCcHHHHHHHHhhcCCHhHHHHHHHHHHHHHcCcccccccCccHHHHHHHHHhcCCHHHHHHHHhChhhcccCCChh
Confidence            45566778888999999999999999999998887642 21223446799999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHHcCCccCc
Q 048743          417 TYKSLLTAYYKVKMFREAEALLKQMRKSCLVQNL  450 (653)
Q Consensus       417 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~  450 (653)
                      |+|.||+.+.+.|++..|.++...|...+...+.
T Consensus       140 s~n~Lmd~fl~~~~~~~A~~V~~~~~lQe~~~~~  173 (429)
T PF10037_consen  140 SFNLLMDHFLKKGNYKSAAKVATEMMLQEEFDNP  173 (429)
T ss_pred             hHHHHHHHHhhcccHHHHHHHHHHHHHhhccCCc
Confidence            9999999999999999999999999877665554

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 small ribosomal proteins possessing one of three conserved sequence blocks found in proteins that stimulate the dissociation of guanine nucleotides from G-proteins. This leaves open the possibility that they may be functional partners of GTP-binding ribosomal proteins [].

>KOG1174 consensus Anaphase-promoting complex (APC), subunit 7 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=97.81  E-value=0.038  Score=53.50  Aligned_cols=159  Identities=11%  Similarity=0.008  Sum_probs=74.0

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 048743          345 RAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTYKSLLTA  424 (653)
Q Consensus       345 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~  424 (653)
                      .....+-+.+...|+.++|+..|++...-+  |.+..........+.+.|+.+....+...+.... .-+...|-.-...
T Consensus       233 hLl~~lak~~~~~Gdn~~a~~~Fe~~~~~d--py~i~~MD~Ya~LL~~eg~~e~~~~L~~~Lf~~~-~~ta~~wfV~~~~  309 (564)
T KOG1174|consen  233 HLMMALGKCLYYNGDYFQAEDIFSSTLCAN--PDNVEAMDLYAVLLGQEGGCEQDSALMDYLFAKV-KYTASHWFVHAQL  309 (564)
T ss_pred             HHHHHHhhhhhhhcCchHHHHHHHHHhhCC--hhhhhhHHHHHHHHHhccCHhhHHHHHHHHHhhh-hcchhhhhhhhhh
Confidence            344555566666666666666666655544  3333322222233345555555555555554321 0122222222223


Q ss_pred             HHHcCChHHHHHHHHHHHHcCCccCchhhHHH-HhhHHHHhhhcccccccccccCCHHHHHHHHHHHHHccCCC-CHHHH
Q 048743          425 YYKVKMFREAEALLKQMRKSCLVQNLSCEMVV-SERFSEVADKSASFTDTSSLMDKSDLAESLIQEMREEAALS-TIYKL  502 (653)
Q Consensus       425 ~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~~-~~~l~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~~y  502 (653)
                      +....+++.|+.+-++-.+.  .|...-.+++ ...+.              ..++.++|.-.|+......  | +..+|
T Consensus       310 l~~~K~~~rAL~~~eK~I~~--~~r~~~alilKG~lL~--------------~~~R~~~A~IaFR~Aq~La--p~rL~~Y  371 (564)
T KOG1174|consen  310 LYDEKKFERALNFVEKCIDS--EPRNHEALILKGRLLI--------------ALERHTQAVIAFRTAQMLA--PYRLEIY  371 (564)
T ss_pred             hhhhhhHHHHHHHHHHHhcc--CcccchHHHhccHHHH--------------hccchHHHHHHHHHHHhcc--hhhHHHH
Confidence            33445555555555555442  2222111111 11111              2455666666665544322  3 55566


Q ss_pred             HHHHHHHHcCCCHHHHHHHHHH
Q 048743          503 NSSIYFFCKGKMIGDALKIYRR  524 (653)
Q Consensus       503 ~~li~~~~~~g~~~~a~~~~~~  524 (653)
                      ..|+.+|...|++.+|.-+-+.
T Consensus       372 ~GL~hsYLA~~~~kEA~~~An~  393 (564)
T KOG1174|consen  372 RGLFHSYLAQKRFKEANALANW  393 (564)
T ss_pred             HHHHHHHHhhchHHHHHHHHHH
Confidence            6666666666666666554443

>PF08579 RPM2: Mitochondrial ribonuclease P subunit (RPM2); InterPro: IPR013888 Ribonuclease P (RNase P) generates mature tRNA molecules by cleaving their 5' ends

Probab=97.80  E-value=0.0003  Score=54.70  Aligned_cols=91  Identities=18%  Similarity=0.163  Sum_probs=75.0

Q ss_pred             HHHHHHHHHHHhcCCCchHHHHHHHHHcCcc-CCCchhHHHHHHHHhhcccccccchHHHHHHHHHhhhhhhhhcCCccC
Q 048743           94 DLLAKLSLSLARAQMPVPASMILRLMLGREN-LPCSDLLLLVFVHMVKTEIGTCLASNFLIQLCDVFLHLSAEKSNGAEL  172 (653)
Q Consensus        94 ~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~-~p~~~~~~~li~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  172 (653)
                      .|...-|..+...+++.....+|+.+++.|+ .|+..+|+.++.++++...+.....+.+-++...+.++-.      ..
T Consensus        26 ~t~i~~I~~~~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~------~~   99 (120)
T PF08579_consen   26 ETQIDNINSCFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILS------NK   99 (120)
T ss_pred             HHHHHHHHHHHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHH------hc
Confidence            3445567777778999999999999999999 8999999999999998887777777777777777765532      55


Q ss_pred             CCCchhhHHHHHHHHHhc
Q 048743          173 IKPDTMIFNLVLHACVRF  190 (653)
Q Consensus       173 ~~~~~~~yn~li~~~~~~  190 (653)
                      ++|+..+||.++..+.+.
T Consensus       100 lKP~~etYnivl~~Llkg  117 (120)
T PF08579_consen  100 LKPNDETYNIVLGSLLKG  117 (120)
T ss_pred             cCCcHHHHHHHHHHHHHh
Confidence            899999999999987653

Rpm2 is a protein subunit of the yeast mitochondrial RNase P. It has the ability to act as a transcriptional activator in the nucleus, where it plays a role in defining the steady-state levels of mRNAs for some nucleus-encoded mitochondrial components. Rpm2p is also involved in maturation of Rpm1 and in translation of mitochondrial mRNAs [, , ].

>PF08579 RPM2: Mitochondrial ribonuclease P subunit (RPM2); InterPro: IPR013888 Ribonuclease P (RNase P) generates mature tRNA molecules by cleaving their 5' ends

Probab=97.79  E-value=0.00028  Score=54.82  Aligned_cols=81  Identities=16%  Similarity=0.160  Sum_probs=70.3

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcC--------CHHHHHHHHHHHHHCCCCCCHHHHH
Q 048743          348 AKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLG--------FLEAAHDILDDMELAGHPMDSTTYK  419 (653)
Q Consensus       348 ~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g--------~~~~a~~~~~~m~~~g~~p~~~~~~  419 (653)
                      ...|..|...+++...-.+|+.+++.+...|+..+|+.++.+.+++.        ++-..+.+|++|...+++|+..||+
T Consensus        29 i~~I~~~~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~~lKP~~etYn  108 (120)
T PF08579_consen   29 IDNINSCFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSNKLKPNDETYN  108 (120)
T ss_pred             HHHHHHHHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHhccCCcHHHHH
Confidence            46677777889999999999999999965888888999999999874        2446789999999999999999999


Q ss_pred             HHHHHHHHc
Q 048743          420 SLLTAYYKV  428 (653)
Q Consensus       420 ~li~~~~~~  428 (653)
                      .++..+.+.
T Consensus       109 ivl~~Llkg  117 (120)
T PF08579_consen  109 IVLGSLLKG  117 (120)
T ss_pred             HHHHHHHHh
Confidence            999988763

Rpm2 is a protein subunit of the yeast mitochondrial RNase P. It has the ability to act as a transcriptional activator in the nucleus, where it plays a role in defining the steady-state levels of mRNAs for some nucleus-encoded mitochondrial components. Rpm2p is also involved in maturation of Rpm1 and in translation of mitochondrial mRNAs [, , ].

>COG5010 TadD Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]

Probab=97.79  E-value=0.0035  Score=56.89  Aligned_cols=165  Identities=16%  Similarity=0.043  Sum_probs=125.5

Q ss_pred             CccHHHHHHHHHHHHhcCChhhhHHHHHHhhhcCCCcccchhHHHHHHHHhhhccCCHHHHHHHHHHhcccCCCCCCchh
Q 048743          209 VADAHSIIILAQIHEMNCQRDELKKFKCYIDQLSTPFAHHYQQFYESLLSLHFKFDDIDAAGELILDMNRYREPLPNPKL  288 (653)
Q Consensus       209 ~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~  288 (653)
                      .|+......+-..+--.|+-+....+.........    .|..+.+.++....+.|++..|...|.+..           
T Consensus        63 ~p~d~~i~~~a~a~~~~G~a~~~l~~~~~~~~~~~----~d~~ll~~~gk~~~~~g~~~~A~~~~rkA~-----------  127 (257)
T COG5010          63 NPEDLSIAKLATALYLRGDADSSLAVLQKSAIAYP----KDRELLAAQGKNQIRNGNFGEAVSVLRKAA-----------  127 (257)
T ss_pred             CcchHHHHHHHHHHHhcccccchHHHHhhhhccCc----ccHHHHHHHHHHHHHhcchHHHHHHHHHHh-----------
Confidence            44433334444555556666666665555433221    233356678888899999999999999882           


Q ss_pred             hhcccccchhccCCCcccchhhhccchhhhHHHHHHhhhhhHHHHHHhcCCCCCCHHHHHHHHHHHHhcCChHHHHHHHH
Q 048743          289 RQDAQKPYLISIGSPNLRCGLKLQIMPELLEKDSILKMEGKQELVLFRNGKLLHSNRAMAKLINGYKKHGKNSELSWLLL  368 (653)
Q Consensus       289 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~  368 (653)
                                                                       ..-++|...|+.+--+|.+.|++++|..-|.
T Consensus       128 -------------------------------------------------~l~p~d~~~~~~lgaaldq~Gr~~~Ar~ay~  158 (257)
T COG5010         128 -------------------------------------------------RLAPTDWEAWNLLGAALDQLGRFDEARRAYR  158 (257)
T ss_pred             -------------------------------------------------ccCCCChhhhhHHHHHHHHccChhHHHHHHH
Confidence                                                             2345788899999999999999999999999


Q ss_pred             HHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHH
Q 048743          369 SIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTYKSLLTAYYKVKMFREAEALLKQ  440 (653)
Q Consensus       369 ~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~a~~~~~~  440 (653)
                      +..+-.  +.+...+|.|...|.-.|+.+.|..++......+. -|...-..+.-+....|++++|..+-..
T Consensus       159 qAl~L~--~~~p~~~nNlgms~~L~gd~~~A~~lll~a~l~~~-ad~~v~~NLAl~~~~~g~~~~A~~i~~~  227 (257)
T COG5010         159 QALELA--PNEPSIANNLGMSLLLRGDLEDAETLLLPAYLSPA-ADSRVRQNLALVVGLQGDFREAEDIAVQ  227 (257)
T ss_pred             HHHHhc--cCCchhhhhHHHHHHHcCCHHHHHHHHHHHHhCCC-CchHHHHHHHHHHhhcCChHHHHhhccc
Confidence            988876  66677799999999999999999999999887643 3677778888889999999999877543

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=97.78  E-value=0.0091  Score=59.70  Aligned_cols=191  Identities=12%  Similarity=0.035  Sum_probs=97.3

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCccCchhhHHHHhhHHH
Q 048743          383 CSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTYKSLLTAYYKVKMFREAEALLKQMRKSCLVQNLSCEMVVSERFSE  462 (653)
Q Consensus       383 ~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~l~~  462 (653)
                      +..+.++.-+..+++.|.+-+....+..  -+..-++..-.+|...|.+.+.......-.+.|-....-+.++...+.. 
T Consensus       227 ek~lgnaaykkk~f~~a~q~y~~a~el~--~~it~~~n~aA~~~e~~~~~~c~~~c~~a~E~gre~rad~klIak~~~r-  303 (539)
T KOG0548|consen  227 EKELGNAAYKKKDFETAIQHYAKALELA--TDITYLNNIAAVYLERGKYAECIELCEKAVEVGRELRADYKLIAKALAR-  303 (539)
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHHhHh--hhhHHHHHHHHHHHhccHHHHhhcchHHHHHHhHHHHHHHHHHHHHHHH-
Confidence            5566677777777778887777776654  3444556666677777777777776666655553332212221111111 


Q ss_pred             HhhhcccccccccccCCHHHHHHHHHHHHHccCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCHHH-HHHHH
Q 048743          463 VADKSASFTDTSSLMDKSDLAESLIQEMREEAALSTIYKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRPTVET-FYYLV  541 (653)
Q Consensus       463 ~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t-~~~li  541 (653)
                             +...|.+.++.+.+...|++.......|+..         .+....++++.......-.  .|.... ...=.
T Consensus       304 -------~g~a~~k~~~~~~ai~~~~kaLte~Rt~~~l---------s~lk~~Ek~~k~~e~~a~~--~pe~A~e~r~kG  365 (539)
T KOG0548|consen  304 -------LGNAYTKREDYEGAIKYYQKALTEHRTPDLL---------SKLKEAEKALKEAERKAYI--NPEKAEEEREKG  365 (539)
T ss_pred             -------hhhhhhhHHhHHHHHHHHHHHhhhhcCHHHH---------HHHHHHHHHHHHHHHHHhh--ChhHHHHHHHHH
Confidence                   2235566677777877777766544444332         1222233333333332221  122110 11113


Q ss_pred             HHHhccCCHHHHHHHHHHHHHHhhhCCCccCHHHHHHHHHHHHhCCCHHHHHHHHHHH
Q 048743          542 YGHSSLEMYRDITILWGDIKRNIESGVLAVSRDLYETLLLNFLQGGYFERVMEVIGYM  599 (653)
Q Consensus       542 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m  599 (653)
                      ..+.+.|++..|+..+.++...     -+-|...|....-+|.+.|.+.+|+.=.+.-
T Consensus       366 ne~Fk~gdy~~Av~~YteAIkr-----~P~Da~lYsNRAac~~kL~~~~~aL~Da~~~  418 (539)
T KOG0548|consen  366 NEAFKKGDYPEAVKHYTEAIKR-----DPEDARLYSNRAACYLKLGEYPEALKDAKKC  418 (539)
T ss_pred             HHHHhccCHHHHHHHHHHHHhc-----CCchhHHHHHHHHHHHHHhhHHHHHHHHHHH
Confidence            3445555555555555554421     1334455555555555555555555544433

>PRK14720 transcript cleavage factor/unknown domain fusion protein; Provisional

Probab=97.76  E-value=0.015  Score=63.77  Aligned_cols=162  Identities=15%  Similarity=0.072  Sum_probs=102.0

Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHc
Q 048743          349 KLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTYKSLLTAYYKV  428 (653)
Q Consensus       349 ~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~  428 (653)
                      .++.......++.-+..+...|...   +.+...+-.+..+|-+.|+.++|..+++++.+.. +-|+.+.|.+...|...
T Consensus        88 ~~l~~~~~~~~~~~ve~~~~~i~~~---~~~k~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D-~~n~~aLNn~AY~~ae~  163 (906)
T PRK14720         88 NLIDSFSQNLKWAIVEHICDKILLY---GENKLALRTLAEAYAKLNENKKLKGVWERLVKAD-RDNPEIVKKLATSYEEE  163 (906)
T ss_pred             hhhhhcccccchhHHHHHHHHHHhh---hhhhHHHHHHHHHHHHcCChHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHh
Confidence            4445555555664455555555543   3444467788888888899999999999988876 44788888888888888


Q ss_pred             CChHHHHHHHHHHHHcCCccCchhhHHHHhhHHHHhhhcccccccccccCCHHHHHHHHHHHHHccCCCCHHHHHHHHHH
Q 048743          429 KMFREAEALLKQMRKSCLVQNLSCEMVVSERFSEVADKSASFTDTSSLMDKSDLAESLIQEMREEAALSTIYKLNSSIYF  508 (653)
Q Consensus       429 ~~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~y~~li~~  508 (653)
                       +.++|++++......-+                             ...++..+..+|.++....  |           
T Consensus       164 -dL~KA~~m~~KAV~~~i-----------------------------~~kq~~~~~e~W~k~~~~~--~-----------  200 (906)
T PRK14720        164 -DKEKAITYLKKAIYRFI-----------------------------KKKQYVGIEEIWSKLVHYN--S-----------  200 (906)
T ss_pred             -hHHHHHHHHHHHHHHHH-----------------------------hhhcchHHHHHHHHHHhcC--c-----------
Confidence             88899888887766411                             1346666666666666643  2           


Q ss_pred             HHcCCCHHHHHHHHHHHHhc-CCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHH
Q 048743          509 FCKGKMIGDALKIYRRMQEM-KIRPTVETFYYLVYGHSSLEMYRDITILWGDIK  561 (653)
Q Consensus       509 ~~~~g~~~~a~~~~~~m~~~-g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~~~  561 (653)
                          .+.+.-+.+.+.+... |..--..++-.+-..|...++++++..++..+.
T Consensus       201 ----~d~d~f~~i~~ki~~~~~~~~~~~~~~~l~~~y~~~~~~~~~i~iLK~iL  250 (906)
T PRK14720        201 ----DDFDFFLRIERKVLGHREFTRLVGLLEDLYEPYKALEDWDEVIYILKKIL  250 (906)
T ss_pred             ----ccchHHHHHHHHHHhhhccchhHHHHHHHHHHHhhhhhhhHHHHHHHHHH
Confidence                1223333333333332 333334455555566666667777777776665

>PRK10370 formate-dependent nitrite reductase complex subunit NrfG; Provisional

Probab=97.70  E-value=0.0075  Score=54.64  Aligned_cols=105  Identities=11%  Similarity=0.055  Sum_probs=82.3

Q ss_pred             CCHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHH-HHcCC--HHHHHHHHHHHHHCCCCCCHHHH
Q 048743          342 HSNRAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDAL-IQLGF--LEAAHDILDDMELAGHPMDSTTY  418 (653)
Q Consensus       342 p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~-~~~g~--~~~a~~~~~~m~~~g~~p~~~~~  418 (653)
                      .+...|..+-..|...|++++|...|++..+..  |.+...+..+..++ ...|+  .++|.+++++..+.... +..++
T Consensus        71 ~~~~~w~~Lg~~~~~~g~~~~A~~a~~~Al~l~--P~~~~~~~~lA~aL~~~~g~~~~~~A~~~l~~al~~dP~-~~~al  147 (198)
T PRK10370         71 QNSEQWALLGEYYLWRNDYDNALLAYRQALQLR--GENAELYAALATVLYYQAGQHMTPQTREMIDKALALDAN-EVTAL  147 (198)
T ss_pred             CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhCCC-ChhHH
Confidence            355678888888888999999999999888877  77777788877764 56676  58899999988876433 67788


Q ss_pred             HHHHHHHHHcCChHHHHHHHHHHHHcCCccCc
Q 048743          419 KSLLTAYYKVKMFREAEALLKQMRKSCLVQNL  450 (653)
Q Consensus       419 ~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~  450 (653)
                      ..+..++...|++++|...|+.+.+. ..|+.
T Consensus       148 ~~LA~~~~~~g~~~~Ai~~~~~aL~l-~~~~~  178 (198)
T PRK10370        148 MLLASDAFMQADYAQAIELWQKVLDL-NSPRV  178 (198)
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHhh-CCCCc
Confidence            88888888899999999999988875 34443

>PRK10370 formate-dependent nitrite reductase complex subunit NrfG; Provisional

Probab=97.69  E-value=0.0024  Score=57.82  Aligned_cols=127  Identities=13%  Similarity=0.079  Sum_probs=73.5

Q ss_pred             cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCccCchhhHHHHhhHHHHhhhcccccc
Q 048743          393 LGFLEAAHDILDDMELAGHPMDSTTYKSLLTAYYKVKMFREAEALLKQMRKSCLVQNLSCEMVVSERFSEVADKSASFTD  472 (653)
Q Consensus       393 ~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~  472 (653)
                      .++.+++...++...+.. +.|...|..+-..|...|++++|...|+...+  +.|+...........  +         
T Consensus        52 ~~~~~~~i~~l~~~L~~~-P~~~~~w~~Lg~~~~~~g~~~~A~~a~~~Al~--l~P~~~~~~~~lA~a--L---------  117 (198)
T PRK10370         52 QQTPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWRNDYDNALLAYRQALQ--LRGENAELYAALATV--L---------  117 (198)
T ss_pred             chhHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHH--hCCCCHHHHHHHHHH--H---------
Confidence            445555665565555442 34666666666677777777777777766655  334431111110000  0         


Q ss_pred             cccccCC--HHHHHHHHHHHHHccCCC-CHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCHHHH
Q 048743          473 TSSLMDK--SDLAESLIQEMREEAALS-TIYKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRPTVETF  537 (653)
Q Consensus       473 ~~~~~~~--~~~a~~~~~~m~~~~~~p-~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~  537 (653)
                       |...|+  .++|.+++++..+.+  | +...+..+...+.+.|++++|+..|+++.+.. +|+..-+
T Consensus       118 -~~~~g~~~~~~A~~~l~~al~~d--P~~~~al~~LA~~~~~~g~~~~Ai~~~~~aL~l~-~~~~~r~  181 (198)
T PRK10370        118 -YYQAGQHMTPQTREMIDKALALD--ANEVTALMLLASDAFMQADYAQAIELWQKVLDLN-SPRVNRT  181 (198)
T ss_pred             -HHhcCCCCcHHHHHHHHHHHHhC--CCChhHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCccHH
Confidence             111333  366666666666554  4 66677778888888888888888888887752 4444433

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=97.69  E-value=0.12  Score=55.92  Aligned_cols=111  Identities=14%  Similarity=0.052  Sum_probs=75.8

Q ss_pred             ccccccchHHHHHHHHHHHHhccchhHHHHHHHHhhhhcCCCC-chhHHHHHHHhhccCCcchhhhHHHHHHHHHhccCC
Q 048743           11 KLSWEGSSREVLLRKLESASKNHQVGEAWETFNDFQRLHGIPE-RHVVNRFITDLCYSAEPHWLQKACDLVLKIQKGKAD   89 (653)
Q Consensus        11 ~l~~~~p~~~~~~~~i~~~~~~~~~~~A~~~~~~~~~~~~~~~-~~~~~~ll~~~~~~~~~~~~~~a~~~~~~~~~~~~~   89 (653)
                      +......+.+........|++..+|+.|..+.-...+  ..|- .-.+|++-++..... .+..-+|+.-|+...+..| 
T Consensus       518 AFeLDatdaeaaaa~adtyae~~~we~a~~I~l~~~q--ka~a~~~k~nW~~rG~yyLe-a~n~h~aV~~fQsALR~dP-  593 (1238)
T KOG1127|consen  518 AFELDATDAEAAAASADTYAEESTWEEAFEICLRAAQ--KAPAFACKENWVQRGPYYLE-AHNLHGAVCEFQSALRTDP-  593 (1238)
T ss_pred             HhcCCchhhhhHHHHHHHhhccccHHHHHHHHHHHhh--hchHHHHHhhhhhccccccC-ccchhhHHHHHHHHhcCCc-
Confidence            4556667777888888888888888888887322222  1121 224566655543332 2235677777777665544 


Q ss_pred             chhHHHHHHHHHHHHhcCCCchHHHHHHHHHcCccCCCc
Q 048743           90 LLQLDLLAKLSLSLARAQMPVPASMILRLMLGRENLPCS  128 (653)
Q Consensus        90 ~~~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~  128 (653)
                       -|...|..+..+|.++|++..|+.+|.+....  .|+.
T Consensus       594 -kD~n~W~gLGeAY~~sGry~~AlKvF~kAs~L--rP~s  629 (1238)
T KOG1127|consen  594 -KDYNLWLGLGEAYPESGRYSHALKVFTKASLL--RPLS  629 (1238)
T ss_pred             -hhHHHHHHHHHHHHhcCceehHHHhhhhhHhc--CcHh
Confidence             38999999999999999999999999887654  4544

>COG5010 TadD Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]

Probab=97.69  E-value=0.0036  Score=56.82  Aligned_cols=166  Identities=16%  Similarity=0.049  Sum_probs=118.7

Q ss_pred             CCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHH
Q 048743          340 LLHSNRAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTYK  419 (653)
Q Consensus       340 ~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~  419 (653)
                      ..|+......+-..+.-.|+-+....+........  +.+....+..+....+.|++..|...|++.... -++|..+|+
T Consensus        62 ~~p~d~~i~~~a~a~~~~G~a~~~l~~~~~~~~~~--~~d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~l-~p~d~~~~~  138 (257)
T COG5010          62 RNPEDLSIAKLATALYLRGDADSSLAVLQKSAIAY--PKDRELLAAQGKNQIRNGNFGEAVSVLRKAARL-APTDWEAWN  138 (257)
T ss_pred             cCcchHHHHHHHHHHHhcccccchHHHHhhhhccC--cccHHHHHHHHHHHHHhcchHHHHHHHHHHhcc-CCCChhhhh
Confidence            44533322556666777888888888877765554  566566777899999999999999999998764 467999999


Q ss_pred             HHHHHHHHcCChHHHHHHHHHHHHcC-CccCchhhHHHHhhHHHHhhhcccccccccccCCHHHHHHHHHHHHHccCCCC
Q 048743          420 SLLTAYYKVKMFREAEALLKQMRKSC-LVQNLSCEMVVSERFSEVADKSASFTDTSSLMDKSDLAESLIQEMREEAALST  498 (653)
Q Consensus       420 ~li~~~~~~~~~~~a~~~~~~m~~~~-~~p~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~p~  498 (653)
                      .+--+|.+.|+.++|..-|.+..+.. -.|...+++.+.                |.-.|+.+.|..++......+. -|
T Consensus       139 ~lgaaldq~Gr~~~Ar~ay~qAl~L~~~~p~~~nNlgms----------------~~L~gd~~~A~~lll~a~l~~~-ad  201 (257)
T COG5010         139 LLGAALDQLGRFDEARRAYRQALELAPNEPSIANNLGMS----------------LLLRGDLEDAETLLLPAYLSPA-AD  201 (257)
T ss_pred             HHHHHHHHccChhHHHHHHHHHHHhccCCchhhhhHHHH----------------HHHcCCHHHHHHHHHHHHhCCC-Cc
Confidence            99999999999999999999888732 233322222222                1226788888888877776542 16


Q ss_pred             HHHHHHHHHHHHcCCCHHHHHHHHHHH
Q 048743          499 IYKLNSSIYFFCKGKMIGDALKIYRRM  525 (653)
Q Consensus       499 ~~~y~~li~~~~~~g~~~~a~~~~~~m  525 (653)
                      ..+-..+.......|++++|.++...-
T Consensus       202 ~~v~~NLAl~~~~~g~~~~A~~i~~~e  228 (257)
T COG5010         202 SRVRQNLALVVGLQGDFREAEDIAVQE  228 (257)
T ss_pred             hHHHHHHHHHHhhcCChHHHHhhcccc
Confidence            666677777778888888887776543

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=97.68  E-value=0.023  Score=61.56  Aligned_cols=134  Identities=9%  Similarity=-0.002  Sum_probs=96.2

Q ss_pred             CCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHH
Q 048743          341 LHSNRAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTYKS  420 (653)
Q Consensus       341 ~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~  420 (653)
                      ..+...+-.|-....+.|.+++|..+++...+..  |.+......+...+.+.+++++|+...++...... -+......
T Consensus        83 ~~~~~~~~~La~i~~~~g~~~ea~~~l~~~~~~~--Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~~p-~~~~~~~~  159 (694)
T PRK15179         83 PHTELFQVLVARALEAAHRSDEGLAVWRGIHQRF--PDSSEAFILMLRGVKRQQGIEAGRAEIELYFSGGS-SSAREILL  159 (694)
T ss_pred             cccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhC--CCcHHHHHHHHHHHHHhccHHHHHHHHHHHhhcCC-CCHHHHHH
Confidence            3456677788888888899999999999888877  77777788888888899999999999988887642 25566677


Q ss_pred             HHHHHHHcCChHHHHHHHHHHHHcCCccCchhhHHHHhhHHHHhhhcccccccccccCCHHHHHHHHHHHHH
Q 048743          421 LLTAYYKVKMFREAEALLKQMRKSCLVQNLSCEMVVSERFSEVADKSASFTDTSSLMDKSDLAESLIQEMRE  492 (653)
Q Consensus       421 li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~  492 (653)
                      +-.++.+.|++++|..+|++....  .|+.....+.....             +.+.|+.++|...|+...+
T Consensus       160 ~a~~l~~~g~~~~A~~~y~~~~~~--~p~~~~~~~~~a~~-------------l~~~G~~~~A~~~~~~a~~  216 (694)
T PRK15179        160 EAKSWDEIGQSEQADACFERLSRQ--HPEFENGYVGWAQS-------------LTRRGALWRARDVLQAGLD  216 (694)
T ss_pred             HHHHHHHhcchHHHHHHHHHHHhc--CCCcHHHHHHHHHH-------------HHHcCCHHHHHHHHHHHHH
Confidence            778888889999999999988873  34431122111110             1235666666666666554

>KOG1125 consensus TPR repeat-containing protein [General function prediction only]

Probab=97.67  E-value=0.0041  Score=62.62  Aligned_cols=230  Identities=10%  Similarity=-0.078  Sum_probs=160.9

Q ss_pred             HHhcCChhhHHHHHHHHHhcCCCccHHHHHHHHHHHHhcCChhhhHHHHHHhhhcCCCcccchhHHHHHHHHhhhccCCH
Q 048743          187 CVRFGSSLKGQHIMELMSQTGVVADAHSIIILAQIHEMNCQRDELKKFKCYIDQLSTPFAHHYQQFYESLLSLHFKFDDI  266 (653)
Q Consensus       187 ~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~  266 (653)
                      +.++|++.+|.-.|+...+.. .-+...|..|....+..++-..|...+++..+..+.+..    +.-+|--.|...|.-
T Consensus       295 lm~nG~L~~A~LafEAAVkqd-P~haeAW~~LG~~qaENE~E~~ai~AL~rcl~LdP~Nle----aLmaLAVSytNeg~q  369 (579)
T KOG1125|consen  295 LMKNGDLSEAALAFEAAVKQD-PQHAEAWQKLGITQAENENEQNAISALRRCLELDPTNLE----ALMALAVSYTNEGLQ  369 (579)
T ss_pred             HHhcCCchHHHHHHHHHHhhC-hHHHHHHHHhhhHhhhccchHHHHHHHHHHHhcCCccHH----HHHHHHHHHhhhhhH
Confidence            567999999999999988874 224556889999999999999999999888887655443    577888899999999


Q ss_pred             HHHHHHHHHhcccCCCCCCchhhhcccccchhccCCCcccchhhhccchhhhHHHHHHhhhhhHHHH-HHhcCCCCCCHH
Q 048743          267 DAAGELILDMNRYREPLPNPKLRQDAQKPYLISIGSPNLRCGLKLQIMPELLEKDSILKMEGKQELV-LFRNGKLLHSNR  345 (653)
Q Consensus       267 ~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~p~~~  345 (653)
                      ..|++.|+......-...+..            ........+..     ..+..... -......++ .....+..+|..
T Consensus       370 ~~Al~~L~~Wi~~~p~y~~l~------------~a~~~~~~~~~-----~s~~~~~~-l~~i~~~fLeaa~~~~~~~Dpd  431 (579)
T KOG1125|consen  370 NQALKMLDKWIRNKPKYVHLV------------SAGENEDFENT-----KSFLDSSH-LAHIQELFLEAARQLPTKIDPD  431 (579)
T ss_pred             HHHHHHHHHHHHhCccchhcc------------ccCccccccCC-----cCCCCHHH-HHHHHHHHHHHHHhCCCCCChh
Confidence            999999998743221000000            00000000000     00000000 001111222 334555557777


Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCH-HHHHHHHHH
Q 048743          346 AMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDS-TTYKSLLTA  424 (653)
Q Consensus       346 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~-~~~~~li~~  424 (653)
                      ++..|--.|--.|++++|...|+......  |.|..+||-|-..++...+.++|...|.+.++-  +|+- .....|--+
T Consensus       432 vQ~~LGVLy~ls~efdraiDcf~~AL~v~--Pnd~~lWNRLGAtLAN~~~s~EAIsAY~rALqL--qP~yVR~RyNlgIS  507 (579)
T KOG1125|consen  432 VQSGLGVLYNLSGEFDRAVDCFEAALQVK--PNDYLLWNRLGATLANGNRSEEAISAYNRALQL--QPGYVRVRYNLGIS  507 (579)
T ss_pred             HHhhhHHHHhcchHHHHHHHHHHHHHhcC--CchHHHHHHhhHHhcCCcccHHHHHHHHHHHhc--CCCeeeeehhhhhh
Confidence            78888888889999999999999999988  999999999999999999999999999999874  4543 344445557


Q ss_pred             HHHcCChHHHHHHHHHHHH
Q 048743          425 YYKVKMFREAEALLKQMRK  443 (653)
Q Consensus       425 ~~~~~~~~~a~~~~~~m~~  443 (653)
                      |...|.+++|...|-....
T Consensus       508 ~mNlG~ykEA~~hlL~AL~  526 (579)
T KOG1125|consen  508 CMNLGAYKEAVKHLLEALS  526 (579)
T ss_pred             hhhhhhHHHHHHHHHHHHH
Confidence            8999999999988866543

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=97.64  E-value=0.0036  Score=53.50  Aligned_cols=99  Identities=6%  Similarity=-0.152  Sum_probs=87.7

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 048743          347 MAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTYKSLLTAYY  426 (653)
Q Consensus       347 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~  426 (653)
                      +..+-..+...|++++|...|+......  |.+...|..+..++.+.|++++|...|+...... +.+..++..+-.++.
T Consensus        27 ~~~~g~~~~~~g~~~~A~~~~~~al~~~--P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~-p~~~~a~~~lg~~l~  103 (144)
T PRK15359         27 VYASGYASWQEGDYSRAVIDFSWLVMAQ--PWSWRAHIALAGTWMMLKEYTTAINFYGHALMLD-ASHPEPVYQTGVCLK  103 (144)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHcC--CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCcHHHHHHHHHHH
Confidence            5556778889999999999999999887  8888889999999999999999999999999854 457889999999999


Q ss_pred             HcCChHHHHHHHHHHHHcCCccCc
Q 048743          427 KVKMFREAEALLKQMRKSCLVQNL  450 (653)
Q Consensus       427 ~~~~~~~a~~~~~~m~~~~~~p~~  450 (653)
                      ..|++++|...|+...+  +.|+.
T Consensus       104 ~~g~~~eAi~~~~~Al~--~~p~~  125 (144)
T PRK15359        104 MMGEPGLAREAFQTAIK--MSYAD  125 (144)
T ss_pred             HcCCHHHHHHHHHHHHH--hCCCC
Confidence            99999999999999987  45664

>PF10037 MRP-S27: Mitochondrial 28S ribosomal protein S27; InterPro: IPR019266 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=97.63  E-value=0.00078  Score=67.34  Aligned_cols=115  Identities=11%  Similarity=0.027  Sum_probs=95.6

Q ss_pred             CCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhc--CCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHHhhhCCCccCHH
Q 048743          497 STIYKLNSSIYFFCKGKMIGDALKIYRRMQEM--KIRPTVETFYYLVYGHSSLEMYRDITILWGDIKRNIESGVLAVSRD  574 (653)
Q Consensus       497 p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~--g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~p~~~  574 (653)
                      .+......++..+....+++.+.+++.+.+..  ....-..|..++|+.|.+.|..+.++.++..=    ...|+-||..
T Consensus        64 vS~~dld~fvn~~~~~~~~d~~~~~L~k~R~s~~~~~~~~~t~ha~vR~~l~~~~~~~~l~~L~n~----~~yGiF~D~~  139 (429)
T PF10037_consen   64 VSSLDLDIFVNNVESKDDLDEVEDVLYKFRHSPNCSYLLPSTHHALVRQCLELGAEDELLELLKNR----LQYGIFPDNF  139 (429)
T ss_pred             CcHHHHHHHHhhcCCHhHHHHHHHHHHHHHcCcccccccCccHHHHHHHHHhcCCHHHHHHHHhCh----hhcccCCChh
Confidence            36667788888888888899999999988874  33333456679999999999999999888543    3679999999


Q ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCCHHhHHHHH
Q 048743          575 LYETLLLNFLQGGYFERVMEVIGYMKKQNMYVDKLMYKSEF  615 (653)
Q Consensus       575 ~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~l~  615 (653)
                      +||.|++.+.+.|++..|.++..+|...+...+..|+...+
T Consensus       140 s~n~Lmd~fl~~~~~~~A~~V~~~~~lQe~~~~~~t~~L~l  180 (429)
T PF10037_consen  140 SFNLLMDHFLKKGNYKSAAKVATEMMLQEEFDNPSTQALAL  180 (429)
T ss_pred             hHHHHHHHHhhcccHHHHHHHHHHHHHhhccCCchHHHHHH
Confidence            99999999999999999999999998888888888887766

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 small ribosomal proteins possessing one of three conserved sequence blocks found in proteins that stimulate the dissociation of guanine nucleotides from G-proteins. This leaves open the possibility that they may be functional partners of GTP-binding ribosomal proteins [].

>KOG4162 consensus Predicted calmodulin-binding protein [Signal transduction mechanisms]

Probab=97.61  E-value=0.13  Score=54.10  Aligned_cols=390  Identities=11%  Similarity=-0.015  Sum_probs=216.0

Q ss_pred             CCCchhhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCccHHHHHHHHHHHHhcCChhhhHHHHHHhhhcCC--Ccccchh
Q 048743          173 IKPDTMIFNLVLHACVRFGSSLKGQHIMELMSQTGVVADAHSIIILAQIHEMNCQRDELKKFKCYIDQLST--PFAHHYQ  250 (653)
Q Consensus       173 ~~~~~~~yn~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~--~~~~~~~  250 (653)
                      +.-|...|..|.=+..+.|+++.+.+.|++.... ..-....|..+--.+...|.-..|..+++.-.....  +++.   
T Consensus       319 ~qnd~ai~d~Lt~al~~~g~f~~lae~fE~~~~~-~~~~~e~w~~~als~saag~~s~Av~ll~~~~~~~~~ps~~s---  394 (799)
T KOG4162|consen  319 FQNDAAIFDHLTFALSRCGQFEVLAEQFEQALPF-SFGEHERWYQLALSYSAAGSDSKAVNLLRESLKKSEQPSDIS---  394 (799)
T ss_pred             hcchHHHHHHHHHHHHHHHHHHHHHHHHHHHhHh-hhhhHHHHHHHHHHHHHhccchHHHHHHHhhcccccCCCcch---
Confidence            4567888999999999999999999999987754 233445577777788888888888888887766542  2221   


Q ss_pred             HHHHHHHHhh-hccCCHHHHHHHHHHhcccCCCCCCchhhhcccccchhccCCCcccchhhhccchhhhHHHHHHhhhhh
Q 048743          251 QFYESLLSLH-FKFDDIDAAGELILDMNRYREPLPNPKLRQDAQKPYLISIGSPNLRCGLKLQIMPELLEKDSILKMEGK  329 (653)
Q Consensus       251 ~~~~~li~~~-~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  329 (653)
                       .+-..-..| -+.+.+++++.+-.+.....+                          +                     
T Consensus       395 -~~Lmasklc~e~l~~~eegldYA~kai~~~~--------------------------~---------------------  426 (799)
T KOG4162|consen  395 -VLLMASKLCIERLKLVEEGLDYAQKAISLLG--------------------------G---------------------  426 (799)
T ss_pred             -HHHHHHHHHHhchhhhhhHHHHHHHHHHHhh--------------------------h---------------------
Confidence             122222222 234667777776665521000                          0                     


Q ss_pred             HHHHHHhcCCCCCCHHHHHHHHHHHH-----------hcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHH
Q 048743          330 QELVLFRNGKLLHSNRAMAKLINGYK-----------KHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEA  398 (653)
Q Consensus       330 ~~~~~~~~~~~~p~~~~~~~li~~~~-----------~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~  398 (653)
                            ....+.|  ..|-.+--+|.           +.....++.+.+++..+.+  +.|+.+.--+---|+..++++.
T Consensus       427 ------~~~~l~~--~~~l~lGi~y~~~A~~a~~~seR~~~h~kslqale~av~~d--~~dp~~if~lalq~A~~R~l~s  496 (799)
T KOG4162|consen  427 ------QRSHLKP--RGYLFLGIAYGFQARQANLKSERDALHKKSLQALEEAVQFD--PTDPLVIFYLALQYAEQRQLTS  496 (799)
T ss_pred             ------hhhhhhh--hHHHHHHHHHHhHhhcCCChHHHHHHHHHHHHHHHHHHhcC--CCCchHHHHHHHHHHHHHhHHH
Confidence                  0000111  11212222221           1112345666777776666  4443333344444666777888


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHc-CCccCc------------hhhHHHHhhHH--HH
Q 048743          399 AHDILDDMELAGHPMDSTTYKSLLTAYYKVKMFREAEALLKQMRKS-CLVQNL------------SCEMVVSERFS--EV  463 (653)
Q Consensus       399 a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-~~~p~~------------~~~~~~~~~l~--~~  463 (653)
                      |.+..++..+.+-.-+...|..|.-.+...+++.+|+.+.+..... |..-..            ...-.+-.|.+  .+
T Consensus       497 Al~~~~eaL~l~~~~~~~~whLLALvlSa~kr~~~Al~vvd~al~E~~~N~~l~~~~~~i~~~~~~~e~~l~t~~~~L~~  576 (799)
T KOG4162|consen  497 ALDYAREALALNRGDSAKAWHLLALVLSAQKRLKEALDVVDAALEEFGDNHVLMDGKIHIELTFNDREEALDTCIHKLAL  576 (799)
T ss_pred             HHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHhhhhhhhchhhhhhhhhcccHHHHHHHHHHHHHH
Confidence            8877777777655567777777777777777777777777665442 110000            00001111111  11


Q ss_pred             hhh---------cccccc----cccccCCHHHHH-------HHHH-HHHHcc---------CCC--C------HHHHHHH
Q 048743          464 ADK---------SASFTD----TSSLMDKSDLAE-------SLIQ-EMREEA---------ALS--T------IYKLNSS  505 (653)
Q Consensus       464 ~~~---------~~~~~~----~~~~~~~~~~a~-------~~~~-~m~~~~---------~~p--~------~~~y~~l  505 (653)
                      .+.         .+...+    +-....+..++.       .+.. .....|         ..|  +      ...|...
T Consensus       577 we~~~~~q~~~~~g~~~~lk~~l~la~~q~~~a~s~sr~ls~l~a~~~~~~~se~~Lp~s~~~~~~~~~~~~~~~lwlla  656 (799)
T KOG4162|consen  577 WEAEYGVQQTLDEGKLLRLKAGLHLALSQPTDAISTSRYLSSLVASQLKSAGSELKLPSSTVLPGPDSLWYLLQKLWLLA  656 (799)
T ss_pred             HHhhhhHhhhhhhhhhhhhhcccccCcccccccchhhHHHHHHHHhhhhhcccccccCcccccCCCCchHHHHHHHHHHH
Confidence            110         000000    000011111111       1111 000111         112  1      2245566


Q ss_pred             HHHHHcCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHHhhhCCCcc-CHHHHHHHHHHHH
Q 048743          506 IYFFCKGKMIGDALKIYRRMQEMKIRPTVETFYYLVYGHSSLEMYRDITILWGDIKRNIESGVLAV-SRDLYETLLLNFL  584 (653)
Q Consensus       506 i~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~p-~~~~y~~li~~~~  584 (653)
                      ...+.+.+..++|...+.+.... .......|...-..+...|.+.+|.+.|....      .+.| ++....++...+.
T Consensus       657 a~~~~~~~~~~~a~~CL~Ea~~~-~~l~~~~~~~~G~~~~~~~~~~EA~~af~~Al------~ldP~hv~s~~Ala~~ll  729 (799)
T KOG4162|consen  657 ADLFLLSGNDDEARSCLLEASKI-DPLSASVYYLRGLLLEVKGQLEEAKEAFLVAL------ALDPDHVPSMTALAELLL  729 (799)
T ss_pred             HHHHHhcCCchHHHHHHHHHHhc-chhhHHHHHHhhHHHHHHHhhHHHHHHHHHHH------hcCCCCcHHHHHHHHHHH
Confidence            67778888888888887776543 23334455555566778888999998887765      4555 4456778888899


Q ss_pred             hCCCHHHHHH--HHHHHHhCCC-CCCHHhHHHHHHHhhhhhHHhhhhhHH
Q 048743          585 QGGYFERVME--VIGYMKKQNM-YVDKLMYKSEFLKHHKHLYRRLKVSNA  631 (653)
Q Consensus       585 ~~g~~~~a~~--~~~~m~~~g~-~p~~~t~~~l~~~~~~~~~~~~~~~~~  631 (653)
                      +.|+..-|..  ++.++.+.+- .|+.+-|..-+.+..|+.++|-+-+..
T Consensus       730 e~G~~~la~~~~~L~dalr~dp~n~eaW~~LG~v~k~~Gd~~~Aaecf~a  779 (799)
T KOG4162|consen  730 ELGSPRLAEKRSLLSDALRLDPLNHEAWYYLGEVFKKLGDSKQAAECFQA  779 (799)
T ss_pred             HhCCcchHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHccchHHHHHHHHH
Confidence            9998888888  8888876652 233444444445666777766544433

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=97.56  E-value=0.043  Score=59.53  Aligned_cols=209  Identities=9%  Similarity=-0.025  Sum_probs=140.9

Q ss_pred             HHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHHcC
Q 048743          351 INGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMD-STTYKSLLTAYYKVK  429 (653)
Q Consensus       351 i~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~~~~~li~~~~~~~  429 (653)
                      +....+.....+++.-.....+..  +.+...+-.|.....+.|..++|..+++...+.  .|+ ......+..++.+.+
T Consensus        59 ~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~La~i~~~~g~~~ea~~~l~~~~~~--~Pd~~~a~~~~a~~L~~~~  134 (694)
T PRK15179         59 LERHAAVHKPAAALPELLDYVRRY--PHTELFQVLVARALEAAHRSDEGLAVWRGIHQR--FPDSSEAFILMLRGVKRQQ  134 (694)
T ss_pred             HHHhhhhcchHhhHHHHHHHHHhc--cccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhh--CCCcHHHHHHHHHHHHHhc
Confidence            333333334444444444444444  666777889999999999999999999999875  455 456677888999999


Q ss_pred             ChHHHHHHHHHHHHcCCccCchh-hHHHHhhHHHHhhhcccccccccccCCHHHHHHHHHHHHHccCCC-CHHHHHHHHH
Q 048743          430 MFREAEALLKQMRKSCLVQNLSC-EMVVSERFSEVADKSASFTDTSSLMDKSDLAESLIQEMREEAALS-TIYKLNSSIY  507 (653)
Q Consensus       430 ~~~~a~~~~~~m~~~~~~p~~~~-~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~~y~~li~  507 (653)
                      ++++|+...+...+.  .|+... ......++.              ..|+.++|..+|++....+  | +..++..+-.
T Consensus       135 ~~eeA~~~~~~~l~~--~p~~~~~~~~~a~~l~--------------~~g~~~~A~~~y~~~~~~~--p~~~~~~~~~a~  196 (694)
T PRK15179        135 GIEAGRAEIELYFSG--GSSSAREILLEAKSWD--------------EIGQSEQADACFERLSRQH--PEFENGYVGWAQ  196 (694)
T ss_pred             cHHHHHHHHHHHhhc--CCCCHHHHHHHHHHHH--------------HhcchHHHHHHHHHHHhcC--CCcHHHHHHHHH
Confidence            999999999999874  577632 222232222              3789999999999999844  5 4778888888


Q ss_pred             HHHcCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHHhhhCCCccCHHHHHHHHHHHHhCC
Q 048743          508 FFCKGKMIGDALKIYRRMQEMKIRPTVETFYYLVYGHSSLEMYRDITILWGDIKRNIESGVLAVSRDLYETLLLNFLQGG  587 (653)
Q Consensus       508 ~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~p~~~~y~~li~~~~~~g  587 (653)
                      ++-+.|+.++|...|++..+. ..|....|+.++.      ++..-..+++.+.-...-.|..........+|.-|.+..
T Consensus       197 ~l~~~G~~~~A~~~~~~a~~~-~~~~~~~~~~~~~------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  269 (694)
T PRK15179        197 SLTRRGALWRARDVLQAGLDA-IGDGARKLTRRLV------DLNADLAALRRLGVEGDGRDVPVSILVLEKMLQEIGRRR  269 (694)
T ss_pred             HHHHcCCHHHHHHHHHHHHHh-hCcchHHHHHHHH------HHHHHHHHHHHcCcccccCCCceeeeeHHHHHHHHhhcC
Confidence            999999999999999998874 3455566665543      222223333333211122344555666777887777654


Q ss_pred             C
Q 048743          588 Y  588 (653)
Q Consensus       588 ~  588 (653)
                      .
T Consensus       270 ~  270 (694)
T PRK15179        270 N  270 (694)
T ss_pred             c
Confidence            4

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=97.53  E-value=0.0044  Score=52.90  Aligned_cols=120  Identities=11%  Similarity=-0.034  Sum_probs=92.6

Q ss_pred             HHHHHHHHHccCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHH
Q 048743          484 ESLIQEMREEAALSTIYKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRPTVETFYYLVYGHSSLEMYRDITILWGDIKRN  563 (653)
Q Consensus       484 ~~~~~~m~~~~~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~~~~~  563 (653)
                      +.+|++..+.+  |+  .+..+...+...|++++|...|+...... +.+...|..+..++...|++++|...|+...+.
T Consensus        13 ~~~~~~al~~~--p~--~~~~~g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l   87 (144)
T PRK15359         13 EDILKQLLSVD--PE--TVYASGYASWQEGDYSRAVIDFSWLVMAQ-PWSWRAHIALAGTWMMLKEYTTAINFYGHALML   87 (144)
T ss_pred             HHHHHHHHHcC--HH--HHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhc
Confidence            34555555433  44  35567778889999999999999988753 336778889999999999999999999988721


Q ss_pred             hhhCCCccCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCCHHhHHHHH
Q 048743          564 IESGVLAVSRDLYETLLLNFLQGGYFERVMEVIGYMKKQNMYVDKLMYKSEF  615 (653)
Q Consensus       564 ~~~~~~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~l~  615 (653)
                           -+.+...+..+..++.+.|++++|...|+...+  +.|+...|..+.
T Consensus        88 -----~p~~~~a~~~lg~~l~~~g~~~eAi~~~~~Al~--~~p~~~~~~~~~  132 (144)
T PRK15359         88 -----DASHPEPVYQTGVCLKMMGEPGLAREAFQTAIK--MSYADASWSEIR  132 (144)
T ss_pred             -----CCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHH--hCCCChHHHHHH
Confidence                 234677888899999999999999999999884  457766665444

>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD

Probab=97.49  E-value=0.0046  Score=52.31  Aligned_cols=110  Identities=11%  Similarity=0.046  Sum_probs=87.0

Q ss_pred             CHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHHhhhCCCccCHHHHH
Q 048743          498 TIYKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRPTVETFYYLVYGHSSLEMYRDITILWGDIKRNIESGVLAVSRDLYE  577 (653)
Q Consensus       498 ~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~p~~~~y~  577 (653)
                      +......+...+...|++++|.+.|+.....+ +.+...+..+...+...|++++|..+++...+.     .+.+...+.
T Consensus        16 ~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~-----~p~~~~~~~   89 (135)
T TIGR02552        16 QLEQIYALAYNLYQQGRYDEALKLFQLLAAYD-PYNSRYWLGLAACCQMLKEYEEAIDAYALAAAL-----DPDDPRPYF   89 (135)
T ss_pred             hHHHHHHHHHHHHHcccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc-----CCCChHHHH
Confidence            44556777788889999999999999988754 336677888888999999999999999877522     234567777


Q ss_pred             HHHHHHHhCCCHHHHHHHHHHHHhCCCCCCHHhHHHHH
Q 048743          578 TLLLNFLQGGYFERVMEVIGYMKKQNMYVDKLMYKSEF  615 (653)
Q Consensus       578 ~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~l~  615 (653)
                      .+...+...|++++|.+.|++..+.  .|+...+.-+.
T Consensus        90 ~la~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~~  125 (135)
T TIGR02552        90 HAAECLLALGEPESALKALDLAIEI--CGENPEYSELK  125 (135)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHh--ccccchHHHHH
Confidence            7888999999999999999988854  47766655444

ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.48  E-value=0.076  Score=48.16  Aligned_cols=81  Identities=9%  Similarity=-0.026  Sum_probs=35.5

Q ss_pred             CCHHHHHHHHHHHHHccCCC-CHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCCHHHHHHH
Q 048743          478 DKSDLAESLIQEMREEAALS-TIYKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRPTVETFYYLVYGHSSLEMYRDITIL  556 (653)
Q Consensus       478 ~~~~~a~~~~~~m~~~~~~p-~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~  556 (653)
                      |+.++|.++++.+.+.+  | |..+|--=+-..-..|+.-+|++-+.+..+. +.-|...|.-+-..|...|+++.|...
T Consensus       100 ~~~~~A~e~y~~lL~dd--pt~~v~~KRKlAilka~GK~l~aIk~ln~YL~~-F~~D~EAW~eLaeiY~~~~~f~kA~fC  176 (289)
T KOG3060|consen  100 GNYKEAIEYYESLLEDD--PTDTVIRKRKLAILKAQGKNLEAIKELNEYLDK-FMNDQEAWHELAEIYLSEGDFEKAAFC  176 (289)
T ss_pred             hchhhHHHHHHHHhccC--cchhHHHHHHHHHHHHcCCcHHHHHHHHHHHHH-hcCcHHHHHHHHHHHHhHhHHHHHHHH
Confidence            34444444444444333  2 3333333333333344444444444444332 333455555555555555555555555


Q ss_pred             HHHHH
Q 048743          557 WGDIK  561 (653)
Q Consensus       557 ~~~~~  561 (653)
                      ++++.
T Consensus       177 lEE~l  181 (289)
T KOG3060|consen  177 LEELL  181 (289)
T ss_pred             HHHHH
Confidence            55443

>PF09295 ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); InterPro: IPR015374 ChAPs (Chs5p-Arf1p-binding proteins) are required for the export of specialised cargo from the Golgi

Probab=97.48  E-value=0.0037  Score=62.33  Aligned_cols=114  Identities=14%  Similarity=0.078  Sum_probs=93.4

Q ss_pred             ccCCHHHHHHHHHHHHHccCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCCHHHHHH
Q 048743          476 LMDKSDLAESLIQEMREEAALSTIYKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRPTVETFYYLVYGHSSLEMYRDITI  555 (653)
Q Consensus       476 ~~~~~~~a~~~~~~m~~~~~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~  555 (653)
                      ..++++.|..+|+++.+..  |++.  -.+++.+...++-.+|.+++++..... +-+...+..-..-|...++.+.|..
T Consensus       181 ~t~~~~~ai~lle~L~~~~--pev~--~~LA~v~l~~~~E~~AI~ll~~aL~~~-p~d~~LL~~Qa~fLl~k~~~~lAL~  255 (395)
T PF09295_consen  181 LTQRYDEAIELLEKLRERD--PEVA--VLLARVYLLMNEEVEAIRLLNEALKEN-PQDSELLNLQAEFLLSKKKYELALE  255 (395)
T ss_pred             hcccHHHHHHHHHHHHhcC--CcHH--HHHHHHHHhcCcHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcCCHHHHHH
Confidence            4678999999999999876  6544  458888888889999999999998652 2355556666667889999999999


Q ss_pred             HHHHHHHHhhhCCCcc-CHHHHHHHHHHHHhCCCHHHHHHHHHHHH
Q 048743          556 LWGDIKRNIESGVLAV-SRDLYETLLLNFLQGGYFERVMEVIGYMK  600 (653)
Q Consensus       556 ~~~~~~~~~~~~~~~p-~~~~y~~li~~~~~~g~~~~a~~~~~~m~  600 (653)
                      +.+.+.      ...| +..+|..|..+|...|++++|+..++.+.
T Consensus       256 iAk~av------~lsP~~f~~W~~La~~Yi~~~d~e~ALlaLNs~P  295 (395)
T PF09295_consen  256 IAKKAV------ELSPSEFETWYQLAECYIQLGDFENALLALNSCP  295 (395)
T ss_pred             HHHHHH------HhCchhHHHHHHHHHHHHhcCCHHHHHHHHhcCc
Confidence            998886      4555 45589999999999999999999999886

They physically interact with Chs3, Chs5 and the small GTPase Arf1, and they also form interactions with each other [].

>PF09295 ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); InterPro: IPR015374 ChAPs (Chs5p-Arf1p-binding proteins) are required for the export of specialised cargo from the Golgi

Probab=97.48  E-value=0.003  Score=63.00  Aligned_cols=125  Identities=20%  Similarity=0.101  Sum_probs=100.8

Q ss_pred             HHHHHHHHhhhccCCHHHHHHHHHHhcccCCCCCCchhhhcccccchhccCCCcccchhhhccchhhhHHHHHHhhhhhH
Q 048743          251 QFYESLLSLHFKFDDIDAAGELILDMNRYREPLPNPKLRQDAQKPYLISIGSPNLRCGLKLQIMPELLEKDSILKMEGKQ  330 (653)
Q Consensus       251 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  330 (653)
                      +.-.+|+..+...++++.|..+|+++.+                                                    
T Consensus       170 yLv~~Ll~~l~~t~~~~~ai~lle~L~~----------------------------------------------------  197 (395)
T PF09295_consen  170 YLVDTLLKYLSLTQRYDEAIELLEKLRE----------------------------------------------------  197 (395)
T ss_pred             HHHHHHHHHHhhcccHHHHHHHHHHHHh----------------------------------------------------
Confidence            3445666677778999999999999932                                                    


Q ss_pred             HHHHHhcCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCC
Q 048743          331 ELVLFRNGKLLHSNRAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAG  410 (653)
Q Consensus       331 ~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g  410 (653)
                               ..|+.  ...+...+...++-.+|.+++.+.....  |.+......-...|.+.++.+.|+.+.+++.+. 
T Consensus       198 ---------~~pev--~~~LA~v~l~~~~E~~AI~ll~~aL~~~--p~d~~LL~~Qa~fLl~k~~~~lAL~iAk~av~l-  263 (395)
T PF09295_consen  198 ---------RDPEV--AVLLARVYLLMNEEVEAIRLLNEALKEN--PQDSELLNLQAEFLLSKKKYELALEIAKKAVEL-  263 (395)
T ss_pred             ---------cCCcH--HHHHHHHHHhcCcHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHh-
Confidence                     12443  3457777878888899999999998776  667666777778899999999999999999885 


Q ss_pred             CCCC-HHHHHHHHHHHHHcCChHHHHHHHHHHH
Q 048743          411 HPMD-STTYKSLLTAYYKVKMFREAEALLKQMR  442 (653)
Q Consensus       411 ~~p~-~~~~~~li~~~~~~~~~~~a~~~~~~m~  442 (653)
                       .|+ ..+|..|..+|.+.|+++.|+..++.+-
T Consensus       264 -sP~~f~~W~~La~~Yi~~~d~e~ALlaLNs~P  295 (395)
T PF09295_consen  264 -SPSEFETWYQLAECYIQLGDFENALLALNSCP  295 (395)
T ss_pred             -CchhHHHHHHHHHHHHhcCCHHHHHHHHhcCc
Confidence             354 5599999999999999999999988765

They physically interact with Chs3, Chs5 and the small GTPase Arf1, and they also form interactions with each other [].

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=97.44  E-value=0.27  Score=53.41  Aligned_cols=183  Identities=13%  Similarity=-0.123  Sum_probs=109.6

Q ss_pred             chhHHHHHHHHhhhhcCCCC-chhHHHHHHHhhccCCcchhhhHHHHHHHHHhccCCchhHHHHHHHHHHHHhcCCCchH
Q 048743           34 QVGEAWETFNDFQRLHGIPE-RHVVNRFITDLCYSAEPHWLQKACDLVLKIQKGKADLLQLDLLAKLSLSLARAQMPVPA  112 (653)
Q Consensus        34 ~~~~A~~~~~~~~~~~~~~~-~~~~~~ll~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~t~~~li~~~~~~g~~~~a  112 (653)
                      +...|...|-...+.  .++ ...|..|-.-++...+   +.+|..-|.+...-++.  +..........|++..+++.|
T Consensus       473 ~~~~al~ali~alrl--d~~~apaf~~LG~iYrd~~D---m~RA~kCf~KAFeLDat--daeaaaa~adtyae~~~we~a  545 (1238)
T KOG1127|consen  473 NSALALHALIRALRL--DVSLAPAFAFLGQIYRDSDD---MKRAKKCFDKAFELDAT--DAEAAAASADTYAEESTWEEA  545 (1238)
T ss_pred             hHHHHHHHHHHHHhc--ccchhHHHHHHHHHHHHHHH---HHHHHHHHHHHhcCCch--hhhhHHHHHHHhhccccHHHH
Confidence            466666666555551  222 2367777777766554   78888888887554443  777888889999999999999


Q ss_pred             HHHHHHHHcCccCCCc-hhHHHHHHHHhhcccccccchHHHHHHHHHhhhhhhhhcCCccCCCCchhhHHHHHHHHHhcC
Q 048743          113 SMILRLMLGRENLPCS-DLLLLVFVHMVKTEIGTCLASNFLIQLCDVFLHLSAEKSNGAELIKPDTMIFNLVLHACVRFG  191 (653)
Q Consensus       113 ~~~~~~m~~~g~~p~~-~~~~~li~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~yn~li~~~~~~g  191 (653)
                      ..+.-.--+  ..|-. ..++.+     ..|+-.....+       ..+.+..++..+ +.-+.|...|..|..+|.+.|
T Consensus       546 ~~I~l~~~q--ka~a~~~k~nW~-----~rG~yyLea~n-------~h~aV~~fQsAL-R~dPkD~n~W~gLGeAY~~sG  610 (1238)
T KOG1127|consen  546 FEICLRAAQ--KAPAFACKENWV-----QRGPYYLEAHN-------LHGAVCEFQSAL-RTDPKDYNLWLGLGEAYPESG  610 (1238)
T ss_pred             HHHHHHHhh--hchHHHHHhhhh-----hccccccCccc-------hhhHHHHHHHHh-cCCchhHHHHHHHHHHHHhcC
Confidence            998322222  11111 112211     12211111111       111111111111 223457788999999999999


Q ss_pred             ChhhHHHHHHHHHhcCCCccHHHHHH--HHHHHHhcCChhhhHHHHHHhhhc
Q 048743          192 SSLKGQHIMELMSQTGVVADAHSIII--LAQIHEMNCQRDELKKFKCYIDQL  241 (653)
Q Consensus       192 ~~~~a~~l~~~m~~~g~~p~~~t~~~--ll~~~~~~g~~~~a~~~~~~~~~~  241 (653)
                      ++..|.++|.....  +.|+.. |..  ....-+..|...++...+..+...
T Consensus       611 ry~~AlKvF~kAs~--LrP~s~-y~~fk~A~~ecd~GkYkeald~l~~ii~~  659 (1238)
T KOG1127|consen  611 RYSHALKVFTKASL--LRPLSK-YGRFKEAVMECDNGKYKEALDALGLIIYA  659 (1238)
T ss_pred             ceehHHHhhhhhHh--cCcHhH-HHHHHHHHHHHHhhhHHHHHHHHHHHHHH
Confidence            99999999998775  356543 332  222345678899988888877664

>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD

Probab=97.43  E-value=0.0029  Score=53.59  Aligned_cols=106  Identities=14%  Similarity=0.003  Sum_probs=88.7

Q ss_pred             CCCCH-HHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHH
Q 048743          340 LLHSN-RAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTY  418 (653)
Q Consensus       340 ~~p~~-~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~  418 (653)
                      ..|+. .....+...+...|++++|...|+.....+  |.+...|..+...+.+.|+++.|..+++...+.+ +.+..++
T Consensus        12 ~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~--p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~   88 (135)
T TIGR02552        12 LDSEQLEQIYALAYNLYQQGRYDEALKLFQLLAAYD--PYNSRYWLGLAACCQMLKEYEEAIDAYALAAALD-PDDPRPY   88 (135)
T ss_pred             CChhhHHHHHHHHHHHHHcccHHHHHHHHHHHHHhC--CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC-CCChHHH
Confidence            44543 445677788889999999999999998877  7777889999999999999999999999988764 4467788


Q ss_pred             HHHHHHHHHcCChHHHHHHHHHHHHcCCccCc
Q 048743          419 KSLLTAYYKVKMFREAEALLKQMRKSCLVQNL  450 (653)
Q Consensus       419 ~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~  450 (653)
                      ..+-..+...|++++|...|+...+.  .|+.
T Consensus        89 ~~la~~~~~~g~~~~A~~~~~~al~~--~p~~  118 (135)
T TIGR02552        89 FHAAECLLALGEPESALKALDLAIEI--CGEN  118 (135)
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHh--cccc
Confidence            88888999999999999999998874  4553

ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.

>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]

Probab=97.41  E-value=0.18  Score=50.84  Aligned_cols=175  Identities=11%  Similarity=0.017  Sum_probs=125.9

Q ss_pred             hHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHHcCChHHHHHHH
Q 048743          360 NSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPM-DSTTYKSLLTAYYKVKMFREAEALL  438 (653)
Q Consensus       360 ~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p-~~~~~~~li~~~~~~~~~~~a~~~~  438 (653)
                      .+.....+.++...-...++.. |...|+.--+..-+..|..+|.+..+.+..+ ++..++++|.-||. ++.+-|..+|
T Consensus       347 ~~~~~~~~~~ll~~~~~~~tLv-~~~~mn~irR~eGlkaaR~iF~kaR~~~r~~hhVfVa~A~mEy~cs-kD~~~AfrIF  424 (656)
T KOG1914|consen  347 EKKVHEIYNKLLKIEDIDLTLV-YCQYMNFIRRAEGLKAARKIFKKAREDKRTRHHVFVAAALMEYYCS-KDKETAFRIF  424 (656)
T ss_pred             hhhhHHHHHHHHhhhccCCcee-hhHHHHHHHHhhhHHHHHHHHHHHhhccCCcchhhHHHHHHHHHhc-CChhHHHHHH
Confidence            5566667777666554556655 9999999999999999999999999988887 77788888877665 7789999999


Q ss_pred             HHHHHc-CCccCchhhHHHHhhHHHHhhhcccccccccccCCHHHHHHHHHHHHHccCCC--CHHHHHHHHHHHHcCCCH
Q 048743          439 KQMRKS-CLVQNLSCEMVVSERFSEVADKSASFTDTSSLMDKSDLAESLIQEMREEAALS--TIYKLNSSIYFFCKGKMI  515 (653)
Q Consensus       439 ~~m~~~-~~~p~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~p--~~~~y~~li~~~~~~g~~  515 (653)
                      +.-.+. |-.|-  +..-..              +.....++-..+..+|++....++.|  ...+|..+|+-=..-|++
T Consensus       425 eLGLkkf~d~p~--yv~~Yl--------------dfL~~lNdd~N~R~LFEr~l~s~l~~~ks~~Iw~r~l~yES~vGdL  488 (656)
T KOG1914|consen  425 ELGLKKFGDSPE--YVLKYL--------------DFLSHLNDDNNARALFERVLTSVLSADKSKEIWDRMLEYESNVGDL  488 (656)
T ss_pred             HHHHHhcCCChH--HHHHHH--------------HHHHHhCcchhHHHHHHHHHhccCChhhhHHHHHHHHHHHHhcccH
Confidence            876553 22222  111111              11234788899999999999986665  567899999999999999


Q ss_pred             HHHHHHHHHHHhc---CCCCCHHHHHHHHHHHhccCCHHH
Q 048743          516 GDALKIYRRMQEM---KIRPTVETFYYLVYGHSSLEMYRD  552 (653)
Q Consensus       516 ~~a~~~~~~m~~~---g~~p~~~t~~~li~~~~~~~~~~~  552 (653)
                      ..+.++-+++...   ...|...+-..+++-|.-.+....
T Consensus       489 ~si~~lekR~~~af~~~qe~~~~~~~~~v~RY~~~d~~~c  528 (656)
T KOG1914|consen  489 NSILKLEKRRFTAFPADQEYEGNETALFVDRYGILDLYPC  528 (656)
T ss_pred             HHHHHHHHHHHHhcchhhcCCCChHHHHHHHHhhcccccc
Confidence            9999998887652   123333334455666655554443

>KOG3081 consensus Vesicle coat complex COPI, epsilon subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=97.40  E-value=0.037  Score=50.49  Aligned_cols=122  Identities=15%  Similarity=0.057  Sum_probs=56.0

Q ss_pred             HHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCccCchhhHHHHhhHHHHhhh
Q 048743          387 IDALIQLGFLEAAHDILDDMELAGHPMDSTTYKSLLTAYYKVKMFREAEALLKQMRKSCLVQNLSCEMVVSERFSEVADK  466 (653)
Q Consensus       387 i~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~l~~~~~~  466 (653)
                      ...|++.|++++|++.....    -  +......=+..+.+..+.+-|.+.++.|.+-  .-|.+.+-+..+.+.-.   
T Consensus       115 a~i~~~~~~~deAl~~~~~~----~--~lE~~Al~VqI~lk~~r~d~A~~~lk~mq~i--ded~tLtQLA~awv~la---  183 (299)
T KOG3081|consen  115 AIIYMHDGDFDEALKALHLG----E--NLEAAALNVQILLKMHRFDLAEKELKKMQQI--DEDATLTQLAQAWVKLA---  183 (299)
T ss_pred             hHHhhcCCChHHHHHHHhcc----c--hHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc--chHHHHHHHHHHHHHHh---
Confidence            44556666777776666541    1  2222222234455666666666666666542  22211111111111111   


Q ss_pred             cccccccccccCCHHHHHHHHHHHHHccCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhc
Q 048743          467 SASFTDTSSLMDKSDLAESLIQEMREEAALSTIYKLNSSIYFFCKGKMIGDALKIYRRMQEM  528 (653)
Q Consensus       467 ~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~  528 (653)
                              ...+++..|.-+|++|.++ ..|+..+.|.+.-++...|++++|..++++...+
T Consensus       184 --------~ggek~qdAfyifeE~s~k-~~~T~~llnG~Av~~l~~~~~eeAe~lL~eaL~k  236 (299)
T KOG3081|consen  184 --------TGGEKIQDAFYIFEELSEK-TPPTPLLLNGQAVCHLQLGRYEEAESLLEEALDK  236 (299)
T ss_pred             --------ccchhhhhHHHHHHHHhcc-cCCChHHHccHHHHHHHhcCHHHHHHHHHHHHhc
Confidence                    1123344555555555542 1244455555555555555555555555555443

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.35  E-value=0.11  Score=47.14  Aligned_cols=84  Identities=15%  Similarity=0.103  Sum_probs=54.3

Q ss_pred             cCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHH
Q 048743          357 HGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTYKSLLTAYYKVKMFREAEA  436 (653)
Q Consensus       357 ~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~a~~  436 (653)
                      .|++++|.++++.+.+.+  |.|.++|--=+-..-..|+.-.|++-+.+..+. +..|...|.-+-..|...|++++|.-
T Consensus        99 ~~~~~~A~e~y~~lL~dd--pt~~v~~KRKlAilka~GK~l~aIk~ln~YL~~-F~~D~EAW~eLaeiY~~~~~f~kA~f  175 (289)
T KOG3060|consen   99 TGNYKEAIEYYESLLEDD--PTDTVIRKRKLAILKAQGKNLEAIKELNEYLDK-FMNDQEAWHELAEIYLSEGDFEKAAF  175 (289)
T ss_pred             hhchhhHHHHHHHHhccC--cchhHHHHHHHHHHHHcCCcHHHHHHHHHHHHH-hcCcHHHHHHHHHHHHhHhHHHHHHH
Confidence            456666777777666666  666665665555555566666666666666654 45566777777777777777777766


Q ss_pred             HHHHHHH
Q 048743          437 LLKQMRK  443 (653)
Q Consensus       437 ~~~~m~~  443 (653)
                      -++++.=
T Consensus       176 ClEE~ll  182 (289)
T KOG3060|consen  176 CLEELLL  182 (289)
T ss_pred             HHHHHHH
Confidence            6666654

>COG4783 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]

Probab=97.32  E-value=0.21  Score=49.82  Aligned_cols=183  Identities=15%  Similarity=0.015  Sum_probs=129.5

Q ss_pred             CCchhhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCccHHHHHHHHHHHHhcCChhhhHHHHHHhhhcCCCcccchhHHH
Q 048743          174 KPDTMIFNLVLHACVRFGSSLKGQHIMELMSQTGVVADAHSIIILAQIHEMNCQRDELKKFKCYIDQLSTPFAHHYQQFY  253 (653)
Q Consensus       174 ~~~~~~yn~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~  253 (653)
                      .|+...+...+.+......-..+..++-+-.+.  .-...-|...+..+ ..|+.+.|+..++.+....+.    +...+
T Consensus       271 ~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~--~~~aa~YG~A~~~~-~~~~~d~A~~~l~~L~~~~P~----N~~~~  343 (484)
T COG4783         271 SPDFQLARARIRAKYEALPNQQAADLLAKRSKR--GGLAAQYGRALQTY-LAGQYDEALKLLQPLIAAQPD----NPYYL  343 (484)
T ss_pred             CccHHHHHHHHHHHhccccccchHHHHHHHhCc--cchHHHHHHHHHHH-HhcccchHHHHHHHHHHhCCC----CHHHH
Confidence            455666667776655544444444443333321  11223355555544 468899999888887665332    23456


Q ss_pred             HHHHHhhhccCCHHHHHHHHHHhcccCCCCCCchhhhcccccchhccCCCcccchhhhccchhhhHHHHHHhhhhhHHHH
Q 048743          254 ESLLSLHFKFDDIDAAGELILDMNRYREPLPNPKLRQDAQKPYLISIGSPNLRCGLKLQIMPELLEKDSILKMEGKQELV  333 (653)
Q Consensus       254 ~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  333 (653)
                      ....+.+.+.++.++|.+.++++..                                                       
T Consensus       344 ~~~~~i~~~~nk~~~A~e~~~kal~-------------------------------------------------------  368 (484)
T COG4783         344 ELAGDILLEANKAKEAIERLKKALA-------------------------------------------------------  368 (484)
T ss_pred             HHHHHHHHHcCChHHHHHHHHHHHh-------------------------------------------------------
Confidence            7778889999999999999998832                                                       


Q ss_pred             HHhcCCCCCC-HHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCC
Q 048743          334 LFRNGKLLHS-NRAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHP  412 (653)
Q Consensus       334 ~~~~~~~~p~-~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~  412 (653)
                            ..|+ ....-.+-.++.+.|+..+|++++.......  |.++..|..|-.+|...|+..++..-..+       
T Consensus       369 ------l~P~~~~l~~~~a~all~~g~~~eai~~L~~~~~~~--p~dp~~w~~LAqay~~~g~~~~a~~A~AE-------  433 (484)
T COG4783         369 ------LDPNSPLLQLNLAQALLKGGKPQEAIRILNRYLFND--PEDPNGWDLLAQAYAELGNRAEALLARAE-------  433 (484)
T ss_pred             ------cCCCccHHHHHHHHHHHhcCChHHHHHHHHHHhhcC--CCCchHHHHHHHHHHHhCchHHHHHHHHH-------
Confidence                  3354 2344567788899999999999999988887  88888899999999999999888776654       


Q ss_pred             CCHHHHHHHHHHHHHcCChHHHHHHHHHHHHc
Q 048743          413 MDSTTYKSLLTAYYKVKMFREAEALLKQMRKS  444 (653)
Q Consensus       413 p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  444 (653)
                                 +|.-.|++++|...+....+.
T Consensus       434 -----------~~~~~G~~~~A~~~l~~A~~~  454 (484)
T COG4783         434 -----------GYALAGRLEQAIIFLMRASQQ  454 (484)
T ss_pred             -----------HHHhCCCHHHHHHHHHHHHHh
Confidence                       566778899998888887764

>COG4783 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]

Probab=97.27  E-value=0.027  Score=55.98  Aligned_cols=137  Identities=13%  Similarity=0.052  Sum_probs=76.9

Q ss_pred             HHHcCChHHHHHHHHHHHHcCCccCc-hhhHHHHhhHHHHhhhcccccccccccCCHHHHHHHHHHHHHccCCCC-HHHH
Q 048743          425 YYKVKMFREAEALLKQMRKSCLVQNL-SCEMVVSERFSEVADKSASFTDTSSLMDKSDLAESLIQEMREEAALST-IYKL  502 (653)
Q Consensus       425 ~~~~~~~~~a~~~~~~m~~~~~~p~~-~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~p~-~~~y  502 (653)
                      +...|.+++|+..+..+.+.  .|+. ++.....              +.+.+.++..+|.+.++++....  |+ ...+
T Consensus       316 ~~~~~~~d~A~~~l~~L~~~--~P~N~~~~~~~~--------------~i~~~~nk~~~A~e~~~kal~l~--P~~~~l~  377 (484)
T COG4783         316 TYLAGQYDEALKLLQPLIAA--QPDNPYYLELAG--------------DILLEANKAKEAIERLKKALALD--PNSPLLQ  377 (484)
T ss_pred             HHHhcccchHHHHHHHHHHh--CCCCHHHHHHHH--------------HHHHHcCChHHHHHHHHHHHhcC--CCccHHH
Confidence            44556677777777766653  4544 2111111              22334666666666666666544  43 3444


Q ss_pred             HHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHHhhhCCCccCHHHHHHHHHH
Q 048743          503 NSSIYFFCKGKMIGDALKIYRRMQEMKIRPTVETFYYLVYGHSSLEMYRDITILWGDIKRNIESGVLAVSRDLYETLLLN  582 (653)
Q Consensus       503 ~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~p~~~~y~~li~~  582 (653)
                      -.+-.+|.+.|++.+|+.++++-... .+-|...|..|-++|...|+..++..-..                      .+
T Consensus       378 ~~~a~all~~g~~~eai~~L~~~~~~-~p~dp~~w~~LAqay~~~g~~~~a~~A~A----------------------E~  434 (484)
T COG4783         378 LNLAQALLKGGKPQEAIRILNRYLFN-DPEDPNGWDLLAQAYAELGNRAEALLARA----------------------EG  434 (484)
T ss_pred             HHHHHHHHhcCChHHHHHHHHHHhhc-CCCCchHHHHHHHHHHHhCchHHHHHHHH----------------------HH
Confidence            55556666666666666666665543 23356666666666666666665544331                      23


Q ss_pred             HHhCCCHHHHHHHHHHHHhC
Q 048743          583 FLQGGYFERVMEVIGYMKKQ  602 (653)
Q Consensus       583 ~~~~g~~~~a~~~~~~m~~~  602 (653)
                      |...|+++.|...+....+.
T Consensus       435 ~~~~G~~~~A~~~l~~A~~~  454 (484)
T COG4783         435 YALAGRLEQAIIFLMRASQQ  454 (484)
T ss_pred             HHhCCCHHHHHHHHHHHHHh
Confidence            45566666666666666544

>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function

Probab=97.26  E-value=0.0099  Score=50.95  Aligned_cols=115  Identities=10%  Similarity=-0.033  Sum_probs=84.1

Q ss_pred             cCCHHHHHHHHHHHHHccCCCCH----HHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCH--HHHHHHHHHHhccCCH
Q 048743          477 MDKSDLAESLIQEMREEAALSTI----YKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRPTV--ETFYYLVYGHSSLEMY  550 (653)
Q Consensus       477 ~~~~~~a~~~~~~m~~~~~~p~~----~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~--~t~~~li~~~~~~~~~  550 (653)
                      .++...+...++.+.+..  |+.    ...-.+...+...|++++|...|+........|+.  .....|...+...|++
T Consensus        24 ~~~~~~~~~~~~~l~~~~--~~s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~~~d~~l~~~a~l~LA~~~~~~~~~  101 (145)
T PF09976_consen   24 AGDPAKAEAAAEQLAKDY--PSSPYAALAALQLAKAAYEQGDYDEAKAALEKALANAPDPELKPLARLRLARILLQQGQY  101 (145)
T ss_pred             CCCHHHHHHHHHHHHHHC--CCChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCH
Confidence            578888888888888765  432    22333557778899999999999999987633332  2444567788899999


Q ss_pred             HHHHHHHHHHHHHhhhCCCccCHHHHHHHHHHHHhCCCHHHHHHHHHHH
Q 048743          551 RDITILWGDIKRNIESGVLAVSRDLYETLLLNFLQGGYFERVMEVIGYM  599 (653)
Q Consensus       551 ~~a~~~~~~~~~~~~~~~~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m  599 (653)
                      ++|+..++...      +-......+...-+.|.+.|++++|...|+..
T Consensus       102 d~Al~~L~~~~------~~~~~~~~~~~~Gdi~~~~g~~~~A~~~y~~A  144 (145)
T PF09976_consen  102 DEALATLQQIP------DEAFKALAAELLGDIYLAQGDYDEARAAYQKA  144 (145)
T ss_pred             HHHHHHHHhcc------CcchHHHHHHHHHHHHHHCCCHHHHHHHHHHh
Confidence            99999986532      22234456667788899999999999998753

>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function

Probab=97.26  E-value=0.014  Score=50.03  Aligned_cols=94  Identities=15%  Similarity=0.065  Sum_probs=48.9

Q ss_pred             hhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCccH-HH---HHHHHHHHHhcCChhhhHHHHHHhhhcCCCcccchhHHH
Q 048743          178 MIFNLVLHACVRFGSSLKGQHIMELMSQTGVVADA-HS---IIILAQIHEMNCQRDELKKFKCYIDQLSTPFAHHYQQFY  253 (653)
Q Consensus       178 ~~yn~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~-~t---~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~  253 (653)
                      ..|..++..+ ..++...+.+.++.+.+..  |+. ..   .-.+...+...|++++|...|+.+.... ++........
T Consensus        13 ~~y~~~~~~~-~~~~~~~~~~~~~~l~~~~--~~s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~~-~d~~l~~~a~   88 (145)
T PF09976_consen   13 ALYEQALQAL-QAGDPAKAEAAAEQLAKDY--PSSPYAALAALQLAKAAYEQGDYDEAKAALEKALANA-PDPELKPLAR   88 (145)
T ss_pred             HHHHHHHHHH-HCCCHHHHHHHHHHHHHHC--CCChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhC-CCHHHHHHHH
Confidence            3455666665 3777777777777777652  333 22   2234455555666666666666555543 1111111223


Q ss_pred             HHHHHhhhccCCHHHHHHHHHH
Q 048743          254 ESLLSLHFKFDDIDAAGELILD  275 (653)
Q Consensus       254 ~~li~~~~~~g~~~~A~~~~~~  275 (653)
                      -.|...+...|++++|+..++.
T Consensus        89 l~LA~~~~~~~~~d~Al~~L~~  110 (145)
T PF09976_consen   89 LRLARILLQQGQYDEALATLQQ  110 (145)
T ss_pred             HHHHHHHHHcCCHHHHHHHHHh
Confidence            3344555555555555555544

>KOG0624 consensus dsRNA-activated protein kinase inhibitor P58, contains TPR and DnaJ domains [Defense mechanisms]

Probab=97.25  E-value=0.19  Score=47.66  Aligned_cols=204  Identities=10%  Similarity=-0.055  Sum_probs=124.9

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHH-HHHHHH
Q 048743          348 AKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTYKS-LLTAYY  426 (653)
Q Consensus       348 ~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~-li~~~~  426 (653)
                      .-+-+.+.-.|++..|+.-|....+-+  |.+-.++---...|...|+-..|+.=|.+..+.  +||-..-.. --..+.
T Consensus        42 lElGk~lla~~Q~sDALt~yHaAve~d--p~~Y~aifrRaT~yLAmGksk~al~Dl~rVlel--KpDF~~ARiQRg~vll  117 (504)
T KOG0624|consen   42 LELGKELLARGQLSDALTHYHAAVEGD--PNNYQAIFRRATVYLAMGKSKAALQDLSRVLEL--KPDFMAARIQRGVVLL  117 (504)
T ss_pred             HHHHHHHHHhhhHHHHHHHHHHHHcCC--chhHHHHHHHHHHHhhhcCCccchhhHHHHHhc--CccHHHHHHHhchhhh
Confidence            466777888899999999999887765  544333334456677778877888778777764  566443221 223578


Q ss_pred             HcCChHHHHHHHHHHHHcCCccCc--hhhHHHHhhHHHHhhhcccccccccccCCHHHHHHHHHHHHHccCCCCHHHHHH
Q 048743          427 KVKMFREAEALLKQMRKSCLVQNL--SCEMVVSERFSEVADKSASFTDTSSLMDKSDLAESLIQEMREEAALSTIYKLNS  504 (653)
Q Consensus       427 ~~~~~~~a~~~~~~m~~~~~~p~~--~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~y~~  504 (653)
                      +.|++++|..=|+...+..  |+.  ....-....+..-...-...+..+...|+...|+..+..+.+-.. .|...|-.
T Consensus       118 K~Gele~A~~DF~~vl~~~--~s~~~~~eaqskl~~~~e~~~l~~ql~s~~~~GD~~~ai~~i~~llEi~~-Wda~l~~~  194 (504)
T KOG0624|consen  118 KQGELEQAEADFDQVLQHE--PSNGLVLEAQSKLALIQEHWVLVQQLKSASGSGDCQNAIEMITHLLEIQP-WDASLRQA  194 (504)
T ss_pred             hcccHHHHHHHHHHHHhcC--CCcchhHHHHHHHHhHHHHHHHHHHHHHHhcCCchhhHHHHHHHHHhcCc-chhHHHHH
Confidence            9999999999999998753  432  111111111100000000112234457888999999988887542 38888888


Q ss_pred             HHHHHHcCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHH
Q 048743          505 SIYFFCKGKMIGDALKIYRRMQEMKIRPTVETFYYLVYGHSSLEMYRDITILWGD  559 (653)
Q Consensus       505 li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~  559 (653)
                      -..+|...|++..|+.=++...+.. .-|..++--+-..+...|+.+.++...++
T Consensus       195 Rakc~i~~~e~k~AI~Dlk~askLs-~DnTe~~ykis~L~Y~vgd~~~sL~~iRE  248 (504)
T KOG0624|consen  195 RAKCYIAEGEPKKAIHDLKQASKLS-QDNTEGHYKISQLLYTVGDAENSLKEIRE  248 (504)
T ss_pred             HHHHHHhcCcHHHHHHHHHHHHhcc-ccchHHHHHHHHHHHhhhhHHHHHHHHHH
Confidence            8888889998888876555443321 22334444444555566666555544443

>cd00189 TPR Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]-X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi, plants, and humans in various subcellular locations; involved in a variety of functions including protein-protein interactions, but common features in the interaction partners have not been defined; involved in chaperone, cell-cycle, transciption, and protein transport complexes; the number of TPR motifs varies among proteins (1,3-11,13 15,16,19); 5-6 tandem repeats generate a right-handed helical structure with an amphipathic channel that is thought to accomodate an alpha-helix of a target protein; it has been proposed that TPR proteins preferably interact with WD-40 repeat proteins, but in many instances several TPR-proteins seem to aggregate to multi-protein complexes; examples of TPR-proteins include, Cdc16p, Cdc23p and C

Probab=97.18  E-value=0.0061  Score=47.29  Aligned_cols=94  Identities=21%  Similarity=0.190  Sum_probs=78.9

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 048743          347 MAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTYKSLLTAYY  426 (653)
Q Consensus       347 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~  426 (653)
                      +..+...+...|++++|...+++..+..  +.+...+..+...+...+++++|.+.|+...+.. +.+..++..+...+.
T Consensus         3 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~   79 (100)
T cd00189           3 LLNLGNLYYKLGDYDEALEYYEKALELD--PDNADAYYNLAAAYYKLGKYEEALEDYEKALELD-PDNAKAYYNLGLAYY   79 (100)
T ss_pred             HHHHHHHHHHHhcHHHHHHHHHHHHhcC--CccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCC-CcchhHHHHHHHHHH
Confidence            4566777888999999999999998776  5555668888999999999999999999988764 335568888889999


Q ss_pred             HcCChHHHHHHHHHHHH
Q 048743          427 KVKMFREAEALLKQMRK  443 (653)
Q Consensus       427 ~~~~~~~a~~~~~~m~~  443 (653)
                      ..|++++|...+....+
T Consensus        80 ~~~~~~~a~~~~~~~~~   96 (100)
T cd00189          80 KLGKYEEALEAYEKALE   96 (100)
T ss_pred             HHHhHHHHHHHHHHHHc
Confidence            99999999999988765

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=97.18  E-value=0.15  Score=47.89  Aligned_cols=179  Identities=11%  Similarity=-0.003  Sum_probs=97.2

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccH---HHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 048743          347 MAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLC---SDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTYKSLLT  423 (653)
Q Consensus       347 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~---~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~  423 (653)
                      +-.....+.+.|++++|.+.|+++....  |.+....   -.+..++.+.++++.|...+++..+....-....|...+.
T Consensus        35 ~Y~~A~~~~~~g~y~~Ai~~f~~l~~~y--P~s~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~~P~~~~~~~a~Y~~  112 (243)
T PRK10866         35 IYATAQQKLQDGNWKQAITQLEALDNRY--PFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVLYMR  112 (243)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhC--CCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCcCCCchHHHHHHH
Confidence            3344455566888888888888888766  4443322   3456777888888888888888877543333334444444


Q ss_pred             HHHH--cC---------------C---hHHHHHHHHHHHHcCCccCchhhHHHHhhHHHHhhhcccccccccccCCHHHH
Q 048743          424 AYYK--VK---------------M---FREAEALLKQMRKSCLVQNLSCEMVVSERFSEVADKSASFTDTSSLMDKSDLA  483 (653)
Q Consensus       424 ~~~~--~~---------------~---~~~a~~~~~~m~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~a  483 (653)
                      |.+.  .+               +   ..+|...|+++.+.  -|+.                           .-..+|
T Consensus       113 g~~~~~~~~~~~~~~~~~~~~~rD~~~~~~A~~~~~~li~~--yP~S---------------------------~ya~~A  163 (243)
T PRK10866        113 GLTNMALDDSALQGFFGVDRSDRDPQHARAAFRDFSKLVRG--YPNS---------------------------QYTTDA  163 (243)
T ss_pred             HHhhhhcchhhhhhccCCCccccCHHHHHHHHHHHHHHHHH--CcCC---------------------------hhHHHH
Confidence            4432  11               1   12344445555442  2432                           122223


Q ss_pred             HHHHHHHHHccCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhc--CCCCCHHHHHHHHHHHhccCCHHHHHHHHHHH
Q 048743          484 ESLIQEMREEAALSTIYKLNSSIYFFCKGKMIGDALKIYRRMQEM--KIRPTVETFYYLVYGHSSLEMYRDITILWGDI  560 (653)
Q Consensus       484 ~~~~~~m~~~~~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~--g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~~  560 (653)
                      ...+..+.+.=    ...--.+.+-|.+.|.+..|..-++.+.+.  +.+........++.+|...|..++|..+...+
T Consensus       164 ~~rl~~l~~~l----a~~e~~ia~~Y~~~~~y~AA~~r~~~v~~~Yp~t~~~~eal~~l~~ay~~lg~~~~a~~~~~~l  238 (243)
T PRK10866        164 TKRLVFLKDRL----AKYELSVAEYYTKRGAYVAVVNRVEQMLRDYPDTQATRDALPLMENAYRQLQLNAQADKVAKII  238 (243)
T ss_pred             HHHHHHHHHHH----HHHHHHHHHHHHHcCchHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHcCChHHHHHHHHHH
Confidence            22222222110    000113445566777777777777777652  33334445556667777777777776665443

>PF06239 ECSIT: Evolutionarily conserved signalling intermediate in Toll pathway; InterPro: IPR010418 Activation of NF-kappaB as a consequence of signalling through the Toll and IL-1 receptors is a major element of innate immune responses

Probab=97.17  E-value=0.0044  Score=54.85  Aligned_cols=91  Identities=16%  Similarity=0.153  Sum_probs=76.8

Q ss_pred             CCCCCHHHHHHHHHHHHh-----cCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcC----------------CHH
Q 048743          339 KLLHSNRAMAKLINGYKK-----HGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLG----------------FLE  397 (653)
Q Consensus       339 ~~~p~~~~~~~li~~~~~-----~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g----------------~~~  397 (653)
                      +-..+-.+|..+++.|.+     .|..+=....++.|.+-| +..|..+|+.|++.+=+..                +-+
T Consensus        42 ~~~k~K~~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~efg-v~kDL~~Y~~LLDvFPKg~fvp~n~fQ~~F~hyp~Qq~  120 (228)
T PF06239_consen   42 GQAKDKATFLEAVDIFKQRDVRRRGHVEFIYAALKKMDEFG-VEKDLEVYKALLDVFPKGKFVPRNFFQAEFMHYPRQQE  120 (228)
T ss_pred             hccccHHHHHHHHHHHHhcCCCCcChHHHHHHHHHHHHHcC-CcccHHHHHHHHHhCCCCCcccccHHHHHhccCcHHHH
Confidence            345677899999999984     477888888889999988 7888899999999887632                346


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCC
Q 048743          398 AAHDILDDMELAGHPMDSTTYKSLLTAYYKVKM  430 (653)
Q Consensus       398 ~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~  430 (653)
                      -|++++++|...|+.||..|+..|++.+++.+.
T Consensus       121 c~i~lL~qME~~gV~Pd~Et~~~ll~iFG~~s~  153 (228)
T PF06239_consen  121 CAIDLLEQMENNGVMPDKETEQMLLNIFGRKSH  153 (228)
T ss_pred             HHHHHHHHHHHcCCCCcHHHHHHHHHHhccccH
Confidence            799999999999999999999999999977764

ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signalling pathways between TRAF-6 and MEKK-1 [].

>KOG3081 consensus Vesicle coat complex COPI, epsilon subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=97.12  E-value=0.21  Score=45.79  Aligned_cols=84  Identities=18%  Similarity=0.167  Sum_probs=50.5

Q ss_pred             cCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHH-HH
Q 048743          357 HGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTYKSLLTAYYKVKMFRE-AE  435 (653)
Q Consensus       357 ~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~-a~  435 (653)
                      .+...+|.-+|++|..+-  +|+.-+.+-...++...|++++|..++++..++.. -++.|...+|.+-...|...+ ..
T Consensus       186 gek~qdAfyifeE~s~k~--~~T~~llnG~Av~~l~~~~~eeAe~lL~eaL~kd~-~dpetL~Nliv~a~~~Gkd~~~~~  262 (299)
T KOG3081|consen  186 GEKIQDAFYIFEELSEKT--PPTPLLLNGQAVCHLQLGRYEEAESLLEEALDKDA-KDPETLANLIVLALHLGKDAEVTE  262 (299)
T ss_pred             chhhhhHHHHHHHHhccc--CCChHHHccHHHHHHHhcCHHHHHHHHHHHHhccC-CCHHHHHHHHHHHHHhCCChHHHH
Confidence            445667777777776654  55555566666666677777777777777766533 255566555555555554433 34


Q ss_pred             HHHHHHHH
Q 048743          436 ALLKQMRK  443 (653)
Q Consensus       436 ~~~~~m~~  443 (653)
                      +.+..++.
T Consensus       263 r~l~QLk~  270 (299)
T KOG3081|consen  263 RNLSQLKL  270 (299)
T ss_pred             HHHHHHHh
Confidence            45555544

>PF06239 ECSIT: Evolutionarily conserved signalling intermediate in Toll pathway; InterPro: IPR010418 Activation of NF-kappaB as a consequence of signalling through the Toll and IL-1 receptors is a major element of innate immune responses

Probab=97.11  E-value=0.013  Score=51.98  Aligned_cols=103  Identities=17%  Similarity=0.235  Sum_probs=73.8

Q ss_pred             CcccHHHHHHHHHH-----cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCccCchhh
Q 048743          379 ESTLCSDVIDALIQ-----LGFLEAAHDILDDMELAGHPMDSTTYKSLLTAYYKVKMFREAEALLKQMRKSCLVQNLSCE  453 (653)
Q Consensus       379 ~~~~~~~li~~~~~-----~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~  453 (653)
                      +..+|..+++.|.+     .|.++-....+..|.+-|+.-|..+|+.|++.+=+ |.+- -..+|+.+.-.         
T Consensus        46 ~K~~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPK-g~fv-p~n~fQ~~F~h---------  114 (228)
T PF06239_consen   46 DKATFLEAVDIFKQRDVRRRGHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPK-GKFV-PRNFFQAEFMH---------  114 (228)
T ss_pred             cHHHHHHHHHHHHhcCCCCcChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCC-CCcc-cccHHHHHhcc---------
Confidence            33446666666664     48899999999999999999999999999999876 4322 11222222110         


Q ss_pred             HHHHhhHHHHhhhcccccccccccCCHHHHHHHHHHHHHccCCCCHHHHHHHHHHHHcCCC
Q 048743          454 MVVSERFSEVADKSASFTDTSSLMDKSDLAESLIQEMREEAALSTIYKLNSSIYFFCKGKM  514 (653)
Q Consensus       454 ~~~~~~l~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~y~~li~~~~~~g~  514 (653)
                                            ...+-+-|.+++++|...|+.||..++..+++.+.+.+.
T Consensus       115 ----------------------yp~Qq~c~i~lL~qME~~gV~Pd~Et~~~ll~iFG~~s~  153 (228)
T PF06239_consen  115 ----------------------YPRQQECAIDLLEQMENNGVMPDKETEQMLLNIFGRKSH  153 (228)
T ss_pred             ----------------------CcHHHHHHHHHHHHHHHcCCCCcHHHHHHHHHHhccccH
Confidence                                  123556688888888888888888888888888877764

ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signalling pathways between TRAF-6 and MEKK-1 [].

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=97.10  E-value=0.014  Score=47.92  Aligned_cols=97  Identities=13%  Similarity=-0.054  Sum_probs=79.5

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCC---cccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCC--CCHHHHHH
Q 048743          346 AMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGE---STLCSDVIDALIQLGFLEAAHDILDDMELAGHP--MDSTTYKS  420 (653)
Q Consensus       346 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~---~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~--p~~~~~~~  420 (653)
                      ++..+...+.+.|++++|.+.|..+....  +.+   ...+..+...+.+.|+++.|...|+.+......  .....+..
T Consensus         4 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~   81 (119)
T TIGR02795         4 AYYDAALLVLKAGDYADAIQAFQAFLKKY--PKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLK   81 (119)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHC--CCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHH
Confidence            56677888899999999999999998765  333   234677899999999999999999999764321  22456778


Q ss_pred             HHHHHHHcCChHHHHHHHHHHHHc
Q 048743          421 LLTAYYKVKMFREAEALLKQMRKS  444 (653)
Q Consensus       421 li~~~~~~~~~~~a~~~~~~m~~~  444 (653)
                      +..++.+.|++++|...++++.+.
T Consensus        82 ~~~~~~~~~~~~~A~~~~~~~~~~  105 (119)
T TIGR02795        82 LGMSLQELGDKEKAKATLQQVIKR  105 (119)
T ss_pred             HHHHHHHhCChHHHHHHHHHHHHH
Confidence            888899999999999999999886

Members of this protein family are the product of one of seven genes regularly clustered in operons to encode the proteins of the tol-pal system, which is critical for maintaining the integrity of the bacterial outer membrane. The gene for this periplasmic protein has been designated orf2 and ybgF. All members of the seed alignment were from unique tol-pal gene regions from completed bacterial genomes. The architecture of this protein is a signal sequence, a low-complexity region usually rich in Asn and Gln, a well-conserved region with tandem repeats that resemble the tetratricopeptide (TPR) repeat, involved in protein-protein interaction.

>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]

Probab=97.09  E-value=0.4  Score=48.51  Aligned_cols=184  Identities=12%  Similarity=0.123  Sum_probs=124.4

Q ss_pred             HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHc---CChHHHHHHHHHHHH-cCCccCchhhHHHHhhHHHHhhhccccc
Q 048743          396 LEAAHDILDDMELAGHPMDSTTYKSLLTAYYKV---KMFREAEALLKQMRK-SCLVQNLSCEMVVSERFSEVADKSASFT  471 (653)
Q Consensus       396 ~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~---~~~~~a~~~~~~m~~-~~~~p~~~~~~~~~~~l~~~~~~~~~~~  471 (653)
                      .+++.++++...+.-..-+..+|..+.+---..   ...+..-..++++.. ..+.|+..+-..+.     ..       
T Consensus       309 t~e~~~~yEr~I~~l~~~~~~Ly~~~a~~eE~~~~~n~~~~~~~~~~~ll~~~~~~~tLv~~~~mn-----~i-------  376 (656)
T KOG1914|consen  309 TDEAASIYERAIEGLLKENKLLYFALADYEESRYDDNKEKKVHEIYNKLLKIEDIDLTLVYCQYMN-----FI-------  376 (656)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHhcccchhhhhHHHHHHHHhhhccCCceehhHHHH-----HH-------
Confidence            455666666655433333444554443321111   125555666666654 23455542111111     11       


Q ss_pred             ccccccCCHHHHHHHHHHHHHccCCC-CHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCHHHH-HHHHHHHhccCC
Q 048743          472 DTSSLMDKSDLAESLIQEMREEAALS-TIYKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRPTVETF-YYLVYGHSSLEM  549 (653)
Q Consensus       472 ~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~-~~li~~~~~~~~  549 (653)
                         -+...+..|..+|.+..+.+..+ ++++++++|.-|| .++.+-|.++|+--...  -+|...| ...+.-+...++
T Consensus       377 ---rR~eGlkaaR~iF~kaR~~~r~~hhVfVa~A~mEy~c-skD~~~AfrIFeLGLkk--f~d~p~yv~~YldfL~~lNd  450 (656)
T KOG1914|consen  377 ---RRAEGLKAARKIFKKAREDKRTRHHVFVAAALMEYYC-SKDKETAFRIFELGLKK--FGDSPEYVLKYLDFLSHLND  450 (656)
T ss_pred             ---HHhhhHHHHHHHHHHHhhccCCcchhhHHHHHHHHHh-cCChhHHHHHHHHHHHh--cCCChHHHHHHHHHHHHhCc
Confidence               13667899999999999998888 9999999999888 67779999999976653  3344443 467778889999


Q ss_pred             HHHHHHHHHHHHHHhhhCCCcc--CHHHHHHHHHHHHhCCCHHHHHHHHHHHHh
Q 048743          550 YRDITILWGDIKRNIESGVLAV--SRDLYETLLLNFLQGGYFERVMEVIGYMKK  601 (653)
Q Consensus       550 ~~~a~~~~~~~~~~~~~~~~~p--~~~~y~~li~~~~~~g~~~~a~~~~~~m~~  601 (653)
                      -..+..+|+....   + ++.|  ....|..+|.-=..-|+...+.++-+++..
T Consensus       451 d~N~R~LFEr~l~---s-~l~~~ks~~Iw~r~l~yES~vGdL~si~~lekR~~~  500 (656)
T KOG1914|consen  451 DNNARALFERVLT---S-VLSADKSKEIWDRMLEYESNVGDLNSILKLEKRRFT  500 (656)
T ss_pred             chhHHHHHHHHHh---c-cCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHHH
Confidence            9999999988762   2 4444  457899999999999999999999888753

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=96.98  E-value=0.2  Score=48.53  Aligned_cols=218  Identities=13%  Similarity=0.109  Sum_probs=121.9

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCC----cccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHH
Q 048743          346 AMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGE----STLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTYKSL  421 (653)
Q Consensus       346 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~----~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~l  421 (653)
                      .|...-..|-..|++++|.+.|.+...-.....+    ...|......|.+. +++.|...+               ...
T Consensus        37 ~y~~Aa~~fk~~~~~~~A~~ay~kAa~~~~~~~~~~~Aa~~~~~Aa~~~k~~-~~~~Ai~~~---------------~~A  100 (282)
T PF14938_consen   37 LYEKAANCFKLAKDWEKAAEAYEKAADCYEKLGDKFEAAKAYEEAANCYKKG-DPDEAIECY---------------EKA  100 (282)
T ss_dssp             HHHHHHHHHHHTT-CHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHT-THHHHHHHH---------------HHH
T ss_pred             HHHHHHHHHHHHhccchhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhh-CHHHHHHHH---------------HHH
Confidence            5777777888888888888888775432200111    01122222222222 444444444               444


Q ss_pred             HHHHHHcCChHHHHHHHHHHHHcCCccCchhhHHHHhhHHHHhhhccccccccccc-CCHHHHHHHHHHHHH----ccCC
Q 048743          422 LTAYYKVKMFREAEALLKQMRKSCLVQNLSCEMVVSERFSEVADKSASFTDTSSLM-DKSDLAESLIQEMRE----EAAL  496 (653)
Q Consensus       422 i~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~~~~~~-~~~~~a~~~~~~m~~----~~~~  496 (653)
                      +..|...|++..|-..+..+-+.                             |-.. |+++.|...|++..+    .+ .
T Consensus       101 ~~~y~~~G~~~~aA~~~~~lA~~-----------------------------ye~~~~d~e~Ai~~Y~~A~~~y~~e~-~  150 (282)
T PF14938_consen  101 IEIYREAGRFSQAAKCLKELAEI-----------------------------YEEQLGDYEKAIEYYQKAAELYEQEG-S  150 (282)
T ss_dssp             HHHHHHCT-HHHHHHHHHHHHHH-----------------------------HCCTT--HHHHHHHHHHHHHHHHHTT--
T ss_pred             HHHHHhcCcHHHHHHHHHHHHHH-----------------------------HHHHcCCHHHHHHHHHHHHHHHHHCC-C
Confidence            55678888888887777776542                             2224 677777777765543    22 2


Q ss_pred             C--CHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCC-----CCCHH-HHHHHHHHHhccCCHHHHHHHHHHHHHHhhhCC
Q 048743          497 S--TIYKLNSSIYFFCKGKMIGDALKIYRRMQEMKI-----RPTVE-TFYYLVYGHSSLEMYRDITILWGDIKRNIESGV  568 (653)
Q Consensus       497 p--~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~-----~p~~~-t~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~  568 (653)
                      +  -..++..+...+.+.|++++|.++|++....-.     +++.. .|...+-++...|++-.|.+.++.....  ..+
T Consensus       151 ~~~a~~~~~~~A~l~~~l~~y~~A~~~~e~~~~~~l~~~l~~~~~~~~~l~a~l~~L~~~D~v~A~~~~~~~~~~--~~~  228 (282)
T PF14938_consen  151 PHSAAECLLKAADLYARLGRYEEAIEIYEEVAKKCLENNLLKYSAKEYFLKAILCHLAMGDYVAARKALERYCSQ--DPS  228 (282)
T ss_dssp             HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHTCCCHCTTGHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHGTT--STT
T ss_pred             hhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHhhcccccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CCC
Confidence            2  234567788889999999999999999876432     22232 2333444666789999999999876421  123


Q ss_pred             CccC--HHHHHHHHHHHHh--CCCHHHHHHHHHHHHhCCCCCCHHhHHHHH
Q 048743          569 LAVS--RDLYETLLLNFLQ--GGYFERVMEVIGYMKKQNMYVDKLMYKSEF  615 (653)
Q Consensus       569 ~~p~--~~~y~~li~~~~~--~g~~~~a~~~~~~m~~~g~~p~~~t~~~l~  615 (653)
                      +..+  ......||.++-.  ...+++|+.-|+.+.    +.|.+--..|+
T Consensus       229 F~~s~E~~~~~~l~~A~~~~D~e~f~~av~~~d~~~----~ld~w~~~~l~  275 (282)
T PF14938_consen  229 FASSREYKFLEDLLEAYEEGDVEAFTEAVAEYDSIS----RLDNWKTKMLL  275 (282)
T ss_dssp             STTSHHHHHHHHHHHHHHTT-CCCHHHHCHHHTTSS-------HHHHHHHH
T ss_pred             CCCcHHHHHHHHHHHHHHhCCHHHHHHHHHHHcccC----ccHHHHHHHHH
Confidence            3333  3455667776653  344666666666554    45555444444

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=96.97  E-value=0.049  Score=52.74  Aligned_cols=90  Identities=11%  Similarity=0.117  Sum_probs=44.0

Q ss_pred             HHhc-CChHHHHHHHHHHHhc----CCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCC-----CCHH-HHHHHH
Q 048743          354 YKKH-GKNSELSWLLLSIKKE----HHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHP-----MDST-TYKSLL  422 (653)
Q Consensus       354 ~~~~-~~~~~a~~~~~~m~~~----~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~-----p~~~-~~~~li  422 (653)
                      |-.. |++++|.+.|++....    +....-..++..+...+.+.|++++|.++|++....-..     .+.. .|-..+
T Consensus       124 ye~~~~d~e~Ai~~Y~~A~~~y~~e~~~~~a~~~~~~~A~l~~~l~~y~~A~~~~e~~~~~~l~~~l~~~~~~~~~l~a~  203 (282)
T PF14938_consen  124 YEEQLGDYEKAIEYYQKAAELYEQEGSPHSAAECLLKAADLYARLGRYEEAIEIYEEVAKKCLENNLLKYSAKEYFLKAI  203 (282)
T ss_dssp             HCCTT--HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHTCCCHCTTGHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHHHHHCCChhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHhhcccccchhHHHHHHHHH
Confidence            3344 5666666666554331    100001122555666677777777777777776553221     1221 222333


Q ss_pred             HHHHHcCChHHHHHHHHHHHH
Q 048743          423 TAYYKVKMFREAEALLKQMRK  443 (653)
Q Consensus       423 ~~~~~~~~~~~a~~~~~~m~~  443 (653)
                      -++...|++-.|...|++...
T Consensus       204 l~~L~~~D~v~A~~~~~~~~~  224 (282)
T PF14938_consen  204 LCHLAMGDYVAARKALERYCS  224 (282)
T ss_dssp             HHHHHTT-HHHHHHHHHHHGT
T ss_pred             HHHHHcCCHHHHHHHHHHHHh
Confidence            355556777777777776654

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=96.97  E-value=0.026  Score=46.22  Aligned_cols=101  Identities=12%  Similarity=0.085  Sum_probs=74.9

Q ss_pred             HHHHHHHHHHcCCCHHHHHHHHHHHHhcCC--CCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHHhhhCCCccCHHHHHH
Q 048743          501 KLNSSIYFFCKGKMIGDALKIYRRMQEMKI--RPTVETFYYLVYGHSSLEMYRDITILWGDIKRNIESGVLAVSRDLYET  578 (653)
Q Consensus       501 ~y~~li~~~~~~g~~~~a~~~~~~m~~~g~--~p~~~t~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~p~~~~y~~  578 (653)
                      ++-.+...+.+.|++++|.+.|..+....-  ......+..+..++.+.|+++.|..+++.+...  ..+.......+..
T Consensus         4 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~--~p~~~~~~~~~~~   81 (119)
T TIGR02795         4 AYYDAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKK--YPKSPKAPDALLK   81 (119)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHH--CCCCCcccHHHHH
Confidence            456677778889999999999999987421  111345666888899999999999999888632  1111222455777


Q ss_pred             HHHHHHhCCCHHHHHHHHHHHHhCC
Q 048743          579 LLLNFLQGGYFERVMEVIGYMKKQN  603 (653)
Q Consensus       579 li~~~~~~g~~~~a~~~~~~m~~~g  603 (653)
                      +..++...|+.++|.+.++++.+..
T Consensus        82 ~~~~~~~~~~~~~A~~~~~~~~~~~  106 (119)
T TIGR02795        82 LGMSLQELGDKEKAKATLQQVIKRY  106 (119)
T ss_pred             HHHHHHHhCChHHHHHHHHHHHHHC
Confidence            7788889999999999999998663

Members of this protein family are the product of one of seven genes regularly clustered in operons to encode the proteins of the tol-pal system, which is critical for maintaining the integrity of the bacterial outer membrane. The gene for this periplasmic protein has been designated orf2 and ybgF. All members of the seed alignment were from unique tol-pal gene regions from completed bacterial genomes. The architecture of this protein is a signal sequence, a low-complexity region usually rich in Asn and Gln, a well-conserved region with tandem repeats that resemble the tetratricopeptide (TPR) repeat, involved in protein-protein interaction.

>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A

Probab=96.79  E-value=0.0043  Score=47.31  Aligned_cols=78  Identities=12%  Similarity=0.140  Sum_probs=35.4

Q ss_pred             CCHHHHHHHHHHHHHccCC-CCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCH-HHHHHHHHHHhccCCHHHHHH
Q 048743          478 DKSDLAESLIQEMREEAAL-STIYKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRPTV-ETFYYLVYGHSSLEMYRDITI  555 (653)
Q Consensus       478 ~~~~~a~~~~~~m~~~~~~-p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~-~t~~~li~~~~~~~~~~~a~~  555 (653)
                      |+++.|..+++++.+.... |+...+-.+..+|.+.|++++|+++++. ...  .|+. ...-.+..+|.+.|++++|++
T Consensus         3 ~~y~~Ai~~~~k~~~~~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~-~~~--~~~~~~~~~l~a~~~~~l~~y~eAi~   79 (84)
T PF12895_consen    3 GNYENAIKYYEKLLELDPTNPNSAYLYNLAQCYFQQGKYEEAIELLQK-LKL--DPSNPDIHYLLARCLLKLGKYEEAIK   79 (84)
T ss_dssp             T-HHHHHHHHHHHHHHHCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHC-HTH--HHCHHHHHHHHHHHHHHTT-HHHHHH
T ss_pred             ccHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHCCCHHHHHHHHHH-hCC--CCCCHHHHHHHHHHHHHhCCHHHHHH
Confidence            4555555555555544421 1223333355555556666666655555 211  1111 222233445555555555555


Q ss_pred             HHH
Q 048743          556 LWG  558 (653)
Q Consensus       556 ~~~  558 (653)
                      +++
T Consensus        80 ~l~   82 (84)
T PF12895_consen   80 ALE   82 (84)
T ss_dssp             HHH
T ss_pred             HHh
Confidence            553

>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A

Probab=96.79  E-value=0.0051  Score=46.87  Aligned_cols=80  Identities=20%  Similarity=0.239  Sum_probs=59.3

Q ss_pred             CCCHHHHHHHHHHHHhcCC-CCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHHhhhCCCccCH-HHHHHHHHHHHhCCCH
Q 048743          512 GKMIGDALKIYRRMQEMKI-RPTVETFYYLVYGHSSLEMYRDITILWGDIKRNIESGVLAVSR-DLYETLLLNFLQGGYF  589 (653)
Q Consensus       512 ~g~~~~a~~~~~~m~~~g~-~p~~~t~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~p~~-~~y~~li~~~~~~g~~  589 (653)
                      .|+++.|+.+++++.+... .|+...+-.+..++.+.|++++|..+++. .      ...|.. ...-.+.++|...|++
T Consensus         2 ~~~y~~Ai~~~~k~~~~~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~-~------~~~~~~~~~~~l~a~~~~~l~~y   74 (84)
T PF12895_consen    2 QGNYENAIKYYEKLLELDPTNPNSAYLYNLAQCYFQQGKYEEAIELLQK-L------KLDPSNPDIHYLLARCLLKLGKY   74 (84)
T ss_dssp             TT-HHHHHHHHHHHHHHHCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHC-H------THHHCHHHHHHHHHHHHHHTT-H
T ss_pred             CccHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHCCCHHHHHHHHHH-h------CCCCCCHHHHHHHHHHHHHhCCH
Confidence            5889999999999998643 23455555688999999999999999976 2      233322 3333557789999999


Q ss_pred             HHHHHHHHH
Q 048743          590 ERVMEVIGY  598 (653)
Q Consensus       590 ~~a~~~~~~  598 (653)
                      ++|++++++
T Consensus        75 ~eAi~~l~~   83 (84)
T PF12895_consen   75 EEAIKALEK   83 (84)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHhc
Confidence            999999876

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=96.79  E-value=0.51  Score=46.13  Aligned_cols=84  Identities=14%  Similarity=0.103  Sum_probs=65.7

Q ss_pred             CCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHH
Q 048743          340 LLHSNRAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTYK  419 (653)
Q Consensus       340 ~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~  419 (653)
                      -.|+..-|-..|.+++..++|++-.++...    .  .+++. |..++.+|.+.|+..+|..+...          .++.
T Consensus       204 kv~dkrfw~lki~aLa~~~~w~eL~~fa~s----k--KsPIG-yepFv~~~~~~~~~~eA~~yI~k----------~~~~  266 (319)
T PF04840_consen  204 KVPDKRFWWLKIKALAENKDWDELEKFAKS----K--KSPIG-YEPFVEACLKYGNKKEASKYIPK----------IPDE  266 (319)
T ss_pred             CCcHHHHHHHHHHHHHhcCCHHHHHHHHhC----C--CCCCC-hHHHHHHHHHCCCHHHHHHHHHh----------CChH
Confidence            447888899999999999999988776432    2  23344 99999999999999999988877          2225


Q ss_pred             HHHHHHHHcCChHHHHHHHHH
Q 048743          420 SLLTAYYKVKMFREAEALLKQ  440 (653)
Q Consensus       420 ~li~~~~~~~~~~~a~~~~~~  440 (653)
                      .-+..|.+.|++.+|.+.-.+
T Consensus       267 ~rv~~y~~~~~~~~A~~~A~~  287 (319)
T PF04840_consen  267 ERVEMYLKCGDYKEAAQEAFK  287 (319)
T ss_pred             HHHHHHHHCCCHHHHHHHHHH
Confidence            567889999999998776433

Vps16 is essential for vacuolar protein sorting, which is essential for viability in plants, but not yeast []. The Class C Vps complex is required for SNARE-mediated membrane fusion at the lysosome-like yeast vacuole. It is thought to play essential roles in membrane docking and fusion at the Golgi-to-endosome and endosome-to-vacuole stages of transport []. The role of VPS16 in this complex is not known.; GO: 0006886 intracellular protein transport, 0005737 cytoplasm

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=96.74  E-value=0.8  Score=46.43  Aligned_cols=94  Identities=9%  Similarity=-0.068  Sum_probs=55.2

Q ss_pred             HHHHHHHHHhcCChhhHHHHHHHHHhcCCCccHHH-HHHHHHHHHhcCChhhhHHHHHHhhhcCCCcccch---hHHHHH
Q 048743          180 FNLVLHACVRFGSSLKGQHIMELMSQTGVVADAHS-IIILAQIHEMNCQRDELKKFKCYIDQLSTPFAHHY---QQFYES  255 (653)
Q Consensus       180 yn~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t-~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~---~~~~~~  255 (653)
                      +-.+.++.-+..+++.|.+-+....+..   ...| ++..-.++...|.............+.+.....-.   ...+..
T Consensus       227 ek~lgnaaykkk~f~~a~q~y~~a~el~---~~it~~~n~aA~~~e~~~~~~c~~~c~~a~E~gre~rad~klIak~~~r  303 (539)
T KOG0548|consen  227 EKELGNAAYKKKDFETAIQHYAKALELA---TDITYLNNIAAVYLERGKYAECIELCEKAVEVGRELRADYKLIAKALAR  303 (539)
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHHhHh---hhhHHHHHHHHHHHhccHHHHhhcchHHHHHHhHHHHHHHHHHHHHHHH
Confidence            5566777777888888888888777653   3444 45666667777776665554443333221111000   011222


Q ss_pred             HHHhhhccCCHHHHHHHHHHh
Q 048743          256 LLSLHFKFDDIDAAGELILDM  276 (653)
Q Consensus       256 li~~~~~~g~~~~A~~~~~~m  276 (653)
                      +-.+|.+.++.+.|...|.+.
T Consensus       304 ~g~a~~k~~~~~~ai~~~~ka  324 (539)
T KOG0548|consen  304 LGNAYTKREDYEGAIKYYQKA  324 (539)
T ss_pred             hhhhhhhHHhHHHHHHHHHHH
Confidence            334666778888888888775

>cd00189 TPR Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]-X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi, plants, and humans in various subcellular locations; involved in a variety of functions including protein-protein interactions, but common features in the interaction partners have not been defined; involved in chaperone, cell-cycle, transciption, and protein transport complexes; the number of TPR motifs varies among proteins (1,3-11,13 15,16,19); 5-6 tandem repeats generate a right-handed helical structure with an amphipathic channel that is thought to accomodate an alpha-helix of a target protein; it has been proposed that TPR proteins preferably interact with WD-40 repeat proteins, but in many instances several TPR-proteins seem to aggregate to multi-protein complexes; examples of TPR-proteins include, Cdc16p, Cdc23p and C

Probab=96.70  E-value=0.022  Score=43.96  Aligned_cols=94  Identities=21%  Similarity=0.079  Sum_probs=75.9

Q ss_pred             HHHHHHhhhccCCHHHHHHHHHHhcccCCCCCCchhhhcccccchhccCCCcccchhhhccchhhhHHHHHHhhhhhHHH
Q 048743          253 YESLLSLHFKFDDIDAAGELILDMNRYREPLPNPKLRQDAQKPYLISIGSPNLRCGLKLQIMPELLEKDSILKMEGKQEL  332 (653)
Q Consensus       253 ~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  332 (653)
                      +..+...+...|++++|..+|++..+                                                      
T Consensus         3 ~~~~a~~~~~~~~~~~A~~~~~~~~~------------------------------------------------------   28 (100)
T cd00189           3 LLNLGNLYYKLGDYDEALEYYEKALE------------------------------------------------------   28 (100)
T ss_pred             HHHHHHHHHHHhcHHHHHHHHHHHHh------------------------------------------------------
Confidence            55667777888999999999998832                                                      


Q ss_pred             HHHhcCCCCC-CHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHC
Q 048743          333 VLFRNGKLLH-SNRAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELA  409 (653)
Q Consensus       333 ~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  409 (653)
                             ..| +...+..+...+...+++++|.+.++......  +.+..++..+...+...|+.+.|...+....+.
T Consensus        29 -------~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~   97 (100)
T cd00189          29 -------LDPDNADAYYNLAAAYYKLGKYEEALEDYEKALELD--PDNAKAYYNLGLAYYKLGKYEEALEAYEKALEL   97 (100)
T ss_pred             -------cCCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCC--CcchhHHHHHHHHHHHHHhHHHHHHHHHHHHcc
Confidence                   122 23567778888889999999999999988876  555566888999999999999999999887654

>PF14559 TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN_B 3QOU_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 3FP3_A 3LCA_A

Probab=96.66  E-value=0.006  Score=44.18  Aligned_cols=63  Identities=17%  Similarity=0.206  Sum_probs=42.7

Q ss_pred             HhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHH
Q 048743          355 KKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTYKSL  421 (653)
Q Consensus       355 ~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~l  421 (653)
                      .+.|++++|.++|+++....  |.+...+-.+..+|.+.|++++|..+++++...  .|+...|..+
T Consensus         2 l~~~~~~~A~~~~~~~l~~~--p~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~--~~~~~~~~~l   64 (68)
T PF14559_consen    2 LKQGDYDEAIELLEKALQRN--PDNPEARLLLAQCYLKQGQYDEAEELLERLLKQ--DPDNPEYQQL   64 (68)
T ss_dssp             HHTTHHHHHHHHHHHHHHHT--TTSHHHHHHHHHHHHHTT-HHHHHHHHHCCHGG--GTTHHHHHHH
T ss_pred             hhccCHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--CcCHHHHHHH
Confidence            35677777777777777776  666666777777777777777777777777664  2454444443

...

>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins

Probab=96.62  E-value=0.03  Score=53.92  Aligned_cols=132  Identities=11%  Similarity=0.131  Sum_probs=99.4

Q ss_pred             HHHHHHHHhhhccCCHHHHHHHHHHhcccCCCCCCchhhhcccccchhccCCCcccchhhhccchhhhHHHHHHhhhhhH
Q 048743          251 QFYESLLSLHFKFDDIDAAGELILDMNRYREPLPNPKLRQDAQKPYLISIGSPNLRCGLKLQIMPELLEKDSILKMEGKQ  330 (653)
Q Consensus       251 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  330 (653)
                      .+|-.+|...-+.+.++.|..+|.+..+                                                    
T Consensus         2 ~v~i~~m~~~~r~~g~~~aR~vF~~a~~----------------------------------------------------   29 (280)
T PF05843_consen    2 LVWIQYMRFMRRTEGIEAARKVFKRARK----------------------------------------------------   29 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHC----------------------------------------------------
T ss_pred             HHHHHHHHHHHHhCChHHHHHHHHHHHc----------------------------------------------------
Confidence            3688888888888889999999999831                                                    


Q ss_pred             HHHHHhcCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCC
Q 048743          331 ELVLFRNGKLLHSNRAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAG  410 (653)
Q Consensus       331 ~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g  410 (653)
                            ......+.....+++..+ ..++.+.|.++|+...+.-  +.+...|..-++.+.+.++.+.|..+|++.... 
T Consensus        30 ------~~~~~~~vy~~~A~~E~~-~~~d~~~A~~Ife~glk~f--~~~~~~~~~Y~~~l~~~~d~~~aR~lfer~i~~-   99 (280)
T PF05843_consen   30 ------DKRCTYHVYVAYALMEYY-CNKDPKRARKIFERGLKKF--PSDPDFWLEYLDFLIKLNDINNARALFERAISS-   99 (280)
T ss_dssp             ------CCCS-THHHHHHHHHHHH-TCS-HHHHHHHHHHHHHHH--TT-HHHHHHHHHHHHHTT-HHHHHHHHHHHCCT-
T ss_pred             ------CCCCCHHHHHHHHHHHHH-hCCCHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHhCcHHHHHHHHHHHHHh-
Confidence                  112233333334444433 3567777999999988875  777788999999999999999999999999875 


Q ss_pred             CCCCH---HHHHHHHHHHHHcCChHHHHHHHHHHHHc
Q 048743          411 HPMDS---TTYKSLLTAYYKVKMFREAEALLKQMRKS  444 (653)
Q Consensus       411 ~~p~~---~~~~~li~~~~~~~~~~~a~~~~~~m~~~  444 (653)
                      +.++.   ..|...++-=.+.|+.+.+..+.+++.+.
T Consensus       100 l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~~  136 (280)
T PF05843_consen  100 LPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEEL  136 (280)
T ss_dssp             SSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHHH
T ss_pred             cCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            43333   48999999989999999999999999874

The Drosophila melanogaster suppressor of forked [Su(f)] protein shares homology with the Saccharomyces cerevisiae RNA14 protein and the 77 kDa subunit of Homo sapiens cleavage stimulation factor, which are proteins involved in mRNA 3' end formation. This suggests a role for Su(f) in mRNA 3' end formation in Drosophila. The su(f) gene produces three transcripts; two of them are polyadenylated at the end of the transcription unit, and one is a truncated transcript, polyadenylated in intron 4. It is thought that su(f) plays a role in the regulation of poly(A) site utilisation and the GU-rich sequence is important for this regulation to occur [].; GO: 0006397 mRNA processing, 0005634 nucleus; PDB: 2L9B_B 2OND_B 2OOE_A 4E85_B 4EBA_C 4E6H_A 2UY1_B.

>PF12921 ATP13: Mitochondrial ATPase expression; InterPro: IPR024319 ATPase expression protein 2 (also known as ATP13 in some species) is necessary for the expression of subunit 9 of mitochondrial ATPase

Probab=96.62  E-value=0.025  Score=46.51  Aligned_cols=102  Identities=10%  Similarity=0.009  Sum_probs=75.0

Q ss_pred             hHHHHHHHHhhhccCCHHHHHHHHHHhcccCCCCCCchhhhcccccchhccCCCcccchhhhccchhhhHHHHHHhhhhh
Q 048743          250 QQFYESLLSLHFKFDDIDAAGELILDMNRYREPLPNPKLRQDAQKPYLISIGSPNLRCGLKLQIMPELLEKDSILKMEGK  329 (653)
Q Consensus       250 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  329 (653)
                      ..++.++|-++++.|+++....+++..   .|+.+....     ....                                
T Consensus         2 e~~~~~ii~al~r~g~~~~i~~~i~~~---WgI~~~~~~-----~~~~--------------------------------   41 (126)
T PF12921_consen    2 EELLCNIIYALGRSGQLDSIKSYIKSV---WGIDVNGKK-----KEGD--------------------------------   41 (126)
T ss_pred             hHHHHHHHHHHhhcCCHHHHHHHHHHh---cCCCCCCcc-----ccCc--------------------------------
Confidence            346888999999999999999988766   333322210     0000                                


Q ss_pred             HHHHHHhcCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCC
Q 048743          330 QELVLFRNGKLLHSNRAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGF  395 (653)
Q Consensus       330 ~~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~  395 (653)
                          -.......|+..+..+++.+|+.+|++..|.++++...+.-.++-+..+|..|+.-.....+
T Consensus        42 ----~~~~spl~Pt~~lL~AIv~sf~~n~~i~~al~~vd~fs~~Y~I~i~~~~W~~Ll~W~~v~s~  103 (126)
T PF12921_consen   42 ----YPPSSPLYPTSRLLIAIVHSFGYNGDIFSALKLVDFFSRKYPIPIPKEFWRRLLEWAYVLSS  103 (126)
T ss_pred             ----cCCCCCCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhcC
Confidence                00345678999999999999999999999999999988877777667778888887666543

The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=96.61  E-value=0.8  Score=44.80  Aligned_cols=85  Identities=18%  Similarity=0.239  Sum_probs=50.9

Q ss_pred             hHHHHHHHHHhcCChhhHHHHHHHHHhcCCCccHHHHHHHHHHHHhcCChhhhHHHHHHhhhcCCCcccchhHHHHHHHH
Q 048743          179 IFNLVLHACVRFGSSLKGQHIMELMSQTGVVADAHSIIILAQIHEMNCQRDELKKFKCYIDQLSTPFAHHYQQFYESLLS  258 (653)
Q Consensus       179 ~yn~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~li~  258 (653)
                      +.+..|.-+...|+...|.++-.+.+    .||..-|-..+.+++..+++++..++-..   .. +.+.     |...+.
T Consensus       179 Sl~~Ti~~li~~~~~k~A~kl~k~Fk----v~dkrfw~lki~aLa~~~~w~eL~~fa~s---kK-sPIG-----yepFv~  245 (319)
T PF04840_consen  179 SLNDTIRKLIEMGQEKQAEKLKKEFK----VPDKRFWWLKIKALAENKDWDELEKFAKS---KK-SPIG-----YEPFVE  245 (319)
T ss_pred             CHHHHHHHHHHCCCHHHHHHHHHHcC----CcHHHHHHHHHHHHHhcCCHHHHHHHHhC---CC-CCCC-----hHHHHH
Confidence            44455566666666666666655443    46666666777777777777666665432   11 1233     666666


Q ss_pred             hhhccCCHHHHHHHHHHh
Q 048743          259 LHFKFDDIDAAGELILDM  276 (653)
Q Consensus       259 ~~~~~g~~~~A~~~~~~m  276 (653)
                      ++.+.|...+|..++.++
T Consensus       246 ~~~~~~~~~eA~~yI~k~  263 (319)
T PF04840_consen  246 ACLKYGNKKEASKYIPKI  263 (319)
T ss_pred             HHHHCCCHHHHHHHHHhC
Confidence            666666666666666555

Vps16 is essential for vacuolar protein sorting, which is essential for viability in plants, but not yeast []. The Class C Vps complex is required for SNARE-mediated membrane fusion at the lysosome-like yeast vacuole. It is thought to play essential roles in membrane docking and fusion at the Golgi-to-endosome and endosome-to-vacuole stages of transport []. The role of VPS16 in this complex is not known.; GO: 0006886 intracellular protein transport, 0005737 cytoplasm

>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins

Probab=96.60  E-value=0.033  Score=53.67  Aligned_cols=145  Identities=13%  Similarity=0.052  Sum_probs=80.0

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHH-cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 048743          346 AMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQ-LGFLEAAHDILDDMELAGHPMDSTTYKSLLTA  424 (653)
Q Consensus       346 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~-~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~  424 (653)
                      +|..++...-+.+..+.|..+|.+..+.+  ..+..+|-.....-.+ .++.+.|.++|+...+. ++.+...|..-++-
T Consensus         3 v~i~~m~~~~r~~g~~~aR~vF~~a~~~~--~~~~~vy~~~A~~E~~~~~d~~~A~~Ife~glk~-f~~~~~~~~~Y~~~   79 (280)
T PF05843_consen    3 VWIQYMRFMRRTEGIEAARKVFKRARKDK--RCTYHVYVAYALMEYYCNKDPKRARKIFERGLKK-FPSDPDFWLEYLDF   79 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHCCC--CS-THHHHHHHHHHHHTCS-HHHHHHHHHHHHHH-HTT-HHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCChHHHHHHHHHHHcCC--CCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHH-CCCCHHHHHHHHHH
Confidence            56666666666666777777777776544  2222333333333222 45555577777776654 44466666666666


Q ss_pred             HHHcCChHHHHHHHHHHHHcCCccCchhhHHHHhhHHHHhhhcccccccccccCCHHHHHHHHHHHHHccCCCCHHHHHH
Q 048743          425 YYKVKMFREAEALLKQMRKSCLVQNLSCEMVVSERFSEVADKSASFTDTSSLMDKSDLAESLIQEMREEAALSTIYKLNS  504 (653)
Q Consensus       425 ~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~y~~  504 (653)
                      +.+.|+.+.|..+|++.... +.++..                                              -...|..
T Consensus        80 l~~~~d~~~aR~lfer~i~~-l~~~~~----------------------------------------------~~~iw~~  112 (280)
T PF05843_consen   80 LIKLNDINNARALFERAISS-LPKEKQ----------------------------------------------SKKIWKK  112 (280)
T ss_dssp             HHHTT-HHHHHHHHHHHCCT-SSCHHH----------------------------------------------CHHHHHH
T ss_pred             HHHhCcHHHHHHHHHHHHHh-cCchhH----------------------------------------------HHHHHHH
Confidence            67777777777777666543 222110                                              1235666


Q ss_pred             HHHHHHcCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHH
Q 048743          505 SIYFFCKGKMIGDALKIYRRMQEMKIRPTVETFYYLVY  542 (653)
Q Consensus       505 li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~  542 (653)
                      .|+.=.+.|+++.+.++.+++.+.  -|+...+..+++
T Consensus       113 ~i~fE~~~Gdl~~v~~v~~R~~~~--~~~~~~~~~f~~  148 (280)
T PF05843_consen  113 FIEFESKYGDLESVRKVEKRAEEL--FPEDNSLELFSD  148 (280)
T ss_dssp             HHHHHHHHS-HHHHHHHHHHHHHH--TTTS-HHHHHHC
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHH--hhhhhHHHHHHH
Confidence            666666777777777777777663  333333333443

The Drosophila melanogaster suppressor of forked [Su(f)] protein shares homology with the Saccharomyces cerevisiae RNA14 protein and the 77 kDa subunit of Homo sapiens cleavage stimulation factor, which are proteins involved in mRNA 3' end formation. This suggests a role for Su(f) in mRNA 3' end formation in Drosophila. The su(f) gene produces three transcripts; two of them are polyadenylated at the end of the transcription unit, and one is a truncated transcript, polyadenylated in intron 4. It is thought that su(f) plays a role in the regulation of poly(A) site utilisation and the GU-rich sequence is important for this regulation to occur [].; GO: 0006397 mRNA processing, 0005634 nucleus; PDB: 2L9B_B 2OND_B 2OOE_A 4E85_B 4EBA_C 4E6H_A 2UY1_B.

>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional

Probab=96.55  E-value=0.055  Score=54.23  Aligned_cols=95  Identities=18%  Similarity=0.056  Sum_probs=82.3

Q ss_pred             HHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCC
Q 048743          351 INGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTYKSLLTAYYKVKM  430 (653)
Q Consensus       351 i~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~  430 (653)
                      -..+...|++++|+.+|++..+..  |.+...|..+..+|.+.|+++.|+..+++..+.. +.+...|..+..+|...|+
T Consensus         9 a~~a~~~~~~~~Ai~~~~~Al~~~--P~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~-P~~~~a~~~lg~~~~~lg~   85 (356)
T PLN03088          9 AKEAFVDDDFALAVDLYTQAIDLD--PNNAELYADRAQANIKLGNFTEAVADANKAIELD-PSLAKAYLRKGTACMKLEE   85 (356)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHhCC
Confidence            455667899999999999999988  7888889999999999999999999999998864 2367788889999999999


Q ss_pred             hHHHHHHHHHHHHcCCccCc
Q 048743          431 FREAEALLKQMRKSCLVQNL  450 (653)
Q Consensus       431 ~~~a~~~~~~m~~~~~~p~~  450 (653)
                      +++|...|+...+  +.|+.
T Consensus        86 ~~eA~~~~~~al~--l~P~~  103 (356)
T PLN03088         86 YQTAKAALEKGAS--LAPGD  103 (356)
T ss_pred             HHHHHHHHHHHHH--hCCCC
Confidence            9999999999987  44654

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=96.49  E-value=0.18  Score=44.57  Aligned_cols=64  Identities=9%  Similarity=-0.103  Sum_probs=40.9

Q ss_pred             cccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCC--HHHHHHHHHHHHHcCChHHHHHHHHHHHH
Q 048743          380 STLCSDVIDALIQLGFLEAAHDILDDMELAGHPMD--STTYKSLLTAYYKVKMFREAEALLKQMRK  443 (653)
Q Consensus       380 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~--~~~~~~li~~~~~~~~~~~a~~~~~~m~~  443 (653)
                      ...|..+...+...|++++|...|++..+....+.  ...+..+...+.+.|++++|...+.+..+
T Consensus        35 a~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  100 (172)
T PRK02603         35 AFVYYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALE  100 (172)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            33456666666667777777777777665432222  34566666777777777777777776665

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=96.43  E-value=0.099  Score=44.29  Aligned_cols=95  Identities=6%  Similarity=-0.138  Sum_probs=82.5

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 048743          347 MAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTYKSLLTAYY  426 (653)
Q Consensus       347 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~  426 (653)
                      .-.+-.-+...|++++|.++|+.+..-.  |.+..-|-.|--.+-..|++++|...|........ -|+..+-.+-.++.
T Consensus        38 lY~~A~~ly~~G~l~~A~~~f~~L~~~D--p~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~~-ddp~~~~~ag~c~L  114 (157)
T PRK15363         38 LYRYAMQLMEVKEFAGAARLFQLLTIYD--AWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIKI-DAPQAPWAAAECYL  114 (157)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhC--cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCC-CCchHHHHHHHHHH
Confidence            3455556778999999999999999888  77777788888888899999999999999988764 47888999999999


Q ss_pred             HcCChHHHHHHHHHHHHc
Q 048743          427 KVKMFREAEALLKQMRKS  444 (653)
Q Consensus       427 ~~~~~~~a~~~~~~m~~~  444 (653)
                      ..|+.+.|.+-|+.....
T Consensus       115 ~lG~~~~A~~aF~~Ai~~  132 (157)
T PRK15363        115 ACDNVCYAIKALKAVVRI  132 (157)
T ss_pred             HcCCHHHHHHHHHHHHHH
Confidence            999999999999988764

>PF12921 ATP13: Mitochondrial ATPase expression; InterPro: IPR024319 ATPase expression protein 2 (also known as ATP13 in some species) is necessary for the expression of subunit 9 of mitochondrial ATPase

Probab=96.41  E-value=0.052  Score=44.64  Aligned_cols=94  Identities=11%  Similarity=0.113  Sum_probs=53.4

Q ss_pred             CHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHHhhhCCCccCHHHHH
Q 048743          498 TIYKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRPTVETFYYLVYGHSSLEMYRDITILWGDIKRNIESGVLAVSRDLYE  577 (653)
Q Consensus       498 ~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~p~~~~y~  577 (653)
                      |..++.++|.++++.|+.+....+++..-  |+.++...         ..+.             .-......|+..+..
T Consensus         1 de~~~~~ii~al~r~g~~~~i~~~i~~~W--gI~~~~~~---------~~~~-------------~~~~spl~Pt~~lL~   56 (126)
T PF12921_consen    1 DEELLCNIIYALGRSGQLDSIKSYIKSVW--GIDVNGKK---------KEGD-------------YPPSSPLYPTSRLLI   56 (126)
T ss_pred             ChHHHHHHHHHHhhcCCHHHHHHHHHHhc--CCCCCCcc---------ccCc-------------cCCCCCCCCCHHHHH
Confidence            34567788888888888888877776543  22221100         0000             012335566666666


Q ss_pred             HHHHHHHhCCCHHHHHHHHHHHHhC-CCCCCHHhHHHHH
Q 048743          578 TLLLNFLQGGYFERVMEVIGYMKKQ-NMYVDKLMYKSEF  615 (653)
Q Consensus       578 ~li~~~~~~g~~~~a~~~~~~m~~~-g~~p~~~t~~~l~  615 (653)
                      +++.+|+..|++..|+++++...+. +++.+..+|..|+
T Consensus        57 AIv~sf~~n~~i~~al~~vd~fs~~Y~I~i~~~~W~~Ll   95 (126)
T PF12921_consen   57 AIVHSFGYNGDIFSALKLVDFFSRKYPIPIPKEFWRRLL   95 (126)
T ss_pred             HHHHHHHhcccHHHHHHHHHHHHHHcCCCCCHHHHHHHH
Confidence            6666666666666666666655433 5555566666665

The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=96.38  E-value=1.6  Score=45.69  Aligned_cols=50  Identities=8%  Similarity=0.115  Sum_probs=29.5

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHH
Q 048743          346 AMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDD  405 (653)
Q Consensus       346 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~  405 (653)
                      ..-.+-+++.+.|..++|.+.|-+..     .|     ...+..|...+++.+|.++-+.
T Consensus       854 llp~~a~mf~svGMC~qAV~a~Lr~s-----~p-----kaAv~tCv~LnQW~~avelaq~  903 (1189)
T KOG2041|consen  854 LLPVMADMFTSVGMCDQAVEAYLRRS-----LP-----KAAVHTCVELNQWGEAVELAQR  903 (1189)
T ss_pred             hHHHHHHHHHhhchHHHHHHHHHhcc-----Cc-----HHHHHHHHHHHHHHHHHHHHHh
Confidence            34456667777777777776654421     11     2345566666777776666554

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=96.33  E-value=0.48  Score=49.84  Aligned_cols=164  Identities=8%  Similarity=-0.036  Sum_probs=88.1

Q ss_pred             CCCCCCHHHHHHHHHHHHHcC-----ChHHHHHHHHHHHHcCCccCchhhHHHHhhHHHHhhhcccccccccc--cCCHH
Q 048743          409 AGHPMDSTTYKSLLTAYYKVK-----MFREAEALLKQMRKSCLVQNLSCEMVVSERFSEVADKSASFTDTSSL--MDKSD  481 (653)
Q Consensus       409 ~g~~p~~~~~~~li~~~~~~~-----~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~~~~~--~~~~~  481 (653)
                      .+.+.|...|...+.|.....     ..+.|..+|++..+  +.|+............. ..      ..+..  ..++.
T Consensus       331 ~~~~~~~~Ay~~~lrg~~~~~~~~~~~~~~A~~lle~Ai~--ldP~~a~a~A~la~~~~-~~------~~~~~~~~~~l~  401 (517)
T PRK10153        331 QGLPHQGAALTLFYQAHHYLNSGDAKSLNKASDLLEEILK--SEPDFTYAQAEKALADI-VR------HSQQPLDEKQLA  401 (517)
T ss_pred             ccCCCCHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHH--hCCCcHHHHHHHHHHHH-HH------HhcCCccHHHHH
Confidence            344556677777777654332     25567777777766  35664211111111000 00      00000  11233


Q ss_pred             HHHHHHHHHHHcc-CCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHH
Q 048743          482 LAESLIQEMREEA-ALSTIYKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRPTVETFYYLVYGHSSLEMYRDITILWGDI  560 (653)
Q Consensus       482 ~a~~~~~~m~~~~-~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~~  560 (653)
                      .+.+......... ...+...|.++.-.+...|++++|...+++..+.+  |+...|..+...+...|+.++|.+.++..
T Consensus       402 ~a~~~~~~a~al~~~~~~~~~~~ala~~~~~~g~~~~A~~~l~rAl~L~--ps~~a~~~lG~~~~~~G~~~eA~~~~~~A  479 (517)
T PRK10153        402 ALSTELDNIVALPELNVLPRIYEILAVQALVKGKTDEAYQAINKAIDLE--MSWLNYVLLGKVYELKGDNRLAADAYSTA  479 (517)
T ss_pred             HHHHHHHHhhhcccCcCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC--CCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            3344443333321 11245667666555566788888888888877754  67777888888888888888888888766


Q ss_pred             HHHhhhCCCccCHHHHHHHHHHHHhCCCHH
Q 048743          561 KRNIESGVLAVSRDLYETLLLNFLQGGYFE  590 (653)
Q Consensus       561 ~~~~~~~~~~p~~~~y~~li~~~~~~g~~~  590 (653)
                      .      .+.|...+|. ++..+.-.-+.+
T Consensus       480 ~------~L~P~~pt~~-~~~~~~f~~~~~  502 (517)
T PRK10153        480 F------NLRPGENTLY-WIENLVFQTSVE  502 (517)
T ss_pred             H------hcCCCCchHH-HHHhccccccHH
Confidence            5      3555555543 333333333333

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=96.32  E-value=2.1  Score=46.37  Aligned_cols=76  Identities=12%  Similarity=-0.014  Sum_probs=51.0

Q ss_pred             HHHHHHHHHhccCCHHHHHHHHHHHHHHhhhCCCcc-CHHHHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCCHHhHHHH
Q 048743          536 TFYYLVYGHSSLEMYRDITILWGDIKRNIESGVLAV-SRDLYETLLLNFLQGGYFERVMEVIGYMKKQNMYVDKLMYKSE  614 (653)
Q Consensus       536 t~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~p-~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~l  614 (653)
                      +-+.|++.|-+.++.....+.+-.+...+   ...| |..+--.+|+.|+-.|-+..|.++|+.|--+.|.-|...|.++
T Consensus       438 av~~Lid~~rktnd~~~l~eaI~LLE~gl---t~s~hnf~~KLlLiriY~~lGa~p~a~~~y~tLdIK~IQ~DTlgh~~~  514 (932)
T KOG2053|consen  438 AVNHLIDLWRKTNDLTDLFEAITLLENGL---TKSPHNFQTKLLLIRIYSYLGAFPDAYELYKTLDIKNIQTDTLGHLIF  514 (932)
T ss_pred             HHHHHHHHHHhcCcHHHHHHHHHHHHHHh---hcCCccHHHHHHHHHHHHHhcCChhHHHHHHhcchHHhhhccchHHHH
Confidence            34577888889888774433333232111   1222 3333345788999999999999999999888888887666543

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=96.30  E-value=0.14  Score=45.25  Aligned_cols=85  Identities=9%  Similarity=0.033  Sum_probs=65.2

Q ss_pred             CHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCC--HHHHHHHHHHHhccCCHHHHHHHHHHHHHHhhhCCCcc-CHH
Q 048743          498 TIYKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRPT--VETFYYLVYGHSSLEMYRDITILWGDIKRNIESGVLAV-SRD  574 (653)
Q Consensus       498 ~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~--~~t~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~p-~~~  574 (653)
                      ....|..+...+...|++++|...|++.......+.  ...+..+...+.+.|++++|...++...+      ..| +..
T Consensus        34 ~a~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~------~~p~~~~  107 (172)
T PRK02603         34 EAFVYYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALE------LNPKQPS  107 (172)
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH------hCcccHH
Confidence            556678888888999999999999999987543332  35788888899999999999999988763      233 455


Q ss_pred             HHHHHHHHHHhCCC
Q 048743          575 LYETLLLNFLQGGY  588 (653)
Q Consensus       575 ~y~~li~~~~~~g~  588 (653)
                      .+..+...+...|+
T Consensus       108 ~~~~lg~~~~~~g~  121 (172)
T PRK02603        108 ALNNIAVIYHKRGE  121 (172)
T ss_pred             HHHHHHHHHHHcCC
Confidence            56666667777766

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=96.28  E-value=0.13  Score=41.91  Aligned_cols=92  Identities=15%  Similarity=0.108  Sum_probs=53.2

Q ss_pred             HHHHcCCCHHHHHHHHHHHHhcCCCCC--HHHHHHHHHHHhccCCHHHHHHHHHHHHHHhhhCCCccCHHHHHHHHHHHH
Q 048743          507 YFFCKGKMIGDALKIYRRMQEMKIRPT--VETFYYLVYGHSSLEMYRDITILWGDIKRNIESGVLAVSRDLYETLLLNFL  584 (653)
Q Consensus       507 ~~~~~~g~~~~a~~~~~~m~~~g~~p~--~~t~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~p~~~~y~~li~~~~  584 (653)
                      .++-..|+.++|+.+|++-.+.|....  ...+..+-.++...|++++|..+++.......+...  +......+..++.
T Consensus         9 ~a~d~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~~p~~~~--~~~l~~f~Al~L~   86 (120)
T PF12688_consen    9 WAHDSLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEALEEFPDDEL--NAALRVFLALALY   86 (120)
T ss_pred             HHHHhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccc--cHHHHHHHHHHHH
Confidence            345567777777777777777665544  234555666677777777777777766522111111  1122222333566


Q ss_pred             hCCCHHHHHHHHHHHH
Q 048743          585 QGGYFERVMEVIGYMK  600 (653)
Q Consensus       585 ~~g~~~~a~~~~~~m~  600 (653)
                      ..|+.++|++.+-...
T Consensus        87 ~~gr~~eAl~~~l~~l  102 (120)
T PF12688_consen   87 NLGRPKEALEWLLEAL  102 (120)
T ss_pred             HCCCHHHHHHHHHHHH
Confidence            7777777777765544

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=96.28  E-value=0.1  Score=53.45  Aligned_cols=243  Identities=13%  Similarity=0.076  Sum_probs=127.2

Q ss_pred             CCCCHHHHHHHHHHHHhcCChHHHHHH---------HHHHHhcCCCCCCcccHHHHHHHHHHcCCHH--HHHHHHHHHHH
Q 048743          340 LLHSNRAMAKLINGYKKHGKNSELSWL---------LLSIKKEHHSFGESTLCSDVIDALIQLGFLE--AAHDILDDMEL  408 (653)
Q Consensus       340 ~~p~~~~~~~li~~~~~~~~~~~a~~~---------~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~--~a~~~~~~m~~  408 (653)
                      +.|..+.+.+-+..|...|.+++|.++         ++.+..+.  . +.-.+++.-++|.+..+..  +...-+++|.+
T Consensus       552 i~~~evp~~~~m~q~Ieag~f~ea~~iaclgVv~~DW~~LA~~A--L-eAL~f~~ARkAY~rVRdl~~L~li~EL~~~k~  628 (1081)
T KOG1538|consen  552 ISAVEVPQSAPMYQYIERGLFKEAYQIACLGVTDTDWRELAMEA--L-EALDFETARKAYIRVRDLRYLELISELEERKK  628 (1081)
T ss_pred             eecccccccccchhhhhccchhhhhcccccceecchHHHHHHHH--H-hhhhhHHHHHHHHHHhccHHHHHHHHHHHHHh
Confidence            445555566666677777877777654         22222221  1 1112566667777766544  33444566777


Q ss_pred             CCCCCCHHHHHHH----------HHHHHHcCChHHHHHHHHHHHHcCC-----c-cCc-hhhHHHHhhHHHHhhhccc--
Q 048743          409 AGHPMDSTTYKSL----------LTAYYKVKMFREAEALLKQMRKSCL-----V-QNL-SCEMVVSERFSEVADKSAS--  469 (653)
Q Consensus       409 ~g~~p~~~~~~~l----------i~~~~~~~~~~~a~~~~~~m~~~~~-----~-p~~-~~~~~~~~~l~~~~~~~~~--  469 (653)
                      .|-.|+.......          ...+.++|.-..|+++|.+|+--..     . .+. ....+    +....++...  
T Consensus       629 rge~P~~iLlA~~~Ay~gKF~EAAklFk~~G~enRAlEmyTDlRMFD~aQE~~~~g~~~eKKmL----~RKRA~WAr~~k  704 (1081)
T KOG1538|consen  629 RGETPNDLLLADVFAYQGKFHEAAKLFKRSGHENRALEMYTDLRMFDYAQEFLGSGDPKEKKML----IRKRADWARNIK  704 (1081)
T ss_pred             cCCCchHHHHHHHHHhhhhHHHHHHHHHHcCchhhHHHHHHHHHHHHHHHHHhhcCChHHHHHH----HHHHHHHhhhcC
Confidence            7777776533221          1222333434444444433321000     0 000 00000    1111111111  


Q ss_pred             ----ccccccccCCHHHHHHHHH-----H-HHHccCCC---CHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCHHH
Q 048743          470 ----FTDTSSLMDKSDLAESLIQ-----E-MREEAALS---TIYKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRPTVET  536 (653)
Q Consensus       470 ----~~~~~~~~~~~~~a~~~~~-----~-m~~~~~~p---~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t  536 (653)
                          -.++....|+.++|..+.-     + +.+-+.+.   +-.+...+..-+-+...+..|-++|..|-.         
T Consensus       705 ePkaAAEmLiSaGe~~KAi~i~~d~gW~d~lidI~rkld~~ere~l~~~a~ylk~l~~~gLAaeIF~k~gD---------  775 (1081)
T KOG1538|consen  705 EPKAAAEMLISAGEHVKAIEICGDHGWVDMLIDIARKLDKAEREPLLLCATYLKKLDSPGLAAEIFLKMGD---------  775 (1081)
T ss_pred             CcHHHHHHhhcccchhhhhhhhhcccHHHHHHHHHhhcchhhhhHHHHHHHHHhhccccchHHHHHHHhcc---------
Confidence                1344556777777666541     1 11222112   222333333334455567778888887753         


Q ss_pred             HHHHHHHHhccCCHHHHHHHHHHHHHHhhhCCCccCHHH-----------HHHHHHHHHhCCCHHHHHHHHHHHHhCCC
Q 048743          537 FYYLVYGHSSLEMYRDITILWGDIKRNIESGVLAVSRDL-----------YETLLLNFLQGGYFERVMEVIGYMKKQNM  604 (653)
Q Consensus       537 ~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~p~~~~-----------y~~li~~~~~~g~~~~a~~~~~~m~~~g~  604 (653)
                      ...+++.....++|++|..+-+...      .+.||+..           |.-.-++|.++|+-.+|.++++++....+
T Consensus       776 ~ksiVqlHve~~~W~eAFalAe~hP------e~~~dVy~pyaqwLAE~DrFeEAqkAfhkAGr~~EA~~vLeQLtnnav  848 (1081)
T KOG1538|consen  776 LKSLVQLHVETQRWDEAFALAEKHP------EFKDDVYMPYAQWLAENDRFEEAQKAFHKAGRQREAVQVLEQLTNNAV  848 (1081)
T ss_pred             HHHHhhheeecccchHhHhhhhhCc------cccccccchHHHHhhhhhhHHHHHHHHHHhcchHHHHHHHHHhhhhhh
Confidence            2357788889999999988876543      44444432           44456789999999999999999976544

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=96.25  E-value=1.9  Score=45.17  Aligned_cols=53  Identities=13%  Similarity=0.138  Sum_probs=31.3

Q ss_pred             HHHHHHHHHHHHcCCCHHHHHHHHHHHHh-cCCCCCHHHHHHHHHHHhccCCHH
Q 048743          499 IYKLNSSIYFFCKGKMIGDALKIYRRMQE-MKIRPTVETFYYLVYGHSSLEMYR  551 (653)
Q Consensus       499 ~~~y~~li~~~~~~g~~~~a~~~~~~m~~-~g~~p~~~t~~~li~~~~~~~~~~  551 (653)
                      .++|-+|.+--...|.++.|++.--.+.. ..+-|-...|..|.-+-|..+.+.
T Consensus      1021 AyHFmilAQrql~eg~v~~Al~Tal~L~DYEd~lpP~eiySllALaaca~raFG 1074 (1189)
T KOG2041|consen 1021 AYHFMILAQRQLFEGRVKDALQTALILSDYEDFLPPAEIYSLLALAACAVRAFG 1074 (1189)
T ss_pred             HHHHHHHHHHHHHhchHHHHHHHHhhhccHhhcCCHHHHHHHHHHHHhhhhhhh
Confidence            34555555556667778877776555544 345666667776655555444433

>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional

Probab=96.19  E-value=0.099  Score=52.38  Aligned_cols=99  Identities=6%  Similarity=-0.027  Sum_probs=59.3

Q ss_pred             HHHcCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHHhhhCCCcc-CHHHHHHHHHHHHhC
Q 048743          508 FFCKGKMIGDALKIYRRMQEMKIRPTVETFYYLVYGHSSLEMYRDITILWGDIKRNIESGVLAV-SRDLYETLLLNFLQG  586 (653)
Q Consensus       508 ~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~p-~~~~y~~li~~~~~~  586 (653)
                      .+...|++++|+++|.+.++..- -+...|..+..+|...|++++|+..++.+.+      +.| +...|..+..+|...
T Consensus        11 ~a~~~~~~~~Ai~~~~~Al~~~P-~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~------l~P~~~~a~~~lg~~~~~l   83 (356)
T PLN03088         11 EAFVDDDFALAVDLYTQAIDLDP-NNAELYADRAQANIKLGNFTEAVADANKAIE------LDPSLAKAYLRKGTACMKL   83 (356)
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH------hCcCCHHHHHHHHHHHHHh
Confidence            34456677777777777665421 2345566666666777777777777766652      223 445566666666777


Q ss_pred             CCHHHHHHHHHHHHhCCCCCCHHhHHHHH
Q 048743          587 GYFERVMEVIGYMKKQNMYVDKLMYKSEF  615 (653)
Q Consensus       587 g~~~~a~~~~~~m~~~g~~p~~~t~~~l~  615 (653)
                      |++++|...|++..+  +.|+.......+
T Consensus        84 g~~~eA~~~~~~al~--l~P~~~~~~~~l  110 (356)
T PLN03088         84 EEYQTAKAALEKGAS--LAPGDSRFTKLI  110 (356)
T ss_pred             CCHHHHHHHHHHHHH--hCCCCHHHHHHH
Confidence            777777777776663  345544444444

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=96.09  E-value=1.1  Score=40.89  Aligned_cols=168  Identities=14%  Similarity=0.041  Sum_probs=91.5

Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcc---cHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 048743          349 KLINGYKKHGKNSELSWLLLSIKKEHHSFGEST---LCSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTYKSLLTAY  425 (653)
Q Consensus       349 ~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~---~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~  425 (653)
                      ..-..+...|++++|.+.|+.+....  |.+..   ..-.+..++.+.|+++.|...+++..+.-..-....+...+.|.
T Consensus        10 ~~a~~~~~~g~y~~Ai~~f~~l~~~~--P~s~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~~yP~~~~~~~A~Y~~g~   87 (203)
T PF13525_consen   10 QKALEALQQGDYEEAIKLFEKLIDRY--PNSPYAPQAQLMLAYAYYKQGDYEEAIAAYERFIKLYPNSPKADYALYMLGL   87 (203)
T ss_dssp             HHHHHHHHCT-HHHHHHHHHHHHHH---TTSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH-TT-TTHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHC--CCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhhHHHHHHH
Confidence            44555677899999999999998876  33322   35567888889999999999999987653222222333333333


Q ss_pred             HHc-------------CChHHHHHHHHHHHHcCCccCchhhHHHHhhHHHHhhhcccccccccccCCHHHHHHHHHHHHH
Q 048743          426 YKV-------------KMFREAEALLKQMRKSCLVQNLSCEMVVSERFSEVADKSASFTDTSSLMDKSDLAESLIQEMRE  492 (653)
Q Consensus       426 ~~~-------------~~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~  492 (653)
                      +..             +...+|...|+.+.+.  -|+                           ..-..+|...+..+.+
T Consensus        88 ~~~~~~~~~~~~~~D~~~~~~A~~~~~~li~~--yP~---------------------------S~y~~~A~~~l~~l~~  138 (203)
T PF13525_consen   88 SYYKQIPGILRSDRDQTSTRKAIEEFEELIKR--YPN---------------------------SEYAEEAKKRLAELRN  138 (203)
T ss_dssp             HHHHHHHHHH-TT---HHHHHHHHHHHHHHHH---TT---------------------------STTHHHHHHHHHHHHH
T ss_pred             HHHHhCccchhcccChHHHHHHHHHHHHHHHH--CcC---------------------------chHHHHHHHHHHHHHH
Confidence            221             1133455556555543  243                           2333344333333332


Q ss_pred             ccCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCH----HHHHHHHHHHhccCCHHHH
Q 048743          493 EAALSTIYKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRPTV----ETFYYLVYGHSSLEMYRDI  553 (653)
Q Consensus       493 ~~~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~----~t~~~li~~~~~~~~~~~a  553 (653)
                      .=    ...--.+...|.+.|.+..|..-++.+++.  -|+.    .....++.++.+.|..+.+
T Consensus       139 ~l----a~~e~~ia~~Y~~~~~y~aA~~r~~~v~~~--yp~t~~~~~al~~l~~~y~~l~~~~~a  197 (203)
T PF13525_consen  139 RL----AEHELYIARFYYKRGKYKAAIIRFQYVIEN--YPDTPAAEEALARLAEAYYKLGLKQAA  197 (203)
T ss_dssp             HH----HHHHHHHHHHHHCTT-HHHHHHHHHHHHHH--STTSHHHHHHHHHHHHHHHHTT-HHHH
T ss_pred             HH----HHHHHHHHHHHHHcccHHHHHHHHHHHHHH--CCCCchHHHHHHHHHHHHHHhCChHHH
Confidence            10    001112456677777777777777777764  2332    3445666666666665533

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=96.08  E-value=0.13  Score=45.31  Aligned_cols=64  Identities=8%  Similarity=-0.245  Sum_probs=49.0

Q ss_pred             cccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCC--CHHHHHHHHHHHHHcCChHHHHHHHHHHHH
Q 048743          380 STLCSDVIDALIQLGFLEAAHDILDDMELAGHPM--DSTTYKSLLTAYYKVKMFREAEALLKQMRK  443 (653)
Q Consensus       380 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p--~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  443 (653)
                      ...|..+...+...|++++|...|++.......|  ...+|..+-..+.+.|++++|...++....
T Consensus        35 a~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~  100 (168)
T CHL00033         35 AFTYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALE  100 (168)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            3446777777888899999999998887653222  234778888888899999999999888876

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=96.00  E-value=0.091  Score=49.02  Aligned_cols=96  Identities=22%  Similarity=0.231  Sum_probs=58.3

Q ss_pred             HcCCCHHHHHHHHHHHHhcCCCC-CHHHHHHHHHHHhccCCHHHHHHHHHHHHHHhhhCCCcc-CHHHHHHHHHHHHhCC
Q 048743          510 CKGKMIGDALKIYRRMQEMKIRP-TVETFYYLVYGHSSLEMYRDITILWGDIKRNIESGVLAV-SRDLYETLLLNFLQGG  587 (653)
Q Consensus       510 ~~~g~~~~a~~~~~~m~~~g~~p-~~~t~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~p-~~~~y~~li~~~~~~g  587 (653)
                      .+.+++.+|+..|.+.++.  .| |.+-|..=-.+|++.|.++.|++=.+...      .+.| ...+|..|-.+|...|
T Consensus        92 m~~~~Y~eAv~kY~~AI~l--~P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al------~iDp~yskay~RLG~A~~~~g  163 (304)
T KOG0553|consen   92 MKNKDYQEAVDKYTEAIEL--DPTNAVYYCNRAAAYSKLGEYEDAVKDCESAL------SIDPHYSKAYGRLGLAYLALG  163 (304)
T ss_pred             HHhhhHHHHHHHHHHHHhc--CCCcchHHHHHHHHHHHhcchHHHHHHHHHHH------hcChHHHHHHHHHHHHHHccC
Confidence            4466677777777766653  33 34445555566777777777666554443      2333 2345666667777777


Q ss_pred             CHHHHHHHHHHHHhCCCCCCHHhHHHHH
Q 048743          588 YFERVMEVIGYMKKQNMYVDKLMYKSEF  615 (653)
Q Consensus       588 ~~~~a~~~~~~m~~~g~~p~~~t~~~l~  615 (653)
                      ++++|++.|+...  .+.|+..+|..-+
T Consensus       164 k~~~A~~aykKaL--eldP~Ne~~K~nL  189 (304)
T KOG0553|consen  164 KYEEAIEAYKKAL--ELDPDNESYKSNL  189 (304)
T ss_pred             cHHHHHHHHHhhh--ccCCCcHHHHHHH
Confidence            7777777766655  4566666666555

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=95.98  E-value=0.42  Score=50.26  Aligned_cols=57  Identities=16%  Similarity=0.022  Sum_probs=44.9

Q ss_pred             cCCHHHHHHHHHHHHHccCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCHHHH
Q 048743          477 MDKSDLAESLIQEMREEAALSTIYKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRPTVETF  537 (653)
Q Consensus       477 ~~~~~~a~~~~~~m~~~~~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~  537 (653)
                      .|++++|...+++..+.+  |+...|..+...+...|+.++|.+.+++....  .|...||
T Consensus       433 ~g~~~~A~~~l~rAl~L~--ps~~a~~~lG~~~~~~G~~~eA~~~~~~A~~L--~P~~pt~  489 (517)
T PRK10153        433 KGKTDEAYQAINKAIDLE--MSWLNYVLLGKVYELKGDNRLAADAYSTAFNL--RPGENTL  489 (517)
T ss_pred             cCCHHHHHHHHHHHHHcC--CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCCCchH
Confidence            467777777777777665  67788999999999999999999999987764  5555554

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=95.98  E-value=0.029  Score=40.10  Aligned_cols=54  Identities=20%  Similarity=0.207  Sum_probs=26.2

Q ss_pred             HHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHH
Q 048743          389 ALIQLGFLEAAHDILDDMELAGHPMDSTTYKSLLTAYYKVKMFREAEALLKQMRK  443 (653)
Q Consensus       389 ~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  443 (653)
                      .+.+.|++++|...|++..+.. +-+...+..+-.++...|++++|...|++..+
T Consensus         6 ~~~~~g~~~~A~~~~~~~l~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~   59 (65)
T PF13432_consen    6 ALYQQGDYDEAIAAFEQALKQD-PDNPEAWYLLGRILYQQGRYDEALAYYERALE   59 (65)
T ss_dssp             HHHHCTHHHHHHHHHHHHHCCS-TTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            4445555555555555555443 11344444455555555555555555555543

>PF03704 BTAD: Bacterial transcriptional activator domain; InterPro: IPR005158 Found in the DNRI/REDD/AFSR family of regulators, this region of AFSR (P25941 from SWISSPROT) along with the C-terminal region is capable of independently directing actinorhodin production

Probab=95.96  E-value=0.042  Score=47.14  Aligned_cols=71  Identities=17%  Similarity=0.091  Sum_probs=48.2

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHH-----HCCCCCCHHHH
Q 048743          346 AMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDME-----LAGHPMDSTTY  418 (653)
Q Consensus       346 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~-----~~g~~p~~~~~  418 (653)
                      +...++..+...|++++|..+.+.+....  |.+...|..+|.+|...|+...|.++|+.+.     +-|+.|+..+-
T Consensus        64 ~~~~l~~~~~~~~~~~~a~~~~~~~l~~d--P~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~elg~~Ps~~~~  139 (146)
T PF03704_consen   64 ALERLAEALLEAGDYEEALRLLQRALALD--PYDEEAYRLLMRALAAQGRRAEALRVYERYRRRLREELGIEPSPETR  139 (146)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHS--TT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHS----HHHH
T ss_pred             HHHHHHHHHHhccCHHHHHHHHHHHHhcC--CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhCcCcCHHHH
Confidence            34566667777888888888888888877  7777778888888888888888888887763     34777776653

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>PF14559 TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN_B 3QOU_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 3FP3_A 3LCA_A

Probab=95.93  E-value=0.029  Score=40.53  Aligned_cols=48  Identities=10%  Similarity=0.065  Sum_probs=20.6

Q ss_pred             CCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHH
Q 048743          512 GKMIGDALKIYRRMQEMKIRPTVETFYYLVYGHSSLEMYRDITILWGDI  560 (653)
Q Consensus       512 ~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~~  560 (653)
                      .|++++|+++|+++...... |...+..+..+|.+.|++++|..+++.+
T Consensus         4 ~~~~~~A~~~~~~~l~~~p~-~~~~~~~la~~~~~~g~~~~A~~~l~~~   51 (68)
T PF14559_consen    4 QGDYDEAIELLEKALQRNPD-NPEARLLLAQCYLKQGQYDEAEELLERL   51 (68)
T ss_dssp             TTHHHHHHHHHHHHHHHTTT-SHHHHHHHHHHHHHTT-HHHHHHHHHCC
T ss_pred             ccCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            44444444444444443111 3333334444444444444444444443

...

>PF03704 BTAD: Bacterial transcriptional activator domain; InterPro: IPR005158 Found in the DNRI/REDD/AFSR family of regulators, this region of AFSR (P25941 from SWISSPROT) along with the C-terminal region is capable of independently directing actinorhodin production

Probab=95.87  E-value=0.06  Score=46.17  Aligned_cols=76  Identities=11%  Similarity=0.099  Sum_probs=57.4

Q ss_pred             HHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHHhh-hCCCccCHHHHH
Q 048743          501 KLNSSIYFFCKGKMIGDALKIYRRMQEMKIRPTVETFYYLVYGHSSLEMYRDITILWGDIKRNIE-SGVLAVSRDLYE  577 (653)
Q Consensus       501 ~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~p~~~~y~  577 (653)
                      +...++..+...|++++|+.+.+.+.... +.|...|..+|.+|...|+...|.++++.+.+.+. +.|+.|+..+-.
T Consensus        64 ~~~~l~~~~~~~~~~~~a~~~~~~~l~~d-P~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~elg~~Ps~~~~~  140 (146)
T PF03704_consen   64 ALERLAEALLEAGDYEEALRLLQRALALD-PYDEEAYRLLMRALAAQGRRAEALRVYERYRRRLREELGIEPSPETRA  140 (146)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHS-TT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHS----HHHHH
T ss_pred             HHHHHHHHHHhccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhCcCcCHHHHH
Confidence            45677888888999999999999998863 45788899999999999999999999999877665 569999887643

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=95.83  E-value=0.4  Score=49.42  Aligned_cols=82  Identities=16%  Similarity=0.108  Sum_probs=52.5

Q ss_pred             hhhHHHHHHHHHhcCChh--hHHHHHHHHHhcCCCccHHHHHHHHHHHHhcCChhhhHHHHHHhhhcCCCcccchhHHHH
Q 048743          177 TMIFNLVLHACVRFGSSL--KGQHIMELMSQTGVVADAHSIIILAQIHEMNCQRDELKKFKCYIDQLSTPFAHHYQQFYE  254 (653)
Q Consensus       177 ~~~yn~li~~~~~~g~~~--~a~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~  254 (653)
                      ...+++-=++|.+-.+..  +...=+++|++.|-.|+...   +...|+-.|++.+|-++|..--.            -|
T Consensus       598 AL~f~~ARkAY~rVRdl~~L~li~EL~~~k~rge~P~~iL---lA~~~Ay~gKF~EAAklFk~~G~------------en  662 (1081)
T KOG1538|consen  598 ALDFETARKAYIRVRDLRYLELISELEERKKRGETPNDLL---LADVFAYQGKFHEAAKLFKRSGH------------EN  662 (1081)
T ss_pred             hhhhHHHHHHHHHHhccHHHHHHHHHHHHHhcCCCchHHH---HHHHHHhhhhHHHHHHHHHHcCc------------hh
Confidence            345666667787766643  34445678888998899876   45556667888888888765322            23


Q ss_pred             HHHHhhhccCCHHHHHHHH
Q 048743          255 SLLSLHFKFDDIDAAGELI  273 (653)
Q Consensus       255 ~li~~~~~~g~~~~A~~~~  273 (653)
                      ..+.+|.....+|.|.+++
T Consensus       663 RAlEmyTDlRMFD~aQE~~  681 (1081)
T KOG1538|consen  663 RALEMYTDLRMFDYAQEFL  681 (1081)
T ss_pred             hHHHHHHHHHHHHHHHHHh
Confidence            4455555555555555554

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=95.78  E-value=2.4  Score=42.29  Aligned_cols=150  Identities=9%  Similarity=0.032  Sum_probs=87.4

Q ss_pred             HHhccchhHHHHHHHHhhhhcCC-CC----chhHHHHHHHhhccCCcchhhhHHHHHHHHHhccCCchhHHHHHHHHHH-
Q 048743           29 ASKNHQVGEAWETFNDFQRLHGI-PE----RHVVNRFITDLCYSAEPHWLQKACDLVLKIQKGKADLLQLDLLAKLSLS-  102 (653)
Q Consensus        29 ~~~~~~~~~A~~~~~~~~~~~~~-~~----~~~~~~ll~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~t~~~li~~-  102 (653)
                      +-++++..+|..+|...-+.... |.    ...-+.+|+++....    ++.....+....+..|.    ..|-.+..+ 
T Consensus        16 Lqkq~~~~esEkifskI~~e~~~~~f~lkeEvl~grilnAffl~n----ld~Me~~l~~l~~~~~~----s~~l~LF~~L   87 (549)
T PF07079_consen   16 LQKQKKFQESEKIFSKIYDEKESSPFLLKEEVLGGRILNAFFLNN----LDLMEKQLMELRQQFGK----SAYLPLFKAL   87 (549)
T ss_pred             HHHHhhhhHHHHHHHHHHHHhhcchHHHHHHHHhhHHHHHHHHhh----HHHHHHHHHHHHHhcCC----chHHHHHHHH
Confidence            34789999999999987663221 11    223478888885432    23333333333333332    334444433 


Q ss_pred             -HHhcCCCchHHHHHHHHHcC--ccCCCchhHHHHHHHHhhcccccccchHHHHHHHHHhhhhhhhhcCCccCCCCchhh
Q 048743          103 -LARAQMPVPASMILRLMLGR--ENLPCSDLLLLVFVHMVKTEIGTCLASNFLIQLCDVFLHLSAEKSNGAELIKPDTMI  179 (653)
Q Consensus       103 -~~~~g~~~~a~~~~~~m~~~--g~~p~~~~~~~li~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  179 (653)
                       +-+.+.+++|++.+..-.+.  +-.|.--  +.                           ++.        ..-+|..-
T Consensus        88 ~~Y~~k~~~kal~~ls~w~~~~~~~~~~~L--d~---------------------------ni~--------~l~~df~l  130 (549)
T PF07079_consen   88 VAYKQKEYRKALQALSVWKEQIKGTESPWL--DT---------------------------NIQ--------QLFSDFFL  130 (549)
T ss_pred             HHHHhhhHHHHHHHHHHHHhhhcccccchh--hh---------------------------hHH--------HHhhHHHH
Confidence             34678888998888766554  2111110  00                           000        01233444


Q ss_pred             HHHHHHHHHhcCChhhHHHHHHHHHhcC----CCccHHHHHHHHHHHH
Q 048743          180 FNLVLHACVRFGSSLKGQHIMELMSQTG----VVADAHSIIILAQIHE  223 (653)
Q Consensus       180 yn~li~~~~~~g~~~~a~~l~~~m~~~g----~~p~~~t~~~ll~~~~  223 (653)
                      =+..+..+...|++.++..+++.|...=    ...+..+|+.++-.++
T Consensus       131 ~~i~a~sLIe~g~f~EgR~iLn~i~~~llkrE~~w~~d~yd~~vlmls  178 (549)
T PF07079_consen  131 DEIEAHSLIETGRFSEGRAILNRIIERLLKRECEWNSDMYDRAVLMLS  178 (549)
T ss_pred             HHHHHHHHHhcCCcchHHHHHHHHHHHHhhhhhcccHHHHHHHHHHHh
Confidence            4567788889999999999999988653    3378888887555554

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=95.76  E-value=0.43  Score=42.00  Aligned_cols=97  Identities=10%  Similarity=0.000  Sum_probs=69.6

Q ss_pred             CHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCC--CHHHHHHHHHHHhccCCHHHHHHHHHHHHHHhhhCCCccCHHH
Q 048743          498 TIYKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRP--TVETFYYLVYGHSSLEMYRDITILWGDIKRNIESGVLAVSRDL  575 (653)
Q Consensus       498 ~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p--~~~t~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~p~~~~  575 (653)
                      -...|..+...+...|++++|+..|++.......|  ...++..+-..+...|++++|...++...+.     .+.....
T Consensus        34 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~~-----~~~~~~~  108 (168)
T CHL00033         34 EAFTYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALER-----NPFLPQA  108 (168)
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-----CcCcHHH
Confidence            35567788888888999999999999988653332  2357888889999999999999999887632     1222344


Q ss_pred             HHHHHHHHH-------hCCCHHHHHHHHHHH
Q 048743          576 YETLLLNFL-------QGGYFERVMEVIGYM  599 (653)
Q Consensus       576 y~~li~~~~-------~~g~~~~a~~~~~~m  599 (653)
                      +..+...+.       ..|++++|...+++-
T Consensus       109 ~~~la~i~~~~~~~~~~~g~~~~A~~~~~~a  139 (168)
T CHL00033        109 LNNMAVICHYRGEQAIEQGDSEIAEAWFDQA  139 (168)
T ss_pred             HHHHHHHHHHhhHHHHHcccHHHHHHHHHHH
Confidence            555555555       778877666555543

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=95.76  E-value=1.8  Score=40.69  Aligned_cols=177  Identities=14%  Similarity=0.097  Sum_probs=108.5

Q ss_pred             HHHHHHhcCChhhHHHHHHHHHhcCCCccHHHH----HHHHHHHHhcCChhhhHHHHHHhhhcCC--CcccchhHHHHHH
Q 048743          183 VLHACVRFGSSLKGQHIMELMSQTGVVADAHSI----IILAQIHEMNCQRDELKKFKCYIDQLST--PFAHHYQQFYESL  256 (653)
Q Consensus       183 li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~----~~ll~~~~~~g~~~~a~~~~~~~~~~~~--~~~~~~~~~~~~l  256 (653)
                      ....+.+.|++++|.+.|+.....  .|+....    -.+..++-+.++.+.|...++...+..+  |.+.     |...
T Consensus        38 ~A~~~~~~g~y~~Ai~~f~~l~~~--yP~s~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~~P~~~~~~-----~a~Y  110 (243)
T PRK10866         38 TAQQKLQDGNWKQAITQLEALDNR--YPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNID-----YVLY  110 (243)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCcCCCchH-----HHHH
Confidence            344456789999999999999885  4444322    3456777889999999999988877633  3222     2223


Q ss_pred             HHhhhc--c---------------CCHHHHHHHHHHhcccCCCCCCchhhhcccccchhccCCCcccchhhhccchhhhH
Q 048743          257 LSLHFK--F---------------DDIDAAGELILDMNRYREPLPNPKLRQDAQKPYLISIGSPNLRCGLKLQIMPELLE  319 (653)
Q Consensus       257 i~~~~~--~---------------g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  319 (653)
                      +.+.+.  .               .|...+.+.+                                              
T Consensus       111 ~~g~~~~~~~~~~~~~~~~~~~~~rD~~~~~~A~----------------------------------------------  144 (243)
T PRK10866        111 MRGLTNMALDDSALQGFFGVDRSDRDPQHARAAF----------------------------------------------  144 (243)
T ss_pred             HHHHhhhhcchhhhhhccCCCccccCHHHHHHHH----------------------------------------------
Confidence            332221  0               0111111111                                              


Q ss_pred             HHHHHhhhhhHHHHHHhcCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHH
Q 048743          320 KDSILKMEGKQELVLFRNGKLLHSNRAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAA  399 (653)
Q Consensus       320 ~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a  399 (653)
                                               ..+..+|.-|-.+.-..+|...+..+...-   .. . --.+...|.+.|.+..|
T Consensus       145 -------------------------~~~~~li~~yP~S~ya~~A~~rl~~l~~~l---a~-~-e~~ia~~Y~~~~~y~AA  194 (243)
T PRK10866        145 -------------------------RDFSKLVRGYPNSQYTTDATKRLVFLKDRL---AK-Y-ELSVAEYYTKRGAYVAV  194 (243)
T ss_pred             -------------------------HHHHHHHHHCcCChhHHHHHHHHHHHHHHH---HH-H-HHHHHHHHHHcCchHHH
Confidence                                     123455555555555556655544443321   00 1 22566778888888888


Q ss_pred             HHHHHHHHHC--CCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHH
Q 048743          400 HDILDDMELA--GHPMDSTTYKSLLTAYYKVKMFREAEALLKQMR  442 (653)
Q Consensus       400 ~~~~~~m~~~--g~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~  442 (653)
                      ..-|+.+.+.  +.+........++.+|.+.|..++|......+.
T Consensus       195 ~~r~~~v~~~Yp~t~~~~eal~~l~~ay~~lg~~~~a~~~~~~l~  239 (243)
T PRK10866        195 VNRVEQMLRDYPDTQATRDALPLMENAYRQLQLNAQADKVAKIIA  239 (243)
T ss_pred             HHHHHHHHHHCCCCchHHHHHHHHHHHHHHcCChHHHHHHHHHHh
Confidence            8888888764  333445667778889999999998888776654

>PF08631 SPO22: Meiosis protein SPO22/ZIP4 like; InterPro: IPR013940 SPO22 is a meiosis-specific protein with similarity to phospholipase A2, involved in completion of nuclear divisions during meiosis; induced early in meiosis []

Probab=95.69  E-value=2.2  Score=41.18  Aligned_cols=102  Identities=14%  Similarity=0.024  Sum_probs=67.5

Q ss_pred             HHHHHHHHHHHhcCCh---HHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHH
Q 048743          345 RAMAKLINGYKKHGKN---SELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTYKSL  421 (653)
Q Consensus       345 ~~~~~li~~~~~~~~~---~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~l  421 (653)
                      .++..++.+|...+..   ++|..+++.+....  +..+.++-.-+..+.+.++.+.+.+++.+|...- .-....+..+
T Consensus        85 ~iL~~La~~~l~~~~~~~~~ka~~~l~~l~~e~--~~~~~~~~L~l~il~~~~~~~~~~~~L~~mi~~~-~~~e~~~~~~  161 (278)
T PF08631_consen   85 SILRLLANAYLEWDTYESVEKALNALRLLESEY--GNKPEVFLLKLEILLKSFDEEEYEEILMRMIRSV-DHSESNFDSI  161 (278)
T ss_pred             HHHHHHHHHHHcCCChHHHHHHHHHHHHHHHhC--CCCcHHHHHHHHHHhccCChhHHHHHHHHHHHhc-ccccchHHHH
Confidence            3567788888877764   45677777776665  4445556677888888999999999999998862 2234455555


Q ss_pred             HHHH---HHcCChHHHHHHHHHHHHcCCccCc
Q 048743          422 LTAY---YKVKMFREAEALLKQMRKSCLVQNL  450 (653)
Q Consensus       422 i~~~---~~~~~~~~a~~~~~~m~~~~~~p~~  450 (653)
                      +..+   .... ...|...+..+....+.|..
T Consensus       162 l~~i~~l~~~~-~~~a~~~ld~~l~~r~~~~~  192 (278)
T PF08631_consen  162 LHHIKQLAEKS-PELAAFCLDYLLLNRFKSSE  192 (278)
T ss_pred             HHHHHHHHhhC-cHHHHHHHHHHHHHHhCCCh
Confidence            5544   4433 45566666666655555543

It is also involved in sporulation [].

>PF13414 TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2PL2_B 3IEG_B 2FBN_A

Probab=95.66  E-value=0.054  Score=39.23  Aligned_cols=61  Identities=16%  Similarity=0.046  Sum_probs=33.5

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcC-CHHHHHHHHHHHH
Q 048743          345 RAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLG-FLEAAHDILDDME  407 (653)
Q Consensus       345 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g-~~~~a~~~~~~m~  407 (653)
                      .+|..+-..+...|++++|+..|.+..+..  |.+...|..+-.+|.+.| ++++|.+.++...
T Consensus         4 ~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~--p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al   65 (69)
T PF13414_consen    4 EAWYNLGQIYFQQGDYEEAIEYFEKAIELD--PNNAEAYYNLGLAYMKLGKDYEEAIEDFEKAL   65 (69)
T ss_dssp             HHHHHHHHHHHHTTHHHHHHHHHHHHHHHS--TTHHHHHHHHHHHHHHTTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHcC--CCCHHHHHHHHHHHHHhCccHHHHHHHHHHHH
Confidence            344555555555555555555555555554  445555555555555555 4555555555543

...

>PF13424 TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 4A1S_B 3CEQ_B 3EDT_H

Probab=95.65  E-value=0.064  Score=40.02  Aligned_cols=64  Identities=13%  Similarity=0.020  Sum_probs=29.6

Q ss_pred             HHHHHHHHHhccCCHHHHHHHHHHHHHHhhhCCC-ccC-HHHHHHHHHHHHhCCCHHHHHHHHHHH
Q 048743          536 TFYYLVYGHSSLEMYRDITILWGDIKRNIESGVL-AVS-RDLYETLLLNFLQGGYFERVMEVIGYM  599 (653)
Q Consensus       536 t~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~p~-~~~y~~li~~~~~~g~~~~a~~~~~~m  599 (653)
                      +|+.+-..|...|++++|+.++++..+..+..|- .|+ ..+++.+...+...|++++|++.+++-
T Consensus         7 ~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~a   72 (78)
T PF13424_consen    7 AYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKA   72 (78)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            3444444555555555555555544433222221 121 334555555555556655555555543

...

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=95.59  E-value=0.071  Score=38.04  Aligned_cols=58  Identities=14%  Similarity=-0.004  Sum_probs=51.9

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHC
Q 048743          350 LINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELA  409 (653)
Q Consensus       350 li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  409 (653)
                      +-..+.+.|++++|.+.|+++.+..  |.+...+..+...+.+.|++++|...|++..+.
T Consensus         3 ~a~~~~~~g~~~~A~~~~~~~l~~~--P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~   60 (65)
T PF13432_consen    3 LARALYQQGDYDEAIAAFEQALKQD--PDNPEAWYLLGRILYQQGRYDEALAYYERALEL   60 (65)
T ss_dssp             HHHHHHHCTHHHHHHHHHHHHHCCS--TTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            4567889999999999999999998  888888999999999999999999999999764

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=95.58  E-value=0.79  Score=37.34  Aligned_cols=56  Identities=23%  Similarity=0.130  Sum_probs=32.6

Q ss_pred             HHHHHcCCHHHHHHHHHHHHHCCCCCC--HHHHHHHHHHHHHcCChHHHHHHHHHHHH
Q 048743          388 DALIQLGFLEAAHDILDDMELAGHPMD--STTYKSLLTAYYKVKMFREAEALLKQMRK  443 (653)
Q Consensus       388 ~~~~~~g~~~~a~~~~~~m~~~g~~p~--~~~~~~li~~~~~~~~~~~a~~~~~~m~~  443 (653)
                      .++-..|+.++|..+|++....|....  ...+-.+-+.+...|++++|+.+|++...
T Consensus         9 ~a~d~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~   66 (120)
T PF12688_consen    9 WAHDSLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEALE   66 (120)
T ss_pred             HHHHhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            344455666666666666666665443  22344455566666666666666666654

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=95.56  E-value=2.5  Score=40.93  Aligned_cols=138  Identities=12%  Similarity=0.206  Sum_probs=83.4

Q ss_pred             HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHH--cC----ChHHHHHHHHHHHHcCCccCchhhHHHHhhHHHHhhhccc
Q 048743          396 LEAAHDILDDMELAGHPMDSTTYKSLLTAYYK--VK----MFREAEALLKQMRKSCLVQNLSCEMVVSERFSEVADKSAS  469 (653)
Q Consensus       396 ~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~--~~----~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~l~~~~~~~~~  469 (653)
                      ++....+++.|.+.|++-+..+|-+.......  ..    ....|..+|+.|++...-.+..-.+.....+.....    
T Consensus        78 ~~~~~~~y~~L~~~gFk~~~y~~laA~~i~~~~~~~~~~~~~~ra~~iy~~mKk~H~fLTs~~D~~~a~lLA~~~~----  153 (297)
T PF13170_consen   78 FKEVLDIYEKLKEAGFKRSEYLYLAALIILEEEEKEDYDEIIQRAKEIYKEMKKKHPFLTSPEDYPFAALLAMTSE----  153 (297)
T ss_pred             HHHHHHHHHHHHHhccCccChHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHhCccccCccchhHHHHHhcccc----
Confidence            44567888999999999888877664433333  22    256789999999986432222111222222211100    


Q ss_pred             ccccccccCCHHHHHHHHHHHHHccCCC-CHHHHHHHHHHHHcCCC---HHHHHHHHHHHHhcCCCCCHHHHHHHHH
Q 048743          470 FTDTSSLMDKSDLAESLIQEMREEAALS-TIYKLNSSIYFFCKGKM---IGDALKIYRRMQEMKIRPTVETFYYLVY  542 (653)
Q Consensus       470 ~~~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~~y~~li~~~~~~g~---~~~a~~~~~~m~~~g~~p~~~t~~~li~  542 (653)
                           ....-.+.++.+++.+.+.|... |..-+-+-|-++.....   ..++.++++.+.+.|+++....|..+.-
T Consensus       154 -----~~e~l~~~~E~~Y~~L~~~~f~kgn~LQ~LS~iLaL~~~~~~~~v~r~~~l~~~l~~~~~kik~~~yp~lGl  225 (297)
T PF13170_consen  154 -----DVEELAERMEQCYQKLADAGFKKGNDLQFLSHILALSEGDDQEKVARVIELYNALKKNGVKIKYMHYPTLGL  225 (297)
T ss_pred             -----cHHHHHHHHHHHHHHHHHhCCCCCcHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCccccccccHHHH
Confidence                 00112356788888898888877 44344444444443222   4578889999999999988877665433

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=95.50  E-value=1.5  Score=38.07  Aligned_cols=137  Identities=8%  Similarity=-0.004  Sum_probs=102.9

Q ss_pred             CCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHHhhhCCCccCHH
Q 048743          495 ALSTIYKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRPTVETFYYLVYGHSSLEMYRDITILWGDIKRNIESGVLAVSRD  574 (653)
Q Consensus       495 ~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~p~~~  574 (653)
                      ..|++..--.|-.++.+.|++.+|...|++-..--+.-|......+.++....+++..|...++.+.+. ...+-.||. 
T Consensus        85 ~ApTvqnr~rLa~al~elGr~~EA~~hy~qalsG~fA~d~a~lLglA~Aqfa~~~~A~a~~tLe~l~e~-~pa~r~pd~-  162 (251)
T COG4700          85 IAPTVQNRYRLANALAELGRYHEAVPHYQQALSGIFAHDAAMLLGLAQAQFAIQEFAAAQQTLEDLMEY-NPAFRSPDG-  162 (251)
T ss_pred             hchhHHHHHHHHHHHHHhhhhhhhHHHHHHHhccccCCCHHHHHHHHHHHHhhccHHHHHHHHHHHhhc-CCccCCCCc-
Confidence            347787778899999999999999999998876445567788888999999999999999999988643 233344444 


Q ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHhhhhhHHhhhhhHHHHH
Q 048743          575 LYETLLLNFLQGGYFERVMEVIGYMKKQNMYVDKLMYKSEFLKHHKHLYRRLKVSNARTE  634 (653)
Q Consensus       575 ~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~l~~~~~~~~~~~~~~~~~~~~  634 (653)
                       .-.+.+.|...|+...|+.-|+....----|-...|-..+....|+...+..-...+++
T Consensus       163 -~Ll~aR~laa~g~~a~Aesafe~a~~~ypg~~ar~~Y~e~La~qgr~~ea~aq~~~v~d  221 (251)
T COG4700         163 -HLLFARTLAAQGKYADAESAFEVAISYYPGPQARIYYAEMLAKQGRLREANAQYVAVVD  221 (251)
T ss_pred             -hHHHHHHHHhcCCchhHHHHHHHHHHhCCCHHHHHHHHHHHHHhcchhHHHHHHHHHHH
Confidence             33456788999999999999999886554556667777666666766655554455554

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=95.31  E-value=0.23  Score=42.13  Aligned_cols=84  Identities=13%  Similarity=-0.027  Sum_probs=61.7

Q ss_pred             ccCCHHHHHHHHHHHHHccCCC-CHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCCHHHHH
Q 048743          476 LMDKSDLAESLIQEMREEAALS-TIYKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRPTVETFYYLVYGHSSLEMYRDIT  554 (653)
Q Consensus       476 ~~~~~~~a~~~~~~m~~~~~~p-~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~  554 (653)
                      ..|++++|..+|+-+...+  | +..-|-.|--++-..|++++|++.|........ -|...+-.+-.++...|+.+.|.
T Consensus        47 ~~G~l~~A~~~f~~L~~~D--p~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~~-ddp~~~~~ag~c~L~lG~~~~A~  123 (157)
T PRK15363         47 EVKEFAGAARLFQLLTIYD--AWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIKI-DAPQAPWAAAECYLACDNVCYAI  123 (157)
T ss_pred             HCCCHHHHHHHHHHHHHhC--cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCC-CCchHHHHHHHHHHHcCCHHHHH
Confidence            3788888888888877655  4 555566677777778888888888888777542 35666777777888888888888


Q ss_pred             HHHHHHHH
Q 048743          555 ILWGDIKR  562 (653)
Q Consensus       555 ~~~~~~~~  562 (653)
                      +.|+....
T Consensus       124 ~aF~~Ai~  131 (157)
T PRK15363        124 KALKAVVR  131 (157)
T ss_pred             HHHHHHHH
Confidence            88876653

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=95.31  E-value=0.35  Score=45.47  Aligned_cols=119  Identities=14%  Similarity=0.073  Sum_probs=97.6

Q ss_pred             cccchHHHHHHHHHHHHhccchhHHHHHHHHhhhhcCCCCchhHHHHHHHhhccCCcchhhhHHHHHHHHHhccCCchhH
Q 048743           14 WEGSSREVLLRKLESASKNHQVGEAWETFNDFQRLHGIPERHVVNRFITDLCYSAEPHWLQKACDLVLKIQKGKADLLQL   93 (653)
Q Consensus        14 ~~~p~~~~~~~~i~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~   93 (653)
                      -++-+.+-+.-+-..|...|+.+.|..-|....+.. -+++..+..+-.++..+.+...-.++.++|.+..+.++.  |.
T Consensus       151 ~nP~d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL~-g~n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al~~D~~--~i  227 (287)
T COG4235         151 QNPGDAEGWDLLGRAYMALGRASDALLAYRNALRLA-GDNPEILLGLAEALYYQAGQQMTAKARALLRQALALDPA--NI  227 (287)
T ss_pred             hCCCCchhHHHHHHHHHHhcchhHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHhcCCc--cH
Confidence            445577788888999999999999999999988842 245667788888888888777789999999999887665  78


Q ss_pred             HHHHHHHHHHHhcCCCchHHHHHHHHHcCccCCCchhHHHHHHH
Q 048743           94 DLLAKLSLSLARAQMPVPASMILRLMLGRENLPCSDLLLLVFVH  137 (653)
Q Consensus        94 ~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~  137 (653)
                      .+...|...+...|++.+|...++.|.+.  .|....+..+|..
T Consensus       228 ral~lLA~~afe~g~~~~A~~~Wq~lL~~--lp~~~~rr~~ie~  269 (287)
T COG4235         228 RALSLLAFAAFEQGDYAEAAAAWQMLLDL--LPADDPRRSLIER  269 (287)
T ss_pred             HHHHHHHHHHHHcccHHHHHHHHHHHHhc--CCCCCchHHHHHH
Confidence            88888889999999999999999999987  4555556666553

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=95.26  E-value=5.6  Score=43.28  Aligned_cols=85  Identities=8%  Similarity=0.008  Sum_probs=55.6

Q ss_pred             ccccCCHH---HHHHHHHHHHHccCCC-CHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCC
Q 048743          474 SSLMDKSD---LAESLIQEMREEAALS-TIYKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRPTVETFYYLVYGHSSLEM  549 (653)
Q Consensus       474 ~~~~~~~~---~a~~~~~~m~~~~~~p-~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~  549 (653)
                      +-+.++..   +|.-+++.-....  | |..+=-.+|+.|+-.|-+..|.++|+.|--..++-|..-|. +.+-+...|+
T Consensus       446 ~rktnd~~~l~eaI~LLE~glt~s--~hnf~~KLlLiriY~~lGa~p~a~~~y~tLdIK~IQ~DTlgh~-~~~~~~t~g~  522 (932)
T KOG2053|consen  446 WRKTNDLTDLFEAITLLENGLTKS--PHNFQTKLLLIRIYSYLGAFPDAYELYKTLDIKNIQTDTLGHL-IFRRAETSGR  522 (932)
T ss_pred             HHhcCcHHHHHHHHHHHHHHhhcC--CccHHHHHHHHHHHHHhcCChhHHHHHHhcchHHhhhccchHH-HHHHHHhccc
Confidence            33455544   3444445444332  3 55555678889999999999999999998777877766553 3455566677


Q ss_pred             HHHHHHHHHHHH
Q 048743          550 YRDITILWGDIK  561 (653)
Q Consensus       550 ~~~a~~~~~~~~  561 (653)
                      +..+...++...
T Consensus       523 ~~~~s~~~~~~l  534 (932)
T KOG2053|consen  523 SSFASNTFNEHL  534 (932)
T ss_pred             chhHHHHHHHHH
Confidence            777766666544

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=95.26  E-value=0.41  Score=45.37  Aligned_cols=102  Identities=9%  Similarity=-0.053  Sum_probs=79.5

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCc---ccHHHHHHHHHHcCCHHHHHHHHHHHHHCC--CCCCHHHHH
Q 048743          345 RAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGES---TLCSDVIDALIQLGFLEAAHDILDDMELAG--HPMDSTTYK  419 (653)
Q Consensus       345 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~---~~~~~li~~~~~~g~~~~a~~~~~~m~~~g--~~p~~~~~~  419 (653)
                      ..|...+..+.+.|++++|...|+.+.+..  |.+.   ..+--+...|...|+++.|...|+.+.+.-  -+.....+-
T Consensus       144 ~~Y~~A~~l~~~~~~y~~Ai~af~~fl~~y--P~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl~  221 (263)
T PRK10803        144 TDYNAAIALVQDKSRQDDAIVAFQNFVKKY--PDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAMF  221 (263)
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHHC--cCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHHH
Confidence            456777766677899999999999999877  5443   357788899999999999999999998642  112344555


Q ss_pred             HHHHHHHHcCChHHHHHHHHHHHHcCCccCc
Q 048743          420 SLLTAYYKVKMFREAEALLKQMRKSCLVQNL  450 (653)
Q Consensus       420 ~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~  450 (653)
                      .+...+...|+.++|..+|+.+.+.  -|+.
T Consensus       222 klg~~~~~~g~~~~A~~~~~~vi~~--yP~s  250 (263)
T PRK10803        222 KVGVIMQDKGDTAKAKAVYQQVIKK--YPGT  250 (263)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHH--CcCC
Confidence            5667788999999999999999875  3553

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=95.16  E-value=0.3  Score=46.33  Aligned_cols=105  Identities=13%  Similarity=0.110  Sum_probs=76.7

Q ss_pred             HHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCH----HHHHHHHHHHhccCCHHHHHHHHHHHHHHhhhCCCccCHH
Q 048743          499 IYKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRPTV----ETFYYLVYGHSSLEMYRDITILWGDIKRNIESGVLAVSRD  574 (653)
Q Consensus       499 ~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~----~t~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~p~~~  574 (653)
                      ...|+..+..+.+.|++++|...|+.+...  .|+.    ..+-.+...|...|++++|...|..+.+.......  ...
T Consensus       143 ~~~Y~~A~~l~~~~~~y~~Ai~af~~fl~~--yP~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~--~~d  218 (263)
T PRK10803        143 NTDYNAAIALVQDKSRQDDAIVAFQNFVKK--YPDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPK--AAD  218 (263)
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHH--CcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcc--hhH
Confidence            345666666667789999999999999985  3443    46677888999999999999999988743222222  233


Q ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCCHH
Q 048743          575 LYETLLLNFLQGGYFERVMEVIGYMKKQNMYVDKL  609 (653)
Q Consensus       575 ~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~  609 (653)
                      .+-.+...+...|+.++|..+|++..+.  .|+..
T Consensus       219 Al~klg~~~~~~g~~~~A~~~~~~vi~~--yP~s~  251 (263)
T PRK10803        219 AMFKVGVIMQDKGDTAKAKAVYQQVIKK--YPGTD  251 (263)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHH--CcCCH
Confidence            3444566777899999999999998755  35543

>PF04053 Coatomer_WDAD: Coatomer WD associated region ; InterPro: IPR006692 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=94.91  E-value=1.3  Score=45.47  Aligned_cols=158  Identities=13%  Similarity=0.069  Sum_probs=99.5

Q ss_pred             HHHHhcCChhhHHHHHHHHH-hcCCCccHHHHHHHHHHHHhcCChhhhHHHHHHhhhcCCCcccchhHHHHHHHHhhhcc
Q 048743          185 HACVRFGSSLKGQHIMELMS-QTGVVADAHSIIILAQIHEMNCQRDELKKFKCYIDQLSTPFAHHYQQFYESLLSLHFKF  263 (653)
Q Consensus       185 ~~~~~~g~~~~a~~l~~~m~-~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~  263 (653)
                      +...-+|+++.+.++...=. -..+ | ..-...++..+.+.|-.+.|.++-..-               ..-.+...++
T Consensus       269 k~av~~~d~~~v~~~i~~~~ll~~i-~-~~~~~~i~~fL~~~G~~e~AL~~~~D~---------------~~rFeLAl~l  331 (443)
T PF04053_consen  269 KTAVLRGDFEEVLRMIAASNLLPNI-P-KDQGQSIARFLEKKGYPELALQFVTDP---------------DHRFELALQL  331 (443)
T ss_dssp             HHHHHTT-HHH-----HHHHTGGG----HHHHHHHHHHHHHTT-HHHHHHHSS-H---------------HHHHHHHHHC
T ss_pred             HHHHHcCChhhhhhhhhhhhhcccC-C-hhHHHHHHHHHHHCCCHHHHHhhcCCh---------------HHHhHHHHhc
Confidence            34445788888777664111 1111 2 233667777777888888887774321               2233444567


Q ss_pred             CCHHHHHHHHHHhcccCCCCCCchhhhcccccchhccCCCcccchhhhccchhhhHHHHHHhhhhhHHHHHHhcCCCCCC
Q 048743          264 DDIDAAGELILDMNRYREPLPNPKLRQDAQKPYLISIGSPNLRCGLKLQIMPELLEKDSILKMEGKQELVLFRNGKLLHS  343 (653)
Q Consensus       264 g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~  343 (653)
                      |+++.|.++.++.                                                                 .+
T Consensus       332 g~L~~A~~~a~~~-----------------------------------------------------------------~~  346 (443)
T PF04053_consen  332 GNLDIALEIAKEL-----------------------------------------------------------------DD  346 (443)
T ss_dssp             T-HHHHHHHCCCC-----------------------------------------------------------------ST
T ss_pred             CCHHHHHHHHHhc-----------------------------------------------------------------Cc
Confidence            8888888776555                                                                 46


Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 048743          344 NRAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTYKSLLT  423 (653)
Q Consensus       344 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~  423 (653)
                      ...|..|-+.+.+.|+++-|++.|.+...          |..|+-.|.-.|+.+...++.+.....|-      +|....
T Consensus       347 ~~~W~~Lg~~AL~~g~~~lAe~c~~k~~d----------~~~L~lLy~~~g~~~~L~kl~~~a~~~~~------~n~af~  410 (443)
T PF04053_consen  347 PEKWKQLGDEALRQGNIELAEECYQKAKD----------FSGLLLLYSSTGDREKLSKLAKIAEERGD------INIAFQ  410 (443)
T ss_dssp             HHHHHHHHHHHHHTTBHHHHHHHHHHCT-----------HHHHHHHHHHCT-HHHHHHHHHHHHHTT-------HHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHhhcC----------ccccHHHHHHhCCHHHHHHHHHHHHHccC------HHHHHH
Confidence            66889999999999999999999887543          88888888888998888888777766653      456666


Q ss_pred             HHHHcCChHHHHHHHHH
Q 048743          424 AYYKVKMFREAEALLKQ  440 (653)
Q Consensus       424 ~~~~~~~~~~a~~~~~~  440 (653)
                      ++.-.|+.++..+++.+
T Consensus       411 ~~~~lgd~~~cv~lL~~  427 (443)
T PF04053_consen  411 AALLLGDVEECVDLLIE  427 (443)
T ss_dssp             HHHHHT-HHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHH
Confidence            67777888887766543

This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. While clathrin mediates endocytic protein transport, and transport from ER to Golgi, coatomers primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. For example, the coatomer COP1 (coat protein complex 1) is responsible for reverse transport of recycled proteins from Golgi and pre-Golgi compartments back to the ER, while COPII buds vesicles from the ER to the Golgi []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Activated small guanine triphosphatases (GTPases) attract coat proteins to specific membrane export sites, thereby linking coatomers to export cargos. As coat proteins polymerise, vesicles are formed and budded from membrane-bound organelles. Coatomer complexes also influence Golgi structural integrity, as well as the processing, activity, and endocytic recycling of LDL receptors. In mammals, coatomer complexes can only be recruited by membranes associated to ADP-ribosylation factors (ARFs), which are small GTP-binding proteins. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the WD-associated region found in coatomer subunits alpha, beta and beta' subunits. The alpha-subunit (RET1P) of the coatomer complex in Saccharomyces cerevisiae (Baker's yeast), participates in membrane transport between the endoplasmic reticulum and Golgi apparatus. The protein contains six WD-40 repeat motifs in its N-terminal region []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0005198 structural molecule activity, 0006886 intracellular protein transport, 0016192 vesicle-mediated transport, 0030117 membrane coat; PDB: 3MKQ_B.

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=94.84  E-value=0.14  Score=37.50  Aligned_cols=55  Identities=20%  Similarity=0.079  Sum_probs=31.8

Q ss_pred             HHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHC
Q 048743          353 GYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELA  409 (653)
Q Consensus       353 ~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  409 (653)
                      .|.+.+++++|.+.++.+...+  |.+...|...-..+.+.|++++|...|+...+.
T Consensus         4 ~~~~~~~~~~A~~~~~~~l~~~--p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~   58 (73)
T PF13371_consen    4 IYLQQEDYEEALEVLERALELD--PDDPELWLQRARCLFQLGRYEEALEDLERALEL   58 (73)
T ss_pred             HHHhCCCHHHHHHHHHHHHHhC--cccchhhHHHHHHHHHhccHHHHHHHHHHHHHH
Confidence            4555566666666666665555  555555555555566666666666666655543

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=94.71  E-value=4.9  Score=39.94  Aligned_cols=170  Identities=11%  Similarity=0.070  Sum_probs=103.9

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHhcCC--CCCCcccHHHHHHHHHH---cCCHHHHHHHHHHHHHCCCCCCHHHHHHH
Q 048743          347 MAKLINGYKKHGKNSELSWLLLSIKKEHH--SFGESTLCSDVIDALIQ---LGFLEAAHDILDDMELAGHPMDSTTYKSL  421 (653)
Q Consensus       347 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~--~~~~~~~~~~li~~~~~---~g~~~~a~~~~~~m~~~g~~p~~~~~~~l  421 (653)
                      .-.++-+|....+++...++++.+..-..  .+....+--...-++-+   .|+.++|++++..+....-.+++.+|..+
T Consensus       144 v~~lllSyRdiqdydamI~Lve~l~~~p~~~~~~~~~i~~~yafALnRrn~~gdre~Al~il~~~l~~~~~~~~d~~gL~  223 (374)
T PF13281_consen  144 VINLLLSYRDIQDYDAMIKLVETLEALPTCDVANQHNIKFQYAFALNRRNKPGDREKALQILLPVLESDENPDPDTLGLL  223 (374)
T ss_pred             HHHHHHHhhhhhhHHHHHHHHHHhhccCccchhcchHHHHHHHHHHhhcccCCCHHHHHHHHHHHHhccCCCChHHHHHH
Confidence            33666679999999999999999987631  11122222334555666   79999999999997776777888888887


Q ss_pred             HHHHH----Hc-----CChHHHHHHHHHHHHcCCccCchhhHHHHhhHHHHhhhcccccccccccCCHHHHHHH---HHH
Q 048743          422 LTAYY----KV-----KMFREAEALLKQMRKSCLVQNLSCEMVVSERFSEVADKSASFTDTSSLMDKSDLAESL---IQE  489 (653)
Q Consensus       422 i~~~~----~~-----~~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~a~~~---~~~  489 (653)
                      -..|-    ..     ...++|...|.+-.+.  .|+.+..+=. +.+.....      .   ....-.+..++   +..
T Consensus       224 GRIyKD~~~~s~~~d~~~ldkAi~~Y~kgFe~--~~~~Y~GIN~-AtLL~~~g------~---~~~~~~el~~i~~~l~~  291 (374)
T PF13281_consen  224 GRIYKDLFLESNFTDRESLDKAIEWYRKGFEI--EPDYYSGINA-ATLLMLAG------H---DFETSEELRKIGVKLSS  291 (374)
T ss_pred             HHHHHHHHHHcCccchHHHHHHHHHHHHHHcC--CccccchHHH-HHHHHHcC------C---cccchHHHHHHHHHHHH
Confidence            76652    21     2367788777776653  4655322222 22222111      0   00111122222   222


Q ss_pred             -HHHccC---CCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhc
Q 048743          490 -MREEAA---LSTIYKLNSSIYFFCKGKMIGDALKIYRRMQEM  528 (653)
Q Consensus       490 -m~~~~~---~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~  528 (653)
                       +.++|.   ..+-..+.+++.++.-.|+.++|.+..++|...
T Consensus       292 llg~kg~~~~~~dYWd~ATl~Ea~vL~~d~~ka~~a~e~~~~l  334 (374)
T PF13281_consen  292 LLGRKGSLEKMQDYWDVATLLEASVLAGDYEKAIQAAEKAFKL  334 (374)
T ss_pred             HHHhhccccccccHHHHHHHHHHHHHcCCHHHHHHHHHHHhhc
Confidence             223332   236666778888888888888888888888865

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=94.57  E-value=0.29  Score=45.81  Aligned_cols=93  Identities=18%  Similarity=0.055  Sum_probs=79.2

Q ss_pred             HHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHHcCC
Q 048743          352 NGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPM-DSTTYKSLLTAYYKVKM  430 (653)
Q Consensus       352 ~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p-~~~~~~~li~~~~~~~~  430 (653)
                      +-+.+.+++++|+..|.+...-.  |.|.+.|..=..+|++.|.++.|.+=.+..+.-  .| -..+|..|-.+|...|+
T Consensus        89 N~~m~~~~Y~eAv~kY~~AI~l~--P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al~i--Dp~yskay~RLG~A~~~~gk  164 (304)
T KOG0553|consen   89 NKLMKNKDYQEAVDKYTEAIELD--PTNAVYYCNRAAAYSKLGEYEDAVKDCESALSI--DPHYSKAYGRLGLAYLALGK  164 (304)
T ss_pred             HHHHHhhhHHHHHHHHHHHHhcC--CCcchHHHHHHHHHHHhcchHHHHHHHHHHHhc--ChHHHHHHHHHHHHHHccCc
Confidence            34667899999999999999887  888888999999999999999999888776653  23 34589999999999999


Q ss_pred             hHHHHHHHHHHHHcCCccCc
Q 048743          431 FREAEALLKQMRKSCLVQNL  450 (653)
Q Consensus       431 ~~~a~~~~~~m~~~~~~p~~  450 (653)
                      +++|.+.|++..+  +.|+.
T Consensus       165 ~~~A~~aykKaLe--ldP~N  182 (304)
T KOG0553|consen  165 YEEAIEAYKKALE--LDPDN  182 (304)
T ss_pred             HHHHHHHHHhhhc--cCCCc
Confidence            9999999988876  66775

>PF13414 TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2PL2_B 3IEG_B 2FBN_A

Probab=94.57  E-value=0.13  Score=37.10  Aligned_cols=63  Identities=11%  Similarity=0.128  Sum_probs=43.2

Q ss_pred             CHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccC-CHHHHHHHHHHHH
Q 048743          498 TIYKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRPTVETFYYLVYGHSSLE-MYRDITILWGDIK  561 (653)
Q Consensus       498 ~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~-~~~~a~~~~~~~~  561 (653)
                      +..+|..+-..+...|++++|+..|++.++.. +-+...|..+-.++...| ++++|.+.++...
T Consensus         2 ~a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~-p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al   65 (69)
T PF13414_consen    2 NAEAWYNLGQIYFQQGDYEEAIEYFEKAIELD-PNNAEAYYNLGLAYMKLGKDYEEAIEDFEKAL   65 (69)
T ss_dssp             SHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHS-TTHHHHHHHHHHHHHHTTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhCccHHHHHHHHHHHH
Confidence            34567777777777788888888887777752 123456666777777777 5777777776654

...

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=94.55  E-value=5.5  Score=39.60  Aligned_cols=172  Identities=11%  Similarity=0.017  Sum_probs=86.2

Q ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHHcCCccCc---hhhHHHHhhHHHHhhhcccccccccccCCHHHHHHHHHHHHHcc
Q 048743          418 YKSLLTAYYKVKMFREAEALLKQMRKSCLVQNL---SCEMVVSERFSEVADKSASFTDTSSLMDKSDLAESLIQEMREEA  494 (653)
Q Consensus       418 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~---~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~~  494 (653)
                      ...++-+|....+++...++++.|...   |+.   ....+....-.++-+        =.+.|+.++|.+++..+....
T Consensus       144 v~~lllSyRdiqdydamI~Lve~l~~~---p~~~~~~~~~i~~~yafALnR--------rn~~gdre~Al~il~~~l~~~  212 (374)
T PF13281_consen  144 VINLLLSYRDIQDYDAMIKLVETLEAL---PTCDVANQHNIKFQYAFALNR--------RNKPGDREKALQILLPVLESD  212 (374)
T ss_pred             HHHHHHHhhhhhhHHHHHHHHHHhhcc---CccchhcchHHHHHHHHHHhh--------cccCCCHHHHHHHHHHHHhcc
Confidence            334555688888899999998888763   322   111111111111111        013777888888887766555


Q ss_pred             CCCCHHHHHHHHHHHHc----C-----CCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHH----
Q 048743          495 ALSTIYKLNSSIYFFCK----G-----KMIGDALKIYRRMQEMKIRPTVETFYYLVYGHSSLEMYRDITILWGDIK----  561 (653)
Q Consensus       495 ~~p~~~~y~~li~~~~~----~-----g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~~~----  561 (653)
                      -.++..+|..+-+.|-.    .     ...++|++.|.+  ...+.||..+=-.+...+...|...+...-.+.+.    
T Consensus       213 ~~~~~d~~gL~GRIyKD~~~~s~~~d~~~ldkAi~~Y~k--gFe~~~~~Y~GIN~AtLL~~~g~~~~~~~el~~i~~~l~  290 (374)
T PF13281_consen  213 ENPDPDTLGLLGRIYKDLFLESNFTDRESLDKAIEWYRK--GFEIEPDYYSGINAATLLMLAGHDFETSEELRKIGVKLS  290 (374)
T ss_pred             CCCChHHHHHHHHHHHHHHHHcCccchHHHHHHHHHHHH--HHcCCccccchHHHHHHHHHcCCcccchHHHHHHHHHHH
Confidence            55677777776666542    1     124455555542  23344443332233333444443222221111111    


Q ss_pred             HHhhhCCCcc---CHHHHHHHHHHHHhCCCHHHHHHHHHHHHhC
Q 048743          562 RNIESGVLAV---SRDLYETLLLNFLQGGYFERVMEVIGYMKKQ  602 (653)
Q Consensus       562 ~~~~~~~~~p---~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~  602 (653)
                      ......|...   +-=.+.+++.+..-.|+.++|.+..+.|.+.
T Consensus       291 ~llg~kg~~~~~~dYWd~ATl~Ea~vL~~d~~ka~~a~e~~~~l  334 (374)
T PF13281_consen  291 SLLGRKGSLEKMQDYWDVATLLEASVLAGDYEKAIQAAEKAFKL  334 (374)
T ss_pred             HHHHhhccccccccHHHHHHHHHHHHHcCCHHHHHHHHHHHhhc
Confidence            1111222221   2222345667777777777777777777644

>PF13424 TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 4A1S_B 3CEQ_B 3EDT_H

Probab=94.51  E-value=0.14  Score=38.09  Aligned_cols=64  Identities=14%  Similarity=0.150  Sum_probs=51.6

Q ss_pred             HHHHHHHHHHHHcCCCHHHHHHHHHHHHhc--CCC---CC-HHHHHHHHHHHhccCCHHHHHHHHHHHHH
Q 048743          499 IYKLNSSIYFFCKGKMIGDALKIYRRMQEM--KIR---PT-VETFYYLVYGHSSLEMYRDITILWGDIKR  562 (653)
Q Consensus       499 ~~~y~~li~~~~~~g~~~~a~~~~~~m~~~--g~~---p~-~~t~~~li~~~~~~~~~~~a~~~~~~~~~  562 (653)
                      ..+|+.+-..|...|++++|++.|++..+.  ...   |+ ..++..+-..+...|++++|++++++..+
T Consensus         5 a~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al~   74 (78)
T PF13424_consen    5 ANAYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKALD   74 (78)
T ss_dssp             HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            457899999999999999999999998853  122   33 45788888999999999999999987754

...

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=94.46  E-value=0.35  Score=44.66  Aligned_cols=120  Identities=13%  Similarity=0.080  Sum_probs=80.0

Q ss_pred             CCchhHHHHHHHHHHHHhc-----CCCchHHHHHHHHHcCccCCCchhHHHHHHHHhhcccccccchHHHHHHHHHhhhh
Q 048743           88 ADLLQLDLLAKLSLSLARA-----QMPVPASMILRLMLGRENLPCSDLLLLVFVHMVKTEIGTCLASNFLIQLCDVFLHL  162 (653)
Q Consensus        88 ~~~~~~~t~~~li~~~~~~-----g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~~~~l~~~~~~~~~~  162 (653)
                      |...|-.+|-..+..|...     +.++-.-..+..|.+.|+.-|..+|+.||..+-+..                    
T Consensus        62 ~~~RdK~sfl~~V~~F~E~sVr~R~HveFIy~ALk~m~eyGVerDl~vYk~LlnvfPKgk--------------------  121 (406)
T KOG3941|consen   62 PEKRDKDSFLAAVATFKEKSVRGRTHVEFIYTALKYMKEYGVERDLDVYKGLLNVFPKGK--------------------  121 (406)
T ss_pred             cccccHHHHHHHHHHHHHhhhcccchHHHHHHHHHHHHHhcchhhHHHHHHHHHhCcccc--------------------
Confidence            3345777888877777653     445555666788899999999999998877554432                    


Q ss_pred             hhhhcCCccCCCCchhhHHHHHHHHHhc-CChhhHHHHHHHHHhcCCCccHHHHHHHHHHHHhcCCh-hhhHHHHHHhhh
Q 048743          163 SAEKSNGAELIKPDTMIFNLVLHACVRF-GSSLKGQHIMELMSQTGVVADAHSIIILAQIHEMNCQR-DELKKFKCYIDQ  240 (653)
Q Consensus       163 ~~a~~~~~~~~~~~~~~yn~li~~~~~~-g~~~~a~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~-~~a~~~~~~~~~  240 (653)
                                +.|.    |.+=..+..- ..-+-+..++++|...|+.||..+-.+|++++++.+-. .+..++.-.|-+
T Consensus       122 ----------fiP~----nvfQ~~F~HYP~QQ~C~I~vLeqME~hGVmPdkE~e~~lvn~FGr~~~p~~K~~Rm~yWmPk  187 (406)
T KOG3941|consen  122 ----------FIPQ----NVFQKVFLHYPQQQNCAIKVLEQMEWHGVMPDKEIEDILVNAFGRWNFPTKKVKRMLYWMPK  187 (406)
T ss_pred             ----------cccH----HHHHHHHhhCchhhhHHHHHHHHHHHcCCCCchHHHHHHHHHhccccccHHHHHHHHHhhhh
Confidence                      1121    1111222221 12345788999999999999999999999999987753 344555555544


Q ss_pred             c
Q 048743          241 L  241 (653)
Q Consensus       241 ~  241 (653)
                      .
T Consensus       188 f  188 (406)
T KOG3941|consen  188 F  188 (406)
T ss_pred             h
Confidence            3

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=94.33  E-value=8.8  Score=41.03  Aligned_cols=99  Identities=9%  Similarity=0.018  Sum_probs=76.9

Q ss_pred             cCCHHHHHHHHHHHHHccCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCCHHHHHHH
Q 048743          477 MDKSDLAESLIQEMREEAALSTIYKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRPTVETFYYLVYGHSSLEMYRDITIL  556 (653)
Q Consensus       477 ~~~~~~a~~~~~~m~~~~~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~  556 (653)
                      .|+..+|.++-.+..-    ||-..|---+.+++..+++++-+++-+.++.      +.-|..++.+|.+.|+.++|.++
T Consensus       697 ~g~~k~a~ql~~~Fki----pdKr~~wLk~~aLa~~~kweeLekfAkskks------PIGy~PFVe~c~~~~n~~EA~KY  766 (829)
T KOG2280|consen  697 IGQNKRAEQLKSDFKI----PDKRLWWLKLTALADIKKWEELEKFAKSKKS------PIGYLPFVEACLKQGNKDEAKKY  766 (829)
T ss_pred             ccchHHHHHHHHhcCC----cchhhHHHHHHHHHhhhhHHHHHHHHhccCC------CCCchhHHHHHHhcccHHHHhhh
Confidence            6788888887666654    7888999999999999999998887776542      45577889999999999999999


Q ss_pred             HHHHHHHhhhCCCccCHHHHHHHHHHHHhCCCHHHHHHHHHH
Q 048743          557 WGDIKRNIESGVLAVSRDLYETLLLNFLQGGYFERVMEVIGY  598 (653)
Q Consensus       557 ~~~~~~~~~~~~~~p~~~~y~~li~~~~~~g~~~~a~~~~~~  598 (653)
                      +....      +.       .-...+|.+.|++.+|.++--+
T Consensus       767 iprv~------~l-------~ekv~ay~~~~~~~eAad~A~~  795 (829)
T KOG2280|consen  767 IPRVG------GL-------QEKVKAYLRVGDVKEAADLAAE  795 (829)
T ss_pred             hhccC------Ch-------HHHHHHHHHhccHHHHHHHHHH
Confidence            84331      11       1567789999999998876543

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=94.04  E-value=6.6  Score=38.51  Aligned_cols=229  Identities=13%  Similarity=0.013  Sum_probs=148.9

Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCC-CCCCHHH--HHHHHHHH
Q 048743          349 KLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAG-HPMDSTT--YKSLLTAY  425 (653)
Q Consensus       349 ~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g-~~p~~~~--~~~li~~~  425 (653)
                      .|.-..-+.|+.+.|...-+.....-  +.-...+...+...|..|+++.|+++++.-.... +.+++.-  -..|+.+-
T Consensus       159 gLyleAqr~GareaAr~yAe~Aa~~A--p~l~WA~~AtLe~r~~~gdWd~AlkLvd~~~~~~vie~~~aeR~rAvLLtAk  236 (531)
T COG3898         159 GLYLEAQRLGAREAARHYAERAAEKA--PQLPWAARATLEARCAAGDWDGALKLVDAQRAAKVIEKDVAERSRAVLLTAK  236 (531)
T ss_pred             HHHHHHHhcccHHHHHHHHHHHHhhc--cCCchHHHHHHHHHHhcCChHHHHHHHHHHHHHHhhchhhHHHHHHHHHHHH
Confidence            44444557899998988888877665  4445568899999999999999999999875533 3444432  22333322


Q ss_pred             HH---cCChHHHHHHHHHHHHcCCccCchhhHHHHhhHHHHhhhcccccccccccCCHHHHHHHHHHHHHccCCCCHHHH
Q 048743          426 YK---VKMFREAEALLKQMRKSCLVQNLSCEMVVSERFSEVADKSASFTDTSSLMDKSDLAESLIQEMREEAALSTIYKL  502 (653)
Q Consensus       426 ~~---~~~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~y  502 (653)
                      ..   ..++..|...-.+-  .++.||.....+...             ..+.+.|++.++-.+++.+-+..-+|++  +
T Consensus       237 A~s~ldadp~~Ar~~A~~a--~KL~pdlvPaav~AA-------------ralf~d~~~rKg~~ilE~aWK~ePHP~i--a  299 (531)
T COG3898         237 AMSLLDADPASARDDALEA--NKLAPDLVPAAVVAA-------------RALFRDGNLRKGSKILETAWKAEPHPDI--A  299 (531)
T ss_pred             HHHHhcCChHHHHHHHHHH--hhcCCccchHHHHHH-------------HHHHhccchhhhhhHHHHHHhcCCChHH--H
Confidence            21   13355555544333  446777633333221             2344589999999999999998755543  3


Q ss_pred             HHHHHHHHcCCCHHHHHHHHHHHHh-cCCCCC-HHHHHHHHHHHhccCCHHHHHHHHHHHHHHhhhCCCccCHHHHHHHH
Q 048743          503 NSSIYFFCKGKMIGDALKIYRRMQE-MKIRPT-VETFYYLVYGHSSLEMYRDITILWGDIKRNIESGVLAVSRDLYETLL  580 (653)
Q Consensus       503 ~~li~~~~~~g~~~~a~~~~~~m~~-~g~~p~-~~t~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~p~~~~y~~li  580 (653)
                        .+..+.+.|+  .+++-+++... ..++|| ....-.+..+-...|++..|..--+...      ...|....|-.|.
T Consensus       300 --~lY~~ar~gd--ta~dRlkRa~~L~slk~nnaes~~~va~aAlda~e~~~ARa~Aeaa~------r~~pres~~lLlA  369 (531)
T COG3898         300 --LLYVRARSGD--TALDRLKRAKKLESLKPNNAESSLAVAEAALDAGEFSAARAKAEAAA------REAPRESAYLLLA  369 (531)
T ss_pred             --HHHHHhcCCC--cHHHHHHHHHHHHhcCccchHHHHHHHHHHHhccchHHHHHHHHHHh------hhCchhhHHHHHH
Confidence              3344466665  34444555443 345666 4556677788888999888776555443      5678888898887


Q ss_pred             HHHH-hCCCHHHHHHHHHHHHhCCCCC
Q 048743          581 LNFL-QGGYFERVMEVIGYMKKQNMYV  606 (653)
Q Consensus       581 ~~~~-~~g~~~~a~~~~~~m~~~g~~p  606 (653)
                      +.-. ..|+-.++...+.+-.+.--.|
T Consensus       370 dIeeAetGDqg~vR~wlAqav~APrdP  396 (531)
T COG3898         370 DIEEAETGDQGKVRQWLAQAVKAPRDP  396 (531)
T ss_pred             HHHhhccCchHHHHHHHHHHhcCCCCC
Confidence            7744 5599999998888776553333

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=93.94  E-value=3.7  Score=37.37  Aligned_cols=143  Identities=16%  Similarity=0.036  Sum_probs=84.4

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCccc-HHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCC-------HHH
Q 048743          346 AMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTL-CSDVIDALIQLGFLEAAHDILDDMELAGHPMD-------STT  417 (653)
Q Consensus       346 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~-~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~-------~~~  417 (653)
                      ..-.+..++.+.|+++.|...+++..+..  |.+... +...+.+.+.-.......         ....|       ...
T Consensus        44 A~l~la~a~y~~~~y~~A~~~~~~fi~~y--P~~~~~~~A~Y~~g~~~~~~~~~~~---------~~~~D~~~~~~A~~~  112 (203)
T PF13525_consen   44 AQLMLAYAYYKQGDYEEAIAAYERFIKLY--PNSPKADYALYMLGLSYYKQIPGIL---------RSDRDQTSTRKAIEE  112 (203)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHH---TT-TTHHHHHHHHHHHHHHHHHHHH----------TT---HHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHC--CCCcchhhHHHHHHHHHHHhCccch---------hcccChHHHHHHHHH
Confidence            45578889999999999999999998877  333321 444455444322222111         00111       235


Q ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHHcCCccCchhhHHHHhhHHHHhhhcccccccccccCCHHHHHHHHHHHHHccCCC
Q 048743          418 YKSLLTAYYKVKMFREAEALLKQMRKSCLVQNLSCEMVVSERFSEVADKSASFTDTSSLMDKSDLAESLIQEMREEAALS  497 (653)
Q Consensus       418 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~p  497 (653)
                      +..++.-|-.+....+|...+..+.+. +.-                 +.-.+.+.|-+.|.+..|..-++.+.+.=  |
T Consensus       113 ~~~li~~yP~S~y~~~A~~~l~~l~~~-la~-----------------~e~~ia~~Y~~~~~y~aA~~r~~~v~~~y--p  172 (203)
T PF13525_consen  113 FEELIKRYPNSEYAEEAKKRLAELRNR-LAE-----------------HELYIARFYYKRGKYKAAIIRFQYVIENY--P  172 (203)
T ss_dssp             HHHHHHH-TTSTTHHHHHHHHHHHHHH-HHH-----------------HHHHHHHHHHCTT-HHHHHHHHHHHHHHS--T
T ss_pred             HHHHHHHCcCchHHHHHHHHHHHHHHH-HHH-----------------HHHHHHHHHHHcccHHHHHHHHHHHHHHC--C
Confidence            566677777777777887777666542 100                 00012245677999999999999988753  4


Q ss_pred             CH----HHHHHHHHHHHcCCCHHHHH
Q 048743          498 TI----YKLNSSIYFFCKGKMIGDAL  519 (653)
Q Consensus       498 ~~----~~y~~li~~~~~~g~~~~a~  519 (653)
                      ++    ...-.++.+|.+.|..+.+.
T Consensus       173 ~t~~~~~al~~l~~~y~~l~~~~~a~  198 (203)
T PF13525_consen  173 DTPAAEEALARLAEAYYKLGLKQAAD  198 (203)
T ss_dssp             TSHHHHHHHHHHHHHHHHTT-HHHHH
T ss_pred             CCchHHHHHHHHHHHHHHhCChHHHH
Confidence            33    34567888888888877443

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=93.92  E-value=5.2  Score=36.94  Aligned_cols=143  Identities=11%  Similarity=0.005  Sum_probs=80.3

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCccCc-hhhHHHHhhHH
Q 048743          383 CSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTYKSLLTAYYKVKMFREAEALLKQMRKSCLVQNL-SCEMVVSERFS  461 (653)
Q Consensus       383 ~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~-~~~~~~~~~l~  461 (653)
                      .+.++..+--.|.+.-...++.++++...+-++.....|.+.-.+.|+.+.|...|++..+..-..+. .+.++...-. 
T Consensus       180 my~~~~~llG~kEy~iS~d~~~~vi~~~~e~~p~L~s~Lgr~~MQ~GD~k~a~~yf~~vek~~~kL~~~q~~~~V~~n~-  258 (366)
T KOG2796|consen  180 MYSMANCLLGMKEYVLSVDAYHSVIKYYPEQEPQLLSGLGRISMQIGDIKTAEKYFQDVEKVTQKLDGLQGKIMVLMNS-  258 (366)
T ss_pred             HHHHHHHHhcchhhhhhHHHHHHHHHhCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHhhhhccchhHHHHhhh-
Confidence            44455555555566666666667666555556666666666666777777777777766543222222 1111110000 


Q ss_pred             HHhhhcccccccccccCCHHHHHHHHHHHHHccCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCHHHHH
Q 048743          462 EVADKSASFTDTSSLMDKSDLAESLIQEMREEAALSTIYKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRPTVETFY  538 (653)
Q Consensus       462 ~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~  538 (653)
                               .-.|--.++.-.|...+.++...+- -|+..-|.-.-+..-.|+...|++.++.|++.  .|...+-+
T Consensus       259 ---------a~i~lg~nn~a~a~r~~~~i~~~D~-~~~~a~NnKALcllYlg~l~DAiK~~e~~~~~--~P~~~l~e  323 (366)
T KOG2796|consen  259 ---------AFLHLGQNNFAEAHRFFTEILRMDP-RNAVANNNKALCLLYLGKLKDALKQLEAMVQQ--DPRHYLHE  323 (366)
T ss_pred             ---------hhheecccchHHHHHHHhhccccCC-CchhhhchHHHHHHHHHHHHHHHHHHHHHhcc--CCccchhh
Confidence                     0112235667777777777765542 14444454444445578888999999988875  44444434

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=93.57  E-value=3.6  Score=40.48  Aligned_cols=99  Identities=9%  Similarity=-0.108  Sum_probs=60.3

Q ss_pred             HHHHHHHHHHcCCCHHHHHHHHHHHHhcCC-----CCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHHhhhC-CCccCHH
Q 048743          501 KLNSSIYFFCKGKMIGDALKIYRRMQEMKI-----RPTVETFYYLVYGHSSLEMYRDITILWGDIKRNIESG-VLAVSRD  574 (653)
Q Consensus       501 ~y~~li~~~~~~g~~~~a~~~~~~m~~~g~-----~p~~~t~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~p~~~  574 (653)
                      .+..+-.++.-.|+++.|.+.|+.-...-+     .....+.-+|-++|.-..+++.|+.++..-..-.++. ...-..+
T Consensus       237 A~sNlgN~hiflg~fe~A~ehYK~tl~LAielg~r~vEAQscYSLgNtytll~e~~kAI~Yh~rHLaIAqeL~DriGe~R  316 (639)
T KOG1130|consen  237 AHSNLGNCHIFLGNFELAIEHYKLTLNLAIELGNRTVEAQSCYSLGNTYTLLKEVQKAITYHQRHLAIAQELEDRIGELR  316 (639)
T ss_pred             hhcccchhhhhhcccHhHHHHHHHHHHHHHHhcchhHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHH
Confidence            455666677777788888777776543211     1223344566677777777788877776543222221 2223455


Q ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHH
Q 048743          575 LYETLLLNFLQGGYFERVMEVIGYM  599 (653)
Q Consensus       575 ~y~~li~~~~~~g~~~~a~~~~~~m  599 (653)
                      .|.+|-.+|...|..++|+.+.+.-
T Consensus       317 acwSLgna~~alg~h~kAl~fae~h  341 (639)
T KOG1130|consen  317 ACWSLGNAFNALGEHRKALYFAELH  341 (639)
T ss_pred             HHHHHHHHHHhhhhHHHHHHHHHHH
Confidence            6777777888888877777665544

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=93.50  E-value=2.9  Score=39.48  Aligned_cols=104  Identities=14%  Similarity=0.098  Sum_probs=85.9

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcC---CHHHHHHHHHHHHHCCCCCCHHHHH
Q 048743          343 SNRAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLG---FLEAAHDILDDMELAGHPMDSTTYK  419 (653)
Q Consensus       343 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g---~~~~a~~~~~~m~~~g~~p~~~~~~  419 (653)
                      |...|-.|-..|...|+++.|..-|....+-.  +++...+..+..++....   ...++..+|+++.... +-|+.+..
T Consensus       155 d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL~--g~n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al~~D-~~~iral~  231 (287)
T COG4235         155 DAEGWDLLGRAYMALGRASDALLAYRNALRLA--GDNPEILLGLAEALYYQAGQQMTAKARALLRQALALD-PANIRALS  231 (287)
T ss_pred             CchhHHHHHHHHHHhcchhHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHhcC-CccHHHHH
Confidence            56799999999999999999999999999887  777777777777776653   3568999999998753 23667777


Q ss_pred             HHHHHHHHcCChHHHHHHHHHHHHcCCccCc
Q 048743          420 SLLTAYYKVKMFREAEALLKQMRKSCLVQNL  450 (653)
Q Consensus       420 ~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~  450 (653)
                      .|-.++...|++.+|...|+.|.+. ..|+.
T Consensus       232 lLA~~afe~g~~~~A~~~Wq~lL~~-lp~~~  261 (287)
T COG4235         232 LLAFAAFEQGDYAEAAAAWQMLLDL-LPADD  261 (287)
T ss_pred             HHHHHHHHcccHHHHHHHHHHHHhc-CCCCC
Confidence            7888999999999999999999986 44554

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=93.13  E-value=3.8  Score=34.26  Aligned_cols=82  Identities=12%  Similarity=-0.041  Sum_probs=59.8

Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcc---cHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 048743          349 KLINGYKKHGKNSELSWLLLSIKKEHHSFGEST---LCSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTYKSLLTAY  425 (653)
Q Consensus       349 ~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~---~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~  425 (653)
                      .--....+.|++++|.+.|+.+..+-  |.+..   +--.++.+|.+.++++.|...+++.++.+..-....|...+.|+
T Consensus        15 ~~a~~~l~~~~Y~~A~~~le~L~~ry--P~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLhP~hp~vdYa~Y~~gL   92 (142)
T PF13512_consen   15 QEAQEALQKGNYEEAIKQLEALDTRY--PFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLHPTHPNVDYAYYMRGL   92 (142)
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHhcC--CCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCCCccHHHHHHHH
Confidence            33444567899999999999998876  43333   25568899999999999999999998876544446677777777


Q ss_pred             HHcCChH
Q 048743          426 YKVKMFR  432 (653)
Q Consensus       426 ~~~~~~~  432 (653)
                      +.....+
T Consensus        93 ~~~~~~~   99 (142)
T PF13512_consen   93 SYYEQDE   99 (142)
T ss_pred             HHHHHhh
Confidence            6654433

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=92.99  E-value=1.8  Score=43.69  Aligned_cols=63  Identities=16%  Similarity=0.096  Sum_probs=52.1

Q ss_pred             CHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCH----HHHHHHHHHHhccCCHHHHHHHHHHHHH
Q 048743          498 TIYKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRPTV----ETFYYLVYGHSSLEMYRDITILWGDIKR  562 (653)
Q Consensus       498 ~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~----~t~~~li~~~~~~~~~~~a~~~~~~~~~  562 (653)
                      +...|+.+-.+|.+.|++++|+..|++.++.  .|+.    .+|..+-.+|...|+.++|+..++...+
T Consensus        74 ~a~a~~NLG~AL~~lGryeEAIa~f~rALeL--~Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALe  140 (453)
T PLN03098         74 TAEDAVNLGLSLFSKGRVKDALAQFETALEL--NPNPDEAQAAYYNKACCHAYREEGKKAADCLRTALR  140 (453)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            6777888888999999999999999987774  5663    3588888899999999999988887763

>PF07035 Mic1: Colon cancer-associated protein Mic1-like; InterPro: IPR009755 This entry represents the C terminus (approximately 160 residues) of a number of proteins that resemble colon cancer-associated protein Mic1

Probab=92.98  E-value=5  Score=34.75  Aligned_cols=103  Identities=10%  Similarity=0.125  Sum_probs=76.2

Q ss_pred             HHHHHHHHHccCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHH
Q 048743          484 ESLIQEMREEAALSTIYKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRPTVETFYYLVYGHSSLEMYRDITILWGDIKRN  563 (653)
Q Consensus       484 ~~~~~~m~~~~~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~~~~~  563 (653)
                      .+.++.+...++.|+...|..+|+.+.+.|++..    +..+...++-||+......+-.+..  ....+.++=-.|.++
T Consensus        14 lEYirSl~~~~i~~~~~L~~lli~lLi~~~~~~~----L~qllq~~Vi~DSk~lA~~LLs~~~--~~~~~~Ql~lDMLkR   87 (167)
T PF07035_consen   14 LEYIRSLNQHNIPVQHELYELLIDLLIRNGQFSQ----LHQLLQYHVIPDSKPLACQLLSLGN--QYPPAYQLGLDMLKR   87 (167)
T ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHH----HHHHHhhcccCCcHHHHHHHHHhHc--cChHHHHHHHHHHHH
Confidence            4566778889999999999999999999998665    5666677888888877766644443  334444444444433


Q ss_pred             hhhCCCccCHHHHHHHHHHHHhCCCHHHHHHHHHHHH
Q 048743          564 IESGVLAVSRDLYETLLLNFLQGGYFERVMEVIGYMK  600 (653)
Q Consensus       564 ~~~~~~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~  600 (653)
                      ++        ..+..+++.+...|++-+|.++.+...
T Consensus        88 L~--------~~~~~iievLL~~g~vl~ALr~ar~~~  116 (167)
T PF07035_consen   88 LG--------TAYEEIIEVLLSKGQVLEALRYARQYH  116 (167)
T ss_pred             hh--------hhHHHHHHHHHhCCCHHHHHHHHHHcC
Confidence            11        147778889999999999999998864

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=92.95  E-value=1.7  Score=40.44  Aligned_cols=88  Identities=8%  Similarity=0.050  Sum_probs=61.1

Q ss_pred             CHHHHHHHHHHHHc-----CCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCC----------------HHHHHHH
Q 048743          498 TIYKLNSSIYFFCK-----GKMIGDALKIYRRMQEMKIRPTVETFYYLVYGHSSLEM----------------YRDITIL  556 (653)
Q Consensus       498 ~~~~y~~li~~~~~-----~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~----------------~~~a~~~  556 (653)
                      |-.+|-+++..+..     .+.++-...-++.|.+.|++-|..+|+.|++.+=+-.-                -+-++.+
T Consensus        66 dK~sfl~~V~~F~E~sVr~R~HveFIy~ALk~m~eyGVerDl~vYk~LlnvfPKgkfiP~nvfQ~~F~HYP~QQ~C~I~v  145 (406)
T KOG3941|consen   66 DKDSFLAAVATFKEKSVRGRTHVEFIYTALKYMKEYGVERDLDVYKGLLNVFPKGKFIPQNVFQKVFLHYPQQQNCAIKV  145 (406)
T ss_pred             cHHHHHHHHHHHHHhhhcccchHHHHHHHHHHHHHhcchhhHHHHHHHHHhCcccccccHHHHHHHHhhCchhhhHHHHH
Confidence            66677777777653     45677777788999999999999999999987765331                2234455


Q ss_pred             HHHHHHHhhhCCCccCHHHHHHHHHHHHhCCCH
Q 048743          557 WGDIKRNIESGVLAVSRDLYETLLLNFLQGGYF  589 (653)
Q Consensus       557 ~~~~~~~~~~~~~~p~~~~y~~li~~~~~~g~~  589 (653)
                      +++|    +..|+.||..+-..++.++.+.+..
T Consensus       146 LeqM----E~hGVmPdkE~e~~lvn~FGr~~~p  174 (406)
T KOG3941|consen  146 LEQM----EWHGVMPDKEIEDILVNAFGRWNFP  174 (406)
T ss_pred             HHHH----HHcCCCCchHHHHHHHHHhcccccc
Confidence            5444    4557777777777777777666653

>PF04097 Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic96 is a component of the nuclear pore complex

Probab=92.85  E-value=17  Score=39.61  Aligned_cols=224  Identities=9%  Similarity=-0.024  Sum_probs=93.9

Q ss_pred             HHHHHHHhccchhHHHHHHHHhhhhcCCCCchhHHHHHHHhhccCCcch----hhhHHHHHHHHHhccCCchhHHHHHHH
Q 048743           24 RKLESASKNHQVGEAWETFNDFQRLHGIPERHVVNRFITDLCYSAEPHW----LQKACDLVLKIQKGKADLLQLDLLAKL   99 (653)
Q Consensus        24 ~~i~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~----~~~a~~~~~~~~~~~~~~~~~~t~~~l   99 (653)
                      .+|-.+.|.|++++|.++..+... ........+-..+..+..+.+...    -.+...-+.+..   +..++.+.|-..
T Consensus       116 a~Iyy~LR~G~~~~A~~~~~~~~~-~~~~~~~~f~~~l~~~~~s~~~~l~~~~~~~l~~ey~~~~---r~~~~~DpyK~A  191 (613)
T PF04097_consen  116 ALIYYCLRCGDYDEALEVANENRN-QFQKIERSFPTYLKAYASSPDRRLPPELRDKLKLEYNQRI---RNSTDGDPYKRA  191 (613)
T ss_dssp             HHHHHHHTTT-HHHHHHHHHHTGG-GS-TTTTHHHHHHHHCTTTTSS---TCCCHHHHHHHHHHT---TT-TTS-HHHHH
T ss_pred             HHHHHHHhcCCHHHHHHHHHHhhh-hhcchhHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHHHh---cCCCCCChHHHH
Confidence            567778899999999999966555 233445677888888877643221    223333333332   222322333333


Q ss_pred             HHHHHhcCCC-chHHHHHHHHHcCccCCCchhHHHHHHHHhhcccccc------cchHHHHHHHHHhhhhhhhhcCCccC
Q 048743          100 SLSLARAQMP-VPASMILRLMLGRENLPCSDLLLLVFVHMVKTEIGTC------LASNFLIQLCDVFLHLSAEKSNGAEL  172 (653)
Q Consensus       100 i~~~~~~g~~-~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~------~~~~~l~~~~~~~~~~~~a~~~~~~~  172 (653)
                      +....-..++ ..-.        ..+..+..-|-.+--.+++......      ....-+-+....+     ...-|.. 
T Consensus       192 vY~ilg~cD~~~~~~--------~~V~~tiED~LW~~L~~vr~~~~~~~~~~e~~~L~~LQ~~i~~~-----Ge~~F~~-  257 (613)
T PF04097_consen  192 VYKILGRCDLSRRHL--------PEVARTIEDWLWLQLSLVREDERSSSSAYERYTLEDLQKLILKY-----GESHFNA-  257 (613)
T ss_dssp             HHHHHHT--CCC-S---------TTC--SHHHHHHHHHHH---TTSSSSSSS----HHHHHHHHHHH------GGGCTT-
T ss_pred             HHHHHhcCCccccch--------HHHhCcHHHHHHHHHHhhccCCCccccccccccHHHHHHHHHHh-----chhhccc-
Confidence            3222222222 1000        0111112222222112222211110      0011111111122     2223333 


Q ss_pred             CCCchhhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCccHHHHHHHHHHHHhcCChhhhHHHHHHhhhcCCCcccchhHH
Q 048743          173 IKPDTMIFNLVLHACVRFGSSLKGQHIMELMSQTGVVADAHSIIILAQIHEMNCQRDELKKFKCYIDQLSTPFAHHYQQF  252 (653)
Q Consensus       173 ~~~~~~~yn~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~  252 (653)
                       ..+...|   ...+.-.|.++.|.+.+-+  ..+...|.+.+.+.+..++-.+-.+...   ..+......+..+  .-
T Consensus       258 -~~~p~~Y---f~~LlLtgqFE~AI~~L~~--~~~~~~dAVH~AIaL~~~gLL~~~~~~~---~~lls~~~~~~~~--ln  326 (613)
T PF04097_consen  258 -GSNPLLY---FQVLLLTGQFEAAIEFLYR--NEFNRVDAVHFAIALAYYGLLRVSDSSS---APLLSVDPGDPPP--LN  326 (613)
T ss_dssp             -------H---HHHHHHTT-HHHHHHHHHT----T-HHHHHHHHHHHHHTT-----------------------------
T ss_pred             -chhHHHH---HHHHHHHhhHHHHHHHHHh--hccCcccHHHHHHHHHHcCCCCCCCccc---cceeeecCCCCCC--cC
Confidence             1222333   5566779999999999877  3345667777777777665333222222   2121111111000  12


Q ss_pred             HHHHHHhhhc---cCCHHHHHHHHHHh
Q 048743          253 YESLLSLHFK---FDDIDAAGELILDM  276 (653)
Q Consensus       253 ~~~li~~~~~---~g~~~~A~~~~~~m  276 (653)
                      +..||..|++   ..|+.+|.++|--+
T Consensus       327 ~arLI~~Y~~~F~~td~~~Al~Y~~li  353 (613)
T PF04097_consen  327 FARLIGQYTRSFEITDPREALQYLYLI  353 (613)
T ss_dssp             HHHHHHHHHHTTTTT-HHHHHHHHHGG
T ss_pred             HHHHHHHHHHHHhccCHHHHHHHHHHH
Confidence            7788888876   46888999988777

It is required for the correct assembly of the nuclear pore complex []. In Saccharomyces cerevisiae, Nic96 has been shown to be involved in the distribution and cellular concentration of the GTPase Gsp1 []. The structure of Nic96 has revealed a mostly alpha helical structure [].; GO: 0006810 transport, 0005643 nuclear pore; PDB: 2QX5_B 2RFO_A.

>PF04053 Coatomer_WDAD: Coatomer WD associated region ; InterPro: IPR006692 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=92.84  E-value=1.4  Score=45.29  Aligned_cols=133  Identities=14%  Similarity=0.068  Sum_probs=100.1

Q ss_pred             hhhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCccHHHHHHHHHHHHhcCChhhhHHHHHHhhhcCCCcccchhHHHHHH
Q 048743          177 TMIFNLVLHACVRFGSSLKGQHIMELMSQTGVVADAHSIIILAQIHEMNCQRDELKKFKCYIDQLSTPFAHHYQQFYESL  256 (653)
Q Consensus       177 ~~~yn~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l  256 (653)
                      ..-.+.+++-+-+.|.++.|+++-++-         .+   =.....+.|+++.|.++.+.+..         ...|..|
T Consensus       295 ~~~~~~i~~fL~~~G~~e~AL~~~~D~---------~~---rFeLAl~lg~L~~A~~~a~~~~~---------~~~W~~L  353 (443)
T PF04053_consen  295 KDQGQSIARFLEKKGYPELALQFVTDP---------DH---RFELALQLGNLDIALEIAKELDD---------PEKWKQL  353 (443)
T ss_dssp             HHHHHHHHHHHHHTT-HHHHHHHSS-H---------HH---HHHHHHHCT-HHHHHHHCCCCST---------HHHHHHH
T ss_pred             hhHHHHHHHHHHHCCCHHHHHhhcCCh---------HH---HhHHHHhcCCHHHHHHHHHhcCc---------HHHHHHH
Confidence            345888999999999999999885543         22   13344567999999888765432         2369999


Q ss_pred             HHhhhccCCHHHHHHHHHHhcccCCCCCCchhhhcccccchhccCCCcccchhhhccchhhhHHHHHHhhhhhHHHHHHh
Q 048743          257 LSLHFKFDDIDAAGELILDMNRYREPLPNPKLRQDAQKPYLISIGSPNLRCGLKLQIMPELLEKDSILKMEGKQELVLFR  336 (653)
Q Consensus       257 i~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  336 (653)
                      -+...+.|+++-|.+.|.+..                                                           
T Consensus       354 g~~AL~~g~~~lAe~c~~k~~-----------------------------------------------------------  374 (443)
T PF04053_consen  354 GDEALRQGNIELAEECYQKAK-----------------------------------------------------------  374 (443)
T ss_dssp             HHHHHHTTBHHHHHHHHHHCT-----------------------------------------------------------
T ss_pred             HHHHHHcCCHHHHHHHHHhhc-----------------------------------------------------------
Confidence            999999999999999999983                                                           


Q ss_pred             cCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHH
Q 048743          337 NGKLLHSNRAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDD  405 (653)
Q Consensus       337 ~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~  405 (653)
                               -|..|+-.|.-.|+.+...++.+.....+      . +|....++.-.|++++..+++.+
T Consensus       375 ---------d~~~L~lLy~~~g~~~~L~kl~~~a~~~~------~-~n~af~~~~~lgd~~~cv~lL~~  427 (443)
T PF04053_consen  375 ---------DFSGLLLLYSSTGDREKLSKLAKIAEERG------D-INIAFQAALLLGDVEECVDLLIE  427 (443)
T ss_dssp             ----------HHHHHHHHHHCT-HHHHHHHHHHHHHTT--------HHHHHHHHHHHT-HHHHHHHHHH
T ss_pred             ---------CccccHHHHHHhCCHHHHHHHHHHHHHcc------C-HHHHHHHHHHcCCHHHHHHHHHH
Confidence                     25678888999999998888888877766      2 78888888888999998887765

This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. While clathrin mediates endocytic protein transport, and transport from ER to Golgi, coatomers primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. For example, the coatomer COP1 (coat protein complex 1) is responsible for reverse transport of recycled proteins from Golgi and pre-Golgi compartments back to the ER, while COPII buds vesicles from the ER to the Golgi []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Activated small guanine triphosphatases (GTPases) attract coat proteins to specific membrane export sites, thereby linking coatomers to export cargos. As coat proteins polymerise, vesicles are formed and budded from membrane-bound organelles. Coatomer complexes also influence Golgi structural integrity, as well as the processing, activity, and endocytic recycling of LDL receptors. In mammals, coatomer complexes can only be recruited by membranes associated to ADP-ribosylation factors (ARFs), which are small GTP-binding proteins. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the WD-associated region found in coatomer subunits alpha, beta and beta' subunits. The alpha-subunit (RET1P) of the coatomer complex in Saccharomyces cerevisiae (Baker's yeast), participates in membrane transport between the endoplasmic reticulum and Golgi apparatus. The protein contains six WD-40 repeat motifs in its N-terminal region []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0005198 structural molecule activity, 0006886 intracellular protein transport, 0016192 vesicle-mediated transport, 0030117 membrane coat; PDB: 3MKQ_B.

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=92.84  E-value=5.2  Score=33.74  Aligned_cols=27  Identities=7%  Similarity=-0.020  Sum_probs=16.7

Q ss_pred             HHHHHHHHhcCCCchHHHHHHHHHcCc
Q 048743           97 AKLSLSLARAQMPVPASMILRLMLGRE  123 (653)
Q Consensus        97 ~~li~~~~~~g~~~~a~~~~~~m~~~g  123 (653)
                      ..++..+...+.+......++.+...+
T Consensus        11 ~~vv~~~~~~~~~~~l~~yLe~~~~~~   37 (140)
T smart00299       11 SEVVELFEKRNLLEELIPYLESALKLN   37 (140)
T ss_pred             HHHHHHHHhCCcHHHHHHHHHHHHccC
Confidence            345556666666667777776666554

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=92.68  E-value=5.5  Score=33.59  Aligned_cols=45  Identities=7%  Similarity=-0.110  Sum_probs=27.6

Q ss_pred             HHHHHHHHHhcCChhhHHHHHHHHHhcCCCccHHHHHHHHHHHHhc
Q 048743          180 FNLVLHACVRFGSSLKGQHIMELMSQTGVVADAHSIIILAQIHEMN  225 (653)
Q Consensus       180 yn~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~ll~~~~~~  225 (653)
                      ...+|..+...+.+.....+++.+...+. .+...++.++..+++.
T Consensus        10 ~~~vv~~~~~~~~~~~l~~yLe~~~~~~~-~~~~~~~~li~ly~~~   54 (140)
T smart00299       10 VSEVVELFEKRNLLEELIPYLESALKLNS-ENPALQTKLIELYAKY   54 (140)
T ss_pred             HHHHHHHHHhCCcHHHHHHHHHHHHccCc-cchhHHHHHHHHHHHH
Confidence            44566666667777777777777766652 3444455555555543

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=92.50  E-value=8.9  Score=35.56  Aligned_cols=181  Identities=11%  Similarity=0.003  Sum_probs=102.2

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcc---cHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHH
Q 048743          344 NRAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGEST---LCSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTYKS  420 (653)
Q Consensus       344 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~---~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~  420 (653)
                      ..-|+. ...-.+.|++++|.+.|+.+..+.  |.+..   +--.++.++-+.++++.|...+++.......-....|..
T Consensus        35 ~~LY~~-g~~~L~~gn~~~A~~~fe~l~~~~--p~s~~~~qa~l~l~yA~Yk~~~y~~A~~~~drFi~lyP~~~n~dY~~  111 (254)
T COG4105          35 SELYNE-GLTELQKGNYEEAIKYFEALDSRH--PFSPYSEQAQLDLAYAYYKNGEYDLALAYIDRFIRLYPTHPNADYAY  111 (254)
T ss_pred             HHHHHH-HHHHHhcCCHHHHHHHHHHHHHcC--CCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHhCCCCCChhHHH
Confidence            334444 444567999999999999999877  43333   355567888889999999999999876543333344555


Q ss_pred             HHHHHHHc-------CChHHHHHHHHHHHHc-CCccCchhhHHHHhhHHHHhhhcccccccccccCCHHHHHHHHH-HHH
Q 048743          421 LLTAYYKV-------KMFREAEALLKQMRKS-CLVQNLSCEMVVSERFSEVADKSASFTDTSSLMDKSDLAESLIQ-EMR  491 (653)
Q Consensus       421 li~~~~~~-------~~~~~a~~~~~~m~~~-~~~p~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~a~~~~~-~m~  491 (653)
                      -|.+++..       .+...+.+.|..+.+. .--|+..+..                        +...-+..+. .+.
T Consensus       112 YlkgLs~~~~i~~~~rDq~~~~~A~~~f~~~i~ryPnS~Ya~------------------------dA~~~i~~~~d~LA  167 (254)
T COG4105         112 YLKGLSYFFQIDDVTRDQSAARAAFAAFKELVQRYPNSRYAP------------------------DAKARIVKLNDALA  167 (254)
T ss_pred             HHHHHHHhccCCccccCHHHHHHHHHHHHHHHHHCCCCcchh------------------------hHHHHHHHHHHHHH
Confidence            55555432       2333444444444331 1135431111                        0011111111 111


Q ss_pred             HccCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCC---HHHHHHHHHHHhccCCHHHHHHHHHHH
Q 048743          492 EEAALSTIYKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRPT---VETFYYLVYGHSSLEMYRDITILWGDI  560 (653)
Q Consensus       492 ~~~~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~---~~t~~~li~~~~~~~~~~~a~~~~~~~  560 (653)
                      ...        -.+.+-|.+.|.+..|..-+++|.+. .+-+   ...+-.+..+|...|-.++|...-..+
T Consensus       168 ~~E--------m~IaryY~kr~~~~AA~nR~~~v~e~-y~~t~~~~eaL~~l~eaY~~lgl~~~a~~~~~vl  230 (254)
T COG4105         168 GHE--------MAIARYYLKRGAYVAAINRFEEVLEN-YPDTSAVREALARLEEAYYALGLTDEAKKTAKVL  230 (254)
T ss_pred             HHH--------HHHHHHHHHhcChHHHHHHHHHHHhc-cccccchHHHHHHHHHHHHHhCChHHHHHHHHHH
Confidence            111        23445667777777777777777765 2212   234455666777777777776665544

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=92.47  E-value=0.67  Score=33.78  Aligned_cols=61  Identities=13%  Similarity=0.081  Sum_probs=51.4

Q ss_pred             HHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCccCc
Q 048743          387 IDALIQLGFLEAAHDILDDMELAGHPMDSTTYKSLLTAYYKVKMFREAEALLKQMRKSCLVQNL  450 (653)
Q Consensus       387 i~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~  450 (653)
                      -..|.+.++++.|.++++.+...+. .+...+...-..+.+.|++++|...|+...+.  .|+.
T Consensus         2 ~~~~~~~~~~~~A~~~~~~~l~~~p-~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~--~p~~   62 (73)
T PF13371_consen    2 KQIYLQQEDYEEALEVLERALELDP-DDPELWLQRARCLFQLGRYEEALEDLERALEL--SPDD   62 (73)
T ss_pred             HHHHHhCCCHHHHHHHHHHHHHhCc-ccchhhHHHHHHHHHhccHHHHHHHHHHHHHH--CCCc
Confidence            3578899999999999999998743 36777888888999999999999999999874  4554

>PF10602 RPN7: 26S proteasome subunit RPN7; InterPro: IPR019585 This entry represents the regulatory subunit RPN7 (known as the non-ATPase regulatory subunit 6 in higher eukaryotes) of the 26S proteasome

Probab=92.40  E-value=2  Score=38.04  Aligned_cols=100  Identities=15%  Similarity=0.090  Sum_probs=74.1

Q ss_pred             HHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCH--HHHHHHHHHHhccCCHHHHHHHHHHHHHHhhhCCCccCHHHHH
Q 048743          500 YKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRPTV--ETFYYLVYGHSSLEMYRDITILWGDIKRNIESGVLAVSRDLYE  577 (653)
Q Consensus       500 ~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~--~t~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~p~~~~y~  577 (653)
                      ..+..+...|++.|+.+.|++.|.++.+.-..|..  ..+-.+|+.+...+++..+..++......+.. +-.++...--
T Consensus        37 ~~~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~~~~~~-~~d~~~~nrl  115 (177)
T PF10602_consen   37 MALEDLADHYCKIGDLEEALKAYSRARDYCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAESLIEK-GGDWERRNRL  115 (177)
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhc-cchHHHHHHH
Confidence            45778899999999999999999999987666654  35678899999999999999999888765444 2223332222


Q ss_pred             HHHHH--HHhCCCHHHHHHHHHHHH
Q 048743          578 TLLLN--FLQGGYFERVMEVIGYMK  600 (653)
Q Consensus       578 ~li~~--~~~~g~~~~a~~~~~~m~  600 (653)
                      ....+  +...|++.+|-++|-+..
T Consensus       116 k~~~gL~~l~~r~f~~AA~~fl~~~  140 (177)
T PF10602_consen  116 KVYEGLANLAQRDFKEAAELFLDSL  140 (177)
T ss_pred             HHHHHHHHHHhchHHHHHHHHHccC
Confidence            22222  346789999998887764

This entry also matches the evolutionarily related subunit 1 of the COP9 signalosome complex (CSN) from Arabidopsis []. The 26S proteasome plays a major role in ATP-dependent degradation of ubiquitinated proteins. Substrate specificity is conferred by the regulatory particle (RP), which can dissociate into stable lid and base subcomplexes. The regulatory subunit RPN7 is one of the lid subunits of the 26S proteasome and has been shown in Saccharomyces cerevisiae (Baker's yeast) to be required for structural integrity []. The COP9 signalosome is a conserved protein complex composed of eight subunits, where Individual subunits of the complex have been linked to various signal transduction pathways leading to gene expression and cell cycle control []. The overall organisation and the amino acid sequences of the COP9 signalosome subunits resemble the lid subcomplex of the 19 S regulatory particle for the 26 S proteasome []. COP9 subunit 1 (CSN1 or GPS1) of the COP9 complex is an essential subunit of the complex with regard to both structural integrity and functionality. The N-terminal region of subunit 1 (CSN1-N) can inhibit c-fos expression from either a transfected template or a chromosomal transgene (fos-lacZ), and may contain the activity domain that confers most of the repression functions of CSN1. The C-terminal region of subunit 1 (CSN1-C) allows integration of the protein into the COP9 signalosome.

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=92.36  E-value=4.6  Score=42.19  Aligned_cols=162  Identities=14%  Similarity=0.034  Sum_probs=90.9

Q ss_pred             hHHHHHHHhhccCCcchhhhHHHHHHHHHhccCCc-----hhHHHHHHHHHHHHhc----CCCchHHHHHHHHHcCccCC
Q 048743           56 VVNRFITDLCYSAEPHWLQKACDLVLKIQKGKADL-----LQLDLLAKLSLSLARA----QMPVPASMILRLMLGRENLP  126 (653)
Q Consensus        56 ~~~~ll~~~~~~~~~~~~~~a~~~~~~~~~~~~~~-----~~~~t~~~li~~~~~~----g~~~~a~~~~~~m~~~g~~p  126 (653)
                      .+..++..++-.|+   -+.+++++.+-.+..+..     .-.-.|..++..++..    ...+.|.++++.+.++  -|
T Consensus       190 ~~~kll~~vGF~gd---R~~GL~~L~~~~~~~~i~~~la~L~LL~y~~~~~~~~~~~~~~~~~~~a~~lL~~~~~~--yP  264 (468)
T PF10300_consen  190 KVLKLLSFVGFSGD---RELGLRLLWEASKSENIRSPLAALVLLWYHLVVPSFLGIDGEDVPLEEAEELLEEMLKR--YP  264 (468)
T ss_pred             HHHHHHhhcCcCCc---HHHHHHHHHHHhccCCcchHHHHHHHHHHHHHHHHHcCCcccCCCHHHHHHHHHHHHHh--CC
Confidence            44566666666666   356666666554433322     2344666666555543    3345666777776654  56


Q ss_pred             CchhHHHHHHHHhhcccccccchHHHHHHHHHhhhhhhhhcCCccCC-------CCchhhHHHHHHHHHhcCChhhHHHH
Q 048743          127 CSDLLLLVFVHMVKTEIGTCLASNFLIQLCDVFLHLSAEKSNGAELI-------KPDTMIFNLVLHACVRFGSSLKGQHI  199 (653)
Q Consensus       127 ~~~~~~~li~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~-------~~~~~~yn~li~~~~~~g~~~~a~~l  199 (653)
                      +...|...-.                 ......|+++.|.+.|+...       +.....|--+.-.+.-.+++++|.+.
T Consensus       265 ~s~lfl~~~g-----------------R~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~A~~~  327 (468)
T PF10300_consen  265 NSALFLFFEG-----------------RLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEEAAEY  327 (468)
T ss_pred             CcHHHHHHHH-----------------HHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHHHHHH
Confidence            6665554422                 22223334444444444222       22334555566678889999999999


Q ss_pred             HHHHHhcCCCccHHHHHHHHHHHH-hcCCh-------hhhHHHHHHhhh
Q 048743          200 MELMSQTGVVADAHSIIILAQIHE-MNCQR-------DELKKFKCYIDQ  240 (653)
Q Consensus       200 ~~~m~~~g~~p~~~t~~~ll~~~~-~~g~~-------~~a~~~~~~~~~  240 (653)
                      |..+.+.. ..+..+|..+..+|. ..|+.       ++|.+++..+..
T Consensus       328 f~~L~~~s-~WSka~Y~Y~~a~c~~~l~~~~~~~~~~~~a~~l~~~vp~  375 (468)
T PF10300_consen  328 FLRLLKES-KWSKAFYAYLAAACLLMLGREEEAKEHKKEAEELFRKVPK  375 (468)
T ss_pred             HHHHHhcc-ccHHHHHHHHHHHHHHhhccchhhhhhHHHHHHHHHHHHH
Confidence            99999865 335555665544443 45555       555555555433

In humans this protein is expressed in primary breast carcinomas but not in normal breast tissue, and has a putative eukaryotic RNP-1 RNA binding region and a candidate anchoring transmembrane domain. The human protein is coordinately regulated with oestrogen receptor, but is not necessarily oestradiol-responsive []. Members of this family carry a tetratricopeptide repeat (IPR013105 from INTERPRO) at their C terminus.

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=92.29  E-value=8.6  Score=38.49  Aligned_cols=141  Identities=10%  Similarity=0.082  Sum_probs=80.3

Q ss_pred             cHHHHHHHHHHcCCHHHHHHHHHHHHHCC-CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCccCch---hhHHHH
Q 048743          382 LCSDVIDALIQLGFLEAAHDILDDMELAG-HPMDSTTYKSLLTAYYKVKMFREAEALLKQMRKSCLVQNLS---CEMVVS  457 (653)
Q Consensus       382 ~~~~li~~~~~~g~~~~a~~~~~~m~~~g-~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~---~~~~~~  457 (653)
                      +|...|..-.+..-++.|..+|-+..+.| +.+++..++++|.-++ .|++.-|..+|+.-...  -||..   ...+..
T Consensus       399 v~C~~~N~v~r~~Gl~aaR~~F~k~rk~~~~~h~vyi~~A~~E~~~-~~d~~ta~~ifelGl~~--f~d~~~y~~kyl~f  475 (660)
T COG5107         399 VFCVHLNYVLRKRGLEAARKLFIKLRKEGIVGHHVYIYCAFIEYYA-TGDRATAYNIFELGLLK--FPDSTLYKEKYLLF  475 (660)
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHhccCCCCcceeeeHHHHHHHh-cCCcchHHHHHHHHHHh--CCCchHHHHHHHHH
Confidence            36666666666666666666666666666 4556666666665444 35566666666554432  23331   111111


Q ss_pred             hhHHHHhhhcccccccccccCCHHHHHHHHHH----HHHccCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCC
Q 048743          458 ERFSEVADKSASFTDTSSLMDKSDLAESLIQE----MREEAALSTIYKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRPT  533 (653)
Q Consensus       458 ~~l~~~~~~~~~~~~~~~~~~~~~~a~~~~~~----m~~~~~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~  533 (653)
                                      ....++-+.|..+|+.    +.+..   -...|..+|+-=...|++..|..+=++|.+.  -|-
T Consensus       476 ----------------Li~inde~naraLFetsv~r~~~~q---~k~iy~kmi~YEs~~G~lN~v~sLe~rf~e~--~pQ  534 (660)
T COG5107         476 ----------------LIRINDEENARALFETSVERLEKTQ---LKRIYDKMIEYESMVGSLNNVYSLEERFREL--VPQ  534 (660)
T ss_pred             ----------------HHHhCcHHHHHHHHHHhHHHHHHhh---hhHHHHHHHHHHHhhcchHHHHhHHHHHHHH--cCc
Confidence                            1125566666666663    22221   1346777888778888888888888887763  455


Q ss_pred             HHHHHHHHHHHhc
Q 048743          534 VETFYYLVYGHSS  546 (653)
Q Consensus       534 ~~t~~~li~~~~~  546 (653)
                      ..+...+..-|.-
T Consensus       535 en~~evF~Sry~i  547 (660)
T COG5107         535 ENLIEVFTSRYAI  547 (660)
T ss_pred             HhHHHHHHHHHhh
Confidence            5555555544443

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=92.22  E-value=2.1  Score=37.14  Aligned_cols=105  Identities=9%  Similarity=-0.047  Sum_probs=81.7

Q ss_pred             cchHHHHHHHHHHHHhccchhHHHHHHHHhhhhcCCCCchhHHHHHHHhhccCCcchhhhHHHHHHHHHhccCCchhHHH
Q 048743           16 GSSREVLLRKLESASKNHQVGEAWETFNDFQRLHGIPERHVVNRFITDLCYSAEPHWLQKACDLVLKIQKGKADLLQLDL   95 (653)
Q Consensus        16 ~p~~~~~~~~i~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~t   95 (653)
                      .|+...-.++..++.+.|+..+|...|++....-.-.++...-.+-++....++   ...|...++++++.++-..++++
T Consensus        86 ApTvqnr~rLa~al~elGr~~EA~~hy~qalsG~fA~d~a~lLglA~Aqfa~~~---~A~a~~tLe~l~e~~pa~r~pd~  162 (251)
T COG4700          86 APTVQNRYRLANALAELGRYHEAVPHYQQALSGIFAHDAAMLLGLAQAQFAIQE---FAAAQQTLEDLMEYNPAFRSPDG  162 (251)
T ss_pred             chhHHHHHHHHHHHHHhhhhhhhHHHHHHHhccccCCCHHHHHHHHHHHHhhcc---HHHHHHHHHHHhhcCCccCCCCc
Confidence            456666777888999999999999999998873333445555556666655666   67889999998887766567777


Q ss_pred             HHHHHHHHHhcCCCchHHHHHHHHHcCc
Q 048743           96 LAKLSLSLARAQMPVPASMILRLMLGRE  123 (653)
Q Consensus        96 ~~~li~~~~~~g~~~~a~~~~~~m~~~g  123 (653)
                      .-.+...|.-.|.+.+|..-|+...+.-
T Consensus       163 ~Ll~aR~laa~g~~a~Aesafe~a~~~y  190 (251)
T COG4700         163 HLLFARTLAAQGKYADAESAFEVAISYY  190 (251)
T ss_pred             hHHHHHHHHhcCCchhHHHHHHHHHHhC
Confidence            7888899999999999999999888763

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=92.09  E-value=2.4  Score=42.81  Aligned_cols=65  Identities=8%  Similarity=-0.134  Sum_probs=57.5

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCc---ccHHHHHHHHHHcCCHHHHHHHHHHHHHC
Q 048743          343 SNRAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGES---TLCSDVIDALIQLGFLEAAHDILDDMELA  409 (653)
Q Consensus       343 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~---~~~~~li~~~~~~g~~~~a~~~~~~m~~~  409 (653)
                      +...++.+-.+|.+.|++++|+..|++..+..  |.+.   .+|..+..+|.+.|+.++|...+++..+.
T Consensus        74 ~a~a~~NLG~AL~~lGryeEAIa~f~rALeL~--Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALel  141 (453)
T PLN03098         74 TAEDAVNLGLSLFSKGRVKDALAQFETALELN--PNPDEAQAAYYNKACCHAYREEGKKAADCLRTALRD  141 (453)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC--CCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            45688999999999999999999999988877  5554   34999999999999999999999999875

>PF07035 Mic1: Colon cancer-associated protein Mic1-like; InterPro: IPR009755 This entry represents the C terminus (approximately 160 residues) of a number of proteins that resemble colon cancer-associated protein Mic1

Probab=92.09  E-value=5.2  Score=34.65  Aligned_cols=47  Identities=15%  Similarity=0.196  Sum_probs=32.7

Q ss_pred             cCCCCchhhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCccHHHHHHHHHH
Q 048743          171 ELIKPDTMIFNLVLHACVRFGSSLKGQHIMELMSQTGVVADAHSIIILAQI  221 (653)
Q Consensus       171 ~~~~~~~~~yn~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~ll~~  221 (653)
                      .+++|+...|..+|+.+.+.|.+.    .+.++.+.++.||+......+-.
T Consensus        23 ~~i~~~~~L~~lli~lLi~~~~~~----~L~qllq~~Vi~DSk~lA~~LLs   69 (167)
T PF07035_consen   23 HNIPVQHELYELLIDLLIRNGQFS----QLHQLLQYHVIPDSKPLACQLLS   69 (167)
T ss_pred             cCCCCCHHHHHHHHHHHHHcCCHH----HHHHHHhhcccCCcHHHHHHHHH
Confidence            556777788888888888888754    34555667777787776654433

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=92.04  E-value=2.3  Score=41.71  Aligned_cols=70  Identities=11%  Similarity=-0.095  Sum_probs=50.9

Q ss_pred             HHHHHHHHHHhccCCHHHHHHHHHHHHHHhhhCCCc-cCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhCCC
Q 048743          535 ETFYYLVYGHSSLEMYRDITILWGDIKRNIESGVLA-VSRDLYETLLLNFLQGGYFERVMEVIGYMKKQNM  604 (653)
Q Consensus       535 ~t~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~  604 (653)
                      ..|..|-+.|.-.|+++.|+...+.=.+..++.|-+ ...+.+..+-.+++-.|+++.|.+.++.-....+
T Consensus       196 Ra~GnLGNTyYlLGdf~~ai~~H~~RL~ia~efGDrAaeRRA~sNlgN~hiflg~fe~A~ehYK~tl~LAi  266 (639)
T KOG1130|consen  196 RAYGNLGNTYYLLGDFDQAIHFHKLRLEIAQEFGDRAAERRAHSNLGNCHIFLGNFELAIEHYKLTLNLAI  266 (639)
T ss_pred             chhcccCceeeeeccHHHHHHHHHHHHHHHHHhhhHHHHHHhhcccchhhhhhcccHhHHHHHHHHHHHHH
Confidence            467777888888899999998877544444444433 2455677888899999999999999887654333

>PRK15331 chaperone protein SicA; Provisional

Probab=92.03  E-value=1.3  Score=37.95  Aligned_cols=89  Identities=8%  Similarity=-0.054  Sum_probs=71.3

Q ss_pred             HHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCh
Q 048743          352 NGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTYKSLLTAYYKVKMF  431 (653)
Q Consensus       352 ~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~  431 (653)
                      .-+...|++++|..+|+-+...+  +.+..-|..|-..+-..+++++|...|......+. -|+..+-..-.++...|+.
T Consensus        45 y~~y~~Gk~~eA~~~F~~L~~~d--~~n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~~-~dp~p~f~agqC~l~l~~~  121 (165)
T PRK15331         45 YEFYNQGRLDEAETFFRFLCIYD--FYNPDYTMGLAAVCQLKKQFQKACDLYAVAFTLLK-NDYRPVFFTGQCQLLMRKA  121 (165)
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhC--cCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccc-CCCCccchHHHHHHHhCCH
Confidence            34557999999999999999877  66666566677777778999999999988755443 3555566677889999999


Q ss_pred             HHHHHHHHHHHH
Q 048743          432 REAEALLKQMRK  443 (653)
Q Consensus       432 ~~a~~~~~~m~~  443 (653)
                      +.|..-|+....
T Consensus       122 ~~A~~~f~~a~~  133 (165)
T PRK15331        122 AKARQCFELVNE  133 (165)
T ss_pred             HHHHHHHHHHHh
Confidence            999999998877

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=91.79  E-value=9  Score=40.09  Aligned_cols=117  Identities=14%  Similarity=0.066  Sum_probs=82.1

Q ss_pred             cCCHHHHHHHHHHHHHccCCCCHHHHHHHHHH-HHcCCCHHHHHHHHHHHHhcC---CCCCHHHHHHHHHHHhccCCHHH
Q 048743          477 MDKSDLAESLIQEMREEAALSTIYKLNSSIYF-FCKGKMIGDALKIYRRMQEMK---IRPTVETFYYLVYGHSSLEMYRD  552 (653)
Q Consensus       477 ~~~~~~a~~~~~~m~~~~~~p~~~~y~~li~~-~~~~g~~~~a~~~~~~m~~~g---~~p~~~t~~~li~~~~~~~~~~~  552 (653)
                      ....+.|.++++.+..+=  |+...|.-.-.- +...|++++|++.|++.....   .+.....+--+...+.-..++++
T Consensus       246 ~~~~~~a~~lL~~~~~~y--P~s~lfl~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~  323 (468)
T PF10300_consen  246 DVPLEEAEELLEEMLKRY--PNSALFLFFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEE  323 (468)
T ss_pred             CCCHHHHHHHHHHHHHhC--CCcHHHHHHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHH
Confidence            678889999999999864  777776554433 346899999999999766421   12334455666777888999999


Q ss_pred             HHHHHHHHHHHhhhCCCccCHHHHHHHHHH-HHhCCCH-------HHHHHHHHHHH
Q 048743          553 ITILWGDIKRNIESGVLAVSRDLYETLLLN-FLQGGYF-------ERVMEVIGYMK  600 (653)
Q Consensus       553 a~~~~~~~~~~~~~~~~~p~~~~y~~li~~-~~~~g~~-------~~a~~~~~~m~  600 (653)
                      |.+.|..+.+   ...  .+..+|..+.-+ +...|+.       ++|.++|.+..
T Consensus       324 A~~~f~~L~~---~s~--WSka~Y~Y~~a~c~~~l~~~~~~~~~~~~a~~l~~~vp  374 (468)
T PF10300_consen  324 AAEYFLRLLK---ESK--WSKAFYAYLAAACLLMLGREEEAKEHKKEAEELFRKVP  374 (468)
T ss_pred             HHHHHHHHHh---ccc--cHHHHHHHHHHHHHHhhccchhhhhhHHHHHHHHHHHH
Confidence            9999998862   222  344455544333 4567777       88888888774

In humans this protein is expressed in primary breast carcinomas but not in normal breast tissue, and has a putative eukaryotic RNP-1 RNA binding region and a candidate anchoring transmembrane domain. The human protein is coordinately regulated with oestrogen receptor, but is not necessarily oestradiol-responsive []. Members of this family carry a tetratricopeptide repeat (IPR013105 from INTERPRO) at their C terminus.

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=91.54  E-value=14  Score=35.80  Aligned_cols=133  Identities=14%  Similarity=0.208  Sum_probs=74.2

Q ss_pred             HHHHHHHHHHHHHccCCCCHHHHHHHHHHHHc--CC----CHHHHHHHHHHHHhcCC---CCCHHHHHHHHHHHhccCCH
Q 048743          480 SDLAESLIQEMREEAALSTIYKLNSSIYFFCK--GK----MIGDALKIYRRMQEMKI---RPTVETFYYLVYGHSSLEMY  550 (653)
Q Consensus       480 ~~~a~~~~~~m~~~~~~p~~~~y~~li~~~~~--~g----~~~~a~~~~~~m~~~g~---~p~~~t~~~li~~~~~~~~~  550 (653)
                      +++...+++.|.+.|..-+.++|-+..-....  ..    ...+|.++|+.|++...   .++-.++..|+..  ..++.
T Consensus        78 ~~~~~~~y~~L~~~gFk~~~y~~laA~~i~~~~~~~~~~~~~~ra~~iy~~mKk~H~fLTs~~D~~~a~lLA~--~~~~~  155 (297)
T PF13170_consen   78 FKEVLDIYEKLKEAGFKRSEYLYLAALIILEEEEKEDYDEIIQRAKEIYKEMKKKHPFLTSPEDYPFAALLAM--TSEDV  155 (297)
T ss_pred             HHHHHHHHHHHHHhccCccChHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHhCccccCccchhHHHHHhc--ccccH
Confidence            44566677788888877776666553222222  22    25578888888887432   3445566666554  44444


Q ss_pred             HHHHHHHHHHHHHhhhCCCccCH--HHHHHHHHHHHhC-CC--HHHHHHHHHHHHhCCCCCCHHhHHHHH
Q 048743          551 RDITILWGDIKRNIESGVLAVSR--DLYETLLLNFLQG-GY--FERVMEVIGYMKKQNMYVDKLMYKSEF  615 (653)
Q Consensus       551 ~~a~~~~~~~~~~~~~~~~~p~~--~~y~~li~~~~~~-g~--~~~a~~~~~~m~~~g~~p~~~t~~~l~  615 (653)
                      +.-.+..+.+.+.+...|+..+-  .....++ +++.. ..  +.++.++++.+.+.|+++....|.++.
T Consensus       156 e~l~~~~E~~Y~~L~~~~f~kgn~LQ~LS~iL-aL~~~~~~~~v~r~~~l~~~l~~~~~kik~~~yp~lG  224 (297)
T PF13170_consen  156 EELAERMEQCYQKLADAGFKKGNDLQFLSHIL-ALSEGDDQEKVARVIELYNALKKNGVKIKYMHYPTLG  224 (297)
T ss_pred             HHHHHHHHHHHHHHHHhCCCCCcHHHHHHHHH-HhccccchHHHHHHHHHHHHHHHcCCccccccccHHH
Confidence            44333333333333444555433  2333333 33322 11  346778888888888887777777654

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=91.27  E-value=4.8  Score=37.58  Aligned_cols=102  Identities=21%  Similarity=0.224  Sum_probs=82.9

Q ss_pred             HHHHHHHHHHHhccchhHHHHHHHHhhhhcCCCC----chhHHHHHHHhhccCCcchhhhHHHHHHHHHhccCCch-hHH
Q 048743           20 EVLLRKLESASKNHQVGEAWETFNDFQRLHGIPE----RHVVNRFITDLCYSAEPHWLQKACDLVLKIQKGKADLL-QLD   94 (653)
Q Consensus        20 ~~~~~~i~~~~~~~~~~~A~~~~~~~~~~~~~~~----~~~~~~ll~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~   94 (653)
                      ..|+.- ..+.+.|++..|.+.|....+.  .|+    +..+=||-.++...|+   .++|-.+|..+.+..|..| -++
T Consensus       143 ~~Y~~A-~~~~ksgdy~~A~~~F~~fi~~--YP~s~~~~nA~yWLGe~~y~qg~---y~~Aa~~f~~~~k~~P~s~KApd  216 (262)
T COG1729         143 KLYNAA-LDLYKSGDYAEAEQAFQAFIKK--YPNSTYTPNAYYWLGESLYAQGD---YEDAAYIFARVVKDYPKSPKAPD  216 (262)
T ss_pred             HHHHHH-HHHHHcCCHHHHHHHHHHHHHc--CCCCcccchhHHHHHHHHHhccc---chHHHHHHHHHHHhCCCCCCChH
Confidence            345544 4567889999999999998884  443    3567899999998888   7999999999988877666 458


Q ss_pred             HHHHHHHHHHhcCCCchHHHHHHHHHcCccCCCch
Q 048743           95 LLAKLSLSLARAQMPVPASMILRLMLGRENLPCSD  129 (653)
Q Consensus        95 t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~  129 (653)
                      .+-.|.....+.|+.++|...|++..+.  -|+..
T Consensus       217 allKlg~~~~~l~~~d~A~atl~qv~k~--YP~t~  249 (262)
T COG1729         217 ALLKLGVSLGRLGNTDEACATLQQVIKR--YPGTD  249 (262)
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHH--CCCCH
Confidence            8999999999999999999999999876  45543

>KOG0687 consensus 26S proteasome regulatory complex, subunit RPN7/PSMD6 [Posttranslational modification, protein turnover, chaperones]

Probab=90.68  E-value=13  Score=35.59  Aligned_cols=150  Identities=11%  Similarity=0.020  Sum_probs=91.7

Q ss_pred             CCHHHHHHHHHHHHHccCCC-------------CHHHHHHHHHHHHcCCCHHHHHHHHHHHHhc-CCCCCHHHHHHHHHH
Q 048743          478 DKSDLAESLIQEMREEAALS-------------TIYKLNSSIYFFCKGKMIGDALKIYRRMQEM-KIRPTVETFYYLVYG  543 (653)
Q Consensus       478 ~~~~~a~~~~~~m~~~~~~p-------------~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~-g~~p~~~t~~~li~~  543 (653)
                      ++......++..+.+.++.|             |...+|+|..  ....++++--+..++..+. |-.--.........-
T Consensus        36 ~~~~~~e~l~~~Ird~~Map~Ye~lce~~~i~~D~~~l~~m~~--~neeki~eld~~iedaeenlGE~ev~ea~~~kaeY  113 (393)
T KOG0687|consen   36 QKAAAREKLLAAIRDEDMAPLYEYLCESLVIKLDQDLLNSMKK--ANEEKIKELDEKIEDAEENLGESEVREAMLRKAEY  113 (393)
T ss_pred             cCHHHHHHHHHHHHhcccchHHHHHHhhcceeccHHHHHHHHH--hhHHHHHHHHHHHHHHHHhcchHHHHHHHHHHHHH
Confidence            35566667777777776655             3334444443  1222233333333333321 211122345556667


Q ss_pred             HhccCCHHHHHHHHHHHHHHhhhCCCccCHHHHHHHHHH-HHhCCCHHHHHHHHHHHHhCCCCCC----HHhHHHHHHHh
Q 048743          544 HSSLEMYRDITILWGDIKRNIESGVLAVSRDLYETLLLN-FLQGGYFERVMEVIGYMKKQNMYVD----KLMYKSEFLKH  618 (653)
Q Consensus       544 ~~~~~~~~~a~~~~~~~~~~~~~~~~~p~~~~y~~li~~-~~~~g~~~~a~~~~~~m~~~g~~p~----~~t~~~l~~~~  618 (653)
                      ||+.|+-+.|.+.++...+..-.-|.+.|+..+..-+.- |..+.-+.+-++..+.|.++|-..+    -.+|-.+.|..
T Consensus       114 ycqigDkena~~~~~~t~~ktvs~g~kiDVvf~~iRlglfy~D~~lV~~~iekak~liE~GgDWeRrNRlKvY~Gly~ms  193 (393)
T KOG0687|consen  114 YCQIGDKENALEALRKTYEKTVSLGHKIDVVFYKIRLGLFYLDHDLVTESIEKAKSLIEEGGDWERRNRLKVYQGLYCMS  193 (393)
T ss_pred             HHHhccHHHHHHHHHHHHHHHhhcccchhhHHHHHHHHHhhccHHHHHHHHHHHHHHHHhCCChhhhhhHHHHHHHHHHH
Confidence            899999999999998877666677888888776654422 4445556677777788888886554    56777788888


Q ss_pred             hhhhHHhhhhh
Q 048743          619 HKHLYRRLKVS  629 (653)
Q Consensus       619 ~~~~~~~~~~~  629 (653)
                      -+|+..|-.++
T Consensus       194 vR~Fk~Aa~Lf  204 (393)
T KOG0687|consen  194 VRNFKEAADLF  204 (393)
T ss_pred             HHhHHHHHHHH
Confidence            88887664443

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=90.68  E-value=2.5  Score=39.98  Aligned_cols=77  Identities=13%  Similarity=0.042  Sum_probs=61.2

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHH-----CCCCCCHHHHHH
Q 048743          346 AMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMEL-----AGHPMDSTTYKS  420 (653)
Q Consensus       346 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~-----~g~~p~~~~~~~  420 (653)
                      ++..++..+...|+++.+...++++....  |.+...|..+|.+|.+.|+...|...|+.+.+     .|+.|...+...
T Consensus       155 ~l~~lae~~~~~~~~~~~~~~l~~Li~~d--p~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~~~~edlgi~P~~~~~~~  232 (280)
T COG3629         155 ALTKLAEALIACGRADAVIEHLERLIELD--PYDEPAYLRLMEAYLVNGRQSAAIRAYRQLKKTLAEELGIDPAPELRAL  232 (280)
T ss_pred             HHHHHHHHHHhcccHHHHHHHHHHHHhcC--ccchHHHHHHHHHHHHcCCchHHHHHHHHHHHHhhhhcCCCccHHHHHH
Confidence            56678888888888888888888888887  77777788888888888888888888887754     577777777666


Q ss_pred             HHHH
Q 048743          421 LLTA  424 (653)
Q Consensus       421 li~~  424 (653)
                      ....
T Consensus       233 y~~~  236 (280)
T COG3629         233 YEEI  236 (280)
T ss_pred             HHHH
Confidence            5555

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=90.66  E-value=3.3  Score=39.26  Aligned_cols=82  Identities=9%  Similarity=-0.047  Sum_probs=68.7

Q ss_pred             HHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHH-HhhhCCCccCHHHHHH
Q 048743          500 YKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRPTVETFYYLVYGHSSLEMYRDITILWGDIKR-NIESGVLAVSRDLYET  578 (653)
Q Consensus       500 ~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~~~~-~~~~~~~~p~~~~y~~  578 (653)
                      .++..++..+...|+.+.+.+.++++.... +-|...|..+|.+|.+.|+...|+..++.+.+ ..++.|+.|...+...
T Consensus       154 ~~l~~lae~~~~~~~~~~~~~~l~~Li~~d-p~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~~~~edlgi~P~~~~~~~  232 (280)
T COG3629         154 KALTKLAEALIACGRADAVIEHLERLIELD-PYDEPAYLRLMEAYLVNGRQSAAIRAYRQLKKTLAEELGIDPAPELRAL  232 (280)
T ss_pred             HHHHHHHHHHHhcccHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHcCCchHHHHHHHHHHHHhhhhcCCCccHHHHHH
Confidence            467788889999999999999999998863 45788899999999999999999999988876 5577789998888776


Q ss_pred             HHHH
Q 048743          579 LLLN  582 (653)
Q Consensus       579 li~~  582 (653)
                      ..+.
T Consensus       233 y~~~  236 (280)
T COG3629         233 YEEI  236 (280)
T ss_pred             HHHH
Confidence            6665

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=90.57  E-value=4  Score=34.15  Aligned_cols=89  Identities=9%  Similarity=-0.000  Sum_probs=62.3

Q ss_pred             ccchHHHHHHHHHHHHhccchhHHHHHHHHhhhhcCCC--CchhHHHHHHHhhccCCcchhhhHHHHHHHHHhccCCchh
Q 048743           15 EGSSREVLLRKLESASKNHQVGEAWETFNDFQRLHGIP--ERHVVNRFITDLCYSAEPHWLQKACDLVLKIQKGKADLLQ   92 (653)
Q Consensus        15 ~~p~~~~~~~~i~~~~~~~~~~~A~~~~~~~~~~~~~~--~~~~~~~ll~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~   92 (653)
                      +.|....|. -.....+.|++++|.+.|+.+.......  ....--.++.++.+.++   .++|...++++++.+|..|+
T Consensus         7 ~~~~~~ly~-~a~~~l~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~---y~~A~a~~~rFirLhP~hp~   82 (142)
T PF13512_consen    7 DKSPQELYQ-EAQEALQKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGD---YEEAIAAYDRFIRLHPTHPN   82 (142)
T ss_pred             CCCHHHHHH-HHHHHHHhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccC---HHHHHHHHHHHHHhCCCCCC
Confidence            344444444 4455678899999999999998853221  12355778888888888   79999999999988888775


Q ss_pred             HHHHHHHHHHHHhcCC
Q 048743           93 LDLLAKLSLSLARAQM  108 (653)
Q Consensus        93 ~~t~~~li~~~~~~g~  108 (653)
                       ..|...+.+++....
T Consensus        83 -vdYa~Y~~gL~~~~~   97 (142)
T PF13512_consen   83 -VDYAYYMRGLSYYEQ   97 (142)
T ss_pred             -ccHHHHHHHHHHHHH
Confidence             345555556555443

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=90.34  E-value=3.7  Score=38.84  Aligned_cols=107  Identities=13%  Similarity=0.106  Sum_probs=80.4

Q ss_pred             CCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCC--CCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCH
Q 048743          338 GKLLHSNRAMAKLINGYKKHGKNSELSWLLLSIKKEHH--SFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDS  415 (653)
Q Consensus       338 ~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~--~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~  415 (653)
                      +|...+..+...++..-....+.+.+...+-+++....  ..++.. -..+++- +-.=++++++.++..=.+-|+-||.
T Consensus        58 ~g~~~s~~~Vd~~V~v~~~~~~idd~~~~LyKlRhs~~a~~~~~~~-~~~~irl-llky~pq~~i~~l~npIqYGiF~dq  135 (418)
T KOG4570|consen   58 RGLPVSSLTVDRLVDVISSREEIDDAEYYLYKLRHSPNAWYLRNWT-IHTWIRL-LLKYDPQKAIYTLVNPIQYGIFPDQ  135 (418)
T ss_pred             cCCCcceeehhhhhhccccccchhHHHHHHHHHhcCcchhhhcccc-HHHHHHH-HHccChHHHHHHHhCcchhccccch
Confidence            45555666667777777778888999988888776442  233333 2333333 3345788999999999999999999


Q ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHHcCC
Q 048743          416 TTYKSLLTAYYKVKMFREAEALLKQMRKSCL  446 (653)
Q Consensus       416 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~  446 (653)
                      .+++.+|+.+.+.+++.+|.++.-.|.....
T Consensus       136 f~~c~l~D~flk~~n~~~aa~vvt~~~~qe~  166 (418)
T KOG4570|consen  136 FTFCLLMDSFLKKENYKDAASVVTEVMMQEA  166 (418)
T ss_pred             hhHHHHHHHHHhcccHHHHHHHHHHHHHHHH
Confidence            9999999999999999999998877776543

>PF10602 RPN7: 26S proteasome subunit RPN7; InterPro: IPR019585 This entry represents the regulatory subunit RPN7 (known as the non-ATPase regulatory subunit 6 in higher eukaryotes) of the 26S proteasome

Probab=90.01  E-value=4.4  Score=35.83  Aligned_cols=97  Identities=14%  Similarity=0.144  Sum_probs=72.4

Q ss_pred             hhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCccHHH--HHHHHHHHHhcCChhhhHHHHHHhhhcCCC----cccchhH
Q 048743          178 MIFNLVLHACVRFGSSLKGQHIMELMSQTGVVADAHS--IIILAQIHEMNCQRDELKKFKCYIDQLSTP----FAHHYQQ  251 (653)
Q Consensus       178 ~~yn~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t--~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~----~~~~~~~  251 (653)
                      ..+..+..-|++.|+.+.|++.|.++.+....|....  +-.++..+.-.+++..+.............    ....-..
T Consensus        37 ~~~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~~~~~~~~d~~~~nrlk  116 (177)
T PF10602_consen   37 MALEDLADHYCKIGDLEEALKAYSRARDYCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAESLIEKGGDWERRNRLK  116 (177)
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhccchHHHHHHHH
Confidence            4688899999999999999999999999876666555  668888999999999998887777654321    2221123


Q ss_pred             HHHHHHHhhhccCCHHHHHHHHHHh
Q 048743          252 FYESLLSLHFKFDDIDAAGELILDM  276 (653)
Q Consensus       252 ~~~~li~~~~~~g~~~~A~~~~~~m  276 (653)
                      +|..|...  ..+++..|-+.|-+.
T Consensus       117 ~~~gL~~l--~~r~f~~AA~~fl~~  139 (177)
T PF10602_consen  117 VYEGLANL--AQRDFKEAAELFLDS  139 (177)
T ss_pred             HHHHHHHH--HhchHHHHHHHHHcc
Confidence            44444443  358899998888777

This entry also matches the evolutionarily related subunit 1 of the COP9 signalosome complex (CSN) from Arabidopsis []. The 26S proteasome plays a major role in ATP-dependent degradation of ubiquitinated proteins. Substrate specificity is conferred by the regulatory particle (RP), which can dissociate into stable lid and base subcomplexes. The regulatory subunit RPN7 is one of the lid subunits of the 26S proteasome and has been shown in Saccharomyces cerevisiae (Baker's yeast) to be required for structural integrity []. The COP9 signalosome is a conserved protein complex composed of eight subunits, where Individual subunits of the complex have been linked to various signal transduction pathways leading to gene expression and cell cycle control []. The overall organisation and the amino acid sequences of the COP9 signalosome subunits resemble the lid subcomplex of the 19 S regulatory particle for the 26 S proteasome []. COP9 subunit 1 (CSN1 or GPS1) of the COP9 complex is an essential subunit of the complex with regard to both structural integrity and functionality. The N-terminal region of subunit 1 (CSN1-N) can inhibit c-fos expression from either a transfected template or a chromosomal transgene (fos-lacZ), and may contain the activity domain that confers most of the repression functions of CSN1. The C-terminal region of subunit 1 (CSN1-C) allows integration of the protein into the COP9 signalosome.

>PRK15331 chaperone protein SicA; Provisional

Probab=89.81  E-value=6.4  Score=33.85  Aligned_cols=84  Identities=7%  Similarity=-0.083  Sum_probs=64.7

Q ss_pred             ccCCHHHHHHHHHHHHHccCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCCHHHHHH
Q 048743          476 LMDKSDLAESLIQEMREEAALSTIYKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRPTVETFYYLVYGHSSLEMYRDITI  555 (653)
Q Consensus       476 ~~~~~~~a~~~~~~m~~~~~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~  555 (653)
                      ..|++++|..+|.-+.-.+. -|..-|..|-.+|-..+++++|+..|......+. -|...+-..-.++...|+.+.|..
T Consensus        49 ~~Gk~~eA~~~F~~L~~~d~-~n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~~-~dp~p~f~agqC~l~l~~~~~A~~  126 (165)
T PRK15331         49 NQGRLDEAETFFRFLCIYDF-YNPDYTMGLAAVCQLKKQFQKACDLYAVAFTLLK-NDYRPVFFTGQCQLLMRKAAKARQ  126 (165)
T ss_pred             HCCCHHHHHHHHHHHHHhCc-CcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccc-CCCCccchHHHHHHHhCCHHHHHH
Confidence            48999999999998887553 2556677777777788999999999988766442 244445556788889999999999


Q ss_pred             HHHHHH
Q 048743          556 LWGDIK  561 (653)
Q Consensus       556 ~~~~~~  561 (653)
                      .|....
T Consensus       127 ~f~~a~  132 (165)
T PRK15331        127 CFELVN  132 (165)
T ss_pred             HHHHHH
Confidence            997775

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=89.74  E-value=7.2  Score=31.81  Aligned_cols=92  Identities=14%  Similarity=-0.069  Sum_probs=71.5

Q ss_pred             HHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHH---HHHHHHHHHHc
Q 048743          352 NGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTT---YKSLLTAYYKV  428 (653)
Q Consensus       352 ~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~---~~~li~~~~~~  428 (653)
                      -+.+..|+++.|++.|.+...--  |.+...||.-..++.-.|+.++|+.=+++..+..-.-+...   |..--..|...
T Consensus        51 valaE~g~Ld~AlE~F~qal~l~--P~raSayNNRAQa~RLq~~~e~ALdDLn~AleLag~~trtacqa~vQRg~lyRl~  128 (175)
T KOG4555|consen   51 IALAEAGDLDGALELFGQALCLA--PERASAYNNRAQALRLQGDDEEALDDLNKALELAGDQTRTACQAFVQRGLLYRLL  128 (175)
T ss_pred             HHHHhccchHHHHHHHHHHHHhc--ccchHhhccHHHHHHHcCChHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHHHh
Confidence            35678999999999999987765  77888899999999999999999999988866422223332   22233356778


Q ss_pred             CChHHHHHHHHHHHHcC
Q 048743          429 KMFREAEALLKQMRKSC  445 (653)
Q Consensus       429 ~~~~~a~~~~~~m~~~~  445 (653)
                      |+-+.|..=|+...+.|
T Consensus       129 g~dd~AR~DFe~AA~LG  145 (175)
T KOG4555|consen  129 GNDDAARADFEAAAQLG  145 (175)
T ss_pred             CchHHHHHhHHHHHHhC
Confidence            99999999998887766

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=89.42  E-value=12  Score=37.16  Aligned_cols=120  Identities=11%  Similarity=0.001  Sum_probs=83.5

Q ss_pred             HHHcCCCHHHHHHHHHHHHh-----cCCCC---------CHHHHHHHHHHHhccCCHHHHHHHHHHHHHHhhhCCCccCH
Q 048743          508 FFCKGKMIGDALKIYRRMQE-----MKIRP---------TVETFYYLVYGHSSLEMYRDITILWGDIKRNIESGVLAVSR  573 (653)
Q Consensus       508 ~~~~~g~~~~a~~~~~~m~~-----~g~~p---------~~~t~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~p~~  573 (653)
                      .|.+.|++..|..-|++...     .+..+         -..++..|.-+|.+.+++..|++..+..+..     -.+|.
T Consensus       217 ~~fK~gk~~~A~~~Yerav~~l~~~~~~~~ee~~~~~~~k~~~~lNlA~c~lKl~~~~~Ai~~c~kvLe~-----~~~N~  291 (397)
T KOG0543|consen  217 VLFKEGKFKLAKKRYERAVSFLEYRRSFDEEEQKKAEALKLACHLNLAACYLKLKEYKEAIESCNKVLEL-----DPNNV  291 (397)
T ss_pred             HHHhhchHHHHHHHHHHHHHHhhccccCCHHHHHHHHHHHHHHhhHHHHHHHhhhhHHHHHHHHHHHHhc-----CCCch
Confidence            45677888887777776543     11111         2246777888899999999999999887632     24466


Q ss_pred             HHHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHh----hhhhHHhhhhhHHHHH
Q 048743          574 DLYETLLLNFLQGGYFERVMEVIGYMKKQNMYVDKLMYKSEFLKH----HKHLYRRLKVSNARTE  634 (653)
Q Consensus       574 ~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~l~~~~----~~~~~~~~~~~~~~~~  634 (653)
                      ...-.=-++|...|+++.|...|+.++  .+.|+....+.-+.++    ..-..+..++...|+.
T Consensus       292 KALyRrG~A~l~~~e~~~A~~df~ka~--k~~P~Nka~~~el~~l~~k~~~~~~kekk~y~~mF~  354 (397)
T KOG0543|consen  292 KALYRRGQALLALGEYDLARDDFQKAL--KLEPSNKAARAELIKLKQKIREYEEKEKKMYANMFA  354 (397)
T ss_pred             hHHHHHHHHHHhhccHHHHHHHHHHHH--HhCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            666667788999999999999999998  4578887777755222    2233344556666665

>KOG0403 consensus Neoplastic transformation suppressor Pdcd4/MA-3, contains MA3 domain [Signal transduction mechanisms]

Probab=89.41  E-value=25  Score=35.28  Aligned_cols=71  Identities=11%  Similarity=-0.012  Sum_probs=48.1

Q ss_pred             ccccccCCHHHHHHHHHHHHHccCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhcc
Q 048743          472 DTSSLMDKSDLAESLIQEMREEAALSTIYKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRPTVETFYYLVYGHSSL  547 (653)
Q Consensus       472 ~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~  547 (653)
                      +-|-..|++.+|...++++.-.-+ -....+.+++.+.-+.|+-...++++++.-..|    .+|-+.+-.+|.+.
T Consensus       517 eEY~~~GdisEA~~CikeLgmPfF-hHEvVkkAlVm~mEkk~d~t~~ldLLk~cf~sg----lIT~nQMtkGf~RV  587 (645)
T KOG0403|consen  517 EEYELSGDISEACHCIKELGMPFF-HHEVVKKALVMVMEKKGDSTMILDLLKECFKSG----LITTNQMTKGFERV  587 (645)
T ss_pred             HHHHhccchHHHHHHHHHhCCCcc-hHHHHHHHHHHHHHhcCcHHHHHHHHHHHHhcC----ceeHHHhhhhhhhh
Confidence            345567888888888777654211 155678888888888888877888887776654    34555666666554

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=89.19  E-value=26  Score=36.00  Aligned_cols=55  Identities=16%  Similarity=0.163  Sum_probs=28.2

Q ss_pred             HHHHHHcCCCHHHHHHHHHHHHhcCCC-CCHHHHHHHHHHHhccCCHHHHHHHHHH
Q 048743          505 SIYFFCKGKMIGDALKIYRRMQEMKIR-PTVETFYYLVYGHSSLEMYRDITILWGD  559 (653)
Q Consensus       505 li~~~~~~g~~~~a~~~~~~m~~~g~~-p~~~t~~~li~~~~~~~~~~~a~~~~~~  559 (653)
                      +-.++-+.|+.++|.+.|++|.+..-. -+......|+.++...+.+.++..++..
T Consensus       265 LAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~k  320 (539)
T PF04184_consen  265 LAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAK  320 (539)
T ss_pred             HHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHH
Confidence            444444556666666666666543211 1223444556666666666666555543

The molecular function of this protein is uncertain.

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=89.07  E-value=11  Score=36.24  Aligned_cols=82  Identities=6%  Similarity=-0.022  Sum_probs=41.6

Q ss_pred             cCCHHHHHHHHHHHHHccCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhc---CCCCCHHHHHHHHHHHhccCCHHHH
Q 048743          477 MDKSDLAESLIQEMREEAALSTIYKLNSSIYFFCKGKMIGDALKIYRRMQEM---KIRPTVETFYYLVYGHSSLEMYRDI  553 (653)
Q Consensus       477 ~~~~~~a~~~~~~m~~~~~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~---g~~p~~~t~~~li~~~~~~~~~~~a  553 (653)
                      +|-+++|++.-++-.+.+- -|...-.+....+-..|++.++.++..+-...   +--.-..-|-...-.+...+.++.|
T Consensus       188 ~g~y~dAEk~A~ralqiN~-~D~Wa~Ha~aHVlem~~r~Keg~eFM~~ted~Wr~s~mlasHNyWH~Al~~iE~aeye~a  266 (491)
T KOG2610|consen  188 CGIYDDAEKQADRALQINR-FDCWASHAKAHVLEMNGRHKEGKEFMYKTEDDWRQSWMLASHNYWHTALFHIEGAEYEKA  266 (491)
T ss_pred             hccchhHHHHHHhhccCCC-cchHHHHHHHHHHHhcchhhhHHHHHHhcccchhhhhHHHhhhhHHHHHhhhcccchhHH
Confidence            3444444444433333220 14555556666666777777777766553321   1111122333333344556777777


Q ss_pred             HHHHHH
Q 048743          554 TILWGD  559 (653)
Q Consensus       554 ~~~~~~  559 (653)
                      +++|+.
T Consensus       267 leIyD~  272 (491)
T KOG2610|consen  267 LEIYDR  272 (491)
T ss_pred             HHHHHH
Confidence            777764

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=89.01  E-value=1.2  Score=28.65  Aligned_cols=35  Identities=17%  Similarity=0.177  Sum_probs=19.6

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccH
Q 048743          347 MAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLC  383 (653)
Q Consensus       347 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~  383 (653)
                      +..+-.+|.+.|++++|.++|++..+..  |.+...+
T Consensus         4 ~~~la~~~~~~G~~~~A~~~~~~~l~~~--P~~~~a~   38 (44)
T PF13428_consen    4 WLALARAYRRLGQPDEAERLLRRALALD--PDDPEAW   38 (44)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHC--cCCHHHH
Confidence            4455555666666666666666665555  4444433

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=88.98  E-value=19  Score=33.40  Aligned_cols=134  Identities=12%  Similarity=0.024  Sum_probs=93.7

Q ss_pred             cCCHHHHHHHHHHHHHccCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHH-----HHhccCCHH
Q 048743          477 MDKSDLAESLIQEMREEAALSTIYKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRPTVETFYYLVY-----GHSSLEMYR  551 (653)
Q Consensus       477 ~~~~~~a~~~~~~m~~~~~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~-----~~~~~~~~~  551 (653)
                      .+.+.-...++++..+...+-++.....|.+.-.+.|+.+.|...|++..+..-+.|..+++.++.     .+.-++++.
T Consensus       190 ~kEy~iS~d~~~~vi~~~~e~~p~L~s~Lgr~~MQ~GD~k~a~~yf~~vek~~~kL~~~q~~~~V~~n~a~i~lg~nn~a  269 (366)
T KOG2796|consen  190 MKEYVLSVDAYHSVIKYYPEQEPQLLSGLGRISMQIGDIKTAEKYFQDVEKVTQKLDGLQGKIMVLMNSAFLHLGQNNFA  269 (366)
T ss_pred             chhhhhhHHHHHHHHHhCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHhhhhccchhHHHHhhhhhheecccchH
Confidence            455666777788888766544778888888888899999999999998877655667666666554     344566788


Q ss_pred             HHHHHHHHHHHHhhhCCCcc-CHHHHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHh
Q 048743          552 DITILWGDIKRNIESGVLAV-SRDLYETLLLNFLQGGYFERVMEVIGYMKKQNMYVDKLMYKSEFLKH  618 (653)
Q Consensus       552 ~a~~~~~~~~~~~~~~~~~p-~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~l~~~~  618 (653)
                      .|...++++.+.      .| |...-|.=.-++.-.|+..+|++.++.|...  .|...+-++++..+
T Consensus       270 ~a~r~~~~i~~~------D~~~~~a~NnKALcllYlg~l~DAiK~~e~~~~~--~P~~~l~es~~~nL  329 (366)
T KOG2796|consen  270 EAHRFFTEILRM------DPRNAVANNNKALCLLYLGKLKDALKQLEAMVQQ--DPRHYLHESVLFNL  329 (366)
T ss_pred             HHHHHHhhcccc------CCCchhhhchHHHHHHHHHHHHHHHHHHHHHhcc--CCccchhhhHHHHH
Confidence            888888777522      22 3333333333445578999999999999854  56666666666443

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=88.50  E-value=40  Score=36.40  Aligned_cols=296  Identities=13%  Similarity=0.068  Sum_probs=147.1

Q ss_pred             CCchhHHHHH-----HHHHHHHhcCCCchHHHHHHHHHcCccCCCchhHHHHHHHHhhcccccccchHHHHHHHHHhhhh
Q 048743           88 ADLLQLDLLA-----KLSLSLARAQMPVPASMILRLMLGRENLPCSDLLLLVFVHMVKTEIGTCLASNFLIQLCDVFLHL  162 (653)
Q Consensus        88 ~~~~~~~t~~-----~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~~~~l~~~~~~~~~~  162 (653)
                      |...+..-|.     .+|+-+...+.+..|+++-..+...-... ...|.......++..   ......+++....  ++
T Consensus       427 gIplT~~qy~~l~~~~vi~Rl~~r~~Y~vaIQva~~l~~p~~~~-~~Vl~~Wa~~kI~~~---d~~d~~vld~I~~--kl  500 (829)
T KOG2280|consen  427 GIPLTHEQYRHLSEEVVIDRLVDRHLYSVAIQVAKLLNLPESQG-DRVLLEWARRKIKQS---DKMDEEVLDKIDE--KL  500 (829)
T ss_pred             CccccHHHHhhhchhhhhHHHHhcchhHHHHHHHHHhCCccccc-cHHHHHHHHHHHhcc---CccchHHHHHHHH--Hh
Confidence            3444555444     47888889999999999988775432222 344443333333221   1111111111111  00


Q ss_pred             hhhhcCCccCCCCchhhHHHHHHHHHhcCChhhHHHHHHHHHhcCC----CccHHHHHHHHHHHHhcCChhhhHHHHHHh
Q 048743          163 SAEKSNGAELIKPDTMIFNLVLHACVRFGSSLKGQHIMELMSQTGV----VADAHSIIILAQIHEMNCQRDELKKFKCYI  238 (653)
Q Consensus       163 ~~a~~~~~~~~~~~~~~yn~li~~~~~~g~~~~a~~l~~~m~~~g~----~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~  238 (653)
                             ... --..++|..+.+-.-..|+++-|..+++.=...+.    ..+..-+...+.-+.+.|+.+-..+++-.+
T Consensus       501 -------s~~-~~~~iSy~~iA~~Ay~~GR~~LA~kLle~E~~~~~qV~lLL~m~~~~~AL~kaies~d~~Li~~Vllhl  572 (829)
T KOG2280|consen  501 -------SAK-LTPGISYAAIARRAYQEGRFELARKLLELEPRSGEQVPLLLKMKDSSLALKKAIESGDTDLIIQVLLHL  572 (829)
T ss_pred             -------ccc-CCCceeHHHHHHHHHhcCcHHHHHHHHhcCCCccchhHHHhccchHHHHHHHHHhcCCchhHHHHHHHH
Confidence                   011 13456788888878889999999888775443331    112223455666677777777777776665


Q ss_pred             hhcCCCcccchhHHHHHHHHhhhccCCHHHHHHHHHHhcccCCCCCCchhhhcccccchhccCCCcccchhhhccchhhh
Q 048743          239 DQLSTPFAHHYQQFYESLLSLHFKFDDIDAAGELILDMNRYREPLPNPKLRQDAQKPYLISIGSPNLRCGLKLQIMPELL  318 (653)
Q Consensus       239 ~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  318 (653)
                      .+....      ..+..      -..+...|..++.+++++.+-..--..   +.........+.+..            
T Consensus       573 k~~~~~------s~l~~------~l~~~p~a~~lY~~~~r~~~~~~l~d~---y~q~dn~~~~a~~~~------------  625 (829)
T KOG2280|consen  573 KNKLNR------SSLFM------TLRNQPLALSLYRQFMRHQDRATLYDF---YNQDDNHQALASFHL------------  625 (829)
T ss_pred             HHHHHH------HHHHH------HHHhchhhhHHHHHHHHhhchhhhhhh---hhcccchhhhhhhhh------------
Confidence            543200      00111      112334455566555432221100000   000000000000000            


Q ss_pred             HHHHHHhhhhhHHHHHHhcCCCCCCHHHHHHHHHHHHhcCC----------hHHHHHHHHHHHhcC-CCCCCcccHHHHH
Q 048743          319 EKDSILKMEGKQELVLFRNGKLLHSNRAMAKLINGYKKHGK----------NSELSWLLLSIKKEH-HSFGESTLCSDVI  387 (653)
Q Consensus       319 ~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~li~~~~~~~~----------~~~a~~~~~~m~~~~-~~~~~~~~~~~li  387 (653)
                                ..++......+..|+..   ..-++|.+...          ..+-+++.+.+..+- +...+.. .+.-+
T Consensus       626 ----------q~~~~~~~~~~r~~~lk---~~a~~~a~sk~~s~e~ka~ed~~kLl~lQ~~Le~q~~~~f~dlS-l~dTv  691 (829)
T KOG2280|consen  626 ----------QASYAAETIEGRIPALK---TAANAFAKSKEKSFEAKALEDQMKLLKLQRTLEDQFGGSFVDLS-LHDTV  691 (829)
T ss_pred             ----------hhhhhhhhhcccchhHH---HHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHHHHhccccccCc-HHHHH
Confidence                      00000000123334433   22333433332          122233333443332 2344444 77778


Q ss_pred             HHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHH
Q 048743          388 DALIQLGFLEAAHDILDDMELAGHPMDSTTYKSLLTAYYKVKMFREAEALLKQMR  442 (653)
Q Consensus       388 ~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~  442 (653)
                      .-+..-|+..+|.++-.+.+-    ||...|-.-+.+++..+++++-+++-+.++
T Consensus       692 ~~li~~g~~k~a~ql~~~Fki----pdKr~~wLk~~aLa~~~kweeLekfAkskk  742 (829)
T KOG2280|consen  692 TTLILIGQNKRAEQLKSDFKI----PDKRLWWLKLTALADIKKWEELEKFAKSKK  742 (829)
T ss_pred             HHHHHccchHHHHHHHHhcCC----cchhhHHHHHHHHHhhhhHHHHHHHHhccC
Confidence            888889999999888776543    688888888999999999988777655554

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=88.34  E-value=29  Score=34.61  Aligned_cols=51  Identities=10%  Similarity=0.032  Sum_probs=25.7

Q ss_pred             HcCCCHHHHHHHHHHHHh---cCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHH
Q 048743          510 CKGKMIGDALKIYRRMQE---MKIRPTVETFYYLVYGHSSLEMYRDITILWGDI  560 (653)
Q Consensus       510 ~~~g~~~~a~~~~~~m~~---~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~~  560 (653)
                      .+.|++.+|.+.|.+.+.   .++.|+...|.....+..+.|+.++|+.-.+..
T Consensus       260 fk~G~y~~A~E~Yteal~idP~n~~~naklY~nra~v~~rLgrl~eaisdc~~A  313 (486)
T KOG0550|consen  260 FKNGNYRKAYECYTEALNIDPSNKKTNAKLYGNRALVNIRLGRLREAISDCNEA  313 (486)
T ss_pred             hhccchhHHHHHHHHhhcCCccccchhHHHHHHhHhhhcccCCchhhhhhhhhh
Confidence            345555555555555543   234444445555555555555555555544433

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=87.88  E-value=10  Score=36.09  Aligned_cols=105  Identities=15%  Similarity=0.119  Sum_probs=75.3

Q ss_pred             CCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcC---CccCchhhHHHHhhHHHHhhhcccccccccccCCHHHHHH
Q 048743          409 AGHPMDSTTYKSLLTAYYKVKMFREAEALLKQMRKSC---LVQNLSCEMVVSERFSEVADKSASFTDTSSLMDKSDLAES  485 (653)
Q Consensus       409 ~g~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~---~~p~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~a~~  485 (653)
                      .|.+....+-..++..-....+++.+..++-.++...   ..|..+...+..     ++.           .-+.+.+.-
T Consensus        58 ~g~~~s~~~Vd~~V~v~~~~~~idd~~~~LyKlRhs~~a~~~~~~~~~~~ir-----lll-----------ky~pq~~i~  121 (418)
T KOG4570|consen   58 RGLPVSSLTVDRLVDVISSREEIDDAEYYLYKLRHSPNAWYLRNWTIHTWIR-----LLL-----------KYDPQKAIY  121 (418)
T ss_pred             cCCCcceeehhhhhhccccccchhHHHHHHHHHhcCcchhhhccccHHHHHH-----HHH-----------ccChHHHHH
Confidence            4555566666777766666778888888887776531   223322222222     222           346678888


Q ss_pred             HHHHHHHccCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcC
Q 048743          486 LIQEMREEAALSTIYKLNSSIYFFCKGKMIGDALKIYRRMQEMK  529 (653)
Q Consensus       486 ~~~~m~~~~~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g  529 (653)
                      ++..=...|+.||.++++.+|+.+.+.+++.+|..+.-.|....
T Consensus       122 ~l~npIqYGiF~dqf~~c~l~D~flk~~n~~~aa~vvt~~~~qe  165 (418)
T KOG4570|consen  122 TLVNPIQYGIFPDQFTFCLLMDSFLKKENYKDAASVVTEVMMQE  165 (418)
T ss_pred             HHhCcchhccccchhhHHHHHHHHHhcccHHHHHHHHHHHHHHH
Confidence            88888899999999999999999999999999999988887643

>PF08631 SPO22: Meiosis protein SPO22/ZIP4 like; InterPro: IPR013940 SPO22 is a meiosis-specific protein with similarity to phospholipase A2, involved in completion of nuclear divisions during meiosis; induced early in meiosis []

Probab=87.80  E-value=27  Score=33.64  Aligned_cols=104  Identities=15%  Similarity=-0.012  Sum_probs=61.7

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHhc----C---CCCCC-----cccHHHHHHHHHHcCCHH---HHHHHHHHHHHCC
Q 048743          346 AMAKLINGYKKHGKNSELSWLLLSIKKE----H---HSFGE-----STLCSDVIDALIQLGFLE---AAHDILDDMELAG  410 (653)
Q Consensus       346 ~~~~li~~~~~~~~~~~a~~~~~~m~~~----~---~~~~~-----~~~~~~li~~~~~~g~~~---~a~~~~~~m~~~g  410 (653)
                      .|+.-...+.+..+++.|...+++..+-    +   ...++     ..+...++.+|...+..+   +|.++++.+....
T Consensus        38 ~yn~G~~l~~~~~~~~~a~~wL~~a~~~l~~~~~~~~~~~~~~elr~~iL~~La~~~l~~~~~~~~~ka~~~l~~l~~e~  117 (278)
T PF08631_consen   38 CYNIGKSLLSKKDKYEEAVKWLQRAYDILEKPGKMDKLSPDGSELRLSILRLLANAYLEWDTYESVEKALNALRLLESEY  117 (278)
T ss_pred             HHHHHHHHHHcCCChHHHHHHHHHHHHHHHhhhhccccCCcHHHHHHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHhC
Confidence            3454444444443777777776654332    1   11122     123566777787777655   5666666664432


Q ss_pred             CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCccCc
Q 048743          411 HPMDSTTYKSLLTAYYKVKMFREAEALLKQMRKSCLVQNL  450 (653)
Q Consensus       411 ~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~  450 (653)
                       +-.+..|-.-+..+.+.++.+.+.+.+..|...-..++.
T Consensus       118 -~~~~~~~~L~l~il~~~~~~~~~~~~L~~mi~~~~~~e~  156 (278)
T PF08631_consen  118 -GNKPEVFLLKLEILLKSFDEEEYEEILMRMIRSVDHSES  156 (278)
T ss_pred             -CCCcHHHHHHHHHHhccCChhHHHHHHHHHHHhcccccc
Confidence             223455555677777789999999999999886333444

It is also involved in sporulation [].

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=87.76  E-value=11  Score=35.16  Aligned_cols=101  Identities=13%  Similarity=0.153  Sum_probs=75.6

Q ss_pred             HHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCC--CCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHHhhhCCCccCHHHH
Q 048743          499 IYKLNSSIYFFCKGKMIGDALKIYRRMQEMKI--RPTVETFYYLVYGHSSLEMYRDITILWGDIKRNIESGVLAVSRDLY  576 (653)
Q Consensus       499 ~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~--~p~~~t~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~p~~~~y  576 (653)
                      ...|+.-+..| +.|++..|..-|...++...  .-....+-.|..++...|++++|..+|..+.+...+....|  ..+
T Consensus       142 ~~~Y~~A~~~~-ksgdy~~A~~~F~~fi~~YP~s~~~~nA~yWLGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KAp--dal  218 (262)
T COG1729         142 TKLYNAALDLY-KSGDYAEAEQAFQAFIKKYPNSTYTPNAYYWLGESLYAQGDYEDAAYIFARVVKDYPKSPKAP--DAL  218 (262)
T ss_pred             hHHHHHHHHHH-HcCCHHHHHHHHHHHHHcCCCCcccchhHHHHHHHHHhcccchHHHHHHHHHHHhCCCCCCCh--HHH
Confidence            34688888765 47779999999999997521  11223455688999999999999999988875433322222  456


Q ss_pred             HHHHHHHHhCCCHHHHHHHHHHHHhC
Q 048743          577 ETLLLNFLQGGYFERVMEVIGYMKKQ  602 (653)
Q Consensus       577 ~~li~~~~~~g~~~~a~~~~~~m~~~  602 (653)
                      --|.....+.|+.++|-.+|++..++
T Consensus       219 lKlg~~~~~l~~~d~A~atl~qv~k~  244 (262)
T COG1729         219 LKLGVSLGRLGNTDEACATLQQVIKR  244 (262)
T ss_pred             HHHHHHHHHhcCHHHHHHHHHHHHHH
Confidence            66777889999999999999999865

>PF09205 DUF1955: Domain of unknown function (DUF1955); InterPro: IPR015288 Members of this family are found in hypothetical proteins synthesised by the Archaeal organism Sulfolobus

Probab=87.62  E-value=14  Score=30.28  Aligned_cols=54  Identities=15%  Similarity=0.128  Sum_probs=19.5

Q ss_pred             HHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCCHHHHHHHH
Q 048743          503 NSSIYFFCKGKMIGDALKIYRRMQEMKIRPTVETFYYLVYGHSSLEMYRDITILW  557 (653)
Q Consensus       503 ~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~  557 (653)
                      +..++.+...|+-++-.++++++.. +-+|++.....+-.+|.+.|+..++.+++
T Consensus        90 D~ALd~lv~~~kkDqLdki~~~l~k-n~~~~p~~L~kia~Ay~klg~~r~~~ell  143 (161)
T PF09205_consen   90 DLALDILVKQGKKDQLDKIYNELKK-NEEINPEFLVKIANAYKKLGNTREANELL  143 (161)
T ss_dssp             HHHHHHHHHTT-HHHHHHHHHHH------S-HHHHHHHHHHHHHTT-HHHHHHHH
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHhh-ccCCCHHHHHHHHHHHHHhcchhhHHHHH
Confidence            3334444444444444444444332 12333333344444444444444444443

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>PRK11906 transcriptional regulator; Provisional

Probab=87.54  E-value=36  Score=34.78  Aligned_cols=167  Identities=10%  Similarity=0.061  Sum_probs=103.0

Q ss_pred             HHH--HHHHHHHHHcC-----ChHHHHHHHHHHHH-cCCccCchhhHHHHhhHHHHhhhcccccccccccCCHHHHHHHH
Q 048743          416 TTY--KSLLTAYYKVK-----MFREAEALLKQMRK-SCLVQNLSCEMVVSERFSEVADKSASFTDTSSLMDKSDLAESLI  487 (653)
Q Consensus       416 ~~~--~~li~~~~~~~-----~~~~a~~~~~~m~~-~~~~p~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~a~~~~  487 (653)
                      ..|  ...+.|.....     ..+.|+.+|.+... ..+.|+..    ...|..+.|.....+...........+|.++-
T Consensus       252 ~a~~~d~ylrg~~~~~~~t~~~~~~Al~lf~ra~~~~~ldp~~a----~a~~~lA~~h~~~~~~g~~~~~~~~~~a~~~A  327 (458)
T PRK11906        252 NHYLSDEMLAGKKELYDFTPESIYRAMTIFDRLQNKSDIQTLKT----ECYCLLAECHMSLALHGKSELELAAQKALELL  327 (458)
T ss_pred             cchhhHHHHHHHHHhhccCHHHHHHHHHHHHHHhhcccCCcccH----HHHHHHHHHHHHHHHhcCCCchHHHHHHHHHH
Confidence            456  56666665522     35677888888773 34566641    11122222221111111111345566677777


Q ss_pred             HHHHHccCCC-CHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCH-HHHHHHHHHHhccCCHHHHHHHHHHHHHHhh
Q 048743          488 QEMREEAALS-TIYKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRPTV-ETFYYLVYGHSSLEMYRDITILWGDIKRNIE  565 (653)
Q Consensus       488 ~~m~~~~~~p-~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~-~t~~~li~~~~~~~~~~~a~~~~~~~~~~~~  565 (653)
                      +.-.+.+  | |......+-.+..-.++++.|..+|++...  +.||. .+|...-..+.-.|+.++|.+.++...    
T Consensus       328 ~rAveld--~~Da~a~~~~g~~~~~~~~~~~a~~~f~rA~~--L~Pn~A~~~~~~~~~~~~~G~~~~a~~~i~~al----  399 (458)
T PRK11906        328 DYVSDIT--TVDGKILAIMGLITGLSGQAKVSHILFEQAKI--HSTDIASLYYYRALVHFHNEKIEEARICIDKSL----  399 (458)
T ss_pred             HHHHhcC--CCCHHHHHHHHHHHHhhcchhhHHHHHHHHhh--cCCccHHHHHHHHHHHHHcCCHHHHHHHHHHHh----
Confidence            7777765  4 777777777777788889999999998776  46774 455555666778999999999998754    


Q ss_pred             hCCCccCHH---HHHHHHHHHHhCCCHHHHHHHHH
Q 048743          566 SGVLAVSRD---LYETLLLNFLQGGYFERVMEVIG  597 (653)
Q Consensus       566 ~~~~~p~~~---~y~~li~~~~~~g~~~~a~~~~~  597 (653)
                        ...|...   +....|+.|+..+ .++|+.++-
T Consensus       400 --rLsP~~~~~~~~~~~~~~~~~~~-~~~~~~~~~  431 (458)
T PRK11906        400 --QLEPRRRKAVVIKECVDMYVPNP-LKNNIKLYY  431 (458)
T ss_pred             --ccCchhhHHHHHHHHHHHHcCCc-hhhhHHHHh
Confidence              3455433   3344455677655 677777764

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=86.70  E-value=65  Score=36.92  Aligned_cols=80  Identities=19%  Similarity=0.211  Sum_probs=49.1

Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcc--cHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 048743          349 KLINGYKKHGKNSELSWLLLSIKKEHHSFGEST--LCSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTYKSLLTAYY  426 (653)
Q Consensus       349 ~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~--~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~  426 (653)
                      ..+.+|-.+|+|.+|..+..++....    +..  +-..|+.-+...++.-+|-++..+....   |     .-.+..|+
T Consensus       970 kAl~a~~~~~dWr~~l~~a~ql~~~~----de~~~~a~~L~s~L~e~~kh~eAa~il~e~~sd---~-----~~av~ll~ 1037 (1265)
T KOG1920|consen  970 KALKAYKECGDWREALSLAAQLSEGK----DELVILAEELVSRLVEQRKHYEAAKILLEYLSD---P-----EEAVALLC 1037 (1265)
T ss_pred             HHHHHHHHhccHHHHHHHHHhhcCCH----HHHHHHHHHHHHHHHHcccchhHHHHHHHHhcC---H-----HHHHHHHh
Confidence            45677777888888888877765322    222  1255667777777777777777665543   1     22344566


Q ss_pred             HcCChHHHHHHHHH
Q 048743          427 KVKMFREAEALLKQ  440 (653)
Q Consensus       427 ~~~~~~~a~~~~~~  440 (653)
                      +...|++|..+-..
T Consensus      1038 ka~~~~eAlrva~~ 1051 (1265)
T KOG1920|consen 1038 KAKEWEEALRVASK 1051 (1265)
T ss_pred             hHhHHHHHHHHHHh
Confidence            66667777665543

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=86.57  E-value=37  Score=33.92  Aligned_cols=217  Identities=12%  Similarity=-0.029  Sum_probs=121.2

Q ss_pred             HHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHH--cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCC
Q 048743          353 GYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQ--LGFLEAAHDILDDMELAGHPMDSTTYKSLLTAYYKVKM  430 (653)
Q Consensus       353 ~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~--~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~  430 (653)
                      ++.-.|+.++|..+--.+.+..  +.  ..+..++++.+-  .++.+.|...|++-+..+  |+...-..          
T Consensus       178 cl~~~~~~~~a~~ea~~ilkld--~~--n~~al~vrg~~~yy~~~~~ka~~hf~qal~ld--pdh~~sk~----------  241 (486)
T KOG0550|consen  178 CLAFLGDYDEAQSEAIDILKLD--AT--NAEALYVRGLCLYYNDNADKAINHFQQALRLD--PDHQKSKS----------  241 (486)
T ss_pred             hhhhcccchhHHHHHHHHHhcc--cc--hhHHHHhcccccccccchHHHHHHHhhhhccC--hhhhhHHh----------
Confidence            3445677777777766666544  22  224555554443  466777777777655432  33222111          


Q ss_pred             hHHHHHHHHHHHHcCCccCchhhHHHHhhHHHHhhhcccccccccccCCHHHHHHHHHHHHH---ccCCCCHHHHHHHHH
Q 048743          431 FREAEALLKQMRKSCLVQNLSCEMVVSERFSEVADKSASFTDTSSLMDKSDLAESLIQEMRE---EAALSTIYKLNSSIY  507 (653)
Q Consensus       431 ~~~a~~~~~~m~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~---~~~~p~~~~y~~li~  507 (653)
                      .-.-.+.++.+...|-.                          ..+.|++..|.+.+.+-..   .+..|+...|-..-.
T Consensus       242 ~~~~~k~le~~k~~gN~--------------------------~fk~G~y~~A~E~Yteal~idP~n~~~naklY~nra~  295 (486)
T KOG0550|consen  242 ASMMPKKLEVKKERGND--------------------------AFKNGNYRKAYECYTEALNIDPSNKKTNAKLYGNRAL  295 (486)
T ss_pred             HhhhHHHHHHHHhhhhh--------------------------HhhccchhHHHHHHHHhhcCCccccchhHHHHHHhHh
Confidence            11112222333333211                          1246777777777766553   344557777888888


Q ss_pred             HHHcCCCHHHHHHHHHHHHhcCCCCCHHHHHH-HH--HHHhccCCHHHHHHHHHHHHHHhhhCCCccCHHHHHHHHHHHH
Q 048743          508 FFCKGKMIGDALKIYRRMQEMKIRPTVETFYY-LV--YGHSSLEMYRDITILWGDIKRNIESGVLAVSRDLYETLLLNFL  584 (653)
Q Consensus       508 ~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~-li--~~~~~~~~~~~a~~~~~~~~~~~~~~~~~p~~~~y~~li~~~~  584 (653)
                      ...+.|+.++|+.--++...    .|..-.-. +.  .++...++|++|.+-++...+.   ..-.....++.-...++-
T Consensus       296 v~~rLgrl~eaisdc~~Al~----iD~syikall~ra~c~l~le~~e~AV~d~~~a~q~---~~s~e~r~~l~~A~~aLk  368 (486)
T KOG0550|consen  296 VNIRLGRLREAISDCNEALK----IDSSYIKALLRRANCHLALEKWEEAVEDYEKAMQL---EKDCEIRRTLREAQLALK  368 (486)
T ss_pred             hhcccCCchhhhhhhhhhhh----cCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh---ccccchHHHHHHHHHHHH
Confidence            88899999999988776654    34332222 22  2344567788888888776533   222334455555555555


Q ss_pred             hCCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHhh
Q 048743          585 QGGYFERVMEVIGYMKKQNMYVDKLMYKSEFLKHH  619 (653)
Q Consensus       585 ~~g~~~~a~~~~~~m~~~g~~p~~~t~~~l~~~~~  619 (653)
                      +..+ +.=..++.--+..-..|+...|..+....|
T Consensus       369 kSkR-kd~ykilGi~~~as~~eikkayrk~AL~~H  402 (486)
T KOG0550|consen  369 KSKR-KDWYKILGISRNASDDEIKKAYRKLALVHH  402 (486)
T ss_pred             Hhhh-hhHHHHhhhhhhcccchhhhHHHHHHHHhC
Confidence            4433 233445554555556778888877775555

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=86.55  E-value=11  Score=30.77  Aligned_cols=91  Identities=5%  Similarity=-0.088  Sum_probs=62.4

Q ss_pred             HHHcCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHHhhhCCCccCHH---HHHHHHHHHH
Q 048743          508 FFCKGKMIGDALKIYRRMQEMKIRPTVETFYYLVYGHSSLEMYRDITILWGDIKRNIESGVLAVSRD---LYETLLLNFL  584 (653)
Q Consensus       508 ~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~p~~~---~y~~li~~~~  584 (653)
                      +++..|+++.|++.|.+.... .+-+...||.-.+++.-.|+.++|+.=+++..+.   .|-+ +..   .|----..|.
T Consensus        52 alaE~g~Ld~AlE~F~qal~l-~P~raSayNNRAQa~RLq~~~e~ALdDLn~AleL---ag~~-trtacqa~vQRg~lyR  126 (175)
T KOG4555|consen   52 ALAEAGDLDGALELFGQALCL-APERASAYNNRAQALRLQGDDEEALDDLNKALEL---AGDQ-TRTACQAFVQRGLLYR  126 (175)
T ss_pred             HHHhccchHHHHHHHHHHHHh-cccchHhhccHHHHHHHcCChHHHHHHHHHHHHh---cCcc-chHHHHHHHHHHHHHH
Confidence            456788999999999887764 2335677888888999999988888877776643   2222 222   2222223366


Q ss_pred             hCCCHHHHHHHHHHHHhCC
Q 048743          585 QGGYFERVMEVIGYMKKQN  603 (653)
Q Consensus       585 ~~g~~~~a~~~~~~m~~~g  603 (653)
                      ..|+-+.|..=|+..-+.|
T Consensus       127 l~g~dd~AR~DFe~AA~LG  145 (175)
T KOG4555|consen  127 LLGNDDAARADFEAAAQLG  145 (175)
T ss_pred             HhCchHHHHHhHHHHHHhC
Confidence            7788888888887776666

>PF09205 DUF1955: Domain of unknown function (DUF1955); InterPro: IPR015288 Members of this family are found in hypothetical proteins synthesised by the Archaeal organism Sulfolobus

Probab=86.52  E-value=17  Score=29.91  Aligned_cols=121  Identities=7%  Similarity=0.031  Sum_probs=68.6

Q ss_pred             cCCHHHHHHHHHHHHHccCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHh-cC----------------CCCCHHHHHH
Q 048743          477 MDKSDLAESLIQEMREEAALSTIYKLNSSIYFFCKGKMIGDALKIYRRMQE-MK----------------IRPTVETFYY  539 (653)
Q Consensus       477 ~~~~~~a~~~~~~m~~~~~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~-~g----------------~~p~~~t~~~  539 (653)
                      .|.+++..+++.+.....   +..-||-.|--....-+-+-..++++..=. ..                ...+...+..
T Consensus        15 dG~V~qGveii~k~v~Ss---ni~E~NWvICNiiDaa~C~yvv~~LdsIGkiFDis~C~NlKrVi~C~~~~n~~se~vD~   91 (161)
T PF09205_consen   15 DGDVKQGVEIIEKTVNSS---NIKEYNWVICNIIDAADCDYVVETLDSIGKIFDISKCGNLKRVIECYAKRNKLSEYVDL   91 (161)
T ss_dssp             TT-HHHHHHHHHHHHHHS----HHHHTHHHHHHHHH--HHHHHHHHHHHGGGS-GGG-S-THHHHHHHHHTT---HHHHH
T ss_pred             hchHHHHHHHHHHHcCcC---CccccceeeeecchhhchhHHHHHHHHHhhhcCchhhcchHHHHHHHHHhcchHHHHHH
Confidence            578888888888877653   344444444333333333333333333211 00                1124445566


Q ss_pred             HHHHHhccCCHHHHHHHHHHHHHHhhhCCCccCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhCCCC
Q 048743          540 LVYGHSSLEMYRDITILWGDIKRNIESGVLAVSRDLYETLLLNFLQGGYFERVMEVIGYMKKQNMY  605 (653)
Q Consensus       540 li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~  605 (653)
                      .+......|+-|.-.++..++.   +  .-.+++...-.+..+|.+-|+..++.+++.+..++|++
T Consensus        92 ALd~lv~~~kkDqLdki~~~l~---k--n~~~~p~~L~kia~Ay~klg~~r~~~ell~~ACekG~k  152 (161)
T PF09205_consen   92 ALDILVKQGKKDQLDKIYNELK---K--NEEINPEFLVKIANAYKKLGNTREANELLKEACEKGLK  152 (161)
T ss_dssp             HHHHHHHTT-HHHHHHHHHHH----------S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHTT-H
T ss_pred             HHHHHHHhccHHHHHHHHHHHh---h--ccCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHhchH
Confidence            6777777777777777776654   1  34566777777888999999999999999999988873

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=86.23  E-value=69  Score=36.74  Aligned_cols=22  Identities=18%  Similarity=0.052  Sum_probs=12.8

Q ss_pred             HHHHhhhccCCHHHHHHHHHHh
Q 048743          255 SLLSLHFKFDDIDAAGELILDM  276 (653)
Q Consensus       255 ~li~~~~~~g~~~~A~~~~~~m  276 (653)
                      .-+.+|-.+|++.+|+.+-.++
T Consensus       970 kAl~a~~~~~dWr~~l~~a~ql  991 (1265)
T KOG1920|consen  970 KALKAYKECGDWREALSLAAQL  991 (1265)
T ss_pred             HHHHHHHHhccHHHHHHHHHhh
Confidence            3445555566666666666555

>COG5187 RPN7 26S proteasome regulatory complex component, contains PCI domain [Posttranslational modification, protein turnover, chaperones]

Probab=86.06  E-value=23  Score=33.34  Aligned_cols=99  Identities=13%  Similarity=0.008  Sum_probs=71.5

Q ss_pred             CCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHHhhhCCCccCHHHHHHHH-HHHHhCCCHHHHHHHHHHHHhCCCCCC--
Q 048743          531 RPTVETFYYLVYGHSSLEMYRDITILWGDIKRNIESGVLAVSRDLYETLL-LNFLQGGYFERVMEVIGYMKKQNMYVD--  607 (653)
Q Consensus       531 ~p~~~t~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~p~~~~y~~li-~~~~~~g~~~~a~~~~~~m~~~g~~p~--  607 (653)
                      .--...+..+..-|+..++.+.+.++.++..+..-+.|.+.|+...-+-+ -.|....-+++-++..+.|.++|-..+  
T Consensus       112 ~e~~ea~~n~aeyY~qi~D~~ng~~~~~~~~~~a~stg~KiDv~l~kiRlg~~y~d~~vV~e~lE~~~~~iEkGgDWeRr  191 (412)
T COG5187         112 TEGSEADRNIAEYYCQIMDIQNGFEWMRRLMRDAMSTGLKIDVFLCKIRLGLIYGDRKVVEESLEVADDIIEKGGDWERR  191 (412)
T ss_pred             hHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHhcccchhhHHHHHHHHHhhccHHHHHHHHHHHHHHHHhCCCHHhh
Confidence            33456677788899999999999999998877767778888775443322 224445557888899999999987554  


Q ss_pred             --HHhHHHHHHHhhhhhHHhhhhh
Q 048743          608 --KLMYKSEFLKHHKHLYRRLKVS  629 (653)
Q Consensus       608 --~~t~~~l~~~~~~~~~~~~~~~  629 (653)
                        -.+|..+.|...+++..|-.+.
T Consensus       192 NRyK~Y~Gi~~m~~RnFkeAa~Ll  215 (412)
T COG5187         192 NRYKVYKGIFKMMRRNFKEAAILL  215 (412)
T ss_pred             hhHHHHHHHHHHHHHhhHHHHHHH
Confidence              4677777777777777664443

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=86.03  E-value=18  Score=35.88  Aligned_cols=97  Identities=11%  Similarity=-0.073  Sum_probs=74.0

Q ss_pred             HHHHHhcCChHHHHHHHHHHHhcCC----C---------CCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHH
Q 048743          351 INGYKKHGKNSELSWLLLSIKKEHH----S---------FGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTT  417 (653)
Q Consensus       351 i~~~~~~~~~~~a~~~~~~m~~~~~----~---------~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~  417 (653)
                      -+.|.+.|++..|..-|+.....-.    .         ..-..++..+.-.|.+.+++..|++.-...+... ++|+..
T Consensus       215 Gn~~fK~gk~~~A~~~Yerav~~l~~~~~~~~ee~~~~~~~k~~~~lNlA~c~lKl~~~~~Ai~~c~kvLe~~-~~N~KA  293 (397)
T KOG0543|consen  215 GNVLFKEGKFKLAKKRYERAVSFLEYRRSFDEEEQKKAEALKLACHLNLAACYLKLKEYKEAIESCNKVLELD-PNNVKA  293 (397)
T ss_pred             hhHHHhhchHHHHHHHHHHHHHHhhccccCCHHHHHHHHHHHHHHhhHHHHHHHhhhhHHHHHHHHHHHHhcC-CCchhH
Confidence            3456788888888888777432110    0         1112348888889999999999999999988764 357777


Q ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHHcCCccCc
Q 048743          418 YKSLLTAYYKVKMFREAEALLKQMRKSCLVQNL  450 (653)
Q Consensus       418 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~  450 (653)
                      .-.--.+|...|+++.|...|+.+.+  +.|+.
T Consensus       294 LyRrG~A~l~~~e~~~A~~df~ka~k--~~P~N  324 (397)
T KOG0543|consen  294 LYRRGQALLALGEYDLARDDFQKALK--LEPSN  324 (397)
T ss_pred             HHHHHHHHHhhccHHHHHHHHHHHHH--hCCCc
Confidence            77778899999999999999999988  57876

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=85.70  E-value=36  Score=32.94  Aligned_cols=153  Identities=12%  Similarity=0.091  Sum_probs=98.8

Q ss_pred             hcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHH--HH--HHHHHHHHHcCCh
Q 048743          356 KHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDST--TY--KSLLTAYYKVKMF  431 (653)
Q Consensus       356 ~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~--~~--~~li~~~~~~~~~  431 (653)
                      -.|++.+|-..++++.+..  |.|...++..=++|.-.|+.+.-...+++.... ..||..  +|  ....-++...|-+
T Consensus       115 ~~g~~h~a~~~wdklL~d~--PtDlla~kfsh~a~fy~G~~~~~k~ai~kIip~-wn~dlp~~sYv~GmyaFgL~E~g~y  191 (491)
T KOG2610|consen  115 GRGKHHEAAIEWDKLLDDY--PTDLLAVKFSHDAHFYNGNQIGKKNAIEKIIPK-WNADLPCYSYVHGMYAFGLEECGIY  191 (491)
T ss_pred             ccccccHHHHHHHHHHHhC--chhhhhhhhhhhHHHhccchhhhhhHHHHhccc-cCCCCcHHHHHHHHHHhhHHHhccc
Confidence            4788889999999998887  888888999999999999999999999988654 233442  33  3344466778999


Q ss_pred             HHHHHHHHHHHHcCCccCchhhHHHHhhHHHHhhhcccccccccccCCHHHHHHHHHHHHHc---cCCCCHHHHHHHHHH
Q 048743          432 REAEALLKQMRKSCLVQNLSCEMVVSERFSEVADKSASFTDTSSLMDKSDLAESLIQEMREE---AALSTIYKLNSSIYF  508 (653)
Q Consensus       432 ~~a~~~~~~m~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~---~~~p~~~~y~~li~~  508 (653)
                      ++|++.-++..+  +.|......-...-+++             ..|+..++.++..+-.+.   +--.-..-|=...-.
T Consensus       192 ~dAEk~A~ralq--iN~~D~Wa~Ha~aHVle-------------m~~r~Keg~eFM~~ted~Wr~s~mlasHNyWH~Al~  256 (491)
T KOG2610|consen  192 DDAEKQADRALQ--INRFDCWASHAKAHVLE-------------MNGRHKEGKEFMYKTEDDWRQSWMLASHNYWHTALF  256 (491)
T ss_pred             hhHHHHHHhhcc--CCCcchHHHHHHHHHHH-------------hcchhhhHHHHHHhcccchhhhhHHHhhhhHHHHHh
Confidence            999888776655  33433211111111111             267788887776554321   100011222223334


Q ss_pred             HHcCCCHHHHHHHHHHHH
Q 048743          509 FCKGKMIGDALKIYRRMQ  526 (653)
Q Consensus       509 ~~~~g~~~~a~~~~~~m~  526 (653)
                      +...+.++.|+++|..=+
T Consensus       257 ~iE~aeye~aleIyD~ei  274 (491)
T KOG2610|consen  257 HIEGAEYEKALEIYDREI  274 (491)
T ss_pred             hhcccchhHHHHHHHHHH
Confidence            556789999999998544

>PF13929 mRNA_stabil: mRNA stabilisation

Probab=85.62  E-value=8.4  Score=36.47  Aligned_cols=110  Identities=11%  Similarity=0.027  Sum_probs=80.4

Q ss_pred             ccchhHHHHHHHHhhh-hcCCCCchhHHHHHHHhhccCCcchhhhHHHHHHHHHhccCCchhHHHHHHHHHHHHhcCCCc
Q 048743           32 NHQVGEAWETFNDFQR-LHGIPERHVVNRFITDLCYSAEPHWLQKACDLVLKIQKGKADLLQLDLLAKLSLSLARAQMPV  110 (653)
Q Consensus        32 ~~~~~~A~~~~~~~~~-~~~~~~~~~~~~ll~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~t~~~li~~~~~~g~~~  110 (653)
                      ..-+-+|+++|+.... .....++.+...+|+.+..-.+. ....-.++..-+..+.+..++..+...+|..+++.+++.
T Consensus       141 N~~Vv~aL~L~~~~~~~~~Ii~d~evislLL~sMv~~~~~-~l~alYEvV~~l~~t~~~~l~~~vi~~Il~~L~~~~dW~  219 (292)
T PF13929_consen  141 NKIVVEALKLYDGLNPDESIIFDEEVISLLLKSMVIDENT-KLNALYEVVDFLVSTFSKSLTRNVIISILEILAESRDWN  219 (292)
T ss_pred             hHHHHHHHHHhhccCcccceeeChHHHHHHHHHHHhcccc-chhhHHHHHHHHHhccccCCChhHHHHHHHHHHhcccHH
Confidence            3456677888884322 23456777888888888762221 244444555445555567789999999999999999999


Q ss_pred             hHHHHHHHHHcC-ccCCCchhHHHHHHHHhhcc
Q 048743          111 PASMILRLMLGR-ENLPCSDLLLLVFVHMVKTE  142 (653)
Q Consensus       111 ~a~~~~~~m~~~-g~~p~~~~~~~li~~~~~~~  142 (653)
                      +-.++.+.-... +..-|...|..+|+.+..+|
T Consensus       220 kl~~fW~~~~~~~~~~~D~rpW~~FI~li~~sg  252 (292)
T PF13929_consen  220 KLFQFWEQCIPNSVPGNDPRPWAEFIKLIVESG  252 (292)
T ss_pred             HHHHHHHHhcccCCCCCCCchHHHHHHHHHHcC
Confidence            999999887765 67788889999988888876

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=85.55  E-value=1.9  Score=26.21  Aligned_cols=24  Identities=17%  Similarity=0.200  Sum_probs=13.8

Q ss_pred             HHHHHHHHHcCCCHHHHHHHHHHH
Q 048743          502 LNSSIYFFCKGKMIGDALKIYRRM  525 (653)
Q Consensus       502 y~~li~~~~~~g~~~~a~~~~~~m  525 (653)
                      |+.|-..|.+.|++++|+++|++.
T Consensus         2 l~~Lg~~~~~~g~~~~Ai~~y~~a   25 (36)
T PF13176_consen    2 LNNLGRIYRQQGDYEKAIEYYEQA   25 (36)
T ss_dssp             HHHHHHHHHHCT-HHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHH
Confidence            455556666666666666666653

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=85.41  E-value=1.7  Score=26.37  Aligned_cols=26  Identities=15%  Similarity=-0.017  Sum_probs=20.3

Q ss_pred             hHHHHHHHHHhcCChhhHHHHHHHHH
Q 048743          179 IFNLVLHACVRFGSSLKGQHIMELMS  204 (653)
Q Consensus       179 ~yn~li~~~~~~g~~~~a~~l~~~m~  204 (653)
                      +|+.|-+.|.+.|++++|.++|++..
T Consensus         1 al~~Lg~~~~~~g~~~~Ai~~y~~aL   26 (36)
T PF13176_consen    1 ALNNLGRIYRQQGDYEKAIEYYEQAL   26 (36)
T ss_dssp             HHHHHHHHHHHCT-HHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            46778888888888888888888854

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=84.32  E-value=24  Score=38.54  Aligned_cols=82  Identities=13%  Similarity=0.180  Sum_probs=38.2

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHH
Q 048743          348 AKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTYKSLLTAYYK  427 (653)
Q Consensus       348 ~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~  427 (653)
                      ..|+.+|.+.++.++-.++.+... .|...-|   ....+..+.+.+-.++|..+-.....     +......   .+-.
T Consensus       435 tlLLncYiKlkd~~kL~efI~~~~-~g~~~fd---~e~al~Ilr~snyl~~a~~LA~k~~~-----he~vl~i---lle~  502 (933)
T KOG2114|consen  435 TLLLNCYIKLKDVEKLTEFISKCD-KGEWFFD---VETALEILRKSNYLDEAELLATKFKK-----HEWVLDI---LLED  502 (933)
T ss_pred             HHHHHHHHHhcchHHHHHHHhcCC-Ccceeee---HHHHHHHHHHhChHHHHHHHHHHhcc-----CHHHHHH---HHHH
Confidence            456666666666665555555443 2211111   34455555555555555444433222     1222222   2333


Q ss_pred             cCChHHHHHHHHHH
Q 048743          428 VKMFREAEALLKQM  441 (653)
Q Consensus       428 ~~~~~~a~~~~~~m  441 (653)
                      .+++++|++++..|
T Consensus       503 ~~ny~eAl~yi~sl  516 (933)
T KOG2114|consen  503 LHNYEEALRYISSL  516 (933)
T ss_pred             hcCHHHHHHHHhcC
Confidence            45666666665543

>COG4455 ImpE Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]

Probab=84.26  E-value=7  Score=35.09  Aligned_cols=78  Identities=13%  Similarity=0.043  Sum_probs=61.1

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHH--CCCCCCHHHHHHHHH
Q 048743          346 AMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMEL--AGHPMDSTTYKSLLT  423 (653)
Q Consensus       346 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~--~g~~p~~~~~~~li~  423 (653)
                      |.+.-+..+.+.+.+.+|+...++-.+..  |.+...-..+++.||-.|++++|..-++-...  ....+-..+|..+|.
T Consensus         3 Tl~~t~seLL~~~sL~dai~~a~~qVkak--Ptda~~RhflfqLlcvaGdw~kAl~Ql~l~a~l~p~~t~~a~lyr~lir   80 (273)
T COG4455           3 TLRDTISELLDDNSLQDAIGLARDQVKAK--PTDAGGRHFLFQLLCVAGDWEKALAQLNLAATLSPQDTVGASLYRHLIR   80 (273)
T ss_pred             chHHHHHHHHHhccHHHHHHHHHHHHhcC--CccccchhHHHHHHhhcchHHHHHHHHHHHhhcCcccchHHHHHHHHHH
Confidence            34556777888999999999998888777  88888889999999999999999887776643  234455677887776


Q ss_pred             HH
Q 048743          424 AY  425 (653)
Q Consensus       424 ~~  425 (653)
                      +-
T Consensus        81 ~e   82 (273)
T COG4455          81 CE   82 (273)
T ss_pred             HH
Confidence            53

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=83.56  E-value=42  Score=32.00  Aligned_cols=50  Identities=6%  Similarity=0.060  Sum_probs=23.1

Q ss_pred             HHhcCChhhHHHHHHHHHhcCCCcc-HHHHHHHHHHHHhcCChhhhHHHHHHh
Q 048743          187 CVRFGSSLKGQHIMELMSQTGVVAD-AHSIIILAQIHEMNCQRDELKKFKCYI  238 (653)
Q Consensus       187 ~~~~g~~~~a~~l~~~m~~~g~~p~-~~t~~~ll~~~~~~g~~~~a~~~~~~~  238 (653)
                      ....|++.+|..+|+......  |+ ...-..+..++...|+.+.|..++..+
T Consensus       144 ~~~~e~~~~a~~~~~~al~~~--~~~~~~~~~la~~~l~~g~~e~A~~iL~~l  194 (304)
T COG3118         144 LIEAEDFGEAAPLLKQALQAA--PENSEAKLLLAECLLAAGDVEAAQAILAAL  194 (304)
T ss_pred             hhhccchhhHHHHHHHHHHhC--cccchHHHHHHHHHHHcCChHHHHHHHHhC
Confidence            344555666666555555431  11 122333444444445544444444443

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=82.89  E-value=7.9  Score=29.69  Aligned_cols=47  Identities=6%  Similarity=-0.026  Sum_probs=30.8

Q ss_pred             HHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHH
Q 048743          515 IGDALKIYRRMQEMKIRPTVETFYYLVYGHSSLEMYRDITILWGDIK  561 (653)
Q Consensus       515 ~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~~~  561 (653)
                      .-++.+-++.+....+.|+.....+-+++|.+.+++..|.++|+.++
T Consensus        23 ~we~rr~mN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK   69 (103)
T cd00923          23 GWELRRGLNNLFGYDLVPEPKVIEAALRACRRVNDFALAVRILEAIK   69 (103)
T ss_pred             HHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            34455555555566667777777777777777777777777776554

Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of prokaryotes. It catalyzes the reduction of O2 and simultaneously pumps protons across the membrane. The number of subunits varies from three to five in bacteria and up to 13 in mammalian mitochondria. Subunits I, II, and III of mammalian CcO are encoded within the mitochondrial genome and the remaining 10 subunits are encoded within the nuclear genome. Found only in eukaryotes, subunit Va is one of three mammalian subunits that lacks a transmembrane region. Subunit Va is located on the matrix side of the membrane and binds thyroid hormone T2, releasing allosteric inhibition caused by the binding of ATP to subunit IV and allowing high turnover at elevated intramitochondrial ATP/ADP ratios.

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=82.35  E-value=14  Score=28.66  Aligned_cols=45  Identities=7%  Similarity=0.034  Sum_probs=29.0

Q ss_pred             HHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHH
Q 048743          517 DALKIYRRMQEMKIRPTVETFYYLVYGHSSLEMYRDITILWGDIK  561 (653)
Q Consensus       517 ~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~~~  561 (653)
                      +..+-++.+....+.|+.....+.+++|.+.+++..|.++|+.++
T Consensus        28 e~rrglN~l~~~DlVP~P~ii~aALrAcRRvND~a~AVR~lE~iK   72 (108)
T PF02284_consen   28 ELRRGLNNLFGYDLVPEPKIIEAALRACRRVNDFALAVRILEGIK   72 (108)
T ss_dssp             HHHHHHHHHTTSSB---HHHHHHHHHHHHHTT-HHHHHHHHHHHH
T ss_pred             HHHHHHHHHhccccCCChHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            455555666666677777777777777777777777777777665

9.3.1 from EC) is an oligomeric enzymatic complex which is a component of the respiratory chain complex and is involved in the transfer of electrons from cytochrome c to oxygen []. In eukaryotes this enzyme complex is located in the mitochondrial inner membrane; in aerobic prokaryotes it is found in the plasma membrane. In eukaryotes, in addition to the three large subunits, I, II and III, that form the catalytic centre of the enzyme complex, there are a variable number of small polypeptidic subunits. One of these subunits is known as Va.; GO: 0004129 cytochrome-c oxidase activity; PDB: 2DYR_R 3AG1_E 3ABL_E 1V54_R 2EIJ_R 1OCR_E 2DYS_E 2EIM_E 2OCC_E 3ASN_R ....

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=82.18  E-value=33  Score=29.79  Aligned_cols=30  Identities=10%  Similarity=0.003  Sum_probs=16.4

Q ss_pred             HHHHHHHHcCCCHHHHHHHHHHHHhcCCCC
Q 048743          503 NSSIYFFCKGKMIGDALKIYRRMQEMKIRP  532 (653)
Q Consensus       503 ~~li~~~~~~g~~~~a~~~~~~m~~~g~~p  532 (653)
                      .+|--+-.+.|++.+|.++|..+......|
T Consensus       171 EALglAa~kagd~a~A~~~F~qia~Da~ap  200 (221)
T COG4649         171 EALGLAAYKAGDFAKAKSWFVQIANDAQAP  200 (221)
T ss_pred             HHHhHHHHhccchHHHHHHHHHHHccccCc
Confidence            344444456666666666666665543333

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=81.77  E-value=43  Score=30.90  Aligned_cols=92  Identities=17%  Similarity=0.053  Sum_probs=54.0

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHhcC----CCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCC---CCCCHHHH
Q 048743          346 AMAKLINGYKKHGKNSELSWLLLSIKKEH----HSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAG---HPMDSTTY  418 (653)
Q Consensus       346 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~----~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g---~~p~~~~~  418 (653)
                      -|..+-..+.+...+++|-..|.+-....    ..+..-..|-..|-.|....|+..|...+++-.+.+   -+-+..+.
T Consensus       152 l~gk~sr~lVrl~kf~Eaa~a~lKe~~~~~~~~~y~~~~k~~va~ilv~L~~~Dyv~aekc~r~~~qip~f~~sed~r~l  231 (308)
T KOG1585|consen  152 LYGKCSRVLVRLEKFTEAATAFLKEGVAADKCDAYNSQCKAYVAAILVYLYAHDYVQAEKCYRDCSQIPAFLKSEDSRSL  231 (308)
T ss_pred             HHHHhhhHhhhhHHhhHHHHHHHHhhhHHHHHhhcccHHHHHHHHHHHHhhHHHHHHHHHHhcchhcCccccChHHHHHH
Confidence            45556666677777777665554422111    011111224455556666789999999998854432   12255678


Q ss_pred             HHHHHHHHHcCChHHHHHHH
Q 048743          419 KSLLTAYYKVKMFREAEALL  438 (653)
Q Consensus       419 ~~li~~~~~~~~~~~a~~~~  438 (653)
                      ..|+.+|- .|+.+++..++
T Consensus       232 enLL~ayd-~gD~E~~~kvl  250 (308)
T KOG1585|consen  232 ENLLTAYD-EGDIEEIKKVL  250 (308)
T ss_pred             HHHHHHhc-cCCHHHHHHHH
Confidence            88888874 47777765554

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=81.31  E-value=6.4  Score=25.12  Aligned_cols=27  Identities=19%  Similarity=0.126  Sum_probs=15.3

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHC
Q 048743          383 CSDVIDALIQLGFLEAAHDILDDMELA  409 (653)
Q Consensus       383 ~~~li~~~~~~g~~~~a~~~~~~m~~~  409 (653)
                      |..+-.+|.+.|++++|.++|++..+.
T Consensus         4 ~~~la~~~~~~G~~~~A~~~~~~~l~~   30 (44)
T PF13428_consen    4 WLALARAYRRLGQPDEAERLLRRALAL   30 (44)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            445555555566666666666555553

>PF13762 MNE1: Mitochondrial splicing apparatus component

Probab=81.15  E-value=17  Score=30.62  Aligned_cols=86  Identities=6%  Similarity=0.003  Sum_probs=60.4

Q ss_pred             hHHHHHHHhhccCCcchhhhHHHHHHHHHhc-cCCchhHHHHHHHHHHHHhcCCC-chHHHHHHHHHcCccCCCchhHHH
Q 048743           56 VVNRFITDLCYSAEPHWLQKACDLVLKIQKG-KADLLQLDLLAKLSLSLARAQMP-VPASMILRLMLGRENLPCSDLLLL  133 (653)
Q Consensus        56 ~~~~ll~~~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~t~~~li~~~~~~g~~-~~a~~~~~~m~~~g~~p~~~~~~~  133 (653)
                      -.|.+|..+...++.+.+-.+++-+..+... -....+..++.+++.+.++..-. --+..+|.-|++.+..++...|..
T Consensus        41 fiN~iL~hl~~~~nf~~~v~~L~~l~~l~~~~~~~~~~~ssf~~if~SlsnSsSaK~~~~~Lf~~Lk~~~~~~t~~dy~~  120 (145)
T PF13762_consen   41 FINCILNHLASYQNFSGVVSILEHLHFLNTDNIIGWLDNSSFHIIFKSLSNSSSAKLTSLTLFNFLKKNDIEFTPSDYSC  120 (145)
T ss_pred             HHHHHHHHHHHccchHHHHHHHHHHHHhhHHHHhhhcccchHHHHHHHHccChHHHHHHHHHHHHHHHcCCCCCHHHHHH
Confidence            3588888887777654444444444322111 11235778899999999776663 356788999999889999999999


Q ss_pred             HHHHHhhc
Q 048743          134 VFVHMVKT  141 (653)
Q Consensus       134 li~~~~~~  141 (653)
                      +|.++.+.
T Consensus       121 li~~~l~g  128 (145)
T PF13762_consen  121 LIKAALRG  128 (145)
T ss_pred             HHHHHHcC
Confidence            99988765

>KOG0276 consensus Vesicle coat complex COPI, beta' subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=81.01  E-value=44  Score=35.15  Aligned_cols=81  Identities=15%  Similarity=0.089  Sum_probs=47.4

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 048743          344 NRAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTYKSLLT  423 (653)
Q Consensus       344 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~  423 (653)
                      ..-|..|-++..+.+++..|.+.|.....          |..|+-.+...|+-+....+-....+.|..      |....
T Consensus       666 ~~Kw~~Lg~~al~~~~l~lA~EC~~~a~d----------~~~LlLl~t~~g~~~~l~~la~~~~~~g~~------N~AF~  729 (794)
T KOG0276|consen  666 EVKWRQLGDAALSAGELPLASECFLRARD----------LGSLLLLYTSSGNAEGLAVLASLAKKQGKN------NLAFL  729 (794)
T ss_pred             hHHHHHHHHHHhhcccchhHHHHHHhhcc----------hhhhhhhhhhcCChhHHHHHHHHHHhhccc------chHHH
Confidence            33466666677777777777766665332          566666666666666555555555555532      22333


Q ss_pred             HHHHcCChHHHHHHHHH
Q 048743          424 AYYKVKMFREAEALLKQ  440 (653)
Q Consensus       424 ~~~~~~~~~~a~~~~~~  440 (653)
                      +|...|+++++.+++..
T Consensus       730 ~~~l~g~~~~C~~lLi~  746 (794)
T KOG0276|consen  730 AYFLSGDYEECLELLIS  746 (794)
T ss_pred             HHHHcCCHHHHHHHHHh
Confidence            55666777766666543

>PF09613 HrpB1_HrpK: Bacterial type III secretion protein (HrpB1_HrpK); InterPro: IPR013394 This family of proteins is encoded by genes found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia

Probab=80.69  E-value=36  Score=29.25  Aligned_cols=92  Identities=14%  Similarity=-0.052  Sum_probs=55.3

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcC
Q 048743          350 LINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTYKSLLTAYYKVK  429 (653)
Q Consensus       350 li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~  429 (653)
                      ++..-.+.++.+++..++..++--.  |.....-..-...+.+.|++.+|..+|+++.+..  |....-..|+..|....
T Consensus        16 ~~~~al~~~~~~D~e~lL~ALrvLR--P~~~e~~~~~~~l~i~r~~w~dA~rlLr~l~~~~--~~~p~~kALlA~CL~~~   91 (160)
T PF09613_consen   16 VLSVALRLGDPDDAEALLDALRVLR--PEFPELDLFDGWLHIVRGDWDDALRLLRELEERA--PGFPYAKALLALCLYAL   91 (160)
T ss_pred             HHHHHHccCChHHHHHHHHHHHHhC--CCchHHHHHHHHHHHHhCCHHHHHHHHHHHhccC--CCChHHHHHHHHHHHHc
Confidence            3444457889999999999998876  4333333333445678899999999999987653  33333344444444433


Q ss_pred             ChHHHHHHHHHHHHcC
Q 048743          430 MFREAEALLKQMRKSC  445 (653)
Q Consensus       430 ~~~~a~~~~~~m~~~~  445 (653)
                      +-..-...-++..+.+
T Consensus        92 ~D~~Wr~~A~evle~~  107 (160)
T PF09613_consen   92 GDPSWRRYADEVLESG  107 (160)
T ss_pred             CChHHHHHHHHHHhcC
Confidence            3222233334444444

>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases

Probab=80.11  E-value=62  Score=32.28  Aligned_cols=69  Identities=9%  Similarity=-0.027  Sum_probs=44.7

Q ss_pred             CCHHHHHHHHHHHhccCCHHHHHHHHHHHHHHhhhCCCccCHHHHHHHHHHHHhCCCHHHHHHHHHHHHh
Q 048743          532 PTVETFYYLVYGHSSLEMYRDITILWGDIKRNIESGVLAVSRDLYETLLLNFLQGGYFERVMEVIGYMKK  601 (653)
Q Consensus       532 p~~~t~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~  601 (653)
                      ....++..+...+.+.|.++.|...+..+.......+. ......-.-.+.+-..|+.++|+..+++..+
T Consensus       144 ~~~~~~l~~a~~aRk~g~~~~A~~~l~~~~~~~~~~~~-~~~~v~~e~akllw~~g~~~~Ai~~L~~~~~  212 (352)
T PF02259_consen  144 ELAETWLKFAKLARKAGNFQLALSALNRLFQLNPSSES-LLPRVFLEYAKLLWAQGEQEEAIQKLRELLK  212 (352)
T ss_pred             HHHHHHHHHHHHHHHCCCcHHHHHHHHHHhccCCcccC-CCcchHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            34557778888888888888888888776522100011 1233344445666778888888888877776

Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding

>KOG2297 consensus Predicted translation factor, contains W2 domain [Translation, ribosomal structure and biogenesis]

Probab=80.09  E-value=57  Score=31.17  Aligned_cols=176  Identities=13%  Similarity=0.036  Sum_probs=93.2

Q ss_pred             CCCCchhHHHHHHH-hhccCCcchhhhHHHHHHHHHhccCCchhHHHHHHHHHHHHhcCCCchHHHHHHHHHcCccCCCc
Q 048743           50 GIPERHVVNRFITD-LCYSAEPHWLQKACDLVLKIQKGKADLLQLDLLAKLSLSLARAQMPVPASMILRLMLGRENLPCS  128 (653)
Q Consensus        50 ~~~~~~~~~~ll~~-~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~  128 (653)
                      |.|++..++.|++- +.+.|-.  +.=|.++|.....+       ...+.+++++-+.+.-+.-.++|        .|+.
T Consensus       161 Gt~~~tvl~~L~~d~LVkeGi~--l~F~~~lFk~~~~E-------k~i~~lis~Lrkg~md~rLmeff--------Ppnk  223 (412)
T KOG2297|consen  161 GTLPATVLQSLLNDNLVKEGIA--LSFAVKLFKEWLVE-------KDINDLISSLRKGKMDDRLMEFF--------PPNK  223 (412)
T ss_pred             CCCCHHHHHHHHHhhHHHHhHH--HHHHHHHHHHHHhh-------ccHHHHHHHHHhcChHhHHHHhc--------CCcc
Confidence            55666666665543 4433322  44566777665433       34566777776666555555555        7777


Q ss_pred             hhHHHHHHHHhhcccccccchHHHHHHHHHhhhhhhhhcCCccCCCCchhhHHHHHHHHHhcCChhhHHH-HHHHHHhcC
Q 048743          129 DLLLLVFVHMVKTEIGTCLASNFLIQLCDVFLHLSAEKSNGAELIKPDTMIFNLVLHACVRFGSSLKGQH-IMELMSQTG  207 (653)
Q Consensus       129 ~~~~~li~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~yn~li~~~~~~g~~~~a~~-l~~~m~~~g  207 (653)
                      .+-..+-..+-..|..      .+++..... ....+++-.          =..|..-..+...+++... +=++|++.+
T Consensus       224 rs~E~Fak~Ft~agL~------elvey~~~q-~~~~a~kEl----------q~~L~~q~s~e~p~~evi~~VKee~k~~n  286 (412)
T KOG2297|consen  224 RSVEHFAKYFTDAGLK------ELVEYHRNQ-QSEGARKEL----------QKELQEQVSEEDPVKEVILYVKEEMKRNN  286 (412)
T ss_pred             hhHHHHHHHHhHhhHH------HHHHHHHHH-HHHHHHHHH----------HHHHHHHhccCCCHHHHHHHHHHHHHhcC
Confidence            7777665555555422      233333221 122222111          1123333344444555544 445677666


Q ss_pred             CCccHHH----HHHHHHHHHhcC-ChhhhHHHHHHhhhcCCCcccchhHHHHHHHHhhhccCCHHHHHHH
Q 048743          208 VVADAHS----IIILAQIHEMNC-QRDELKKFKCYIDQLSTPFAHHYQQFYESLLSLHFKFDDIDAAGEL  272 (653)
Q Consensus       208 ~~p~~~t----~~~ll~~~~~~g-~~~~a~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~  272 (653)
                       .|+...    |..++++-.=.. .---|.+.++++.+            |..|+.++|..|+.+-++-+
T Consensus       287 -lPe~eVi~ivWs~iMsaveWnKkeelva~qalrhlK~------------yaPLL~af~s~g~sEL~Ll~  343 (412)
T KOG2297|consen  287 -LPETEVIGIVWSGIMSAVEWNKKEELVAEQALRHLKQ------------YAPLLAAFCSQGQSELELLL  343 (412)
T ss_pred             -CCCceEEeeeHhhhhHHHhhchHHHHHHHHHHHHHHh------------hhHHHHHHhcCChHHHHHHH
Confidence             456554    566665533221 11224455555443            89999999999998876543

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=80.01  E-value=50  Score=30.52  Aligned_cols=215  Identities=13%  Similarity=0.050  Sum_probs=127.5

Q ss_pred             CCCCH----HHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCH
Q 048743          340 LLHSN----RAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDS  415 (653)
Q Consensus       340 ~~p~~----~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~  415 (653)
                      ..||.    ..|...-.+|....++++|...+.+..+-.  ..+...|.       ....++.|--+.++|.+..  --+
T Consensus        23 wkad~dgaas~yekAAvafRnAk~feKakdcLlkA~~~y--Ennrslfh-------AAKayEqaamLake~~kls--Evv   91 (308)
T KOG1585|consen   23 WKADWDGAASLYEKAAVAFRNAKKFEKAKDCLLKASKGY--ENNRSLFH-------AAKAYEQAAMLAKELSKLS--EVV   91 (308)
T ss_pred             cCCCchhhHHHHHHHHHHHHhhccHHHHHHHHHHHHHHH--HhcccHHH-------HHHHHHHHHHHHHHHHHhH--HHH
Confidence            45554    467777778888999999998877765432  22222111       2234566666666666531  123


Q ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHHcCCccCchhhHHHHhhHHHHhhhcccccccccccCCHHHHHHHHHHHHH---
Q 048743          416 TTYKSLLTAYYKVKMFREAEALLKQMRKSCLVQNLSCEMVVSERFSEVADKSASFTDTSSLMDKSDLAESLIQEMRE---  492 (653)
Q Consensus       416 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~---  492 (653)
                      ..|+-....|..+|.++-|-..+++.-+. +                             ...+++.|.+++++-..   
T Consensus        92 dl~eKAs~lY~E~GspdtAAmaleKAak~-l-----------------------------env~Pd~AlqlYqralavve  141 (308)
T KOG1585|consen   92 DLYEKASELYVECGSPDTAAMALEKAAKA-L-----------------------------ENVKPDDALQLYQRALAVVE  141 (308)
T ss_pred             HHHHHHHHHHHHhCCcchHHHHHHHHHHH-h-----------------------------hcCCHHHHHHHHHHHHHHHh
Confidence            45677788899999999888877766542 0                             02344555555543221   


Q ss_pred             ccC--CCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhc----CCCCCH-HHHHHHHHHHhccCCHHHHHHHHHHHHHHhh
Q 048743          493 EAA--LSTIYKLNSSIYFFCKGKMIGDALKIYRRMQEM----KIRPTV-ETFYYLVYGHSSLEMYRDITILWGDIKRNIE  565 (653)
Q Consensus       493 ~~~--~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~----g~~p~~-~t~~~li~~~~~~~~~~~a~~~~~~~~~~~~  565 (653)
                      .+-  .--...|...-..+.+..++++|-..|.+-...    .-.|+. ..|...|-.+....++..|...++.-.+- .
T Consensus       142 ~~dr~~ma~el~gk~sr~lVrl~kf~Eaa~a~lKe~~~~~~~~~y~~~~k~~va~ilv~L~~~Dyv~aekc~r~~~qi-p  220 (308)
T KOG1585|consen  142 EDDRDQMAFELYGKCSRVLVRLEKFTEAATAFLKEGVAADKCDAYNSQCKAYVAAILVYLYAHDYVQAEKCYRDCSQI-P  220 (308)
T ss_pred             ccchHHHHHHHHHHhhhHhhhhHHhhHHHHHHHHhhhHHHHHhhcccHHHHHHHHHHHHhhHHHHHHHHHHhcchhcC-c
Confidence            110  012234566667777888888776666554321    122332 34667777888888999999888653210 1


Q ss_pred             hCCCccCHHHHHHHHHHHHhCCCHHHHHHHHH
Q 048743          566 SGVLAVSRDLYETLLLNFLQGGYFERVMEVIG  597 (653)
Q Consensus       566 ~~~~~p~~~~y~~li~~~~~~g~~~~a~~~~~  597 (653)
                      ...-.-+..+...||.+|- .|+.+++.+++.
T Consensus       221 ~f~~sed~r~lenLL~ayd-~gD~E~~~kvl~  251 (308)
T KOG1585|consen  221 AFLKSEDSRSLENLLTAYD-EGDIEEIKKVLS  251 (308)
T ss_pred             cccChHHHHHHHHHHHHhc-cCCHHHHHHHHc
Confidence            1122336667788887764 677777666654

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	653
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	3e-20
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-07

>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 = 94.9 bits (235), Expect = 3e-20
 Identities = 77/532 (14%), Positives = 170/532 (31%), Gaps = 155/532 (29%)

Query: 181 NLVLHACVRFGSSLKGQHIMELMSQTGVVADAHSIIILAQIHEMNCQRDELKKFKCYIDQ 240
           +++      F  +   + + ++           SI+   +I  +   +D +         
Sbjct: 20  DILSVFEDAFVDNFDCKDVQDMPK---------SILSKEEIDHIIMSKDAVSGTLRLFWT 70

Query: 241 LSTPFAHHYQQFYESLLSLHFKF-------DDIDAAGELILDMNRYREPLPNPKLRQDAQ 293
           L +      Q+F E +L +++KF       +    +    +     R+ L N     D Q
Sbjct: 71  LLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRM-YIEQRDRLYN-----DNQ 124

Query: 294 --KPYLISIGSP--NLRCGL-KLQIMPELLEKDSILKMEG--KQELVL--FRNGKLLHSN 344
               Y +S   P   LR  L +L+    +L    I  + G  K  + L    + K+    
Sbjct: 125 VFAKYNVSRLQPYLKLRQALLELRPAKNVL----IDGVLGSGKTWVALDVCLSYKVQCKM 180

Query: 345 RAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILD 404
                          + ++ WL         +         V++ L +L      + I  
Sbjct: 181 ---------------DFKIFWL---------NLKNCNSPETVLEMLQKL-----LYQIDP 211

Query: 405 DMELAGHPMDSTTYKSLLTAYYKVKMFREAEALLKQMRKSCL-----VQN--------LS 451
           +         +   + + +   +++       L  +  ++CL     VQN        LS
Sbjct: 212 NWTSRSDHSSNIKLR-IHSIQAELRRL-----LKSKPYENCLLVLLNVQNAKAWNAFNLS 265

Query: 452 CEMVVSERFSEVADK-SASFTDTSSLMDKSD---LAESL----------IQEMREEAALS 497
           C+++++ RF +V D  SA+ T   SL   S      E             Q++  E    
Sbjct: 266 CKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREV--- 322

Query: 498 TIYKLNSSIYFFCKG-----KMIGDALKI-------YRRMQEMKIRPTVETFYYLVYGHS 545
                                +I ++++        ++ +   K+   +E+   ++    
Sbjct: 323 ------------LTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAE 370

Query: 546 SLEMYRDITILWGDIKRNIESGVLAVSRDLYETLLLNFLQGGYFERVMEVIGYMKKQNMY 605
             +M+  +++       +I + +L++            +     +  + V+         
Sbjct: 371 YRKMFDRLSVFPPSA--HIPTILLSL------------IWFDVIKSDVMVV--------- 407

Query: 606 VDKLMYKSEFLKHHK-------HLYRRLKVSNARTEAQSKRLVN-VQAFRKW 649
           V+KL   S   K  K        +Y  LKV      A  + +V+     + +
Sbjct: 408 VNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTF 459

>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 = 53.7 bits (128), Expect = 2e-07
 Identities = 94/655 (14%), Positives = 190/655 (29%), Gaps = 203/655 (30%)

Query: 26  LESASKNHQVGEAWETFNDFQRLHGI-------PERHVVNRFITDLC---YSAEPHWLQK 75
            +S     ++     + +       +        E  +V +F+ ++    Y     +L  
Sbjct: 42  PKSILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEE-MVQKFVEEVLRINYK----FLMS 96

Query: 76  ACDLVLKIQKGKADLL--QLDLLAKLSLSLARAQMPVP-ASMILRLMLGRENL----PCS 128
                 +       +   Q D L   +   A  +  V      L+L   R+ L    P  
Sbjct: 97  PIKTEQRQPSMMTRMYIEQRDRLYNDNQVFA--KYNVSRLQPYLKL---RQALLELRPAK 151

Query: 129 DLLLLVFVH-MV---KTEIGTCLA----SNFLIQLC---DVF-LHLSAEKSNGAELIKPD 176
           +    V +  ++   KT     +A     ++ +Q      +F L+L    S    L    
Sbjct: 152 N----VLIDGVLGSGKT----WVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLE--- 200

Query: 177 TMIFNLVLHACVRFGSSLKGQHIMELMSQTGVVADAHSIIILAQIHEMNCQRDELKKFKC 236
            M+  L      +   +   +            +D  S I L +IH +   + EL++   
Sbjct: 201 -MLQKL----LYQIDPNWTSR------------SDHSSNIKL-RIHSI---QAELRRL-- 237

Query: 237 YIDQLSTPFAHHYQQFYESLLSLHFKFDDIDAAGEL--------ILDMNRYREPLPNPKL 288
                          +   LL L     ++  A           IL   R+++       
Sbjct: 238 --------LKSK--PYENCLLVL----LNVQNAKAWNAFNLSCKILLTTRFKQ------- 276

Query: 289 RQDAQKPYLISIGSPNLRCGLKLQIMPELLEKDSILKMEGKQELVLFRNGK--------L 340
                   +    S      + L      L  D     E K  L+ + + +        L
Sbjct: 277 --------VTDFLSAATTTHISLDHHSMTLTPD-----EVKSLLLKYLDCRPQDLPREVL 323

Query: 341 LHSNRAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVID-ALIQLGFLEAA 399
             + R ++ +I    + G  +  +W  ++  K      ES+L  +V++ A  +  F   +
Sbjct: 324 TTNPRRLS-IIAESIRDGLATWDNWKHVNCDKLTTII-ESSL--NVLEPAEYRKMFDRLS 379

Query: 400 HDIL-DDMELAGHPMDSTTYKSLLTAYYKVKMFREAEALLKQMRKSCLVQNLSCEMVVSE 458
             +      +   P        LL+  +   +  +   ++ ++ K  LV+    E     
Sbjct: 380 --VFPPSAHI---PTI------LLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKES---- 424

Query: 459 RFSEVADKSASFTDTSSLMDKSDLAESLIQEMREEAAL-STI---YKLNSSIYFFCKGKM 514
                         T S+     +   L  ++  E AL  +I   Y +  +   F    +
Sbjct: 425 --------------TISIPS---IYLELKVKLENEYALHRSIVDHYNIPKT---FDSDDL 464

Query: 515 IGDALKIYRRMQEMKIRPTVETFY-YLVYGH-SSLEMYRDITILWGDIKRNIESGVLAVS 572
           I   L  Y              FY ++ + H  ++E    +T+                 
Sbjct: 465 IPPYLDQY--------------FYSHIGH-HLKNIEHPERMTLF---------------- 493

Query: 573 RDLYETLLLNFLQGGYFERVMEVIGYMKKQNMYVDKLMYKSEFLKHHKHLYRRLK 627
           R ++  L   FL+                 N       YK     +     R + 
Sbjct: 494 RMVF--LDFRFLEQKIRHDSTAWNASGSILNTLQQLKFYKPYICDNDPKYERLVN 546

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	653
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	100.0
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	100.0
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	99.97
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	99.97
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.93
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.92
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.86
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.84
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.83
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.83
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.81
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.76
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.75
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.74
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.74
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.69
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.68
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.68
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.68
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.65
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.64
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.63
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.63
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.63
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.63
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.62
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.6
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.59
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.59
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.59
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.57
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.56
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.53
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.5
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.45
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.45
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.44
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.42
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.42
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.4
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.37
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.34
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.32
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.32
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.32
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.31
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.28
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.28
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.28
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.27
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.26
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.26
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.26
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.23
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.19
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.19
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.18
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.17
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.16
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.14
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.13
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.13
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.12
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	99.1
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.1
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	99.05
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.05
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.05
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.04
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.04
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.04
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.03
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	99.02
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	99.01
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	98.99
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	98.99
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	98.98
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	98.96
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	98.96
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	98.93
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	98.89
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	98.87
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	98.81
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	98.8
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	98.73
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	98.71
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	98.7
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	98.64
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	98.63
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	98.63
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	98.56
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	98.55
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	98.55
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	98.5
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	98.48
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	98.46
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	98.46
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	98.42
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	98.41
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	98.39
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	98.39
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	98.38
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	98.38
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	98.36
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	98.32
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	98.31
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	98.28
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	98.27
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	98.27
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	98.27
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	98.26
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	98.25
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	98.24
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	98.23
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	98.21
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	98.19
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.19
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	98.17
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	98.17
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	98.15
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	98.08
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	98.07
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	98.07
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	98.03
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	98.03
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	98.03
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.0
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.0
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	97.98
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	97.96
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	97.94
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	97.94
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	97.92
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	97.9
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	97.89
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	97.89
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	97.88
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	97.88
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	97.87
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	97.85
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	97.85
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	97.85
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	97.8
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	97.8
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	97.8
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	97.78
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	97.78
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	97.77
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	97.77
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	97.73
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	97.73
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	97.72
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	97.71
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	97.69
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	97.68
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	97.68
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	97.68
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	97.66
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	97.66
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	97.65
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	97.65
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	97.63
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	97.63
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	97.62
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	97.61
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	97.59
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	97.59
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	97.56
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	97.54
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	97.54
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	97.51
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	97.51
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	97.5
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	97.47
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	97.46
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	97.26
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	97.24
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	97.2
3k9i_A	117	BH0479 protein; putative protein binding protein,	97.2
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	97.17
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	97.14
3k9i_A	117	BH0479 protein; putative protein binding protein,	97.13
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	97.11
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	97.09
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	97.09
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	96.99
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	96.96
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	96.93
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	96.91
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	96.85
2l6j_A	111	TPR repeat-containing protein associated with HSP;	96.78
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	96.77
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	96.77
2kat_A	115	Uncharacterized protein; NESG, structure, structur	96.71
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	96.7
2l6j_A	111	TPR repeat-containing protein associated with HSP;	96.69
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	96.65
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	96.5
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	96.46
2kat_A	115	Uncharacterized protein; NESG, structure, structur	96.32
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	96.22
1klx_A	138	Cysteine rich protein B; structural genomics, heli	96.2
1klx_A	138	Cysteine rich protein B; structural genomics, heli	96.13
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	96.09
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	95.94
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	95.9
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	95.89
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	95.8
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	95.72
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	95.46
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	95.41
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	95.34
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	95.24
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	94.81
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	94.78
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	94.7
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	94.44
1pc2_A	152	Mitochondria fission protein; unknown function; NM	94.3
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	93.69
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	93.4
1pc2_A	152	Mitochondria fission protein; unknown function; NM	93.26
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	93.07
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	92.97
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	92.87
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	92.39
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	92.27
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	92.24
3lvg_A	624	Clathrin heavy chain 1; SELF assembly, coated PIT,	91.81
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	91.28
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	91.09
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	90.23
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	89.67
4b4t_P	445	26S proteasome regulatory subunit RPN5; hydrolase,	89.49
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	89.26
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	88.87
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	87.1
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	86.74
3o48_A	134	Mitochondria fission 1 protein; tetratricopeptide	85.67
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	85.31
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	84.46
1n11_A	437	Ankyrin; clathrin, BAND 3, anion exchanger, struct	82.08
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	81.57
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	80.51

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=100.00  E-value=1.2e-33  Score=306.92  Aligned_cols=469  Identities=10%  Similarity=-0.068  Sum_probs=335.3

Q ss_pred             chhHHHHHHHhhccCCcchhhhHHHHHHHHHhccCCchhHHHHHHHHHHHHhcCCCchHHHHHHHHHcCccCCCchhHHH
Q 048743           54 RHVVNRFITDLCYSAEPHWLQKACDLVLKIQKGKADLLQLDLLAKLSLSLARAQMPVPASMILRLMLGRENLPCSDLLLL  133 (653)
Q Consensus        54 ~~~~~~ll~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~  133 (653)
                      ...|+.++..+.+.|+   .++|..+|.++....   |+..++..++.+|.+.|++++|+.+|+.+...  .++..+++.
T Consensus        84 ~~~~~~~~~~~~~~g~---~~~A~~~~~~~~~~~---p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~  155 (597)
T 2xpi_A           84 EDYLRLWRHDALMQQQ---YKCAAFVGEKVLDIT---GNPNDAFWLAQVYCCTGDYARAKCLLTKEDLY--NRSSACRYL  155 (597)
T ss_dssp             HHHHHHHHHHHHHTTC---HHHHHHHHHHHHHHH---CCHHHHHHHHHHHHHTTCHHHHHHHHHHTCGG--GTCHHHHHH
T ss_pred             HHHHHHHHHHHHHccC---chHHHHHHHHHHhhC---CCchHHHHHHHHHHHcCcHHHHHHHHHHHhcc--ccchhHHHH
Confidence            3445555555555554   455555555544222   34445555555555555555555555544322  333333333


Q ss_pred             HHHHHhhcccccccchHHHHHHHHHhhhhhhhhcCCcc-------------------CCCCchhhHHHHHHHHHhcCChh
Q 048743          134 VFVHMVKTEIGTCLASNFLIQLCDVFLHLSAEKSNGAE-------------------LIKPDTMIFNLVLHACVRFGSSL  194 (653)
Q Consensus       134 li~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~-------------------~~~~~~~~yn~li~~~~~~g~~~  194 (653)
                      +                  ...+...|++++|.++|++                   +.+++..+|+.++.+|.+.|+++
T Consensus       156 l------------------~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  217 (597)
T 2xpi_A          156 A------------------AFCLVKLYDWQGALNLLGETNPFRKDEKNANKLLMQDGGIKLEASMCYLRGQVYTNLSNFD  217 (597)
T ss_dssp             H------------------HHHHHHTTCHHHHHHHHCSSCTTC----------CCCSSCCHHHHHHHHHHHHHHHTTCHH
T ss_pred             H------------------HHHHHHHhhHHHHHHHHhccCCccccccccccccccccccchhHHHHHHHHHHHHHcCCHH
Confidence            3                  2223333344444444442                   33446899999999999999999


Q ss_pred             hHHHHHHHHHhcCCCccHHH-HHHHHHHHHhcCChhhh--HHH-HHHhhhcCCCcccchhHHHHHHHHhhhccCCHHHHH
Q 048743          195 KGQHIMELMSQTGVVADAHS-IIILAQIHEMNCQRDEL--KKF-KCYIDQLSTPFAHHYQQFYESLLSLHFKFDDIDAAG  270 (653)
Q Consensus       195 ~a~~l~~~m~~~g~~p~~~t-~~~ll~~~~~~g~~~~a--~~~-~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~  270 (653)
                      +|.++|++|.+.+  |+..+ +..+...+...+..+..  ..+ +..+..   ........+|+.++.+|.+.|++++|.
T Consensus       218 ~A~~~~~~~~~~~--p~~~~~~~~l~~~~~~~~~~~~~~~~~l~~~~~~~---~~~~~~~~~~~~~~~~~~~~g~~~~A~  292 (597)
T 2xpi_A          218 RAKECYKEALMVD--AKCYEAFDQLVSNHLLTADEEWDLVLKLNYSTYSK---EDAAFLRSLYMLKLNKTSHEDELRRAE  292 (597)
T ss_dssp             HHHHHHHHHHHHC--TTCHHHHHHHHHTTCSCHHHHHHHHHHSCTHHHHG---GGHHHHHHHHHTTSCTTTTHHHHHHHH
T ss_pred             HHHHHHHHHHHhC--chhhHHHHHHHHhhcccchhHHHHHHhcCCccccc---chHHHHHHHHHHHHHHHcCcchHHHHH
Confidence            9999999999864  55443 44444433322222111  111 222211   123334557888899999999999999


Q ss_pred             HHHHHhcccCCCCCCchhhhcccccchhccCCCcccchhhhccchhhhHHHHHHhhhhhHHHHHHhcCCCCCCHHHHHHH
Q 048743          271 ELILDMNRYREPLPNPKLRQDAQKPYLISIGSPNLRCGLKLQIMPELLEKDSILKMEGKQELVLFRNGKLLHSNRAMAKL  350 (653)
Q Consensus       271 ~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~l  350 (653)
                      ++|+++.+                                                             ..++..+|+.+
T Consensus       293 ~~~~~~~~-------------------------------------------------------------~~~~~~~~~~l  311 (597)
T 2xpi_A          293 DYLSSING-------------------------------------------------------------LEKSSDLLLCK  311 (597)
T ss_dssp             HHHHTSTT-------------------------------------------------------------GGGCHHHHHHH
T ss_pred             HHHHHhhc-------------------------------------------------------------CCchHHHHHHH
Confidence            99999831                                                             13678889999


Q ss_pred             HHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCC
Q 048743          351 INGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTYKSLLTAYYKVKM  430 (653)
Q Consensus       351 i~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~  430 (653)
                      +.+|.+.|++++|.++|+++.+.+  +.+..+|+.++.+|.+.|++++|..+|+++.+. .+.+..+|+.+..+|.+.|+
T Consensus       312 ~~~~~~~g~~~~A~~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~  388 (597)
T 2xpi_A          312 ADTLFVRSRFIDVLAITTKILEID--PYNLDVYPLHLASLHESGEKNKLYLISNDLVDR-HPEKAVTWLAVGIYYLCVNK  388 (597)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHC--TTCCTTHHHHHHHHHHHTCHHHHHHHHHHHHHH-CTTSHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHhcCHHHHHHHHHHHHHcC--cccHHHHHHHHHHHHHhCCHHHHHHHHHHHHhh-CcccHHHHHHHHHHHHHhcc
Confidence            999999999999999999998877  677788999999999999999999999999864 34578899999999999999


Q ss_pred             hHHHHHHHHHHHHcCCccCchhhHHHHhhHHHHhhhcccccccccccCCHHHHHHHHHHHHHccCCCCHHHHHHHHHHHH
Q 048743          431 FREAEALLKQMRKSCLVQNLSCEMVVSERFSEVADKSASFTDTSSLMDKSDLAESLIQEMREEAALSTIYKLNSSIYFFC  510 (653)
Q Consensus       431 ~~~a~~~~~~m~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~y~~li~~~~  510 (653)
                      +++|.++|+++.+.  .|+....  .....           ..|.+.|++++|..+|+++.+.+. .+..+|+.++.+|.
T Consensus       389 ~~~A~~~~~~~~~~--~~~~~~~--~~~l~-----------~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~  452 (597)
T 2xpi_A          389 ISEARRYFSKSSTM--DPQFGPA--WIGFA-----------HSFAIEGEHDQAISAYTTAARLFQ-GTHLPYLFLGMQHM  452 (597)
T ss_dssp             HHHHHHHHHHHHHH--CTTCHHH--HHHHH-----------HHHHHHTCHHHHHHHHHHHHHTTT-TCSHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHh--CCCCHHH--HHHHH-----------HHHHHcCCHHHHHHHHHHHHHhCc-cchHHHHHHHHHHH
Confidence            99999999999874  3443111  11111           224458999999999999987652 37889999999999


Q ss_pred             cCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHHhhhCCCccC--HHHHHHHHHHHHhCCC
Q 048743          511 KGKMIGDALKIYRRMQEMKIRPTVETFYYLVYGHSSLEMYRDITILWGDIKRNIESGVLAVS--RDLYETLLLNFLQGGY  588 (653)
Q Consensus       511 ~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~p~--~~~y~~li~~~~~~g~  588 (653)
                      +.|++++|+++|++|.+.. +.+..+|+.+...|.+.|++++|.++|+.+.+...+.+..|+  ..+|..+..+|.+.|+
T Consensus       453 ~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~  531 (597)
T 2xpi_A          453 QLGNILLANEYLQSSYALF-QYDPLLLNELGVVAFNKSDMQTAINHFQNALLLVKKTQSNEKPWAATWANLGHAYRKLKM  531 (597)
T ss_dssp             HHTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCSGGGHHHHHHHHHHHHHTTC
T ss_pred             HcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhhhccccchhhHHHHHHHHHHHHHHhcC
Confidence            9999999999999998763 347888999999999999999999999998766555566787  7899999999999999


Q ss_pred             HHHHHHHHHHHHhCCCCCCHHhHHHHH--HHhhhhhHHhhhhhHHHHHH
Q 048743          589 FERVMEVIGYMKKQNMYVDKLMYKSEF--LKHHKHLYRRLKVSNARTEA  635 (653)
Q Consensus       589 ~~~a~~~~~~m~~~g~~p~~~t~~~l~--~~~~~~~~~~~~~~~~~~~~  635 (653)
                      +++|.++++++.+.+ +.+..+|..+.  +...|+.+.|.+..+...+.
T Consensus       532 ~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~  579 (597)
T 2xpi_A          532 YDAAIDALNQGLLLS-TNDANVHTAIALVYLHKKIPGLAITHLHESLAI  579 (597)
T ss_dssp             HHHHHHHHHHHHHHS-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHhc
Confidence            999999999998765 33667777766  66778899998888888774

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=100.00  E-value=2.5e-33  Score=304.38  Aligned_cols=477  Identities=9%  Similarity=-0.049  Sum_probs=383.3

Q ss_pred             chHHHHHHHHHHHHhccchhHHHHHHHHhhhhcCCCCchhHHHHHHHhhccCCcchhhhHHHHHHHHHhccCCchhHHHH
Q 048743           17 SSREVLLRKLESASKNHQVGEAWETFNDFQRLHGIPERHVVNRFITDLCYSAEPHWLQKACDLVLKIQKGKADLLQLDLL   96 (653)
Q Consensus        17 p~~~~~~~~i~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~t~   96 (653)
                      ++...+..++..+.+.|++++|..+|+.+...  .|+..++..+..++.+.|+   .++|..+|.++...   .++..++
T Consensus        82 ~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~--~p~~~~~~~l~~~~~~~g~---~~~A~~~~~~~~~~---~~~~~~~  153 (597)
T 2xpi_A           82 SREDYLRLWRHDALMQQQYKCAAFVGEKVLDI--TGNPNDAFWLAQVYCCTGD---YARAKCLLTKEDLY---NRSSACR  153 (597)
T ss_dssp             CHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--HCCHHHHHHHHHHHHHTTC---HHHHHHHHHHTCGG---GTCHHHH
T ss_pred             HHHHHHHHHHHHHHHccCchHHHHHHHHHHhh--CCCchHHHHHHHHHHHcCc---HHHHHHHHHHHhcc---ccchhHH
Confidence            57788999999999999999999999999853  4677889999999999998   79999999887432   3588899


Q ss_pred             HHHHHHHHhcCCCchHHHHHHHHHcC---------------ccCCCchhHHHHHHHHhhcccccccchHHHHHHHHHhhh
Q 048743           97 AKLSLSLARAQMPVPASMILRLMLGR---------------ENLPCSDLLLLVFVHMVKTEIGTCLASNFLIQLCDVFLH  161 (653)
Q Consensus        97 ~~li~~~~~~g~~~~a~~~~~~m~~~---------------g~~p~~~~~~~li~~~~~~~~~~~~~~~~l~~~~~~~~~  161 (653)
                      +.++.+|.+.|++++|+++|+++...               |..++..+|+                  .+...+...|+
T Consensus       154 ~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~------------------~l~~~~~~~g~  215 (597)
T 2xpi_A          154 YLAAFCLVKLYDWQGALNLLGETNPFRKDEKNANKLLMQDGGIKLEASMCY------------------LRGQVYTNLSN  215 (597)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHCSSCTTC----------CCCSSCCHHHHHHH------------------HHHHHHHHTTC
T ss_pred             HHHHHHHHHHhhHHHHHHHHhccCCccccccccccccccccccchhHHHHH------------------HHHHHHHHcCC
Confidence            99999999999999999999853221               1122233444                  44556666678


Q ss_pred             hhhhhcCCccCCC--C-chhhHHHHHHHHHhcCChhhH--HHH-HHHHHhcCCCccHHHHHHHHHHHHhcCChhhhHHHH
Q 048743          162 LSAEKSNGAELIK--P-DTMIFNLVLHACVRFGSSLKG--QHI-MELMSQTGVVADAHSIIILAQIHEMNCQRDELKKFK  235 (653)
Q Consensus       162 ~~~a~~~~~~~~~--~-~~~~yn~li~~~~~~g~~~~a--~~l-~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~  235 (653)
                      +++|.+.|+++..  | +...+..+...+...++.+.+  ..+ +..+...+..++..+|..++..|.+.|++++|.+++
T Consensus       216 ~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~  295 (597)
T 2xpi_A          216 FDRAKECYKEALMVDAKCYEAFDQLVSNHLLTADEEWDLVLKLNYSTYSKEDAAFLRSLYMLKLNKTSHEDELRRAEDYL  295 (597)
T ss_dssp             HHHHHHHHHHHHHHCTTCHHHHHHHHHTTCSCHHHHHHHHHHSCTHHHHGGGHHHHHHHHHTTSCTTTTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCchhhHHHHHHHHhhcccchhHHHHHHhcCCcccccchHHHHHHHHHHHHHHHcCcchHHHHHHHH
Confidence            8888888876542  3 344555565555444333322  222 666777777777778888899999999999999999


Q ss_pred             HHhhhcCCCcccchhHHHHHHHHhhhccCCHHHHHHHHHHhcccCCCCCCchhhhcccccchhccCCCcccchhhhccch
Q 048743          236 CYIDQLSTPFAHHYQQFYESLLSLHFKFDDIDAAGELILDMNRYREPLPNPKLRQDAQKPYLISIGSPNLRCGLKLQIMP  315 (653)
Q Consensus       236 ~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  315 (653)
                      +.+.+.     ..+..+++.++.+|.+.|++++|.++|+++.+.                                    
T Consensus       296 ~~~~~~-----~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~------------------------------------  334 (597)
T 2xpi_A          296 SSINGL-----EKSSDLLLCKADTLFVRSRFIDVLAITTKILEI------------------------------------  334 (597)
T ss_dssp             HTSTTG-----GGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH------------------------------------
T ss_pred             HHhhcC-----CchHHHHHHHHHHHHHhcCHHHHHHHHHHHHHc------------------------------------
Confidence            998765     245678999999999999999999999999320                                    


Q ss_pred             hhhHHHHHHhhhhhHHHHHHhcCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCC
Q 048743          316 ELLEKDSILKMEGKQELVLFRNGKLLHSNRAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGF  395 (653)
Q Consensus       316 ~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~  395 (653)
                                              -+.+..+|+.++.++.+.|++++|..+++++.+..  +.+..+|+.+...|.+.|+
T Consensus       335 ------------------------~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~  388 (597)
T 2xpi_A          335 ------------------------DPYNLDVYPLHLASLHESGEKNKLYLISNDLVDRH--PEKAVTWLAVGIYYLCVNK  388 (597)
T ss_dssp             ------------------------CTTCCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC--TTSHHHHHHHHHHHHHTTC
T ss_pred             ------------------------CcccHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhC--cccHHHHHHHHHHHHHhcc
Confidence                                    11244578899999999999999999999999776  7788889999999999999


Q ss_pred             HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCccCchhhHHHHhhHHHHhhhccccccccc
Q 048743          396 LEAAHDILDDMELAGHPMDSTTYKSLLTAYYKVKMFREAEALLKQMRKSCLVQNLSCEMVVSERFSEVADKSASFTDTSS  475 (653)
Q Consensus       396 ~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~~~~  475 (653)
                      +++|.++|+++.+.. +.+..+|+.++.+|.+.|++++|.++|+++.+.  .|+.....  ....           ..|.
T Consensus       389 ~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~--~~l~-----------~~~~  452 (597)
T 2xpi_A          389 ISEARRYFSKSSTMD-PQFGPAWIGFAHSFAIEGEHDQAISAYTTAARL--FQGTHLPY--LFLG-----------MQHM  452 (597)
T ss_dssp             HHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHT--TTTCSHHH--HHHH-----------HHHH
T ss_pred             HHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CccchHHH--HHHH-----------HHHH
Confidence            999999999998753 346889999999999999999999999999875  34331111  1111           1244


Q ss_pred             ccCCHHHHHHHHHHHHHccCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhc----CCCCC--HHHHHHHHHHHhccCC
Q 048743          476 LMDKSDLAESLIQEMREEAALSTIYKLNSSIYFFCKGKMIGDALKIYRRMQEM----KIRPT--VETFYYLVYGHSSLEM  549 (653)
Q Consensus       476 ~~~~~~~a~~~~~~m~~~~~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~----g~~p~--~~t~~~li~~~~~~~~  549 (653)
                      +.|++++|.++|+++.+... .+..+|+.++..|.+.|++++|+++|++|.+.    +..|+  ..+|..+..+|.+.|+
T Consensus       453 ~~g~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~  531 (597)
T 2xpi_A          453 QLGNILLANEYLQSSYALFQ-YDPLLLNELGVVAFNKSDMQTAINHFQNALLLVKKTQSNEKPWAATWANLGHAYRKLKM  531 (597)
T ss_dssp             HHTCHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCSGGGHHHHHHHHHHHHHTTC
T ss_pred             HcCCHHHHHHHHHHHHHhCC-CChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhhhccccchhhHHHHHHHHHHHHHHhcC
Confidence            58999999999999997652 37899999999999999999999999999886    77888  7899999999999999


Q ss_pred             HHHHHHHHHHHHHHhhhCCCccCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCCHHh
Q 048743          550 YRDITILWGDIKRNIESGVLAVSRDLYETLLLNFLQGGYFERVMEVIGYMKKQNMYVDKLM  610 (653)
Q Consensus       550 ~~~a~~~~~~~~~~~~~~~~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t  610 (653)
                      +++|.++++.+.+.     -+.+..+|..+..+|.+.|++++|.+.|+++.+.  .|+...
T Consensus       532 ~~~A~~~~~~~~~~-----~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~--~p~~~~  585 (597)
T 2xpi_A          532 YDAAIDALNQGLLL-----STNDANVHTAIALVYLHKKIPGLAITHLHESLAI--SPNEIM  585 (597)
T ss_dssp             HHHHHHHHHHHHHH-----SSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHH
T ss_pred             HHHHHHHHHHHHHh-----CCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHhc--CCCChH
Confidence            99999999988743     1447899999999999999999999999999864  465433

>4g26_A Pentatricopeptide repeat-containing protein AT2G3 mitochondrial; metallonuclease, prorp, ribonuclease, PIN, tRNA processing, NYN domain; 1.75A {Arabidopsis thaliana} PDB: 4g23_A* 4g25_A 4g24_A

Probab=99.97  E-value=1.7e-31  Score=277.75  Aligned_cols=214  Identities=13%  Similarity=0.073  Sum_probs=181.7

Q ss_pred             HHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHH
Q 048743          361 SELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTYKSLLTAYYKVKMFREAEALLKQ  440 (653)
Q Consensus       361 ~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~a~~~~~~  440 (653)
                      ..+..+.+++.+++....+..+++.+|++|++.|++++|+++|++|.+.|+.||..|||+||.+|++.+...+       
T Consensus         7 s~~e~L~~~~~~k~~~~spe~~l~~~id~c~k~G~~~~A~~lf~~M~~~Gv~pd~~tyn~Li~~c~~~~~~~~-------   79 (501)
T 4g26_A            7 SPSENLSRKAKKKAIQQSPEALLKQKLDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATE-------   79 (501)
T ss_dssp             -----------------CHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTCCCCSS-------
T ss_pred             chHHHHHHHHHHhcccCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhCCchhh-------
Confidence            4456677777777744444456899999999999999999999999999999999999999999988775322       


Q ss_pred             HHHcCCccCchhhHHHHhhHHHHhhhcccccccccccCCHHHHHHHHHHHHHccCCCCHHHHHHHHHHHHcCCCHHHHHH
Q 048743          441 MRKSCLVQNLSCEMVVSERFSEVADKSASFTDTSSLMDKSDLAESLIQEMREEAALSTIYKLNSSIYFFCKGKMIGDALK  520 (653)
Q Consensus       441 m~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~y~~li~~~~~~g~~~~a~~  520 (653)
                                                       ..+.+.++.|.++|++|.+.|+.||..+||+||.+|++.|++++|++
T Consensus        80 ---------------------------------~~~~~~l~~A~~lf~~M~~~G~~Pd~~tyn~lI~~~~~~g~~~~A~~  126 (501)
T 4g26_A           80 ---------------------------------SSPNPGLSRGFDIFKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFD  126 (501)
T ss_dssp             ---------------------------------SSCCHHHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHTCHHHHHH
T ss_pred             ---------------------------------hhhcchHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCCHHHHHH
Confidence                                             11256788899999999999999999999999999999999999999


Q ss_pred             HHHHHHhcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHHhhhCCCccCHHHHHHHHHHHHhCCCHHHHHHHHHHHH
Q 048743          521 IYRRMQEMKIRPTVETFYYLVYGHSSLEMYRDITILWGDIKRNIESGVLAVSRDLYETLLLNFLQGGYFERVMEVIGYMK  600 (653)
Q Consensus       521 ~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~  600 (653)
                      +|++|.+.|+.||..||+.||.+|++.|++++|.++|++|.    +.|+.||..+|++||.+|++.|++++|.+++++|+
T Consensus       127 l~~~M~~~g~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~----~~G~~Pd~~ty~~Li~~~~~~g~~d~A~~ll~~Mr  202 (501)
T 4g26_A          127 MVKQMKAFGIQPRLRSYGPALFGFCRKGDADKAYEVDAHMV----ESEVVPEEPELAALLKVSMDTKNADKVYKTLQRLR  202 (501)
T ss_dssp             HHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHH----HTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCCCccceehHHHHHHHHCCCHHHHHHHHHHHH----hcCCCCCHHHHHHHHHHHhhCCCHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999986    56999999999999999999999999999999999


Q ss_pred             hCCCCCCHHhHHHHHHHh
Q 048743          601 KQNMYVDKLMYKSEFLKH  618 (653)
Q Consensus       601 ~~g~~p~~~t~~~l~~~~  618 (653)
                      +.|+.|+..||++++..+
T Consensus       203 ~~g~~ps~~T~~~l~~~F  220 (501)
T 4g26_A          203 DLVRQVSKSTFDMIEEWF  220 (501)
T ss_dssp             HHTSSBCHHHHHHHHHHH
T ss_pred             HhCCCcCHHHHHHHHHHH
Confidence            999999999999998443

>4g26_A Pentatricopeptide repeat-containing protein AT2G3 mitochondrial; metallonuclease, prorp, ribonuclease, PIN, tRNA processing, NYN domain; 1.75A {Arabidopsis thaliana} PDB: 4g23_A* 4g25_A 4g24_A

Probab=99.97  E-value=9.4e-30  Score=264.58  Aligned_cols=188  Identities=14%  Similarity=0.050  Sum_probs=172.6

Q ss_pred             HHHHHHHhhhccCCHHHHHHHHHHhcccCCCCCCchhhhcccccchhccCCCcccchhhhccchhhhHHHHHHhhhhhHH
Q 048743          252 FYESLLSLHFKFDDIDAAGELILDMNRYREPLPNPKLRQDAQKPYLISIGSPNLRCGLKLQIMPELLEKDSILKMEGKQE  331 (653)
Q Consensus       252 ~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  331 (653)
                      +++.+|++|++.|++++|.++|++|                                                       
T Consensus        28 ~l~~~id~c~k~G~~~~A~~lf~~M-------------------------------------------------------   52 (501)
T 4g26_A           28 LLKQKLDMCSKKGDVLEALRLYDEA-------------------------------------------------------   52 (501)
T ss_dssp             HHHHHHHHTTTSCCHHHHHHHHHHH-------------------------------------------------------
T ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHH-------------------------------------------------------
Confidence            5788999999999999999999999                                                       


Q ss_pred             HHHHhcCCCCCCHHHHHHHHHHHHhcCC---------hHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHH
Q 048743          332 LVLFRNGKLLHSNRAMAKLINGYKKHGK---------NSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDI  402 (653)
Q Consensus       332 ~~~~~~~~~~p~~~~~~~li~~~~~~~~---------~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~  402 (653)
                          ...|+.||..|||+||.+|++.+.         +++|.++|++|...| +.||..||++||.+|++.|++++|.++
T Consensus        53 ----~~~Gv~pd~~tyn~Li~~c~~~~~~~~~~~~~~l~~A~~lf~~M~~~G-~~Pd~~tyn~lI~~~~~~g~~~~A~~l  127 (501)
T 4g26_A           53 ----RRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRGFDIFKQMIVDK-VVPNEATFTNGARLAVAKDDPEMAFDM  127 (501)
T ss_dssp             ----HHHTCCCCHHHHHHHHHHHTTCCCCSSSSCCHHHHHHHHHHHHHHHTT-CCCCHHHHHHHHHHHHHHTCHHHHHHH
T ss_pred             ----HHcCCCCCHhHHHHHHHHHHhCCchhhhhhcchHHHHHHHHHHHHHhC-CCCCHHHHHHHHHHHHhcCCHHHHHHH
Confidence                467899999999999999997765         678999999999888 778888899999999999999999999


Q ss_pred             HHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCccCchhhHHHHhhHHHHhhhcccccccccccCCHHH
Q 048743          403 LDDMELAGHPMDSTTYKSLLTAYYKVKMFREAEALLKQMRKSCLVQNLSCEMVVSERFSEVADKSASFTDTSSLMDKSDL  482 (653)
Q Consensus       403 ~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~  482 (653)
                      |++|.+.|+.||..||++||.+|++.|++++|.++|++|.+.|+.|                                  
T Consensus       128 ~~~M~~~g~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~G~~P----------------------------------  173 (501)
T 4g26_A          128 VKQMKAFGIQPRLRSYGPALFGFCRKGDADKAYEVDAHMVESEVVP----------------------------------  173 (501)
T ss_dssp             HHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCCC----------------------------------
T ss_pred             HHHHHHcCCCCccceehHHHHHHHHCCCHHHHHHHHHHHHhcCCCC----------------------------------
Confidence            9999999999999999999999999999999999998888877664                                  


Q ss_pred             HHHHHHHHHHccCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccC
Q 048743          483 AESLIQEMREEAALSTIYKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRPTVETFYYLVYGHSSLE  548 (653)
Q Consensus       483 a~~~~~~m~~~~~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~  548 (653)
                                     |..+|++||.+|++.|++++|.++|++|++.|..|+..||+.++..|+..+
T Consensus       174 ---------------d~~ty~~Li~~~~~~g~~d~A~~ll~~Mr~~g~~ps~~T~~~l~~~F~s~~  224 (501)
T 4g26_A          174 ---------------EEPELAALLKVSMDTKNADKVYKTLQRLRDLVRQVSKSTFDMIEEWFKSEV  224 (501)
T ss_dssp             ---------------CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSSBCHHHHHHHHHHHHSHH
T ss_pred             ---------------CHHHHHHHHHHHhhCCCHHHHHHHHHHHHHhCCCcCHHHHHHHHHHHhcCc
Confidence                           678999999999999999999999999999999999999999999998743

>1w3b_A UDP-N-acetylglucosamine--peptide N-acetylglucosaminyltransferase 110; OGT, glcnac, nucleoporin, O-linked glycosylation, TPR repeat, protein binding; 2.85A {Homo sapiens} SCOP: a.118.8.1

Probab=99.93  E-value=8.5e-22  Score=201.19  Aligned_cols=377  Identities=13%  Similarity=-0.002  Sum_probs=249.3

Q ss_pred             HHHHHhccchhHHHHHHHHhhhhcCCCCch-hHHHHHHHhhccCCcchhhhHHHHHHHHHhccCCchhHHHHHHHHHHHH
Q 048743           26 LESASKNHQVGEAWETFNDFQRLHGIPERH-VVNRFITDLCYSAEPHWLQKACDLVLKIQKGKADLLQLDLLAKLSLSLA  104 (653)
Q Consensus        26 i~~~~~~~~~~~A~~~~~~~~~~~~~~~~~-~~~~ll~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~t~~~li~~~~  104 (653)
                      ...+.+.|++++|.+.|+.+.+.  .|+.. .+..+...+...|+   .++|...+....+..|  .+..+|..+...|.
T Consensus         6 a~~~~~~g~~~~A~~~~~~~~~~--~p~~~~~~~~l~~~~~~~~~---~~~a~~~~~~a~~~~p--~~~~~~~~lg~~~~   78 (388)
T 1w3b_A            6 AHREYQAGDFEAAERHCMQLWRQ--EPDNTGVLLLLSSIHFQCRR---LDRSAHFSTLAIKQNP--LLAEAYSNLGNVYK   78 (388)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTC---HHHHHHHHHHHHHHCT--TCHHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCC---HHHHHHHHHHHHhcCC--CchHHHHHHHHHHH
Confidence            34566788999999988887763  35443 44455555555666   6788888877766544  36778888888888


Q ss_pred             hcCCCchHHHHHHHHHcCccCCCchhHHHHHHHHhhcccccccchHHHHHHHHHhhhhhhhhcCCccCCCCchhhHHHHH
Q 048743          105 RAQMPVPASMILRLMLGRENLPCSDLLLLVFVHMVKTEIGTCLASNFLIQLCDVFLHLSAEKSNGAELIKPDTMIFNLVL  184 (653)
Q Consensus       105 ~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~yn~li  184 (653)
                      +.|++++|++.|+++.+..                                                  +.+..+|..+.
T Consensus        79 ~~g~~~~A~~~~~~al~~~--------------------------------------------------p~~~~~~~~l~  108 (388)
T 1w3b_A           79 ERGQLQEAIEHYRHALRLK--------------------------------------------------PDFIDGYINLA  108 (388)
T ss_dssp             HHTCHHHHHHHHHHHHHHC--------------------------------------------------TTCHHHHHHHH
T ss_pred             HCCCHHHHHHHHHHHHHcC--------------------------------------------------cchHHHHHHHH
Confidence            9999999988888875421                                                  22345677788


Q ss_pred             HHHHhcCChhhHHHHHHHHHhcCCCccHHH-HHHHHHHHHhcCChhhhHHHHHHhhhcCCCcccchhHHHHHHHHhhhcc
Q 048743          185 HACVRFGSSLKGQHIMELMSQTGVVADAHS-IIILAQIHEMNCQRDELKKFKCYIDQLSTPFAHHYQQFYESLLSLHFKF  263 (653)
Q Consensus       185 ~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t-~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~  263 (653)
                      .++.+.|++++|.+.|+++.+.  .|+... +..+...+...|++++|.+.++.+....+..    ..+|+.+...|.+.
T Consensus       109 ~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~----~~~~~~l~~~~~~~  182 (388)
T 1w3b_A          109 AALVAAGDMEGAVQAYVSALQY--NPDLYCVRSDLGNLLKALGRLEEAKACYLKAIETQPNF----AVAWSNLGCVFNAQ  182 (388)
T ss_dssp             HHHHHHSCSSHHHHHHHHHHHH--CTTCTHHHHHHHHHHHTTSCHHHHHHHHHHHHHHCTTC----HHHHHHHHHHHHTT
T ss_pred             HHHHHcCCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCC----HHHHHHHHHHHHHc
Confidence            8888888888888888888865  455544 5566666667777777777777766543221    23567777777777


Q ss_pred             CCHHHHHHHHHHhcccCCCCCCchhhhcccccchhccCCCcccchhhhccchhhhHHHHHHhhhhhHHHHHHhcCCCCC-
Q 048743          264 DDIDAAGELILDMNRYREPLPNPKLRQDAQKPYLISIGSPNLRCGLKLQIMPELLEKDSILKMEGKQELVLFRNGKLLH-  342 (653)
Q Consensus       264 g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p-  342 (653)
                      |++++|...|+++.+                                                             ..| 
T Consensus       183 g~~~~A~~~~~~al~-------------------------------------------------------------~~p~  201 (388)
T 1w3b_A          183 GEIWLAIHHFEKAVT-------------------------------------------------------------LDPN  201 (388)
T ss_dssp             TCHHHHHHHHHHHHH-------------------------------------------------------------HCTT
T ss_pred             CCHHHHHHHHHHHHh-------------------------------------------------------------cCCC
Confidence            777777777777621                                                             112 


Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 048743          343 SNRAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTYKSLL  422 (653)
Q Consensus       343 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li  422 (653)
                      +...|..+...+...|++++|...|++.....  |.+..++..+...|.+.|++++|...|+++.+.. +.+..+|..+.
T Consensus       202 ~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~  278 (388)
T 1w3b_A          202 FLDAYINLGNVLKEARIFDRAVAAYLRALSLS--PNHAVVHGNLACVYYEQGLIDLAIDTYRRAIELQ-PHFPDAYCNLA  278 (388)
T ss_dssp             CHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTC-SSCHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC--cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHH
Confidence            23456666677777777777777777766665  5556667777777777777777777777776643 22456677777


Q ss_pred             HHHHHcCChHHHHHHHHHHHHcCCccCchhhHHHHhhHHHHhhhcccccccccccCCHHHHHHHHHHHHHccCCCCHHHH
Q 048743          423 TAYYKVKMFREAEALLKQMRKSCLVQNLSCEMVVSERFSEVADKSASFTDTSSLMDKSDLAESLIQEMREEAALSTIYKL  502 (653)
Q Consensus       423 ~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~y  502 (653)
                      .++.+.|++++|...|+++.+.  .|+                                                +..+|
T Consensus       279 ~~~~~~g~~~~A~~~~~~al~~--~p~------------------------------------------------~~~~~  308 (388)
T 1w3b_A          279 NALKEKGSVAEAEDCYNTALRL--CPT------------------------------------------------HADSL  308 (388)
T ss_dssp             HHHHHHSCHHHHHHHHHHHHHH--CTT------------------------------------------------CHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHhh--Ccc------------------------------------------------cHHHH
Confidence            7777777777777777766653  232                                                44556


Q ss_pred             HHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHHhhhCCCcc-CHHHHHHHHH
Q 048743          503 NSSIYFFCKGKMIGDALKIYRRMQEMKIRPTVETFYYLVYGHSSLEMYRDITILWGDIKRNIESGVLAV-SRDLYETLLL  581 (653)
Q Consensus       503 ~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~p-~~~~y~~li~  581 (653)
                      +.+...+.+.|++++|++.|+++.+.. +.+..++..+..++.+.|++++|...++.+.      ...| +...|..+..
T Consensus       309 ~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~------~~~p~~~~a~~~lg~  381 (388)
T 1w3b_A          309 NNLANIKREQGNIEEAVRLYRKALEVF-PEFAAAHSNLASVLQQQGKLQEALMHYKEAI------RISPTFADAYSNMGN  381 (388)
T ss_dssp             HHHHHHHHTTTCHHHHHHHHHHHTTSC-TTCHHHHHHHHHHHHTTTCCHHHHHHHHHHH------TTCTTCHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHH------hhCCCCHHHHHhHHH
Confidence            666677777777777777777766531 2235566667777777777777777776665      2233 3444554444


Q ss_pred             HHHhC
Q 048743          582 NFLQG  586 (653)
Q Consensus       582 ~~~~~  586 (653)
                      .+...
T Consensus       382 ~~~~~  386 (388)
T 1w3b_A          382 TLKEM  386 (388)
T ss_dssp             HHHHT
T ss_pred             HHHHc
Confidence            44443

>1w3b_A UDP-N-acetylglucosamine--peptide N-acetylglucosaminyltransferase 110; OGT, glcnac, nucleoporin, O-linked glycosylation, TPR repeat, protein binding; 2.85A {Homo sapiens} SCOP: a.118.8.1

Probab=99.92  E-value=4e-21  Score=196.18  Aligned_cols=356  Identities=10%  Similarity=-0.029  Sum_probs=246.8

Q ss_pred             hhhHHHHHHHHHhccCCchhHHHHHHHHHHHHhcCCCchHHHHHHHHHcCccCCCchhHHHHHHHHhhcccccccchHHH
Q 048743           73 LQKACDLVLKIQKGKADLLQLDLLAKLSLSLARAQMPVPASMILRLMLGRENLPCSDLLLLVFVHMVKTEIGTCLASNFL  152 (653)
Q Consensus        73 ~~~a~~~~~~~~~~~~~~~~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~~~~l  152 (653)
                      +++|.+.+.++.+..|.  +...+..+...+...|++++|...++...+.                              
T Consensus        15 ~~~A~~~~~~~~~~~p~--~~~~~~~l~~~~~~~~~~~~a~~~~~~a~~~------------------------------   62 (388)
T 1w3b_A           15 FEAAERHCMQLWRQEPD--NTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQ------------------------------   62 (388)
T ss_dssp             HHHHHHHHHHHHHHCTT--CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH------------------------------
T ss_pred             HHHHHHHHHHHHHhCCC--CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc------------------------------
Confidence            56666666665554433  3444555555566666666666665544321                              


Q ss_pred             HHHHHHhhhhhhhhcCCccCCCCchhhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCccHH-HHHHHHHHHHhcCChhhh
Q 048743          153 IQLCDVFLHLSAEKSNGAELIKPDTMIFNLVLHACVRFGSSLKGQHIMELMSQTGVVADAH-SIIILAQIHEMNCQRDEL  231 (653)
Q Consensus       153 ~~~~~~~~~~~~a~~~~~~~~~~~~~~yn~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~-t~~~ll~~~~~~g~~~~a  231 (653)
                                          .+.+..+|+.+..+|.+.|++++|.+.|+++.+.  .|+.. +|..+..++.+.|++++|
T Consensus        63 --------------------~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~~A  120 (388)
T 1w3b_A           63 --------------------NPLLAEAYSNLGNVYKERGQLQEAIEHYRHALRL--KPDFIDGYINLAAALVAAGDMEGA  120 (388)
T ss_dssp             --------------------CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHSCSSHH
T ss_pred             --------------------CCCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHc--CcchHHHHHHHHHHHHHcCCHHHH
Confidence                                2345667777888888888888888888887764  45543 466777777777777777


Q ss_pred             HHHHHHhhhcCCCcccchhHHHHHHHHhhhccCCHHHHHHHHHHhcccCCCCCCchhhhcccccchhccCCCcccchhhh
Q 048743          232 KKFKCYIDQLSTPFAHHYQQFYESLLSLHFKFDDIDAAGELILDMNRYREPLPNPKLRQDAQKPYLISIGSPNLRCGLKL  311 (653)
Q Consensus       232 ~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  311 (653)
                      .+.++.+.+..+...    .++..+...+...|++++|.++|+++.+                                 
T Consensus       121 ~~~~~~al~~~p~~~----~~~~~l~~~~~~~g~~~~A~~~~~~al~---------------------------------  163 (388)
T 1w3b_A          121 VQAYVSALQYNPDLY----CVRSDLGNLLKALGRLEEAKACYLKAIE---------------------------------  163 (388)
T ss_dssp             HHHHHHHHHHCTTCT----HHHHHHHHHHHTTSCHHHHHHHHHHHHH---------------------------------
T ss_pred             HHHHHHHHHhCCCcH----HHHHHHHHHHHHccCHHHHHHHHHHHHH---------------------------------
Confidence            777776665432221    2456666666667777777777776621                                 


Q ss_pred             ccchhhhHHHHHHhhhhhHHHHHHhcCCCCC-CHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHH
Q 048743          312 QIMPELLEKDSILKMEGKQELVLFRNGKLLH-SNRAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDAL  390 (653)
Q Consensus       312 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~  390 (653)
                                                  ..| +..+|..+...+.+.|++++|...|+++.+.+  |.+...|..+...+
T Consensus       164 ----------------------------~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~lg~~~  213 (388)
T 1w3b_A          164 ----------------------------TQPNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLD--PNFLDAYINLGNVL  213 (388)
T ss_dssp             ----------------------------HCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHH
T ss_pred             ----------------------------hCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--CCcHHHHHHHHHHH
Confidence                                        112 34466666667777777777777777776665  55555666666677


Q ss_pred             HHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCccCchhhHHHHhhHHHHhhhcccc
Q 048743          391 IQLGFLEAAHDILDDMELAGHPMDSTTYKSLLTAYYKVKMFREAEALLKQMRKSCLVQNLSCEMVVSERFSEVADKSASF  470 (653)
Q Consensus       391 ~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~l~~~~~~~~~~  470 (653)
                      ...|++++|...|++..+.. +-+..++..+..+|.+.|++++|...|+++.+.  .|+                     
T Consensus       214 ~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~--~p~---------------------  269 (388)
T 1w3b_A          214 KEARIFDRAVAAYLRALSLS-PNHAVVHGNLACVYYEQGLIDLAIDTYRRAIEL--QPH---------------------  269 (388)
T ss_dssp             HTTTCTTHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT--CSS---------------------
T ss_pred             HHcCCHHHHHHHHHHHHhhC-cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CCC---------------------
Confidence            77777777777776665532 124566666666677777777777666666552  232                     


Q ss_pred             cccccccCCHHHHHHHHHHHHHccCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCCH
Q 048743          471 TDTSSLMDKSDLAESLIQEMREEAALSTIYKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRPTVETFYYLVYGHSSLEMY  550 (653)
Q Consensus       471 ~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~  550 (653)
                                                 +..+|..+...|.+.|++++|++.|+++.+.. +.+..++..+...+...|++
T Consensus       270 ---------------------------~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~  321 (388)
T 1w3b_A          270 ---------------------------FPDAYCNLANALKEKGSVAEAEDCYNTALRLC-PTHADSLNNLANIKREQGNI  321 (388)
T ss_dssp             ---------------------------CHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCH
T ss_pred             ---------------------------CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHcCCH
Confidence                                       45678899999999999999999999999863 55788999999999999999


Q ss_pred             HHHHHHHHHHHHHhhhCCCccCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCCH
Q 048743          551 RDITILWGDIKRNIESGVLAVSRDLYETLLLNFLQGGYFERVMEVIGYMKKQNMYVDK  608 (653)
Q Consensus       551 ~~a~~~~~~~~~~~~~~~~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~  608 (653)
                      ++|...++.+.+     -.+.+..++..+...|.+.|++++|.+.|+++.+  +.|+.
T Consensus       322 ~~A~~~~~~al~-----~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~--~~p~~  372 (388)
T 1w3b_A          322 EEAVRLYRKALE-----VFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIR--ISPTF  372 (388)
T ss_dssp             HHHHHHHHHHTT-----SCTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHT--TCTTC
T ss_pred             HHHHHHHHHHHh-----cCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHh--hCCCC
Confidence            999999988851     1234678899999999999999999999999985  45653

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.86  E-value=3.5e-18  Score=181.23  Aligned_cols=417  Identities=9%  Similarity=-0.075  Sum_probs=235.4

Q ss_pred             hHHHHHHHHHHHHhccchhHHHHHHHHhhhhcCCCCchhHHHHHHHhhccCCcchhhhHHHHHHHHHhccCCchhHHHHH
Q 048743           18 SREVLLRKLESASKNHQVGEAWETFNDFQRLHGIPERHVVNRFITDLCYSAEPHWLQKACDLVLKIQKGKADLLQLDLLA   97 (653)
Q Consensus        18 ~~~~~~~~i~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~t~~   97 (653)
                      ....+...-..+.+.|++++|+..|+.+.+..  |++..|..+..++...|+   .++|...+.+..+..|.  +...|.
T Consensus         5 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~la~~~~~~g~---~~~A~~~~~~al~~~p~--~~~~~~   77 (514)
T 2gw1_A            5 YALALKDKGNQFFRNKKYDDAIKYYNWALELK--EDPVFYSNLSACYVSVGD---LKKVVEMSTKALELKPD--YSKVLL   77 (514)
T ss_dssp             HHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHHTC---HHHHHHHHHHHHHHCSC--CHHHHH
T ss_pred             hHHHHHHHHHHHHHhccHHHHHHHHHHHHhcC--ccHHHHHhHHHHHHHHhh---HHHHHHHHHHHhccChH--HHHHHH
Confidence            34567778888999999999999999998854  788899999999999998   79999999998876654  678899


Q ss_pred             HHHHHHHhcCCCchHHHHHHHHHcCccCCCchhHHHHHHHHhhcccccc-------------------------------
Q 048743           98 KLSLSLARAQMPVPASMILRLMLGRENLPCSDLLLLVFVHMVKTEIGTC-------------------------------  146 (653)
Q Consensus        98 ~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~-------------------------------  146 (653)
                      .+..+|.+.|++++|+..|+++.+.+. ++.......+...........                               
T Consensus        78 ~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~  156 (514)
T 2gw1_A           78 RRASANEGLGKFADAMFDLSVLSLNGD-FNDASIEPMLERNLNKQAMSKLKEKFGDIDTATATPTELSTQPAKERKDKQE  156 (514)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHSSS-CCGGGTHHHHHHHHHHHHHHHHTTC---------------------------
T ss_pred             HHHHHHHHHhhHHHHHHHHHHHHhcCC-CccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCChhhHHHhhcc
Confidence            999999999999999999999988762 343433333332222100000                               


Q ss_pred             -cchHHHHHHHHHhhhhhhhhcCCccCCCCchhhHHHHHHHHHh---cCChhhHHHHHHHHHh-----cCCCc-------
Q 048743          147 -LASNFLIQLCDVFLHLSAEKSNGAELIKPDTMIFNLVLHACVR---FGSSLKGQHIMELMSQ-----TGVVA-------  210 (653)
Q Consensus       147 -~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~yn~li~~~~~---~g~~~~a~~l~~~m~~-----~g~~p-------  210 (653)
                       ......+  ....+.+..+...-.-..+.+...+..+...+..   .|++++|..+|+++.+     ..-.|       
T Consensus       157 ~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~  234 (514)
T 2gw1_A          157 NLPSVTSM--ASFFGIFKPELTFANYDESNEADKELMNGLSNLYKRSPESYDKADESFTKAARLFEEQLDKNNEDEKLKE  234 (514)
T ss_dssp             CCCCHHHH--HHHHTTSCCCCCCSSCCSSCHHHHHHHHHHHHHSSCCTTHHHHHHHHHHHHHHHHHHHTTTSTTCHHHHH
T ss_pred             CCchhHHH--HHHHhhcCHHHHHHHhcCCcHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHhhhhhccCccccccCh
Confidence             0000000  0000000000000000001122333333333333   6777777777777766     21111       


Q ss_pred             -cHHHHHHHHHHHHhcCChhhhHHHHHHhhhcCCCcccchhHHHHHHHHhhhccCCHHHHHHHHHHhcccCCCCCCchhh
Q 048743          211 -DAHSIIILAQIHEMNCQRDELKKFKCYIDQLSTPFAHHYQQFYESLLSLHFKFDDIDAAGELILDMNRYREPLPNPKLR  289 (653)
Q Consensus       211 -~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~  289 (653)
                       +..++..+...+...|++++|.+.++.+....+.     ..++..+..+|...|++++|...+++..+.          
T Consensus       235 ~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~~~-----~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~----------  299 (514)
T 2gw1_A          235 KLAISLEHTGIFKFLKNDPLGAHEDIKKAIELFPR-----VNSYIYMALIMADRNDSTEYYNYFDKALKL----------  299 (514)
T ss_dssp             HHHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHCCC-----HHHHHHHHHHHHTSSCCTTGGGHHHHHHTT----------
T ss_pred             HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCcc-----HHHHHHHHHHHHHCCCHHHHHHHHHHHhhc----------
Confidence             1223444455555555555555555554443211     224455555555555555555555554210          


Q ss_pred             hcccccchhccCCCcccchhhhccchhhhHHHHHHhhhhhHHHHHHhcCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHH
Q 048743          290 QDAQKPYLISIGSPNLRCGLKLQIMPELLEKDSILKMEGKQELVLFRNGKLLHSNRAMAKLINGYKKHGKNSELSWLLLS  369 (653)
Q Consensus       290 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~  369 (653)
                                                                        .+.+...|..+...+...|++++|...|++
T Consensus       300 --------------------------------------------------~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~  329 (514)
T 2gw1_A          300 --------------------------------------------------DSNNSSVYYHRGQMNFILQNYDQAGKDFDK  329 (514)
T ss_dssp             --------------------------------------------------CTTCTHHHHHHHHHHHHTTCTTHHHHHHHH
T ss_pred             --------------------------------------------------CcCCHHHHHHHHHHHHHhCCHHHHHHHHHH
Confidence                                                              011223444455555555555555555555


Q ss_pred             HHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCccC
Q 048743          370 IKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTYKSLLTAYYKVKMFREAEALLKQMRKSCLVQN  449 (653)
Q Consensus       370 m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~  449 (653)
                      .....  +.+...+..+...+.+.|++++|...|+++.+.. +.+..++..+...+.+.|++++|...|+.+.+.  .|+
T Consensus       330 ~~~~~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~--~~~  404 (514)
T 2gw1_A          330 AKELD--PENIFPYIQLACLAYRENKFDDCETLFSEAKRKF-PEAPEVPNFFAEILTDKNDFDKALKQYDLAIEL--ENK  404 (514)
T ss_dssp             HHHTC--SSCSHHHHHHHHHTTTTTCHHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--HHT
T ss_pred             HHHhC--hhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHc-ccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--hhc
Confidence            54443  3334445555555555555555555555554431 123344444555555555555555555544432  111


Q ss_pred             chhhHHHHhhHHHHhhhcccccccccccCCHHHHHHHHHHHHHccCCCC----HHHHHHHHHHHHc---CCCHHHHHHHH
Q 048743          450 LSCEMVVSERFSEVADKSASFTDTSSLMDKSDLAESLIQEMREEAALST----IYKLNSSIYFFCK---GKMIGDALKIY  522 (653)
Q Consensus       450 ~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~p~----~~~y~~li~~~~~---~g~~~~a~~~~  522 (653)
                      .                                              |+    ...|..+...|..   .|++++|.+.|
T Consensus       405 ~----------------------------------------------~~~~~~~~~~~~l~~~~~~~~~~~~~~~A~~~~  438 (514)
T 2gw1_A          405 L----------------------------------------------DGIYVGIAPLVGKATLLTRNPTVENFIEATNLL  438 (514)
T ss_dssp             S----------------------------------------------SSCSSCSHHHHHHHHHHHTSCCTTHHHHHHHHH
T ss_pred             c----------------------------------------------chHHHHHHHHHHHHHHHhhhhhcCCHHHHHHHH
Confidence            1                                              11    3367777777777   78888888888


Q ss_pred             HHHHhcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHH
Q 048743          523 RRMQEMKIRPTVETFYYLVYGHSSLEMYRDITILWGDIK  561 (653)
Q Consensus       523 ~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~~~  561 (653)
                      ++..+.. +.+..++..+...+...|++++|...|+.+.
T Consensus       439 ~~a~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~  476 (514)
T 2gw1_A          439 EKASKLD-PRSEQAKIGLAQMKLQQEDIDEAITLFEESA  476 (514)
T ss_dssp             HHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHhC-cccHHHHHHHHHHHHHhcCHHHHHHHHHHHH
Confidence            8877643 2245666777777777788888877777765

>2y4t_A DNAJ homolog subfamily C member 3; chaperone, endoplasmic reticulum, protein folding, tetratricopeptiderepeat, J domain, unfolded protein respons; 3.00A {Homo sapiens} PDB: 2y4u_A

Probab=99.84  E-value=9.8e-18  Score=174.65  Aligned_cols=313  Identities=12%  Similarity=0.008  Sum_probs=212.2

Q ss_pred             CCchhhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCccHHHHHHHHHHHHhcCChhhhHHHHHHhhhcCCCcccchhHHH
Q 048743          174 KPDTMIFNLVLHACVRFGSSLKGQHIMELMSQTGVVADAHSIIILAQIHEMNCQRDELKKFKCYIDQLSTPFAHHYQQFY  253 (653)
Q Consensus       174 ~~~~~~yn~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~  253 (653)
                      +.+...|..+...+.+.|++++|.++|+++.+.. ..+..++..+..++...|++++|.+.++.+.+..+..    ..++
T Consensus        23 p~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~----~~~~   97 (450)
T 2y4t_A           23 MADVEKHLELGKKLLAAGQLADALSQFHAAVDGD-PDNYIAYYRRATVFLAMGKSKAALPDLTKVIQLKMDF----TAAR   97 (450)
T ss_dssp             CHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTC----HHHH
T ss_pred             HHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCc----HHHH
Confidence            4567789999999999999999999999999763 3356778899999999999999999999998865433    3478


Q ss_pred             HHHHHhhhccCCHHHHHHHHHHhcccCCCCCCchhhhcccccchhccCCCcccchhhhccchhhhHHHHHHhhhhhHHHH
Q 048743          254 ESLLSLHFKFDDIDAAGELILDMNRYREPLPNPKLRQDAQKPYLISIGSPNLRCGLKLQIMPELLEKDSILKMEGKQELV  333 (653)
Q Consensus       254 ~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  333 (653)
                      ..+..+|.+.|++++|...|+++.+                                                       
T Consensus        98 ~~l~~~~~~~g~~~~A~~~~~~~~~-------------------------------------------------------  122 (450)
T 2y4t_A           98 LQRGHLLLKQGKLDEAEDDFKKVLK-------------------------------------------------------  122 (450)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHT-------------------------------------------------------
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHh-------------------------------------------------------
Confidence            9999999999999999999999942                                                       


Q ss_pred             HHhcCCCCCCH----HHHHH------------HHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHH
Q 048743          334 LFRNGKLLHSN----RAMAK------------LINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLE  397 (653)
Q Consensus       334 ~~~~~~~~p~~----~~~~~------------li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~  397 (653)
                            ..|+.    ..+..            +...+.+.|++++|...|+++....  |.+..++..+...|.+.|+++
T Consensus       123 ------~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~  194 (450)
T 2y4t_A          123 ------SNPSENEEKEAQSQLIKSDEMQRLRSQALNAFGSGDYTAAIAFLDKILEVC--VWDAELRELRAECFIKEGEPR  194 (450)
T ss_dssp             ------SCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCGG
T ss_pred             ------cCCCChhhHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCChHHHHHHHHHHHHCCCHH
Confidence                  22222    23333            3455889999999999999999877  778888999999999999999


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCccCchhhHHHHhhHHHHhhhccccccccccc
Q 048743          398 AAHDILDDMELAGHPMDSTTYKSLLTAYYKVKMFREAEALLKQMRKSCLVQNLSCEMVVSERFSEVADKSASFTDTSSLM  477 (653)
Q Consensus       398 ~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~~~~~~  477 (653)
                      +|..+|+++.+.. +.+..+|..+..+|...|++++|...|+++.+.  .|+..........+... .........+...
T Consensus       195 ~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~p~~~~~~~~~~~~~~~-~~~~~~~~~~~~~  270 (450)
T 2y4t_A          195 KAISDLKAASKLK-NDNTEAFYKISTLYYQLGDHELSLSEVRECLKL--DQDHKRCFAHYKQVKKL-NKLIESAEELIRD  270 (450)
T ss_dssp             GGHHHHHHHHHHH-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHH-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCChHHHHHHHHHHHHH-HHHHHHHHHHHHc
Confidence            9999999997753 347889999999999999999999999999863  45542111110000000 0000001112234


Q ss_pred             CCHHHHHHHHHHHHHccCCCC-----HHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCCHHH
Q 048743          478 DKSDLAESLIQEMREEAALST-----IYKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRPTVETFYYLVYGHSSLEMYRD  552 (653)
Q Consensus       478 ~~~~~a~~~~~~m~~~~~~p~-----~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~  552 (653)
                      |++++|...|+++.+..  |+     ..+|..+...+.+.|++++|++.++++.+.. +.+...|..+..+|...|++++
T Consensus       271 g~~~~A~~~~~~~l~~~--p~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~-p~~~~~~~~l~~~~~~~~~~~~  347 (450)
T 2y4t_A          271 GRYTDATSKYESVMKTE--PSIAEYTVRSKERICHCFSKDEKPVEAIRVCSEVLQME-PDNVNALKDRAEAYLIEEMYDE  347 (450)
T ss_dssp             TCHHHHHHHHHHHHHHC--CSSHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHH
T ss_pred             CCHHHHHHHHHHHHhcC--CcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHhcCHHH
Confidence            44455555554444422  22     2234444444444455555555444444331 1234444444444444445555


Q ss_pred             HHHHHHHHH
Q 048743          553 ITILWGDIK  561 (653)
Q Consensus       553 a~~~~~~~~  561 (653)
                      |...++.+.
T Consensus       348 A~~~~~~al  356 (450)
T 2y4t_A          348 AIQDYETAQ  356 (450)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            544444443

>2y4t_A DNAJ homolog subfamily C member 3; chaperone, endoplasmic reticulum, protein folding, tetratricopeptiderepeat, J domain, unfolded protein respons; 3.00A {Homo sapiens} PDB: 2y4u_A

Probab=99.83  E-value=3.2e-17  Score=170.69  Aligned_cols=325  Identities=11%  Similarity=-0.005  Sum_probs=256.0

Q ss_pred             cccccccchHHHHHHHHHHHHhccchhHHHHHHHHhhhhcCCCCchhHHHHHHHhhccCCcchhhhHHHHHHHHHhccCC
Q 048743           10 EKLSWEGSSREVLLRKLESASKNHQVGEAWETFNDFQRLHGIPERHVVNRFITDLCYSAEPHWLQKACDLVLKIQKGKAD   89 (653)
Q Consensus        10 ~~l~~~~p~~~~~~~~i~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~a~~~~~~~~~~~~~   89 (653)
                      ..++.++.+...+..+...+.+.|++++|+.+|+.+.+. ...+...+..+...+...|+   .++|...|.++.+..+.
T Consensus        17 ~~~~~~p~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~-~p~~~~~~~~l~~~~~~~g~---~~~A~~~~~~al~~~p~   92 (450)
T 2y4t_A           17 NLYFQSMADVEKHLELGKKLLAAGQLADALSQFHAAVDG-DPDNYIAYYRRATVFLAMGK---SKAALPDLTKVIQLKMD   92 (450)
T ss_dssp             ------CHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHTTC---HHHHHHHHHHHHHHCTT
T ss_pred             ccccccHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh-CCccHHHHHHHHHHHHHCCC---HHHHHHHHHHHHhcCCC
Confidence            556677778899999999999999999999999998874 23356688889999999888   79999999998876654


Q ss_pred             chhHHHHHHHHHHHHhcCCCchHHHHHHHHHcCccCCCch----hHHHHHHHHhhcccccccchHHHHHHHHHhhhhhhh
Q 048743           90 LLQLDLLAKLSLSLARAQMPVPASMILRLMLGRENLPCSD----LLLLVFVHMVKTEIGTCLASNFLIQLCDVFLHLSAE  165 (653)
Q Consensus        90 ~~~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~----~~~~li~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  165 (653)
                        +...+..+...|.+.|++++|.+.|+++.+.  .|+..    .+..+..                  .+.        
T Consensus        93 --~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~~~~~l~~------------------~~~--------  142 (450)
T 2y4t_A           93 --FTAARLQRGHLLLKQGKLDEAEDDFKKVLKS--NPSENEEKEAQSQLIK------------------SDE--------  142 (450)
T ss_dssp             --CHHHHHHHHHHHHHTTCHHHHHHHHHHHHTS--CCCHHHHHHHHHHHHH------------------HHH--------
T ss_pred             --cHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCCChhhHHHHHHHHH------------------HHH--------
Confidence              6788999999999999999999999999875  34432    2222211                  110        


Q ss_pred             hcCCccCCCCchhhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCccHHHHHHHHHHHHhcCChhhhHHHHHHhhhcCCCc
Q 048743          166 KSNGAELIKPDTMIFNLVLHACVRFGSSLKGQHIMELMSQTGVVADAHSIIILAQIHEMNCQRDELKKFKCYIDQLSTPF  245 (653)
Q Consensus       166 ~~~~~~~~~~~~~~yn~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~  245 (653)
                                 ...+..+...+.+.|++++|.+.|+.+.+.. ..+..++..+..++.+.|++++|.+.++.+.+..+..
T Consensus       143 -----------~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~  210 (450)
T 2y4t_A          143 -----------MQRLRSQALNAFGSGDYTAAIAFLDKILEVC-VWDAELRELRAECFIKEGEPRKAISDLKAASKLKNDN  210 (450)
T ss_dssp             -----------HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHCSC
T ss_pred             -----------HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCC
Confidence                       1123345567888999999999999998763 3356678899999999999999999999987754322


Q ss_pred             ccchhHHHHHHHHhhhccCCHHHHHHHHHHhcccCCCCCCchhhhcccccchhccCCCcccchhhhccchhhhHHHHHHh
Q 048743          246 AHHYQQFYESLLSLHFKFDDIDAAGELILDMNRYREPLPNPKLRQDAQKPYLISIGSPNLRCGLKLQIMPELLEKDSILK  325 (653)
Q Consensus       246 ~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  325 (653)
                          ..++..+..+|...|++++|...|+++.+                                               
T Consensus       211 ----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-----------------------------------------------  239 (450)
T 2y4t_A          211 ----TEAFYKISTLYYQLGDHELSLSEVRECLK-----------------------------------------------  239 (450)
T ss_dssp             ----HHHHHHHHHHHHHTTCHHHHHHHHHHHHH-----------------------------------------------
T ss_pred             ----HHHHHHHHHHHHHcCCHHHHHHHHHHHHH-----------------------------------------------
Confidence                34799999999999999999999999842                                               


Q ss_pred             hhhhHHHHHHhcCCCCCCH-HHH------------HHHHHHHHhcCChHHHHHHHHHHHhcCCCCCC----cccHHHHHH
Q 048743          326 MEGKQELVLFRNGKLLHSN-RAM------------AKLINGYKKHGKNSELSWLLLSIKKEHHSFGE----STLCSDVID  388 (653)
Q Consensus       326 ~~~~~~~~~~~~~~~~p~~-~~~------------~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~----~~~~~~li~  388 (653)
                                    ..|+. ..+            ..+...+.+.|++++|...|+++....  |.+    ...|..+..
T Consensus       240 --------------~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~--p~~~~~~~~~~~~l~~  303 (450)
T 2y4t_A          240 --------------LDQDHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKTE--PSIAEYTVRSKERICH  303 (450)
T ss_dssp             --------------HCTTCHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--CSSHHHHHHHHHHHHH
T ss_pred             --------------hCCChHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--CcchHHHHHHHHHHHH
Confidence                          11221 122            234788999999999999999998866  444    235888999


Q ss_pred             HHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCccCc
Q 048743          389 ALIQLGFLEAAHDILDDMELAGHPMDSTTYKSLLTAYYKVKMFREAEALLKQMRKSCLVQNL  450 (653)
Q Consensus       389 ~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~  450 (653)
                      .+.+.|++++|...++++.+.. +.+..+|..+..+|...|++++|...|+...+  +.|+.
T Consensus       304 ~~~~~g~~~~A~~~~~~a~~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~--~~p~~  362 (450)
T 2y4t_A          304 CFSKDEKPVEAIRVCSEVLQME-PDNVNALKDRAEAYLIEEMYDEAIQDYETAQE--HNEND  362 (450)
T ss_dssp             HHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHT--TSSSC
T ss_pred             HHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHhcCHHHHHHHHHHHHH--hCcch
Confidence            9999999999999999998753 34789999999999999999999999999987  45765

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.83  E-value=2.5e-17  Score=174.74  Aligned_cols=420  Identities=9%  Similarity=-0.080  Sum_probs=293.9

Q ss_pred             hHHHHHHHhhccCCcchhhhHHHHHHHHHhccCCchhHHHHHHHHHHHHhcCCCchHHHHHHHHHcCccCCCchhHHHHH
Q 048743           56 VVNRFITDLCYSAEPHWLQKACDLVLKIQKGKADLLQLDLLAKLSLSLARAQMPVPASMILRLMLGRENLPCSDLLLLVF  135 (653)
Q Consensus        56 ~~~~ll~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li  135 (653)
                      .+-..-..+.+.|+   .++|...|.++....   |+...|..+..++.+.|++++|++.++++.+.+            
T Consensus         8 ~~~~~g~~~~~~g~---~~~A~~~~~~al~~~---p~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~------------   69 (514)
T 2gw1_A            8 ALKDKGNQFFRNKK---YDDAIKYYNWALELK---EDPVFYSNLSACYVSVGDLKKVVEMSTKALELK------------   69 (514)
T ss_dssp             HHHHHHHHHHHTSC---HHHHHHHHHHHHHHC---CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC------------
T ss_pred             HHHHHHHHHHHhcc---HHHHHHHHHHHHhcC---ccHHHHHhHHHHHHHHhhHHHHHHHHHHHhccC------------
Confidence            34445555666676   788888888887654   477788888888888888888888888876532            


Q ss_pred             HHHhhcccccccchHHHHHHHHHhhhhhhhhcCCccCCCCchhhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCccHHHH
Q 048743          136 VHMVKTEIGTCLASNFLIQLCDVFLHLSAEKSNGAELIKPDTMIFNLVLHACVRFGSSLKGQHIMELMSQTGVVADAHSI  215 (653)
Q Consensus       136 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~yn~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~  215 (653)
                                                            +.+..+|..+..+|.+.|++++|...|+.+.+.+ .++....
T Consensus        70 --------------------------------------p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~  110 (514)
T 2gw1_A           70 --------------------------------------PDYSKVLLRRASANEGLGKFADAMFDLSVLSLNG-DFNDASI  110 (514)
T ss_dssp             --------------------------------------SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSS-SCCGGGT
T ss_pred             --------------------------------------hHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCccchH
Confidence                                                  2234566667777777777777777777777654 2233333


Q ss_pred             HHHHHHHHhcCChhhhHHHHH-----------------------------------HhhhcCC-Cc-----ccchhHHHH
Q 048743          216 IILAQIHEMNCQRDELKKFKC-----------------------------------YIDQLST-PF-----AHHYQQFYE  254 (653)
Q Consensus       216 ~~ll~~~~~~g~~~~a~~~~~-----------------------------------~~~~~~~-~~-----~~~~~~~~~  254 (653)
                      ..++..+........+.+.+.                                   .+..... +.     ...+...+.
T Consensus       111 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  190 (514)
T 2gw1_A          111 EPMLERNLNKQAMSKLKEKFGDIDTATATPTELSTQPAKERKDKQENLPSVTSMASFFGIFKPELTFANYDESNEADKEL  190 (514)
T ss_dssp             HHHHHHHHHHHHHHHHTTC---------------------------CCCCHHHHHHHHTTSCCCCCCSSCCSSCHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCChhhHHHhhccCCchhHHHHHHHhhcCHHHHHHHhcCCcHHHHHH
Confidence            333333332222222222111                                   1111100 00     012233344


Q ss_pred             HHHHhhh---ccCCHHHHHHHHHHhcc-----cCCCCCCchhhhcccccchhccCCCcccchhhhccchhhhHHHHHHhh
Q 048743          255 SLLSLHF---KFDDIDAAGELILDMNR-----YREPLPNPKLRQDAQKPYLISIGSPNLRCGLKLQIMPELLEKDSILKM  326 (653)
Q Consensus       255 ~li~~~~---~~g~~~~A~~~~~~m~~-----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  326 (653)
                      .+...+.   +.|++++|..+|+++.+     .... |....                                      
T Consensus       191 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~-~~~~~--------------------------------------  231 (514)
T 2gw1_A          191 MNGLSNLYKRSPESYDKADESFTKAARLFEEQLDKN-NEDEK--------------------------------------  231 (514)
T ss_dssp             HHHHHHHSSCCTTHHHHHHHHHHHHHHHHHHHTTTS-TTCHH--------------------------------------
T ss_pred             HHHHHHHHhhhhccHHHHHHHHHHHHHHhhhhhccC-ccccc--------------------------------------
Confidence            4444433   48999999999999876     3222 21110                                      


Q ss_pred             hhhHHHHHHhcCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHH
Q 048743          327 EGKQELVLFRNGKLLHSNRAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDM  406 (653)
Q Consensus       327 ~~~~~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m  406 (653)
                                  ..+.+..++..+...+...|++++|...|+++....  +. ..+|..+...+...|++++|...+++.
T Consensus       232 ------------~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~--~~-~~~~~~l~~~~~~~~~~~~A~~~~~~~  296 (514)
T 2gw1_A          232 ------------LKEKLAISLEHTGIFKFLKNDPLGAHEDIKKAIELF--PR-VNSYIYMALIMADRNDSTEYYNYFDKA  296 (514)
T ss_dssp             ------------HHHHHHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHC--CC-HHHHHHHHHHHHTSSCCTTGGGHHHHH
T ss_pred             ------------cChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhC--cc-HHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence                        001234567888999999999999999999998877  44 777999999999999999999999999


Q ss_pred             HHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCccCchhhHHHHhhHHHHhhhcccccccccccCCHHHHHHH
Q 048743          407 ELAGHPMDSTTYKSLLTAYYKVKMFREAEALLKQMRKSCLVQNLSCEMVVSERFSEVADKSASFTDTSSLMDKSDLAESL  486 (653)
Q Consensus       407 ~~~g~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~a~~~  486 (653)
                      .+.. +.+..+|..+...+...|++++|...|+...+.  .|+........             ...|...|++++|...
T Consensus       297 ~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~l-------------~~~~~~~~~~~~A~~~  360 (514)
T 2gw1_A          297 LKLD-SNNSSVYYHRGQMNFILQNYDQAGKDFDKAKEL--DPENIFPYIQL-------------ACLAYRENKFDDCETL  360 (514)
T ss_dssp             HTTC-TTCTHHHHHHHHHHHHTTCTTHHHHHHHHHHHT--CSSCSHHHHHH-------------HHHTTTTTCHHHHHHH
T ss_pred             hhcC-cCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHh--ChhhHHHHHHH-------------HHHHHHcCCHHHHHHH
Confidence            8753 346778999999999999999999999999874  34431111110             1235568999999999


Q ss_pred             HHHHHHccCCC-CHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCC-CCC----HHHHHHHHHHHhc---cCCHHHHHHHH
Q 048743          487 IQEMREEAALS-TIYKLNSSIYFFCKGKMIGDALKIYRRMQEMKI-RPT----VETFYYLVYGHSS---LEMYRDITILW  557 (653)
Q Consensus       487 ~~~m~~~~~~p-~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~-~p~----~~t~~~li~~~~~---~~~~~~a~~~~  557 (653)
                      ++++.+..  | +..+|..+...|.+.|++++|++.|+++.+... .|+    ...+..+...+..   .|++++|...+
T Consensus       361 ~~~~~~~~--~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~A~~~~  438 (514)
T 2gw1_A          361 FSEAKRKF--PEAPEVPNFFAEILTDKNDFDKALKQYDLAIELENKLDGIYVGIAPLVGKATLLTRNPTVENFIEATNLL  438 (514)
T ss_dssp             HHHHHHHS--TTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSSSCSSCSHHHHHHHHHHHTSCCTTHHHHHHHHH
T ss_pred             HHHHHHHc--ccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccchHHHHHHHHHHHHHHHhhhhhcCCHHHHHHHH
Confidence            99988764  4 677899999999999999999999999987421 122    3488899999999   99999999999


Q ss_pred             HHHHHHhhhCCCccCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCCHHhH
Q 048743          558 GDIKRNIESGVLAVSRDLYETLLLNFLQGGYFERVMEVIGYMKKQNMYVDKLMY  611 (653)
Q Consensus       558 ~~~~~~~~~~~~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~  611 (653)
                      +.+.+.     .+.+...+..+...|.+.|++++|.+.|++..+.  .|+....
T Consensus       439 ~~a~~~-----~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~--~~~~~~~  485 (514)
T 2gw1_A          439 EKASKL-----DPRSEQAKIGLAQMKLQQEDIDEAITLFEESADL--ARTMEEK  485 (514)
T ss_dssp             HHHHHH-----CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CSSHHHH
T ss_pred             HHHHHh-----CcccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh--ccccHHH
Confidence            988743     2335778889999999999999999999999865  4654433

>3fp2_A TPR repeat-containing protein YHR117W; TOM71, mitochondria translocation, allosteric REG phosphoprotein, TPR repeat, ATP-binding; 1.98A {Saccharomyces cerevisiae} PDB: 3fp3_A 3fp4_A 3lca_A

Probab=99.81  E-value=6e-16  Score=165.08  Aligned_cols=441  Identities=12%  Similarity=-0.021  Sum_probs=270.2

Q ss_pred             hHHHHHHHHHHHHhccchhHHHHHHHHhhhhcCCCCchhHHHHHHHhhccCCcchhhhHHHHHHHHHhccCCchhHHHHH
Q 048743           18 SREVLLRKLESASKNHQVGEAWETFNDFQRLHGIPERHVVNRFITDLCYSAEPHWLQKACDLVLKIQKGKADLLQLDLLA   97 (653)
Q Consensus        18 ~~~~~~~~i~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~t~~   97 (653)
                      ....+......+.+.|++++|+..|+.+.+.. ..++..|..+...+...|+   .++|.+.+.+.....|.  +..++.
T Consensus        24 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~---~~~A~~~~~~al~~~p~--~~~~~~   97 (537)
T 3fp2_A           24 YAVQLKNRGNHFFTAKNFNEAIKYYQYAIELD-PNEPVFYSNISACYISTGD---LEKVIEFTTKALEIKPD--HSKALL   97 (537)
T ss_dssp             HHHHHHHHHHHHHHTTCCC-CHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTC---HHHHHHHHHHHHHHCTT--CHHHHH
T ss_pred             HHHHHHHHHHHHHHhccHHHHHHHHHHHHhhC-CCCcHHHHHHHHHHHHcCC---HHHHHHHHHHHHhcCCc--hHHHHH
Confidence            45678888899999999999999999998842 2345688888899999888   79999999998876654  678899


Q ss_pred             HHHHHHHhcCCCchHHHHHHHHHcCccCCCchhHHHHHHHHhhcccccccchHHHHHHHHHhhhhhhhhcCCccCCCCch
Q 048743           98 KLSLSLARAQMPVPASMILRLMLGRENLPCSDLLLLVFVHMVKTEIGTCLASNFLIQLCDVFLHLSAEKSNGAELIKPDT  177 (653)
Q Consensus        98 ~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  177 (653)
                      .+...+...|++++|+..|+.+ .....+.......++.....            ...   ...++.+..... ...+..
T Consensus        98 ~la~~~~~~g~~~~A~~~~~~~-~~~~~~~~~~~~~~~~~~~~------------~~a---~~~~~~~l~~~~-~~~~~~  160 (537)
T 3fp2_A           98 RRASANESLGNFTDAMFDLSVL-SLNGDFDGASIEPMLERNLN------------KQA---MKVLNENLSKDE-GRGSQV  160 (537)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHH-C-----------CHHHHHHH------------HHH---HHHHHHHCC--------CC
T ss_pred             HHHHHHHHcCCHHHHHHHHHHH-hcCCCCChHHHHHHHHHHHH------------HHH---HHHHHHHHHhCc-cccccc
Confidence            9999999999999999999643 32211111111111110000            000   001111111100 001111


Q ss_pred             hhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCccHHHHH-HHHHHHH--------hcCChhhhHHHHHHhhhcCCCcccc
Q 048743          178 MIFNLVLHACVRFGSSLKGQHIMELMSQTGVVADAHSII-ILAQIHE--------MNCQRDELKKFKCYIDQLSTPFAHH  248 (653)
Q Consensus       178 ~~yn~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~-~ll~~~~--------~~g~~~~a~~~~~~~~~~~~~~~~~  248 (653)
                      ...+..+..+....+.+.+...+......  .|....+. .+...+.        ..|++++|..+++.+.+..+.....
T Consensus       161 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~~a~~~~~~A~~~~~~~l~~~p~~~~~  238 (537)
T 3fp2_A          161 LPSNTSLASFFGIFDSHLEVSSVNTSSNY--DTAYALLSDALQRLYSATDEGYLVANDLLTKSTDMYHSLLSANTVDDPL  238 (537)
T ss_dssp             CCCHHHHHHHHHTSCHHHHHHTSCCCCSS--CSSHHHHHHHHHHHHTCSHHHHHHHHHHHHHHHHHHHHHHC--CCCHHH
T ss_pred             cchHhHHHHHHHhcChHHHHHHHhhcccc--ccHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHCCCcchh
Confidence            12233344444555555554444332221  22211111 2221111        1246666777766666543322110


Q ss_pred             ---hhHHHHHHHHhhhccCCHHHHHHHHHHhcccCCCCCCchhhhcccccchhccCCCcccchhhhccchhhhHHHHHHh
Q 048743          249 ---YQQFYESLLSLHFKFDDIDAAGELILDMNRYREPLPNPKLRQDAQKPYLISIGSPNLRCGLKLQIMPELLEKDSILK  325 (653)
Q Consensus       249 ---~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  325 (653)
                         ...++..+...+...|++++|...|++..+                                               
T Consensus       239 ~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~-----------------------------------------------  271 (537)
T 3fp2_A          239 RENAALALCYTGIFHFLKNNLLDAQVLLQESIN-----------------------------------------------  271 (537)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH-----------------------------------------------
T ss_pred             hHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHh-----------------------------------------------
Confidence               122466666777788888888888888732                                               


Q ss_pred             hhhhHHHHHHhcCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHH
Q 048743          326 MEGKQELVLFRNGKLLHSNRAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDD  405 (653)
Q Consensus       326 ~~~~~~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~  405 (653)
                                    ..|+...|..+...+...|++++|...|++.....  |.+..+|..+...+...|++++|...|++
T Consensus       272 --------------~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~  335 (537)
T 3fp2_A          272 --------------LHPTPNSYIFLALTLADKENSQEFFKFFQKAVDLN--PEYPPTYYHRGQMYFILQDYKNAKEDFQK  335 (537)
T ss_dssp             --------------HCCCHHHHHHHHHHTCCSSCCHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             --------------cCCCchHHHHHHHHHHHhcCHHHHHHHHHHHhccC--CCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Confidence                          23556677778888888888888888888887776  66667788888888888888888888888


Q ss_pred             HHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCccCchhhHHHHhhHHHHhhhcccccccccccCCHHHHHH
Q 048743          406 MELAGHPMDSTTYKSLLTAYYKVKMFREAEALLKQMRKSCLVQNLSCEMVVSERFSEVADKSASFTDTSSLMDKSDLAES  485 (653)
Q Consensus       406 m~~~g~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~a~~  485 (653)
                      ..+.. +.+..+|..+...+...|++++|...|++..+.  .|+                                    
T Consensus       336 a~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~--~~~------------------------------------  376 (537)
T 3fp2_A          336 AQSLN-PENVYPYIQLACLLYKQGKFTESEAFFNETKLK--FPT------------------------------------  376 (537)
T ss_dssp             HHHHC-TTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTT------------------------------------
T ss_pred             HHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCC------------------------------------
Confidence            87653 224567777888888888888888888877764  233                                    


Q ss_pred             HHHHHHHccCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcC-----CCCCHHHHHHHHHHHhcc----------CCH
Q 048743          486 LIQEMREEAALSTIYKLNSSIYFFCKGKMIGDALKIYRRMQEMK-----IRPTVETFYYLVYGHSSL----------EMY  550 (653)
Q Consensus       486 ~~~~m~~~~~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g-----~~p~~~t~~~li~~~~~~----------~~~  550 (653)
                                  +...|..+...|...|++++|++.|++..+..     .......+..+...+...          |++
T Consensus       377 ------------~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  444 (537)
T 3fp2_A          377 ------------LPEVPTFFAEILTDRGDFDTAIKQYDIAKRLEEVQEKIHVGIGPLIGKATILARQSSQDPTQLDEEKF  444 (537)
T ss_dssp             ------------CTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHCSSCSSTTHHHHHHHHHHHHHHTC----CCHHHH
T ss_pred             ------------ChHHHHHHHHHHHHhCCHHHHHHHHHHHHHcCCcchhhHHHHHHHHHHHHHHHHHhhccchhhhHhHH
Confidence                        33455666666677777777777777766532     111112233334455555          777


Q ss_pred             HHHHHHHHHHHHHhhhCCCccCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhC
Q 048743          551 RDITILWGDIKRNIESGVLAVSRDLYETLLLNFLQGGYFERVMEVIGYMKKQ  602 (653)
Q Consensus       551 ~~a~~~~~~~~~~~~~~~~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~  602 (653)
                      ++|...++.+.+.     -+.+...|..+...|.+.|++++|.+.|++..+.
T Consensus       445 ~~A~~~~~~a~~~-----~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~  491 (537)
T 3fp2_A          445 NAAIKLLTKACEL-----DPRSEQAKIGLAQLKLQMEKIDEAIELFEDSAIL  491 (537)
T ss_dssp             HHHHHHHHHHHHH-----CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHh-----CCCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHh
Confidence            7777777766532     1234566777777777777777777777777654

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.76  E-value=1.9e-14  Score=144.47  Aligned_cols=324  Identities=10%  Similarity=0.002  Sum_probs=246.9

Q ss_pred             chhhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCccHHHHHHHHHHHHhcCChhhhHHHHHHhhhcCCCcccchhHHHHH
Q 048743          176 DTMIFNLVLHACVRFGSSLKGQHIMELMSQTGVVADAHSIIILAQIHEMNCQRDELKKFKCYIDQLSTPFAHHYQQFYES  255 (653)
Q Consensus       176 ~~~~yn~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~  255 (653)
                      |+..+..+...+.+.|++++|.+.|+.+.+.. ..+..++..+..++...|++++|...++...+..+..    ..++..
T Consensus         2 ~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~----~~~~~~   76 (359)
T 3ieg_A            2 DVEKHLELGKKLLAAGQLADALSQFHAAVDGD-PDNYIAYYRRATVFLAMGKSKAALPDLTKVIALKMDF----TAARLQ   76 (359)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTC----HHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCc----chHHHH
Confidence            45677888899999999999999999998863 2345678889999999999999999999988764322    247899


Q ss_pred             HHHhhhccCCHHHHHHHHHHhcccCCCCCCchhhhcccccchhccCCCcccchhhhccchhhhHHHHHHhhhhhHHHHHH
Q 048743          256 LLSLHFKFDDIDAAGELILDMNRYREPLPNPKLRQDAQKPYLISIGSPNLRCGLKLQIMPELLEKDSILKMEGKQELVLF  335 (653)
Q Consensus       256 li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  335 (653)
                      +..+|...|++++|...|++..+                                                         
T Consensus        77 l~~~~~~~~~~~~A~~~~~~~~~---------------------------------------------------------   99 (359)
T 3ieg_A           77 RGHLLLKQGKLDEAEDDFKKVLK---------------------------------------------------------   99 (359)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHT---------------------------------------------------------
T ss_pred             HHHHHHHcCChHHHHHHHHHHHh---------------------------------------------------------
Confidence            99999999999999999999842                                                         


Q ss_pred             hcCCCCC---C-HHH------------HHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHH
Q 048743          336 RNGKLLH---S-NRA------------MAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAA  399 (653)
Q Consensus       336 ~~~~~~p---~-~~~------------~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a  399 (653)
                          ..|   + ...            +..+...+...|++++|...++++.+..  |.+..++..+...+...|++++|
T Consensus       100 ----~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~A  173 (359)
T 3ieg_A          100 ----SNPSEQEEKEAESQLVKADEMQRLRSQALDAFDGADYTAAITFLDKILEVC--VWDAELRELRAECFIKEGEPRKA  173 (359)
T ss_dssp             ----SCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             ----cCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC--CCchHHHHHHHHHHHHCCCHHHH
Confidence                112   1 111            2233578889999999999999999887  77778899999999999999999


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCccCchhhHHHHhhHHHHhhhcccccccccccCC
Q 048743          400 HDILDDMELAGHPMDSTTYKSLLTAYYKVKMFREAEALLKQMRKSCLVQNLSCEMVVSERFSEVADKSASFTDTSSLMDK  479 (653)
Q Consensus       400 ~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~  479 (653)
                      ...+++..+.. +.+..++..+...+...|++++|...|+...+.  .|+....                          
T Consensus       174 ~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~--------------------------  224 (359)
T 3ieg_A          174 ISDLKAASKLK-SDNTEAFYKISTLYYQLGDHELSLSEVRECLKL--DQDHKRC--------------------------  224 (359)
T ss_dssp             HHHHHHHHTTC-SCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CTTCHHH--------------------------
T ss_pred             HHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CccchHH--------------------------
Confidence            99999998763 457889999999999999999999999998874  3443111                          


Q ss_pred             HHHHHHHHHHHHHccCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCH-----HHHHHHHHHHhccCCHHHHH
Q 048743          480 SDLAESLIQEMREEAALSTIYKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRPTV-----ETFYYLVYGHSSLEMYRDIT  554 (653)
Q Consensus       480 ~~~a~~~~~~m~~~~~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~-----~t~~~li~~~~~~~~~~~a~  554 (653)
                          ...+..+.      .......+...+.+.|++++|++.+++..+..  |+.     ..+..+...+...|++++|.
T Consensus       225 ----~~~~~~~~------~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~~~~la~~~~~~~~~~~A~  292 (359)
T 3ieg_A          225 ----FAHYKQVK------KLNKLIESAEELIRDGRYTDATSKYESVMKTE--PSVAEYTVRSKERICHCFSKDEKPVEAI  292 (359)
T ss_dssp             ----HHHHHHHH------HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CSSHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             ----HHHHHHHH------HHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--CCchHHHHHHHHHHHHHHHHccCHHHHH
Confidence                11111111      11223345666788899999999999888753  332     23445677888899999999


Q ss_pred             HHHHHHHHHhhhCCCccCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCCHHhHHHHH
Q 048743          555 ILWGDIKRNIESGVLAVSRDLYETLLLNFLQGGYFERVMEVIGYMKKQNMYVDKLMYKSEF  615 (653)
Q Consensus       555 ~~~~~~~~~~~~~~~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~l~  615 (653)
                      ..++...+.     .+.+...|..+...+...|++++|.+.|++..+.  .|+.......+
T Consensus       293 ~~~~~~~~~-----~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~--~p~~~~~~~~l  346 (359)
T 3ieg_A          293 RICSEVLQM-----EPDNVNALKDRAEAYLIEEMYDEAIQDYEAAQEH--NENDQQIREGL  346 (359)
T ss_dssp             HHHHHHHHH-----CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT--CTTCHHHHHHH
T ss_pred             HHHHHHHHh-----CcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCCChHHHHHH
Confidence            999887632     2336778888888999999999999999998844  56644443333

>3fp2_A TPR repeat-containing protein YHR117W; TOM71, mitochondria translocation, allosteric REG phosphoprotein, TPR repeat, ATP-binding; 1.98A {Saccharomyces cerevisiae} PDB: 3fp3_A 3fp4_A 3lca_A

Probab=99.75  E-value=1.9e-14  Score=153.37  Aligned_cols=435  Identities=7%  Similarity=-0.062  Sum_probs=293.2

Q ss_pred             hHHHHHHHHHHHHhcCCCchHHHHHHHHHcCccCCCchhHHHHHHHHhhcccccccchHHHHHHHHHhhhhhhhhcCCcc
Q 048743           92 QLDLLAKLSLSLARAQMPVPASMILRLMLGRENLPCSDLLLLVFVHMVKTEIGTCLASNFLIQLCDVFLHLSAEKSNGAE  171 (653)
Q Consensus        92 ~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  171 (653)
                      ....|..+...+.+.|++++|+..|+++.+..                                                
T Consensus        24 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~------------------------------------------------   55 (537)
T 3fp2_A           24 YAVQLKNRGNHFFTAKNFNEAIKYYQYAIELD------------------------------------------------   55 (537)
T ss_dssp             HHHHHHHHHHHHHHTTCCC-CHHHHHHHHHHC------------------------------------------------
T ss_pred             HHHHHHHHHHHHHHhccHHHHHHHHHHHHhhC------------------------------------------------
Confidence            56778888999999999999999999986641                                                


Q ss_pred             CCCCchhhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCccHHHHHHHHHHHHhcCChhhhHHHHHHhhhcCCCcccchhH
Q 048743          172 LIKPDTMIFNLVLHACVRFGSSLKGQHIMELMSQTGVVADAHSIIILAQIHEMNCQRDELKKFKCYIDQLSTPFAHHYQQ  251 (653)
Q Consensus       172 ~~~~~~~~yn~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~  251 (653)
                        +.+...|..+..+|.+.|++++|.+.|++..+.+ ..+..++..+..++...|++++|.+.++.+...+..       
T Consensus        56 --p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~-------  125 (537)
T 3fp2_A           56 --PNEPVFYSNISACYISTGDLEKVIEFTTKALEIK-PDHSKALLRRASANESLGNFTDAMFDLSVLSLNGDF-------  125 (537)
T ss_dssp             --TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHC------------
T ss_pred             --CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CchHHHHHHHHHHHHHcCCHHHHHHHHHHHhcCCCC-------
Confidence              2356678888899999999999999999998764 224556888889999999999999998744332211       


Q ss_pred             HHHHHHHhhhccCCHHHHHHHHHHhcccCCCCCCchhhhcccccchhccCCCcccchhhhccchhhhHHHHHHhhhhhHH
Q 048743          252 FYESLLSLHFKFDDIDAAGELILDMNRYREPLPNPKLRQDAQKPYLISIGSPNLRCGLKLQIMPELLEKDSILKMEGKQE  331 (653)
Q Consensus       252 ~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  331 (653)
                       .+..+..+...+....|...++++...........                          .+................
T Consensus       126 -~~~~~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~~--------------------------~~~~~~~~~~~~~~~~~~  178 (537)
T 3fp2_A          126 -DGASIEPMLERNLNKQAMKVLNENLSKDEGRGSQV--------------------------LPSNTSLASFFGIFDSHL  178 (537)
T ss_dssp             -------CHHHHHHHHHHHHHHHHHCC-------CC--------------------------CCCHHHHHHHHHTSCHHH
T ss_pred             -ChHHHHHHHHHHHHHHHHHHHHHHHHhCccccccc--------------------------cchHhHHHHHHHhcChHH
Confidence             23334555666777889999988843210000000                          000000000000000000


Q ss_pred             HHHH--hcCCCCCCHHHHH-HHHHHHHh--------cCChHHHHHHHHHHHhcCCCCCCcc-------cHHHHHHHHHHc
Q 048743          332 LVLF--RNGKLLHSNRAMA-KLINGYKK--------HGKNSELSWLLLSIKKEHHSFGEST-------LCSDVIDALIQL  393 (653)
Q Consensus       332 ~~~~--~~~~~~p~~~~~~-~li~~~~~--------~~~~~~a~~~~~~m~~~~~~~~~~~-------~~~~li~~~~~~  393 (653)
                      ....  ......|....+. .+...+..        .|++++|..+|+++.+..  |.+..       +|..+...+...
T Consensus       179 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~a~~~~~~A~~~~~~~l~~~--p~~~~~~~~~~~~~~~~g~~~~~~  256 (537)
T 3fp2_A          179 EVSSVNTSSNYDTAYALLSDALQRLYSATDEGYLVANDLLTKSTDMYHSLLSAN--TVDDPLRENAALALCYTGIFHFLK  256 (537)
T ss_dssp             HHHTSCCCCSSCSSHHHHHHHHHHHHTCSHHHHHHHHHHHHHHHHHHHHHHC----CCCHHHHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHhhccccccHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHC--CCcchhhHHHHHHHHHHHHHHHhc
Confidence            0000  1111222222222 22222222        257899999999998876  55533       366667788889


Q ss_pred             CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCccCchhhHHHHhhHHHHhhhccccccc
Q 048743          394 GFLEAAHDILDDMELAGHPMDSTTYKSLLTAYYKVKMFREAEALLKQMRKSCLVQNLSCEMVVSERFSEVADKSASFTDT  473 (653)
Q Consensus       394 g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~~  473 (653)
                      |++++|...|++..+.  .|+..+|..+...+...|++++|...|+...+.  .|+........   .          ..
T Consensus       257 ~~~~~A~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~l---~----------~~  319 (537)
T 3fp2_A          257 NNLLDAQVLLQESINL--HPTPNSYIFLALTLADKENSQEFFKFFQKAVDL--NPEYPPTYYHR---G----------QM  319 (537)
T ss_dssp             TCHHHHHHHHHHHHHH--CCCHHHHHHHHHHTCCSSCCHHHHHHHHHHHHH--CTTCHHHHHHH---H----------HH
T ss_pred             ccHHHHHHHHHHHHhc--CCCchHHHHHHHHHHHhcCHHHHHHHHHHHhcc--CCCCHHHHHHH---H----------HH
Confidence            9999999999999885  466888999999999999999999999999874  35432111111   0          12


Q ss_pred             ccccCCHHHHHHHHHHHHHccCCC-CHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCCHHH
Q 048743          474 SSLMDKSDLAESLIQEMREEAALS-TIYKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRPTVETFYYLVYGHSSLEMYRD  552 (653)
Q Consensus       474 ~~~~~~~~~a~~~~~~m~~~~~~p-~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~  552 (653)
                      |...|++++|...|++..+..  | +...|..+...|...|++++|++.|++..+.. +.+...+..+...+...|++++
T Consensus       320 ~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~  396 (537)
T 3fp2_A          320 YFILQDYKNAKEDFQKAQSLN--PENVYPYIQLACLLYKQGKFTESEAFFNETKLKF-PTLPEVPTFFAEILTDRGDFDT  396 (537)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC--TTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHH
T ss_pred             HHhcCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHH
Confidence            345899999999999998865  4 67789999999999999999999999998863 3356688899999999999999


Q ss_pred             HHHHHHHHHHHhhhCC-CccCHHHHHHHHHHHHhC----------CCHHHHHHHHHHHHhCCCCCCHHhHHHHH--HHhh
Q 048743          553 ITILWGDIKRNIESGV-LAVSRDLYETLLLNFLQG----------GYFERVMEVIGYMKKQNMYVDKLMYKSEF--LKHH  619 (653)
Q Consensus       553 a~~~~~~~~~~~~~~~-~~p~~~~y~~li~~~~~~----------g~~~~a~~~~~~m~~~g~~p~~~t~~~l~--~~~~  619 (653)
                      |...++.+.+...... .......+......+.+.          |++++|...+++..+.. +.+...+..+.  ....
T Consensus       397 A~~~~~~a~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~l~~~~~~~  475 (537)
T 3fp2_A          397 AIKQYDIAKRLEEVQEKIHVGIGPLIGKATILARQSSQDPTQLDEEKFNAAIKLLTKACELD-PRSEQAKIGLAQLKLQM  475 (537)
T ss_dssp             HHHHHHHHHHHHHHCSSCSSTTHHHHHHHHHHHHHHTC----CCHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHcCCcchhhHHHHHHHHHHHHHHHHHhhccchhhhHhHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHh
Confidence            9999999875533222 222333344555677777          99999999999998653 22334444443  5567


Q ss_pred             hhhHHhhhhhHHHHH
Q 048743          620 KHLYRRLKVSNARTE  634 (653)
Q Consensus       620 ~~~~~~~~~~~~~~~  634 (653)
                      |+.+.|.+..+...+
T Consensus       476 g~~~~A~~~~~~al~  490 (537)
T 3fp2_A          476 EKIDEAIELFEDSAI  490 (537)
T ss_dssp             TCHHHHHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHH
Confidence            889999888888887

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.74  E-value=2.4e-18  Score=183.24  Aligned_cols=104  Identities=14%  Similarity=0.080  Sum_probs=66.8

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHhc--CCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 048743          345 RAMAKLINGYKKHGKNSELSWLLLSIKKE--HHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTYKSLL  422 (653)
Q Consensus       345 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~--~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li  422 (653)
                      .|||++|++||+.|++++|.++|.+|.+.  .+..||..|||+||++||+.|++++|.++|++|.+.|+.||.+|||+||
T Consensus       128 ~TynaLIdglcK~G~leeA~~Lf~eM~~m~~kG~~PdvvTYNtLI~Glck~G~~~eA~~Lf~eM~~~G~~PDvvTYntLI  207 (1134)
T 3spa_A          128 QRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAAL  207 (1134)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHSHHHHTTCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCCHHHHHHHHHHHHHHhhcCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHH
Confidence            46667777777777777777666665432  1256666666666666666666666666666666666666666666666


Q ss_pred             HHHHHcCCh-HHHHHHHHHHHHcCCcc
Q 048743          423 TAYYKVKMF-REAEALLKQMRKSCLVQ  448 (653)
Q Consensus       423 ~~~~~~~~~-~~a~~~~~~m~~~~~~p  448 (653)
                      +++++.|+. ++|.++|++|.+.|+.|
T Consensus       208 ~glcK~G~~~e~A~~Ll~EM~~kG~~P  234 (1134)
T 3spa_A          208 QCMGRQDQDAGTIERCLEQMSQEGLKL  234 (1134)
T ss_dssp             HHHHHHTCCHHHHHHHHHHHHHHTCCS
T ss_pred             HHHHhCCCcHHHHHHHHHHHHHcCCCC
Confidence            666666653 45566666666555543

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.74  E-value=3.8e-18  Score=181.73  Aligned_cols=114  Identities=9%  Similarity=0.048  Sum_probs=104.2

Q ss_pred             CHHHHHHHHHHHHcCCCHHHHHHHHHHHHh---cCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHHhhhCCCccCHH
Q 048743          498 TIYKLNSSIYFFCKGKMIGDALKIYRRMQE---MKIRPTVETFYYLVYGHSSLEMYRDITILWGDIKRNIESGVLAVSRD  574 (653)
Q Consensus       498 ~~~~y~~li~~~~~~g~~~~a~~~~~~m~~---~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~p~~~  574 (653)
                      -..|||+||++||+.|++++|.++|.+|.+   .|+.||.+|||+||.+||+.|++++|.++|++|.    +.|+.||..
T Consensus       126 ~~~TynaLIdglcK~G~leeA~~Lf~eM~~m~~kG~~PdvvTYNtLI~Glck~G~~~eA~~Lf~eM~----~~G~~PDvv  201 (1134)
T 3spa_A          126 QQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVK----DAGLTPDLL  201 (1134)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHSHHHHTTCCHHHHHHHHHHHHHHTCHHHHHHHHHHHH----HTTCCCCHH
T ss_pred             HHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhhcCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHH----HcCCCCcHH
Confidence            456899999999999999999999988764   5899999999999999999999999999998885    569999999


Q ss_pred             HHHHHHHHHHhCCC-HHHHHHHHHHHHhCCCCCCHHhHHHHH
Q 048743          575 LYETLLLNFLQGGY-FERVMEVIGYMKKQNMYVDKLMYKSEF  615 (653)
Q Consensus       575 ~y~~li~~~~~~g~-~~~a~~~~~~m~~~g~~p~~~t~~~l~  615 (653)
                      |||++|.++|+.|+ .++|.++|++|.++|+.||..||++++
T Consensus       202 TYntLI~glcK~G~~~e~A~~Ll~EM~~kG~~PD~vtY~~ll  243 (1134)
T 3spa_A          202 SYAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLL  243 (1134)
T ss_dssp             HHHHHHHHHHHHTCCHHHHHHHHHHHHHHTCCSHHHHHHSCC
T ss_pred             HHHHHHHHHHhCCCcHHHHHHHHHHHHHcCCCCChhhccccc
Confidence            99999999999998 478999999999999999999999776

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.69  E-value=1.3e-13  Score=138.28  Aligned_cols=308  Identities=11%  Similarity=0.011  Sum_probs=218.4

Q ss_pred             hHHHHHHHHHHHHhcCCCchHHHHHHHHHcCccCCCchhHHHHHHHHhhcccccccchHHHHHHHHHhhhhhhhhcCCcc
Q 048743           92 QLDLLAKLSLSLARAQMPVPASMILRLMLGRENLPCSDLLLLVFVHMVKTEIGTCLASNFLIQLCDVFLHLSAEKSNGAE  171 (653)
Q Consensus        92 ~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  171 (653)
                      +...+..+...+.+.|++++|+..|+++.+..                                                
T Consensus         2 ~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~------------------------------------------------   33 (359)
T 3ieg_A            2 DVEKHLELGKKLLAAGQLADALSQFHAAVDGD------------------------------------------------   33 (359)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC------------------------------------------------
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC------------------------------------------------
Confidence            56677888889999999999999998876531                                                


Q ss_pred             CCCCchhhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCc-cHHHHHHHHHHHHhcCChhhhHHHHHHhhhcCCCcccchh
Q 048743          172 LIKPDTMIFNLVLHACVRFGSSLKGQHIMELMSQTGVVA-DAHSIIILAQIHEMNCQRDELKKFKCYIDQLSTPFAHHYQ  250 (653)
Q Consensus       172 ~~~~~~~~yn~li~~~~~~g~~~~a~~l~~~m~~~g~~p-~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~  250 (653)
                        +.+..+|..+...+...|++++|.+.|+.+.+.  .| +...+..+..++...|++++|.+.++...+..+ ....+.
T Consensus        34 --p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~  108 (359)
T 3ieg_A           34 --PDNYIAYYRRATVFLAMGKSKAALPDLTKVIAL--KMDFTAARLQRGHLLLKQGKLDEAEDDFKKVLKSNP-SEQEEK  108 (359)
T ss_dssp             --TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTSCC-CHHHHH
T ss_pred             --cccHHHHHHHHHHHHHccCHHHHHHHHHHHHHh--CCCcchHHHHHHHHHHHcCChHHHHHHHHHHHhcCC-cccChH
Confidence              223456666777778888888888888887765  34 445577777888888888888888887776542 000122


Q ss_pred             HHHHHH------------HHhhhccCCHHHHHHHHHHhcccCCCCCCchhhhcccccchhccCCCcccchhhhccchhhh
Q 048743          251 QFYESL------------LSLHFKFDDIDAAGELILDMNRYREPLPNPKLRQDAQKPYLISIGSPNLRCGLKLQIMPELL  318 (653)
Q Consensus       251 ~~~~~l------------i~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  318 (653)
                      ..+..+            ...+...|++++|..+|++..+.                                       
T Consensus       109 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~---------------------------------------  149 (359)
T 3ieg_A          109 EAESQLVKADEMQRLRSQALDAFDGADYTAAITFLDKILEV---------------------------------------  149 (359)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---------------------------------------
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHh---------------------------------------
Confidence            233333            57888999999999999998320                                       


Q ss_pred             HHHHHHhhhhhHHHHHHhcCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHH
Q 048743          319 EKDSILKMEGKQELVLFRNGKLLHSNRAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEA  398 (653)
Q Consensus       319 ~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~  398 (653)
                                           .+.+...+..+...+...|++++|...+++.....  |.+..+|..+...+...|++++
T Consensus       150 ---------------------~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~la~~~~~~~~~~~  206 (359)
T 3ieg_A          150 ---------------------CVWDAELRELRAECFIKEGEPRKAISDLKAASKLK--SDNTEAFYKISTLYYQLGDHEL  206 (359)
T ss_dssp             ---------------------CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC--SCCHHHHHHHHHHHHHHTCHHH
T ss_pred             ---------------------CCCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHcCCHHH
Confidence                                 12345678899999999999999999999999877  7778889999999999999999


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHH------------HHHHHHHcCChHHHHHHHHHHHHcCCccCchhhHHHHhhHHHHhhh
Q 048743          399 AHDILDDMELAGHPMDSTTYKS------------LLTAYYKVKMFREAEALLKQMRKSCLVQNLSCEMVVSERFSEVADK  466 (653)
Q Consensus       399 a~~~~~~m~~~g~~p~~~~~~~------------li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~l~~~~~~  466 (653)
                      |...|++..+... .+...+..            +...+.+.|++++|...++...+.  .|+............+    
T Consensus       207 A~~~~~~a~~~~~-~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~~~~la----  279 (359)
T 3ieg_A          207 SLSEVRECLKLDQ-DHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKT--EPSVAEYTVRSKERIC----  279 (359)
T ss_dssp             HHHHHHHHHHHCT-TCHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCSSHHHHHHHHHHHH----
T ss_pred             HHHHHHHHHhhCc-cchHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCCchHHHHHHHHHHH----
Confidence            9999999987532 23443332            256688889999999999988874  3443111000000000    


Q ss_pred             cccccccccccCCHHHHHHHHHHHHHccCCC-CHHHHHHHHHHHHcCCCHHHHHHHHHHHHhc
Q 048743          467 SASFTDTSSLMDKSDLAESLIQEMREEAALS-TIYKLNSSIYFFCKGKMIGDALKIYRRMQEM  528 (653)
Q Consensus       467 ~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~  528 (653)
                           ..|...|++++|...+++..+..  | +..+|..+...|...|++++|.+.|++..+.
T Consensus       280 -----~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~  335 (359)
T 3ieg_A          280 -----HCFSKDEKPVEAIRICSEVLQME--PDNVNALKDRAEAYLIEEMYDEAIQDYEAAQEH  335 (359)
T ss_dssp             -----HHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             -----HHHHHccCHHHHHHHHHHHHHhC--cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence                 12334677777777777776643  4 5666777777777777777777777776654

>3hym_B Cell division cycle protein 16 homolog; APC, anaphase promoting complex, cell cycle, mitosis, cyclosome, TPR, ubiquitin, ubiquitin ligase, twinning; 2.80A {Homo sapiens}

Probab=99.68  E-value=7e-14  Score=138.58  Aligned_cols=300  Identities=9%  Similarity=-0.055  Sum_probs=220.0

Q ss_pred             CCCchhhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCccHHHHHHHHHHHHhcCChhhhHHHHHHhhhcCCCcccchhHH
Q 048743          173 IKPDTMIFNLVLHACVRFGSSLKGQHIMELMSQTGVVADAHSIIILAQIHEMNCQRDELKKFKCYIDQLSTPFAHHYQQF  252 (653)
Q Consensus       173 ~~~~~~~yn~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~  252 (653)
                      .+.+...+..+...+...|++++|.++|+++.+.. ..+...+..+..++...|+.++|...++.+.+..+..    ..+
T Consensus        18 ~~~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~----~~~   92 (330)
T 3hym_B           18 LQENLDVVVSLAERHYYNCDFKMCYKLTSVVMEKD-PFHASCLPVHIGTLVELNKANELFYLSHKLVDLYPSN----PVS   92 (330)
T ss_dssp             --CCCTTHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTTTHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTS----THH
T ss_pred             chhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCChhhHHHHHHHHHHhhhHHHHHHHHHHHHHhCcCC----HHH
Confidence            45667788888999999999999999999998763 2233446667788888899999999988887764332    236


Q ss_pred             HHHHHHhhhccC-CHHHHHHHHHHhcccCCCCCCchhhhcccccchhccCCCcccchhhhccchhhhHHHHHHhhhhhHH
Q 048743          253 YESLLSLHFKFD-DIDAAGELILDMNRYREPLPNPKLRQDAQKPYLISIGSPNLRCGLKLQIMPELLEKDSILKMEGKQE  331 (653)
Q Consensus       253 ~~~li~~~~~~g-~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  331 (653)
                      +..+...+...| ++++|...|++..+                                                     
T Consensus        93 ~~~l~~~~~~~~~~~~~A~~~~~~a~~-----------------------------------------------------  119 (330)
T 3hym_B           93 WFAVGCYYLMVGHKNEHARRYLSKATT-----------------------------------------------------  119 (330)
T ss_dssp             HHHHHHHHHHSCSCHHHHHHHHHHHHT-----------------------------------------------------
T ss_pred             HHHHHHHHHHhhhhHHHHHHHHHHHHH-----------------------------------------------------
Confidence            888888888888 89999999988832                                                     


Q ss_pred             HHHHhcCCCCC-CHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCC
Q 048743          332 LVLFRNGKLLH-SNRAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAG  410 (653)
Q Consensus       332 ~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g  410 (653)
                              ..| +...|..+...+...|++++|...|++..+..  +.+...+..+...|...|++++|...|++..+..
T Consensus       120 --------~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~  189 (330)
T 3hym_B          120 --------LEKTYGPAWIAYGHSFAVESEHDQAMAAYFTAAQLM--KGCHLPMLYIGLEYGLTNNSKLAERFFSQALSIA  189 (330)
T ss_dssp             --------TCTTCTHHHHHHHHHHHHHTCHHHHHHHHHHHHHHT--TTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             --------hCCccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhc--cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhC
Confidence                    112 34567888888999999999999999988877  6666668888889999999999999999988753


Q ss_pred             CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCccCchhhHHHHhhHHHHhhhcccccccccccCCHHHHHHHHHHH
Q 048743          411 HPMDSTTYKSLLTAYYKVKMFREAEALLKQMRKSCLVQNLSCEMVVSERFSEVADKSASFTDTSSLMDKSDLAESLIQEM  490 (653)
Q Consensus       411 ~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m  490 (653)
                       +.+..++..+...+...|++++|...+++..+..-....                                        
T Consensus       190 -~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~----------------------------------------  228 (330)
T 3hym_B          190 -PEDPFVMHEVGVVAFQNGEWKTAEKWFLDALEKIKAIGN----------------------------------------  228 (330)
T ss_dssp             -TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTTSC----------------------------------------
T ss_pred             -CCChHHHHHHHHHHHHcccHHHHHHHHHHHHHHhhhccc----------------------------------------
Confidence             346788888888999999999999998888763110000                                        


Q ss_pred             HHccCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHHhhhCCCc
Q 048743          491 REEAALSTIYKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRPTVETFYYLVYGHSSLEMYRDITILWGDIKRNIESGVLA  570 (653)
Q Consensus       491 ~~~~~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  570 (653)
                       ......+..+|..+...|...|++++|++.|++..+.. +.+...+..+...+...|++++|.+.++.+.      .+.
T Consensus       229 -~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~al------~~~  300 (330)
T 3hym_B          229 -EVTVDKWEPLLNNLGHVCRKLKKYAEALDYHRQALVLI-PQNASTYSAIGYIHSLMGNFENAVDYFHTAL------GLR  300 (330)
T ss_dssp             -SCTTTTCCHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHHTCHHHHHHHHHTTT------TTC
T ss_pred             -cccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhC-ccchHHHHHHHHHHHHhccHHHHHHHHHHHH------ccC
Confidence             00001245567778888888888888888888877653 2245677777788888888888888886654      344


Q ss_pred             c-CHHHHHHHHHHH-HhCCCH
Q 048743          571 V-SRDLYETLLLNF-LQGGYF  589 (653)
Q Consensus       571 p-~~~~y~~li~~~-~~~g~~  589 (653)
                      | +...+..+..++ ...|+.
T Consensus       301 p~~~~~~~~l~~~~~~~~g~~  321 (330)
T 3hym_B          301 RDDTFSVTMLGHCIEMYIGDS  321 (330)
T ss_dssp             SCCHHHHHHHHHHHHTTTTC-
T ss_pred             CCchHHHHHHHHHHHHHhCch
Confidence            4 555666666666 344543

>3hym_B Cell division cycle protein 16 homolog; APC, anaphase promoting complex, cell cycle, mitosis, cyclosome, TPR, ubiquitin, ubiquitin ligase, twinning; 2.80A {Homo sapiens}

Probab=99.68  E-value=3.8e-14  Score=140.54  Aligned_cols=308  Identities=10%  Similarity=-0.082  Sum_probs=234.9

Q ss_pred             cccccccchHHHHHHHHHHHHhccchhHHHHHHHHhhhhcCCCCchhHHHHHHHhhccCCcchhhhHHHHHHHHHhccCC
Q 048743           10 EKLSWEGSSREVLLRKLESASKNHQVGEAWETFNDFQRLHGIPERHVVNRFITDLCYSAEPHWLQKACDLVLKIQKGKAD   89 (653)
Q Consensus        10 ~~l~~~~p~~~~~~~~i~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~a~~~~~~~~~~~~~   89 (653)
                      +.+...+.+...+......+...|++++|.++|+.+.+. ...+...+..+...+...|+   .++|...+.++.+..+.
T Consensus        13 ~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~-~p~~~~~~~~~~~~~~~~~~---~~~A~~~~~~~~~~~~~   88 (330)
T 3hym_B           13 ESVDGLQENLDVVVSLAERHYYNCDFKMCYKLTSVVMEK-DPFHASCLPVHIGTLVELNK---ANELFYLSHKLVDLYPS   88 (330)
T ss_dssp             -------CCCTTHHHHHHHHHHTTCHHHHHHHHHHHHHH-CTTCTTTHHHHHHHHHHHTC---HHHHHHHHHHHHHHCTT
T ss_pred             HHHhhchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc-CCCChhhHHHHHHHHHHhhh---HHHHHHHHHHHHHhCcC
Confidence            444444556667888888889999999999999998874 22334566667777777887   78999999998776554


Q ss_pred             chhHHHHHHHHHHHHhcC-CCchHHHHHHHHHcCccCCCchhHHHHHHHHhhcccccccchHHHHHHHHHhhhhhhhhcC
Q 048743           90 LLQLDLLAKLSLSLARAQ-MPVPASMILRLMLGRENLPCSDLLLLVFVHMVKTEIGTCLASNFLIQLCDVFLHLSAEKSN  168 (653)
Q Consensus        90 ~~~~~t~~~li~~~~~~g-~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  168 (653)
                        +...+..+...+...| ++++|.+.|++..+..                                             
T Consensus        89 --~~~~~~~l~~~~~~~~~~~~~A~~~~~~a~~~~---------------------------------------------  121 (330)
T 3hym_B           89 --NPVSWFAVGCYYLMVGHKNEHARRYLSKATTLE---------------------------------------------  121 (330)
T ss_dssp             --STHHHHHHHHHHHHSCSCHHHHHHHHHHHHTTC---------------------------------------------
T ss_pred             --CHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhC---------------------------------------------
Confidence              6678888889999999 8999999998876542                                             


Q ss_pred             CccCCCCchhhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCccHHHHHHHHHHHHhcCChhhhHHHHHHhhhcCCCcccc
Q 048743          169 GAELIKPDTMIFNLVLHACVRFGSSLKGQHIMELMSQTGVVADAHSIIILAQIHEMNCQRDELKKFKCYIDQLSTPFAHH  248 (653)
Q Consensus       169 ~~~~~~~~~~~yn~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~  248 (653)
                           +.+...|..+...+...|++++|.+.|+...+.. ..+...+..+...+...|++++|.+.++...+..+..   
T Consensus       122 -----~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~---  192 (330)
T 3hym_B          122 -----KTYGPAWIAYGHSFAVESEHDQAMAAYFTAAQLM-KGCHLPMLYIGLEYGLTNNSKLAERFFSQALSIAPED---  192 (330)
T ss_dssp             -----TTCTHHHHHHHHHHHHHTCHHHHHHHHHHHHHHT-TTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTC---
T ss_pred             -----CccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhc-cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhCCCC---
Confidence                 2245567888889999999999999999998764 2235667778899999999999999999988765332   


Q ss_pred             hhHHHHHHHHhhhccCCHHHHHHHHHHhcccCCCCCCchhhhcccccchhccCCCcccchhhhccchhhhHHHHHHhhhh
Q 048743          249 YQQFYESLLSLHFKFDDIDAAGELILDMNRYREPLPNPKLRQDAQKPYLISIGSPNLRCGLKLQIMPELLEKDSILKMEG  328 (653)
Q Consensus       249 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  328 (653)
                       ..++..+...|...|++++|...|++..+.....+                                            
T Consensus       193 -~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~--------------------------------------------  227 (330)
T 3hym_B          193 -PFVMHEVGVVAFQNGEWKTAEKWFLDALEKIKAIG--------------------------------------------  227 (330)
T ss_dssp             -HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTTS--------------------------------------------
T ss_pred             -hHHHHHHHHHHHHcccHHHHHHHHHHHHHHhhhcc--------------------------------------------
Confidence             34789999999999999999999998843110000                                            


Q ss_pred             hHHHHHHhcCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 048743          329 KQELVLFRNGKLLHSNRAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMEL  408 (653)
Q Consensus       329 ~~~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  408 (653)
                             ..........+|..+...+.+.|++++|...+++..+..  +.+..+|..+...|.+.|++++|...|++..+
T Consensus       228 -------~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~--~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  298 (330)
T 3hym_B          228 -------NEVTVDKWEPLLNNLGHVCRKLKKYAEALDYHRQALVLI--PQNASTYSAIGYIHSLMGNFENAVDYFHTALG  298 (330)
T ss_dssp             -------CSCTTTTCCHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--TTCSHHHHHHHHHHHHHTCHHHHHHHHHTTTT
T ss_pred             -------ccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhC--ccchHHHHHHHHHHHHhccHHHHHHHHHHHHc
Confidence                   001112345688899999999999999999999999887  77778899999999999999999999999876


Q ss_pred             CCCCCCHHHHHHHHHHH-HHcCChH
Q 048743          409 AGHPMDSTTYKSLLTAY-YKVKMFR  432 (653)
Q Consensus       409 ~g~~p~~~~~~~li~~~-~~~~~~~  432 (653)
                      .. +.+...+..+..++ ...|+.+
T Consensus       299 ~~-p~~~~~~~~l~~~~~~~~g~~~  322 (330)
T 3hym_B          299 LR-RDDTFSVTMLGHCIEMYIGDSE  322 (330)
T ss_dssp             TC-SCCHHHHHHHHHHHHTTTTC--
T ss_pred             cC-CCchHHHHHHHHHHHHHhCchh
Confidence            53 33677777777777 3455543

>1b89_A Protein (clathrin heavy chain); triskelion, coated vesicles, endocytosis, SELF- assembly, alpha-alpha superhelix; 2.60A {Bos taurus} SCOP: a.118.1.3

Probab=99.68  E-value=3.5e-15  Score=147.70  Aligned_cols=250  Identities=12%  Similarity=0.042  Sum_probs=90.4

Q ss_pred             hccchhHHHHHHHHhhhhcCCCCchhHHHHHHHhhccCCcchhhhHHHHHHHHHhccCCchhHHHHHHHHHHHHhcCCCc
Q 048743           31 KNHQVGEAWETFNDFQRLHGIPERHVVNRFITDLCYSAEPHWLQKACDLVLKIQKGKADLLQLDLLAKLSLSLARAQMPV  110 (653)
Q Consensus        31 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~t~~~li~~~~~~g~~~  110 (653)
                      +.|++++|.++++.+      +++.+|..+..++.+.|+   +++|++.|.+.       +|..+|..++.++...|+++
T Consensus        15 ~~~~ld~A~~fae~~------~~~~vWs~La~A~l~~g~---~~eAIdsfika-------~D~~~y~~V~~~ae~~g~~E   78 (449)
T 1b89_A           15 HIGNLDRAYEFAERC------NEPAVWSQLAKAQLQKGM---VKEAIDSYIKA-------DDPSSYMEVVQAANTSGNWE   78 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HccCHHHHHHHHHhC------CChHHHHHHHHHHHHcCC---HHHHHHHHHcC-------CCHHHHHHHHHHHHhCCCHH
Confidence            556677777777765      333477777777777776   67777777542       46667777777777777777


Q ss_pred             hHHHHHHHHHcCccCCCchhHHHHHHHHhhcccccccchHHHHHHHHHhhhhhhhhcCCccCCCCchhhHHHHHHHHHhc
Q 048743          111 PASMILRLMLGRENLPCSDLLLLVFVHMVKTEIGTCLASNFLIQLCDVFLHLSAEKSNGAELIKPDTMIFNLVLHACVRF  190 (653)
Q Consensus       111 ~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~yn~li~~~~~~  190 (653)
                      +|+..++..++.                                                   .++..+.+.|+.+|.+.
T Consensus        79 eAi~yl~~ark~---------------------------------------------------~~~~~i~~~Li~~Y~Kl  107 (449)
T 1b89_A           79 ELVKYLQMARKK---------------------------------------------------ARESYVETELIFALAKT  107 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HHHHHHHHHHHh---------------------------------------------------CccchhHHHHHHHHHHh
Confidence            777755544332                                                   12234455555555555


Q ss_pred             CChhhHHHHHHHHHhcCCCccHHHHHHHHHHHHhcCChhhhHHHHHHhhhcCCCcccchhHHHHHHHHhhhccCCHHHHH
Q 048743          191 GSSLKGQHIMELMSQTGVVADAHSIIILAQIHEMNCQRDELKKFKCYIDQLSTPFAHHYQQFYESLLSLHFKFDDIDAAG  270 (653)
Q Consensus       191 g~~~~a~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~  270 (653)
                      |+++++.++++       .|+..+|..+...|...|.+++|...|..+.            .|..|.+++.+.|++++|.
T Consensus       108 g~l~e~e~f~~-------~pn~~a~~~IGd~~~~~g~yeeA~~~Y~~a~------------n~~~LA~~L~~Lg~yq~AV  168 (449)
T 1b89_A          108 NRLAELEEFIN-------GPNNAHIQQVGDRCYDEKMYDAAKLLYNNVS------------NFGRLASTLVHLGEYQAAV  168 (449)
T ss_dssp             -CHHHHTTTTT-------CC----------------CTTTHHHHHHHTT------------CHHHHHHHHHTTTCHHHHH
T ss_pred             CCHHHHHHHHc-------CCcHHHHHHHHHHHHHcCCHHHHHHHHHHhh------------hHHHHHHHHHHhccHHHHH
Confidence            65555555553       2555566666666666666666666665541            2788888888888888888


Q ss_pred             HHHHHhcccCCCCCCchhhhcccccchhccCCCcccchhhhccchhhhHHHHHHhhhhhHHHHHHhcCCCCCCHHHHHHH
Q 048743          271 ELILDMNRYREPLPNPKLRQDAQKPYLISIGSPNLRCGLKLQIMPELLEKDSILKMEGKQELVLFRNGKLLHSNRAMAKL  350 (653)
Q Consensus       271 ~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~l  350 (653)
                      +.+.+.                                                                 -++.+|..+
T Consensus       169 ea~~KA-----------------------------------------------------------------~~~~~Wk~v  183 (449)
T 1b89_A          169 DGARKA-----------------------------------------------------------------NSTRTWKEV  183 (449)
T ss_dssp             HHHHHH-----------------------------------------------------------------TCHHHHHHH
T ss_pred             HHHHHc-----------------------------------------------------------------CCchhHHHH
Confidence            888777                                                                 356678888


Q ss_pred             HHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCC
Q 048743          351 INGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTYKSLLTAYYKVKM  430 (653)
Q Consensus       351 i~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~  430 (653)
                      +.+|...|+++.|......+.      ..+.-...++..|.+.|++++|..+++...... +-....|+-|--+|++-. 
T Consensus       184 ~~aCv~~~ef~lA~~~~l~L~------~~ad~l~~lv~~Yek~G~~eEai~lLe~aL~le-~ah~~~ftel~il~~ky~-  255 (449)
T 1b89_A          184 CFACVDGKEFRLAQMCGLHIV------VHADELEELINYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAILYSKFK-  255 (449)
T ss_dssp             HHHHHHTTCHHHHHHTTTTTT------TCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTST-TCCHHHHHHHHHHHHTTC-
T ss_pred             HHHHHHcCcHHHHHHHHHHHH------hCHhhHHHHHHHHHHCCCHHHHHHHHHHHhCCc-HHHHHHHHHHHHHHHhcC-
Confidence            888888888888855544322      122224467778888888888888888776543 345566666655665542 


Q ss_pred             hHHHHHHHH
Q 048743          431 FREAEALLK  439 (653)
Q Consensus       431 ~~~a~~~~~  439 (653)
                      +++..+.++
T Consensus       256 p~k~~ehl~  264 (449)
T 1b89_A          256 PQKMREHLE  264 (449)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            444444433

>1fch_A Peroxisomal targeting signal 1 receptor; protein-peptide complex, tetratricopeptide repeat, TPR, helical repeat, signaling protein; 2.20A {Homo sapiens} SCOP: a.118.8.1 PDB: 2j9q_A 3imz_B* 3r9a_B* 2c0m_A 2c0l_A

Probab=99.65  E-value=1.9e-14  Score=145.27  Aligned_cols=236  Identities=14%  Similarity=0.026  Sum_probs=129.4

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHH--
Q 048743          343 SNRAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTYKS--  420 (653)
Q Consensus       343 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~--  420 (653)
                      +...|..+..++.+.|++++|...|+++.+..  |.+..++..+...|...|++++|...|+++.+.... +...+..  
T Consensus        97 ~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~~~  173 (368)
T 1fch_A           97 HMEAWQYLGTTQAENEQELLAISALRRCLELK--PDNQTALMALAVSFTNESLQRQACEILRDWLRYTPA-YAHLVTPAE  173 (368)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSTT-TGGGCC---
T ss_pred             CHHHHHHHHHHHHHCcCHHHHHHHHHHHHhcC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcC-cHHHHHHHH
Confidence            34456666666667777777777777666655  555566666666777777777777777766654321 1111111  


Q ss_pred             -------------HHHHHHHcCChHHHHHHHHHHHHcCCccCchhhHHHHhhHHHHhhhcccccccccccCCHHHHHHHH
Q 048743          421 -------------LLTAYYKVKMFREAEALLKQMRKSCLVQNLSCEMVVSERFSEVADKSASFTDTSSLMDKSDLAESLI  487 (653)
Q Consensus       421 -------------li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~a~~~~  487 (653)
                                   .+..+...|++++|...|+++.+.  .|+.....+... +.          ..|...|++++|...|
T Consensus       174 ~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~--~p~~~~~~~~~~-l~----------~~~~~~g~~~~A~~~~  240 (368)
T 1fch_A          174 EGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRL--DPTSIDPDVQCG-LG----------VLFNLSGEYDKAVDCF  240 (368)
T ss_dssp             ------------CTTHHHHHHHHHHHHHHHHHHHHHH--STTSCCHHHHHH-HH----------HHHHHTTCHHHHHHHH
T ss_pred             HHhhhhcccHHHHHHHHHhhcccHHHHHHHHHHHHHh--CcCcccHHHHHH-HH----------HHHHHcCCHHHHHHHH
Confidence                         122333556666666666666553  233100000000 00          1122356666666666


Q ss_pred             HHHHHccCCC-CHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHHhhh
Q 048743          488 QEMREEAALS-TIYKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRPTVETFYYLVYGHSSLEMYRDITILWGDIKRNIES  566 (653)
Q Consensus       488 ~~m~~~~~~p-~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~~~~~~~~  566 (653)
                      ++..+..  | +..+|..+...|...|++++|++.|++..+.. +.+...+..+...+.+.|++++|...++.+.+....
T Consensus       241 ~~al~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~  317 (368)
T 1fch_A          241 TAALSVR--PNDYLLWNKLGATLANGNQSEEAVAAYRRALELQ-PGYIRSRYNLGISCINLGAHREAVEHFLEALNMQRK  317 (368)
T ss_dssp             HHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHhC--cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC
Confidence            6655543  3 45566666666666777777777776666542 223556666666666677777777666666533111


Q ss_pred             CC------CccCHHHHHHHHHHHHhCCCHHHHHHHHH
Q 048743          567 GV------LAVSRDLYETLLLNFLQGGYFERVMEVIG  597 (653)
Q Consensus       567 ~~------~~p~~~~y~~li~~~~~~g~~~~a~~~~~  597 (653)
                      ..      ......+|..+..+|...|++++|..+++
T Consensus       318 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  354 (368)
T 1fch_A          318 SRGPRGEGGAMSENIWSTLRLALSMLGQSDAYGAADA  354 (368)
T ss_dssp             C------CCCCCHHHHHHHHHHHHHHTCGGGHHHHHT
T ss_pred             CCCccccccchhhHHHHHHHHHHHHhCChHhHHHhHH
Confidence            10      01124566666666666677666666554

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.64  E-value=1.6e-11  Score=128.91  Aligned_cols=404  Identities=9%  Similarity=-0.045  Sum_probs=286.4

Q ss_pred             hhHHHHHHHHHhccCCchhHHHHHHHHHHHHh----cCCCchHHHHHHHHHcCccCCCchhHHHHHHHHhhcccccccch
Q 048743           74 QKACDLVLKIQKGKADLLQLDLLAKLSLSLAR----AQMPVPASMILRLMLGRENLPCSDLLLLVFVHMVKTEIGTCLAS  149 (653)
Q Consensus        74 ~~a~~~~~~~~~~~~~~~~~~t~~~li~~~~~----~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~~  149 (653)
                      ..++..+.+.... +   +...+..+-..|..    .+++++|+.+|++..+.|                          
T Consensus        24 ~~~~~~~~~~a~~-g---~~~a~~~lg~~y~~g~~~~~~~~~A~~~~~~a~~~~--------------------------   73 (490)
T 2xm6_A           24 NVNLEQLKQKAES-G---EAKAQLELGYRYFQGNETTKDLTQAMDWFRRAAEQG--------------------------   73 (490)
T ss_dssp             -CCHHHHHHHHHT-T---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT--------------------------
T ss_pred             hHHHHHHHHHHHC-C---CHHHHHHHHHHHHcCCCCCcCHHHHHHHHHHHHHCC--------------------------
Confidence            3445555554332 2   66677777777777    788888888887765543                          


Q ss_pred             HHHHHHHHHhhhhhhhhcCCccCCCCchhhHHHHHHHHHh----cCChhhHHHHHHHHHhcCCCccHHHHHHHHHHHHh-
Q 048743          150 NFLIQLCDVFLHLSAEKSNGAELIKPDTMIFNLVLHACVR----FGSSLKGQHIMELMSQTGVVADAHSIIILAQIHEM-  224 (653)
Q Consensus       150 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~yn~li~~~~~----~g~~~~a~~l~~~m~~~g~~p~~~t~~~ll~~~~~-  224 (653)
                                                +...+..|-..|..    .+++++|.+.|+...+.|   +...+..+...+.. 
T Consensus        74 --------------------------~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g  124 (490)
T 2xm6_A           74 --------------------------YTPAEYVLGLRYMNGEGVPQDYAQAVIWYKKAALKG---LPQAQQNLGVMYHEG  124 (490)
T ss_dssp             --------------------------CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHT
T ss_pred             --------------------------CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcC
Confidence                                      22334444555555    778888888888888765   44555566667776 


Q ss_pred             ---cCChhhhHHHHHHhhhcCCCcccchhHHHHHHHHhhhc----cCCHHHHHHHHHHhcccCCCCCCchhhhcccccch
Q 048743          225 ---NCQRDELKKFKCYIDQLSTPFAHHYQQFYESLLSLHFK----FDDIDAAGELILDMNRYREPLPNPKLRQDAQKPYL  297 (653)
Q Consensus       225 ---~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~  297 (653)
                         .++.++|.+.++.....+.+      ..+..|-..|..    .++.++|.+.|++..+                   
T Consensus       125 ~g~~~~~~~A~~~~~~a~~~~~~------~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~a~~-------------------  179 (490)
T 2xm6_A          125 NGVKVDKAESVKWFRLAAEQGRD------SGQQSMGDAYFEGDGVTRDYVMAREWYSKAAE-------------------  179 (490)
T ss_dssp             SSSCCCHHHHHHHHHHHHHTTCH------HHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHH-------------------
T ss_pred             CCCCCCHHHHHHHHHHHHHCCCH------HHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHH-------------------
Confidence               77888888888888776532      246667777766    7899999999988721                   


Q ss_pred             hccCCCcccchhhhccchhhhHHHHHHhhhhhHHHHHHhcCCCCCCHHHHHHHHHHHHh----cCChHHHHHHHHHHHhc
Q 048743          298 ISIGSPNLRCGLKLQIMPELLEKDSILKMEGKQELVLFRNGKLLHSNRAMAKLINGYKK----HGKNSELSWLLLSIKKE  373 (653)
Q Consensus       298 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~li~~~~~----~~~~~~a~~~~~~m~~~  373 (653)
                                                              .   -+...+..+-..|..    .++.++|...|++..+.
T Consensus       180 ----------------------------------------~---~~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~  216 (490)
T 2xm6_A          180 ----------------------------------------Q---GNVWSCNQLGYMYSRGLGVERNDAISAQWYRKSATS  216 (490)
T ss_dssp             ----------------------------------------T---TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHT
T ss_pred             ----------------------------------------C---CCHHHHHHHHHHHhcCCCCCcCHHHHHHHHHHHHHC
Confidence                                                    1   245566777777777    89999999999998876


Q ss_pred             CCCCCCcccHHHHHHHHHH----cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHH----cCChHHHHHHHHHHHHcC
Q 048743          374 HHSFGESTLCSDVIDALIQ----LGFLEAAHDILDDMELAGHPMDSTTYKSLLTAYYK----VKMFREAEALLKQMRKSC  445 (653)
Q Consensus       374 ~~~~~~~~~~~~li~~~~~----~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~----~~~~~~a~~~~~~m~~~~  445 (653)
                      +    +...+..+...|..    .+++++|..+|++..+.|   +...+..+-..|..    .+++++|...|+...+.|
T Consensus       217 ~----~~~a~~~lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~g~~~~~d~~~A~~~~~~a~~~~  289 (490)
T 2xm6_A          217 G----DELGQLHLADMYYFGIGVTQDYTQSRVLFSQSAEQG---NSIAQFRLGYILEQGLAGAKEPLKALEWYRKSAEQG  289 (490)
T ss_dssp             T----CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHTTT---CHHHHHHHHHHHHHTTTSSCCHHHHHHHHHHHHTTT
T ss_pred             C----CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHcC
Confidence            5    34457778888876    789999999999988864   56677777777877    889999999999987764


Q ss_pred             CccCchhhHHHHhhHHHHhhhcccccccccccCCHHHHHHHHHHHHHccCCCCHHHHHHHHHHHHcCC---CHHHHHHHH
Q 048743          446 LVQNLSCEMVVSERFSEVADKSASFTDTSSLMDKSDLAESLIQEMREEAALSTIYKLNSSIYFFCKGK---MIGDALKIY  522 (653)
Q Consensus       446 ~~p~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~y~~li~~~~~~g---~~~~a~~~~  522 (653)
                      . |+..+.+      ..+....     ..+..++.++|...|++..+.|   +...+..+-..|...|   ++++|+++|
T Consensus       290 ~-~~a~~~L------g~~y~~~-----~~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~~g~~~~~~~A~~~~  354 (490)
T 2xm6_A          290 N-SDGQYYL------AHLYDKG-----AEGVAKNREQAISWYTKSAEQG---DATAQANLGAIYFRLGSEEEHKKAVEWF  354 (490)
T ss_dssp             C-HHHHHHH------HHHHHHC-----BTTBCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHSCCHHHHHHHHHHH
T ss_pred             C-HHHHHHH------HHHHHcC-----CCCCcCCHHHHHHHHHHHHhcC---CHHHHHHHHHHHHhCCCcccHHHHHHHH
Confidence            2 2211111      1111100     0122489999999999998876   4567777888887766   789999999


Q ss_pred             HHHHhcCCCCCHHHHHHHHHHHhc----cCCHHHHHHHHHHHHHHhhhCCCccCHHHHHHHHHHHHh----CCCHHHHHH
Q 048743          523 RRMQEMKIRPTVETFYYLVYGHSS----LEMYRDITILWGDIKRNIESGVLAVSRDLYETLLLNFLQ----GGYFERVME  594 (653)
Q Consensus       523 ~~m~~~g~~p~~~t~~~li~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~p~~~~y~~li~~~~~----~g~~~~a~~  594 (653)
                      ++..+.|   +...+..|-..|..    .+++++|..+|+...+    .+   +...+..+-..|..    .++.++|..
T Consensus       355 ~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~A~~----~~---~~~a~~~Lg~~y~~g~g~~~d~~~A~~  424 (490)
T 2xm6_A          355 RKAAAKG---EKAAQFNLGNALLQGKGVKKDEQQAAIWMRKAAE----QG---LSAAQVQLGEIYYYGLGVERDYVQAWA  424 (490)
T ss_dssp             HHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHH----TT---CHHHHHHHHHHHHHTSSSCCCHHHHHH
T ss_pred             HHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHh----CC---CHHHHHHHHHHHHcCCCCCCCHHHHHH
Confidence            9998864   66777888888887    8999999999988752    22   46678888888888    899999999


Q ss_pred             HHHHHHhCCCC-C-CHHhHHHHHHHhhhhhHHhhhhhHHHHHHH
Q 048743          595 VIGYMKKQNMY-V-DKLMYKSEFLKHHKHLYRRLKVSNARTEAQ  636 (653)
Q Consensus       595 ~~~~m~~~g~~-p-~~~t~~~l~~~~~~~~~~~~~~~~~~~~~~  636 (653)
                      .|++..+.|.. | +......+-.....+...+...+...++..
T Consensus       425 ~~~~A~~~~~~~~~~~~a~~~l~~~~~~~~~~a~~~a~~~~~~~  468 (490)
T 2xm6_A          425 WFDTASTNDMNLFGTENRNITEKKLTAKQLQQAELLSQQYIEKY  468 (490)
T ss_dssp             HHHHHHHHHCCHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCCCcCCHHHHHHHHhcCHhHHHHHHHHHHHHHHHH
Confidence            99999988754 3 222222222333455666666677776653

>1xi4_A Clathrin heavy chain; alpha-ZIG-ZAG, beta-propeller, endocytosis-exocyto complex; 7.90A {Bos taurus} SCOP: i.23.1.1 PDB: 1xi5_A 3iyv_A

Probab=99.63  E-value=2.1e-11  Score=134.77  Aligned_cols=384  Identities=12%  Similarity=0.094  Sum_probs=247.4

Q ss_pred             ccchHHHHHHHHHHHHhccchhHHHHHHHHhhhhcC--CCCchhHHHHHHHhhccCCcchhhhHHHHHHHHHhccCCchh
Q 048743           15 EGSSREVLLRKLESASKNHQVGEAWETFNDFQRLHG--IPERHVVNRFITDLCYSAEPHWLQKACDLVLKIQKGKADLLQ   92 (653)
Q Consensus        15 ~~p~~~~~~~~i~~~~~~~~~~~A~~~~~~~~~~~~--~~~~~~~~~ll~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~   92 (653)
                      ++-+++-....+++|...|.+.+|+++++.....+.  ..+...-+.++.+..+. +   ..+..+...+..  +   .+
T Consensus       981 e~~~PeeVs~~vKaf~~aglp~EaieLLEKivl~~s~fs~n~~LqnlLi~tAIka-D---~~Rv~eyI~kLd--~---~d 1051 (1630)
T 1xi4_A          981 ETQDPEEVSVTVKAFMTADLPNELIELLEKIVLDNSVFSEHRNLQNLLILTAIKA-D---RTRVMEYINRLD--N---YD 1051 (1630)
T ss_pred             cccCHHHhHHHHHHHHhCCCHHHHHHHHHHHHcCCCcccccHHHHHHHHHHHHHh-C---hhhHHHHHHHhh--h---cc
Confidence            455666667788889999999999999999875311  12334567777777777 3   345555554431  1   11


Q ss_pred             HHHHHHHHHHHHhcCCCchHHHHHHHHHcCccCCCchhHHHHHHHHhhcccccccchHHHHHHHHHhhhhhhhhcCCccC
Q 048743           93 LDLLAKLSLSLARAQMPVPASMILRLMLGRENLPCSDLLLLVFVHMVKTEIGTCLASNFLIQLCDVFLHLSAEKSNGAEL  172 (653)
Q Consensus        93 ~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  172 (653)
                         ..-+...+...|.+++|.++|++....     ....+.                  +   ....++++.|.++.++.
T Consensus      1052 ---~~eIA~Iai~lglyEEAf~IYkKa~~~-----~~A~~V------------------L---ie~i~nldrAiE~Aerv 1102 (1630)
T 1xi4_A         1052 ---APDIANIAISNELFEEAFAIFRKFDVN-----TSAVQV------------------L---IEHIGNLDRAYEFAERC 1102 (1630)
T ss_pred             ---HHHHHHHHHhCCCHHHHHHHHHHcCCH-----HHHHHH------------------H---HHHHhhHHHHHHHHHhc
Confidence               223667788899999999999885211     111111                  1   11334556655555433


Q ss_pred             CCCchhhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCccHHHHHHHHHHHHhcCChhhhHHHHHHhhhcCC-CcccchhH
Q 048743          173 IKPDTMIFNLVLHACVRFGSSLKGQHIMELMSQTGVVADAHSIIILAQIHEMNCQRDELKKFKCYIDQLST-PFAHHYQQ  251 (653)
Q Consensus       173 ~~~~~~~yn~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~-~~~~~~~~  251 (653)
                        -+..+|..+-.++.+.|++++|.+.|...      -|...|.-++.+|.+.|+++++.+.+....+... +.+     
T Consensus      1103 --n~p~vWsqLAKAql~~G~~kEAIdsYiKA------dD~say~eVa~~~~~lGkyEEAIeyL~mArk~~~e~~I----- 1169 (1630)
T 1xi4_A         1103 --NEPAVWSQLAKAQLQKGMVKEAIDSYIKA------DDPSSYMEVVQAANTSGNWEELVKYLQMARKKARESYV----- 1169 (1630)
T ss_pred             --CCHHHHHHHHHHHHhCCCHHHHHHHHHhc------CChHHHHHHHHHHHHcCCHHHHHHHHHHHHhhcccccc-----
Confidence              23567888889999999999999888553      3556677888999999999999998887766542 222     


Q ss_pred             HHHHHHHhhhccCCHHHHHHHHHHhcccCCCCCCchhhhcccccchhccCCCcccchhhhccchhhhHHHHHHhhhhhHH
Q 048743          252 FYESLLSLHFKFDDIDAAGELILDMNRYREPLPNPKLRQDAQKPYLISIGSPNLRCGLKLQIMPELLEKDSILKMEGKQE  331 (653)
Q Consensus       252 ~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  331 (653)
                       .+.+..+|++.+++++...+. .                                                        
T Consensus      1170 -dt~LafaYAKl~rleele~fI-~-------------------------------------------------------- 1191 (1630)
T 1xi4_A         1170 -ETELIFALAKTNRLAELEEFI-N-------------------------------------------------------- 1191 (1630)
T ss_pred             -cHHHHHHHHhhcCHHHHHHHH-h--------------------------------------------------------
Confidence             345888888888887543332 1                                                        


Q ss_pred             HHHHhcCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCC
Q 048743          332 LVLFRNGKLLHSNRAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGH  411 (653)
Q Consensus       332 ~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~  411 (653)
                               .|+...|..+-..|...|++++|..+|....          .|..+...|++.|+++.|.+.+++.     
T Consensus      1192 ---------~~n~ad~~~iGd~le~eg~YeeA~~~Y~kA~----------ny~rLA~tLvkLge~q~AIEaarKA----- 1247 (1630)
T 1xi4_A         1192 ---------GPNNAHIQQVGDRCYDEKMYDAAKLLYNNVS----------NFGRLASTLVHLGEYQAAVDGARKA----- 1247 (1630)
T ss_pred             ---------CCCHHHHHHHHHHHHhcCCHHHHHHHHHhhh----------HHHHHHHHHHHhCCHHHHHHHHHHh-----
Confidence                     1344556667778888888888888888741          3888888888888888888888765     


Q ss_pred             CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCccCchhhHHHHhhHHHHhhhcccccccccccCCHHHHHHHHHHHH
Q 048743          412 PMDSTTYKSLLTAYYKVKMFREAEALLKQMRKSCLVQNLSCEMVVSERFSEVADKSASFTDTSSLMDKSDLAESLIQEMR  491 (653)
Q Consensus       412 ~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~  491 (653)
                       .+..+|..+-.+|...|++..|......+.   ..|+....++                ..|.+.|.+++|..+++.-.
T Consensus      1248 -~n~~aWkev~~acve~~Ef~LA~~cgl~Ii---v~~deLeeli----------------~yYe~~G~feEAI~LlE~aL 1307 (1630)
T 1xi4_A         1248 -NSTRTWKEVCFACVDGKEFRLAQMCGLHIV---VHADELEELI----------------NYYQDRGYFEELITMLEAAL 1307 (1630)
T ss_pred             -CCHHHHHHHHHHHhhhhHHHHHHHHHHhhh---cCHHHHHHHH----------------HHHHHcCCHHHHHHHHHHHh
Confidence             256777777777877777777766554321   2233222111                12445788888888886655


Q ss_pred             HccCCCCHHHHHHHHHHHHcC--CCHHHHHHHHHHHHhcCCCC------CHHHHHHHHHHHhccCCHHHHH
Q 048743          492 EEAALSTIYKLNSSIYFFCKG--KMIGDALKIYRRMQEMKIRP------TVETFYYLVYGHSSLEMYRDIT  554 (653)
Q Consensus       492 ~~~~~p~~~~y~~li~~~~~~--g~~~~a~~~~~~m~~~g~~p------~~~t~~~li~~~~~~~~~~~a~  554 (653)
                      ... .-....|+-|...|++.  ++..+++++|..-.  +++|      +...|.-++-.|.+.|+++.|.
T Consensus      1308 ~Le-raH~gmftELaiLyaKy~peklmEhlk~f~~ri--ni~k~~r~~e~~~lW~elv~LY~~~~e~dnA~ 1375 (1630)
T 1xi4_A         1308 GLE-RAHMGMFTELAILYSKFKPQKMREHLELFWSRV--NIPKVLRAAEQAHLWAELVFLYDKYEEYDNAI 1375 (1630)
T ss_pred             ccC-hhHhHHHHHHHHHHHhCCHHHHHHHHHHHHHhc--ccchHhHHHHHHHHHHHHHHHHHhcccHHHHH
Confidence            433 11444565555555543  34555555555322  2222      4556777777777788877776

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.63  E-value=5.4e-14  Score=141.81  Aligned_cols=279  Identities=11%  Similarity=-0.084  Sum_probs=188.7

Q ss_pred             cCCCCchhhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCccHHHHHHHHHHHHhcCChhhhHHHHHHhhhcCCCcccchh
Q 048743          171 ELIKPDTMIFNLVLHACVRFGSSLKGQHIMELMSQTGVVADAHSIIILAQIHEMNCQRDELKKFKCYIDQLSTPFAHHYQ  250 (653)
Q Consensus       171 ~~~~~~~~~yn~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~  250 (653)
                      ..+..+...|..+...+.+.|++++|.++|+.+.+.. ..+..++..+..++...|++++|.+.++......+..    .
T Consensus        59 ~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~----~  133 (365)
T 4eqf_A           59 ENPFKDWPGAFEEGLKRLKEGDLPVTILFMEAAILQD-PGDAEAWQFLGITQAENENEQAAIVALQRCLELQPNN----L  133 (365)
T ss_dssp             SCTTTTCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTC----H
T ss_pred             CCcccchhHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCC----H
Confidence            3334466779999999999999999999999999864 2356678999999999999999999999998765332    3


Q ss_pred             HHHHHHHHhhhccCCHHHHHHHHHHhcccCCCCCCchhhhcccccchhccCCCcccchhhhccchhhhHHHHHHhhhhhH
Q 048743          251 QFYESLLSLHFKFDDIDAAGELILDMNRYREPLPNPKLRQDAQKPYLISIGSPNLRCGLKLQIMPELLEKDSILKMEGKQ  330 (653)
Q Consensus       251 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  330 (653)
                      .++..+..+|...|++++|...|+++.+..   |           ....                               
T Consensus       134 ~~~~~l~~~~~~~g~~~~A~~~~~~al~~~---p-----------~~~~-------------------------------  168 (365)
T 4eqf_A          134 KALMALAVSYTNTSHQQDACEALKNWIKQN---P-----------KYKY-------------------------------  168 (365)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC---H-----------HHHC-------------------------------
T ss_pred             HHHHHHHHHHHccccHHHHHHHHHHHHHhC---c-----------cchH-------------------------------
Confidence            479999999999999999999999984210   0           0000                               


Q ss_pred             HHHHHhcCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCC--CcccHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 048743          331 ELVLFRNGKLLHSNRAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFG--ESTLCSDVIDALIQLGFLEAAHDILDDMEL  408 (653)
Q Consensus       331 ~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~--~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  408 (653)
                           ...........+..+...+.+.|++++|...|+++.+..  |.  +..+|..+...|.+.|++++|...|++..+
T Consensus       169 -----~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~  241 (365)
T 4eqf_A          169 -----LVKNKKGSPGLTRRMSKSPVDSSVLEGVKELYLEAAHQN--GDMIDPDLQTGLGVLFHLSGEFNRAIDAFNAALT  241 (365)
T ss_dssp             -----C-------------------CCHHHHHHHHHHHHHHHHS--CSSCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             -----HHhhhccchHHHHHHHHHHhhhhhHHHHHHHHHHHHHhC--cCccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence                 000000112234456677778888888888888887776  44  566677777778888888888888877766


Q ss_pred             CCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCccCchhhHHHHhhHHHHhhhcccccccccccCCHHHHHHHHH
Q 048743          409 AGHPMDSTTYKSLLTAYYKVKMFREAEALLKQMRKSCLVQNLSCEMVVSERFSEVADKSASFTDTSSLMDKSDLAESLIQ  488 (653)
Q Consensus       409 ~g~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~a~~~~~  488 (653)
                      .. +.+..+|..+..+|.+.|++++|...|++..+.  .|+                                       
T Consensus       242 ~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~--~p~---------------------------------------  279 (365)
T 4eqf_A          242 VR-PEDYSLWNRLGATLANGDRSEEAVEAYTRALEI--QPG---------------------------------------  279 (365)
T ss_dssp             HC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTT---------------------------------------
T ss_pred             hC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCC---------------------------------------
Confidence            43 335667777777777777777777777776653  232                                       


Q ss_pred             HHHHccCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCC-----------CCHHHHHHHHHHHhccCCHHHHHHHH
Q 048743          489 EMREEAALSTIYKLNSSIYFFCKGKMIGDALKIYRRMQEMKIR-----------PTVETFYYLVYGHSSLEMYRDITILW  557 (653)
Q Consensus       489 ~m~~~~~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~-----------p~~~t~~~li~~~~~~~~~~~a~~~~  557 (653)
                               +..+|..+...|.+.|++++|.+.|++..+....           .+...|..+..++...|+.+.+..+.
T Consensus       280 ---------~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~  350 (365)
T 4eqf_A          280 ---------FIRSRYNLGISCINLGAYREAVSNFLTALSLQRKSRNQQQVPHPAISGNIWAALRIALSLMDQPELFQAAN  350 (365)
T ss_dssp             ---------CHHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHHCC------------CHHHHHHHHHHHHHTCHHHHHHHH
T ss_pred             ---------chHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcccCCCcccchhhhHHHHHHHHHHHHHHcCcHHHHHHHH
Confidence                     3455667777777777777777777777653110           02455666666666666666665554

>1b89_A Protein (clathrin heavy chain); triskelion, coated vesicles, endocytosis, SELF- assembly, alpha-alpha superhelix; 2.60A {Bos taurus} SCOP: a.118.1.3

Probab=99.63  E-value=4.3e-15  Score=147.05  Aligned_cols=283  Identities=14%  Similarity=0.099  Sum_probs=125.5

Q ss_pred             HHhhhhhhhhcCCccCCCCchhhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCccHHHHHHHHHHHHhcCChhhhHHHHH
Q 048743          157 DVFLHLSAEKSNGAELIKPDTMIFNLVLHACVRFGSSLKGQHIMELMSQTGVVADAHSIIILAQIHEMNCQRDELKKFKC  236 (653)
Q Consensus       157 ~~~~~~~~a~~~~~~~~~~~~~~yn~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~  236 (653)
                      ...|+++.|.+.+++...|  .+|..|..++.+.|++++|.+.|..      .+|..+|..++.++...|++++|.+.++
T Consensus        14 ~~~~~ld~A~~fae~~~~~--~vWs~La~A~l~~g~~~eAIdsfik------a~D~~~y~~V~~~ae~~g~~EeAi~yl~   85 (449)
T 1b89_A           14 EHIGNLDRAYEFAERCNEP--AVWSQLAKAQLQKGMVKEAIDSYIK------ADDPSSYMEVVQAANTSGNWEELVKYLQ   85 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HHccCHHHHHHHHHhCCCh--HHHHHHHHHHHHcCCHHHHHHHHHc------CCCHHHHHHHHHHHHhCCCHHHHHHHHH
Confidence            3456789999999988655  4999999999999999999999965      3677899999999999999999999888


Q ss_pred             HhhhcCCCcccchhHHHHHHHHhhhccCCHHHHHHHHHHhcccCCCCCCchhhhcccccchhccCCCcccchhhhccchh
Q 048743          237 YIDQLSTPFAHHYQQFYESLLSLHFKFDDIDAAGELILDMNRYREPLPNPKLRQDAQKPYLISIGSPNLRCGLKLQIMPE  316 (653)
Q Consensus       237 ~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  316 (653)
                      ...+..     ++..+.+.|+.+|.+.|+++++.++++                                          
T Consensus        86 ~ark~~-----~~~~i~~~Li~~Y~Klg~l~e~e~f~~------------------------------------------  118 (449)
T 1b89_A           86 MARKKA-----RESYVETELIFALAKTNRLAELEEFIN------------------------------------------  118 (449)
T ss_dssp             ----------------------------CHHHHTTTTT------------------------------------------
T ss_pred             HHHHhC-----ccchhHHHHHHHHHHhCCHHHHHHHHc------------------------------------------
Confidence            776632     223468999999999999999876652                                          


Q ss_pred             hhHHHHHHhhhhhHHHHHHhcCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCH
Q 048743          317 LLEKDSILKMEGKQELVLFRNGKLLHSNRAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFL  396 (653)
Q Consensus       317 ~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~  396 (653)
                                              .|+..+|..+...|...|++++|..+|..+          ..|..+..++.+.|++
T Consensus       119 ------------------------~pn~~a~~~IGd~~~~~g~yeeA~~~Y~~a----------~n~~~LA~~L~~Lg~y  164 (449)
T 1b89_A          119 ------------------------GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV----------SNFGRLASTLVHLGEY  164 (449)
T ss_dssp             ------------------------CC----------------CTTTHHHHHHHT----------TCHHHHHHHHHTTTCH
T ss_pred             ------------------------CCcHHHHHHHHHHHHHcCCHHHHHHHHHHh----------hhHHHHHHHHHHhccH
Confidence                                    255668999999999999999999999977          2399999999999999


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCccCchhhHHHHhhHHHHhhhcccccccccc
Q 048743          397 EAAHDILDDMELAGHPMDSTTYKSLLTAYYKVKMFREAEALLKQMRKSCLVQNLSCEMVVSERFSEVADKSASFTDTSSL  476 (653)
Q Consensus       397 ~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~~~~~  476 (653)
                      ++|.+.+.++      .++.+|..++.+|...|+++.|......+   .+.|+....+                ...|.+
T Consensus       165 q~AVea~~KA------~~~~~Wk~v~~aCv~~~ef~lA~~~~l~L---~~~ad~l~~l----------------v~~Yek  219 (449)
T 1b89_A          165 QAAVDGARKA------NSTRTWKEVCFACVDGKEFRLAQMCGLHI---VVHADELEEL----------------INYYQD  219 (449)
T ss_dssp             HHHHHHHHHH------TCHHHHHHHHHHHHHTTCHHHHHHTTTTT---TTCHHHHHHH----------------HHHHHH
T ss_pred             HHHHHHHHHc------CCchhHHHHHHHHHHcCcHHHHHHHHHHH---HhCHhhHHHH----------------HHHHHH
Confidence            9999999988      27999999999999999999995544332   1334431111                123567


Q ss_pred             cCCHHHHHHHHHHHHHccCCCCHHHHHHHHHHHHcCC--CHHHHHHHHHHHHhcCCCC------CHHHHHHHHHHHhccC
Q 048743          477 MDKSDLAESLIQEMREEAALSTIYKLNSSIYFFCKGK--MIGDALKIYRRMQEMKIRP------TVETFYYLVYGHSSLE  548 (653)
Q Consensus       477 ~~~~~~a~~~~~~m~~~~~~p~~~~y~~li~~~~~~g--~~~~a~~~~~~m~~~g~~p------~~~t~~~li~~~~~~~  548 (653)
                      .|++++|..+++...... .-....|+-|--.|++.+  ++.+.+++|..  +.+++|      +...|.-+.-.|...+
T Consensus       220 ~G~~eEai~lLe~aL~le-~ah~~~ftel~il~~ky~p~k~~ehl~~~~~--~ini~k~~~~~~~~~~w~e~~~ly~~~~  296 (449)
T 1b89_A          220 RGYFEELITMLEAALGLE-RAHMGMFTELAILYSKFKPQKMREHLELFWS--RVNIPKVLRAAEQAHLWAELVFLYDKYE  296 (449)
T ss_dssp             TTCHHHHHHHHHHHTTST-TCCHHHHHHHHHHHHTTCHHHHHHHHHHHST--TSCHHHHHHHHHTTTCHHHHHHHHHHTT
T ss_pred             CCCHHHHHHHHHHHhCCc-HHHHHHHHHHHHHHHhcCHHHHHHHHHHHHH--HhcCcHHHHHHHHHHHHHHHHHHHHhhc
Confidence            999999999999887554 236777888887787653  44555555442  233444      4566777888888888


Q ss_pred             CHHHHHHH
Q 048743          549 MYRDITIL  556 (653)
Q Consensus       549 ~~~~a~~~  556 (653)
                      +++.|...
T Consensus       297 e~d~A~~t  304 (449)
T 1b89_A          297 EYDNAIIT  304 (449)
T ss_dssp             CHHHHHHH
T ss_pred             hHHHHHHH
Confidence            88877653

>1fch_A Peroxisomal targeting signal 1 receptor; protein-peptide complex, tetratricopeptide repeat, TPR, helical repeat, signaling protein; 2.20A {Homo sapiens} SCOP: a.118.8.1 PDB: 2j9q_A 3imz_B* 3r9a_B* 2c0m_A 2c0l_A

Probab=99.63  E-value=5.9e-14  Score=141.62  Aligned_cols=282  Identities=12%  Similarity=-0.039  Sum_probs=203.0

Q ss_pred             CchhhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCccHHHHHHHHHHHHhcCChhhhHHHHHHhhhcCCCcccchhHHHH
Q 048743          175 PDTMIFNLVLHACVRFGSSLKGQHIMELMSQTGVVADAHSIIILAQIHEMNCQRDELKKFKCYIDQLSTPFAHHYQQFYE  254 (653)
Q Consensus       175 ~~~~~yn~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~  254 (653)
                      .+...+..+...+.+.|++++|...|+++.+.. ..+..++..+..++.+.|++++|.+.++...+..+.    +..++.
T Consensus        62 ~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~----~~~~~~  136 (368)
T 1fch_A           62 RDHPQPFEEGLRRLQEGDLPNAVLLFEAAVQQD-PKHMEAWQYLGTTQAENEQELLAISALRRCLELKPD----NQTALM  136 (368)
T ss_dssp             TTCSSHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT----CHHHHH
T ss_pred             cchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHhcCCC----CHHHHH
Confidence            356778899999999999999999999999863 335566889999999999999999999998876533    234789


Q ss_pred             HHHHhhhccCCHHHHHHHHHHhcccCCCCCCchhhhcccccchhccCCCcccchhhhccchhhhHHHHHHhhhhhHHHHH
Q 048743          255 SLLSLHFKFDDIDAAGELILDMNRYREPLPNPKLRQDAQKPYLISIGSPNLRCGLKLQIMPELLEKDSILKMEGKQELVL  334 (653)
Q Consensus       255 ~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  334 (653)
                      .+..+|...|++++|...|+++.+.....+...              ...   +.                         
T Consensus       137 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~--------------~~~---~~-------------------------  174 (368)
T 1fch_A          137 ALAVSFTNESLQRQACEILRDWLRYTPAYAHLV--------------TPA---EE-------------------------  174 (368)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHTSTTTGGGC--------------C--------------------------------
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhCcCcHHHH--------------HHH---HH-------------------------
Confidence            999999999999999999999854211000000              000   00                         


Q ss_pred             HhcCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCC--CcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCC
Q 048743          335 FRNGKLLHSNRAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFG--ESTLCSDVIDALIQLGFLEAAHDILDDMELAGHP  412 (653)
Q Consensus       335 ~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~--~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~  412 (653)
                       ......+.. .+. .+..+...|++++|...|+++.+..  |.  +..++..+...|.+.|++++|...|++..+.. +
T Consensus       175 -~~~~~~~~~-~~~-~~~~~~~~~~~~~A~~~~~~a~~~~--p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-~  248 (368)
T 1fch_A          175 -GAGGAGLGP-SKR-ILGSLLSDSLFLEVKELFLAAVRLD--PTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVR-P  248 (368)
T ss_dssp             -------------C-TTHHHHHHHHHHHHHHHHHHHHHHS--TTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-T
T ss_pred             -HhhhhcccH-HHH-HHHHHhhcccHHHHHHHHHHHHHhC--cCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-c
Confidence             000000110 111 2333337788888888888888776  44  56678888888888888888888888887653 3


Q ss_pred             CCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCccCchhhHHHHhhHHHHhhhcccccccccccCCHHHHHHHHHHHHH
Q 048743          413 MDSTTYKSLLTAYYKVKMFREAEALLKQMRKSCLVQNLSCEMVVSERFSEVADKSASFTDTSSLMDKSDLAESLIQEMRE  492 (653)
Q Consensus       413 p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~  492 (653)
                      .+..+|..+...+.+.|++++|...|++..+.  .|+                                           
T Consensus       249 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~--~~~-------------------------------------------  283 (368)
T 1fch_A          249 NDYLLWNKLGATLANGNQSEEAVAAYRRALEL--QPG-------------------------------------------  283 (368)
T ss_dssp             TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTT-------------------------------------------
T ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCC-------------------------------------------
Confidence            35778888888888888888888888887663  233                                           


Q ss_pred             ccCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCC----------CHHHHHHHHHHHhccCCHHHHHHHHHH
Q 048743          493 EAALSTIYKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRP----------TVETFYYLVYGHSSLEMYRDITILWGD  559 (653)
Q Consensus       493 ~~~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p----------~~~t~~~li~~~~~~~~~~~a~~~~~~  559 (653)
                           +..+|..+...|.+.|++++|.+.|++..+.....          ...+|..+..++...|+.++|..++..
T Consensus       284 -----~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  355 (368)
T 1fch_A          284 -----YIRSRYNLGISCINLGAHREAVEHFLEALNMQRKSRGPRGEGGAMSENIWSTLRLALSMLGQSDAYGAADAR  355 (368)
T ss_dssp             -----CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTC------CCCCCHHHHHHHHHHHHHHTCGGGHHHHHTT
T ss_pred             -----cHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCCCccccccchhhHHHHHHHHHHHHhCChHhHHHhHHH
Confidence                 45567778888888888888888888877632111          156788888888888888888877753

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.62  E-value=2.4e-11  Score=128.96  Aligned_cols=219  Identities=11%  Similarity=0.048  Sum_probs=149.1

Q ss_pred             HHHHHHHHHHHhcCCCCCCcccHHHHHHHHHH-------cCCHH-------HHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 048743          361 SELSWLLLSIKKEHHSFGESTLCSDVIDALIQ-------LGFLE-------AAHDILDDMELAGHPMDSTTYKSLLTAYY  426 (653)
Q Consensus       361 ~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~-------~g~~~-------~a~~~~~~m~~~g~~p~~~~~~~li~~~~  426 (653)
                      +++..+|++.....  |.+...|..+...+.+       .|+++       +|..+|++..+.-.+-+...|..+...+.
T Consensus       255 ~~a~~~y~~al~~~--p~~~~~w~~~~~~~~~~~~~~~~~g~~~~a~~~~~~A~~~~~~Al~~~~p~~~~l~~~~~~~~~  332 (530)
T 2ooe_A          255 KRVMFAYEQCLLVL--GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEE  332 (530)
T ss_dssp             HHHHHHHHHHHHHH--TTCHHHHHHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHhchhhhhccchhhhhhhhHHHHHHHHHHHHHhCcccHHHHHHHHHHHH
Confidence            36778888888776  7777778888888876       68876       88999998876323446888889999999


Q ss_pred             HcCChHHHHHHHHHHHHcCCccCchhhHHHHhhHHHHhhhcccccccccccCCHHHHHHHHHHHHHccCCC-CHHHHHHH
Q 048743          427 KVKMFREAEALLKQMRKSCLVQNLSCEMVVSERFSEVADKSASFTDTSSLMDKSDLAESLIQEMREEAALS-TIYKLNSS  505 (653)
Q Consensus       427 ~~~~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~~y~~l  505 (653)
                      +.|++++|..+|+...+  +.|+... .+......           .+.+.|+.+.|..+|++..+..  | +...|-..
T Consensus       333 ~~g~~~~A~~~~~~al~--~~p~~~~-~~~~~~~~-----------~~~~~~~~~~A~~~~~~Al~~~--~~~~~~~~~~  396 (530)
T 2ooe_A          333 SRMKYEKVHSIYNRLLA--IEDIDPT-LVYIQYMK-----------FARRAEGIKSGRMIFKKAREDA--RTRHHVYVTA  396 (530)
T ss_dssp             HTTCHHHHHHHHHHHHH--SSSSCHH-HHHHHHHH-----------HHHHHHHHHHHHHHHHHHHTCT--TCCTHHHHHH
T ss_pred             hcCCHHHHHHHHHHHhC--ccccCch-HHHHHHHH-----------HHHHhcCHHHHHHHHHHHHhcc--CCchHHHHHH
Confidence            99999999999999987  3454311 11111100           1123567888888888777642  3 22223222


Q ss_pred             HHH-HHcCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHHhhhCCCcc--CHHHHHHHHHH
Q 048743          506 IYF-FCKGKMIGDALKIYRRMQEMKIRPTVETFYYLVYGHSSLEMYRDITILWGDIKRNIESGVLAV--SRDLYETLLLN  582 (653)
Q Consensus       506 i~~-~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~p--~~~~y~~li~~  582 (653)
                      ... +...|+.++|..+|++..+.. +-+...|..++..+.+.|+.++|..+|+....   .....|  ....|...+..
T Consensus       397 a~~~~~~~~~~~~A~~~~e~al~~~-p~~~~~~~~~~~~~~~~g~~~~Ar~~~~~al~---~~~~~~~~~~~lw~~~~~~  472 (530)
T 2ooe_A          397 ALMEYYCSKDKSVAFKIFELGLKKY-GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLT---SGSLPPEKSGEIWARFLAF  472 (530)
T ss_dssp             HHHHHHHTCCHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHH---SCCSCGGGCHHHHHHHHHH
T ss_pred             HHHHHHHcCChhHHHHHHHHHHHHC-CCCHHHHHHHHHHHHhCCCHhhHHHHHHHHHh---ccCCCHHHHHHHHHHHHHH
Confidence            211 235788888888888877642 22466777888888888888888888877652   222233  35577777777


Q ss_pred             HHhCCCHHHHHHHHHHHHh
Q 048743          583 FLQGGYFERVMEVIGYMKK  601 (653)
Q Consensus       583 ~~~~g~~~~a~~~~~~m~~  601 (653)
                      ....|+.+.+..+++++.+
T Consensus       473 e~~~G~~~~~~~~~~r~~~  491 (530)
T 2ooe_A          473 ESNIGDLASILKVEKRRFT  491 (530)
T ss_dssp             HHHSSCHHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHH
Confidence            7778888888888877764

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.60  E-value=6.3e-14  Score=141.31  Aligned_cols=234  Identities=10%  Similarity=-0.024  Sum_probs=139.5

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCC---------CC
Q 048743          344 NRAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHP---------MD  414 (653)
Q Consensus       344 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~---------p~  414 (653)
                      ..+|..+...+.+.|++++|...|++..+..  |.+..+|..+...|.+.|++++|...|+++.+....         ..
T Consensus        99 ~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~  176 (365)
T 4eqf_A           99 AEAWQFLGITQAENENEQAAIVALQRCLELQ--PNNLKALMALAVSYTNTSHQQDACEALKNWIKQNPKYKYLVKNKKGS  176 (365)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCHHHHCC-------
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--CCCHHHHHHHHHHHHccccHHHHHHHHHHHHHhCccchHHHhhhccc
Confidence            3445555555555555656665555555544  444455555555555566666666655555442100         00


Q ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCccC--c-hhhHHHHhhHHHHhhhcccccccccccCCHHHHHHHHHHHH
Q 048743          415 STTYKSLLTAYYKVKMFREAEALLKQMRKSCLVQN--L-SCEMVVSERFSEVADKSASFTDTSSLMDKSDLAESLIQEMR  491 (653)
Q Consensus       415 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~--~-~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~  491 (653)
                      ...+..+...+.+.|++++|...|+++.+.  .|+  . .....+.              ..|...|++++|...|++..
T Consensus       177 ~~~~~~l~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~~~l~--------------~~~~~~g~~~~A~~~~~~al  240 (365)
T 4eqf_A          177 PGLTRRMSKSPVDSSVLEGVKELYLEAAHQ--NGDMIDPDLQTGLG--------------VLFHLSGEFNRAIDAFNAAL  240 (365)
T ss_dssp             ------------CCHHHHHHHHHHHHHHHH--SCSSCCHHHHHHHH--------------HHHHHHTCHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHhhhhhHHHHHHHHHHHHHh--CcCccCHHHHHHHH--------------HHHHHCCCHHHHHHHHHHHH
Confidence            122233355555566666666666666553  232  1 0000000              11223556666666666555


Q ss_pred             HccCCC-CHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHHhhhCCC-
Q 048743          492 EEAALS-TIYKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRPTVETFYYLVYGHSSLEMYRDITILWGDIKRNIESGVL-  569 (653)
Q Consensus       492 ~~~~~p-~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~-  569 (653)
                      +..  | +..+|+.+...|...|++++|++.|++..+.. +.+..++..+..+|...|++++|...++.+.+......- 
T Consensus       241 ~~~--p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~  317 (365)
T 4eqf_A          241 TVR--PEDYSLWNRLGATLANGDRSEEAVEAYTRALEIQ-PGFIRSRYNLGISCINLGAYREAVSNFLTALSLQRKSRNQ  317 (365)
T ss_dssp             HHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHHCC---
T ss_pred             HhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcccCCC
Confidence            443  3 67789999999999999999999999998853 234778899999999999999999999988755322111 


Q ss_pred             ------ccCHHHHHHHHHHHHhCCCHHHHHHHHHH
Q 048743          570 ------AVSRDLYETLLLNFLQGGYFERVMEVIGY  598 (653)
Q Consensus       570 ------~p~~~~y~~li~~~~~~g~~~~a~~~~~~  598 (653)
                            ..+...|..+..++...|+.+.+.++.++
T Consensus       318 ~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  352 (365)
T 4eqf_A          318 QQVPHPAISGNIWAALRIALSLMDQPELFQAANLG  352 (365)
T ss_dssp             ---------CHHHHHHHHHHHHHTCHHHHHHHHTT
T ss_pred             cccchhhhHHHHHHHHHHHHHHcCcHHHHHHHHHh
Confidence                  11357788999999999999888877654

>3cv0_A Peroxisome targeting signal 1 receptor PEX5; TPR motifs, TPR protein, peroxin 5, PEX5, PTS1 binding domain, protein-peptide complex, receptor; 2.00A {Trypanosoma brucei} PDB: 3cvl_A 3cvn_A 3cvp_A 3cvq_A

Probab=99.59  E-value=2.2e-13  Score=134.83  Aligned_cols=280  Identities=9%  Similarity=-0.078  Sum_probs=190.3

Q ss_pred             CchhhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCccHHHHHHHHHHHHhcCChhhhHHHHHHhhhcCCCcccchhHHHH
Q 048743          175 PDTMIFNLVLHACVRFGSSLKGQHIMELMSQTGVVADAHSIIILAQIHEMNCQRDELKKFKCYIDQLSTPFAHHYQQFYE  254 (653)
Q Consensus       175 ~~~~~yn~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~  254 (653)
                      .+...|..+...+.+.|++++|..+|+++.+.. ..+...+..+..++...|++++|.+.++.+.+..+..    ..++.
T Consensus        19 ~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~----~~~~~   93 (327)
T 3cv0_A           19 MYHENPMEEGLSMLKLANLAEAALAFEAVCQAA-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPKD----IAVHA   93 (327)
T ss_dssp             GGSSCHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTC----HHHHH
T ss_pred             hhhHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCcCC----HHHHH
Confidence            355677888899999999999999999998864 2355668889999999999999999999988765332    34688


Q ss_pred             HHHHhhhccCCHHHHHHHHHHhcccCCCCCCchhhhcccccchhccCCCcccchhhhccchhhhHHHHHHhhhhhHHHHH
Q 048743          255 SLLSLHFKFDDIDAAGELILDMNRYREPLPNPKLRQDAQKPYLISIGSPNLRCGLKLQIMPELLEKDSILKMEGKQELVL  334 (653)
Q Consensus       255 ~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  334 (653)
                      .+...|...|++++|.+.+++..+.....+....                                              
T Consensus        94 ~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~----------------------------------------------  127 (327)
T 3cv0_A           94 ALAVSHTNEHNANAALASLRAWLLSQPQYEQLGS----------------------------------------------  127 (327)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHTSTTTTTC------------------------------------------------
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhCCccHHHHH----------------------------------------------
Confidence            9999999999999999999998432110000000                                              


Q ss_pred             HhcCCCCCCHHHHHHHHH--HHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCC
Q 048743          335 FRNGKLLHSNRAMAKLIN--GYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHP  412 (653)
Q Consensus       335 ~~~~~~~p~~~~~~~li~--~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~  412 (653)
                       ......|+......+..  .+...|++++|...++++.+..  +.+..++..+...|.+.|++++|...+++..+.. +
T Consensus       128 -~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~  203 (327)
T 3cv0_A          128 -VNLQADVDIDDLNVQSEDFFFAAPNEYRECRTLLHAALEMN--PNDAQLHASLGVLYNLSNNYDSAAANLRRAVELR-P  203 (327)
T ss_dssp             -------------------CCTTSHHHHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-T
T ss_pred             -HHhHHHHHHHHHHHHHHhHHHHHcccHHHHHHHHHHHHhhC--CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-C
Confidence             00000111111111212  2556677788888888877766  5566667777777777888888888887776643 2


Q ss_pred             CCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCccCchhhHHHHhhHHHHhhhcccccccccccCCHHHHHHHHHHHHH
Q 048743          413 MDSTTYKSLLTAYYKVKMFREAEALLKQMRKSCLVQNLSCEMVVSERFSEVADKSASFTDTSSLMDKSDLAESLIQEMRE  492 (653)
Q Consensus       413 p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~  492 (653)
                      .+..+|..+...+...|++++|...|++..+.  .|+                                           
T Consensus       204 ~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~--~~~-------------------------------------------  238 (327)
T 3cv0_A          204 DDAQLWNKLGATLANGNRPQEALDAYNRALDI--NPG-------------------------------------------  238 (327)
T ss_dssp             TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTT-------------------------------------------
T ss_pred             CcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc--CCC-------------------------------------------
Confidence            35666777777777777777777777776553  232                                           


Q ss_pred             ccCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCC-----------CHHHHHHHHHHHhccCCHHHHHHHHHH
Q 048743          493 EAALSTIYKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRP-----------TVETFYYLVYGHSSLEMYRDITILWGD  559 (653)
Q Consensus       493 ~~~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p-----------~~~t~~~li~~~~~~~~~~~a~~~~~~  559 (653)
                           +..+|..+...|...|++++|.+.|++..+.....           +..++..+..++...|+.++|..+++.
T Consensus       239 -----~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  311 (327)
T 3cv0_A          239 -----YVRVMYNMAVSYSNMSQYDLAAKQLVRAIYMQVGGTTPTGEASREATRSMWDFFRMLLNVMNRPDLVELTYAQ  311 (327)
T ss_dssp             -----CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTSCC-----CCTHHHHHHHHHHHHHHHTTCHHHHHHHTTC
T ss_pred             -----CHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCccccccccchhhcCHHHHHHHHHHHHhcCCHHHHHHHHHH
Confidence                 34456677777788888888888888777642221           355667777777777777777777653

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.59  E-value=3.5e-11  Score=127.66  Aligned_cols=422  Identities=9%  Similarity=-0.008  Sum_probs=261.3

Q ss_pred             cccchHHHHHHHHHHHHhccchhHHHHHHHHhhhhcCCCCc-hhHHHHHHHhhccCCcchhhhHHHHHHHHHhccCCchh
Q 048743           14 WEGSSREVLLRKLESASKNHQVGEAWETFNDFQRLHGIPER-HVVNRFITDLCYSAEPHWLQKACDLVLKIQKGKADLLQ   92 (653)
Q Consensus        14 ~~~p~~~~~~~~i~~~~~~~~~~~A~~~~~~~~~~~~~~~~-~~~~~ll~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~   92 (653)
                      .++-+..++..++. +.+.|+++.|..+|+.+.+.  .|.. ..|..++....+.|+   .++|..+|.+.....   |+
T Consensus         8 ~~P~~~~~w~~l~~-~~~~~~~~~a~~~~e~al~~--~P~~~~~w~~~~~~~~~~~~---~~~a~~~~~ral~~~---p~   78 (530)
T 2ooe_A            8 ENPYDLDAWSILIR-EAQNQPIDKARKTYERLVAQ--FPSSGRFWKLYIEAEIKAKN---YDKVEKLFQRCLMKV---LH   78 (530)
T ss_dssp             HCTTCHHHHHHHHH-HHHSSCHHHHHHHHHHHHTT--CTTCHHHHHHHHHHHHHTTC---HHHHHHHHHHHTTTC---CC
T ss_pred             hCCCCHHHHHHHHH-HHHhCCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHhcCC---HHHHHHHHHHHHhcC---CC
Confidence            34446677878777 47788999999999998773  4544 467788888877777   788999998886654   45


Q ss_pred             HHHHHHHHHHH-HhcCCCchHHH----HHHHHHcC-ccCCCc-hhHHHHHHHHhhcccccccchHHHHHHHHHhhhhhhh
Q 048743           93 LDLLAKLSLSL-ARAQMPVPASM----ILRLMLGR-ENLPCS-DLLLLVFVHMVKTEIGTCLASNFLIQLCDVFLHLSAE  165 (653)
Q Consensus        93 ~~t~~~li~~~-~~~g~~~~a~~----~~~~m~~~-g~~p~~-~~~~~li~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  165 (653)
                      ...|...+... ...|+++.|.+    +|++..+. |..|+. ..|...+....... .                     
T Consensus        79 ~~lw~~~~~~~~~~~~~~~~a~~~~~~~~~~al~~~g~~~~~~~~w~~~~~~~~~~~-~---------------------  136 (530)
T 2ooe_A           79 IDLWKCYLSYVRETKGKLPSYKEKMAQAYDFALDKIGMEIMSYQIWVDYINFLKGVE-A---------------------  136 (530)
T ss_dssp             HHHHHHHHHHHHHHTTTSTTHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHSC-C---------------------
T ss_pred             hHHHHHHHHHHHHHccchhhHHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHHhcCC-C---------------------
Confidence            55666666433 34677777765    55555432 444432 23332222111000 0                     


Q ss_pred             hcCCccCCCCchhhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCccHHHHHHHHHHH-------------HhcCChhhhH
Q 048743          166 KSNGAELIKPDTMIFNLVLHACVRFGSSLKGQHIMELMSQTGVVADAHSIIILAQIH-------------EMNCQRDELK  232 (653)
Q Consensus       166 ~~~~~~~~~~~~~~yn~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~ll~~~-------------~~~g~~~~a~  232 (653)
                                 ..       .+.+.|+++.|..+|++..+....+....|.......             .+.+++..|.
T Consensus       137 -----------~~-------~~~~~~~~~~a~~~y~~al~~P~~~~~~~~~~~~~~e~~~~~~~~~~~l~~~~~~~~~A~  198 (530)
T 2ooe_A          137 -----------VG-------SYAENQRITAVRRVYQRGCVNPMINIEQLWRDYNKYEEGINIHLAKKMIEDRSRDYMNAR  198 (530)
T ss_dssp             -----------CS-------STTHHHHHHHHHHHHHHHTTSCCTTHHHHHHHHHHHHHHHCHHHHHHHHHTTHHHHHHHH
T ss_pred             -----------cc-------cHHHHhHHHHHHHHHHHHHhchhhhHHHHHHHHHHHHHhhchhHHHHHHHHhhHHHHHHH
Confidence                       00       0112445555555555554410000011121111100             1233445555


Q ss_pred             HHHHHhhh------cCCCcccc--------hhHHHHHHHHhhhc----cCCH----HHHHHHHHHhcccCCCCCCchhhh
Q 048743          233 KFKCYIDQ------LSTPFAHH--------YQQFYESLLSLHFK----FDDI----DAAGELILDMNRYREPLPNPKLRQ  290 (653)
Q Consensus       233 ~~~~~~~~------~~~~~~~~--------~~~~~~~li~~~~~----~g~~----~~A~~~~~~m~~~~~~~~~~~~~~  290 (653)
                      .+++.+..      ...+.+.+        ....|...+..-..    .++.    ..|..+|++...            
T Consensus       199 ~~~~~~~~~~~~l~~~~~~~~p~~~~~~~~~~~~w~~~~~~e~~~~~~~~~~~~~~~~a~~~y~~al~------------  266 (530)
T 2ooe_A          199 RVAKEYETVMKGLDRNAPSVPPQNTPQEAQQVDMWKKYIQWEKSNPLRTEDQTLITKRVMFAYEQCLL------------  266 (530)
T ss_dssp             HHHHHHHHHHHHCCSSSCCCCCC--CCHHHHHHHHHHHHHHHHHCSSCCSCSHHHHHHHHHHHHHHHH------------
T ss_pred             HHHHHHHHHHHHhccccccCCCCCChhHHHHHHHHHHHHHHHHcCCccCCcchhHHHHHHHHHHHHHH------------
Confidence            54443211      00000111        11234444322211    1222    244455555521            


Q ss_pred             cccccchhccCCCcccchhhhccchhhhHHHHHHhhhhhHHHHHHhcCCCCCCHHHHHHHHHHHHh-------cCChH--
Q 048743          291 DAQKPYLISIGSPNLRCGLKLQIMPELLEKDSILKMEGKQELVLFRNGKLLHSNRAMAKLINGYKK-------HGKNS--  361 (653)
Q Consensus       291 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~li~~~~~-------~~~~~--  361 (653)
                                                                    .  .+-+...|......+.+       .|+++  
T Consensus       267 ----------------------------------------------~--~p~~~~~w~~~~~~~~~~~~~~~~~g~~~~a  298 (530)
T 2ooe_A          267 ----------------------------------------------V--LGHHPDIWYEAAQYLEQSSKLLAEKGDMNNA  298 (530)
T ss_dssp             ----------------------------------------------H--HTTCHHHHHHHHHHHHHHHHHHHTTTCCHHH
T ss_pred             ----------------------------------------------h--CCCCHHHHHHHHHHHHHhchhhhhccchhhh
Confidence                                                          0  12245677777777765       79987  


Q ss_pred             -----HHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCC-H-HHHHHHHHHHHHcCChHHH
Q 048743          362 -----ELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMD-S-TTYKSLLTAYYKVKMFREA  434 (653)
Q Consensus       362 -----~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~-~-~~~~~li~~~~~~~~~~~a  434 (653)
                           +|..+|++..+.- .|.+...|..+...+.+.|++++|..+|++..+.  .|+ . ..|...+..+.+.|++++|
T Consensus       299 ~~~~~~A~~~~~~Al~~~-~p~~~~l~~~~~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~A  375 (530)
T 2ooe_A          299 KLFSDEAANIYERAISTL-LKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAI--EDIDPTLVYIQYMKFARRAEGIKSG  375 (530)
T ss_dssp             HHHHHHHHHHHHHHTTTT-CSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHS--SSSCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hhhhHHHHHHHHHHHHHh-CcccHHHHHHHHHHHHhcCCHHHHHHHHHHHhCc--cccCchHHHHHHHHHHHHhcCHHHH
Confidence                 8999999988621 2667778999999999999999999999999985  444 3 5899999999999999999


Q ss_pred             HHHHHHHHHcCCccCchhhHHHHhhHHHHhhhcccccccccccCCHHHHHHHHHHHHHccCCC-CHHHHHHHHHHHHcCC
Q 048743          435 EALLKQMRKSCLVQNLSCEMVVSERFSEVADKSASFTDTSSLMDKSDLAESLIQEMREEAALS-TIYKLNSSIYFFCKGK  513 (653)
Q Consensus       435 ~~~~~~m~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~~y~~li~~~~~~g  513 (653)
                      ..+|+...+.  .|......+ ......           |...|+.+.|..+|+...+..  | +...|..++..+.+.|
T Consensus       376 ~~~~~~Al~~--~~~~~~~~~-~~a~~~-----------~~~~~~~~~A~~~~e~al~~~--p~~~~~~~~~~~~~~~~g  439 (530)
T 2ooe_A          376 RMIFKKARED--ARTRHHVYV-TAALME-----------YYCSKDKSVAFKIFELGLKKY--GDIPEYVLAYIDYLSHLN  439 (530)
T ss_dssp             HHHHHHHHTC--TTCCTHHHH-HHHHHH-----------HHHTCCHHHHHHHHHHHHHHH--TTCHHHHHHHHHHHTTTT
T ss_pred             HHHHHHHHhc--cCCchHHHH-HHHHHH-----------HHHcCChhHHHHHHHHHHHHC--CCCHHHHHHHHHHHHhCC
Confidence            9999999874  343211111 111111           123799999999999888754  5 6889999999999999


Q ss_pred             CHHHHHHHHHHHHhcC-CCCC--HHHHHHHHHHHhccCCHHHHHHHHHHHHHH
Q 048743          514 MIGDALKIYRRMQEMK-IRPT--VETFYYLVYGHSSLEMYRDITILWGDIKRN  563 (653)
Q Consensus       514 ~~~~a~~~~~~m~~~g-~~p~--~~t~~~li~~~~~~~~~~~a~~~~~~~~~~  563 (653)
                      +.++|..+|++....+ ..|+  ...|...+.-....|+.+.+..+...+.+.
T Consensus       440 ~~~~Ar~~~~~al~~~~~~~~~~~~lw~~~~~~e~~~G~~~~~~~~~~r~~~~  492 (530)
T 2ooe_A          440 EDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRRFTA  492 (530)
T ss_dssp             CHHHHHHHHHHHHHSCCSCGGGCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHH
T ss_pred             CHhhHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            9999999999998863 2333  346777788888899999999999887644

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.59  E-value=9.7e-13  Score=127.40  Aligned_cols=199  Identities=14%  Similarity=0.049  Sum_probs=134.0

Q ss_pred             CCHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHH
Q 048743          342 HSNRAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTYKSL  421 (653)
Q Consensus       342 p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~l  421 (653)
                      |+..++..+...+...++.++|.+.++++...+..|.+...+..+...+.+.|++++|++.+++      +.+...+..+
T Consensus        63 ~~~~a~~~la~~~~~~~~~~~A~~~l~~ll~~~~~P~~~~~~~~la~~~~~~g~~~~Al~~l~~------~~~~~~~~~l  136 (291)
T 3mkr_A           63 PELQAVRMFAEYLASHSRRDAIVAELDREMSRSVDVTNTTFLLMAASIYFYDQNPDAALRTLHQ------GDSLECMAMT  136 (291)
T ss_dssp             HHHHHHHHHHHHHHCSTTHHHHHHHHHHHHHSCCCCSCHHHHHHHHHHHHHTTCHHHHHHHHTT------CCSHHHHHHH
T ss_pred             hhHHHHHHHHHHHcCCCcHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHCCCHHHHHHHHhC------CCCHHHHHHH
Confidence            4455667777778888888888888888776542355666566777888888888888888876      4577788888


Q ss_pred             HHHHHHcCChHHHHHHHHHHHHcCCccCchhhHHHHhhHHHHhhhcccccccccccCCHHHHHHHHHHHHHccCCCCHHH
Q 048743          422 LTAYYKVKMFREAEALLKQMRKSCLVQNLSCEMVVSERFSEVADKSASFTDTSSLMDKSDLAESLIQEMREEAALSTIYK  501 (653)
Q Consensus       422 i~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~  501 (653)
                      ...|.+.|++++|...|+.+.+.  .|+.....+....+. +          +...|++++|..+|+++.+.. +.+...
T Consensus       137 ~~~~~~~g~~~~A~~~l~~~~~~--~p~~~~~~l~~a~~~-l----------~~~~~~~~eA~~~~~~~l~~~-p~~~~~  202 (291)
T 3mkr_A          137 VQILLKLDRLDLARKELKKMQDQ--DEDATLTQLATAWVS-L----------AAGGEKLQDAYYIFQEMADKC-SPTLLL  202 (291)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHH-H----------HHCTTHHHHHHHHHHHHHHHS-CCCHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHhh--CcCcHHHHHHHHHHH-H----------HhCchHHHHHHHHHHHHHHhC-CCcHHH
Confidence            88888888888888888888775  355421111110000 0          112466777777777777652 236677


Q ss_pred             HHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCCHHH-HHHHHHHHH
Q 048743          502 LNSSIYFFCKGKMIGDALKIYRRMQEMKIRPTVETFYYLVYGHSSLEMYRD-ITILWGDIK  561 (653)
Q Consensus       502 y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~-a~~~~~~~~  561 (653)
                      |+.+..++.+.|++++|++.|++..+.. +-+..++..++..+...|+.++ +.++++.+.
T Consensus       203 ~~~la~~~~~~g~~~eA~~~l~~al~~~-p~~~~~l~~l~~~~~~~g~~~eaa~~~~~~~~  262 (291)
T 3mkr_A          203 LNGQAACHMAQGRWEAAEGVLQEALDKD-SGHPETLINLVVLSQHLGKPPEVTNRYLSQLK  262 (291)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHH
Confidence            7777777777777777777777777642 2245667777777777777755 456776665

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.57  E-value=6.9e-13  Score=128.45  Aligned_cols=215  Identities=10%  Similarity=0.032  Sum_probs=171.0

Q ss_pred             hhhhhhcCCccCCCCchhhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCccHHH-HHHHHHHHHhcCChhhhHHHHHHhh
Q 048743          161 HLSAEKSNGAELIKPDTMIFNLVLHACVRFGSSLKGQHIMELMSQTGVVADAHS-IIILAQIHEMNCQRDELKKFKCYID  239 (653)
Q Consensus       161 ~~~~a~~~~~~~~~~~~~~yn~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t-~~~ll~~~~~~g~~~~a~~~~~~~~  239 (653)
                      +++.|...++..-+|+..++..+...+...|+.++|++.++++...++.|+... +..+...+...|++++|.+.++.  
T Consensus        49 ~~~~al~~~~~~~~~~~~a~~~la~~~~~~~~~~~A~~~l~~ll~~~~~P~~~~~~~~la~~~~~~g~~~~Al~~l~~--  126 (291)
T 3mkr_A           49 KYGVVLDEIKPSSAPELQAVRMFAEYLASHSRRDAIVAELDREMSRSVDVTNTTFLLMAASIYFYDQNPDAALRTLHQ--  126 (291)
T ss_dssp             CHHHHHHHSCTTSCHHHHHHHHHHHHHHCSTTHHHHHHHHHHHHHSCCCCSCHHHHHHHHHHHHHTTCHHHHHHHHTT--
T ss_pred             CHHHHHHHhcccCChhHHHHHHHHHHHcCCCcHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHCCCHHHHHHHHhC--
Confidence            344444333333456778888899999999999999999999998877787665 55667889999999999999987  


Q ss_pred             hcCCCcccchhHHHHHHHHhhhccCCHHHHHHHHHHhcccCCCCCCchhhhcccccchhccCCCcccchhhhccchhhhH
Q 048743          240 QLSTPFAHHYQQFYESLLSLHFKFDDIDAAGELILDMNRYREPLPNPKLRQDAQKPYLISIGSPNLRCGLKLQIMPELLE  319 (653)
Q Consensus       240 ~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  319 (653)
                             ..+..++..+...|.+.|++++|.+.|+++.+                                         
T Consensus       127 -------~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~-----------------------------------------  158 (291)
T 3mkr_A          127 -------GDSLECMAMTVQILLKLDRLDLARKELKKMQD-----------------------------------------  158 (291)
T ss_dssp             -------CCSHHHHHHHHHHHHHTTCHHHHHHHHHHHHH-----------------------------------------
T ss_pred             -------CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHh-----------------------------------------
Confidence                   12334688999999999999999999999942                                         


Q ss_pred             HHHHHhhhhhHHHHHHhcCCCCCCHHHH---HHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCH
Q 048743          320 KDSILKMEGKQELVLFRNGKLLHSNRAM---AKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFL  396 (653)
Q Consensus       320 ~~~~~~~~~~~~~~~~~~~~~~p~~~~~---~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~  396 (653)
                                          ..|+....   ..++..+...|++++|..+|+++.+..  |.+...|+.+..++.+.|++
T Consensus       159 --------------------~~p~~~~~~l~~a~~~l~~~~~~~~eA~~~~~~~l~~~--p~~~~~~~~la~~~~~~g~~  216 (291)
T 3mkr_A          159 --------------------QDEDATLTQLATAWVSLAAGGEKLQDAYYIFQEMADKC--SPTLLLLNGQAACHMAQGRW  216 (291)
T ss_dssp             --------------------HCTTCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHS--CCCHHHHHHHHHHHHHTTCH
T ss_pred             --------------------hCcCcHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHhC--CCcHHHHHHHHHHHHHcCCH
Confidence                                12433211   223344456699999999999999987  88888899999999999999


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHH-HHHHHHHHHHcCCccCc
Q 048743          397 EAAHDILDDMELAGHPMDSTTYKSLLTAYYKVKMFRE-AEALLKQMRKSCLVQNL  450 (653)
Q Consensus       397 ~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~-a~~~~~~m~~~~~~p~~  450 (653)
                      ++|...|++..+.. +-+..++..++..+...|+.++ +..+++++.+  +.|+.
T Consensus       217 ~eA~~~l~~al~~~-p~~~~~l~~l~~~~~~~g~~~eaa~~~~~~~~~--~~P~~  268 (291)
T 3mkr_A          217 EAAEGVLQEALDKD-SGHPETLINLVVLSQHLGKPPEVTNRYLSQLKD--AHRSH  268 (291)
T ss_dssp             HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHH--HCTTC
T ss_pred             HHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHH--hCCCC
Confidence            99999999988754 3478899999999999999976 6789999887  45764

>3cv0_A Peroxisome targeting signal 1 receptor PEX5; TPR motifs, TPR protein, peroxin 5, PEX5, PTS1 binding domain, protein-peptide complex, receptor; 2.00A {Trypanosoma brucei} PDB: 3cvl_A 3cvn_A 3cvp_A 3cvq_A

Probab=99.56  E-value=9.4e-13  Score=130.21  Aligned_cols=234  Identities=13%  Similarity=-0.001  Sum_probs=140.2

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHH---
Q 048743          345 RAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTYKSL---  421 (653)
Q Consensus       345 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~l---  421 (653)
                      ..+..+...+...|++++|...++++.+..  |.+..++..+...|...|++++|...+++..+... .+...+..+   
T Consensus        56 ~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~~~~  132 (327)
T 3cv0_A           56 EAWRSLGLTQAENEKDGLAIIALNHARMLD--PKDIAVHAALAVSHTNEHNANAALASLRAWLLSQP-QYEQLGSVNLQA  132 (327)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTST-TTTTC-------
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-ccHHHHHHHhHH
Confidence            344445555555555555555555555444  44444455555555555555555555555544321 111111111   


Q ss_pred             -----------HH-HHHHcCChHHHHHHHHHHHHcCCccCchhhHHHHhhHHHHhhhcccccccccccCCHHHHHHHHHH
Q 048743          422 -----------LT-AYYKVKMFREAEALLKQMRKSCLVQNLSCEMVVSERFSEVADKSASFTDTSSLMDKSDLAESLIQE  489 (653)
Q Consensus       422 -----------i~-~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~a~~~~~~  489 (653)
                                 .. .+...|++++|...++++.+.  .|+........   .          ..|...|++++|...+++
T Consensus       133 ~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~l---a----------~~~~~~~~~~~A~~~~~~  197 (327)
T 3cv0_A          133 DVDIDDLNVQSEDFFFAAPNEYRECRTLLHAALEM--NPNDAQLHASL---G----------VLYNLSNNYDSAAANLRR  197 (327)
T ss_dssp             -------------CCTTSHHHHHHHHHHHHHHHHH--STTCHHHHHHH---H----------HHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhHHHHHcccHHHHHHHHHHHHhh--CCCCHHHHHHH---H----------HHHHHhccHHHHHHHHHH
Confidence                       11 244555666666666665543  23221000000   0          112235666666666666


Q ss_pred             HHHccCCC-CHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHHhhhCC
Q 048743          490 MREEAALS-TIYKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRPTVETFYYLVYGHSSLEMYRDITILWGDIKRNIESGV  568 (653)
Q Consensus       490 m~~~~~~p-~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~  568 (653)
                      ..+..  | +..+|..+...|...|++++|++.|++..+.. +.+..++..+...+...|++++|.+.++.+.+......
T Consensus       198 ~~~~~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~  274 (327)
T 3cv0_A          198 AVELR--PDDAQLWNKLGATLANGNRPQEALDAYNRALDIN-PGYVRVMYNMAVSYSNMSQYDLAAKQLVRAIYMQVGGT  274 (327)
T ss_dssp             HHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTSC
T ss_pred             HHHhC--CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCccc
Confidence            55443  3 56788899999999999999999999998753 33577888999999999999999999998875422110


Q ss_pred             C-------ccCHHHHHHHHHHHHhCCCHHHHHHHHHHH
Q 048743          569 L-------AVSRDLYETLLLNFLQGGYFERVMEVIGYM  599 (653)
Q Consensus       569 ~-------~p~~~~y~~li~~~~~~g~~~~a~~~~~~m  599 (653)
                      .       ..+...|..+..++.+.|++++|..++++.
T Consensus       275 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  312 (327)
T 3cv0_A          275 TPTGEASREATRSMWDFFRMLLNVMNRPDLVELTYAQN  312 (327)
T ss_dssp             C-----CCTHHHHHHHHHHHHHHHTTCHHHHHHHTTCC
T ss_pred             cccccchhhcCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Confidence            0       004678889999999999999999988643

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.53  E-value=3.1e-10  Score=119.09  Aligned_cols=46  Identities=15%  Similarity=0.027  Sum_probs=28.6

Q ss_pred             hhhHHHHHHHHHhccCCchhHHHHHHHHHHHHh----cCCCchHHHHHHHHHcC
Q 048743           73 LQKACDLVLKIQKGKADLLQLDLLAKLSLSLAR----AQMPVPASMILRLMLGR  122 (653)
Q Consensus        73 ~~~a~~~~~~~~~~~~~~~~~~t~~~li~~~~~----~g~~~~a~~~~~~m~~~  122 (653)
                      .++|+..|.+.... +   +...+..|-..|..    .+++++|+++|++..+.
T Consensus        59 ~~~A~~~~~~a~~~-~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~  108 (490)
T 2xm6_A           59 LTQAMDWFRRAAEQ-G---YTPAEYVLGLRYMNGEGVPQDYAQAVIWYKKAALK  108 (490)
T ss_dssp             HHHHHHHHHHHHHT-T---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHC-C---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHC
Confidence            56677777665443 2   44556666666666    66777777777766554

>1xi4_A Clathrin heavy chain; alpha-ZIG-ZAG, beta-propeller, endocytosis-exocyto complex; 7.90A {Bos taurus} SCOP: i.23.1.1 PDB: 1xi5_A 3iyv_A

Probab=99.50  E-value=5e-10  Score=123.98  Aligned_cols=322  Identities=13%  Similarity=0.117  Sum_probs=214.4

Q ss_pred             CCchhhHHHHHHHHHhcCChhhHHHHHHHHHhcCC--CccHHHHHHHHHHHHhcCChhhhHHHHHHhhhcCCCcccchhH
Q 048743          174 KPDTMIFNLVLHACVRFGSSLKGQHIMELMSQTGV--VADAHSIIILAQIHEMNCQRDELKKFKCYIDQLSTPFAHHYQQ  251 (653)
Q Consensus       174 ~~~~~~yn~li~~~~~~g~~~~a~~l~~~m~~~g~--~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~  251 (653)
                      .|+.+  ...+++|...|++.+|+++++...-.+-  .-+...-+.++.+..+. +..+..+....+....         
T Consensus       984 ~PeeV--s~~vKaf~~aglp~EaieLLEKivl~~s~fs~n~~LqnlLi~tAIka-D~~Rv~eyI~kLd~~d--------- 1051 (1630)
T 1xi4_A          984 DPEEV--SVTVKAFMTADLPNELIELLEKIVLDNSVFSEHRNLQNLLILTAIKA-DRTRVMEYINRLDNYD--------- 1051 (1630)
T ss_pred             CHHHh--HHHHHHHHhCCCHHHHHHHHHHHHcCCCcccccHHHHHHHHHHHHHh-ChhhHHHHHHHhhhcc---------
Confidence            44444  5578899999999999999999884321  01223344555555555 5566666655554322         


Q ss_pred             HHHHHHHhhhccCCHHHHHHHHHHhcccCCCCCCchhhhcccccchhccCCCcccchhhhccchhhhHHHHHHhhhhhHH
Q 048743          252 FYESLLSLHFKFDDIDAAGELILDMNRYREPLPNPKLRQDAQKPYLISIGSPNLRCGLKLQIMPELLEKDSILKMEGKQE  331 (653)
Q Consensus       252 ~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  331 (653)
                       ...+-..+...|.+++|..+|++...                            ......++.+        .......
T Consensus      1052 -~~eIA~Iai~lglyEEAf~IYkKa~~----------------------------~~~A~~VLie--------~i~nldr 1094 (1630)
T 1xi4_A         1052 -APDIANIAISNELFEEAFAIFRKFDV----------------------------NTSAVQVLIE--------HIGNLDR 1094 (1630)
T ss_pred             -HHHHHHHHHhCCCHHHHHHHHHHcCC----------------------------HHHHHHHHHH--------HHhhHHH
Confidence             23455666778999999999988710                            0000000000        0000000


Q ss_pred             HHHHhcCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCC
Q 048743          332 LVLFRNGKLLHSNRAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGH  411 (653)
Q Consensus       332 ~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~  411 (653)
                      -..... ++ -+..+|..+-.++...|++++|...|.+.       .+...|..++.++.+.|++++|.+.|....+.. 
T Consensus      1095 AiE~Ae-rv-n~p~vWsqLAKAql~~G~~kEAIdsYiKA-------dD~say~eVa~~~~~lGkyEEAIeyL~mArk~~- 1164 (1630)
T 1xi4_A         1095 AYEFAE-RC-NEPAVWSQLAKAQLQKGMVKEAIDSYIKA-------DDPSSYMEVVQAANTSGNWEELVKYLQMARKKA- 1164 (1630)
T ss_pred             HHHHHH-hc-CCHHHHHHHHHHHHhCCCHHHHHHHHHhc-------CChHHHHHHHHHHHHcCCHHHHHHHHHHHHhhc-
Confidence            000000 11 33568889999999999999999998653       345558889999999999999999998766654 


Q ss_pred             CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCccCchhhHHHHhhHHHHhhhcccccccccccCCHHHHHHHHHHHH
Q 048743          412 PMDSTTYKSLLTAYYKVKMFREAEALLKQMRKSCLVQNLSCEMVVSERFSEVADKSASFTDTSSLMDKSDLAESLIQEMR  491 (653)
Q Consensus       412 ~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~  491 (653)
                       ++....+.+..+|++.+++++...+.    +   .|+..  -..  .+.          +.+...|++++|..+|... 
T Consensus      1165 -~e~~Idt~LafaYAKl~rleele~fI----~---~~n~a--d~~--~iG----------d~le~eg~YeeA~~~Y~kA- 1221 (1630)
T 1xi4_A         1165 -RESYVETELIFALAKTNRLAELEEFI----N---GPNNA--HIQ--QVG----------DRCYDEKMYDAAKLLYNNV- 1221 (1630)
T ss_pred             -ccccccHHHHHHHHhhcCHHHHHHHH----h---CCCHH--HHH--HHH----------HHHHhcCCHHHHHHHHHhh-
Confidence             33333445888899998888644442    1   12210  000  011          2234589999999999885 


Q ss_pred             HccCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHHhhhCCCcc
Q 048743          492 EEAALSTIYKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRPTVETFYYLVYGHSSLEMYRDITILWGDIKRNIESGVLAV  571 (653)
Q Consensus       492 ~~~~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~p  571 (653)
                              ..|..+..+|++.|++++|.+.+++.      -+..+|..+-.+|...|++..|.....         ++..
T Consensus      1222 --------~ny~rLA~tLvkLge~q~AIEaarKA------~n~~aWkev~~acve~~Ef~LA~~cgl---------~Iiv 1278 (1630)
T 1xi4_A         1222 --------SNFGRLASTLVHLGEYQAAVDGARKA------NSTRTWKEVCFACVDGKEFRLAQMCGL---------HIVV 1278 (1630)
T ss_pred             --------hHHHHHHHHHHHhCCHHHHHHHHHHh------CCHHHHHHHHHHHhhhhHHHHHHHHHH---------hhhc
Confidence                    36899999999999999999999875      366888888889999999888877653         2445


Q ss_pred             CHHHHHHHHHHHHhCCCHHHHHHHHHHHH
Q 048743          572 SRDLYETLLLNFLQGGYFERVMEVIGYMK  600 (653)
Q Consensus       572 ~~~~y~~li~~~~~~g~~~~a~~~~~~m~  600 (653)
                      +...+..++.-|.+.|.+++|+.+++.-.
T Consensus      1279 ~~deLeeli~yYe~~G~feEAI~LlE~aL 1307 (1630)
T 1xi4_A         1279 HADELEELINYYQDRGYFEELITMLEAAL 1307 (1630)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHh
Confidence            56678889999999999999999997765

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.45  E-value=1.3e-10  Score=121.31  Aligned_cols=276  Identities=8%  Similarity=-0.060  Sum_probs=166.9

Q ss_pred             chhHHHHHHHhhccCCcchhhhHHHHHHHHHhc----cC---CchhHHHHHHHHHHHHhcCCCchHHHHHHHHHcCccCC
Q 048743           54 RHVVNRFITDLCYSAEPHWLQKACDLVLKIQKG----KA---DLLQLDLLAKLSLSLARAQMPVPASMILRLMLGRENLP  126 (653)
Q Consensus        54 ~~~~~~ll~~~~~~~~~~~~~~a~~~~~~~~~~----~~---~~~~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p  126 (653)
                      ...||.+-..+...|+   .++|++.|++..+.    .+   ..-...+|+.+...|...|++++|...+++..+...  
T Consensus        51 a~~yn~Lg~~~~~~G~---~~eAl~~~~kAl~~~~~~~~~~~~~~~~~~~~nla~~y~~~g~~~~A~~~~~ka~~i~~--  125 (472)
T 4g1t_A           51 ATMCNLLAYLKHLKGQ---NEAALECLRKAEELIQQEHADQAEIRSLVTWGNYAWVYYHMGRLSDVQIYVDKVKHVCE--  125 (472)
T ss_dssp             CHHHHHHHHHHHHTTC---HHHHHHHHHHHHHHHHHHSGGGCTTTTHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHH--
T ss_pred             HHHHHHHHHHHHHCCC---HHHHHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhH--
Confidence            4578888888888888   68888888765331    11   112467899999999999999999999987654210  


Q ss_pred             CchhHHHHHHHHhhcccccccchHHHHHHHHHhhhhhhhhcCCccCCCC-chhhHHHHHHHHHhc--CChhhHHHHHHHH
Q 048743          127 CSDLLLLVFVHMVKTEIGTCLASNFLIQLCDVFLHLSAEKSNGAELIKP-DTMIFNLVLHACVRF--GSSLKGQHIMELM  203 (653)
Q Consensus       127 ~~~~~~~li~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~yn~li~~~~~~--g~~~~a~~l~~~m  203 (653)
                                                        ..      . ....+ ...+|+.+-.++.+.  +++++|.+.|++.
T Consensus       126 ----------------------------------~~------~-~~~~~~~~~~~~~~g~~~~~~~~~~y~~A~~~~~ka  164 (472)
T 4g1t_A          126 ----------------------------------KF------S-SPYRIESPELDCEEGWTRLKCGGNQNERAKVCFEKA  164 (472)
T ss_dssp             ----------------------------------HS------C-CSSCCCCHHHHHHHHHHHHHHCTTHHHHHHHHHHHH
T ss_pred             ----------------------------------hc------c-cccchhhHHHHHHHHHHHHHHccccHHHHHHHHHHH
Confidence                                              00      0 00111 234455554455543  4688999999988


Q ss_pred             HhcCCCccHHH-HHHH---HHHHHhcCChhhhHHHHHHhhhcCCCcccchhHHHHHHH----HhhhccCCHHHHHHHHHH
Q 048743          204 SQTGVVADAHS-IIIL---AQIHEMNCQRDELKKFKCYIDQLSTPFAHHYQQFYESLL----SLHFKFDDIDAAGELILD  275 (653)
Q Consensus       204 ~~~g~~p~~~t-~~~l---l~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~li----~~~~~~g~~~~A~~~~~~  275 (653)
                      .+.  .|+... +..+   ...+...++.++|.+.++...+..+....    ++..+.    ..+...|+.++|.+++++
T Consensus       165 l~~--~p~~~~~~~~~~~~~~~l~~~~~~~~al~~~~~al~l~p~~~~----~~~~l~~~~~~~~~~~~~~~~a~~~~~~  238 (472)
T 4g1t_A          165 LEK--KPKNPEFTSGLAIASYRLDNWPPSQNAIDPLRQAIRLNPDNQY----LKVLLALKLHKMREEGEEEGEGEKLVEE  238 (472)
T ss_dssp             HHH--STTCHHHHHHHHHHHHHHHHSCCCCCTHHHHHHHHHHCSSCHH----HHHHHHHHHHHCC------CHHHHHHHH
T ss_pred             HHh--CCCCHHHHHHHHHHHHHhcCchHHHHHHHHHHHHhhcCCcchH----HHHHHHHHHHHHHhhhhHHHHHHHHHHH
Confidence            765  455433 2222   23344567777788777776665433222    333333    333445777888888887


Q ss_pred             hcccCCCCCCchhhhcccccchhccCCCcccchhhhccchhhhHHHHHHhhhhhHHHHHHhcCCCCCCHHHHHHHHHHHH
Q 048743          276 MNRYREPLPNPKLRQDAQKPYLISIGSPNLRCGLKLQIMPELLEKDSILKMEGKQELVLFRNGKLLHSNRAMAKLINGYK  355 (653)
Q Consensus       276 m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~li~~~~  355 (653)
                      ...                                                            .-+.+..++..+...|.
T Consensus       239 al~------------------------------------------------------------~~~~~~~~~~~lg~~~~  258 (472)
T 4g1t_A          239 ALE------------------------------------------------------------KAPGVTDVLRSAAKFYR  258 (472)
T ss_dssp             HHH------------------------------------------------------------HCSSCHHHHHHHHHHHH
T ss_pred             HHH------------------------------------------------------------hCccHHHHHHHHHHHHH
Confidence            621                                                            01234456778888889


Q ss_pred             hcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHc-------------------CCHHHHHHHHHHHHHCCCCCCHH
Q 048743          356 KHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQL-------------------GFLEAAHDILDDMELAGHPMDST  416 (653)
Q Consensus       356 ~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~-------------------g~~~~a~~~~~~m~~~g~~p~~~  416 (653)
                      ..|++++|...+++..+..  |.+..++..+...|...                   +..+.|...|++..+.. +.+..
T Consensus       259 ~~~~~~~A~~~~~~al~~~--p~~~~~~~~lg~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~  335 (472)
T 4g1t_A          259 RKDEPDKAIELLKKALEYI--PNNAYLHCQIGCCYRAKVFQVMNLRENGMYGKRKLLELIGHAVAHLKKADEAN-DNLFR  335 (472)
T ss_dssp             HTTCHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHHHHHHHHHHC------CHHHHHHHHHHHHHHHHHHHHHC-TTTCC
T ss_pred             HcCchHHHHHHHHHHHHhC--CChHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhhHHHHHHHHHHHhhcC-Cchhh
Confidence            9999999999999988876  66666677666655432                   12344555555554432 12344


Q ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHHc
Q 048743          417 TYKSLLTAYYKVKMFREAEALLKQMRKS  444 (653)
Q Consensus       417 ~~~~li~~~~~~~~~~~a~~~~~~m~~~  444 (653)
                      ++..+...|...|++++|...|++..+.
T Consensus       336 ~~~~lg~~~~~~~~~~~A~~~~~kaL~~  363 (472)
T 4g1t_A          336 VCSILASLHALADQYEEAEYYFQKEFSK  363 (472)
T ss_dssp             CHHHHHHHHHHTTCHHHHHHHHHHHHHS
T ss_pred             hhhhHHHHHHHhccHHHHHHHHHHHHhc
Confidence            5555666666666666666666666553

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.45  E-value=3.9e-11  Score=125.39  Aligned_cols=373  Identities=11%  Similarity=-0.043  Sum_probs=201.4

Q ss_pred             hHHHHHHHHHHHHhccchhHHHHHHHHhhhh-------cCCCC-chhHHHHHHHhhccCCcchhhhHHHHHHHHHhcc--
Q 048743           18 SREVLLRKLESASKNHQVGEAWETFNDFQRL-------HGIPE-RHVVNRFITDLCYSAEPHWLQKACDLVLKIQKGK--   87 (653)
Q Consensus        18 ~~~~~~~~i~~~~~~~~~~~A~~~~~~~~~~-------~~~~~-~~~~~~ll~~~~~~~~~~~~~~a~~~~~~~~~~~--   87 (653)
                      ....|+.+-..+...|+.++|++.|++..+.       ...|. ..+|+.+-..+...|+   .++|...+.+.....  
T Consensus        50 ~a~~yn~Lg~~~~~~G~~~eAl~~~~kAl~~~~~~~~~~~~~~~~~~~~nla~~y~~~g~---~~~A~~~~~ka~~i~~~  126 (472)
T 4g1t_A           50 KATMCNLLAYLKHLKGQNEAALECLRKAEELIQQEHADQAEIRSLVTWGNYAWVYYHMGR---LSDVQIYVDKVKHVCEK  126 (472)
T ss_dssp             CCHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSGGGCTTTTHHHHHHHHHHHHHTTC---HHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHHHHcCC---hHHHHHHHHHHHHHhHh
Confidence            3456777778888999999999999886542       11233 3578888888888888   788888887764321  


Q ss_pred             ---CCc-hhHHHHHHHHHHHHhc--CCCchHHHHHHHHHcCccCCCchhHHHHHHHHhhcccccccchHHHHHHHHHhhh
Q 048743           88 ---ADL-LQLDLLAKLSLSLARA--QMPVPASMILRLMLGRENLPCSDLLLLVFVHMVKTEIGTCLASNFLIQLCDVFLH  161 (653)
Q Consensus        88 ---~~~-~~~~t~~~li~~~~~~--g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~~~~l~~~~~~~~~  161 (653)
                         +.. -...+|.....++.+.  +++++|++.|++..+.  .|+...+..-+.                         
T Consensus       127 ~~~~~~~~~~~~~~~~g~~~~~~~~~~y~~A~~~~~kal~~--~p~~~~~~~~~~-------------------------  179 (472)
T 4g1t_A          127 FSSPYRIESPELDCEEGWTRLKCGGNQNERAKVCFEKALEK--KPKNPEFTSGLA-------------------------  179 (472)
T ss_dssp             SCCSSCCCCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHH--STTCHHHHHHHH-------------------------
T ss_pred             cccccchhhHHHHHHHHHHHHHHccccHHHHHHHHHHHHHh--CCCCHHHHHHHH-------------------------
Confidence               111 1345666666666654  4688999999988764  444432221111                         


Q ss_pred             hhhhhcCCccCCCCchhhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCcc-HHHHHHHHHHHHh----cCChhhhHHHHH
Q 048743          162 LSAEKSNGAELIKPDTMIFNLVLHACVRFGSSLKGQHIMELMSQTGVVAD-AHSIIILAQIHEM----NCQRDELKKFKC  236 (653)
Q Consensus       162 ~~~a~~~~~~~~~~~~~~yn~li~~~~~~g~~~~a~~l~~~m~~~g~~p~-~~t~~~ll~~~~~----~g~~~~a~~~~~  236 (653)
                                          .+...+...++.++|++.|++..+.  .|+ ...+..+...+..    .|+.++|.+.++
T Consensus       180 --------------------~~~~~l~~~~~~~~al~~~~~al~l--~p~~~~~~~~l~~~~~~~~~~~~~~~~a~~~~~  237 (472)
T 4g1t_A          180 --------------------IASYRLDNWPPSQNAIDPLRQAIRL--NPDNQYLKVLLALKLHKMREEGEEEGEGEKLVE  237 (472)
T ss_dssp             --------------------HHHHHHHHSCCCCCTHHHHHHHHHH--CSSCHHHHHHHHHHHHHCC------CHHHHHHH
T ss_pred             --------------------HHHHHhcCchHHHHHHHHHHHHhhc--CCcchHHHHHHHHHHHHHHhhhhHHHHHHHHHH
Confidence                                0111122234444444444444432  222 2222222222222    234444555544


Q ss_pred             HhhhcCCCcccchhHHHHHHHHhhhccCCHHHHHHHHHHhcccCCCCCCchhhhcccccchhccCCCcccchhhhccchh
Q 048743          237 YIDQLSTPFAHHYQQFYESLLSLHFKFDDIDAAGELILDMNRYREPLPNPKLRQDAQKPYLISIGSPNLRCGLKLQIMPE  316 (653)
Q Consensus       237 ~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  316 (653)
                      ......+..    ..++..+...|...|++++|...|++..+.                                     
T Consensus       238 ~al~~~~~~----~~~~~~lg~~~~~~~~~~~A~~~~~~al~~-------------------------------------  276 (472)
T 4g1t_A          238 EALEKAPGV----TDVLRSAAKFYRRKDEPDKAIELLKKALEY-------------------------------------  276 (472)
T ss_dssp             HHHHHCSSC----HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-------------------------------------
T ss_pred             HHHHhCccH----HHHHHHHHHHHHHcCchHHHHHHHHHHHHh-------------------------------------
Confidence            443332211    123455555555555555555555554210                                     


Q ss_pred             hhHHHHHHhhhhhHHHHHHhcCCCCCC-HHHHHHHHHH-------------------HHhcCChHHHHHHHHHHHhcCCC
Q 048743          317 LLEKDSILKMEGKQELVLFRNGKLLHS-NRAMAKLING-------------------YKKHGKNSELSWLLLSIKKEHHS  376 (653)
Q Consensus       317 ~~~~~~~~~~~~~~~~~~~~~~~~~p~-~~~~~~li~~-------------------~~~~~~~~~a~~~~~~m~~~~~~  376 (653)
                                              .|+ ..++..+-..                   ....+..++|...+++.....  
T Consensus       277 ------------------------~p~~~~~~~~lg~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~--  330 (472)
T 4g1t_A          277 ------------------------IPNNAYLHCQIGCCYRAKVFQVMNLRENGMYGKRKLLELIGHAVAHLKKADEAN--  330 (472)
T ss_dssp             ------------------------STTCHHHHHHHHHHHHHHHHHHHHC------CHHHHHHHHHHHHHHHHHHHHHC--
T ss_pred             ------------------------CCChHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhhHHHHHHHHHHHhhcC--
Confidence                                    010 0111111111                   111234678888999888877  


Q ss_pred             CCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHH--HHHHHHH-HHHHcCChHHHHHHHHHHHHcCCccCchhh
Q 048743          377 FGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDST--TYKSLLT-AYYKVKMFREAEALLKQMRKSCLVQNLSCE  453 (653)
Q Consensus       377 ~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~--~~~~li~-~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~  453 (653)
                      |.+..++..+...|...|++++|...|++..+....|...  .+..+.. .+...|++++|...|++..+  +.|+....
T Consensus       331 ~~~~~~~~~lg~~~~~~~~~~~A~~~~~kaL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ai~~y~kal~--i~~~~~~~  408 (472)
T 4g1t_A          331 DNLFRVCSILASLHALADQYEEAEYYFQKEFSKELTPVAKQLLHLRYGNFQLYQMKCEDKAIHHFIEGVK--INQKSREK  408 (472)
T ss_dssp             TTTCCCHHHHHHHHHHTTCHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHH--SCCCCHHH
T ss_pred             CchhhhhhhHHHHHHHhccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHh--cCcccHHH
Confidence            7777789999999999999999999999998865443321  2222222 34567899999999998876  45653110


Q ss_pred             HHHHhhHHHHhhhcccccccccccCCHHHHHHHHHHHHHccCCC-CHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcC-CC
Q 048743          454 MVVSERFSEVADKSASFTDTSSLMDKSDLAESLIQEMREEAALS-TIYKLNSSIYFFCKGKMIGDALKIYRRMQEMK-IR  531 (653)
Q Consensus       454 ~~~~~~l~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g-~~  531 (653)
                                             .+....+..+++...+.+  | +..+|+.+-..|...|++++|++.|++..+.+ ..
T Consensus       409 -----------------------~~~~~~l~~~~~~~l~~~--p~~~~~~~~LG~~~~~~g~~~~A~~~y~kALe~~~~~  463 (472)
T 4g1t_A          409 -----------------------EKMKDKLQKIAKMRLSKN--GADSEALHVLAFLQELNEKMQQADEDSERGLESGSLI  463 (472)
T ss_dssp             -----------------------HHHHHHHHHHHHHHHHHC--C-CTTHHHHHHHHHHHHHHCC----------------
T ss_pred             -----------------------HHHHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCC
Confidence                                   122234444555444433  4 66778888888888888888888888877643 33


Q ss_pred             CCHHH
Q 048743          532 PTVET  536 (653)
Q Consensus       532 p~~~t  536 (653)
                      |+..+
T Consensus       464 p~a~~  468 (472)
T 4g1t_A          464 PSASS  468 (472)
T ss_dssp             -----
T ss_pred             CcHhh
Confidence            44443

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.44  E-value=2.9e-11  Score=114.79  Aligned_cols=224  Identities=11%  Similarity=0.017  Sum_probs=187.6

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCC--CCCC----HHHH
Q 048743          345 RAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAG--HPMD----STTY  418 (653)
Q Consensus       345 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g--~~p~----~~~~  418 (653)
                      ..|..+-..+...|++++|...|++..+..   .+..+|..+...+...|++++|...+++..+..  ..|+    ..+|
T Consensus         6 ~~~~~~g~~~~~~~~~~~A~~~~~~a~~~~---~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~   82 (258)
T 3uq3_A            6 DKEKAEGNKFYKARQFDEAIEHYNKAWELH---KDITYLNNRAAAEYEKGEYETAISTLNDAVEQGREMRADYKVISKSF   82 (258)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHS---CCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHHhh---ccHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccccchHHHHHHH
Confidence            467888899999999999999999998876   556679999999999999999999999987642  1122    5788


Q ss_pred             HHHHHHHHHcCChHHHHHHHHHHHHcCCccCchhhHHHHhhHHHHhhhcccccccccccCCHHHHHHHHHHHHHccCCC-
Q 048743          419 KSLLTAYYKVKMFREAEALLKQMRKSCLVQNLSCEMVVSERFSEVADKSASFTDTSSLMDKSDLAESLIQEMREEAALS-  497 (653)
Q Consensus       419 ~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~p-  497 (653)
                      ..+...+...|++++|...|++..+.  .|+.  .                   .+...|++++|...+++.....  | 
T Consensus        83 ~~l~~~~~~~~~~~~A~~~~~~a~~~--~~~~--~-------------------~~~~~~~~~~a~~~~~~~~~~~--~~  137 (258)
T 3uq3_A           83 ARIGNAYHKLGDLKKTIEYYQKSLTE--HRTA--D-------------------ILTKLRNAEKELKKAEAEAYVN--PE  137 (258)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHH--CCCH--H-------------------HHHHHHHHHHHHHHHHHHHHCC--HH
T ss_pred             HHHHHHHHHcccHHHHHHHHHHHHhc--Cchh--H-------------------HHHHHhHHHHHHHHHHHHHHcC--cc
Confidence            99999999999999999999999884  3432  1                   1223678999999999988754  4 


Q ss_pred             CHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHHhhhCCCccCHHHHH
Q 048743          498 TIYKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRPTVETFYYLVYGHSSLEMYRDITILWGDIKRNIESGVLAVSRDLYE  577 (653)
Q Consensus       498 ~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~p~~~~y~  577 (653)
                      +...|..+...+...|++++|++.|++..+.. +.+..++..+...+...|++++|...++...+.     .+.+...|.
T Consensus       138 ~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~-----~~~~~~~~~  211 (258)
T 3uq3_A          138 KAEEARLEGKEYFTKSDWPNAVKAYTEMIKRA-PEDARGYSNRAAALAKLMSFPEAIADCNKAIEK-----DPNFVRAYI  211 (258)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-----CTTCHHHHH
T ss_pred             hHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHhCCHHHHHHHHHHHHHh-----CHHHHHHHH
Confidence            66788999999999999999999999998864 336788999999999999999999999988743     233577899


Q ss_pred             HHHHHHHhCCCHHHHHHHHHHHHhC
Q 048743          578 TLLLNFLQGGYFERVMEVIGYMKKQ  602 (653)
Q Consensus       578 ~li~~~~~~g~~~~a~~~~~~m~~~  602 (653)
                      .+...+...|++++|.+.+++..+.
T Consensus       212 ~l~~~~~~~g~~~~A~~~~~~a~~~  236 (258)
T 3uq3_A          212 RKATAQIAVKEYASALETLDAARTK  236 (258)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhHHHHHHHHHHHHHh
Confidence            9999999999999999999988654

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.42  E-value=2.3e-11  Score=115.48  Aligned_cols=194  Identities=9%  Similarity=-0.121  Sum_probs=134.2

Q ss_pred             hhhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCccHHHHHHHHHHHHhcCChhhhHHHHHHhhhcCCC---cccchhHHH
Q 048743          177 TMIFNLVLHACVRFGSSLKGQHIMELMSQTGVVADAHSIIILAQIHEMNCQRDELKKFKCYIDQLSTP---FAHHYQQFY  253 (653)
Q Consensus       177 ~~~yn~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~---~~~~~~~~~  253 (653)
                      ...|..+...+.+.|++++|.+.|++..+..  ++...+..+..++...|++++|.+.++......+.   .......++
T Consensus         5 a~~~~~~g~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~   82 (258)
T 3uq3_A            5 ADKEKAEGNKFYKARQFDEAIEHYNKAWELH--KDITYLNNRAAAEYEKGEYETAISTLNDAVEQGREMRADYKVISKSF   82 (258)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--CCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHHhh--ccHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccccchHHHHHHH
Confidence            4567888889999999999999999999887  77888888888899999999998888887664321   111113567


Q ss_pred             HHHHHhhhccCCHHHHHHHHHHhcccCCCCCCchhhhcccccchhccCCCcccchhhhccchhhhHHHHHHhhhhhHHHH
Q 048743          254 ESLLSLHFKFDDIDAAGELILDMNRYREPLPNPKLRQDAQKPYLISIGSPNLRCGLKLQIMPELLEKDSILKMEGKQELV  333 (653)
Q Consensus       254 ~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  333 (653)
                      ..+...|...|++++|...|++..+                                                       
T Consensus        83 ~~l~~~~~~~~~~~~A~~~~~~a~~-------------------------------------------------------  107 (258)
T 3uq3_A           83 ARIGNAYHKLGDLKKTIEYYQKSLT-------------------------------------------------------  107 (258)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHH-------------------------------------------------------
T ss_pred             HHHHHHHHHcccHHHHHHHHHHHHh-------------------------------------------------------
Confidence            7777777888888888888777731                                                       


Q ss_pred             HHhcCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCC
Q 048743          334 LFRNGKLLHSNRAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPM  413 (653)
Q Consensus       334 ~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p  413 (653)
                            ..|+.       ..+.+.|++++|...++++....  +.+...|..+...+...|++++|...|++..+.. +.
T Consensus       108 ------~~~~~-------~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~  171 (258)
T 3uq3_A          108 ------EHRTA-------DILTKLRNAEKELKKAEAEAYVN--PEKAEEARLEGKEYFTKSDWPNAVKAYTEMIKRA-PE  171 (258)
T ss_dssp             ------HCCCH-------HHHHHHHHHHHHHHHHHHHHHCC--HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TT
T ss_pred             ------cCchh-------HHHHHHhHHHHHHHHHHHHHHcC--cchHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-cc
Confidence                  12332       23445566777777777766655  4455556666677777777777777777766543 23


Q ss_pred             CHHHHHHHHHHHHHcCChHHHHHHHHHHHH
Q 048743          414 DSTTYKSLLTAYYKVKMFREAEALLKQMRK  443 (653)
Q Consensus       414 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  443 (653)
                      +..+|..+...|.+.|++++|...|+...+
T Consensus       172 ~~~~~~~l~~~~~~~~~~~~A~~~~~~al~  201 (258)
T 3uq3_A          172 DARGYSNRAAALAKLMSFPEAIADCNKAIE  201 (258)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            556666666666666666666666666655

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.42  E-value=2.4e-11  Score=112.12  Aligned_cols=198  Identities=13%  Similarity=0.022  Sum_probs=125.3

Q ss_pred             CCHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHH
Q 048743          342 HSNRAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTYKSL  421 (653)
Q Consensus       342 p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~l  421 (653)
                      ++...+..+-..+.+.|++++|...|++..+..  |.+...|..+...+.+.|++++|...|++..+.. +-+...+..+
T Consensus         3 ~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~l   79 (217)
T 2pl2_A            3 TAEQNPLRLGVQLYALGRYDAALTLFERALKEN--PQDPEALYWLARTQLKLGLVNPALENGKTLVART-PRYLGGYMVL   79 (217)
T ss_dssp             -CCHHHHHHHHHHHHTTCHHHHHHHHHHHHTTS--SSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHH
T ss_pred             CcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHH
Confidence            455567777788888888888888888888777  7777778888888888888888888888887653 2356677777


Q ss_pred             HHHHHHc-----------CChHHHHHHHHHHHHcCCccCchhhHHHHhhHHHHhhhcccccccccccCCHHHHHHHHHHH
Q 048743          422 LTAYYKV-----------KMFREAEALLKQMRKSCLVQNLSCEMVVSERFSEVADKSASFTDTSSLMDKSDLAESLIQEM  490 (653)
Q Consensus       422 i~~~~~~-----------~~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m  490 (653)
                      -.++...           |++++|...|++..+.  .|+                                         
T Consensus        80 g~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~--~P~-----------------------------------------  116 (217)
T 2pl2_A           80 SEAYVALYRQAEDRERGKGYLEQALSVLKDAERV--NPR-----------------------------------------  116 (217)
T ss_dssp             HHHHHHHHHTCSSHHHHHHHHHHHHHHHHHHHHH--CTT-----------------------------------------
T ss_pred             HHHHHHhhhhhhhhcccccCHHHHHHHHHHHHHh--Ccc-----------------------------------------
Confidence            7777776           5555555555555442  233                                         


Q ss_pred             HHccCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHHhhhCCCc
Q 048743          491 REEAALSTIYKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRPTVETFYYLVYGHSSLEMYRDITILWGDIKRNIESGVLA  570 (653)
Q Consensus       491 ~~~~~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  570 (653)
                             +...|..+-..|...|++++|++.|++..+..  .+...+..+..++...|++++|...++...+.     -+
T Consensus       117 -------~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~-----~P  182 (217)
T 2pl2_A          117 -------YAPLHLQRGLVYALLGERDKAEASLKQALALE--DTPEIRSALAELYLSMGRLDEALAQYAKALEQ-----AP  182 (217)
T ss_dssp             -------CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH-----ST
T ss_pred             -------cHHHHHHHHHHHHHcCChHHHHHHHHHHHhcc--cchHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-----CC
Confidence                   44556666666667777777777777766655  45666666666777777777777777666522     12


Q ss_pred             cCHHHHHHHHHHHHhCCCHHHHHHHHHHH
Q 048743          571 VSRDLYETLLLNFLQGGYFERVMEVIGYM  599 (653)
Q Consensus       571 p~~~~y~~li~~~~~~g~~~~a~~~~~~m  599 (653)
                      .+...+..+...+.+.|++++|.+.+++.
T Consensus       183 ~~~~~~~~la~~~~~~g~~~~A~~~~~~~  211 (217)
T 2pl2_A          183 KDLDLRVRYASALLLKGKAEEAARAAALE  211 (217)
T ss_dssp             TCHHHHHHHHHHHTC--------------
T ss_pred             CChHHHHHHHHHHHHccCHHHHHHHHHHH
Confidence            24555666666666777777776666543

>2ho1_A Type 4 fimbrial biogenesis protein PILF; type IV pilus biogenesis, TPR, superhelix, protein binding; HET: MSE; 2.00A {Pseudomonas aeruginosa} PDB: 2fi7_A

Probab=99.40  E-value=1.3e-10  Score=110.08  Aligned_cols=202  Identities=9%  Similarity=-0.065  Sum_probs=149.7

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 048743          344 NRAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTYKSLLT  423 (653)
Q Consensus       344 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~  423 (653)
                      ...|..+...+...|++++|...|+++....  +.+...|..+...|...|++++|.+.|++..+.. +.+...+..+..
T Consensus        37 ~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~--~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~  113 (252)
T 2ho1_A           37 RDAYIQLGLGYLQRGNTEQAKVPLRKALEID--PSSADAHAALAVVFQTEMEPKLADEEYRKALASD-SRNARVLNNYGG  113 (252)
T ss_dssp             HHHHHHHHHHHHHTTCTGGGHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHhcC--CChHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHH
Confidence            3567888888999999999999999988876  6677778899999999999999999999987753 336778888888


Q ss_pred             HHHHcCChHHHHHHHHHHHHcCCccCchhhHHHHhhHHHHhhhcccccccccccCCHHHHHHHHHHHHHccCCCCHHHHH
Q 048743          424 AYYKVKMFREAEALLKQMRKSCLVQNLSCEMVVSERFSEVADKSASFTDTSSLMDKSDLAESLIQEMREEAALSTIYKLN  503 (653)
Q Consensus       424 ~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~y~  503 (653)
                      .|...|++++|..+|+++.+.+..|+                                                +...|.
T Consensus       114 ~~~~~g~~~~A~~~~~~~~~~~~~~~------------------------------------------------~~~~~~  145 (252)
T 2ho1_A          114 FLYEQKRYEEAYQRLLEASQDTLYPE------------------------------------------------RSRVFE  145 (252)
T ss_dssp             HHHHTTCHHHHHHHHHHHTTCTTCTT------------------------------------------------HHHHHH
T ss_pred             HHHHHhHHHHHHHHHHHHHhCccCcc------------------------------------------------cHHHHH
Confidence            89999999999999988876222332                                                334556


Q ss_pred             HHHHHHHcCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHHhhhCCCccCHHHHHHHHHHH
Q 048743          504 SSIYFFCKGKMIGDALKIYRRMQEMKIRPTVETFYYLVYGHSSLEMYRDITILWGDIKRNIESGVLAVSRDLYETLLLNF  583 (653)
Q Consensus       504 ~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~p~~~~y~~li~~~  583 (653)
                      .+...|...|++++|++.|++..+.. +.+...+..+...+...|++++|..+++.+.+     ..+.+...+..+...+
T Consensus       146 ~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~-----~~~~~~~~~~~~~~~~  219 (252)
T 2ho1_A          146 NLGLVSLQMKKPAQAKEYFEKSLRLN-RNQPSVALEMADLLYKEREYVPARQYYDLFAQ-----GGGQNARSLLLGIRLA  219 (252)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHT-----TSCCCHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHH-----hCcCcHHHHHHHHHHH
Confidence            66666777777777777777776643 22456666777777777777777777766641     1234555666677777


Q ss_pred             HhCCCHHHHHHHHHHHHhC
Q 048743          584 LQGGYFERVMEVIGYMKKQ  602 (653)
Q Consensus       584 ~~~g~~~~a~~~~~~m~~~  602 (653)
                      ...|++++|.+.++++.+.
T Consensus       220 ~~~g~~~~A~~~~~~~~~~  238 (252)
T 2ho1_A          220 KVFEDRDTAASYGLQLKRL  238 (252)
T ss_dssp             HHTTCHHHHHHHHHHHHHH
T ss_pred             HHccCHHHHHHHHHHHHHH
Confidence            7777777777777777644

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.37  E-value=2.5e-10  Score=105.70  Aligned_cols=210  Identities=9%  Similarity=-0.071  Sum_probs=148.9

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 048743          344 NRAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTYKSLLT  423 (653)
Q Consensus       344 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~  423 (653)
                      ...|..+...+...|++++|...|+++.+..  +.+...|..+...|...|++++|...+++..+.. +.+..++..+..
T Consensus         8 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~   84 (225)
T 2vq2_A            8 SNIKTQLAMEYMRGQDYRQATASIEDALKSD--PKNELAWLVRAEIYQYLKVNDKAQESFRQALSIK-PDSAEINNNYGW   84 (225)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhHHHHHHHHHHHHHhC--ccchHHHHHHHHHHHHcCChHHHHHHHHHHHHhC-CCChHHHHHHHH
Confidence            3467777888888888888888888887766  6666678888888888888888888888887653 336677777888


Q ss_pred             HHHHc-CChHHHHHHHHHHHHcCCccCchhhHHHHhhHHHHhhhcccccccccccCCHHHHHHHHHHHHHccCCCCHHHH
Q 048743          424 AYYKV-KMFREAEALLKQMRKSCLVQNLSCEMVVSERFSEVADKSASFTDTSSLMDKSDLAESLIQEMREEAALSTIYKL  502 (653)
Q Consensus       424 ~~~~~-~~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~y  502 (653)
                      .+... |++++|...++.+.+.+..|+                                                +...|
T Consensus        85 ~~~~~~~~~~~A~~~~~~~~~~~~~~~------------------------------------------------~~~~~  116 (225)
T 2vq2_A           85 FLCGRLNRPAESMAYFDKALADPTYPT------------------------------------------------PYIAN  116 (225)
T ss_dssp             HHHTTTCCHHHHHHHHHHHHTSTTCSC------------------------------------------------HHHHH
T ss_pred             HHHHhcCcHHHHHHHHHHHHcCcCCcc------------------------------------------------hHHHH
Confidence            88888 888888888887776211221                                                24456


Q ss_pred             HHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHHhhhCCCc-cCHHHHHHHHH
Q 048743          503 NSSIYFFCKGKMIGDALKIYRRMQEMKIRPTVETFYYLVYGHSSLEMYRDITILWGDIKRNIESGVLA-VSRDLYETLLL  581 (653)
Q Consensus       503 ~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-p~~~~y~~li~  581 (653)
                      ..+...|...|++++|++.|+++.+.. +.+...+..+...+...|++++|..+++.+.+.     .+ .+...+..+..
T Consensus       117 ~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~-----~~~~~~~~~~~~~~  190 (225)
T 2vq2_A          117 LNKGICSAKQGQFGLAEAYLKRSLAAQ-PQFPPAFKELARTKMLAGQLGDADYYFKKYQSR-----VEVLQADDLLLGWK  190 (225)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH-----HCSCCHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHh-----CCCCCHHHHHHHHH
Confidence            667777777888888888888777642 224666777777788888888888888776532     12 35556666677


Q ss_pred             HHHhCCCHHHHHHHHHHHHhCCCCCCHHhHH
Q 048743          582 NFLQGGYFERVMEVIGYMKKQNMYVDKLMYK  612 (653)
Q Consensus       582 ~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~  612 (653)
                      .+...|+.+.|..+++.+.+.  .|+...+.
T Consensus       191 ~~~~~~~~~~a~~~~~~~~~~--~p~~~~~~  219 (225)
T 2vq2_A          191 IAKALGNAQAAYEYEAQLQAN--FPYSEELQ  219 (225)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH--CTTCHHHH
T ss_pred             HHHhcCcHHHHHHHHHHHHHh--CCCCHHHH
Confidence            777788888888888777643  35544443

>2ho1_A Type 4 fimbrial biogenesis protein PILF; type IV pilus biogenesis, TPR, superhelix, protein binding; HET: MSE; 2.00A {Pseudomonas aeruginosa} PDB: 2fi7_A

Probab=99.34  E-value=3.1e-10  Score=107.39  Aligned_cols=201  Identities=8%  Similarity=0.004  Sum_probs=171.5

Q ss_pred             hhhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCccHHHHHHHHHHHHhcCChhhhHHHHHHhhhcCCCcccchhHHHHHH
Q 048743          177 TMIFNLVLHACVRFGSSLKGQHIMELMSQTGVVADAHSIIILAQIHEMNCQRDELKKFKCYIDQLSTPFAHHYQQFYESL  256 (653)
Q Consensus       177 ~~~yn~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l  256 (653)
                      ...|..+...+...|++++|.+.|+++.+.. ..+...+..+...+...|++++|.+.++...+..+.    +..++..+
T Consensus        37 ~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~----~~~~~~~l  111 (252)
T 2ho1_A           37 RDAYIQLGLGYLQRGNTEQAKVPLRKALEID-PSSADAHAALAVVFQTEMEPKLADEEYRKALASDSR----NARVLNNY  111 (252)
T ss_dssp             HHHHHHHHHHHHHTTCTGGGHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT----CHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHhcC-CChHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcC----cHHHHHHH
Confidence            5778899999999999999999999998763 235667888999999999999999999998776432    23478899


Q ss_pred             HHhhhccCCHHHHHHHHHHhcccCCCCCCchhhhcccccchhccCCCcccchhhhccchhhhHHHHHHhhhhhHHHHHHh
Q 048743          257 LSLHFKFDDIDAAGELILDMNRYREPLPNPKLRQDAQKPYLISIGSPNLRCGLKLQIMPELLEKDSILKMEGKQELVLFR  336 (653)
Q Consensus       257 i~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  336 (653)
                      ...|...|++++|.++|++..+                                                          
T Consensus       112 a~~~~~~g~~~~A~~~~~~~~~----------------------------------------------------------  133 (252)
T 2ho1_A          112 GGFLYEQKRYEEAYQRLLEASQ----------------------------------------------------------  133 (252)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHTT----------------------------------------------------------
T ss_pred             HHHHHHHhHHHHHHHHHHHHHh----------------------------------------------------------
Confidence            9999999999999999999832                                                          


Q ss_pred             cCCCCC-CHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCH
Q 048743          337 NGKLLH-SNRAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDS  415 (653)
Q Consensus       337 ~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~  415 (653)
                       .+..| +...+..+...+...|++++|...|++..+..  +.+...+..+...+.+.|++++|...+++..+.. +.+.
T Consensus       134 -~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~--~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~  209 (252)
T 2ho1_A          134 -DTLYPERSRVFENLGLVSLQMKKPAQAKEYFEKSLRLN--RNQPSVALEMADLLYKEREYVPARQYYDLFAQGG-GQNA  209 (252)
T ss_dssp             -CTTCTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTS-CCCH
T ss_pred             -CccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCcH
Confidence             11223 34577888899999999999999999998877  6677789999999999999999999999998753 3577


Q ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHHc
Q 048743          416 TTYKSLLTAYYKVKMFREAEALLKQMRKS  444 (653)
Q Consensus       416 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~  444 (653)
                      ..+..+...+.+.|++++|...++.+.+.
T Consensus       210 ~~~~~~~~~~~~~g~~~~A~~~~~~~~~~  238 (252)
T 2ho1_A          210 RSLLLGIRLAKVFEDRDTAASYGLQLKRL  238 (252)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHHH
Confidence            88899999999999999999999999874

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.32  E-value=3.9e-10  Score=108.17  Aligned_cols=197  Identities=11%  Similarity=-0.092  Sum_probs=133.6

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 048743          344 NRAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTYKSLLT  423 (653)
Q Consensus       344 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~  423 (653)
                      ..+|..+...+...|++++|...|++.....  |.+..+|..+...|...|++++|...|++..+.. +.+..++..+..
T Consensus        43 ~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~--~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~  119 (275)
T 1xnf_A           43 AQLLYERGVLYDSLGLRALARNDFSQALAIR--PDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLELD-PTYNYAHLNRGI  119 (275)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcccHHHHHHHHHHHHHcC--CCcHHHHHHHHHHHHHccCHHHHHHHHHHHHhcC-ccccHHHHHHHH
Confidence            4577888888889999999999999988877  6777778889999999999999999999887753 235778888888


Q ss_pred             HHHHcCChHHHHHHHHHHHHcCCccCchhhHHHHhhHHHHhhhcccccccccccCCHHHHHHHHHHHHHccCCCCHHHHH
Q 048743          424 AYYKVKMFREAEALLKQMRKSCLVQNLSCEMVVSERFSEVADKSASFTDTSSLMDKSDLAESLIQEMREEAALSTIYKLN  503 (653)
Q Consensus       424 ~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~y~  503 (653)
                      .|...|++++|...|+++.+.  .|+..                                                 .+.
T Consensus       120 ~~~~~g~~~~A~~~~~~a~~~--~~~~~-------------------------------------------------~~~  148 (275)
T 1xnf_A          120 ALYYGGRDKLAQDDLLAFYQD--DPNDP-------------------------------------------------FRS  148 (275)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH--CTTCH-------------------------------------------------HHH
T ss_pred             HHHHhccHHHHHHHHHHHHHh--CCCCh-------------------------------------------------HHH
Confidence            888999999999998888773  34431                                                 111


Q ss_pred             HHHHHHHcCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHHhhhCCCcc-----CHHHHHH
Q 048743          504 SSIYFFCKGKMIGDALKIYRRMQEMKIRPTVETFYYLVYGHSSLEMYRDITILWGDIKRNIESGVLAV-----SRDLYET  578 (653)
Q Consensus       504 ~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~p-----~~~~y~~  578 (653)
                      ..+..+...|++++|+..+++..... +++...+ .+...+...++.++|...+....      ...|     +...|..
T Consensus       149 ~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~-~~~~~~~~~~~~~~a~~~~~~~~------~~~~~~~~~~~~~~~~  220 (275)
T 1xnf_A          149 LWLYLAEQKLDEKQAKEVLKQHFEKS-DKEQWGW-NIVEFYLGNISEQTLMERLKADA------TDNTSLAEHLSETNFY  220 (275)
T ss_dssp             HHHHHHHHHHCHHHHHHHHHHHHHHS-CCCSTHH-HHHHHHTTSSCHHHHHHHHHHHC------CSHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhcCHHHHHHHHHHHHhcC-CcchHHH-HHHHHHHHhcCHHHHHHHHHHHh------cccccccccccHHHHH
Confidence            12222233466666666665555432 2222222 35555556666666666665443      1222     1355666


Q ss_pred             HHHHHHhCCCHHHHHHHHHHHHhC
Q 048743          579 LLLNFLQGGYFERVMEVIGYMKKQ  602 (653)
Q Consensus       579 li~~~~~~g~~~~a~~~~~~m~~~  602 (653)
                      +...|.+.|++++|...|++..+.
T Consensus       221 la~~~~~~g~~~~A~~~~~~al~~  244 (275)
T 1xnf_A          221 LGKYYLSLGDLDSATALFKLAVAN  244 (275)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHhC
Confidence            777777777777777777777644

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.32  E-value=9.1e-11  Score=112.62  Aligned_cols=191  Identities=9%  Similarity=-0.133  Sum_probs=125.8

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 048743          343 SNRAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTYKSLL  422 (653)
Q Consensus       343 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li  422 (653)
                      +..+|..+...+...|++++|...|++..+..  |.+..+|..+...|.+.|++++|...|+++.+..  |+...+...+
T Consensus        76 ~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~--~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~--~~~~~~~~~~  151 (275)
T 1xnf_A           76 MPEVFNYLGIYLTQAGNFDAAYEAFDSVLELD--PTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQDD--PNDPFRSLWL  151 (275)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHH
T ss_pred             cHHHHHHHHHHHHHccCHHHHHHHHHHHHhcC--ccccHHHHHHHHHHHHhccHHHHHHHHHHHHHhC--CCChHHHHHH
Confidence            45677778888888888888888888888776  6666778888888888888888888888887643  4444444455


Q ss_pred             HHHHHcCChHHHHHHHHHHHHcCCccCchhhHHHHhhHHHHhhhcccccccccccCCHHHHHHHHHHHHHccCC--C-CH
Q 048743          423 TAYYKVKMFREAEALLKQMRKSCLVQNLSCEMVVSERFSEVADKSASFTDTSSLMDKSDLAESLIQEMREEAAL--S-TI  499 (653)
Q Consensus       423 ~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~--p-~~  499 (653)
                      ..+...|++++|...++......  |+........              ..+...++.++|...+.+..+....  | +.
T Consensus       152 ~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~--------------~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  215 (275)
T 1xnf_A          152 YLAEQKLDEKQAKEVLKQHFEKS--DKEQWGWNIV--------------EFYLGNISEQTLMERLKADATDNTSLAEHLS  215 (275)
T ss_dssp             HHHHHHHCHHHHHHHHHHHHHHS--CCCSTHHHHH--------------HHHTTSSCHHHHHHHHHHHCCSHHHHHHHHH
T ss_pred             HHHHHhcCHHHHHHHHHHHHhcC--CcchHHHHHH--------------HHHHHhcCHHHHHHHHHHHhccccccccccc
Confidence            55566788888888887776642  2221111111              0122356667777777776643311  1 25


Q ss_pred             HHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCCHHHHHHHH
Q 048743          500 YKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRPTVETFYYLVYGHSSLEMYRDITILW  557 (653)
Q Consensus       500 ~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~  557 (653)
                      .+|..+...|.+.|++++|...|++..+.  .|+.  +.....++...|++++|++.+
T Consensus       216 ~~~~~la~~~~~~g~~~~A~~~~~~al~~--~p~~--~~~~~~~~~~l~~~~~a~~~~  269 (275)
T 1xnf_A          216 ETNFYLGKYYLSLGDLDSATALFKLAVAN--NVHN--FVEHRYALLELSLLGQDQDDL  269 (275)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHTT--CCTT--CHHHHHHHHHHHHHHHC----
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhC--Cchh--HHHHHHHHHHHHHHHhhHHHH
Confidence            67888888899999999999999988875  3432  222344566677777776554

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.32  E-value=5.7e-10  Score=103.28  Aligned_cols=209  Identities=7%  Similarity=-0.105  Sum_probs=173.6

Q ss_pred             CCchhhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCccHHHHHHHHHHHHhcCChhhhHHHHHHhhhcCCCcccchhHHH
Q 048743          174 KPDTMIFNLVLHACVRFGSSLKGQHIMELMSQTGVVADAHSIIILAQIHEMNCQRDELKKFKCYIDQLSTPFAHHYQQFY  253 (653)
Q Consensus       174 ~~~~~~yn~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~  253 (653)
                      +.+...|..+...+...|++++|.+.|+...+.. ..+...+..+...+...|++++|.+.++......+..    ..++
T Consensus         5 ~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~----~~~~   79 (225)
T 2vq2_A            5 NQVSNIKTQLAMEYMRGQDYRQATASIEDALKSD-PKNELAWLVRAEIYQYLKVNDKAQESFRQALSIKPDS----AEIN   79 (225)
T ss_dssp             CHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTC----HHHH
T ss_pred             cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCC----hHHH
Confidence            3456778899999999999999999999998763 2346678889999999999999999999988764332    3468


Q ss_pred             HHHHHhhhcc-CCHHHHHHHHHHhcccCCCCCCchhhhcccccchhccCCCcccchhhhccchhhhHHHHHHhhhhhHHH
Q 048743          254 ESLLSLHFKF-DDIDAAGELILDMNRYREPLPNPKLRQDAQKPYLISIGSPNLRCGLKLQIMPELLEKDSILKMEGKQEL  332 (653)
Q Consensus       254 ~~li~~~~~~-g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  332 (653)
                      ..+...|... |++++|...|++..+                                                      
T Consensus        80 ~~l~~~~~~~~~~~~~A~~~~~~~~~------------------------------------------------------  105 (225)
T 2vq2_A           80 NNYGWFLCGRLNRPAESMAYFDKALA------------------------------------------------------  105 (225)
T ss_dssp             HHHHHHHHTTTCCHHHHHHHHHHHHT------------------------------------------------------
T ss_pred             HHHHHHHHHhcCcHHHHHHHHHHHHc------------------------------------------------------
Confidence            8999999999 999999999999832                                                      


Q ss_pred             HHHhcCCCCCC-HHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCC
Q 048743          333 VLFRNGKLLHS-NRAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGH  411 (653)
Q Consensus       333 ~~~~~~~~~p~-~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~  411 (653)
                           ....|+ ...+..+...+...|++++|...++++.+..  +.+...+..+...+.+.|++++|...+++..+...
T Consensus       106 -----~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~  178 (225)
T 2vq2_A          106 -----DPTYPTPYIANLNKGICSAKQGQFGLAEAYLKRSLAAQ--PQFPPAFKELARTKMLAGQLGDADYYFKKYQSRVE  178 (225)
T ss_dssp             -----STTCSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHC
T ss_pred             -----CcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC
Confidence                 112233 4577889999999999999999999998877  77777899999999999999999999999987543


Q ss_pred             CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCccCc
Q 048743          412 PMDSTTYKSLLTAYYKVKMFREAEALLKQMRKSCLVQNL  450 (653)
Q Consensus       412 ~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~  450 (653)
                      ..+...+..+...+...|+.+.+..+++.+.+.  .|+.
T Consensus       179 ~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~--~p~~  215 (225)
T 2vq2_A          179 VLQADDLLLGWKIAKALGNAQAAYEYEAQLQAN--FPYS  215 (225)
T ss_dssp             SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTC
T ss_pred             CCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHh--CCCC
Confidence            257788888888899999999999999998764  3543

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.31  E-value=1.2e-10  Score=107.47  Aligned_cols=99  Identities=14%  Similarity=0.025  Sum_probs=84.2

Q ss_pred             HHHHHHHHHHHhc-----------CChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCC
Q 048743          345 RAMAKLINGYKKH-----------GKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPM  413 (653)
Q Consensus       345 ~~~~~li~~~~~~-----------~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p  413 (653)
                      ..+..+-..+...           |++++|+..|++..+..  |.+...|..+-..+...|++++|...|++..+..  .
T Consensus        74 ~a~~~lg~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~--P~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--~  149 (217)
T 2pl2_A           74 GGYMVLSEAYVALYRQAEDRERGKGYLEQALSVLKDAERVN--PRYAPLHLQRGLVYALLGERDKAEASLKQALALE--D  149 (217)
T ss_dssp             HHHHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--C
T ss_pred             HHHHHHHHHHHHhhhhhhhhcccccCHHHHHHHHHHHHHhC--cccHHHHHHHHHHHHHcCChHHHHHHHHHHHhcc--c
Confidence            3555566666666           99999999999999887  7778889999999999999999999999998877  6


Q ss_pred             CHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCccC
Q 048743          414 DSTTYKSLLTAYYKVKMFREAEALLKQMRKSCLVQN  449 (653)
Q Consensus       414 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~  449 (653)
                      +...+..+..+|...|++++|...|+...+.  .|+
T Consensus       150 ~~~~~~~la~~~~~~g~~~~A~~~~~~al~~--~P~  183 (217)
T 2pl2_A          150 TPEIRSALAELYLSMGRLDEALAQYAKALEQ--APK  183 (217)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--STT
T ss_pred             chHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCC
Confidence            8889999999999999999999999998874  454

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.28  E-value=2.9e-10  Score=106.83  Aligned_cols=203  Identities=11%  Similarity=0.062  Sum_probs=132.5

Q ss_pred             CCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHH
Q 048743          341 LHSNRAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTYKS  420 (653)
Q Consensus       341 ~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~  420 (653)
                      ......|..+...+...|++++|...|+++.+..  +.+...+..+...+.+.|++++|...|++..+.. +.+..++..
T Consensus        20 ~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~--~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~   96 (243)
T 2q7f_A           20 HMASMTGGQQMGRGSEFGDYEKAAEAFTKAIEEN--KEDAIPYINFANLLSSVNELERALAFYDKALELD-SSAATAYYG   96 (243)
T ss_dssp             ----------------------CCTTHHHHHTTC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHH
T ss_pred             hhHHHHHHHHHHHHHHhhCHHHHHHHHHHHHHhC--cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CcchHHHHH
Confidence            3455677888888899999999999999998876  6777778889999999999999999999987753 346778888


Q ss_pred             HHHHHHHcCChHHHHHHHHHHHHcCCccCchhhHHHHhhHHHHhhhcccccccccccCCHHHHHHHHHHHHHccCCCCHH
Q 048743          421 LLTAYYKVKMFREAEALLKQMRKSCLVQNLSCEMVVSERFSEVADKSASFTDTSSLMDKSDLAESLIQEMREEAALSTIY  500 (653)
Q Consensus       421 li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~  500 (653)
                      +...+...|++++|...+++..+..  |+                                                +..
T Consensus        97 la~~~~~~~~~~~A~~~~~~~~~~~--~~------------------------------------------------~~~  126 (243)
T 2q7f_A           97 AGNVYVVKEMYKEAKDMFEKALRAG--ME------------------------------------------------NGD  126 (243)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHT--CC------------------------------------------------SHH
T ss_pred             HHHHHHHhccHHHHHHHHHHHHHhC--CC------------------------------------------------CHH
Confidence            8888899999999999988887642  32                                                334


Q ss_pred             HHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHHhhhCCCccCHHHHHHHH
Q 048743          501 KLNSSIYFFCKGKMIGDALKIYRRMQEMKIRPTVETFYYLVYGHSSLEMYRDITILWGDIKRNIESGVLAVSRDLYETLL  580 (653)
Q Consensus       501 ~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~p~~~~y~~li  580 (653)
                      .|..+...|...|++++|++.+++..+.. +.+...+..+...+...|++++|..+++.+.+.     .+.+..++..+.
T Consensus       127 ~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~-----~~~~~~~~~~la  200 (243)
T 2q7f_A          127 LFYMLGTVLVKLEQPKLALPYLQRAVELN-ENDTEARFQFGMCLANEGMLDEALSQFAAVTEQ-----DPGHADAFYNAG  200 (243)
T ss_dssp             HHHHHHHHHHHTSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCHHHHHHHHHHHHH-----CTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-----CcccHHHHHHHH
Confidence            45566666677777777777777766542 234556667777777777777777777766532     123455677777


Q ss_pred             HHHHhCCCHHHHHHHHHHHHhC
Q 048743          581 LNFLQGGYFERVMEVIGYMKKQ  602 (653)
Q Consensus       581 ~~~~~~g~~~~a~~~~~~m~~~  602 (653)
                      ..|...|++++|.+.+++..+.
T Consensus       201 ~~~~~~~~~~~A~~~~~~~~~~  222 (243)
T 2q7f_A          201 VTYAYKENREKALEMLDKAIDI  222 (243)
T ss_dssp             HHHHHTTCTTHHHHHHHHHHHH
T ss_pred             HHHHHccCHHHHHHHHHHHHcc
Confidence            7777777777777777777643

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.28  E-value=4.3e-10  Score=114.69  Aligned_cols=235  Identities=11%  Similarity=-0.039  Sum_probs=144.1

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCC----cccHHHHHHHHHHcCC--------------------HHHHH
Q 048743          345 RAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGE----STLCSDVIDALIQLGF--------------------LEAAH  400 (653)
Q Consensus       345 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~----~~~~~~li~~~~~~g~--------------------~~~a~  400 (653)
                      .++..+...+...|++++|...+++.........+    ..++..+...|...|+                    +++|.
T Consensus        88 ~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~~~~a~~~~~~A~  167 (406)
T 3sf4_A           88 KASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDVGEFPEEVRDALQAAV  167 (406)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHTCC-------CCCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHcCCcccccccchhhhhhhhHHHHHHHHH
Confidence            46677888888999999999988876654311111    3358888888889999                    99999


Q ss_pred             HHHHHHHH----CCCCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCc-cCchhhHHHHhhHHHHhhhcccccccc
Q 048743          401 DILDDMEL----AGHPM-DSTTYKSLLTAYYKVKMFREAEALLKQMRKSCLV-QNLSCEMVVSERFSEVADKSASFTDTS  474 (653)
Q Consensus       401 ~~~~~m~~----~g~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~-p~~~~~~~~~~~l~~~~~~~~~~~~~~  474 (653)
                      ..+.+..+    .+..| ...++..+...|...|++++|...+++..+..-. ++..........+          ...|
T Consensus       168 ~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l----------a~~~  237 (406)
T 3sf4_A          168 DFYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNL----------GNAY  237 (406)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTBHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH----------HHHH
T ss_pred             HHHHHHHHHHHhccCcHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHH----------HHHH
Confidence            88887643    22111 2346778888899999999999999888763111 1111000000000          0123


Q ss_pred             cccCCHHHHHHHHHHHHHccC----CC-CHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCC-CCC----HHHHHHHHHHH
Q 048743          475 SLMDKSDLAESLIQEMREEAA----LS-TIYKLNSSIYFFCKGKMIGDALKIYRRMQEMKI-RPT----VETFYYLVYGH  544 (653)
Q Consensus       475 ~~~~~~~~a~~~~~~m~~~~~----~p-~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~-~p~----~~t~~~li~~~  544 (653)
                      ...|++++|...+++..+...    .+ ...++..+...|...|++++|.+.+++..+... .++    ..++..+...|
T Consensus       238 ~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~  317 (406)
T 3sf4_A          238 IFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELNDRIGEGRACWSLGNAY  317 (406)
T ss_dssp             HHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHcCChHHHHHHHHHHHHHHHhCcCchHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHH
Confidence            446777777777766553211    01 145667777777777777777777777664211 111    34566667777


Q ss_pred             hccCCHHHHHHHHHHHHHHhhhCCCcc-CHHHHHHHHHHHHhCCCH
Q 048743          545 SSLEMYRDITILWGDIKRNIESGVLAV-SRDLYETLLLNFLQGGYF  589 (653)
Q Consensus       545 ~~~~~~~~a~~~~~~~~~~~~~~~~~p-~~~~y~~li~~~~~~g~~  589 (653)
                      ...|++++|..+++...+..+..+..+ ...++..+...+...|+.
T Consensus       318 ~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  363 (406)
T 3sf4_A          318 TALGNHDQAMHFAEKHLEISREVGDKSGELTARLNLSDLQMVLGLS  363 (406)
T ss_dssp             HHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHTT
T ss_pred             HHcCCHHHHHHHHHHHHHHHHHhcCCcchhHHHHHHHHHHHHhhHh
Confidence            777777777777777665544443322 233455555555555544

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.28  E-value=2.3e-09  Score=102.63  Aligned_cols=246  Identities=6%  Similarity=-0.084  Sum_probs=186.5

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCC--HHHHHHHHH
Q 048743          346 AMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMD--STTYKSLLT  423 (653)
Q Consensus       346 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~--~~~~~~li~  423 (653)
                      .+......+...|++++|...|++..+..  |.+...+..+...|...|++++|...+++..+....|+  ..+|..+..
T Consensus         5 ~~~~~a~~~~~~~~~~~A~~~~~~~l~~~--p~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~lg~   82 (272)
T 3u4t_A            5 VEFRYADFLFKNNNYAEAIEVFNKLEAKK--YNSPYIYNRRAVCYYELAKYDLAQKDIETYFSKVNATKAKSADFEYYGK   82 (272)
T ss_dssp             CHHHHHHHHHTTTCHHHHHHHHHHHHHTT--CCCSTTHHHHHHHHHHTTCHHHHHHHHHHHHTTSCTTTCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHhC--CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhccCchhHHHHHHHHHHH
Confidence            34466678889999999999999999887  77777799999999999999999999999988432222  345889999


Q ss_pred             HHHHcCChHHHHHHHHHHHHcCCccCchhh-HHHHhhHHHHhhhcccccccccccCCHHHHHHHHHHHHHccCCC-CHHH
Q 048743          424 AYYKVKMFREAEALLKQMRKSCLVQNLSCE-MVVSERFSEVADKSASFTDTSSLMDKSDLAESLIQEMREEAALS-TIYK  501 (653)
Q Consensus       424 ~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~-~~~~~~l~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~~  501 (653)
                      .+...|++++|...|+...+.  .|+.... ....              ..|...|++++|...|++..+..  | +...
T Consensus        83 ~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~l~--------------~~~~~~~~~~~A~~~~~~al~~~--~~~~~~  144 (272)
T 3u4t_A           83 ILMKKGQDSLAIQQYQAAVDR--DTTRLDMYGQIG--------------SYFYNKGNFPLAIQYMEKQIRPT--TTDPKV  144 (272)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH--STTCTHHHHHHH--------------HHHHHTTCHHHHHHHHGGGCCSS--CCCHHH
T ss_pred             HHHHcccHHHHHHHHHHHHhc--CcccHHHHHHHH--------------HHHHHccCHHHHHHHHHHHhhcC--CCcHHH
Confidence            999999999999999999884  3543211 1111              12445899999999999988763  5 6777


Q ss_pred             HHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCC---HHHHHHHHHHHHHHhhhCCCc---cCHHH
Q 048743          502 LNSSIYFFCKGKMIGDALKIYRRMQEMKIRPTVETFYYLVYGHSSLEM---YRDITILWGDIKRNIESGVLA---VSRDL  575 (653)
Q Consensus       502 y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~---~~~a~~~~~~~~~~~~~~~~~---p~~~~  575 (653)
                      |..+...+...+++++|++.|++..+.. +.+...+..+...+...|+   +++|...++...+......-.   .....
T Consensus       145 ~~~l~~~~~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~  223 (272)
T 3u4t_A          145 FYELGQAYYYNKEYVKADSSFVKVLELK-PNIYIGYLWRARANAAQDPDTKQGLAKPYYEKLIEVCAPGGAKYKDELIEA  223 (272)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHSTTCSSCTTHHHHHHHHHHHGGGGGGGHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCcchhhHHHHHHHHHHHHHHhcccccchHHHHHH
Confidence            7777734444569999999999998853 2236677778888888888   888999998887553222111   01357


Q ss_pred             HHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCCHHhHHHH
Q 048743          576 YETLLLNFLQGGYFERVMEVIGYMKKQNMYVDKLMYKSE  614 (653)
Q Consensus       576 y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~l  614 (653)
                      |..+...|...|++++|.+.+++..+.  .|+.....-.
T Consensus       224 ~~~l~~~~~~~~~~~~A~~~~~~al~~--~p~~~~a~~~  260 (272)
T 3u4t_A          224 NEYIAYYYTINRDKVKADAAWKNILAL--DPTNKKAIDG  260 (272)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhc--CccHHHHHHH
Confidence            888889999999999999999999854  4665444433

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.27  E-value=4.6e-10  Score=114.83  Aligned_cols=214  Identities=12%  Similarity=0.004  Sum_probs=144.3

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHhcC----CCCCCcccHHHHHHHHHHcCC-----------------HHHHHHHH
Q 048743          345 RAMAKLINGYKKHGKNSELSWLLLSIKKEH----HSFGESTLCSDVIDALIQLGF-----------------LEAAHDIL  403 (653)
Q Consensus       345 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~----~~~~~~~~~~~li~~~~~~g~-----------------~~~a~~~~  403 (653)
                      ..+..+-..|...|++++|...+++.....    ..+....++..+...|...|+                 +++|...+
T Consensus       127 ~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~a~~~~~~A~~~~  206 (411)
T 4a1s_A          127 KSSGNLGNTLKVMGRFDEAAICCERHLTLARQLGDRLSEGRALYNLGNVYHAKGKHLGQRNPGKFGDDVKEALTRAVEFY  206 (411)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHHHHHHcCcccccccchhhhhhhhHHHHHHHHHH
Confidence            466778888889999999999888765541    012233457788888888898                 88888888


Q ss_pred             HHHHHC----CCCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCccCchhhHHHHhhHHHHhhhcccccccccccC
Q 048743          404 DDMELA----GHPM-DSTTYKSLLTAYYKVKMFREAEALLKQMRKSCLVQNLSCEMVVSERFSEVADKSASFTDTSSLMD  478 (653)
Q Consensus       404 ~~m~~~----g~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~  478 (653)
                      ++..+.    +-.+ ...++..+...|...|++++|...+++..+..  ++.                           +
T Consensus       207 ~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~--~~~---------------------------~  257 (411)
T 4a1s_A          207 QENLKLMRDLGDRGAQGRACGNLGNTYYLLGDFQAAIEHHQERLRIA--REF---------------------------G  257 (411)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH--HHH---------------------------T
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHH--Hhc---------------------------C
Confidence            776431    1111 23467777778888888888888888776531  110                           0


Q ss_pred             CHHHHHHHHHHHHHccCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCC--C---CCHHHHHHHHHHHhccCCHHHH
Q 048743          479 KSDLAESLIQEMREEAALSTIYKLNSSIYFFCKGKMIGDALKIYRRMQEMKI--R---PTVETFYYLVYGHSSLEMYRDI  553 (653)
Q Consensus       479 ~~~~a~~~~~~m~~~~~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~--~---p~~~t~~~li~~~~~~~~~~~a  553 (653)
                      +..               ....+|..+...|...|++++|++.|++......  .   ....++..+...+...|++++|
T Consensus       258 ~~~---------------~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A  322 (411)
T 4a1s_A          258 DRA---------------AERRANSNLGNSHIFLGQFEDAAEHYKRTLALAVELGEREVEAQSCYSLGNTYTLLHEFNTA  322 (411)
T ss_dssp             CHH---------------HHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             CcH---------------HHHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHH
Confidence            000               0123567777788888888888888887765211  0   1145677777888888888888


Q ss_pred             HHHHHHHHHHhhhCCCc-cCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhC
Q 048743          554 TILWGDIKRNIESGVLA-VSRDLYETLLLNFLQGGYFERVMEVIGYMKKQ  602 (653)
Q Consensus       554 ~~~~~~~~~~~~~~~~~-p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~  602 (653)
                      ..+++.........+.. ....++..+...|...|++++|.+.+++..+.
T Consensus       323 ~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  372 (411)
T 4a1s_A          323 IEYHNRHLAIAQELGDRIGEARACWSLGNAHSAIGGHERALKYAEQHLQL  372 (411)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCChHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHH
Confidence            88888776543333222 22446777888888899999999888887643

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.26  E-value=2.4e-10  Score=113.05  Aligned_cols=214  Identities=13%  Similarity=-0.005  Sum_probs=141.0

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCC----cccHHHHHHHHHHcCC--------------------HHHHH
Q 048743          345 RAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGE----STLCSDVIDALIQLGF--------------------LEAAH  400 (653)
Q Consensus       345 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~----~~~~~~li~~~~~~g~--------------------~~~a~  400 (653)
                      .++..+...+...|++++|...+++..+......+    ..++..+...+...|+                    +++|.
T Consensus        84 ~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~A~  163 (338)
T 3ro2_A           84 KASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDTGEFPEDVRNALQAAV  163 (338)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSSSSSCC----CCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHcCcccccchhhhhhhhhhhHHHHHHHHH
Confidence            35677777888888888888888876543311111    2257777788888888                    88888


Q ss_pred             HHHHHHHHC----CCCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCccCchhhHHHHhhHHHHhhhccccccccc
Q 048743          401 DILDDMELA----GHPM-DSTTYKSLLTAYYKVKMFREAEALLKQMRKSCLVQNLSCEMVVSERFSEVADKSASFTDTSS  475 (653)
Q Consensus       401 ~~~~~m~~~----g~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~~~~  475 (653)
                      ..+++..+.    +..| ...++..+...+...|++++|...+++..+..-......                       
T Consensus       164 ~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~-----------------------  220 (338)
T 3ro2_A          164 DLYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKA-----------------------  220 (338)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHH-----------------------
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhcCChH-----------------------
Confidence            887775431    1111 234667777778888888888888877765210000000                       


Q ss_pred             ccCCHHHHHHHHHHHHHccCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCC-CCC----HHHHHHHHHHHhccCCH
Q 048743          476 LMDKSDLAESLIQEMREEAALSTIYKLNSSIYFFCKGKMIGDALKIYRRMQEMKI-RPT----VETFYYLVYGHSSLEMY  550 (653)
Q Consensus       476 ~~~~~~~a~~~~~~m~~~~~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~-~p~----~~t~~~li~~~~~~~~~  550 (653)
                                           ....++..+...|...|++++|.+.+++...... .++    ..++..+...+...|++
T Consensus       221 ---------------------~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~  279 (338)
T 3ro2_A          221 ---------------------AERRAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDY  279 (338)
T ss_dssp             ---------------------HHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCH
T ss_pred             ---------------------HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhhcchhHHHHHHHHHHHHHHHhcCH
Confidence                                 0233567777778888888888888887765211 111    45667777888888999


Q ss_pred             HHHHHHHHHHHHHhhhCCCc-cCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhC
Q 048743          551 RDITILWGDIKRNIESGVLA-VSRDLYETLLLNFLQGGYFERVMEVIGYMKKQ  602 (653)
Q Consensus       551 ~~a~~~~~~~~~~~~~~~~~-p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~  602 (653)
                      ++|..+++...+.....+-. ....++..+...|...|++++|.+.+++..+.
T Consensus       280 ~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~  332 (338)
T 3ro2_A          280 EKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLEI  332 (338)
T ss_dssp             HHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHH
Confidence            99988888776543332222 22446777888888999999999998887654

>1ouv_A Conserved hypothetical secreted protein; TPR repeat, HCP repeat, cysteine rich protein, loop-helix-TU repeat protein, hydrolase; 2.00A {Helicobacter pylori} SCOP: a.118.18.1

Probab=99.26  E-value=4.6e-09  Score=100.69  Aligned_cols=224  Identities=9%  Similarity=-0.065  Sum_probs=179.3

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHH----cCCHHHHHHHHHHHHHCCCCCCHHHH
Q 048743          343 SNRAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQ----LGFLEAAHDILDDMELAGHPMDSTTY  418 (653)
Q Consensus       343 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~----~g~~~~a~~~~~~m~~~g~~p~~~~~  418 (653)
                      +..++..+-..+...|++++|...|++..+.+    +...+..+...|..    .+++++|...|++..+.+   +...+
T Consensus         5 ~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~~----~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~   77 (273)
T 1ouv_A            5 DPKELVGLGAKSYKEKDFTQAKKYFEKACDLK----ENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNGC   77 (273)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT----CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHH
T ss_pred             ChHHHHHHHHHHHhCCCHHHHHHHHHHHHHCC----CHHHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHCC---CHHHH
Confidence            44567788888999999999999999988743    44568889999999    999999999999998876   78888


Q ss_pred             HHHHHHHHH----cCChHHHHHHHHHHHHcCCccCchhhHHHHhhHHHHhhhcccccccccc----cCCHHHHHHHHHHH
Q 048743          419 KSLLTAYYK----VKMFREAEALLKQMRKSCLVQNLSCEMVVSERFSEVADKSASFTDTSSL----MDKSDLAESLIQEM  490 (653)
Q Consensus       419 ~~li~~~~~----~~~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~~~~~----~~~~~~a~~~~~~m  490 (653)
                      ..+-..|..    .+++++|...|++..+.+ .+.....+  .              ..|..    .++.++|...|++.
T Consensus        78 ~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~-~~~a~~~l--g--------------~~~~~~~~~~~~~~~A~~~~~~a  140 (273)
T 1ouv_A           78 HLLGNLYYSGQGVSQNTNKALQYYSKACDLK-YAEGCASL--G--------------GIYHDGKVVTRDFKKAVEYFTKA  140 (273)
T ss_dssp             HHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT-CHHHHHHH--H--------------HHHHHCSSSCCCHHHHHHHHHHH
T ss_pred             HHHHHHHhCCCCcccCHHHHHHHHHHHHHcC-CccHHHHH--H--------------HHHHcCCCcccCHHHHHHHHHHH
Confidence            889999999    999999999999998865 22211111  1              11223    78999999999998


Q ss_pred             HHccCCCCHHHHHHHHHHHHc----CCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhc----cCCHHHHHHHHHHHHH
Q 048743          491 REEAALSTIYKLNSSIYFFCK----GKMIGDALKIYRRMQEMKIRPTVETFYYLVYGHSS----LEMYRDITILWGDIKR  562 (653)
Q Consensus       491 ~~~~~~p~~~~y~~li~~~~~----~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~----~~~~~~a~~~~~~~~~  562 (653)
                      .+.+   +...+..+-..|..    .+++++|++.|++..+.+   +...+..+...|..    .+++++|..+++...+
T Consensus       141 ~~~~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~  214 (273)
T 1ouv_A          141 CDLN---DGDGCTILGSLYDAGRGTPKDLKKALASYDKACDLK---DSPGCFNAGNMYHHGEGATKNFKEALARYSKACE  214 (273)
T ss_dssp             HHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHH
T ss_pred             HhcC---cHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCccHHHHHHHHHHHHh
Confidence            8876   56677788888887    899999999999988764   45677778888888    8999999999987752


Q ss_pred             HhhhCCCccCHHHHHHHHHHHHh----CCCHHHHHHHHHHHHhCC
Q 048743          563 NIESGVLAVSRDLYETLLLNFLQ----GGYFERVMEVIGYMKKQN  603 (653)
Q Consensus       563 ~~~~~~~~p~~~~y~~li~~~~~----~g~~~~a~~~~~~m~~~g  603 (653)
                      .      . +...+..+-..|..    .+++++|.+.|++..+.|
T Consensus       215 ~------~-~~~a~~~l~~~~~~g~~~~~~~~~A~~~~~~a~~~~  252 (273)
T 1ouv_A          215 L------E-NGGGCFNLGAMQYNGEGVTRNEKQAIENFKKGCKLG  252 (273)
T ss_dssp             T------T-CHHHHHHHHHHHHTTSSSSCCSTTHHHHHHHHHHHT
T ss_pred             C------C-CHHHHHHHHHHHHcCCCcccCHHHHHHHHHHHHHcC
Confidence            2      2 25677778888888    899999999999988776

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.26  E-value=1e-09  Score=105.06  Aligned_cols=163  Identities=13%  Similarity=0.073  Sum_probs=96.9

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 048743          346 AMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTYKSLLTAY  425 (653)
Q Consensus       346 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~  425 (653)
                      .|..+...+...|++++|...|++..+..  |.+..+|..+...|...|++++|...|++..+. .+.+...|..+...+
T Consensus        76 ~~~~lg~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~-~~~~~~~~~~l~~~~  152 (272)
T 3u4t_A           76 DFEYYGKILMKKGQDSLAIQQYQAAVDRD--TTRLDMYGQIGSYFYNKGNFPLAIQYMEKQIRP-TTTDPKVFYELGQAY  152 (272)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHS--TTCTHHHHHHHHHHHHTTCHHHHHHHHGGGCCS-SCCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcccHHHHHHHHHHHHhcC--cccHHHHHHHHHHHHHccCHHHHHHHHHHHhhc-CCCcHHHHHHHHHHH
Confidence            45555566666666666666666666554  444455666666666666666666666665544 222344444444233


Q ss_pred             HHcCChHHHHHHHHHHHHcCCccCchhhHHHHhhHHHHhhhcccccccccccCCHHHHHHHHHHHHHccCCCCHHHHHHH
Q 048743          426 YKVKMFREAEALLKQMRKSCLVQNLSCEMVVSERFSEVADKSASFTDTSSLMDKSDLAESLIQEMREEAALSTIYKLNSS  505 (653)
Q Consensus       426 ~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~y~~l  505 (653)
                      ...+++++|...|++..+.  .|+                                                +...|..+
T Consensus       153 ~~~~~~~~A~~~~~~a~~~--~p~------------------------------------------------~~~~~~~~  182 (272)
T 3u4t_A          153 YYNKEYVKADSSFVKVLEL--KPN------------------------------------------------IYIGYLWR  182 (272)
T ss_dssp             HHTTCHHHHHHHHHHHHHH--STT------------------------------------------------CHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHh--Ccc------------------------------------------------chHHHHHH
Confidence            3334566666666555542  232                                                34445555


Q ss_pred             HHHHHcCCC---HHHHHHHHHHHHhcC-CCCC------HHHHHHHHHHHhccCCHHHHHHHHHHHH
Q 048743          506 IYFFCKGKM---IGDALKIYRRMQEMK-IRPT------VETFYYLVYGHSSLEMYRDITILWGDIK  561 (653)
Q Consensus       506 i~~~~~~g~---~~~a~~~~~~m~~~g-~~p~------~~t~~~li~~~~~~~~~~~a~~~~~~~~  561 (653)
                      ...+...|+   +++|...|++..+.. -.|+      ...|..+...|...|++++|.++++.+.
T Consensus       183 ~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al  248 (272)
T 3u4t_A          183 ARANAAQDPDTKQGLAKPYYEKLIEVCAPGGAKYKDELIEANEYIAYYYTINRDKVKADAAWKNIL  248 (272)
T ss_dssp             HHHHHHHSTTCSSCTTHHHHHHHHHHHGGGGGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHcCcchhhHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            566666666   777777777776531 2233      2467777888888899999999888876

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.23  E-value=2.9e-10  Score=106.83  Aligned_cols=207  Identities=12%  Similarity=-0.001  Sum_probs=155.4

Q ss_pred             CCchhhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCccHHHHHHHHHHHHhcCChhhhHHHHHHhhhcCCCcccchhHHH
Q 048743          174 KPDTMIFNLVLHACVRFGSSLKGQHIMELMSQTGVVADAHSIIILAQIHEMNCQRDELKKFKCYIDQLSTPFAHHYQQFY  253 (653)
Q Consensus       174 ~~~~~~yn~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~  253 (653)
                      ......|..+...+.+.|++++|...|++..+.. ..+...+..+...+...|++++|.+.++...+..+.    +..++
T Consensus        20 ~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~----~~~~~   94 (243)
T 2q7f_A           20 HMASMTGGQQMGRGSEFGDYEKAAEAFTKAIEEN-KEDAIPYINFANLLSSVNELERALAFYDKALELDSS----AATAY   94 (243)
T ss_dssp             ----------------------CCTTHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT----CHHHH
T ss_pred             hhHHHHHHHHHHHHHHhhCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCc----chHHH
Confidence            4456778888899999999999999999998753 235666888899999999999999999998876432    23468


Q ss_pred             HHHHHhhhccCCHHHHHHHHHHhcccCCCCCCchhhhcccccchhccCCCcccchhhhccchhhhHHHHHHhhhhhHHHH
Q 048743          254 ESLLSLHFKFDDIDAAGELILDMNRYREPLPNPKLRQDAQKPYLISIGSPNLRCGLKLQIMPELLEKDSILKMEGKQELV  333 (653)
Q Consensus       254 ~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  333 (653)
                      ..+...|...|++++|.++|++..+.                                                      
T Consensus        95 ~~la~~~~~~~~~~~A~~~~~~~~~~------------------------------------------------------  120 (243)
T 2q7f_A           95 YGAGNVYVVKEMYKEAKDMFEKALRA------------------------------------------------------  120 (243)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHH------------------------------------------------------
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHHHh------------------------------------------------------
Confidence            89999999999999999999988320                                                      


Q ss_pred             HHhcCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCC
Q 048743          334 LFRNGKLLHSNRAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPM  413 (653)
Q Consensus       334 ~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p  413 (653)
                            .+.+...+..+...+.+.|++++|...++++.+..  +.+...+..+...+.+.|++++|...|++..+.. +.
T Consensus       121 ------~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~  191 (243)
T 2q7f_A          121 ------GMENGDLFYMLGTVLVKLEQPKLALPYLQRAVELN--ENDTEARFQFGMCLANEGMLDEALSQFAAVTEQD-PG  191 (243)
T ss_dssp             ------TCCSHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHTCCHHHHHHHHHHHHHC-TT
T ss_pred             ------CCCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC--CccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cc
Confidence                  12345678888999999999999999999998877  6777789999999999999999999999998753 34


Q ss_pred             CHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCccCc
Q 048743          414 DSTTYKSLLTAYYKVKMFREAEALLKQMRKSCLVQNL  450 (653)
Q Consensus       414 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~  450 (653)
                      +..++..+..+|.+.|++++|...+++..+.  .|+.
T Consensus       192 ~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~--~p~~  226 (243)
T 2q7f_A          192 HADAFYNAGVTYAYKENREKALEMLDKAIDI--QPDH  226 (243)
T ss_dssp             CHHHHHHHHHHHHHTTCTTHHHHHHHHHHHH--CTTC
T ss_pred             cHHHHHHHHHHHHHccCHHHHHHHHHHHHcc--Ccch
Confidence            6889999999999999999999999999874  4554

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.19  E-value=2.9e-09  Score=108.43  Aligned_cols=246  Identities=11%  Similarity=-0.035  Sum_probs=176.3

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHhcC----CCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCC-CCC----H
Q 048743          345 RAMAKLINGYKKHGKNSELSWLLLSIKKEH----HSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGH-PMD----S  415 (653)
Q Consensus       345 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~----~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~-~p~----~  415 (653)
                      ..|..+...+...|++++|...+++.....    ..+....++..+...|...|++++|...+++..+... .++    .
T Consensus        48 ~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~  127 (406)
T 3sf4_A           48 AIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAKASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEA  127 (406)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccccchH
Confidence            467888889999999999999998865431    1122244588889999999999999999998754210 012    4


Q ss_pred             HHHHHHHHHHHHcCC--------------------hHHHHHHHHHHHHcCCc-cCc-hhhHHHHhhHHHHhhhccccccc
Q 048743          416 TTYKSLLTAYYKVKM--------------------FREAEALLKQMRKSCLV-QNL-SCEMVVSERFSEVADKSASFTDT  473 (653)
Q Consensus       416 ~~~~~li~~~~~~~~--------------------~~~a~~~~~~m~~~~~~-p~~-~~~~~~~~~l~~~~~~~~~~~~~  473 (653)
                      .++..+...|...|+                    +++|...+++..+..-. ++. ........ +          ...
T Consensus       128 ~~~~~l~~~~~~~g~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~-l----------a~~  196 (406)
T 3sf4_A          128 RALYNLGNVYHAKGKSFGCPGPQDVGEFPEEVRDALQAAVDFYEENLSLVTALGDRAAQGRAFGN-L----------GNT  196 (406)
T ss_dssp             HHHHHHHHHHHHHHHTCC-------CCCCHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHH-H----------HHH
T ss_pred             HHHHHHHHHHHHcCCcccccccchhhhhhhhHHHHHHHHHHHHHHHHHHHHhccCcHHHHHHHHH-H----------HHH
Confidence            478888889999999                    99999999887653111 111 11111110 1          122


Q ss_pred             ccccCCHHHHHHHHHHHHHccC-CC----CHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCC-CCC----HHHHHHHHHH
Q 048743          474 SSLMDKSDLAESLIQEMREEAA-LS----TIYKLNSSIYFFCKGKMIGDALKIYRRMQEMKI-RPT----VETFYYLVYG  543 (653)
Q Consensus       474 ~~~~~~~~~a~~~~~~m~~~~~-~p----~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~-~p~----~~t~~~li~~  543 (653)
                      |...|++++|...+++..+... .+    ...+|..+...|...|++++|+..+++...... .++    ..++..+...
T Consensus       197 ~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~  276 (406)
T 3sf4_A          197 HYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNT  276 (406)
T ss_dssp             HHHHTBHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHccCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhCcCchHHHHHHHHHHHH
Confidence            4458999999999988774321 11    234788899999999999999999998875311 112    4577888899


Q ss_pred             HhccCCHHHHHHHHHHHHHHhhhCCCcc-CHHHHHHHHHHHHhCCCHHHHHHHHHHHHh
Q 048743          544 HSSLEMYRDITILWGDIKRNIESGVLAV-SRDLYETLLLNFLQGGYFERVMEVIGYMKK  601 (653)
Q Consensus       544 ~~~~~~~~~a~~~~~~~~~~~~~~~~~p-~~~~y~~li~~~~~~g~~~~a~~~~~~m~~  601 (653)
                      +...|++++|..+++...+.....+-.+ ...++..+...|...|++++|.+.+++..+
T Consensus       277 ~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  335 (406)
T 3sf4_A          277 YTLLQDYEKAIDYHLKHLAIAQELNDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLE  335 (406)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHhCcHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            9999999999999998876544443322 255778888899999999999999988753

>2h6f_A Protein farnesyltransferase/geranylgeranyltransferase type I alpha subunit; ftase, farnesyltransferase, farnesyl transferase, prenyltransferase, CAAX, RAS, lipid modification, prenylation; HET: SUC FAR; 1.50A {Homo sapiens} SCOP: a.118.6.1 PDB: 1jcq_A* 1ld7_A* 1mzc_A* 1s63_A* 1sa4_A* 1tn6_A* 1ld8_A* 2h6g_A* 2h6h_A* 2h6i_A* 2iej_A* 3e37_A* 2f0y_A* 3ksl_A* 2zir_A* 2zis_A* 1o5m_A* 3ksq_A* 1o1t_A* 1o1s_A* ...

Probab=99.19  E-value=2.9e-09  Score=106.60  Aligned_cols=163  Identities=8%  Similarity=-0.048  Sum_probs=112.3

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 048743          343 SNRAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTYKSLL  422 (653)
Q Consensus       343 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li  422 (653)
                      +...|+.+-.++...|++++|+..|+++.+..  |.+...|..+..++.+.|++++|+..|+++.+... -+...|+.+.
T Consensus       165 ~~~a~~~~g~~~~~~g~~~eAl~~~~kal~ld--P~~~~a~~~lg~~~~~~g~~~eAl~~~~~al~l~P-~~~~a~~~lg  241 (382)
T 2h6f_A          165 NYQVWHHRRVLVEWLRDPSQELEFIADILNQD--AKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDV-RNNSVWNQRY  241 (382)
T ss_dssp             CHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCT-TCHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC--ccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCC-CCHHHHHHHH
Confidence            34567777777778888888888888888777  77777788888888888888888888888877543 2677777777


Q ss_pred             HHHHH-cCChHHH-----HHHHHHHHHcCCccCchhhHHHHhhHHHHhhhcccccccccccCCHHHHHHHHHHHHHccCC
Q 048743          423 TAYYK-VKMFREA-----EALLKQMRKSCLVQNLSCEMVVSERFSEVADKSASFTDTSSLMDKSDLAESLIQEMREEAAL  496 (653)
Q Consensus       423 ~~~~~-~~~~~~a-----~~~~~~m~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~  496 (653)
                      .++.+ .|..++|     +..|++..+  +.|+                                               
T Consensus       242 ~~l~~l~~~~~eA~~~~el~~~~~Al~--l~P~-----------------------------------------------  272 (382)
T 2h6f_A          242 FVISNTTGYNDRAVLEREVQYTLEMIK--LVPH-----------------------------------------------  272 (382)
T ss_dssp             HHHHHTTCSCSHHHHHHHHHHHHHHHH--HSTT-----------------------------------------------
T ss_pred             HHHHHhcCcchHHHHHHHHHHHHHHHH--HCCC-----------------------------------------------
Confidence            77777 5554666     355555544  2333                                               


Q ss_pred             CCHHHHHHHHHHHHcCC--CHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccC---------CHHHHHHHHHHH
Q 048743          497 STIYKLNSSIYFFCKGK--MIGDALKIYRRMQEMKIRPTVETFYYLVYGHSSLE---------MYRDITILWGDI  560 (653)
Q Consensus       497 p~~~~y~~li~~~~~~g--~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~---------~~~~a~~~~~~~  560 (653)
                       +...|+.+...+...|  ++++|++.+.++ + .-..+...+..+...|.+.|         ..++|.++++.+
T Consensus       273 -~~~a~~~l~~ll~~~g~~~~~~a~~~~~~~-~-~~p~~~~al~~La~~~~~~~~~~~~~~~~~~~~A~~~~~~l  344 (382)
T 2h6f_A          273 -NESAWNYLKGILQDRGLSKYPNLLNQLLDL-Q-PSHSSPYLIAFLVDIYEDMLENQCDNKEDILNKALELCEIL  344 (382)
T ss_dssp             -CHHHHHHHHHHHTTTCGGGCHHHHHHHHHH-T-TTCCCHHHHHHHHHHHHHHHHTTCSSHHHHHHHHHHHHHHH
T ss_pred             -CHHHHHHHHHHHHccCccchHHHHHHHHHh-c-cCCCCHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHH
Confidence             4556666777777766  577888887776 2 22334566777777777653         247777777766

>2h6f_A Protein farnesyltransferase/geranylgeranyltransferase type I alpha subunit; ftase, farnesyltransferase, farnesyl transferase, prenyltransferase, CAAX, RAS, lipid modification, prenylation; HET: SUC FAR; 1.50A {Homo sapiens} SCOP: a.118.6.1 PDB: 1jcq_A* 1ld7_A* 1mzc_A* 1s63_A* 1sa4_A* 1tn6_A* 1ld8_A* 2h6g_A* 2h6h_A* 2h6i_A* 2iej_A* 3e37_A* 2f0y_A* 3ksl_A* 2zir_A* 2zis_A* 1o5m_A* 3ksq_A* 1o1t_A* 1o1s_A* ...

Probab=99.18  E-value=8.6e-09  Score=103.13  Aligned_cols=235  Identities=9%  Similarity=-0.029  Sum_probs=187.3

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCC-HHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 048743          345 RAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGF-LEAAHDILDDMELAGHPMDSTTYKSLLT  423 (653)
Q Consensus       345 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~-~~~a~~~~~~m~~~g~~p~~~~~~~li~  423 (653)
                      ..|+.+-..+.+.|++++|+..+++.....  |.+..+|+.+...+.+.|+ +++|+..|++..+... -+...|+.+-.
T Consensus        98 ~a~~~lg~~~~~~g~~~~Al~~~~~al~l~--P~~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l~P-~~~~a~~~~g~  174 (382)
T 2h6f_A           98 DVYDYFRAVLQRDERSERAFKLTRDAIELN--AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQP-KNYQVWHHRRV  174 (382)
T ss_dssp             HHHHHHHHHHHHTCCCHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCT-TCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCChHHHHHHHHHHHHhC--ccCHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHCC-CCHHHHHHHHH
Confidence            467888888999999999999999999988  8888889999999999997 9999999999988643 37889999999


Q ss_pred             HHHHcCChHHHHHHHHHHHHcCCccCchhhHHHHhhHHHHhhhcccccccccccCCHHHHHHHHHHHHHccCCC-CHHHH
Q 048743          424 AYYKVKMFREAEALLKQMRKSCLVQNLSCEMVVSERFSEVADKSASFTDTSSLMDKSDLAESLIQEMREEAALS-TIYKL  502 (653)
Q Consensus       424 ~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~~y  502 (653)
                      ++...|++++|+..|++..+  +.|+..........             .+...|++++|...|+++.+..  | +...|
T Consensus       175 ~~~~~g~~~eAl~~~~kal~--ldP~~~~a~~~lg~-------------~~~~~g~~~eAl~~~~~al~l~--P~~~~a~  237 (382)
T 2h6f_A          175 LVEWLRDPSQELEFIADILN--QDAKNYHAWQHRQW-------------VIQEFKLWDNELQYVDQLLKED--VRNNSVW  237 (382)
T ss_dssp             HHHHHTCCTTHHHHHHHHHH--HCTTCHHHHHHHHH-------------HHHHHTCCTTHHHHHHHHHHHC--TTCHHHH
T ss_pred             HHHHccCHHHHHHHHHHHHH--hCccCHHHHHHHHH-------------HHHHcCChHHHHHHHHHHHHhC--CCCHHHH
Confidence            99999999999999999988  45665222211111             1234789999999999999876  5 78889


Q ss_pred             HHHHHHHHc-CCCHHHH-----HHHHHHHHhcCCCC-CHHHHHHHHHHHhccC--CHHHHHHHHHHHHHHhhhCCCccCH
Q 048743          503 NSSIYFFCK-GKMIGDA-----LKIYRRMQEMKIRP-TVETFYYLVYGHSSLE--MYRDITILWGDIKRNIESGVLAVSR  573 (653)
Q Consensus       503 ~~li~~~~~-~g~~~~a-----~~~~~~m~~~g~~p-~~~t~~~li~~~~~~~--~~~~a~~~~~~~~~~~~~~~~~p~~  573 (653)
                      +.+...|.+ .|..++|     ++.|++.++.  .| +...|..+...+...|  ++++|.+.+..+      ..-..+.
T Consensus       238 ~~lg~~l~~l~~~~~eA~~~~el~~~~~Al~l--~P~~~~a~~~l~~ll~~~g~~~~~~a~~~~~~~------~~~p~~~  309 (382)
T 2h6f_A          238 NQRYFVISNTTGYNDRAVLEREVQYTLEMIKL--VPHNESAWNYLKGILQDRGLSKYPNLLNQLLDL------QPSHSSP  309 (382)
T ss_dssp             HHHHHHHHHTTCSCSHHHHHHHHHHHHHHHHH--STTCHHHHHHHHHHHTTTCGGGCHHHHHHHHHH------TTTCCCH
T ss_pred             HHHHHHHHHhcCcchHHHHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHccCccchHHHHHHHHHh------ccCCCCH
Confidence            999999999 6665777     5888888875  34 4667888888888888  688998888655      1234467


Q ss_pred             HHHHHHHHHHHhCC---------CHHHHHHHHHHH-HhCCCCCCHH
Q 048743          574 DLYETLLLNFLQGG---------YFERVMEVIGYM-KKQNMYVDKL  609 (653)
Q Consensus       574 ~~y~~li~~~~~~g---------~~~~a~~~~~~m-~~~g~~p~~~  609 (653)
                      ..+..+...|.+.|         ..++|.++++++ .+  +.|+..
T Consensus       310 ~al~~La~~~~~~~~~~~~~~~~~~~~A~~~~~~l~~~--~DP~r~  353 (382)
T 2h6f_A          310 YLIAFLVDIYEDMLENQCDNKEDILNKALELCEILAKE--KDTIRK  353 (382)
T ss_dssp             HHHHHHHHHHHHHHHTTCSSHHHHHHHHHHHHHHHHHT--TCGGGH
T ss_pred             HHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHHHHH--hCchhH
Confidence            78888999998874         358999999998 53  445433

>1ouv_A Conserved hypothetical secreted protein; TPR repeat, HCP repeat, cysteine rich protein, loop-helix-TU repeat protein, hydrolase; 2.00A {Helicobacter pylori} SCOP: a.118.18.1

Probab=99.17  E-value=3e-08  Score=94.96  Aligned_cols=223  Identities=11%  Similarity=-0.028  Sum_probs=178.8

Q ss_pred             HHHHHHHHhhhccCCHHHHHHHHHHhcccCCCCCCchhhhcccccchhccCCCcccchhhhccchhhhHHHHHHhhhhhH
Q 048743          251 QFYESLLSLHFKFDDIDAAGELILDMNRYREPLPNPKLRQDAQKPYLISIGSPNLRCGLKLQIMPELLEKDSILKMEGKQ  330 (653)
Q Consensus       251 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  330 (653)
                      .++..+-..|...|++++|...|++..+                                                    
T Consensus         7 ~a~~~lg~~~~~~~~~~~A~~~~~~a~~----------------------------------------------------   34 (273)
T 1ouv_A            7 KELVGLGAKSYKEKDFTQAKKYFEKACD----------------------------------------------------   34 (273)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHH----------------------------------------------------
T ss_pred             HHHHHHHHHHHhCCCHHHHHHHHHHHHH----------------------------------------------------
Confidence            3567778888899999999999998831                                                    


Q ss_pred             HHHHHhcCCCCCCHHHHHHHHHHHHh----cCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHH----cCCHHHHHHH
Q 048743          331 ELVLFRNGKLLHSNRAMAKLINGYKK----HGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQ----LGFLEAAHDI  402 (653)
Q Consensus       331 ~~~~~~~~~~~p~~~~~~~li~~~~~----~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~----~g~~~~a~~~  402 (653)
                                .-+...+..+-..|..    .+++++|...|++..+.+    +...+..+-..|..    .+++++|...
T Consensus        35 ----------~~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~----~~~a~~~lg~~~~~g~~~~~~~~~A~~~  100 (273)
T 1ouv_A           35 ----------LKENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN----YSNGCHLLGNLYYSGQGVSQNTNKALQY  100 (273)
T ss_dssp             ----------TTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT----CHHHHHHHHHHHHHTSSSCCCHHHHHHH
T ss_pred             ----------CCCHHHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHCC----CHHHHHHHHHHHhCCCCcccCHHHHHHH
Confidence                      1234567778888888    999999999999988765    45668889999999    9999999999


Q ss_pred             HHHHHHCCCCCCHHHHHHHHHHHHH----cCChHHHHHHHHHHHHcCCccCchhhHHHHhhHHHHhhhcccccccccccC
Q 048743          403 LDDMELAGHPMDSTTYKSLLTAYYK----VKMFREAEALLKQMRKSCLVQNLSCEMVVSERFSEVADKSASFTDTSSLMD  478 (653)
Q Consensus       403 ~~~m~~~g~~p~~~~~~~li~~~~~----~~~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~  478 (653)
                      |++..+.+   +...+..+-..|..    .+++++|...|++..+.+ .+.... .+..     .+.      ......+
T Consensus       101 ~~~a~~~~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~a~~-~lg~-----~~~------~~~~~~~  164 (273)
T 1ouv_A          101 YSKACDLK---YAEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDLN-DGDGCT-ILGS-----LYD------AGRGTPK  164 (273)
T ss_dssp             HHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT-CHHHHH-HHHH-----HHH------HTSSSCC
T ss_pred             HHHHHHcC---CccHHHHHHHHHHcCCCcccCHHHHHHHHHHHHhcC-cHHHHH-HHHH-----HHH------cCCCCCC
Confidence            99999875   78889999999999    999999999999998865 222111 1111     100      0011278


Q ss_pred             CHHHHHHHHHHHHHccCCCCHHHHHHHHHHHHc----CCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhc----cCCH
Q 048743          479 KSDLAESLIQEMREEAALSTIYKLNSSIYFFCK----GKMIGDALKIYRRMQEMKIRPTVETFYYLVYGHSS----LEMY  550 (653)
Q Consensus       479 ~~~~a~~~~~~m~~~~~~p~~~~y~~li~~~~~----~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~----~~~~  550 (653)
                      +.++|...|++..+.+   +...+..+-..|..    .+++++|++.|++..+.+   +...+..+-..|..    .+++
T Consensus       165 ~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~l~~~~~~g~~~~~~~  238 (273)
T 1ouv_A          165 DLKKALASYDKACDLK---DSPGCFNAGNMYHHGEGATKNFKEALARYSKACELE---NGGGCFNLGAMQYNGEGVTRNE  238 (273)
T ss_dssp             CHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHTTSSSSCCS
T ss_pred             CHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCccHHHHHHHHHHHHhCC---CHHHHHHHHHHHHcCCCcccCH
Confidence            9999999999998875   56778889999999    999999999999998864   26677788888888    9999


Q ss_pred             HHHHHHHHHHH
Q 048743          551 RDITILWGDIK  561 (653)
Q Consensus       551 ~~a~~~~~~~~  561 (653)
                      ++|.++++...
T Consensus       239 ~~A~~~~~~a~  249 (273)
T 1ouv_A          239 KQAIENFKKGC  249 (273)
T ss_dssp             TTHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            99999998775

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.16  E-value=1.3e-09  Score=107.76  Aligned_cols=283  Identities=13%  Similarity=-0.019  Sum_probs=195.0

Q ss_pred             hHHHHHHHHHhcCChhhHHHHHHHHHhcCCCcc-----HHHHHHHHHHHHhcCChhhhHHHHHHhhhcCC--CcccchhH
Q 048743          179 IFNLVLHACVRFGSSLKGQHIMELMSQTGVVAD-----AHSIIILAQIHEMNCQRDELKKFKCYIDQLST--PFAHHYQQ  251 (653)
Q Consensus       179 ~yn~li~~~~~~g~~~~a~~l~~~m~~~g~~p~-----~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~--~~~~~~~~  251 (653)
                      .+...-..+...|++++|...|++..+..  |+     ...+..+...+...|++++|.+.++.......  ++......
T Consensus         7 ~l~~~g~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~   84 (338)
T 3ro2_A            7 ELALEGERLCKSGDCRAGVSFFEAAVQVG--TEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAK   84 (338)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHH
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHhhC--cccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhcccccHHHHH
Confidence            34455677889999999999999998863  43     24577888899999999999999887655411  22223345


Q ss_pred             HHHHHHHhhhccCCHHHHHHHHHHhcccCCCCCCchhhhcccccchhccCCCcccchhhhccchhhhHHHHHHhhhhhHH
Q 048743          252 FYESLLSLHFKFDDIDAAGELILDMNRYREPLPNPKLRQDAQKPYLISIGSPNLRCGLKLQIMPELLEKDSILKMEGKQE  331 (653)
Q Consensus       252 ~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  331 (653)
                      ++..+...|...|++++|...+++..+..                                                   
T Consensus        85 ~~~~l~~~~~~~g~~~~A~~~~~~al~~~---------------------------------------------------  113 (338)
T 3ro2_A           85 ASGNLGNTLKVLGNFDEAIVCCQRHLDIS---------------------------------------------------  113 (338)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHH---------------------------------------------------
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHHHH---------------------------------------------------
Confidence            78889999999999999999999873200                                                   


Q ss_pred             HHHHhcCCCC-CCHHHHHHHHHHHHhcCC--------------------hHHHHHHHHHHHhc----CCCCCCcccHHHH
Q 048743          332 LVLFRNGKLL-HSNRAMAKLINGYKKHGK--------------------NSELSWLLLSIKKE----HHSFGESTLCSDV  386 (653)
Q Consensus       332 ~~~~~~~~~~-p~~~~~~~li~~~~~~~~--------------------~~~a~~~~~~m~~~----~~~~~~~~~~~~l  386 (653)
                          ...+-. ....++..+...+...|+                    +++|...+++....    +..+....++..+
T Consensus       114 ----~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l  189 (338)
T 3ro2_A          114 ----RELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDTGEFPEDVRNALQAAVDLYEENLSLVTALGDRAAQGRAFGNL  189 (338)
T ss_dssp             ----HHTTCHHHHHHHHHHHHHHHHHHHHTSSSSSCC----CCHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             ----HHhcCchHHHHHHHHHHHHHHHcCcccccchhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHH
Confidence                000000 113467788888888999                    99999998876432    1112223358888


Q ss_pred             HHHHHHcCCHHHHHHHHHHHHHC----CCC-CCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCccCchhhHHHHhhHH
Q 048743          387 IDALIQLGFLEAAHDILDDMELA----GHP-MDSTTYKSLLTAYYKVKMFREAEALLKQMRKSCLVQNLSCEMVVSERFS  461 (653)
Q Consensus       387 i~~~~~~g~~~~a~~~~~~m~~~----g~~-p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~l~  461 (653)
                      ...+...|++++|...+++..+.    +.. ....++..+...+...|++++|...+++..+..-......         
T Consensus       190 ~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~---------  260 (338)
T 3ro2_A          190 GNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRA---------  260 (338)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHH---------
T ss_pred             HHHHHHhCCHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhhcchh---------
Confidence            89999999999999999987542    111 1123778888889999999999999988765311100000         


Q ss_pred             HHhhhcccccccccccCCHHHHHHHHHHHHHccCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhc----CCCC-CHHH
Q 048743          462 EVADKSASFTDTSSLMDKSDLAESLIQEMREEAALSTIYKLNSSIYFFCKGKMIGDALKIYRRMQEM----KIRP-TVET  536 (653)
Q Consensus       462 ~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~----g~~p-~~~t  536 (653)
                                                         ....++..+...|...|++++|...+++..+.    +-.+ ...+
T Consensus       261 -----------------------------------~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~  305 (338)
T 3ro2_A          261 -----------------------------------VEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRA  305 (338)
T ss_dssp             -----------------------------------HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHH
T ss_pred             -----------------------------------HHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhcCCcHHHHHH
Confidence                                               01345666777777788888888887777642    1111 1345


Q ss_pred             HHHHHHHHhccCCHHHHHHHHHHHHH
Q 048743          537 FYYLVYGHSSLEMYRDITILWGDIKR  562 (653)
Q Consensus       537 ~~~li~~~~~~~~~~~a~~~~~~~~~  562 (653)
                      +..+...+...|++++|..+++...+
T Consensus       306 ~~~la~~~~~~g~~~~A~~~~~~a~~  331 (338)
T 3ro2_A          306 CWSLGNAYTALGNHDQAMHFAEKHLE  331 (338)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHH
Confidence            66777778888888888888877653

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.14  E-value=1e-08  Score=103.74  Aligned_cols=305  Identities=10%  Similarity=-0.069  Sum_probs=186.0

Q ss_pred             HHhcCChhhHHHHHHHHHhc--CCCccHH--HHHHHHHH--HHhcCChhhhH-----------HHHHHhhhcCCCccc-c
Q 048743          187 CVRFGSSLKGQHIMELMSQT--GVVADAH--SIIILAQI--HEMNCQRDELK-----------KFKCYIDQLSTPFAH-H  248 (653)
Q Consensus       187 ~~~~g~~~~a~~l~~~m~~~--g~~p~~~--t~~~ll~~--~~~~g~~~~a~-----------~~~~~~~~~~~~~~~-~  248 (653)
                      +.+.+++++|..+++++.+.  .+..|..  .|-.++..  ..-.+.++.+.           +.++.+.....+... .
T Consensus        22 ~i~~~~~~~A~~l~~~i~~~~~~~~~~~~~~~y~~ll~~r~~~~~~~~~~~~~~~~e~~~~~~~~~~~i~~~~~~~~~~l  101 (383)
T 3ulq_A           22 YIRRFSIPDAEYLRREIKQELDQMEEDQDLHLYYSLMEFRHNLMLEYLEPLEKMRIEEQPRLSDLLLEIDKKQARLTGLL  101 (383)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHHHHHHGGGGGSCGGGSCCHHHHHHHHHHHTHHHHHHH
T ss_pred             HHHHcCHHHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHHHHhhcCcccccccccccchhhHHHHHHhcCCCchhHH
Confidence            45689999999999998764  2333433  23333322  22234444454           666666543211100 0


Q ss_pred             hhHHHHHHHHhhhccCCHHHHHHHHHHhcccCCCCCCchhhhcccccchhccCCCcccchhhhccchhhhHHHHHHhhhh
Q 048743          249 YQQFYESLLSLHFKFDDIDAAGELILDMNRYREPLPNPKLRQDAQKPYLISIGSPNLRCGLKLQIMPELLEKDSILKMEG  328 (653)
Q Consensus       249 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  328 (653)
                      ....+...-..+...|++++|...|++..+....                                              
T Consensus       102 ~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~~~----------------------------------------------  135 (383)
T 3ulq_A          102 EYYFNFFRGMYELDQREYLSAIKFFKKAESKLIF----------------------------------------------  135 (383)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTGGG----------------------------------------------
T ss_pred             HHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHhh----------------------------------------------
Confidence            0112223455667889999999999888321000                                              


Q ss_pred             hHHHHHHhcCCCCC-CHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCC-----CcccHHHHHHHHHHcCCHHHHHHH
Q 048743          329 KQELVLFRNGKLLH-SNRAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFG-----ESTLCSDVIDALIQLGFLEAAHDI  402 (653)
Q Consensus       329 ~~~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~-----~~~~~~~li~~~~~~g~~~~a~~~  402 (653)
                               .+-.+ ...+|..+-..|...|++++|...+.+........+     ...+++.+...|...|++++|...
T Consensus       136 ---------~~~~~~~a~~~~~lg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~  206 (383)
T 3ulq_A          136 ---------VKDRIEKAEFFFKMSESYYYMKQTYFSMDYARQAYEIYKEHEAYNIRLLQCHSLFATNFLDLKQYEDAISH  206 (383)
T ss_dssp             ---------CCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTCSTTHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             ---------CCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCccchHHHHHHHHHHHHHHHHhcCHHHHHHH
Confidence                     00011 224677888888899999999998888665321111     123577778888888888888888


Q ss_pred             HHHHHHC----CCCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHHc----CCccCchhhHHHHhhHHHHhhhccccccc
Q 048743          403 LDDMELA----GHPM-DSTTYKSLLTAYYKVKMFREAEALLKQMRKS----CLVQNLSCEMVVSERFSEVADKSASFTDT  473 (653)
Q Consensus       403 ~~~m~~~----g~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----~~~p~~~~~~~~~~~l~~~~~~~~~~~~~  473 (653)
                      |++..+.    +-.+ ...+|..+-..|...|++++|...|++..+.    +..|.                        
T Consensus       207 ~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~------------------------  262 (383)
T 3ulq_A          207 FQKAYSMAEAEKQPQLMGRTLYNIGLCKNSQSQYEDAIPYFKRAIAVFEESNILPS------------------------  262 (383)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGG------------------------
T ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhccchh------------------------
Confidence            8876542    1111 1236777777888888888888888776652    11111                        


Q ss_pred             ccccCCHHHHHHHHHHHHHccCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhc----CCCCCHHHHHHHHHHHhccCC
Q 048743          474 SSLMDKSDLAESLIQEMREEAALSTIYKLNSSIYFFCKGKMIGDALKIYRRMQEM----KIRPTVETFYYLVYGHSSLEM  549 (653)
Q Consensus       474 ~~~~~~~~~a~~~~~~m~~~~~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~----g~~p~~~t~~~li~~~~~~~~  549 (653)
                                              ...++..+...|.+.|++++|.+.+++..+.    +-+.....+..+-..+...|+
T Consensus       263 ------------------------~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~~~  318 (383)
T 3ulq_A          263 ------------------------LPQAYFLITQIHYKLGKIDKAHEYHSKGMAYSQKAGDVIYLSEFEFLKSLYLSGPD  318 (383)
T ss_dssp             ------------------------HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTSSCC
T ss_pred             ------------------------HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCc
Confidence                                    2445677777778888888888888777652    111112335566667777777


Q ss_pred             ---HHHHHHHHHHHHHHhhhCCCcc-CHHHHHHHHHHHHhCCCHHHHHHHHHHHHh
Q 048743          550 ---YRDITILWGDIKRNIESGVLAV-SRDLYETLLLNFLQGGYFERVMEVIGYMKK  601 (653)
Q Consensus       550 ---~~~a~~~~~~~~~~~~~~~~~p-~~~~y~~li~~~~~~g~~~~a~~~~~~m~~  601 (653)
                         +++|..+++..       +..| ....+..+...|...|++++|.+.+++..+
T Consensus       319 ~~~~~~al~~~~~~-------~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~al~  367 (383)
T 3ulq_A          319 EEAIQGFFDFLESK-------MLYADLEDFAIDVAKYYHERKNFQKASAYFLKVEQ  367 (383)
T ss_dssp             HHHHHHHHHHHHHT-------TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHC-------cCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence               55666555432       2222 334566777788888888888888877653

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.13  E-value=8.1e-09  Score=92.21  Aligned_cols=165  Identities=8%  Similarity=0.032  Sum_probs=95.8

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 048743          343 SNRAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTYKSLL  422 (653)
Q Consensus       343 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li  422 (653)
                      +..+|..+-..|.+.|++++|+..|++..+..  |.+..+|..+...|.+.|++++|...+........ -+...+..+.
T Consensus         4 ~~~iy~~lG~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~~   80 (184)
T 3vtx_A            4 TTTIYMDIGDKKRTKGDFDGAIRAYKKVLKAD--PNNVETLLKLGKTYMDIGLPNDAIESLKKFVVLDT-TSAEAYYILG   80 (184)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCC-CCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCc-hhHHHHHHHH
Confidence            34456666666666677777777666666665  55666666666666666666666666666655422 2445555555


Q ss_pred             HHHHHcCChHHHHHHHHHHHHcCCccCchhhHHHHhhHHHHhhhcccccccccccCCHHHHHHHHHHHHHccCCCCHHHH
Q 048743          423 TAYYKVKMFREAEALLKQMRKSCLVQNLSCEMVVSERFSEVADKSASFTDTSSLMDKSDLAESLIQEMREEAALSTIYKL  502 (653)
Q Consensus       423 ~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~y  502 (653)
                      ..+...++++.+...+....+.  .|+                                                +...+
T Consensus        81 ~~~~~~~~~~~a~~~~~~a~~~--~~~------------------------------------------------~~~~~  110 (184)
T 3vtx_A           81 SANFMIDEKQAAIDALQRAIAL--NTV------------------------------------------------YADAY  110 (184)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH--CTT------------------------------------------------CHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHh--Ccc------------------------------------------------chHHH
Confidence            5666666666666666655542  232                                                33445


Q ss_pred             HHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHH
Q 048743          503 NSSIYFFCKGKMIGDALKIYRRMQEMKIRPTVETFYYLVYGHSSLEMYRDITILWGDIK  561 (653)
Q Consensus       503 ~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~~~  561 (653)
                      ..+...|.+.|++++|++.|++..+.. +-+..+|..+..++.+.|++++|.+.|+...
T Consensus       111 ~~lg~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al  168 (184)
T 3vtx_A          111 YKLGLVYDSMGEHDKAIEAYEKTISIK-PGFIRAYQSIGLAYEGKGLRDEAVKYFKKAL  168 (184)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCchhHHHHHHHHHHhc-chhhhHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            555555556666666666666555532 1234455555555666666666666655544

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.13  E-value=1.9e-09  Score=110.21  Aligned_cols=211  Identities=10%  Similarity=-0.075  Sum_probs=133.5

Q ss_pred             chHHHHHHHHHHHHhccchhHHHHHHHHhhhhcCCCC-c----hhHHHHHHHhhccCCcchhhhHHHHHHHHHhc---cC
Q 048743           17 SSREVLLRKLESASKNHQVGEAWETFNDFQRLHGIPE-R----HVVNRFITDLCYSAEPHWLQKACDLVLKIQKG---KA   88 (653)
Q Consensus        17 p~~~~~~~~i~~~~~~~~~~~A~~~~~~~~~~~~~~~-~----~~~~~ll~~~~~~~~~~~~~~a~~~~~~~~~~---~~   88 (653)
                      .....+..+...+...|++++|...|+...+.  .|+ +    ..+..+-..+...|+   .++|...+.+....   .+
T Consensus        46 ~~~~~l~~~g~~~~~~g~~~~A~~~~~~al~~--~~~~~~~~~~~~~~lg~~~~~~g~---~~~A~~~~~~al~~~~~~~  120 (411)
T 4a1s_A           46 SMCLELALEGERLCNAGDCRAGVAFFQAAIQA--GTEDLRTLSAIYSQLGNAYFYLGD---YNKAMQYHKHDLTLAKSMN  120 (411)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCSCHHHHHHHHHHHHHHHHHHTC---HHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHh--cccChhHHHHHHHHHHHHHHHCCC---HHHHHHHHHHHHHHHHHcc
Confidence            34455666677888999999999999998885  233 2    367777778888887   78888888876443   12


Q ss_pred             C-chhHHHHHHHHHHHHhcCCCchHHHHHHHHHcCccCCCchhHHHHHHHHhhcccccccchHHHHHHHHHhhhhhhhhc
Q 048743           89 D-LLQLDLLAKLSLSLARAQMPVPASMILRLMLGRENLPCSDLLLLVFVHMVKTEIGTCLASNFLIQLCDVFLHLSAEKS  167 (653)
Q Consensus        89 ~-~~~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  167 (653)
                      . ......+..+...|...|++++|+..+++..+..                                 ...        
T Consensus       121 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~---------------------------------~~~--------  159 (411)
T 4a1s_A          121 DRLGEAKSSGNLGNTLKVMGRFDEAAICCERHLTLA---------------------------------RQL--------  159 (411)
T ss_dssp             CHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH---------------------------------HHH--------
T ss_pred             CchHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHH---------------------------------HHh--------
Confidence            2 2356788899999999999999999998875521                                 000        


Q ss_pred             CCccCCCCchhhHHHHHHHHHhcCC-----------------hhhHHHHHHHHHhc----CCCcc-HHHHHHHHHHHHhc
Q 048743          168 NGAELIKPDTMIFNLVLHACVRFGS-----------------SLKGQHIMELMSQT----GVVAD-AHSIIILAQIHEMN  225 (653)
Q Consensus       168 ~~~~~~~~~~~~yn~li~~~~~~g~-----------------~~~a~~l~~~m~~~----g~~p~-~~t~~~ll~~~~~~  225 (653)
                         ........+|+.+...|...|+                 +++|.+.+++..+.    +-.|. ..++..+...+...
T Consensus       160 ---~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~  236 (411)
T 4a1s_A          160 ---GDRLSEGRALYNLGNVYHAKGKHLGQRNPGKFGDDVKEALTRAVEFYQENLKLMRDLGDRGAQGRACGNLGNTYYLL  236 (411)
T ss_dssp             ---TCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHT
T ss_pred             ---hchHHHHHHHHHHHHHHHHcCcccccccchhhhhhhhHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHc
Confidence               0001124467777778888888                 78888777775542    11111 12355566666666


Q ss_pred             CChhhhHHHHHHhhhcCC--CcccchhHHHHHHHHhhhccCCHHHHHHHHHHh
Q 048743          226 CQRDELKKFKCYIDQLST--PFAHHYQQFYESLLSLHFKFDDIDAAGELILDM  276 (653)
Q Consensus       226 g~~~~a~~~~~~~~~~~~--~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m  276 (653)
                      |++++|.+.++...+...  +.......++..+...|...|++++|...|++.
T Consensus       237 g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a  289 (411)
T 4a1s_A          237 GDFQAAIEHHQERLRIAREFGDRAAERRANSNLGNSHIFLGQFEDAAEHYKRT  289 (411)
T ss_dssp             TCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHH
T ss_pred             CChHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHCcCHHHHHHHHHHH
Confidence            666666666655544311  111111224555555666666666666666554

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.12  E-value=3.1e-09  Score=103.85  Aligned_cols=240  Identities=13%  Similarity=0.059  Sum_probs=157.2

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHHHhcC------CCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHC------CC
Q 048743          344 NRAMAKLINGYKKHGKNSELSWLLLSIKKEH------HSFGESTLCSDVIDALIQLGFLEAAHDILDDMELA------GH  411 (653)
Q Consensus       344 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~------~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~------g~  411 (653)
                      ..++..+...+...|++++|..+|+++.+..      ..+....++..+...|...|++++|...+++..+.      +-
T Consensus        27 ~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~  106 (311)
T 3nf1_A           27 LRTLHNLVIQYASQGRYEVAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKDAANLLNDALAIREKTLGKD  106 (311)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCTT
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCC
Confidence            4578899999999999999999999987731      12444556888999999999999999999998653      22


Q ss_pred             -CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcC------CccCchhhHHHHhhHHHHhhhcccccccccccCCHHHHH
Q 048743          412 -PMDSTTYKSLLTAYYKVKMFREAEALLKQMRKSC------LVQNLSCEMVVSERFSEVADKSASFTDTSSLMDKSDLAE  484 (653)
Q Consensus       412 -~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~------~~p~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~a~  484 (653)
                       +....++..+...|...|++++|...|++..+..      -.|..  ..... .+.          ..|...|++++|.
T Consensus       107 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~--~~~~~-~la----------~~~~~~~~~~~A~  173 (311)
T 3nf1_A          107 HPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKDHPDV--AKQLN-NLA----------LLCQNQGKYEEVE  173 (311)
T ss_dssp             CHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHH--HHHHH-HHH----------HHHHTTTCHHHHH
T ss_pred             ChHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCCChHH--HHHHH-HHH----------HHHHHcCCHHHHH
Confidence             2245678889999999999999999999987641      11221  11111 111          1244578889998


Q ss_pred             HHHHHHHHc------cCCC-CHHHHHHHHHHHHcCCCHHHHHHHHHHHHhc-------CCCCCHHHH-------HHHHHH
Q 048743          485 SLIQEMREE------AALS-TIYKLNSSIYFFCKGKMIGDALKIYRRMQEM-------KIRPTVETF-------YYLVYG  543 (653)
Q Consensus       485 ~~~~~m~~~------~~~p-~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~-------g~~p~~~t~-------~~li~~  543 (653)
                      ..|++..+.      +..| ...++..+...|...|++++|.+.+++..+.       ...+.....       ..+...
T Consensus       174 ~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  253 (311)
T 3nf1_A          174 YYYQRALEIYQTKLGPDDPNVAKTKNNLASCYLKQGKFKQAETLYKEILTRAHEREFGSVDDENKPIWMHAEEREECKGK  253 (311)
T ss_dssp             HHHHHHHHHHHHTSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHC------CCHHHHHHHHHHC---
T ss_pred             HHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCCcchHHHHHHHHHHHHhcCc
Confidence            888887764      2233 4567888888888899999999998888863       122222222       222222


Q ss_pred             HhccCCHHHHHHHHHHHHHHhhhCCCccCHHHHHHHHHHHHhCCCHHHHHHHHHHHHh
Q 048743          544 HSSLEMYRDITILWGDIKRNIESGVLAVSRDLYETLLLNFLQGGYFERVMEVIGYMKK  601 (653)
Q Consensus       544 ~~~~~~~~~a~~~~~~~~~~~~~~~~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~  601 (653)
                      +...+.+.++...+.....     ....+..++..+...|.+.|++++|.+.+++..+
T Consensus       254 ~~~~~~~~~a~~~~~~~~~-----~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  306 (311)
T 3nf1_A          254 QKDGTSFGEYGGWYKACKV-----DSPTVTTTLKNLGALYRRQGKFEAAETLEEAAMR  306 (311)
T ss_dssp             ----CCSCCCC--------------CHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             hhhHHHHHHHHHHHhhcCC-----CCchHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            3333444444444443321     1233456788888999999999999999988753

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=99.10  E-value=4.4e-08  Score=101.12  Aligned_cols=108  Identities=7%  Similarity=-0.087  Sum_probs=49.0

Q ss_pred             HHHHHHhcCCCchHHHHHHHHHcCccCCCchhHHHHHHHHhhcccccccchHHHHHHHHHhhhh---hhhhcCCccCCCC
Q 048743           99 LSLSLARAQMPVPASMILRLMLGRENLPCSDLLLLVFVHMVKTEIGTCLASNFLIQLCDVFLHL---SAEKSNGAELIKP  175 (653)
Q Consensus        99 li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~~~~l~~~~~~~~~~---~~a~~~~~~~~~~  175 (653)
                      +...+.+.|++++|+++|++..+.|. |+...  .                  +-.++...|..   ++|.+.|++....
T Consensus         9 la~~~~~~g~~~~A~~~~~~aa~~g~-~~A~~--~------------------Lg~~y~~~g~~~d~~~A~~~~~~A~~~   67 (452)
T 3e4b_A            9 LANEALKRGDTVTAQQNYQQLAELGY-SEAQV--G------------------LADIQVGTRDPAQIKQAEATYRAAADT   67 (452)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHTC-CTGGG--T------------------CC-------------------------
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHHCCC-HHHHH--H------------------HHHHHHccCCCCCHHHHHHHHHHHHhC
Confidence            45667788999999999999877652 22211  0                  11111112333   6677777655555


Q ss_pred             chhhHHHHHHHHHhcC-----ChhhHHHHHHHHHhcCCCccHHHHHHHHHHHHhcCChhh
Q 048743          176 DTMIFNLVLHACVRFG-----SSLKGQHIMELMSQTGVVADAHSIIILAQIHEMNCQRDE  230 (653)
Q Consensus       176 ~~~~yn~li~~~~~~g-----~~~~a~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~  230 (653)
                      +...+..|-..+...|     ++++|.+.|+...+.|.. +  .+..|...|...+..+.
T Consensus        68 ~~~A~~~Lg~~~~~~~~~~~~~~~~A~~~~~~Aa~~g~~-~--A~~~Lg~~y~~~~~~~~  124 (452)
T 3e4b_A           68 SPRAQARLGRLLAAKPGATEAEHHEAESLLKKAFANGEG-N--TLIPLAMLYLQYPHSFP  124 (452)
T ss_dssp             ---CHHHHHHHHHTC--CCHHHHHHHHHHHHHHHHTTCS-S--CHHHHHHHHHHCGGGCT
T ss_pred             CHHHHHHHHHHHHhCCCCCCcCHHHHHHHHHHHHHCCCH-H--HHHHHHHHHHhCCCCCC
Confidence            6666666666454444     667788887777776532 2  34444455554444333

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.10  E-value=2.3e-09  Score=104.77  Aligned_cols=217  Identities=14%  Similarity=0.061  Sum_probs=164.8

Q ss_pred             CCchhhHHHHHHHHHhcCChhhHHHHHHHHHhc-------CCCccHHHHHHHHHHHHhcCChhhhHHHHHHhhhcC----
Q 048743          174 KPDTMIFNLVLHACVRFGSSLKGQHIMELMSQT-------GVVADAHSIIILAQIHEMNCQRDELKKFKCYIDQLS----  242 (653)
Q Consensus       174 ~~~~~~yn~li~~~~~~g~~~~a~~l~~~m~~~-------g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~----  242 (653)
                      +.+..++..+...+...|++++|..+|+++.+.       .......++..+...+...|++++|.+.++......    
T Consensus        24 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~  103 (311)
T 3nf1_A           24 PARLRTLHNLVIQYASQGRYEVAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKDAANLLNDALAIREKTL  103 (311)
T ss_dssp             CHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHh
Confidence            445678999999999999999999999999873       222234557889999999999999999988887641    


Q ss_pred             CCcccchhHHHHHHHHhhhccCCHHHHHHHHHHhcccCCCCCCchhhhcccccchhccCCCcccchhhhccchhhhHHHH
Q 048743          243 TPFAHHYQQFYESLLSLHFKFDDIDAAGELILDMNRYREPLPNPKLRQDAQKPYLISIGSPNLRCGLKLQIMPELLEKDS  322 (653)
Q Consensus       243 ~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  322 (653)
                      .++......++..+...|...|++++|...|++..+...                                         
T Consensus       104 ~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~-----------------------------------------  142 (311)
T 3nf1_A          104 GKDHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIRE-----------------------------------------  142 (311)
T ss_dssp             CTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHH-----------------------------------------
T ss_pred             CCCChHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHH-----------------------------------------
Confidence            011233456789999999999999999999998832000                                         


Q ss_pred             HHhhhhhHHHHHHhcCCCCC-CHHHHHHHHHHHHhcCChHHHHHHHHHHHhc------CCCCCCcccHHHHHHHHHHcCC
Q 048743          323 ILKMEGKQELVLFRNGKLLH-SNRAMAKLINGYKKHGKNSELSWLLLSIKKE------HHSFGESTLCSDVIDALIQLGF  395 (653)
Q Consensus       323 ~~~~~~~~~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~------~~~~~~~~~~~~li~~~~~~g~  395 (653)
                                  ....+-.| ....+..+...+...|++++|...+++....      +..+....++..+...|...|+
T Consensus       143 ------------~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~  210 (311)
T 3nf1_A          143 ------------KVLGKDHPDVAKQLNNLALLCQNQGKYEEVEYYYQRALEIYQTKLGPDDPNVAKTKNNLASCYLKQGK  210 (311)
T ss_dssp             ------------HHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTSCTTCHHHHHHHHHHHHHHHHHTC
T ss_pred             ------------HhcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHcCC
Confidence                        00001112 2346788889999999999999999998765      2123334568889999999999


Q ss_pred             HHHHHHHHHHHHHC------------------------------------------------CCCCCHHHHHHHHHHHHH
Q 048743          396 LEAAHDILDDMELA------------------------------------------------GHPMDSTTYKSLLTAYYK  427 (653)
Q Consensus       396 ~~~a~~~~~~m~~~------------------------------------------------g~~p~~~~~~~li~~~~~  427 (653)
                      +++|...|++..+.                                                ..+.+..++..+..+|.+
T Consensus       211 ~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~la~~~~~  290 (311)
T 3nf1_A          211 FKQAETLYKEILTRAHEREFGSVDDENKPIWMHAEEREECKGKQKDGTSFGEYGGWYKACKVDSPTVTTTLKNLGALYRR  290 (311)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHC------CCHHHHHHHHHHC-------CCSCCCC---------CHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHhcCCCCCcchHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhhcCCCCchHHHHHHHHHHHHHH
Confidence            99999999998752                                                112245678889999999


Q ss_pred             cCChHHHHHHHHHHHH
Q 048743          428 VKMFREAEALLKQMRK  443 (653)
Q Consensus       428 ~~~~~~a~~~~~~m~~  443 (653)
                      .|++++|...|++..+
T Consensus       291 ~g~~~~A~~~~~~al~  306 (311)
T 3nf1_A          291 QGKFEAAETLEEAAMR  306 (311)
T ss_dssp             HTCHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHH
Confidence            9999999999998876

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=99.05  E-value=1.3e-07  Score=97.49  Aligned_cols=92  Identities=14%  Similarity=0.070  Sum_probs=45.0

Q ss_pred             HHHHHHHhccchhHHHHHHHHhhhhcCCCCchhHHHHHHHhhccCCcchhhhHHHHHHHHHhccCCchhHHHHHHHHHHH
Q 048743           24 RKLESASKNHQVGEAWETFNDFQRLHGIPERHVVNRFITDLCYSAEPHWLQKACDLVLKIQKGKADLLQLDLLAKLSLSL  103 (653)
Q Consensus        24 ~~i~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~t~~~li~~~  103 (653)
                      .+...+.+.|++++|.+.|+...+.+ .+  ..+..+-..+...|+....++|...|.+....     +...+..+...+
T Consensus         8 ~la~~~~~~g~~~~A~~~~~~aa~~g-~~--~A~~~Lg~~y~~~g~~~d~~~A~~~~~~A~~~-----~~~A~~~Lg~~~   79 (452)
T 3e4b_A            8 RLANEALKRGDTVTAQQNYQQLAELG-YS--EAQVGLADIQVGTRDPAQIKQAEATYRAAADT-----SPRAQARLGRLL   79 (452)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHT-CC--TGGGTCC---------------------------------CHHHHHHHH
T ss_pred             HHHHHHHhCCCHHHHHHHHHHHHHCC-CH--HHHHHHHHHHHccCCCCCHHHHHHHHHHHHhC-----CHHHHHHHHHHH
Confidence            45667788999999999999988753 33  33333333344456654468999999887532     555566666655


Q ss_pred             HhcC-----CCchHHHHHHHHHcCc
Q 048743          104 ARAQ-----MPVPASMILRLMLGRE  123 (653)
Q Consensus       104 ~~~g-----~~~~a~~~~~~m~~~g  123 (653)
                      ...+     ++++|+.+|++..+.|
T Consensus        80 ~~~~~~~~~~~~~A~~~~~~Aa~~g  104 (452)
T 3e4b_A           80 AAKPGATEAEHHEAESLLKKAFANG  104 (452)
T ss_dssp             HTC--CCHHHHHHHHHHHHHHHHTT
T ss_pred             HhCCCCCCcCHHHHHHHHHHHHHCC
Confidence            5555     6678999999988765

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.05  E-value=1.6e-07  Score=94.43  Aligned_cols=246  Identities=12%  Similarity=0.001  Sum_probs=168.4

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCc----ccHHHHHHHHHHcCCHHHHHHHHHHHHHC----CCC--C-C
Q 048743          346 AMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGES----TLCSDVIDALIQLGFLEAAHDILDDMELA----GHP--M-D  414 (653)
Q Consensus       346 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~----~~~~~li~~~~~~g~~~~a~~~~~~m~~~----g~~--p-~  414 (653)
                      .++.+-..+...|++++|...+++.........+.    .++..+...+...|++++|...+++..+.    +..  | .
T Consensus        55 ~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~  134 (373)
T 1hz4_A           55 ATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMH  134 (373)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHH
T ss_pred             HHHHHHHHHHhcCcHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccCcHH
Confidence            45667778889999999999999876533111222    22566778888999999999999987542    222  3 2


Q ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCccCchhhHHHHhhHHHHhhhcccccccccccCCHHHHHHHHHHHHHcc
Q 048743          415 STTYKSLLTAYYKVKMFREAEALLKQMRKSCLVQNLSCEMVVSERFSEVADKSASFTDTSSLMDKSDLAESLIQEMREEA  494 (653)
Q Consensus       415 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~~  494 (653)
                      ..++..+...+...|++++|...+++..+..-.............+.          ..+...|++++|...+++.....
T Consensus       135 ~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la----------~~~~~~g~~~~A~~~l~~a~~~~  204 (373)
T 1hz4_A          135 EFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAMLI----------QCSLARGDLDNARSQLNRLENLL  204 (373)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHHH----------HHHHHHTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhccCcHHHHHHHHHHH----------HHHHHcCCHHHHHHHHHHHHHHH
Confidence            34667788889999999999999999876432211111111111111          12345899999999999887543


Q ss_pred             CCCC-HHHHH-----HHHHHHHcCCCHHHHHHHHHHHHhcCCCCC---HHHHHHHHHHHhccCCHHHHHHHHHHHHHHhh
Q 048743          495 ALST-IYKLN-----SSIYFFCKGKMIGDALKIYRRMQEMKIRPT---VETFYYLVYGHSSLEMYRDITILWGDIKRNIE  565 (653)
Q Consensus       495 ~~p~-~~~y~-----~li~~~~~~g~~~~a~~~~~~m~~~g~~p~---~~t~~~li~~~~~~~~~~~a~~~~~~~~~~~~  565 (653)
                      -.++ ...+.     ..+..+...|++++|..++++.......++   ...+..+...+...|++++|...++.......
T Consensus       205 ~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~a~~~~~  284 (373)
T 1hz4_A          205 GNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNIARAQILLGEFEPAEIVLEELNENAR  284 (373)
T ss_dssp             TTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHH
T ss_pred             hccCcchhHHHHHHHHHHHHHHHCCCHHHHHHHHHhCCCCCCCcchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHH
Confidence            2221 11222     233447799999999999998776432211   23566778889999999999999998876655


Q ss_pred             hCCCccCH-HHHHHHHHHHHhCCCHHHHHHHHHHHHh
Q 048743          566 SGVLAVSR-DLYETLLLNFLQGGYFERVMEVIGYMKK  601 (653)
Q Consensus       566 ~~~~~p~~-~~y~~li~~~~~~g~~~~a~~~~~~m~~  601 (653)
                      ..+..++. ..+..+..++...|+.++|...+++...
T Consensus       285 ~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~al~  321 (373)
T 1hz4_A          285 SLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALK  321 (373)
T ss_dssp             HTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             hCcchhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            55544444 3666677888999999999999988754

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.05  E-value=5.5e-07  Score=90.47  Aligned_cols=284  Identities=10%  Similarity=-0.076  Sum_probs=182.1

Q ss_pred             HHHHHHHHhcCChhhHHHHHHHHHhcCCCccHH----HHHHHHHHHHhcCChhhhHHHHHHhhhcCC--CcccchhHHHH
Q 048743          181 NLVLHACVRFGSSLKGQHIMELMSQTGVVADAH----SIIILAQIHEMNCQRDELKKFKCYIDQLST--PFAHHYQQFYE  254 (653)
Q Consensus       181 n~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~----t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~--~~~~~~~~~~~  254 (653)
                      ...-..+...|++++|...+++.....-..+..    ++..+...+...|++++|.+.++.......  +.......+++
T Consensus        18 ~~~a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~   97 (373)
T 1hz4_A           18 ALRAQVAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLI   97 (373)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHhcCcHHHHHHHHH
Confidence            334456677999999999999987653222222    355666778889999999998888765421  11222234567


Q ss_pred             HHHHhhhccCCHHHHHHHHHHhcccCCCCCCchhhhcccccchhccCCCcccchhhhccchhhhHHHHHHhhhhhHHHHH
Q 048743          255 SLLSLHFKFDDIDAAGELILDMNRYREPLPNPKLRQDAQKPYLISIGSPNLRCGLKLQIMPELLEKDSILKMEGKQELVL  334 (653)
Q Consensus       255 ~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  334 (653)
                      .+...+...|++++|...+++..+.                                                       
T Consensus        98 ~la~~~~~~G~~~~A~~~~~~al~~-------------------------------------------------------  122 (373)
T 1hz4_A           98 QQSEILFAQGFLQTAWETQEKAFQL-------------------------------------------------------  122 (373)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH-------------------------------------------------------
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHH-------------------------------------------------------
Confidence            7888899999999999999988320                                                       


Q ss_pred             HhcCCCC--CC-HHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCC---CcccHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 048743          335 FRNGKLL--HS-NRAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFG---ESTLCSDVIDALIQLGFLEAAHDILDDMEL  408 (653)
Q Consensus       335 ~~~~~~~--p~-~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~---~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  408 (653)
                      ....+..  |. ...+..+-..+...|++++|...+++.........   ...+|..+...+...|++++|...+++...
T Consensus       123 ~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~a~~  202 (373)
T 1hz4_A          123 INEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAMLIQCSLARGDLDNARSQLNRLEN  202 (373)
T ss_dssp             HHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHhccccCcHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhccCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            0111111  32 23556677888899999999999998765441111   123467778888889999999999988754


Q ss_pred             CCCCC-C-HHHHH----HHHHHHHHcCChHHHHHHHHHHHHcCCccCchhhHHHHhhHHHHhhhcccccccccccCCHHH
Q 048743          409 AGHPM-D-STTYK----SLLTAYYKVKMFREAEALLKQMRKSCLVQNLSCEMVVSERFSEVADKSASFTDTSSLMDKSDL  482 (653)
Q Consensus       409 ~g~~p-~-~~~~~----~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~  482 (653)
                      ..-.+ + .....    ..+..+...|++++|...++......  |....                              
T Consensus       203 ~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~--~~~~~------------------------------  250 (373)
T 1hz4_A          203 LLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPE--FANNH------------------------------  250 (373)
T ss_dssp             HHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCC--CTTCG------------------------------
T ss_pred             HHhccCcchhHHHHHHHHHHHHHHHCCCHHHHHHHHHhCCCCC--CCcch------------------------------
Confidence            31111 1 11111    22344678888888888877664321  11000                              


Q ss_pred             HHHHHHHHHHccCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhc----CCCCCH-HHHHHHHHHHhccCCHHHHHHHH
Q 048743          483 AESLIQEMREEAALSTIYKLNSSIYFFCKGKMIGDALKIYRRMQEM----KIRPTV-ETFYYLVYGHSSLEMYRDITILW  557 (653)
Q Consensus       483 a~~~~~~m~~~~~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~----g~~p~~-~t~~~li~~~~~~~~~~~a~~~~  557 (653)
                                    .....+..+...+...|++++|.+.+++....    |..++. ..+..+..++...|+.++|...+
T Consensus       251 --------------~~~~~~~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l  316 (373)
T 1hz4_A          251 --------------FLQGQWRNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVL  316 (373)
T ss_dssp             --------------GGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHH
T ss_pred             --------------hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCcchhhHHHHHHHHHHHHHHhCCHHHHHHHH
Confidence                          01223456667777888888888888877642    222222 25556667788888899988888


Q ss_pred             HHHHHHhh
Q 048743          558 GDIKRNIE  565 (653)
Q Consensus       558 ~~~~~~~~  565 (653)
                      +.......
T Consensus       317 ~~al~~~~  324 (373)
T 1hz4_A          317 LDALKLAN  324 (373)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHhc
Confidence            87765433

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.04  E-value=8.2e-08  Score=96.78  Aligned_cols=321  Identities=10%  Similarity=-0.040  Sum_probs=191.8

Q ss_pred             CCchhhHHHHHHHH--HhcCChhhHHHHHHHHHhc--CCCccHHH--HHHHHHH--HHhcCChhhhH---------HHHH
Q 048743          174 KPDTMIFNLVLHAC--VRFGSSLKGQHIMELMSQT--GVVADAHS--IIILAQI--HEMNCQRDELK---------KFKC  236 (653)
Q Consensus       174 ~~~~~~yn~li~~~--~~~g~~~~a~~l~~~m~~~--g~~p~~~t--~~~ll~~--~~~~g~~~~a~---------~~~~  236 (653)
                      .|+..+-+.|-..|  .+.+++++|.+++++..+.  .+..|...  |-.++..  ..-.+......         +.++
T Consensus         7 ~~~~~v~~~l~~wy~~i~~~~~~~A~~l~~~i~~~~~~~~~~~~~~~yy~l~~~r~~~~~~~~~~~~~~~~~~~~~~~l~   86 (378)
T 3q15_A            7 IPSSRVGVKINEWYKMIRQFSVPDAEILKAEVEQDIQQMEEDQDLLIYYSLMCFRHQLMLDYLEPGKTYGNRPTVTELLE   86 (378)
T ss_dssp             BCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHGGGBCCCHHHHHHHHHHHHHHHHHHHTCCC--------CHHHHHH
T ss_pred             ccHHHHHHHHHHHHHHHHHcCHHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHHhhcCcccccccccchHHHHH
Confidence            35555556666666  7899999999999998764  23333333  3333332  11123333333         5555


Q ss_pred             HhhhcCCCcccc-hhHHHHHHHHhhhccCCHHHHHHHHHHhcccCCCCCCchhhhcccccchhccCCCcccchhhhccch
Q 048743          237 YIDQLSTPFAHH-YQQFYESLLSLHFKFDDIDAAGELILDMNRYREPLPNPKLRQDAQKPYLISIGSPNLRCGLKLQIMP  315 (653)
Q Consensus       237 ~~~~~~~~~~~~-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  315 (653)
                      .+.....+.... .-..+...-..+...|++++|...|++..+.....++                              
T Consensus        87 ~i~~~~~~~~~~l~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~------------------------------  136 (378)
T 3q15_A           87 TIETPQKKLTGLLKYYSLFFRGMYEFDQKEYVEAIGYYREAEKELPFVSD------------------------------  136 (378)
T ss_dssp             HHHGGGHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTGGGCCC------------------------------
T ss_pred             HHhccCCCCccHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHhhCCC------------------------------
Confidence            554432111000 0012233344556789999999999887321100000                              


Q ss_pred             hhhHHHHHHhhhhhHHHHHHhcCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCC-----CcccHHHHHHHH
Q 048743          316 ELLEKDSILKMEGKQELVLFRNGKLLHSNRAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFG-----ESTLCSDVIDAL  390 (653)
Q Consensus       316 ~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~-----~~~~~~~li~~~  390 (653)
                                              ......++..+-..|...|++++|...+.+........+     ...+++.+...|
T Consensus       137 ------------------------~~~~a~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~y  192 (378)
T 3q15_A          137 ------------------------DIEKAEFHFKVAEAYYHMKQTHVSMYHILQALDIYQNHPLYSIRTIQSLFVIAGNY  192 (378)
T ss_dssp             ------------------------HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSTTCHHHHHHHHHHHHHHH
T ss_pred             ------------------------hHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHhCCCchhhHHHHHHHHHHHH
Confidence                                    001124667788888889999998888887654321111     133477788888


Q ss_pred             HHcCCHHHHHHHHHHHHHC----CCCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCccCchhhHHHHhhHHHHhh
Q 048743          391 IQLGFLEAAHDILDDMELA----GHPM-DSTTYKSLLTAYYKVKMFREAEALLKQMRKSCLVQNLSCEMVVSERFSEVAD  465 (653)
Q Consensus       391 ~~~g~~~~a~~~~~~m~~~----g~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~l~~~~~  465 (653)
                      ...|++++|...|.+..+.    +-.+ ...++..+-..|...|++++|...|++..+..-..                 
T Consensus       193 ~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~-----------------  255 (378)
T 3q15_A          193 DDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSGDDQMAVEHFQKAAKVSREK-----------------  255 (378)
T ss_dssp             HHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHH-----------------
T ss_pred             HHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhh-----------------
Confidence            8888888888888876542    1111 12466677777888888888888877766521000                 


Q ss_pred             hcccccccccccCCHHHHHHHHHHHHHccCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCC---CCC-HHHHHHHH
Q 048743          466 KSASFTDTSSLMDKSDLAESLIQEMREEAALSTIYKLNSSIYFFCKGKMIGDALKIYRRMQEMKI---RPT-VETFYYLV  541 (653)
Q Consensus       466 ~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~---~p~-~~t~~~li  541 (653)
                                                 .. .....++..+...|.+.|++++|.+.+++..+...   .|. ...+..+-
T Consensus       256 ---------------------------~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~  307 (378)
T 3q15_A          256 ---------------------------VP-DLLPKVLFGLSWTLCKAGQTQKAFQFIEEGLDHITARSHKFYKELFLFLQ  307 (378)
T ss_dssp             ---------------------------CG-GGHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCTTCCSCHHHHHHHHH
T ss_pred             ---------------------------CC-hhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence                                       00 01245667788888889999999999988876321   122 33455565


Q ss_pred             HHHhccCC---HHHHHHHHHHHHHHhhhCCCcc-CHHHHHHHHHHHHhCCCHHHHHHHHHHHH
Q 048743          542 YGHSSLEM---YRDITILWGDIKRNIESGVLAV-SRDLYETLLLNFLQGGYFERVMEVIGYMK  600 (653)
Q Consensus       542 ~~~~~~~~---~~~a~~~~~~~~~~~~~~~~~p-~~~~y~~li~~~~~~g~~~~a~~~~~~m~  600 (653)
                      ..+...++   +.+|..+++..       +..| ....+..+...|...|++++|.+.|++..
T Consensus       308 ~ly~~~~~~~~~~~al~~~~~~-------~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~al  363 (378)
T 3q15_A          308 AVYKETVDERKIHDLLSYFEKK-------NLHAYIEACARSAAAVFESSCHFEQAAAFYRKVL  363 (378)
T ss_dssp             HHHSSSCCHHHHHHHHHHHHHT-------TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHhCCCcHHHHHHHHHHHHhC-------CChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            66777777   66666666432       2222 33456677888889999999998888775

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.04  E-value=9.3e-09  Score=106.92  Aligned_cols=196  Identities=9%  Similarity=-0.051  Sum_probs=131.7

Q ss_pred             CCHHHHHHHHHHHHhcCCh-HHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHH
Q 048743          342 HSNRAMAKLINGYKKHGKN-SELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTYKS  420 (653)
Q Consensus       342 p~~~~~~~li~~~~~~~~~-~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~  420 (653)
                      .+...+..+-..+...|++ ++|++.|++..+..  |.+...|..+...|.+.|++++|...|++..+..  |+...+..
T Consensus       100 ~~a~~~~~lg~~~~~~g~~~~~A~~~~~~al~~~--p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~  175 (474)
T 4abn_A          100 VEAQALMLKGKALNVTPDYSPEAEVLLSKAVKLE--PELVEAWNQLGEVYWKKGDVTSAHTCFSGALTHC--KNKVSLQN  175 (474)
T ss_dssp             CCHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTC--CCHHHHHH
T ss_pred             hhHHHHHHHHHHHHhccccHHHHHHHHHHHHhhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC--CCHHHHHH
Confidence            3566778888888999999 99999999988887  7777789999999999999999999999988754  67788888


Q ss_pred             HHHHHHHc---------CChHHHHHHHHHHHHcCCccCchhhHHHHhhHHHHhhhcccccccccccCCHHHHHHHHHHHH
Q 048743          421 LLTAYYKV---------KMFREAEALLKQMRKSCLVQNLSCEMVVSERFSEVADKSASFTDTSSLMDKSDLAESLIQEMR  491 (653)
Q Consensus       421 li~~~~~~---------~~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~  491 (653)
                      +...|...         |++++|...|++..+.  .|+                                          
T Consensus       176 lg~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~--~p~------------------------------------------  211 (474)
T 4abn_A          176 LSMVLRQLQTDSGDEHSRHVMDSVRQAKLAVQM--DVL------------------------------------------  211 (474)
T ss_dssp             HHHHHTTCCCSCHHHHHHHHHHHHHHHHHHHHH--CTT------------------------------------------
T ss_pred             HHHHHHHhccCChhhhhhhHHHHHHHHHHHHHh--CCC------------------------------------------
Confidence            88888888         7888888888777763  344                                          


Q ss_pred             HccCCCCHHHHHHHHHHHHcC--------CCHHHHHHHHHHHHhcCCC--CCHHHHHHHHHHHhccCCHHHHHHHHHHHH
Q 048743          492 EEAALSTIYKLNSSIYFFCKG--------KMIGDALKIYRRMQEMKIR--PTVETFYYLVYGHSSLEMYRDITILWGDIK  561 (653)
Q Consensus       492 ~~~~~p~~~~y~~li~~~~~~--------g~~~~a~~~~~~m~~~g~~--p~~~t~~~li~~~~~~~~~~~a~~~~~~~~  561 (653)
                            +...|..+..+|...        |++++|++.|++..+....  -+...|..+..+|...|++++|.+.|+...
T Consensus       212 ------~~~~~~~lg~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al  285 (474)
T 4abn_A          212 ------DGRSWYILGNAYLSLYFNTGQNPKISQQALSAYAQAEKVDRKASSNPDLHLNRATLHKYEESYGEALEGFSQAA  285 (474)
T ss_dssp             ------CHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHCGGGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             ------CHHHHHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHhCCCcccCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence                  233444444444444        5566666666665553110  145555556666666666666666665554


Q ss_pred             HHhhhCCCccCHHHHHHHHHHHHhCCCHHHHHHHH
Q 048743          562 RNIESGVLAVSRDLYETLLLNFLQGGYFERVMEVI  596 (653)
Q Consensus       562 ~~~~~~~~~p~~~~y~~li~~~~~~g~~~~a~~~~  596 (653)
                      +.     -+.+...+..+...+...|++++|.+.+
T Consensus       286 ~l-----~p~~~~a~~~l~~~~~~lg~~~eAi~~~  315 (474)
T 4abn_A          286 AL-----DPAWPEPQQREQQLLEFLSRLTSLLESK  315 (474)
T ss_dssp             HH-----CTTCHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             Hh-----CCCCHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            22     1113344555555555556555555443

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.04  E-value=2.2e-07  Score=90.66  Aligned_cols=200  Identities=10%  Similarity=0.000  Sum_probs=151.4

Q ss_pred             CHHHHHHHHHHHH-------hcCCh-------HHHHHHHHHHHh-cCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHH
Q 048743          343 SNRAMAKLINGYK-------KHGKN-------SELSWLLLSIKK-EHHSFGESTLCSDVIDALIQLGFLEAAHDILDDME  407 (653)
Q Consensus       343 ~~~~~~~li~~~~-------~~~~~-------~~a~~~~~~m~~-~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~  407 (653)
                      +...|..+...+.       +.|++       ++|..+|++..+ ..  |.+...|..+...+.+.|++++|..+|++..
T Consensus        49 ~~~~w~~~~~~~~~~~~~l~~~g~~~~~~~~~~~A~~~~~rAl~~~~--p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al  126 (308)
T 2ond_A           49 HPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLL--KKNMLLYFAYADYEESRMKYEKVHSIYNRLL  126 (308)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTTTT--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHhchhhhhccchhhcccchHHHHHHHHHHHHHhC--cccHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Confidence            4456666666654       45886       899999999988 35  6677779999999999999999999999998


Q ss_pred             HCCCCCC-HH-HHHHHHHHHHHcCChHHHHHHHHHHHHcCCccCchhhHHHHhhHHHHhhhcccccccccccCCHHHHHH
Q 048743          408 LAGHPMD-ST-TYKSLLTAYYKVKMFREAEALLKQMRKSCLVQNLSCEMVVSERFSEVADKSASFTDTSSLMDKSDLAES  485 (653)
Q Consensus       408 ~~g~~p~-~~-~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~a~~  485 (653)
                      +.  .|+ .. .|..+...+.+.|++++|..+|++..+.  .|+.....+ ......           +...|+.+.|..
T Consensus       127 ~~--~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~--~p~~~~~~~-~~a~~~-----------~~~~~~~~~A~~  190 (308)
T 2ond_A          127 AI--EDIDPTLVYIQYMKFARRAEGIKSGRMIFKKARED--ARTRHHVYV-TAALME-----------YYCSKDKSVAFK  190 (308)
T ss_dssp             TS--SSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTS--TTCCTHHHH-HHHHHH-----------HHTSCCHHHHHH
T ss_pred             hc--cccCccHHHHHHHHHHHHhcCHHHHHHHHHHHHhc--CCCCHHHHH-HHHHHH-----------HHHcCCHHHHHH
Confidence            84  443 33 8999999999999999999999999874  344311111 111111           112588899999


Q ss_pred             HHHHHHHccCCC-CHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcC-CCCC--HHHHHHHHHHHhccCCHHHHHHHHHHHH
Q 048743          486 LIQEMREEAALS-TIYKLNSSIYFFCKGKMIGDALKIYRRMQEMK-IRPT--VETFYYLVYGHSSLEMYRDITILWGDIK  561 (653)
Q Consensus       486 ~~~~m~~~~~~p-~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g-~~p~--~~t~~~li~~~~~~~~~~~a~~~~~~~~  561 (653)
                      +|+...+..  | +...|..++..+.+.|++++|..+|++..... +.|+  ...|..++....+.|+.+.|..+++.+.
T Consensus       191 ~~~~al~~~--p~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l~p~~~~~l~~~~~~~~~~~g~~~~a~~~~~~a~  268 (308)
T 2ond_A          191 IFELGLKKY--GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRRF  268 (308)
T ss_dssp             HHHHHHHHH--TTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHH
T ss_pred             HHHHHHHhC--CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            998887654  4 67788888888888899999999999888763 4553  5567777888888888888888888776


Q ss_pred             H
Q 048743          562 R  562 (653)
Q Consensus       562 ~  562 (653)
                      +
T Consensus       269 ~  269 (308)
T 2ond_A          269 T  269 (308)
T ss_dssp             H
T ss_pred             H
Confidence            4

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.03  E-value=2.6e-07  Score=90.06  Aligned_cols=221  Identities=11%  Similarity=0.039  Sum_probs=165.3

Q ss_pred             HHHHHHHHHHHhcCCCCCCcccHHHHHHHHHH-------cCCH-------HHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 048743          361 SELSWLLLSIKKEHHSFGESTLCSDVIDALIQ-------LGFL-------EAAHDILDDMELAGHPMDSTTYKSLLTAYY  426 (653)
Q Consensus       361 ~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~-------~g~~-------~~a~~~~~~m~~~g~~p~~~~~~~li~~~~  426 (653)
                      ++|..+|++.....  |.+...|..+...+..       .|++       ++|..+|++..+.-.+-+...|..+...+.
T Consensus        33 ~~a~~~~~~al~~~--p~~~~~w~~~~~~~~~~~~~l~~~g~~~~~~~~~~~A~~~~~rAl~~~~p~~~~~~~~~~~~~~  110 (308)
T 2ond_A           33 KRVMFAYEQCLLVL--GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEE  110 (308)
T ss_dssp             HHHHHHHHHHHHHH--TTCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHc--CCCHHHHHHHHHHHHHhchhhhhccchhhcccchHHHHHHHHHHHHHhCcccHHHHHHHHHHHH
Confidence            68889999998877  7788888888887764       5885       899999999987422335678999999999


Q ss_pred             HcCChHHHHHHHHHHHHcCCccCchhhHHHHhhHHHHhhhcccccccccccCCHHHHHHHHHHHHHccCCCCHHHHHHHH
Q 048743          427 KVKMFREAEALLKQMRKSCLVQNLSCEMVVSERFSEVADKSASFTDTSSLMDKSDLAESLIQEMREEAALSTIYKLNSSI  506 (653)
Q Consensus       427 ~~~~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~y~~li  506 (653)
                      +.|++++|..+|++..+  +.|+... .+.....           ..+.+.|++++|..+|++..+... ++...|....
T Consensus       111 ~~~~~~~A~~~~~~al~--~~p~~~~-~~~~~~~-----------~~~~~~~~~~~A~~~~~~a~~~~p-~~~~~~~~~a  175 (308)
T 2ond_A          111 SRMKYEKVHSIYNRLLA--IEDIDPT-LVYIQYM-----------KFARRAEGIKSGRMIFKKAREDAR-TRHHVYVTAA  175 (308)
T ss_dssp             HTTCHHHHHHHHHHHHT--SSSSCTH-HHHHHHH-----------HHHHHHHCHHHHHHHHHHHHTSTT-CCTHHHHHHH
T ss_pred             hcCCHHHHHHHHHHHHh--ccccCcc-HHHHHHH-----------HHHHHhcCHHHHHHHHHHHHhcCC-CCHHHHHHHH
Confidence            99999999999999987  4565421 0111111           112247889999999999887542 2455555444


Q ss_pred             HHHH-cCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHHhhhCCCcc--CHHHHHHHHHHH
Q 048743          507 YFFC-KGKMIGDALKIYRRMQEMKIRPTVETFYYLVYGHSSLEMYRDITILWGDIKRNIESGVLAV--SRDLYETLLLNF  583 (653)
Q Consensus       507 ~~~~-~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~p--~~~~y~~li~~~  583 (653)
                      .... ..|++++|.++|++..+.. +-+...|..++..+.+.|++++|..+|+....   ...+.|  ....|..++..+
T Consensus       176 ~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~---~~~l~p~~~~~l~~~~~~~~  251 (308)
T 2ond_A          176 LMEYYCSKDKSVAFKIFELGLKKY-GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLT---SGSLPPEKSGEIWARFLAFE  251 (308)
T ss_dssp             HHHHHTSCCHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHH---SSSSCGGGCHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHh---ccCCCHHHHHHHHHHHHHHH
Confidence            3322 3699999999999988752 22567788888899999999999999988762   212344  467888889888


Q ss_pred             HhCCCHHHHHHHHHHHHhC
Q 048743          584 LQGGYFERVMEVIGYMKKQ  602 (653)
Q Consensus       584 ~~~g~~~~a~~~~~~m~~~  602 (653)
                      .+.|+.++|..+++++.+.
T Consensus       252 ~~~g~~~~a~~~~~~a~~~  270 (308)
T 2ond_A          252 SNIGDLASILKVEKRRFTA  270 (308)
T ss_dssp             HHHSCHHHHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHH
Confidence            9999999999999998854

>4e6h_A MRNA 3'-END-processing protein RNA14; HAT domain, heat repeat, CLP1, PCF11, structural protein; 2.30A {Kluyveromyces lactis} PDB: 4e85_A 4eba_A

Probab=99.02  E-value=3.9e-06  Score=89.81  Aligned_cols=205  Identities=7%  Similarity=0.006  Sum_probs=138.8

Q ss_pred             CHHHHHHHHHHHHhcCChHHHH-HHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCC---------C
Q 048743          343 SNRAMAKLINGYKKHGKNSELS-WLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGH---------P  412 (653)
Q Consensus       343 ~~~~~~~li~~~~~~~~~~~a~-~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~---------~  412 (653)
                      ....|.....-+.+.|+.++|. .+|+......  |.+...|-..+...-+.|+++.|.++|+.+.+...         .
T Consensus       342 ~~~lW~~ya~~~~~~~~~~~a~r~il~rAi~~~--P~s~~Lwl~~a~~ee~~~~~e~aR~iyek~l~~l~~~~~~~~~~~  419 (679)
T 4e6h_A          342 APEIWFNMANYQGEKNTDSTVITKYLKLGQQCI--PNSAVLAFSLSEQYELNTKIPEIETTILSCIDRIHLDLAALMEDD  419 (679)
T ss_dssp             CHHHHHHHHHHHHHHSCCTTHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHHHHHS
T ss_pred             CHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhhhhhhcc
Confidence            5567777777777788888886 9998887654  66666677788888888999999999998876310         1


Q ss_pred             CC------------HHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCccCchhhHHHHhhHHHHhhhcccccccccccCCH
Q 048743          413 MD------------STTYKSLLTAYYKVKMFREAEALLKQMRKSCLVQNLSCEMVVSERFSEVADKSASFTDTSSLMDKS  480 (653)
Q Consensus       413 p~------------~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~  480 (653)
                      |+            ...|...+....+.|..+.|..+|....+.  .|.....+.........           ...++.
T Consensus       420 p~~~~~~~~~~~~~~~vWi~y~~~erR~~~l~~AR~vf~~A~~~--~~~~~~~lyi~~A~lE~-----------~~~~d~  486 (679)
T 4e6h_A          420 PTNESAINQLKSKLTYVYCVYMNTMKRIQGLAASRKIFGKCRRL--KKLVTPDIYLENAYIEY-----------HISKDT  486 (679)
T ss_dssp             TTCHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHT--GGGSCTHHHHHHHHHHH-----------TTTSCC
T ss_pred             CcchhhhhhhccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--cCCCChHHHHHHHHHHH-----------HhCCCH
Confidence            32            235777777777888889999999888775  12111111111111111           113457


Q ss_pred             HHHHHHHHHHHHccCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCC--CHHHHHHHHHHHhccCCHHHHHHHHH
Q 048743          481 DLAESLIQEMREEAALSTIYKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRP--TVETFYYLVYGHSSLEMYRDITILWG  558 (653)
Q Consensus       481 ~~a~~~~~~m~~~~~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p--~~~t~~~li~~~~~~~~~~~a~~~~~  558 (653)
                      +.|..+|+...+.- .-+...|...++.....|+.+.|..+|++.......+  ....|...+.--...|+.+.+..+.+
T Consensus       487 e~Ar~ife~~Lk~~-p~~~~~w~~y~~fe~~~~~~~~AR~lferal~~~~~~~~~~~lw~~~~~fE~~~G~~~~~~~v~~  565 (679)
T 4e6h_A          487 KTACKVLELGLKYF-ATDGEYINKYLDFLIYVNEESQVKSLFESSIDKISDSHLLKMIFQKVIFFESKVGSLNSVRTLEK  565 (679)
T ss_dssp             HHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHTTTSSSTTHHHHHHHHHHHHHHHTCCSHHHHHHHH
T ss_pred             HHHHHHHHHHHHHC-CCchHHHHHHHHHHHhCCCHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            88888888877652 1256667778887778888888888888877653322  23456666666677888888888887


Q ss_pred             HHHHH
Q 048743          559 DIKRN  563 (653)
Q Consensus       559 ~~~~~  563 (653)
                      .+.+.
T Consensus       566 R~~~~  570 (679)
T 4e6h_A          566 RFFEK  570 (679)
T ss_dssp             HHHHH
T ss_pred             HHHHh
Confidence            77633

>4e6h_A MRNA 3'-END-processing protein RNA14; HAT domain, heat repeat, CLP1, PCF11, structural protein; 2.30A {Kluyveromyces lactis} PDB: 4e85_A 4eba_A

Probab=99.01  E-value=1e-05  Score=86.69  Aligned_cols=234  Identities=9%  Similarity=-0.018  Sum_probs=162.3

Q ss_pred             HHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHH-HHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHH
Q 048743          361 SELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAH-DILDDMELAGHPMDSTTYKSLLTAYYKVKMFREAEALLK  439 (653)
Q Consensus       361 ~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~-~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~a~~~~~  439 (653)
                      +.+..+|++.....  |.....|-.....+...|+.+.|. ++|++.... ++.+...|-..+...-+.|+++.|..+|+
T Consensus       326 ~Rv~~~Ye~aL~~~--p~~~~lW~~ya~~~~~~~~~~~a~r~il~rAi~~-~P~s~~Lwl~~a~~ee~~~~~e~aR~iye  402 (679)
T 4e6h_A          326 ARMTYVYMQAAQHV--CFAPEIWFNMANYQGEKNTDSTVITKYLKLGQQC-IPNSAVLAFSLSEQYELNTKIPEIETTIL  402 (679)
T ss_dssp             HHHHHHHHHHHHHT--TTCHHHHHHHHHHHHHHSCCTTHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHc--CCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHhCCHHHHHHHHH
Confidence            34567788877765  667777888888888999999996 999998863 55677778888888999999999999999


Q ss_pred             HHHHcCC---------ccCc---------hhhHHHHhhHHHHhhhcccccccccccCCHHHHHHHHHHHHHc-c-CCCCH
Q 048743          440 QMRKSCL---------VQNL---------SCEMVVSERFSEVADKSASFTDTSSLMDKSDLAESLIQEMREE-A-ALSTI  499 (653)
Q Consensus       440 ~m~~~~~---------~p~~---------~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~-~-~~p~~  499 (653)
                      .+.+...         .|+.         ....+.. ....+          ..+.|+++.|..+|....+. + ..+.+
T Consensus       403 k~l~~l~~~~~~~~~~~p~~~~~~~~~~~~~~~vWi-~y~~~----------erR~~~l~~AR~vf~~A~~~~~~~~~~l  471 (679)
T 4e6h_A          403 SCIDRIHLDLAALMEDDPTNESAINQLKSKLTYVYC-VYMNT----------MKRIQGLAASRKIFGKCRRLKKLVTPDI  471 (679)
T ss_dssp             HHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHH-HHHHH----------HHHHHCHHHHHHHHHHHHHTGGGSCTHH
T ss_pred             HHHHHHHHHhhhhhhccCcchhhhhhhccchHHHHH-HHHHH----------HHHcCCHHHHHHHHHHHHHhcCCCChHH
Confidence            9986410         1321         0111111 11111          12467899999999998875 2 22334


Q ss_pred             HHHHHHHHHHHcC-CCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHHhhhCCCccCHHHHHH
Q 048743          500 YKLNSSIYFFCKG-KMIGDALKIYRRMQEMKIRPTVETFYYLVYGHSSLEMYRDITILWGDIKRNIESGVLAVSRDLYET  578 (653)
Q Consensus       500 ~~y~~li~~~~~~-g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~p~~~~y~~  578 (653)
                      ....+.+.  .+. ++.+.|.++|+...+. ++-+...+...++-....|+.+.|..+|+.......  ...-....|..
T Consensus       472 yi~~A~lE--~~~~~d~e~Ar~ife~~Lk~-~p~~~~~w~~y~~fe~~~~~~~~AR~lferal~~~~--~~~~~~~lw~~  546 (679)
T 4e6h_A          472 YLENAYIE--YHISKDTKTACKVLELGLKY-FATDGEYINKYLDFLIYVNEESQVKSLFESSIDKIS--DSHLLKMIFQK  546 (679)
T ss_dssp             HHHHHHHH--HTTTSCCHHHHHHHHHHHHH-HTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHTTTSS--STTHHHHHHHH
T ss_pred             HHHHHHHH--HHhCCCHHHHHHHHHHHHHH-CCCchHHHHHHHHHHHhCCCHHHHHHHHHHHHHhcC--CHHHHHHHHHH
Confidence            44444444  343 4589999999999886 333455566777777788999999999987752100  00114567888


Q ss_pred             HHHHHHhCCCHHHHHHHHHHHHhCCCCCCHHhHHHHH
Q 048743          579 LLLNFLQGGYFERVMEVIGYMKKQNMYVDKLMYKSEF  615 (653)
Q Consensus       579 li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~l~  615 (653)
                      .++--.+.|+.+.+.++.+++.+.-  |+......++
T Consensus       547 ~~~fE~~~G~~~~~~~v~~R~~~~~--P~~~~~~~f~  581 (679)
T 4e6h_A          547 VIFFESKVGSLNSVRTLEKRFFEKF--PEVNKLEEFT  581 (679)
T ss_dssp             HHHHHHHTCCSHHHHHHHHHHHHHS--TTCCHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhC--CCCcHHHHHH
Confidence            8888889999999999999998653  5544444444

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=98.99  E-value=3.8e-08  Score=87.76  Aligned_cols=96  Identities=14%  Similarity=-0.056  Sum_probs=69.4

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 048743          345 RAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTYKSLLTA  424 (653)
Q Consensus       345 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~  424 (653)
                      ..+..+...+...++++.|...+.+.....  |.+...+..+...|.+.|++++|.+.|++..+.. +-+..+|..+..+
T Consensus        74 ~~~~~~~~~~~~~~~~~~a~~~~~~a~~~~--~~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~lg~~  150 (184)
T 3vtx_A           74 EAYYILGSANFMIDEKQAAIDALQRAIALN--TVYADAYYKLGLVYDSMGEHDKAIEAYEKTISIK-PGFIRAYQSIGLA  150 (184)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--ccchHHHHHHHHHHHHhCCchhHHHHHHHHHHhc-chhhhHHHHHHHH
Confidence            345556666777777777777777777666  6666667777777777888888888887776643 2356677777777


Q ss_pred             HHHcCChHHHHHHHHHHHH
Q 048743          425 YYKVKMFREAEALLKQMRK  443 (653)
Q Consensus       425 ~~~~~~~~~a~~~~~~m~~  443 (653)
                      |.+.|++++|...|++..+
T Consensus       151 ~~~~g~~~~A~~~~~~al~  169 (184)
T 3vtx_A          151 YEGKGLRDEAVKYFKKALE  169 (184)
T ss_dssp             HHHTTCHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHh
Confidence            8888888888888777765

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=98.99  E-value=9.4e-09  Score=106.87  Aligned_cols=187  Identities=10%  Similarity=-0.007  Sum_probs=148.7

Q ss_pred             hhhHHHHHHHHHhcCCCccHHHHHHHHHHHHhcCCh-hhhHHHHHHhhhcCCCcccchhHHHHHHHHhhhccCCHHHHHH
Q 048743          193 SLKGQHIMELMSQTGVVADAHSIIILAQIHEMNCQR-DELKKFKCYIDQLSTPFAHHYQQFYESLLSLHFKFDDIDAAGE  271 (653)
Q Consensus       193 ~~~a~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~-~~a~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~  271 (653)
                      ++++.+.+++..... ..+...+..+...+...|++ ++|.+.++...+..+..    ..+|..+-.+|.+.|++++|..
T Consensus        84 ~~~al~~l~~~~~~~-~~~a~~~~~lg~~~~~~g~~~~~A~~~~~~al~~~p~~----~~a~~~lg~~~~~~g~~~~A~~  158 (474)
T 4abn_A           84 MEKTLQQMEEVLGSA-QVEAQALMLKGKALNVTPDYSPEAEVLLSKAVKLEPEL----VEAWNQLGEVYWKKGDVTSAHT  158 (474)
T ss_dssp             HHHHHHHHHHHHTTC-CCCHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHCTTC----HHHHHHHHHHHHHHTCHHHHHH
T ss_pred             HHHHHHHHHHHhccC-chhHHHHHHHHHHHHhccccHHHHHHHHHHHHhhCCCC----HHHHHHHHHHHHHcCCHHHHHH
Confidence            556666666655432 22455577777778888888 88888888777654322    3368899999999999999999


Q ss_pred             HHHHhcccCCCCCCchhhhcccccchhccCCCcccchhhhccchhhhHHHHHHhhhhhHHHHHHhcCCCCCCHHHHHHHH
Q 048743          272 LILDMNRYREPLPNPKLRQDAQKPYLISIGSPNLRCGLKLQIMPELLEKDSILKMEGKQELVLFRNGKLLHSNRAMAKLI  351 (653)
Q Consensus       272 ~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~li  351 (653)
                      .|++..+                                                             ..|+...+..+-
T Consensus       159 ~~~~al~-------------------------------------------------------------~~p~~~~~~~lg  177 (474)
T 4abn_A          159 CFSGALT-------------------------------------------------------------HCKNKVSLQNLS  177 (474)
T ss_dssp             HHHHHHT-------------------------------------------------------------TCCCHHHHHHHH
T ss_pred             HHHHHHh-------------------------------------------------------------hCCCHHHHHHHH
Confidence            9998832                                                             347777888888


Q ss_pred             HHHHhc---------CChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHc--------CCHHHHHHHHHHHHHCCCC--
Q 048743          352 NGYKKH---------GKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQL--------GFLEAAHDILDDMELAGHP--  412 (653)
Q Consensus       352 ~~~~~~---------~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~--------g~~~~a~~~~~~m~~~g~~--  412 (653)
                      ..+...         |++++|...|++..+..  |.+...|..+..+|...        |++++|...|++..+....  
T Consensus       178 ~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~lg~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p~~~  255 (474)
T 4abn_A          178 MVLRQLQTDSGDEHSRHVMDSVRQAKLAVQMD--VLDGRSWYILGNAYLSLYFNTGQNPKISQQALSAYAQAEKVDRKAS  255 (474)
T ss_dssp             HHHTTCCCSCHHHHHHHHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHCGGGG
T ss_pred             HHHHHhccCChhhhhhhHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHhCCCcc
Confidence            889898         99999999999999887  77888899999999998        9999999999999875310  


Q ss_pred             CCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCccC
Q 048743          413 MDSTTYKSLLTAYYKVKMFREAEALLKQMRKSCLVQN  449 (653)
Q Consensus       413 p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~  449 (653)
                      -+...|..+..+|...|++++|...|++..+.  .|+
T Consensus       256 ~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l--~p~  290 (474)
T 4abn_A          256 SNPDLHLNRATLHKYEESYGEALEGFSQAAAL--DPA  290 (474)
T ss_dssp             GCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTT
T ss_pred             cCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCC
Confidence            37888999999999999999999999998773  454

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=98.98  E-value=5.7e-08  Score=98.17  Aligned_cols=239  Identities=8%  Similarity=0.001  Sum_probs=164.9

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHhcCCCCC----CcccHHHHHHHHHHcCCHHHHHHHHHHHHHC--CC---C-CCHHHHH
Q 048743          350 LINGYKKHGKNSELSWLLLSIKKEHHSFG----ESTLCSDVIDALIQLGFLEAAHDILDDMELA--GH---P-MDSTTYK  419 (653)
Q Consensus       350 li~~~~~~~~~~~a~~~~~~m~~~~~~~~----~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~--g~---~-p~~~~~~  419 (653)
                      .-..+...|++++|...|++........+    ...+|..+...|...|+++.|...+.+..+.  ..   . ....+++
T Consensus       109 ~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~  188 (383)
T 3ulq_A          109 RGMYELDQREYLSAIKFFKKAESKLIFVKDRIEKAEFFFKMSESYYYMKQTYFSMDYARQAYEIYKEHEAYNIRLLQCHS  188 (383)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTCSTTHHHHHHHHH
T ss_pred             HHHHHHHhcCHHHHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCccchHHHHHHHH
Confidence            44566788999999999998876421112    2345888888899999999999988887542  11   1 1235677


Q ss_pred             HHHHHHHHcCChHHHHHHHHHHHHcCCccCchhhHHHHhhHHHHhhhcccccccccccCCHHHHHHHHHHHHHccCCCCH
Q 048743          420 SLLTAYYKVKMFREAEALLKQMRKSCLVQNLSCEMVVSERFSEVADKSASFTDTSSLMDKSDLAESLIQEMREEAALSTI  499 (653)
Q Consensus       420 ~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~p~~  499 (653)
                      .+-..|...|++++|...|++..+..  +..                           ++..               ...
T Consensus       189 ~lg~~~~~~g~~~~A~~~~~~al~~~--~~~---------------------------~~~~---------------~~~  224 (383)
T 3ulq_A          189 LFATNFLDLKQYEDAISHFQKAYSMA--EAE---------------------------KQPQ---------------LMG  224 (383)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHH--HHT---------------------------TCHH---------------HHH
T ss_pred             HHHHHHHHhcCHHHHHHHHHHHHHHH--HHc---------------------------CChH---------------HHH
Confidence            78888888899999988888776531  110                           0000               023


Q ss_pred             HHHHHHHHHHHcCCCHHHHHHHHHHHHhc----CC-CCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHHhhhCCCccCHH
Q 048743          500 YKLNSSIYFFCKGKMIGDALKIYRRMQEM----KI-RPTVETFYYLVYGHSSLEMYRDITILWGDIKRNIESGVLAVSRD  574 (653)
Q Consensus       500 ~~y~~li~~~~~~g~~~~a~~~~~~m~~~----g~-~p~~~t~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~p~~~  574 (653)
                      .+|+.+-..|...|++++|++.|++..+.    +. +....++..+...+...|++++|..+++...+..+..+-.....
T Consensus       225 ~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~  304 (383)
T 3ulq_A          225 RTLYNIGLCKNSQSQYEDAIPYFKRAIAVFEESNILPSLPQAYFLITQIHYKLGKIDKAHEYHSKGMAYSQKAGDVIYLS  304 (383)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhccchhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHH
Confidence            46788889999999999999999998862    33 22356788999999999999999999998876544433333344


Q ss_pred             HHHHHHHHHHhCCC---HHHHHHHHHHHHhCCCCCCHHhHHHHH---HHhhhhhHHhhhhhHHHHHH
Q 048743          575 LYETLLLNFLQGGY---FERVMEVIGYMKKQNMYVDKLMYKSEF---LKHHKHLYRRLKVSNARTEA  635 (653)
Q Consensus       575 ~y~~li~~~~~~g~---~~~a~~~~~~m~~~g~~p~~~t~~~l~---~~~~~~~~~~~~~~~~~~~~  635 (653)
                      .+..+-..+...|+   +++|+.++++.   +..|+.......+   ....|+.++|.+..+...+.
T Consensus       305 ~~~~l~~~~~~~~~~~~~~~al~~~~~~---~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~al~~  368 (383)
T 3ulq_A          305 EFEFLKSLYLSGPDEEAIQGFFDFLESK---MLYADLEDFAIDVAKYYHERKNFQKASAYFLKVEQV  368 (383)
T ss_dssp             HHHHHHHHHTSSCCHHHHHHHHHHHHHT---TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCCcHHHHHHHHHHHHHC---cCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence            46777778888999   67777776655   4445443333222   55667888887777766653

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=98.96  E-value=6.2e-07  Score=90.29  Aligned_cols=171  Identities=7%  Similarity=-0.087  Sum_probs=124.4

Q ss_pred             HHHHHHhcCChhhhHHHHHHhhhcCC--CcccchhHHHHHHHHhhhccCCHHHHHHHHHHhcccCCCCCCchhhhccccc
Q 048743          218 LAQIHEMNCQRDELKKFKCYIDQLST--PFAHHYQQFYESLLSLHFKFDDIDAAGELILDMNRYREPLPNPKLRQDAQKP  295 (653)
Q Consensus       218 ll~~~~~~g~~~~a~~~~~~~~~~~~--~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~  295 (653)
                      ....+...|++++|...++.......  ++......++..+-..|...|+++.|...+++..+..               
T Consensus       107 ~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~y~~~~~~~~A~~~~~~al~~~---------------  171 (378)
T 3q15_A          107 RGMYEFDQKEYVEAIGYYREAEKELPFVSDDIEKAEFHFKVAEAYYHMKQTHVSMYHILQALDIY---------------  171 (378)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH---------------
T ss_pred             HHHHHHHHCCHHHHHHHHHHHHHHHhhCCChHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHH---------------
Confidence            34445677888888887777665421  2222334578889999999999999999998873200               


Q ss_pred             chhccCCCcccchhhhccchhhhHHHHHHhhhhhHHHHHHhcC-CCCC-CHHHHHHHHHHHHhcCChHHHHHHHHHHHhc
Q 048743          296 YLISIGSPNLRCGLKLQIMPELLEKDSILKMEGKQELVLFRNG-KLLH-SNRAMAKLINGYKKHGKNSELSWLLLSIKKE  373 (653)
Q Consensus       296 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  373 (653)
                                                              ... +..+ ...+++.+-..|...|++++|...|++..+.
T Consensus       172 ----------------------------------------~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~  211 (378)
T 3q15_A          172 ----------------------------------------QNHPLYSIRTIQSLFVIAGNYDDFKHYDKALPHLEAALEL  211 (378)
T ss_dssp             ----------------------------------------HTSTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             ----------------------------------------HhCCCchhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHH
Confidence                                                    000 0111 2346788899999999999999999887653


Q ss_pred             CC----CCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHH-----CCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHc
Q 048743          374 HH----SFGESTLCSDVIDALIQLGFLEAAHDILDDMEL-----AGHPMDSTTYKSLLTAYYKVKMFREAEALLKQMRKS  444 (653)
Q Consensus       374 ~~----~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~-----~g~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  444 (653)
                      ..    ......++..+...|...|++++|...|++..+     .. +....++..+...|.+.|++++|...+++..+.
T Consensus       212 ~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  290 (378)
T 3q15_A          212 AMDIQNDRFIAISLLNIANSYDRSGDDQMAVEHFQKAAKVSREKVP-DLLPKVLFGLSWTLCKAGQTQKAFQFIEEGLDH  290 (378)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCG-GGHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhCC-hhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence            21    111233578889999999999999999999876     33 233678888999999999999999999998874

>3as5_A MAMA; tetratricopeptide repeats (TPR) containing protein, TPR PROT protein-protein interactions, protein binding; 2.00A {Magnetospirillum magnetotacticum} PDB: 3as4_A 3asd_A 3asg_A 3ash_A 3as8_A 3asf_A

Probab=98.96  E-value=8.7e-08  Score=85.17  Aligned_cols=162  Identities=10%  Similarity=0.047  Sum_probs=108.0

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 048743          346 AMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTYKSLLTAY  425 (653)
Q Consensus       346 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~  425 (653)
                      .|..+...+...|++++|...++++....  +.+..++..+...+...|++++|...+++..+.. +.+...+..+...+
T Consensus        10 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~   86 (186)
T 3as5_A           10 YYRDKGISHAKAGRYSQAVMLLEQVYDAD--AFDVDVALHLGIAYVKTGAVDRGTELLERSLADA-PDNVKVATVLGLTY   86 (186)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHTTTCCTT--SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHhC--ccChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHH
Confidence            45667777778888888888888777655  5566667777788888888888888888776642 33566777777777


Q ss_pred             HHcCChHHHHHHHHHHHHcCCccCchhhHHHHhhHHHHhhhcccccccccccCCHHHHHHHHHHHHHccCCCCHHHHHHH
Q 048743          426 YKVKMFREAEALLKQMRKSCLVQNLSCEMVVSERFSEVADKSASFTDTSSLMDKSDLAESLIQEMREEAALSTIYKLNSS  505 (653)
Q Consensus       426 ~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~y~~l  505 (653)
                      ...|++++|...+++..+.  .|+                                                +...+..+
T Consensus        87 ~~~~~~~~A~~~~~~~~~~--~~~------------------------------------------------~~~~~~~~  116 (186)
T 3as5_A           87 VQVQKYDLAVPLLIKVAEA--NPI------------------------------------------------NFNVRFRL  116 (186)
T ss_dssp             HHHTCHHHHHHHHHHHHHH--CTT------------------------------------------------CHHHHHHH
T ss_pred             HHhcCHHHHHHHHHHHHhc--CcH------------------------------------------------hHHHHHHH
Confidence            7778888887777777653  232                                                33445555


Q ss_pred             HHHHHcCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHH
Q 048743          506 IYFFCKGKMIGDALKIYRRMQEMKIRPTVETFYYLVYGHSSLEMYRDITILWGDIK  561 (653)
Q Consensus       506 i~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~~~  561 (653)
                      ...|...|++++|.+.+++..+.. +.+...+..+...+...|++++|..+++.+.
T Consensus       117 a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~  171 (186)
T 3as5_A          117 GVALDNLGRFDEAIDSFKIALGLR-PNEGKVHRAIAFSYEQMGRHEEALPHFKKAN  171 (186)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHcCcHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            556666666666666666665542 2234555566666666666666666665554

>3as5_A MAMA; tetratricopeptide repeats (TPR) containing protein, TPR PROT protein-protein interactions, protein binding; 2.00A {Magnetospirillum magnetotacticum} PDB: 3as4_A 3asd_A 3asg_A 3ash_A 3as8_A 3asf_A

Probab=98.93  E-value=1.5e-07  Score=83.64  Aligned_cols=165  Identities=16%  Similarity=0.051  Sum_probs=134.3

Q ss_pred             HHHHHHHHhhhccCCHHHHHHHHHHhcccCCCCCCchhhhcccccchhccCCCcccchhhhccchhhhHHHHHHhhhhhH
Q 048743          251 QFYESLLSLHFKFDDIDAAGELILDMNRYREPLPNPKLRQDAQKPYLISIGSPNLRCGLKLQIMPELLEKDSILKMEGKQ  330 (653)
Q Consensus       251 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  330 (653)
                      ..+..+...+...|++++|...|++..+                                                    
T Consensus         9 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~----------------------------------------------------   36 (186)
T 3as5_A            9 VYYRDKGISHAKAGRYSQAVMLLEQVYD----------------------------------------------------   36 (186)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHTTTCC----------------------------------------------------
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHH----------------------------------------------------
Confidence            3577788888999999999999988832                                                    


Q ss_pred             HHHHHhcCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCC
Q 048743          331 ELVLFRNGKLLHSNRAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAG  410 (653)
Q Consensus       331 ~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g  410 (653)
                              ..+.+...+..+...+...|++++|...++++.+..  +.+...+..+...+...|++++|...+++..+..
T Consensus        37 --------~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~  106 (186)
T 3as5_A           37 --------ADAFDVDVALHLGIAYVKTGAVDRGTELLERSLADA--PDNVKVATVLGLTYVQVQKYDLAVPLLIKVAEAN  106 (186)
T ss_dssp             --------TTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC
T ss_pred             --------hCccChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--CCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC
Confidence                    012345678889999999999999999999998876  7777789999999999999999999999998753


Q ss_pred             CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCccCchhhHHHHhhHHHHhhhcccccccccccCCHHHHHHHHHHH
Q 048743          411 HPMDSTTYKSLLTAYYKVKMFREAEALLKQMRKSCLVQNLSCEMVVSERFSEVADKSASFTDTSSLMDKSDLAESLIQEM  490 (653)
Q Consensus       411 ~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m  490 (653)
                       +.+...+..+...+...|++++|...+++..+..  |+                                         
T Consensus       107 -~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~--~~-----------------------------------------  142 (186)
T 3as5_A          107 -PINFNVRFRLGVALDNLGRFDEAIDSFKIALGLR--PN-----------------------------------------  142 (186)
T ss_dssp             -TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TT-----------------------------------------
T ss_pred             -cHhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcC--cc-----------------------------------------
Confidence             3477888889999999999999999999887642  33                                         


Q ss_pred             HHccCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhc
Q 048743          491 REEAALSTIYKLNSSIYFFCKGKMIGDALKIYRRMQEM  528 (653)
Q Consensus       491 ~~~~~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~  528 (653)
                             +...|..+...|...|++++|.+.+++..+.
T Consensus       143 -------~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~  173 (186)
T 3as5_A          143 -------EGKVHRAIAFSYEQMGRHEEALPHFKKANEL  173 (186)
T ss_dssp             -------CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             -------chHHHHHHHHHHHHcCCHHHHHHHHHHHHHc
Confidence                   3445667777777788888888888777653

>3edt_B KLC 2, kinesin light chain 2; superhelical, structural genomics, structural genomics conso SGC, microtubule, motor protein, phosphoprotein; 2.70A {Homo sapiens} PDB: 3ceq_A

Probab=98.89  E-value=3.2e-08  Score=94.93  Aligned_cols=211  Identities=12%  Similarity=0.059  Sum_probs=132.2

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHHHhc------CCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHC------C-
Q 048743          344 NRAMAKLINGYKKHGKNSELSWLLLSIKKE------HHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELA------G-  410 (653)
Q Consensus       344 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~------~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~------g-  410 (653)
                      ..++..+...|...|++++|...+++....      +..+....+|..+...|...|++++|...|.+..+.      . 
T Consensus        43 ~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~  122 (283)
T 3edt_B           43 ATMLNILALVYRDQNKYKEAAHLLNDALAIREKTLGKDHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKF  122 (283)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTT
T ss_pred             HHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHHcCCC
Confidence            456778888888889998888888887654      212333455778888888888888888888877553      1 


Q ss_pred             CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcC---CccCchhhHHHHhhHHHHhhhcccccccccccCCHHHHHHHH
Q 048743          411 HPMDSTTYKSLLTAYYKVKMFREAEALLKQMRKSC---LVQNLSCEMVVSERFSEVADKSASFTDTSSLMDKSDLAESLI  487 (653)
Q Consensus       411 ~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~---~~p~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~a~~~~  487 (653)
                      .+....+|..+...|...|++++|...|++..+..   ..++                                      
T Consensus       123 ~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~--------------------------------------  164 (283)
T 3edt_B          123 HPDVAKQLNNLALLCQNQGKAEEVEYYYRRALEIYATRLGPD--------------------------------------  164 (283)
T ss_dssp             CHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTT--------------------------------------
T ss_pred             ChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCC--------------------------------------
Confidence            12234567777778888888888888887776530   0011                                      


Q ss_pred             HHHHHccCCC-CHHHHHHHHHHHHcCCCHHHHHHHHHHHHhc-------CCCCCHHH-HHHHHHHHhccCCHHHHHHHHH
Q 048743          488 QEMREEAALS-TIYKLNSSIYFFCKGKMIGDALKIYRRMQEM-------KIRPTVET-FYYLVYGHSSLEMYRDITILWG  558 (653)
Q Consensus       488 ~~m~~~~~~p-~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~-------g~~p~~~t-~~~li~~~~~~~~~~~a~~~~~  558 (653)
                              .| ...++..+...|...|++++|++++++..+.       ...+.... +..+.......+....+.. +.
T Consensus       165 --------~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~  235 (283)
T 3edt_B          165 --------DPNVAKTKNNLASCYLKQGKYQDAETLYKEILTRAHEKEFGSVNGDNKPIWMHAEEREESKDKRRDSAP-YG  235 (283)
T ss_dssp             --------CHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHSSSCCSSCCCHHHHHHHHHHTTCCCCC------
T ss_pred             --------CHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHHhcCCchhHHHH-HH
Confidence                    12 3456778888888999999999999888753       22333333 3333333333332222222 22


Q ss_pred             HHHHHhhhCC--CccCHHHHHHHHHHHHhCCCHHHHHHHHHHHHh
Q 048743          559 DIKRNIESGV--LAVSRDLYETLLLNFLQGGYFERVMEVIGYMKK  601 (653)
Q Consensus       559 ~~~~~~~~~~--~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~  601 (653)
                      .+....+..+  ......++..+...|...|++++|.+++++..+
T Consensus       236 ~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  280 (283)
T 3edt_B          236 EYGSWYKACKVDSPTVNTTLRSLGALYRRQGKLEAAHTLEDCASR  280 (283)
T ss_dssp             -------CCCCCCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHhcCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            2211111111  122445678889999999999999999998764

>4gyw_A UDP-N-acetylglucosamine--peptide N- acetylglucosaminyltransferase 110 kDa subunit...; GT-B, glycosyltransferase, glcnacylation, transferase-peptid; HET: UDP NAG; 1.70A {Homo sapiens} PDB: 3pe3_A* 3pe4_A* 4ay5_A* 4ay6_A* 3tax_A* 4gyy_A* 4gz3_A* 4gz5_A* 4gz6_A*

Probab=98.87  E-value=1.2e-07  Score=102.66  Aligned_cols=168  Identities=12%  Similarity=0.051  Sum_probs=130.1

Q ss_pred             CCCH-HHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHH
Q 048743          341 LHSN-RAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTYK  419 (653)
Q Consensus       341 ~p~~-~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~  419 (653)
                      .|+. ..|+.|-..+.+.|++++|++.|++..+..  |.+...|..+-.+|.+.|++++|...|++..+... -+...|.
T Consensus         5 ~P~~a~al~nLG~~~~~~G~~~eAi~~~~kAl~l~--P~~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l~P-~~~~a~~   81 (723)
T 4gyw_A            5 CPTHADSLNNLANIKREQGNIEEAVRLYRKALEVF--PEFAAAHSNLASVLQQQGKLQEALMHYKEAIRISP-TFADAYS   81 (723)
T ss_dssp             -CHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHH
T ss_pred             CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHH
Confidence            3543 478888888889999999999999888877  77777888888888899999999999888877532 2577888


Q ss_pred             HHHHHHHHcCChHHHHHHHHHHHHcCCccCchhhHHHHhhHHHHhhhcccccccccccCCHHHHHHHHHHHHHccCCCCH
Q 048743          420 SLLTAYYKVKMFREAEALLKQMRKSCLVQNLSCEMVVSERFSEVADKSASFTDTSSLMDKSDLAESLIQEMREEAALSTI  499 (653)
Q Consensus       420 ~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~p~~  499 (653)
                      .+-.+|...|++++|++.|++..+.  .|+                                                +.
T Consensus        82 nLg~~l~~~g~~~~A~~~~~kAl~l--~P~------------------------------------------------~~  111 (723)
T 4gyw_A           82 NMGNTLKEMQDVQGALQCYTRAIQI--NPA------------------------------------------------FA  111 (723)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH--CTT------------------------------------------------CH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHh--CCC------------------------------------------------CH
Confidence            8888888888888888888887763  444                                                45


Q ss_pred             HHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCC-HHHHHHHHHHHhccCCHHHHHHHHHHHHHH
Q 048743          500 YKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRPT-VETFYYLVYGHSSLEMYRDITILWGDIKRN  563 (653)
Q Consensus       500 ~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~t~~~li~~~~~~~~~~~a~~~~~~~~~~  563 (653)
                      ..|+.+-..|.+.|++++|++.|++..+.  .|+ ...|..+..++...|++++|.+.++.+.+.
T Consensus       112 ~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l--~P~~~~a~~~L~~~l~~~g~~~~A~~~~~kal~l  174 (723)
T 4gyw_A          112 DAHSNLASIHKDSGNIPEAIASYRTALKL--KPDFPDAYCNLAHCLQIVCDWTDYDERMKKLVSI  174 (723)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CSCCHHHHHHHHHHHHHTTCCTTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCChHHHhhhhhHHHhcccHHHHHHHHHHHHHh
Confidence            56777777888888888888888887764  343 566777888888888888888877776543

>4gyw_A UDP-N-acetylglucosamine--peptide N- acetylglucosaminyltransferase 110 kDa subunit...; GT-B, glycosyltransferase, glcnacylation, transferase-peptid; HET: UDP NAG; 1.70A {Homo sapiens} PDB: 3pe3_A* 3pe4_A* 4ay5_A* 4ay6_A* 3tax_A* 4gyy_A* 4gz3_A* 4gz5_A* 4gz6_A*

Probab=98.81  E-value=1.4e-07  Score=102.30  Aligned_cols=165  Identities=12%  Similarity=-0.026  Sum_probs=137.1

Q ss_pred             hhHHHHHHHHhhhccCCHHHHHHHHHHhcccCCCCCCchhhhcccccchhccCCCcccchhhhccchhhhHHHHHHhhhh
Q 048743          249 YQQFYESLLSLHFKFDDIDAAGELILDMNRYREPLPNPKLRQDAQKPYLISIGSPNLRCGLKLQIMPELLEKDSILKMEG  328 (653)
Q Consensus       249 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  328 (653)
                      +..+|+.|-..|.+.|++++|.+.|++..+                                                  
T Consensus         8 ~a~al~nLG~~~~~~G~~~eAi~~~~kAl~--------------------------------------------------   37 (723)
T 4gyw_A            8 HADSLNNLANIKREQGNIEEAVRLYRKALE--------------------------------------------------   37 (723)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--------------------------------------------------
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--------------------------------------------------
Confidence            455789999999999999999999998842                                                  


Q ss_pred             hHHHHHHhcCCCCCC-HHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHH
Q 048743          329 KQELVLFRNGKLLHS-NRAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDME  407 (653)
Q Consensus       329 ~~~~~~~~~~~~~p~-~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~  407 (653)
                                 +.|+ ...|+.+-.+|.+.|++++|+..|++..+..  |.+...|..+..+|.+.|++++|.+.|++..
T Consensus        38 -----------l~P~~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l~--P~~~~a~~nLg~~l~~~g~~~~A~~~~~kAl  104 (723)
T 4gyw_A           38 -----------VFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRIS--PTFADAYSNMGNTLKEMQDVQGALQCYTRAI  104 (723)
T ss_dssp             -----------HCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             -----------hCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence                       2343 4688899999999999999999999999887  8888889999999999999999999999998


Q ss_pred             HCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCccCchhhHHHHhhHHHHhhhcccccccccccCCHHHHHHHH
Q 048743          408 LAGHPMDSTTYKSLLTAYYKVKMFREAEALLKQMRKSCLVQNLSCEMVVSERFSEVADKSASFTDTSSLMDKSDLAESLI  487 (653)
Q Consensus       408 ~~g~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~a~~~~  487 (653)
                      +... -+...|+.+-.+|...|++++|+..|++..+  +.|+                                      
T Consensus       105 ~l~P-~~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~--l~P~--------------------------------------  143 (723)
T 4gyw_A          105 QINP-AFADAHSNLASIHKDSGNIPEAIASYRTALK--LKPD--------------------------------------  143 (723)
T ss_dssp             HHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCSC--------------------------------------
T ss_pred             HhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--hCCC--------------------------------------
Confidence            7532 3678999999999999999999999999887  3465                                      


Q ss_pred             HHHHHccCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHh
Q 048743          488 QEMREEAALSTIYKLNSSIYFFCKGKMIGDALKIYRRMQE  527 (653)
Q Consensus       488 ~~m~~~~~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~  527 (653)
                                +...|..+...|...|++++|.+.+++..+
T Consensus       144 ----------~~~a~~~L~~~l~~~g~~~~A~~~~~kal~  173 (723)
T 4gyw_A          144 ----------FPDAYCNLAHCLQIVCDWTDYDERMKKLVS  173 (723)
T ss_dssp             ----------CHHHHHHHHHHHHHTTCCTTHHHHHHHHHH
T ss_pred             ----------ChHHHhhhhhHHHhcccHHHHHHHHHHHHH
Confidence                      345566777777777777777777766653

>3edt_B KLC 2, kinesin light chain 2; superhelical, structural genomics, structural genomics conso SGC, microtubule, motor protein, phosphoprotein; 2.70A {Homo sapiens} PDB: 3ceq_A

Probab=98.80  E-value=1.8e-07  Score=89.57  Aligned_cols=203  Identities=14%  Similarity=0.056  Sum_probs=143.6

Q ss_pred             HhcCChhhHHHHHHHHHhc-------CCCccHHHHHHHHHHHHhcCChhhhHHHHHHhhhcC----CCcccchhHHHHHH
Q 048743          188 VRFGSSLKGQHIMELMSQT-------GVVADAHSIIILAQIHEMNCQRDELKKFKCYIDQLS----TPFAHHYQQFYESL  256 (653)
Q Consensus       188 ~~~g~~~~a~~l~~~m~~~-------g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~----~~~~~~~~~~~~~l  256 (653)
                      ...|++++|..+|++..+.       .......++..+...+...|++++|...++......    .++......++..+
T Consensus        12 ~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l   91 (283)
T 3edt_B           12 SGLVPRGSAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKEAAHLLNDALAIREKTLGKDHPAVAATLNNL   91 (283)
T ss_dssp             -CCSCSSSHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHHH
Confidence            3456777777776666542       111233447778888888888888888887776541    11223345578999


Q ss_pred             HHhhhccCCHHHHHHHHHHhcccCCCCCCchhhhcccccchhccCCCcccchhhhccchhhhHHHHHHhhhhhHHHHHHh
Q 048743          257 LSLHFKFDDIDAAGELILDMNRYREPLPNPKLRQDAQKPYLISIGSPNLRCGLKLQIMPELLEKDSILKMEGKQELVLFR  336 (653)
Q Consensus       257 i~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  336 (653)
                      ...|...|++++|...|++..+..                                      .               -.
T Consensus        92 ~~~~~~~g~~~~A~~~~~~al~~~--------------------------------------~---------------~~  118 (283)
T 3edt_B           92 AVLYGKRGKYKEAEPLCKRALEIR--------------------------------------E---------------KV  118 (283)
T ss_dssp             HHHHHTTTCHHHHHHHHHHHHHHH--------------------------------------H---------------HH
T ss_pred             HHHHHHhccHHHHHHHHHHHHHHH--------------------------------------H---------------HH
Confidence            999999999999999999883200                                      0               00


Q ss_pred             cCCCCC-CHHHHHHHHHHHHhcCChHHHHHHHHHHHhc------CCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHC
Q 048743          337 NGKLLH-SNRAMAKLINGYKKHGKNSELSWLLLSIKKE------HHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELA  409 (653)
Q Consensus       337 ~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~------~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  409 (653)
                      ...-.| ...++..+...+...|++++|...+++....      ...+....++..+...|.+.|++++|...|++..+.
T Consensus       119 ~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~  198 (283)
T 3edt_B          119 LGKFHPDVAKQLNNLALLCQNQGKAEEVEYYYRRALEIYATRLGPDDPNVAKTKNNLASCYLKQGKYQDAETLYKEILTR  198 (283)
T ss_dssp             HCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             cCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            001112 2457788999999999999999999998765      112334556888999999999999999999988653


Q ss_pred             ------------------------------------------------CCCCCHHHHHHHHHHHHHcCChHHHHHHHHHH
Q 048743          410 ------------------------------------------------GHPMDSTTYKSLLTAYYKVKMFREAEALLKQM  441 (653)
Q Consensus       410 ------------------------------------------------g~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m  441 (653)
                                                                      ..+....++..+...|...|++++|..+|++.
T Consensus       199 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a  278 (283)
T 3edt_B          199 AHEKEFGSVNGDNKPIWMHAEEREESKDKRRDSAPYGEYGSWYKACKVDSPTVNTTLRSLGALYRRQGKLEAAHTLEDCA  278 (283)
T ss_dssp             HHHHHSSSCCSSCCCHHHHHHHHHHTTCCCCC------------CCCCCCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHhcCCCcchhHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence                                                            11223457788899999999999999999887


Q ss_pred             HH
Q 048743          442 RK  443 (653)
Q Consensus       442 ~~  443 (653)
                      .+
T Consensus       279 l~  280 (283)
T 3edt_B          279 SR  280 (283)
T ss_dssp             HT
T ss_pred             HH
Confidence            65

>4i17_A Hypothetical protein; TPR repeats protein, structural genomics, joint center for S genomics, JCSG, protein structure initiative; HET: MSE; 1.83A {Bacteroides fragilis}

Probab=98.73  E-value=1.1e-06  Score=81.14  Aligned_cols=44  Identities=14%  Similarity=0.076  Sum_probs=23.8

Q ss_pred             HHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCC---HHHHHHHHHHHhc
Q 048743          501 KLNSSIYFFCKGKMIGDALKIYRRMQEMKIRPT---VETFYYLVYGHSS  546 (653)
Q Consensus       501 ~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~---~~t~~~li~~~~~  546 (653)
                      .|..+-..+...|++++|++.|++.  ....|+   ...+..+...+..
T Consensus       119 ~~~~~g~~~~~~~~~~~A~~~~~~a--l~~~p~~~~~~~~~~l~~~~~~  165 (228)
T 4i17_A          119 YYLKEGQKFQQAGNIEKAEENYKHA--TDVTSKKWKTDALYSLGVLFYN  165 (228)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHH--TTSSCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHhHHHHHhccHHHHHHHHHHH--HhcCCCcccHHHHHHHHHHHHH
Confidence            4555556666666666666666653  244554   2344444444433

>4i17_A Hypothetical protein; TPR repeats protein, structural genomics, joint center for S genomics, JCSG, protein structure initiative; HET: MSE; 1.83A {Bacteroides fragilis}

Probab=98.71  E-value=1.8e-06  Score=79.74  Aligned_cols=198  Identities=12%  Similarity=-0.008  Sum_probs=139.8

Q ss_pred             CCHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCC-CCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHH
Q 048743          342 HSNRAMAKLINGYKKHGKNSELSWLLLSIKKEHHSF-GESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTYKS  420 (653)
Q Consensus       342 p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~-~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~  420 (653)
                      .+...+...-..+...|++++|...|++..+..  + ++...+..+...+.+.|++++|...|++..+... -+...|..
T Consensus         5 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~--~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~   81 (228)
T 4i17_A            5 TDPNQLKNEGNDALNAKNYAVAFEKYSEYLKLT--NNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKKNY-NLANAYIG   81 (228)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT--TTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTC-SHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHccCHHHHHHHHHHHHhcc--CCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCc-chHHHHHH
Confidence            355778888889999999999999999999877  4 6666677799999999999999999999987642 25678889


Q ss_pred             HHHHHHHcCChHHHHHHHHHHHHcCCccCchhh-HHHHhhHHHHhhhcccccccccccCCHHHHHHHHHHHHHccCCCC-
Q 048743          421 LLTAYYKVKMFREAEALLKQMRKSCLVQNLSCE-MVVSERFSEVADKSASFTDTSSLMDKSDLAESLIQEMREEAALST-  498 (653)
Q Consensus       421 li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~-~~~~~~l~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~p~-  498 (653)
                      +...|...|++++|...|++..+.  .|+.... .........       ....+...|++++|...|++..+..  |+ 
T Consensus        82 l~~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~-------~g~~~~~~~~~~~A~~~~~~al~~~--p~~  150 (228)
T 4i17_A           82 KSAAYRDMKNNQEYIATLTEGIKA--VPGNATIEKLYAIYYLK-------EGQKFQQAGNIEKAEENYKHATDVT--SKK  150 (228)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHH-------HHHHHHHTTCHHHHHHHHHHHTTSS--CHH
T ss_pred             HHHHHHHcccHHHHHHHHHHHHHH--CCCcHHHHHHHHHHHHH-------HhHHHHHhccHHHHHHHHHHHHhcC--CCc
Confidence            999999999999999999999874  4554211 000000000       0122446899999999999998864  54 


Q ss_pred             --HHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHH
Q 048743          499 --IYKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRPTVETFYYLVYGHSSLEMYRDITILWGDIK  561 (653)
Q Consensus       499 --~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~~~  561 (653)
                        ...|..+...|...|     ..+++++...+ ..+...|....  ....+.+++|...++...
T Consensus       151 ~~~~~~~~l~~~~~~~~-----~~~~~~a~~~~-~~~~~~~~~~~--~~~~~~~~~A~~~~~~a~  207 (228)
T 4i17_A          151 WKTDALYSLGVLFYNNG-----ADVLRKATPLA-SSNKEKYASEK--AKADAAFKKAVDYLGEAV  207 (228)
T ss_dssp             HHHHHHHHHHHHHHHHH-----HHHHHHHGGGT-TTCHHHHHHHH--HHHHHHHHHHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHHH-----HHHHHHHHhcc-cCCHHHHHHHH--HHHHHHHHHHHHHHHHHh
Confidence              456777777775443     44556655543 22344444333  233455677777777665

>2fo7_A Synthetic consensus TPR protein; tetratricopeptide repeat, consensus protein, superhelix, de novo protein; 2.30A {Synthetic} SCOP: k.38.1.1 PDB: 2hyz_A

Probab=98.70  E-value=9.3e-07  Score=73.52  Aligned_cols=94  Identities=18%  Similarity=0.147  Sum_probs=44.7

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 048743          347 MAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTYKSLLTAYY  426 (653)
Q Consensus       347 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~  426 (653)
                      |..+...+...|++++|..+++++....  +.+...+..+...+...|++++|...|+++.+.+ +.+...+..+...+.
T Consensus         4 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~   80 (136)
T 2fo7_A            4 WYNLGNAYYKQGDYDEAIEYYQKALELD--PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYY   80 (136)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCcHHHHHHHHHHHHHcC--CcchhHHHHHHHHHHHhcCHHHHHHHHHHHHHHC-CCchHHHHHHHHHHH
Confidence            3444445555555555555555554443  3333444445555555555555555555544432 123344444444444


Q ss_pred             HcCChHHHHHHHHHHHH
Q 048743          427 KVKMFREAEALLKQMRK  443 (653)
Q Consensus       427 ~~~~~~~a~~~~~~m~~  443 (653)
                      ..|++++|...++.+.+
T Consensus        81 ~~~~~~~A~~~~~~~~~   97 (136)
T 2fo7_A           81 KQGDYDEAIEYYQKALE   97 (136)
T ss_dssp             TTTCHHHHHHHHHHHHH
T ss_pred             HhcCHHHHHHHHHHHHH
Confidence            44445544444444443

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=98.64  E-value=3e-06  Score=80.20  Aligned_cols=184  Identities=13%  Similarity=0.031  Sum_probs=128.0

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCC---cccHHHHHHHHHHcCCHHHHHHHHHHHHHCCC-CC-CHHH
Q 048743          343 SNRAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGE---STLCSDVIDALIQLGFLEAAHDILDDMELAGH-PM-DSTT  417 (653)
Q Consensus       343 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~---~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~-~p-~~~~  417 (653)
                      +...+..+-..+.+.|++++|...|+++....  |.+   ...+..+...|.+.|++++|...|++..+... .| ....
T Consensus        14 ~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~--p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a   91 (261)
T 3qky_A           14 SPQEAFERAMEFYNQGKYDRAIEYFKAVFTYG--RTHEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQIDPRVPQA   91 (261)
T ss_dssp             SHHHHHHHHHHHHHTTCHHHHHHHHHHHGGGC--SCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHH
T ss_pred             CHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC--CCCcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCCchhHHH
Confidence            45667778888899999999999999999876  555   55688888999999999999999999987532 12 2456


Q ss_pred             HHHHHHHHHH--------cCChHHHHHHHHHHHHcCCccCchhhHHHHhhHHHHhhhcccccccccccCCHHHHHHHHHH
Q 048743          418 YKSLLTAYYK--------VKMFREAEALLKQMRKSCLVQNLSCEMVVSERFSEVADKSASFTDTSSLMDKSDLAESLIQE  489 (653)
Q Consensus       418 ~~~li~~~~~--------~~~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~a~~~~~~  489 (653)
                      +..+..++..        .|++++|...|++..+.  .|+...                           ...+...+..
T Consensus        92 ~~~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~--~p~~~~---------------------------~~~a~~~~~~  142 (261)
T 3qky_A           92 EYERAMCYYKLSPPYELDQTDTRKAIEAFQLFIDR--YPNHEL---------------------------VDDATQKIRE  142 (261)
T ss_dssp             HHHHHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHH--CTTCTT---------------------------HHHHHHHHHH
T ss_pred             HHHHHHHHHHhcccccccchhHHHHHHHHHHHHHH--CcCchh---------------------------HHHHHHHHHH
Confidence            7777788888        89999999999999874  354311                           1111111111


Q ss_pred             HHHccCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCC--CHHHHHHHHHHHhcc----------CCHHHHHHHH
Q 048743          490 MREEAALSTIYKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRP--TVETFYYLVYGHSSL----------EMYRDITILW  557 (653)
Q Consensus       490 m~~~~~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p--~~~t~~~li~~~~~~----------~~~~~a~~~~  557 (653)
                      +...    ....+-.+...|.+.|++++|+..|++..+.....  ....+..+..+|...          |++++|...+
T Consensus       143 ~~~~----~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~~~~~~~~~~~A~~~~  218 (261)
T 3qky_A          143 LRAK----LARKQYEAARLYERRELYEAAAVTYEAVFDAYPDTPWADDALVGAMRAYIAYAEQSVRARQPERYRRAVELY  218 (261)
T ss_dssp             HHHH----HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHHHHTSCGGGHHHHHHHHHHHH
T ss_pred             HHHH----HHHHHHHHHHHHHHccCHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHhcccchhhcccchHHHHHHHH
Confidence            1110    11124556677788888888888888887742211  234566666666655          7778888888


Q ss_pred             HHHH
Q 048743          558 GDIK  561 (653)
Q Consensus       558 ~~~~  561 (653)
                      +.+.
T Consensus       219 ~~~~  222 (261)
T 3qky_A          219 ERLL  222 (261)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            7765

>2fo7_A Synthetic consensus TPR protein; tetratricopeptide repeat, consensus protein, superhelix, de novo protein; 2.30A {Synthetic} SCOP: k.38.1.1 PDB: 2hyz_A

Probab=98.63  E-value=9.1e-07  Score=73.59  Aligned_cols=130  Identities=19%  Similarity=0.120  Sum_probs=110.9

Q ss_pred             HHHHHHHhhhccCCHHHHHHHHHHhcccCCCCCCchhhhcccccchhccCCCcccchhhhccchhhhHHHHHHhhhhhHH
Q 048743          252 FYESLLSLHFKFDDIDAAGELILDMNRYREPLPNPKLRQDAQKPYLISIGSPNLRCGLKLQIMPELLEKDSILKMEGKQE  331 (653)
Q Consensus       252 ~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  331 (653)
                      .|..+...|...|++++|..+|+++.+.                                                    
T Consensus         3 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~----------------------------------------------------   30 (136)
T 2fo7_A            3 AWYNLGNAYYKQGDYDEAIEYYQKALEL----------------------------------------------------   30 (136)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHH----------------------------------------------------
T ss_pred             HHHHHHHHHHHcCcHHHHHHHHHHHHHc----------------------------------------------------
Confidence            4778888899999999999999998320                                                    


Q ss_pred             HHHHhcCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCC
Q 048743          332 LVLFRNGKLLHSNRAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGH  411 (653)
Q Consensus       332 ~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~  411 (653)
                              .+.+...+..+...+...|++++|...++++....  +.+...+..+...+...|++++|...++++.+.. 
T Consensus        31 --------~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-   99 (136)
T 2fo7_A           31 --------DPRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELD--PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-   99 (136)
T ss_dssp             --------CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-
T ss_pred             --------CCcchhHHHHHHHHHHHhcCHHHHHHHHHHHHHHC--CCchHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-
Confidence                    11245677888899999999999999999998877  6667778999999999999999999999998754 


Q ss_pred             CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHc
Q 048743          412 PMDSTTYKSLLTAYYKVKMFREAEALLKQMRKS  444 (653)
Q Consensus       412 ~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  444 (653)
                      +.+..++..+...+.+.|++++|...|+++.+.
T Consensus       100 ~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~  132 (136)
T 2fo7_A          100 PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALEL  132 (136)
T ss_dssp             TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHH
T ss_pred             CCChHHHHHHHHHHHHHccHHHHHHHHHHHHcc
Confidence            346788899999999999999999999998764

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=98.63  E-value=1e-06  Score=85.06  Aligned_cols=95  Identities=5%  Similarity=-0.063  Sum_probs=67.3

Q ss_pred             HHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCH------HHHHHHHHHHhccCCHHHHHHHHHHHHHHhhhCCCccCH
Q 048743          500 YKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRPTV------ETFYYLVYGHSSLEMYRDITILWGDIKRNIESGVLAVSR  573 (653)
Q Consensus       500 ~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~------~t~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~p~~  573 (653)
                      .+|+.+...|.+.|++++|++.|++..+.......      ..|..+..++...|++++|...|+...      .+.|+.
T Consensus       159 ~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al------~l~p~~  232 (292)
T 1qqe_A          159 KCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQEGQ------SEDPNF  232 (292)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHGGG------CC----
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH------hhCCCC
Confidence            46788889999999999999999999875433222      156777788899999999999998764      334432


Q ss_pred             ------HHHHHHHHHHH--hCCCHHHHHHHHHHHH
Q 048743          574 ------DLYETLLLNFL--QGGYFERVMEVIGYMK  600 (653)
Q Consensus       574 ------~~y~~li~~~~--~~g~~~~a~~~~~~m~  600 (653)
                            ..+..++.++.  ..+++++|++.|+++.
T Consensus       233 ~~~~~~~~l~~l~~~~~~~~~~~~~~A~~~~~~~~  267 (292)
T 1qqe_A          233 ADSRESNFLKSLIDAVNEGDSEQLSEHCKEFDNFM  267 (292)
T ss_dssp             -----HHHHHHHHHHHHTTCTTTHHHHHHHHTTSS
T ss_pred             CCcHHHHHHHHHHHHHHcCCHHHHHHHHHHhccCC
Confidence                  23444566664  4567888888887654

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=98.56  E-value=4.6e-06  Score=79.14  Aligned_cols=180  Identities=8%  Similarity=-0.064  Sum_probs=112.6

Q ss_pred             HHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCC-CCCHHHHHHHHHHHHHcCChHHHHHHHHHH
Q 048743          363 LSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGH-PMDSTTYKSLLTAYYKVKMFREAEALLKQM  441 (653)
Q Consensus       363 a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~-~p~~~~~~~li~~~~~~~~~~~a~~~~~~m  441 (653)
                      |+..|++....+  +++..++..+..++...|++++|++++.+....|. .-+...+..++..+.+.|+++.|.+.++.|
T Consensus        85 a~~~l~~l~~~~--~~~~~~~~~la~i~~~~g~~eeAL~~l~~~i~~~~~~~~lea~~l~vqi~L~~~r~d~A~k~l~~~  162 (310)
T 3mv2_B           85 NIEELENLLKDK--QNSPYELYLLATAQAILGDLDKSLETCVEGIDNDEAEGTTELLLLAIEVALLNNNVSTASTIFDNY  162 (310)
T ss_dssp             CCHHHHHTTTTS--CCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTSSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcC--CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCcCcHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            778888877665  44445567888999999999999999999877654 236678888999999999999999999999


Q ss_pred             HHcCCccC------chhhHHHHhhHHHHhhhcccccccccccCCHHHHHHHHHHHHHccCCCCHHHHHHHHHHHHcCCCH
Q 048743          442 RKSCLVQN------LSCEMVVSERFSEVADKSASFTDTSSLMDKSDLAESLIQEMREEAALSTIYKLNSSIYFFCKGKMI  515 (653)
Q Consensus       442 ~~~~~~p~------~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~y~~li~~~~~~g~~  515 (653)
                      .+.  .||      .....+.... ..+..          ..++...|..+|+++.+..  |+..+-..++.++.+.|++
T Consensus       163 ~~~--~~d~~~~~d~~l~~Laea~-v~l~~----------g~~~~q~A~~~f~El~~~~--p~~~~~~lLln~~~~~g~~  227 (310)
T 3mv2_B          163 TNA--IEDTVSGDNEMILNLAESY-IKFAT----------NKETATSNFYYYEELSQTF--PTWKTQLGLLNLHLQQRNI  227 (310)
T ss_dssp             HHH--SCHHHHHHHHHHHHHHHHH-HHHHH----------TCSTTTHHHHHHHHHHTTS--CSHHHHHHHHHHHHHHTCH
T ss_pred             Hhc--CccccccchHHHHHHHHHH-HHHHh----------CCccHHHHHHHHHHHHHhC--CCcccHHHHHHHHHHcCCH
Confidence            874  462      1111111110 11111          1236677777777765543  4322223333366667777


Q ss_pred             HHHHHHHHHHHhc-----CC---CC-CHHHHHHHHHHHhccCCHHHHHHHHHHHH
Q 048743          516 GDALKIYRRMQEM-----KI---RP-TVETFYYLVYGHSSLEMYRDITILWGDIK  561 (653)
Q Consensus       516 ~~a~~~~~~m~~~-----g~---~p-~~~t~~~li~~~~~~~~~~~a~~~~~~~~  561 (653)
                      ++|.+.++.+.+.     +.   .| |..++..+|......|+  +|.++++++.
T Consensus       228 ~eAe~~L~~l~~~~p~~~~k~~~~p~~~~~LaN~i~l~~~lgk--~a~~l~~qL~  280 (310)
T 3mv2_B          228 AEAQGIVELLLSDYYSVEQKENAVLYKPTFLANQITLALMQGL--DTEDLTNQLV  280 (310)
T ss_dssp             HHHHHHHHHHHSHHHHTTTCHHHHSSHHHHHHHHHHHHHHTTC--TTHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcccccccccCCCCCHHHHHHHHHHHHHhCh--HHHHHHHHHH
Confidence            7777777655442     10   13 34445344444444554  5666666654

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=98.55  E-value=6.1e-06  Score=78.29  Aligned_cols=184  Identities=10%  Similarity=0.058  Sum_probs=128.7

Q ss_pred             HHHHHHHHHhcCCCccHHHHHHHHHHHHhcCChhhhHHHHHHhhhcCCCcccchhHHHHHHHHhhhccCCHHHHHHHHHH
Q 048743          196 GQHIMELMSQTGVVADAHSIIILAQIHEMNCQRDELKKFKCYIDQLSTPFAHHYQQFYESLLSLHFKFDDIDAAGELILD  275 (653)
Q Consensus       196 a~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~  275 (653)
                      |...|++..+.+ .++..++..+..++...|+.++|.+++......++  ...+...+..++..|.+.|+++.|.+.+++
T Consensus        85 a~~~l~~l~~~~-~~~~~~~~~la~i~~~~g~~eeAL~~l~~~i~~~~--~~~~lea~~l~vqi~L~~~r~d~A~k~l~~  161 (310)
T 3mv2_B           85 NIEELENLLKDK-QNSPYELYLLATAQAILGDLDKSLETCVEGIDNDE--AEGTTELLLLAIEVALLNNNVSTASTIFDN  161 (310)
T ss_dssp             CCHHHHHTTTTS-CCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTSSC--STTHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHhcC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHhccCC--CcCcHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            566677666554 45555566777778888888888888777644332  012334678889999999999999999999


Q ss_pred             hcccCCCCCCchhhhcccccchhccCCCcccchhhhccchhhhHHHHHHhhhhhHHHHHHhcCCCCC-----CHHHHHHH
Q 048743          276 MNRYREPLPNPKLRQDAQKPYLISIGSPNLRCGLKLQIMPELLEKDSILKMEGKQELVLFRNGKLLH-----SNRAMAKL  350 (653)
Q Consensus       276 m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p-----~~~~~~~l  350 (653)
                      |.+                                                             ..|     +..+...+
T Consensus       162 ~~~-------------------------------------------------------------~~~d~~~~~d~~l~~L  180 (310)
T 3mv2_B          162 YTN-------------------------------------------------------------AIEDTVSGDNEMILNL  180 (310)
T ss_dssp             HHH-------------------------------------------------------------HSCHHHHHHHHHHHHH
T ss_pred             HHh-------------------------------------------------------------cCccccccchHHHHHH
Confidence            832                                                             334     24455556


Q ss_pred             HHHHH--h--cCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHC-----C----CCCCHHH
Q 048743          351 INGYK--K--HGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELA-----G----HPMDSTT  417 (653)
Q Consensus       351 i~~~~--~--~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~-----g----~~p~~~~  417 (653)
                      ..++.  .  .++..+|..+|+++....   |+..+-..++.++.+.|++++|.+.++.+.+.     +    -+-|+.+
T Consensus       181 aea~v~l~~g~~~~q~A~~~f~El~~~~---p~~~~~~lLln~~~~~g~~~eAe~~L~~l~~~~p~~~~k~~~~p~~~~~  257 (310)
T 3mv2_B          181 AESYIKFATNKETATSNFYYYEELSQTF---PTWKTQLGLLNLHLQQRNIAEAQGIVELLLSDYYSVEQKENAVLYKPTF  257 (310)
T ss_dssp             HHHHHHHHHTCSTTTHHHHHHHHHHTTS---CSHHHHHHHHHHHHHHTCHHHHHHHHHHHHSHHHHTTTCHHHHSSHHHH
T ss_pred             HHHHHHHHhCCccHHHHHHHHHHHHHhC---CCcccHHHHHHHHHHcCCHHHHHHHHHHHHHhcccccccccCCCCCHHH
Confidence            65533  3  348999999999997654   33222445555899999999999999976542     1    1346777


Q ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHHcCCccCc
Q 048743          418 YKSLLTAYYKVKMFREAEALLKQMRKSCLVQNL  450 (653)
Q Consensus       418 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~  450 (653)
                      +..+|......|+  +|.++++++.+.  .|+.
T Consensus       258 LaN~i~l~~~lgk--~a~~l~~qL~~~--~P~h  286 (310)
T 3mv2_B          258 LANQITLALMQGL--DTEDLTNQLVKL--DHEH  286 (310)
T ss_dssp             HHHHHHHHHHTTC--TTHHHHHHHHHT--TCCC
T ss_pred             HHHHHHHHHHhCh--HHHHHHHHHHHh--CCCC
Confidence            8677777777787  889999999884  5664

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=98.55  E-value=3.1e-06  Score=76.92  Aligned_cols=92  Identities=7%  Similarity=-0.005  Sum_probs=53.3

Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHH----------------HHHHHHHcCCHHHHHHHHHHHHHCCCC
Q 048743          349 KLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSD----------------VIDALIQLGFLEAAHDILDDMELAGHP  412 (653)
Q Consensus       349 ~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~----------------li~~~~~~g~~~~a~~~~~~m~~~g~~  412 (653)
                      .....+.+.|++++|...|++..+..  |.+...|..                +...|.+.|++++|...|++..+.. +
T Consensus         9 ~~g~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p   85 (208)
T 3urz_A            9 QKVSAAIEAGQNGQAVSYFRQTIALN--IDRTEMYYWTNVDKNSEISSKLATELALAYKKNRNYDKAYLFYKELLQKA-P   85 (208)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHC--HHHHHHHHHHHSCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-T
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhC--CCChHHHHHhhhcchhhhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHC-C
Confidence            44455667888888888888887766  544444444                5555555555555555555554432 1


Q ss_pred             CCHHHHHHHHHHHHHcCChHHHHHHHHHHHH
Q 048743          413 MDSTTYKSLLTAYYKVKMFREAEALLKQMRK  443 (653)
Q Consensus       413 p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  443 (653)
                      -+...|..+-..+...|++++|...|++..+
T Consensus        86 ~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~  116 (208)
T 3urz_A           86 NNVDCLEACAEMQVCRGQEKDALRMYEKILQ  116 (208)
T ss_dssp             TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            2444555555555555555555555555544

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=98.50  E-value=4.2e-06  Score=80.69  Aligned_cols=207  Identities=11%  Similarity=-0.074  Sum_probs=145.2

Q ss_pred             hHHHHHHHHHhcCChhhHHHHHHHHHhc----CCCcc-HHHHHHHHHHHHhcCChhhhHHHHHHhhhcCC--CcccchhH
Q 048743          179 IFNLVLHACVRFGSSLKGQHIMELMSQT----GVVAD-AHSIIILAQIHEMNCQRDELKKFKCYIDQLST--PFAHHYQQ  251 (653)
Q Consensus       179 ~yn~li~~~~~~g~~~~a~~l~~~m~~~----g~~p~-~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~--~~~~~~~~  251 (653)
                      .|+.....|...|++++|.+.|++..+.    |-.++ ..+|..+..+|.+.|++++|...++.......  .....-..
T Consensus        39 ~~~~a~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~  118 (292)
T 1qqe_A           39 LCVQAATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGAN  118 (292)
T ss_dssp             HHHHHHHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHH
Confidence            4666677888999999999999988753    32222 45688999999999999999998888766421  11111234


Q ss_pred             HHHHHHHhhhcc-CCHHHHHHHHHHhcccCCCCCCchhhhcccccchhccCCCcccchhhhccchhhhHHHHHHhhhhhH
Q 048743          252 FYESLLSLHFKF-DDIDAAGELILDMNRYREPLPNPKLRQDAQKPYLISIGSPNLRCGLKLQIMPELLEKDSILKMEGKQ  330 (653)
Q Consensus       252 ~~~~li~~~~~~-g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  330 (653)
                      +++.+-.+|... |++++|...|++..+.                                                   
T Consensus       119 ~~~~lg~~~~~~lg~~~~A~~~~~~Al~~---------------------------------------------------  147 (292)
T 1qqe_A          119 FKFELGEILENDLHDYAKAIDCYELAGEW---------------------------------------------------  147 (292)
T ss_dssp             HHHHHHHHHHHTTCCHHHHHHHHHHHHHH---------------------------------------------------
T ss_pred             HHHHHHHHHHHhhcCHHHHHHHHHHHHHH---------------------------------------------------
Confidence            788899999996 9999999999988320                                                   


Q ss_pred             HHHHHhcCCCCCC-HHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcc-----cHHHHHHHHHHcCCHHHHHHHHH
Q 048743          331 ELVLFRNGKLLHS-NRAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGEST-----LCSDVIDALIQLGFLEAAHDILD  404 (653)
Q Consensus       331 ~~~~~~~~~~~p~-~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~-----~~~~li~~~~~~g~~~~a~~~~~  404 (653)
                          ....+-.+. ..+|+.+...+.+.|++++|...|++........+...     .|..+...+...|+++.|...|+
T Consensus       148 ----~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~  223 (292)
T 1qqe_A          148 ----YAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQ  223 (292)
T ss_dssp             ----HHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             ----HHhCCChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence                000110011 24678889999999999999999999988662222211     36777888999999999999999


Q ss_pred             HHHHCCCCCCH------HHHHHHHHHHH--HcCChHHHHHHHHHHH
Q 048743          405 DMELAGHPMDS------TTYKSLLTAYY--KVKMFREAEALLKQMR  442 (653)
Q Consensus       405 ~m~~~g~~p~~------~~~~~li~~~~--~~~~~~~a~~~~~~m~  442 (653)
                      +..+.  .|+.      ..+..++.++.  ..+++++|+..|+.+.
T Consensus       224 ~al~l--~p~~~~~~~~~~l~~l~~~~~~~~~~~~~~A~~~~~~~~  267 (292)
T 1qqe_A          224 EGQSE--DPNFADSRESNFLKSLIDAVNEGDSEQLSEHCKEFDNFM  267 (292)
T ss_dssp             GGGCC-----------HHHHHHHHHHHHTTCTTTHHHHHHHHTTSS
T ss_pred             HHHhh--CCCCCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHhccCC
Confidence            98653  2321      23445566664  3466888877776553

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=98.48  E-value=1.2e-05  Score=75.97  Aligned_cols=102  Identities=12%  Similarity=0.020  Sum_probs=78.6

Q ss_pred             HHHHHHHHHHHh--------cCChHHHHHHHHHHHhcCCCCCCcccH-----------------HHHHHHHHHcCCHHHH
Q 048743          345 RAMAKLINGYKK--------HGKNSELSWLLLSIKKEHHSFGESTLC-----------------SDVIDALIQLGFLEAA  399 (653)
Q Consensus       345 ~~~~~li~~~~~--------~~~~~~a~~~~~~m~~~~~~~~~~~~~-----------------~~li~~~~~~g~~~~a  399 (653)
                      ..+..+-.++..        .|++++|...|++.....  |.+...+                 ..+...|.+.|++++|
T Consensus        90 ~a~~~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~--p~~~~~~~a~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A  167 (261)
T 3qky_A           90 QAEYERAMCYYKLSPPYELDQTDTRKAIEAFQLFIDRY--PNHELVDDATQKIRELRAKLARKQYEAARLYERRELYEAA  167 (261)
T ss_dssp             HHHHHHHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHHC--TTCTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHHhcccccccchhHHHHHHHHHHHHHHC--cCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHH
Confidence            356667777777        999999999999999877  6555555                 4557888899999999


Q ss_pred             HHHHHHHHHCCCCC--CHHHHHHHHHHHHHc----------CChHHHHHHHHHHHHcCCccCc
Q 048743          400 HDILDDMELAGHPM--DSTTYKSLLTAYYKV----------KMFREAEALLKQMRKSCLVQNL  450 (653)
Q Consensus       400 ~~~~~~m~~~g~~p--~~~~~~~li~~~~~~----------~~~~~a~~~~~~m~~~~~~p~~  450 (653)
                      ...|++..+.....  ....+..+..+|...          |++++|...|+...+.  .|+.
T Consensus       168 ~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~~~~~~~~~~~A~~~~~~~~~~--~p~~  228 (261)
T 3qky_A          168 AVTYEAVFDAYPDTPWADDALVGAMRAYIAYAEQSVRARQPERYRRAVELYERLLQI--FPDS  228 (261)
T ss_dssp             HHHHHHHHHHCTTSTTHHHHHHHHHHHHHHHHHTSCGGGHHHHHHHHHHHHHHHHHH--CTTC
T ss_pred             HHHHHHHHHHCCCCchHHHHHHHHHHHHHHhcccchhhcccchHHHHHHHHHHHHHH--CCCC
Confidence            99999998753221  245677778888766          8889999999999874  4654

>2r5s_A Uncharacterized protein VP0806; APC090868.1, vibrio parahaemolyticus RIMD 22 structural genomics, PSI-2, protein structure initiative; HET: MES; 2.14A {Vibrio parahaemolyticus}

Probab=98.46  E-value=3.1e-06  Score=74.57  Aligned_cols=158  Identities=10%  Similarity=0.039  Sum_probs=94.3

Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH-HHH
Q 048743          349 KLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTYKSLLTA-YYK  427 (653)
Q Consensus       349 ~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~-~~~  427 (653)
                      .+...+.+.|++++|...|++..+..  |.+...+..+...+.+.|++++|...|++.....  |+...+..+... +..
T Consensus        11 ~~a~~~~~~g~~~~A~~~~~~al~~~--P~~~~a~~~la~~~~~~g~~~~A~~~~~~a~~~~--p~~~~~~~~~~~~~~~   86 (176)
T 2r5s_A           11 KQVSELLQQGEHAQALNVIQTLSDEL--QSRGDVKLAKADCLLETKQFELAQELLATIPLEY--QDNSYKSLIAKLELHQ   86 (176)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHTSCHHH--HTSHHHHHHHHHHHHHTTCHHHHHHHHTTCCGGG--CCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHC--CCcHHHHHHHHHHHHHCCCHHHHHHHHHHhhhcc--CChHHHHHHHHHHHHh
Confidence            34445556666666666666655554  5555556666666666666666666666554332  232222111100 001


Q ss_pred             cCChHHHHHHHHHHHHcCCccCchhhHHHHhhHHHHhhhcccccccccccCCHHHHHHHHHHHHHccCCC-CHHHHHHHH
Q 048743          428 VKMFREAEALLKQMRKSCLVQNLSCEMVVSERFSEVADKSASFTDTSSLMDKSDLAESLIQEMREEAALS-TIYKLNSSI  506 (653)
Q Consensus       428 ~~~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~~y~~li  506 (653)
                      .+..                                                 ..|...+++..+..  | +...+..+.
T Consensus        87 ~~~~-------------------------------------------------~~a~~~~~~al~~~--P~~~~~~~~la  115 (176)
T 2r5s_A           87 QAAE-------------------------------------------------SPELKRLEQELAAN--PDNFELACELA  115 (176)
T ss_dssp             HHTS-------------------------------------------------CHHHHHHHHHHHHS--TTCHHHHHHHH
T ss_pred             hccc-------------------------------------------------chHHHHHHHHHHhC--CCCHHHHHHHH
Confidence            1111                                                 12344444444432  4 567788888


Q ss_pred             HHHHcCCCHHHHHHHHHHHHhcCCCC-CHHHHHHHHHHHhccCCHHHHHHHHHHHH
Q 048743          507 YFFCKGKMIGDALKIYRRMQEMKIRP-TVETFYYLVYGHSSLEMYRDITILWGDIK  561 (653)
Q Consensus       507 ~~~~~~g~~~~a~~~~~~m~~~g~~p-~~~t~~~li~~~~~~~~~~~a~~~~~~~~  561 (653)
                      ..+...|++++|...|++..+....+ +...+..+...+...|+.++|...++...
T Consensus       116 ~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~A~~~y~~al  171 (176)
T 2r5s_A          116 VQYNQVGRDEEALELLWNILKVNLGAQDGEVKKTFMDILSALGQGNAIASKYRRQL  171 (176)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHTTCTTTTTTHHHHHHHHHHHHHCSSCHHHHHHHHHH
T ss_pred             HHHHHcccHHHHHHHHHHHHHhCcccChHHHHHHHHHHHHHhCCCCcHHHHHHHHH
Confidence            88889999999999999888764332 35577788888888899888888887654

>2ifu_A Gamma-SNAP; membrane fusion, snare complex disassembly, protein structure initiative, PSI, center for eukaryotic structural genomics, CESG; HET: MSE; 2.60A {Danio rerio}

Probab=98.46  E-value=7.9e-06  Score=79.39  Aligned_cols=100  Identities=7%  Similarity=-0.061  Sum_probs=62.1

Q ss_pred             HHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCC----C-CHHHHHHHHHHHhccCCHHHHHHHHHHHHHHhhhCCCccCH-
Q 048743          500 YKLNSSIYFFCKGKMIGDALKIYRRMQEMKIR----P-TVETFYYLVYGHSSLEMYRDITILWGDIKRNIESGVLAVSR-  573 (653)
Q Consensus       500 ~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~----p-~~~t~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~p~~-  573 (653)
                      .+|+.+-..|.. |++++|++.|++..+....    + ...++..+...+...|++++|+..|+...+.....+..+.. 
T Consensus       117 ~~~~~lg~~~~~-g~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~  195 (307)
T 2ifu_A          117 MALDRAGKLMEP-LDLSKAVHLYQQAAAVFENEERLRQAAELIGKASRLLVRQQKFDEAAASLQKEKSMYKEMENYPTCY  195 (307)
T ss_dssp             HHHHHHHHHHTT-TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHc-CCHHHHHHHHHHHHHHHHhCCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChhHHH
Confidence            455666666666 7777777777776642110    0 13456667777777778888877777766543333332222 


Q ss_pred             HHHHHHHHHHHhCCCHHHHHHHHHHHH
Q 048743          574 DLYETLLLNFLQGGYFERVMEVIGYMK  600 (653)
Q Consensus       574 ~~y~~li~~~~~~g~~~~a~~~~~~m~  600 (653)
                      ..+..+...+...|++++|...|++..
T Consensus       196 ~~~~~~g~~~~~~g~~~~A~~~~~~al  222 (307)
T 2ifu_A          196 KKCIAQVLVQLHRADYVAAQKCVRESY  222 (307)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHh
Confidence            245555666667788888888777776

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=98.42  E-value=4e-05  Score=70.45  Aligned_cols=65  Identities=12%  Similarity=-0.017  Sum_probs=48.9

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCc---ccHHHHHHHHHHcCCHHHHHHHHHHHHHCC
Q 048743          344 NRAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGES---TLCSDVIDALIQLGFLEAAHDILDDMELAG  410 (653)
Q Consensus       344 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~---~~~~~li~~~~~~g~~~~a~~~~~~m~~~g  410 (653)
                      ...+..+...+.+.|++++|...|+++....  |.+.   ..+..+..+|.+.|++++|...|++..+..
T Consensus         4 ~~~~~~~a~~~~~~g~~~~A~~~~~~~~~~~--p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~   71 (225)
T 2yhc_A            4 PNEIYATAQQKLQDGNWRQAITQLEALDNRY--PFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLN   71 (225)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--TTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHC
Confidence            3445566677888899999999999888765  3332   346777888888899999999998887653

>2ifu_A Gamma-SNAP; membrane fusion, snare complex disassembly, protein structure initiative, PSI, center for eukaryotic structural genomics, CESG; HET: MSE; 2.60A {Danio rerio}

Probab=98.41  E-value=1.3e-05  Score=77.82  Aligned_cols=195  Identities=12%  Similarity=0.066  Sum_probs=105.5

Q ss_pred             HHHHhcCChHHHHHHHHHHHhcCCCCCC----cccHHHHHHHHHHcCCHHHHHHHHHHHHHC----CCCC-CHHHHHHHH
Q 048743          352 NGYKKHGKNSELSWLLLSIKKEHHSFGE----STLCSDVIDALIQLGFLEAAHDILDDMELA----GHPM-DSTTYKSLL  422 (653)
Q Consensus       352 ~~~~~~~~~~~a~~~~~~m~~~~~~~~~----~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----g~~p-~~~~~~~li  422 (653)
                      ..|...|++++|...|.+.........+    ..+|+.+...|.+.|++++|...|++..+.    |-.. -..+++.+-
T Consensus        44 ~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg  123 (307)
T 2ifu_A           44 VAFKNAKQLEQAKDAYLQEAEAHANNRSLFHAAKAFEQAGMMLKDLQRMPEAVQYIEKASVMYVENGTPDTAAMALDRAG  123 (307)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            3455566666666666654432100001    123555555666666666666666554321    1100 123444555


Q ss_pred             HHHHHcCChHHHHHHHHHHHHcCCccCchhhHHHHhhHHHHhhhcccccccccccCCHHHHHHHHHHHHHccCCCCHHHH
Q 048743          423 TAYYKVKMFREAEALLKQMRKSCLVQNLSCEMVVSERFSEVADKSASFTDTSSLMDKSDLAESLIQEMREEAALSTIYKL  502 (653)
Q Consensus       423 ~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~y  502 (653)
                      ..|.. |++++|+..|++..+.  .|.                           .++..               -...+|
T Consensus       124 ~~~~~-g~~~~A~~~~~~Al~~--~~~---------------------------~~~~~---------------~~~~~~  158 (307)
T 2ifu_A          124 KLMEP-LDLSKAVHLYQQAAAV--FEN---------------------------EERLR---------------QAAELI  158 (307)
T ss_dssp             HHHTT-TCHHHHHHHHHHHHHH--HHH---------------------------TTCHH---------------HHHHHH
T ss_pred             HHHHc-CCHHHHHHHHHHHHHH--HHh---------------------------CCChh---------------HHHHHH
Confidence            55555 6666666666555431  110                           00000               013467


Q ss_pred             HHHHHHHHcCCCHHHHHHHHHHHHhc----CCCCCH-HHHHHHHHHHhccCCHHHHHHHHHHHHHHhhhCCCccC--HHH
Q 048743          503 NSSIYFFCKGKMIGDALKIYRRMQEM----KIRPTV-ETFYYLVYGHSSLEMYRDITILWGDIKRNIESGVLAVS--RDL  575 (653)
Q Consensus       503 ~~li~~~~~~g~~~~a~~~~~~m~~~----g~~p~~-~t~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~p~--~~~  575 (653)
                      +.+...|.+.|++++|++.|++....    +..++. .++..+..++...|++++|...|+... .  .......  ...
T Consensus       159 ~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~g~~~~~~g~~~~A~~~~~~al-~--~p~~~~~~e~~~  235 (307)
T 2ifu_A          159 GKASRLLVRQQKFDEAAASLQKEKSMYKEMENYPTCYKKCIAQVLVQLHRADYVAAQKCVRESY-S--IPGFSGSEDCAA  235 (307)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHT-T--STTSTTSHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHh-C--CCCCCCCHHHHH
Confidence            77888888999999999999888762    211222 256666677777899999999988764 2  1112112  223


Q ss_pred             HHHHHHHHHhCCCHHHHHHH
Q 048743          576 YETLLLNFLQGGYFERVMEV  595 (653)
Q Consensus       576 y~~li~~~~~~g~~~~a~~~  595 (653)
                      ...++.++ ..|+.+.+.++
T Consensus       236 l~~l~~~~-~~~d~~~~~~~  254 (307)
T 2ifu_A          236 LEDLLQAY-DEQDEEQLLRV  254 (307)
T ss_dssp             HHHHHHHH-HTTCHHHHHHH
T ss_pred             HHHHHHHH-HhcCHHHHHHH
Confidence            44555555 56777666664

>2pzi_A Probable serine/threonine-protein kinase PKNG; ATP-recognition, kinase-INH complex, rubredoxin fold, TPR domain, transferase; HET: AXX; 2.40A {Mycobacterium tuberculosis}

Probab=98.39  E-value=3.4e-06  Score=91.75  Aligned_cols=171  Identities=11%  Similarity=-0.038  Sum_probs=123.3

Q ss_pred             HhcCChHHHHHHHHHHH--------hcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 048743          355 KKHGKNSELSWLLLSIK--------KEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTYKSLLTAYY  426 (653)
Q Consensus       355 ~~~~~~~~a~~~~~~m~--------~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~  426 (653)
                      ...|++++|++.+++..        +..  +.+...|..+...|.+.|++++|...|++..+.. +-+...|..+-.+|.
T Consensus       402 ~~~~~~~~A~~~~~~al~~~~~~~~~~~--p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~  478 (681)
T 2pzi_A          402 TVLSQPVQTLDSLRAARHGALDADGVDF--SESVELPLMEVRALLDLGDVAKATRKLDDLAERV-GWRWRLVWYRAVAEL  478 (681)
T ss_dssp             TTTCCHHHHHHHHHHHHTC-------CC--TTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH-CCCHHHHHHHHHHHH
T ss_pred             ccccCHHHHHHHHHHhhhhccccccccc--ccchhHHHHHHHHHHhcCCHHHHHHHHHHHhccC-cchHHHHHHHHHHHH
Confidence            78899999999999987        544  6667779999999999999999999999998753 237788999999999


Q ss_pred             HcCChHHHHHHHHHHHHcCCccCchhh-HHHHhhHHHHhhhcccccccccccCCHHHHHHHHHHHHHccCCC-CHHHHHH
Q 048743          427 KVKMFREAEALLKQMRKSCLVQNLSCE-MVVSERFSEVADKSASFTDTSSLMDKSDLAESLIQEMREEAALS-TIYKLNS  504 (653)
Q Consensus       427 ~~~~~~~a~~~~~~m~~~~~~p~~~~~-~~~~~~l~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~~y~~  504 (653)
                      ..|++++|...|++..+.  .|+.... .....+              |...|++++ ...|++..+.+  | +...|..
T Consensus       479 ~~g~~~~A~~~~~~al~l--~P~~~~~~~~lg~~--------------~~~~g~~~~-~~~~~~al~~~--P~~~~a~~~  539 (681)
T 2pzi_A          479 LTGDYDSATKHFTEVLDT--FPGELAPKLALAAT--------------AELAGNTDE-HKFYQTVWSTN--DGVISAAFG  539 (681)
T ss_dssp             HHTCHHHHHHHHHHHHHH--STTCSHHHHHHHHH--------------HHHHTCCCT-TCHHHHHHHHC--TTCHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHHh--CCCChHHHHHHHHH--------------HHHcCChHH-HHHHHHHHHhC--CchHHHHHH
Confidence            999999999999999874  4654211 111111              223677777 77777776654  4 5667777


Q ss_pred             HHHHHHcCCCHHHHHHHHHHHHhcCCCCC-HHHHHHHHHHHhccCC
Q 048743          505 SIYFFCKGKMIGDALKIYRRMQEMKIRPT-VETFYYLVYGHSSLEM  549 (653)
Q Consensus       505 li~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~t~~~li~~~~~~~~  549 (653)
                      +-.+|.+.|++++|++.|++..+.  .|+ ...+..+..++...++
T Consensus       540 lg~~~~~~g~~~~A~~~~~~al~l--~P~~~~a~~~~~~~~~~~~~  583 (681)
T 2pzi_A          540 LARARSAEGDRVGAVRTLDEVPPT--SRHFTTARLTSAVTLLSGRS  583 (681)
T ss_dssp             HHHHHHHTTCHHHHHHHHHTSCTT--STTHHHHHHHHHHHTC----
T ss_pred             HHHHHHHcCCHHHHHHHHHhhccc--CcccHHHHHHHHHHHHccCC
Confidence            777778888888888887776543  454 3455566666665555

>2r5s_A Uncharacterized protein VP0806; APC090868.1, vibrio parahaemolyticus RIMD 22 structural genomics, PSI-2, protein structure initiative; HET: MES; 2.14A {Vibrio parahaemolyticus}

Probab=98.39  E-value=5.9e-06  Score=72.78  Aligned_cols=82  Identities=12%  Similarity=-0.015  Sum_probs=64.0

Q ss_pred             hHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHHcCChHHHHHHH
Q 048743          360 NSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPM-DSTTYKSLLTAYYKVKMFREAEALL  438 (653)
Q Consensus       360 ~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p-~~~~~~~li~~~~~~~~~~~a~~~~  438 (653)
                      ..+|...+++..+..  |.+...+..+...+...|++++|...|++..+....+ +...+..+...+...|+.++|...|
T Consensus        90 ~~~a~~~~~~al~~~--P~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~A~~~y  167 (176)
T 2r5s_A           90 ESPELKRLEQELAAN--PDNFELACELAVQYNQVGRDEEALELLWNILKVNLGAQDGEVKKTFMDILSALGQGNAIASKY  167 (176)
T ss_dssp             SCHHHHHHHHHHHHS--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTTTTTHHHHHHHHHHHHHCSSCHHHHHH
T ss_pred             cchHHHHHHHHHHhC--CCCHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccChHHHHHHHHHHHHHhCCCCcHHHHH
Confidence            345677888877776  7777778888888889999999999998888765332 3567888888888889998888888


Q ss_pred             HHHHH
Q 048743          439 KQMRK  443 (653)
Q Consensus       439 ~~m~~  443 (653)
                      ++...
T Consensus       168 ~~al~  172 (176)
T 2r5s_A          168 RRQLY  172 (176)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            76653

>3u3w_A Transcriptional activator PLCR protein; ternary complex, PLCR-PAPR7-DNA, HTH DNA-binding domain, QUO sensing; 2.40A {Bacillus thuringiensis} PDB: 2qfc_A

Probab=98.38  E-value=5.6e-05  Score=72.73  Aligned_cols=213  Identities=8%  Similarity=-0.043  Sum_probs=140.0

Q ss_pred             HHhcCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCccc---HHHHHHHHHHcCCHHHHHHHHHHHHHCC
Q 048743          334 LFRNGKLLHSNRAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTL---CSDVIDALIQLGFLEAAHDILDDMELAG  410 (653)
Q Consensus       334 ~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~---~~~li~~~~~~g~~~~a~~~~~~m~~~g  410 (653)
                      ..+.+...|+..+...+...+.-.-+     .++..   ..  ..+...   +...+..+...|++++|..++++..+..
T Consensus        36 ~~e~g~~~~~~~~l~~i~~~l~~~~~-----~~~~~---~~--~~~~~~~~~l~~~i~~~~~~~~y~~a~~~~~~~l~~~  105 (293)
T 3u3w_A           36 RIESGAVYPSMDILQGIAAKLQIPII-----HFYEV---LI--YSDIERKKQFKDQVIMLCKQKRYKEIYNKVWNELKKE  105 (293)
T ss_dssp             HHHTTSCCCCHHHHHHHHHHHTCCTH-----HHHHT---TT--SSCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             HHHCCCCCCCHHHHHHHHHHhCcCHH-----HHhCC---CC--CCcchhHHHHHHHHHHHHHHhhHHHHHHHHHHHhccc
Confidence            44566677888877777666553321     12211   11  111111   3334677888899999999998887642


Q ss_pred             C-CCCHH----HHHHHHHHHHHcCChHHHHHHHHHHHHcCCccCchhhHHHHhhHHHHhhhcccccccccccCCHHHHHH
Q 048743          411 H-PMDST----TYKSLLTAYYKVKMFREAEALLKQMRKSCLVQNLSCEMVVSERFSEVADKSASFTDTSSLMDKSDLAES  485 (653)
Q Consensus       411 ~-~p~~~----~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~a~~  485 (653)
                      . .|+..    .|..+...+...+++++|...|++..+.....+....                                
T Consensus       106 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~~~--------------------------------  153 (293)
T 3u3w_A          106 EYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQ--------------------------------  153 (293)
T ss_dssp             CCCHHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHTCCCCSCTTH--------------------------------
T ss_pred             cCChHHHHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHhcccccHHH--------------------------------
Confidence            1 22211    2334555566667888888888887763222111000                                


Q ss_pred             HHHHHHHccCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHh----c-CCCCC-HHHHHHHHHHHhccCCHHHHHHHHHH
Q 048743          486 LIQEMREEAALSTIYKLNSSIYFFCKGKMIGDALKIYRRMQE----M-KIRPT-VETFYYLVYGHSSLEMYRDITILWGD  559 (653)
Q Consensus       486 ~~~~m~~~~~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~----~-g~~p~-~~t~~~li~~~~~~~~~~~a~~~~~~  559 (653)
                                  ...+|+.+...|...|++++|++.|++..+    . +..+. ..+|..+...|.+.|++++|..+++.
T Consensus       154 ------------~~~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~A~~~~~~  221 (293)
T 3u3w_A          154 ------------NLYIENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNK  221 (293)
T ss_dssp             ------------HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             ------------HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHH
Confidence                        123688888899999999999999999884    1 22222 23778888999999999999999998


Q ss_pred             HHHHhhhCCCccC-HHHHHHHHHHHHhCCC-HHHHHHHHHHHH
Q 048743          560 IKRNIESGVLAVS-RDLYETLLLNFLQGGY-FERVMEVIGYMK  600 (653)
Q Consensus       560 ~~~~~~~~~~~p~-~~~y~~li~~~~~~g~-~~~a~~~~~~m~  600 (653)
                      ..+..+..+..+. ..+|..+-.+|.+.|+ +++|.+.+++..
T Consensus       222 al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~~A~~~~~~Al  264 (293)
T 3u3w_A          222 AIEISCRINSMALIGQLYYQRGECLRKLEYEEAEIEDAYKKAS  264 (293)
T ss_dssp             HHHHHHHTTBCTTHHHHHHHHHHHHHHTTCCHHHHHHHHHHHH
T ss_pred             HHHHHHHcCcHHHHHHHHHHHHHHHHHhCCcHHHHHHHHHHHH
Confidence            8766555554444 5678888889999994 699998888764

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=98.38  E-value=8.7e-06  Score=78.19  Aligned_cols=163  Identities=10%  Similarity=-0.045  Sum_probs=98.5

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHH-HHH
Q 048743          345 RAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTYKS-LLT  423 (653)
Q Consensus       345 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~-li~  423 (653)
                      ..+..+-..+.+.|++++|...|++..+..  |.+...+..+...+.+.|++++|...+++....  .|+...... ...
T Consensus       118 ~~~~~~a~~~~~~g~~~~A~~~~~~al~~~--P~~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~--~p~~~~~~~~~~~  193 (287)
T 3qou_A          118 ELXAQQAMQLMQESNYTDALPLLXDAWQLS--NQNGEIGLLLAETLIALNRSEDAEAVLXTIPLQ--DQDTRYQGLVAQI  193 (287)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHT--TSCHHHHHHHHHHHHHTTCHHHHHHHHTTSCGG--GCSHHHHHHHHHH
T ss_pred             hhHHHHHHHHHhCCCHHHHHHHHHHHHHhC--CcchhHHHHHHHHHHHCCCHHHHHHHHHhCchh--hcchHHHHHHHHH
Confidence            344555556666666666666666666655  555555666666666666666666666665443  233332221 112


Q ss_pred             HHHHcCChHHHHHHHHHHHHcCCccCchhhHHHHhhHHHHhhhcccccccccccCCHHHHHHHHHHHHHccCCCCHHHHH
Q 048743          424 AYYKVKMFREAEALLKQMRKSCLVQNLSCEMVVSERFSEVADKSASFTDTSSLMDKSDLAESLIQEMREEAALSTIYKLN  503 (653)
Q Consensus       424 ~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~y~  503 (653)
                      .+...++.++|...|++..+.  .|+                                                +...+.
T Consensus       194 ~l~~~~~~~~a~~~l~~al~~--~P~------------------------------------------------~~~~~~  223 (287)
T 3qou_A          194 ELLXQAADTPEIQQLQQQVAE--NPE------------------------------------------------DAALAT  223 (287)
T ss_dssp             HHHHHHTSCHHHHHHHHHHHH--CTT------------------------------------------------CHHHHH
T ss_pred             HHHhhcccCccHHHHHHHHhc--CCc------------------------------------------------cHHHHH
Confidence            244445555555555554442  232                                                556677


Q ss_pred             HHHHHHHcCCCHHHHHHHHHHHHhcCCCC-CHHHHHHHHHHHhccCCHHHHHHHHHHHH
Q 048743          504 SSIYFFCKGKMIGDALKIYRRMQEMKIRP-TVETFYYLVYGHSSLEMYRDITILWGDIK  561 (653)
Q Consensus       504 ~li~~~~~~g~~~~a~~~~~~m~~~g~~p-~~~t~~~li~~~~~~~~~~~a~~~~~~~~  561 (653)
                      .+...|...|++++|++.|.+..+..... +...+..+...+...|+.++|...++...
T Consensus       224 ~la~~l~~~g~~~~A~~~l~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~a~~~~r~al  282 (287)
T 3qou_A          224 QLALQLHQVGRNEEALELLFGHLRXDLTAADGQTRXTFQEILAALGTGDALASXYRRQL  282 (287)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCTTGGGGHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHcccHHHHHHHHHHHHhcccccccchHHHHHHHHHHHcCCCCcHHHHHHHHH
Confidence            77777888888888888888877753221 24567777778888888877777776543

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=98.36  E-value=1.4e-05  Score=76.81  Aligned_cols=166  Identities=11%  Similarity=-0.034  Sum_probs=129.7

Q ss_pred             cHHHHHHHHHHHHhcCChhhhHHHHHHhhhcCCCcccchhHHHHHHHHhhhccCCHHHHHHHHHHhcccCCCCCCchhhh
Q 048743          211 DAHSIIILAQIHEMNCQRDELKKFKCYIDQLSTPFAHHYQQFYESLLSLHFKFDDIDAAGELILDMNRYREPLPNPKLRQ  290 (653)
Q Consensus       211 ~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~  290 (653)
                      +...+..+...+...|++++|...++......+...    ..+..|...|.+.|++++|...+++...            
T Consensus       116 ~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~P~~~----~a~~~la~~~~~~g~~~~A~~~l~~~~~------------  179 (287)
T 3qou_A          116 EEELXAQQAMQLMQESNYTDALPLLXDAWQLSNQNG----EIGLLLAETLIALNRSEDAEAVLXTIPL------------  179 (287)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTSCH----HHHHHHHHHHHHTTCHHHHHHHHTTSCG------------
T ss_pred             chhhHHHHHHHHHhCCCHHHHHHHHHHHHHhCCcch----hHHHHHHHHHHHCCCHHHHHHHHHhCch------------
Confidence            334466777778889999999999988877654332    3688889999999999999999988832            


Q ss_pred             cccccchhccCCCcccchhhhccchhhhHHHHHHhhhhhHHHHHHhcCCCCCCHHHH-HHHHHHHHhcCChHHHHHHHHH
Q 048743          291 DAQKPYLISIGSPNLRCGLKLQIMPELLEKDSILKMEGKQELVLFRNGKLLHSNRAM-AKLINGYKKHGKNSELSWLLLS  369 (653)
Q Consensus       291 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~-~~li~~~~~~~~~~~a~~~~~~  369 (653)
                                                                       ..|+.... ......+.+.++.+.|...+++
T Consensus       180 -------------------------------------------------~~p~~~~~~~~~~~~l~~~~~~~~a~~~l~~  210 (287)
T 3qou_A          180 -------------------------------------------------QDQDTRYQGLVAQIELLXQAADTPEIQQLQQ  210 (287)
T ss_dssp             -------------------------------------------------GGCSHHHHHHHHHHHHHHHHTSCHHHHHHHH
T ss_pred             -------------------------------------------------hhcchHHHHHHHHHHHHhhcccCccHHHHHH
Confidence                                                             23444322 2333346677888889999999


Q ss_pred             HHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCC-CCHHHHHHHHHHHHHcCChHHHHHHHHHHHH
Q 048743          370 IKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHP-MDSTTYKSLLTAYYKVKMFREAEALLKQMRK  443 (653)
Q Consensus       370 m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~-p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  443 (653)
                      .....  |.+...+..+...+...|++++|...|.+..+.... .+...+..+...+...|+.++|...|++-..
T Consensus       211 al~~~--P~~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~a~~~~r~al~  283 (287)
T 3qou_A          211 QVAEN--PEDAALATQLALQLHQVGRNEEALELLFGHLRXDLTAADGQTRXTFQEILAALGTGDALASXYRRQLY  283 (287)
T ss_dssp             HHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTGGGGHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHhcC--CccHHHHHHHHHHHHHcccHHHHHHHHHHHHhcccccccchHHHHHHHHHHHcCCCCcHHHHHHHHHH
Confidence            98888  888888999999999999999999999999876422 1267889999999999999999888876543

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=98.32  E-value=5e-05  Score=69.82  Aligned_cols=91  Identities=11%  Similarity=0.032  Sum_probs=69.9

Q ss_pred             HHHhcCChHHHHHHHHHHHhcCCCCCCcccHH-----------------HHHHHHHHcCCHHHHHHHHHHHHHCCCCC--
Q 048743          353 GYKKHGKNSELSWLLLSIKKEHHSFGESTLCS-----------------DVIDALIQLGFLEAAHDILDDMELAGHPM--  413 (653)
Q Consensus       353 ~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~-----------------~li~~~~~~g~~~~a~~~~~~m~~~g~~p--  413 (653)
                      .+...|++++|...|+++.+..  |.+...+.                 .+...|.+.|++++|...|+++.+.-...  
T Consensus       105 ~~~~~~~~~~A~~~~~~~l~~~--P~~~~a~~a~~~l~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~p~~~~  182 (225)
T 2yhc_A          105 SDRDPQQARAAFSDFSKLVRGY--PNSQYTTDATKRLVFLKDRLAKYEYSVAEYYTERGAWVAVVNRVEGMLRDYPDTQA  182 (225)
T ss_dssp             ---CCHHHHHHHHHHHHHHTTC--TTCTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTSHH
T ss_pred             hhcCcHHHHHHHHHHHHHHHHC--cCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHCcCCCc
Confidence            3445788999999999999876  55554442                 34567888999999999999998753211  


Q ss_pred             CHHHHHHHHHHHHHcCChHHHHHHHHHHHHcC
Q 048743          414 DSTTYKSLLTAYYKVKMFREAEALLKQMRKSC  445 (653)
Q Consensus       414 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~  445 (653)
                      ....+..+..+|.+.|++++|.+.++.+...+
T Consensus       183 ~~~a~~~l~~~~~~~g~~~~A~~~~~~l~~~~  214 (225)
T 2yhc_A          183 TRDALPLMENAYRQMQMNAQAEKVAKIIAANS  214 (225)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCC
T ss_pred             cHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhC
Confidence            12568889999999999999999999888753

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=98.31  E-value=8.2e-05  Score=71.58  Aligned_cols=174  Identities=9%  Similarity=-0.057  Sum_probs=111.9

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCH-----HHHHHHHHHHHHcCChHHHHHHHHHHHHcCCccCchhhHHHH
Q 048743          383 CSDVIDALIQLGFLEAAHDILDDMELAGHPMDS-----TTYKSLLTAYYKVKMFREAEALLKQMRKSCLVQNLSCEMVVS  457 (653)
Q Consensus       383 ~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~-----~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~~~  457 (653)
                      +...+..+...|++++|.+.+.+..+.....+.     ..+..+...+...|++++|...+++..+..........    
T Consensus        78 l~~~~~~~~~~~~y~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~----  153 (293)
T 2qfc_A           78 FKDQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQ----  153 (293)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHTTCCCSSCTTH----
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHhccccCChhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCchHH----
Confidence            445566667777777777777766554221110     12223334445556666666666665542111100000    


Q ss_pred             hhHHHHhhhcccccccccccCCHHHHHHHHHHHHHccCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhc-CCCCC---
Q 048743          458 ERFSEVADKSASFTDTSSLMDKSDLAESLIQEMREEAALSTIYKLNSSIYFFCKGKMIGDALKIYRRMQEM-KIRPT---  533 (653)
Q Consensus       458 ~~l~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~-g~~p~---  533 (653)
                                                              ...+|+.+...|...|++++|+..|++..+. ...|+   
T Consensus       154 ----------------------------------------~~~~~~~lg~~y~~~~~~~~A~~~~~kal~~~~~~~~~~~  193 (293)
T 2qfc_A          154 ----------------------------------------NLYIENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEE  193 (293)
T ss_dssp             ----------------------------------------HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHH
T ss_pred             ----------------------------------------HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcCcccc
Confidence                                                    1347888889999999999999999988731 11222   


Q ss_pred             --HHHHHHHHHHHhccCCHHHHHHHHHHHHHHhhhCCCccC-HHHHHHHHHHHHhCCCHHHH-HHHHHHHH
Q 048743          534 --VETFYYLVYGHSSLEMYRDITILWGDIKRNIESGVLAVS-RDLYETLLLNFLQGGYFERV-MEVIGYMK  600 (653)
Q Consensus       534 --~~t~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~p~-~~~y~~li~~~~~~g~~~~a-~~~~~~m~  600 (653)
                        ..+|..+...|...|++++|..+++...+.....+.... ..+|..+...|.+.|++++| ...+++..
T Consensus       194 ~~~~~~~nlg~~y~~~~~y~~Al~~~~kal~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~Ai~~~~~~Al  264 (293)
T 2qfc_A          194 FDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQLYYQRGECLRKLEYEEAEIEDAYKKAS  264 (293)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCSSHHHHHHHHHHHHHHTTCCHHHHHHHHHHHH
T ss_pred             chHHHHHhHHHHHHHHhhHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHH
Confidence              257888888999999999999999988755443333322 56788888899999999999 77676654

>2pzi_A Probable serine/threonine-protein kinase PKNG; ATP-recognition, kinase-INH complex, rubredoxin fold, TPR domain, transferase; HET: AXX; 2.40A {Mycobacterium tuberculosis}

Probab=98.28  E-value=8.3e-06  Score=88.70  Aligned_cols=155  Identities=9%  Similarity=-0.072  Sum_probs=118.4

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 048743          343 SNRAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTYKSLL  422 (653)
Q Consensus       343 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li  422 (653)
                      +...+..+..++.+.|++++|...|++..+..  |.+...|..+-.+|.+.|++++|...|++..+... -+...|..+-
T Consensus       432 ~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~--p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P-~~~~~~~~lg  508 (681)
T 2pzi_A          432 SVELPLMEVRALLDLGDVAKATRKLDDLAERV--GWRWRLVWYRAVAELLTGDYDSATKHFTEVLDTFP-GELAPKLALA  508 (681)
T ss_dssp             CSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH--CCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHST-TCSHHHHHHH
T ss_pred             chhHHHHHHHHHHhcCCHHHHHHHHHHHhccC--cchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CChHHHHHHH
Confidence            44578888899999999999999999999987  88888899999999999999999999999987542 3677889999


Q ss_pred             HHHHHcCChHHHHHHHHHHHHcCCccCchhhHHHHhhHHHHhhhcccccccccccCCHHHHHHHHHHHHHccCCC-CHHH
Q 048743          423 TAYYKVKMFREAEALLKQMRKSCLVQNLSCEMVVSERFSEVADKSASFTDTSSLMDKSDLAESLIQEMREEAALS-TIYK  501 (653)
Q Consensus       423 ~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~~  501 (653)
                      .+|.+.|++++ ...|++..+.  .|+.........             ..|...|+.++|...|++..+.+  | +...
T Consensus       509 ~~~~~~g~~~~-~~~~~~al~~--~P~~~~a~~~lg-------------~~~~~~g~~~~A~~~~~~al~l~--P~~~~a  570 (681)
T 2pzi_A          509 ATAELAGNTDE-HKFYQTVWST--NDGVISAAFGLA-------------RARSAEGDRVGAVRTLDEVPPTS--RHFTTA  570 (681)
T ss_dssp             HHHHHHTCCCT-TCHHHHHHHH--CTTCHHHHHHHH-------------HHHHHTTCHHHHHHHHHTSCTTS--TTHHHH
T ss_pred             HHHHHcCChHH-HHHHHHHHHh--CCchHHHHHHHH-------------HHHHHcCCHHHHHHHHHhhcccC--cccHHH
Confidence            99999999999 9999999874  465422111110             12345899999999999988754  6 4567


Q ss_pred             HHHHHHHHHcCCCHHHH
Q 048743          502 LNSSIYFFCKGKMIGDA  518 (653)
Q Consensus       502 y~~li~~~~~~g~~~~a  518 (653)
                      |..+..++...++.+++
T Consensus       571 ~~~~~~~~~~~~~~~~~  587 (681)
T 2pzi_A          571 RLTSAVTLLSGRSTSEV  587 (681)
T ss_dssp             HHHHHHHTC-------C
T ss_pred             HHHHHHHHHccCCCCCC
Confidence            77777777766664443

>2vsy_A XCC0866; transferase, glycosyl transferase, GT-B, OGT, protein O-GLCN; HET: NHE; 2.10A {Xanthomonas campestris PV} PDB: 2jlb_A* 2xgm_A* 2xgo_A* 2xgs_A* 2vsn_A*

Probab=98.27  E-value=2.3e-05  Score=83.55  Aligned_cols=153  Identities=10%  Similarity=-0.014  Sum_probs=104.7

Q ss_pred             cCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHH
Q 048743          357 HGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTYKSLLTAYYKVKMFREAEA  436 (653)
Q Consensus       357 ~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~a~~  436 (653)
                      .|++++|...|++..+..  +.+...|..+...|.+.|++++|...|++..+.. +-+...|..+..+|...|++++|..
T Consensus         2 ~g~~~~A~~~~~~al~~~--p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~   78 (568)
T 2vsy_A            2 TADGPRELLQLRAAVRHR--PQDFVAWLMLADAELGMGDTTAGEMAVQRGLALH-PGHPEAVARLGRVRWTQQRHAEAAV   78 (568)
T ss_dssp             ---------------------CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTS-TTCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             CccHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHH
Confidence            478889999999888776  6777778999999999999999999999988753 2367788889999999999999999


Q ss_pred             HHHHHHHcCCccCchhhHHHHhhHHHHhhhcccccccccccCCHHHHHHHHHHHHHccCCC-CHHHHHHHHHHHHcC---
Q 048743          437 LLKQMRKSCLVQNLSCEMVVSERFSEVADKSASFTDTSSLMDKSDLAESLIQEMREEAALS-TIYKLNSSIYFFCKG---  512 (653)
Q Consensus       437 ~~~~m~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~~y~~li~~~~~~---  512 (653)
                      .|++..+.  .|+........             ...|...|+.++|...|++..+..  | +...+..+...+...   
T Consensus        79 ~~~~al~~--~p~~~~~~~~l-------------a~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~l~~~~~~~~~~  141 (568)
T 2vsy_A           79 LLQQASDA--APEHPGIALWL-------------GHALEDAGQAEAAAAAYTRAHQLL--PEEPYITAQLLNWRRRLCDW  141 (568)
T ss_dssp             HHHHHHHH--CTTCHHHHHHH-------------HHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCC
T ss_pred             HHHHHHhc--CCCCHHHHHHH-------------HHHHHHcCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHhhcc
Confidence            99998874  45542111110             012345789999999998888764  4 677888899999999   


Q ss_pred             CCHHHHHHHHHHHHhcC
Q 048743          513 KMIGDALKIYRRMQEMK  529 (653)
Q Consensus       513 g~~~~a~~~~~~m~~~g  529 (653)
                      |+.++|.+.+++..+.+
T Consensus       142 g~~~~A~~~~~~al~~~  158 (568)
T 2vsy_A          142 RALDVLSAQVRAAVAQG  158 (568)
T ss_dssp             TTHHHHHHHHHHHHHHT
T ss_pred             ccHHHHHHHHHHHHhcC
Confidence            99999999999988764

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=98.27  E-value=0.00052  Score=65.67  Aligned_cols=227  Identities=12%  Similarity=0.024  Sum_probs=166.7

Q ss_pred             HHHhcCC-hHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcC--CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH----
Q 048743          353 GYKKHGK-NSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLG--FLEAAHDILDDMELAGHPMDSTTYKSLLTAY----  425 (653)
Q Consensus       353 ~~~~~~~-~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g--~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~----  425 (653)
                      +..+.|. .++|+.+++.+...+  |.+.++|+.--..+...|  ++++++..++.+...+. -+..+|+.--..+    
T Consensus        41 a~~~~~e~s~~aL~~t~~~L~~n--P~~~taWn~R~~~L~~l~~~~~~eeL~~~~~~L~~nP-k~y~aW~~R~~iL~~~~  117 (306)
T 3dra_A           41 ALMKAEEYSERALHITELGINEL--ASHYTIWIYRFNILKNLPNRNLYDELDWCEEIALDNE-KNYQIWNYRQLIIGQIM  117 (306)
T ss_dssp             HHHHTTCCSHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHTCTTSCHHHHHHHHHHHHHHCT-TCCHHHHHHHHHHHHHH
T ss_pred             HHHHcCCCCHHHHHHHHHHHHHC--cHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHCc-ccHHHHHHHHHHHHHHH
Confidence            3344444 578999999999988  888888999888888888  99999999999988643 3566676655555    


Q ss_pred             HHc---CChHHHHHHHHHHHHcCCccCchhhHHHHhhHHHHhhhcccccccccccCCHH--HHHHHHHHHHHccCCCCHH
Q 048743          426 YKV---KMFREAEALLKQMRKSCLVQNLSCEMVVSERFSEVADKSASFTDTSSLMDKSD--LAESLIQEMREEAALSTIY  500 (653)
Q Consensus       426 ~~~---~~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~--~a~~~~~~m~~~~~~p~~~  500 (653)
                      .+.   +++++++.+++.+.+.  .|..+..-.....+..             +.|..+  ++.+.++++.+.+. -|..
T Consensus       118 ~~l~~~~~~~~EL~~~~~~l~~--~pkny~aW~~R~~vl~-------------~l~~~~~~~EL~~~~~~i~~d~-~N~s  181 (306)
T 3dra_A          118 ELNNNDFDPYREFDILEAMLSS--DPKNHHVWSYRKWLVD-------------TFDLHNDAKELSFVDKVIDTDL-KNNS  181 (306)
T ss_dssp             HHTTTCCCTHHHHHHHHHHHHH--CTTCHHHHHHHHHHHH-------------HTTCTTCHHHHHHHHHHHHHCT-TCHH
T ss_pred             HhccccCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHH-------------HhcccChHHHHHHHHHHHHhCC-CCHH
Confidence            555   7899999999999874  4554222111111111             245566  89999999998763 2788


Q ss_pred             HHHHHHHHHHcCCC------HHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCCHHH-HHHHHHHHHHHhhhCCCccCH
Q 048743          501 KLNSSIYFFCKGKM------IGDALKIYRRMQEMKIRPTVETFYYLVYGHSSLEMYRD-ITILWGDIKRNIESGVLAVSR  573 (653)
Q Consensus       501 ~y~~li~~~~~~g~------~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~-a~~~~~~~~~~~~~~~~~p~~  573 (653)
                      .|+.--..+.+.|.      ++++++.+++++..... |...|+.+-..+.+.|+... +..+...+... .. .-..+.
T Consensus       182 AW~~R~~ll~~l~~~~~~~~~~eEl~~~~~aI~~~p~-n~SaW~y~~~ll~~~~~~~~~~~~~~~~~~~~-~~-~~~~s~  258 (306)
T 3dra_A          182 AWSHRFFLLFSKKHLATDNTIDEELNYVKDKIVKCPQ-NPSTWNYLLGIHERFDRSITQLEEFSLQFVDL-EK-DQVTSS  258 (306)
T ss_dssp             HHHHHHHHHHSSGGGCCHHHHHHHHHHHHHHHHHCSS-CHHHHHHHHHHHHHTTCCGGGGHHHHHTTEEG-GG-TEESCH
T ss_pred             HHHHHHHHHHhccccchhhhHHHHHHHHHHHHHhCCC-CccHHHHHHHHHHhcCCChHHHHHHHHHHHhc-cC-CCCCCH
Confidence            88887777777776      89999999999986433 77788888888888887444 44555444311 00 124477


Q ss_pred             HHHHHHHHHHHhCCCHHHHHHHHHHHHh
Q 048743          574 DLYETLLLNFLQGGYFERVMEVIGYMKK  601 (653)
Q Consensus       574 ~~y~~li~~~~~~g~~~~a~~~~~~m~~  601 (653)
                      ..+..+.+.|.+.|+.++|.++++.+.+
T Consensus       259 ~al~~la~~~~~~~~~~~A~~~~~~l~~  286 (306)
T 3dra_A          259 FALETLAKIYTQQKKYNESRTVYDLLKS  286 (306)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCCHHHHHHHHHHHHh
Confidence            8899999999999999999999999975

>1hh8_A P67PHOX, NCF-2, neutrophil cytosol factor 2; cell cycle, phagocyte oxidase factor, SH3 domain, repeat, TPR repeat cell cycle; HET: FLC; 1.8A {Homo sapiens} SCOP: a.118.8.1 PDB: 1wm5_A 1e96_B*

Probab=98.27  E-value=3.1e-05  Score=70.41  Aligned_cols=130  Identities=11%  Similarity=-0.072  Sum_probs=110.8

Q ss_pred             HHHHHHhhhccCCHHHHHHHHHHhcccCCCCCCchhhhcccccchhccCCCcccchhhhccchhhhHHHHHHhhhhhHHH
Q 048743          253 YESLLSLHFKFDDIDAAGELILDMNRYREPLPNPKLRQDAQKPYLISIGSPNLRCGLKLQIMPELLEKDSILKMEGKQEL  332 (653)
Q Consensus       253 ~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  332 (653)
                      +..+...+...|++++|...|++.                                                        
T Consensus         9 ~~~~g~~~~~~~~~~~A~~~~~~a--------------------------------------------------------   32 (213)
T 1hh8_A            9 LWNEGVLAADKKDWKGALDAFSAV--------------------------------------------------------   32 (213)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHTS--------------------------------------------------------
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHH--------------------------------------------------------
Confidence            556677788899999999999887                                                        


Q ss_pred             HHHhcCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCC
Q 048743          333 VLFRNGKLLHSNRAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHP  412 (653)
Q Consensus       333 ~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~  412 (653)
                             +.|+...|..+...+.+.|++++|...|++.....  +.+...|..+...|...|++++|...|++..+....
T Consensus        33 -------~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~~~  103 (213)
T 1hh8_A           33 -------QDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD--KHLAVAYFQRGMLYYQTEKYDLAIKDLKEALIQLRG  103 (213)
T ss_dssp             -------SSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTTT
T ss_pred             -------cCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--ccchHHHHHHHHHHHHcccHHHHHHHHHHHHHhCCC
Confidence                   34677789999999999999999999999998887  777788999999999999999999999999875321


Q ss_pred             --------------C-CHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCccC
Q 048743          413 --------------M-DSTTYKSLLTAYYKVKMFREAEALLKQMRKSCLVQN  449 (653)
Q Consensus       413 --------------p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~  449 (653)
                                    | ....+..+..+|.+.|++++|...|+...+.  .|+
T Consensus       104 ~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~--~p~  153 (213)
T 1hh8_A          104 NQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSM--KSE  153 (213)
T ss_dssp             CSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT--CCS
T ss_pred             ccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHHc--Ccc
Confidence                          1 2267888999999999999999999999874  454

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=98.26  E-value=3.2e-05  Score=70.09  Aligned_cols=128  Identities=11%  Similarity=0.026  Sum_probs=85.0

Q ss_pred             cccCCHHHHHHHHHHHHHccCCC-CHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCC-CHHHHHHHHHHHhccCCH--
Q 048743          475 SLMDKSDLAESLIQEMREEAALS-TIYKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRP-TVETFYYLVYGHSSLEMY--  550 (653)
Q Consensus       475 ~~~~~~~~a~~~~~~m~~~~~~p-~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p-~~~t~~~li~~~~~~~~~--  550 (653)
                      ...|++++|...|++..+..  | +...|..+...|...|++++|++.|++..+.  .| +..++..+...+...|..  
T Consensus        65 ~~~g~~~~A~~~~~~al~~~--p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~P~~~~a~~~lg~~~~~~~~~~~  140 (208)
T 3urz_A           65 KKNRNYDKAYLFYKELLQKA--PNNVDCLEACAEMQVCRGQEKDALRMYEKILQL--EADNLAANIFLGNYYYLTAEQEK  140 (208)
T ss_dssp             HHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc--CCCCHHHHHHHHHHHHHHhHHHH
Confidence            34677777777777776654  5 6778888999999999999999999998885  34 466777777777655533  


Q ss_pred             HHHHHHHHHHHHHhhhCCCccCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCCHHhHHHH
Q 048743          551 RDITILWGDIKRNIESGVLAVSRDLYETLLLNFLQGGYFERVMEVIGYMKKQNMYVDKLMYKSE  614 (653)
Q Consensus       551 ~~a~~~~~~~~~~~~~~~~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~l  614 (653)
                      ..+...+..+.      ...|....+...-.++...|++++|...|++..  .+.|+......+
T Consensus       141 ~~~~~~~~~~~------~~~~~~~a~~~~g~~~~~~~~~~~A~~~~~~al--~l~P~~~~~~~l  196 (208)
T 3urz_A          141 KKLETDYKKLS------SPTKMQYARYRDGLSKLFTTRYEKARNSLQKVI--LRFPSTEAQKTL  196 (208)
T ss_dssp             HHHHHHHC---------CCCHHHHHHHHHHHHHHHHHTHHHHHHHHHHHT--TTSCCHHHHHHH
T ss_pred             HHHHHHHHHHh------CCCchhHHHHHHHHHHHHccCHHHHHHHHHHHH--HhCCCHHHHHHH
Confidence            33444443321      222222233334455667899999999999888  456876554443

>4ga2_A E3 SUMO-protein ligase ranbp2; TPR motif, nuclear pore complex component nucleocytoplasmic transport, transport protein; 0.95A {Pan troglodytes} PDB: 4ga0_A 4ga1_A*

Probab=98.25  E-value=1.3e-05  Score=68.32  Aligned_cols=100  Identities=5%  Similarity=-0.140  Sum_probs=80.3

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 048743          346 AMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTYKSLLTAY  425 (653)
Q Consensus       346 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~  425 (653)
                      .+..+-..|.+.|++++|++.|++..+..  |.+..+|..+...|.+.|++++|...|++..+... -+..+|..+...|
T Consensus        33 ~~~~la~~y~~~~~~~~A~~~~~~al~~~--p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~la~~~  109 (150)
T 4ga2_A           33 KGFYFAKLYYEAKEYDLAKKYICTYINVQ--ERDPKAHRFLGLLYELEENTDKAVECYRRSVELNP-TQKDLVLKIAELL  109 (150)
T ss_dssp             THHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHcCchHHHHHHHHHHHHhCC-CCHHHHHHHHHHH
Confidence            45567788889999999999999998887  78888899999999999999999999999887532 2677888888899


Q ss_pred             HHcCChHHHHHH-HHHHHHcCCccCc
Q 048743          426 YKVKMFREAEAL-LKQMRKSCLVQNL  450 (653)
Q Consensus       426 ~~~~~~~~a~~~-~~~m~~~~~~p~~  450 (653)
                      .+.|++++|... ++...+  +.|+.
T Consensus       110 ~~~~~~~~aa~~~~~~al~--l~P~~  133 (150)
T 4ga2_A          110 CKNDVTDGRAKYWVERAAK--LFPGS  133 (150)
T ss_dssp             HHHCSSSSHHHHHHHHHHH--HSTTC
T ss_pred             HHcCChHHHHHHHHHHHHH--hCcCC
Confidence            999988776554 576665  34653

>4ga2_A E3 SUMO-protein ligase ranbp2; TPR motif, nuclear pore complex component nucleocytoplasmic transport, transport protein; 0.95A {Pan troglodytes} PDB: 4ga0_A 4ga1_A*

Probab=98.24  E-value=6.5e-06  Score=70.26  Aligned_cols=87  Identities=7%  Similarity=-0.118  Sum_probs=57.9

Q ss_pred             HHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHH
Q 048743          354 YKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTYKSLLTAYYKVKMFRE  433 (653)
Q Consensus       354 ~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~  433 (653)
                      +...|++++|+..++......  |.+...+-.+-..|.+.|++++|.+.|++..+.. +-+..+|..+-.+|.+.|++++
T Consensus         7 ~~~~~~~e~ai~~~~~a~~~~--p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~~~~~~   83 (150)
T 4ga2_A            7 RRSKADVERYIASVQGSTPSP--RQKSIKGFYFAKLYYEAKEYDLAKKYICTYINVQ-ERDPKAHRFLGLLYELEENTDK   83 (150)
T ss_dssp             CCCHHHHHHHHHHHHHHSCSH--HHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHcChHHHHHHHHHHhcccC--cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCchHH
Confidence            344566777777777665544  4444456667777777777777777777776643 2256677777777777777777


Q ss_pred             HHHHHHHHHH
Q 048743          434 AEALLKQMRK  443 (653)
Q Consensus       434 a~~~~~~m~~  443 (653)
                      |...|+...+
T Consensus        84 A~~~~~~al~   93 (150)
T 4ga2_A           84 AVECYRRSVE   93 (150)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            7777777665

>3rjv_A Putative SEL1 repeat protein; alpha-alpha superhelix, structural genomics, joint center FO structural genomics, JCSG; HET: MSE; 1.65A {Klebsiella pneumoniae subsp}

Probab=98.23  E-value=8.1e-05  Score=67.64  Aligned_cols=177  Identities=10%  Similarity=-0.008  Sum_probs=106.4

Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCccCchhhHHHHhhHHHHhhhcccccccccc--
Q 048743          399 AHDILDDMELAGHPMDSTTYKSLLTAYYKVKMFREAEALLKQMRKSCLVQNLSCEMVVSERFSEVADKSASFTDTSSL--  476 (653)
Q Consensus       399 a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~~~~~--  476 (653)
                      |.+.|++..+.|   ++..+..|-..|...+++++|...|++..+.|. |...+.+-.                .|..  
T Consensus         5 A~~~~~~aa~~g---~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~g~-~~a~~~lg~----------------~y~~~g   64 (212)
T 3rjv_A            5 PGSQYQQQAEAG---DRRAQYYLADTWVSSGDYQKAEYWAQKAAAQGD-GDALALLAQ----------------LKIRNP   64 (212)
T ss_dssp             TTHHHHHHHHTT---CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTC-HHHHHHHHH----------------HTTSST
T ss_pred             HHHHHHHHHHCC---CHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcCC-HHHHHHHHH----------------HHHcCC
Confidence            455555555543   555566666666666666666666666655442 111111100                0112  


Q ss_pred             -cCCHHHHHHHHHHHHHccCCCCHHHHHHHHHHHHc----CCCHHHHHHHHHHHHhcCCC-CCHHHHHHHHHHHhc----
Q 048743          477 -MDKSDLAESLIQEMREEAALSTIYKLNSSIYFFCK----GKMIGDALKIYRRMQEMKIR-PTVETFYYLVYGHSS----  546 (653)
Q Consensus       477 -~~~~~~a~~~~~~m~~~~~~p~~~~y~~li~~~~~----~g~~~~a~~~~~~m~~~g~~-p~~~t~~~li~~~~~----  546 (653)
                       ..+.++|...|++..+.|   +...+..|-..|..    .+++++|+++|++..+.|.. -+...+..|-..|..    
T Consensus        65 ~~~~~~~A~~~~~~A~~~g---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~~~~a~~~Lg~~y~~g~g~  141 (212)
T 3rjv_A           65 QQADYPQARQLAEKAVEAG---SKSGEIVLARVLVNRQAGATDVAHAITLLQDAARDSESDAAVDAQMLLGLIYASGVHG  141 (212)
T ss_dssp             TSCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHTSSTTSHHHHHHHHHHHHHHHHTSSS
T ss_pred             CCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHcCCCC
Confidence             116677777777666654   45566666666666    77888888888887765432 015566666667766    


Q ss_pred             cCCHHHHHHHHHHHHHHhhhCCCccCHHHHHHHHHHHHhC-C-----CHHHHHHHHHHHHhCCC
Q 048743          547 LEMYRDITILWGDIKRNIESGVLAVSRDLYETLLLNFLQG-G-----YFERVMEVIGYMKKQNM  604 (653)
Q Consensus       547 ~~~~~~a~~~~~~~~~~~~~~~~~p~~~~y~~li~~~~~~-g-----~~~~a~~~~~~m~~~g~  604 (653)
                      .+++++|..+|+...+      ...+...+..|-..|... |     +.++|...|+...+.|.
T Consensus       142 ~~d~~~A~~~~~~A~~------~~~~~~a~~~Lg~~y~~g~gg~~~~d~~~A~~~~~~A~~~g~  199 (212)
T 3rjv_A          142 PEDDVKASEYFKGSSS------LSRTGYAEYWAGMMFQQGEKGFIEPNKQKALHWLNVSCLEGF  199 (212)
T ss_dssp             SCCHHHHHHHHHHHHH------TSCTTHHHHHHHHHHHHCBTTTBCCCHHHHHHHHHHHHHHTC
T ss_pred             CCCHHHHHHHHHHHHH------cCCCHHHHHHHHHHHHcCCCCCCCCCHHHHHHHHHHHHHcCC
Confidence            6788888888876641      122344556666666543 3     78888888888877774

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=98.21  E-value=0.00011  Score=70.62  Aligned_cols=189  Identities=8%  Similarity=-0.066  Sum_probs=129.8

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCc------ccHHHHHHHHHHcCCHHHHHHHHHHHHHCC---CCCC--
Q 048743          346 AMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGES------TLCSDVIDALIQLGFLEAAHDILDDMELAG---HPMD--  414 (653)
Q Consensus       346 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~------~~~~~li~~~~~~g~~~~a~~~~~~m~~~g---~~p~--  414 (653)
                      .+...+..+...|++++|.+.+.+.....  +...      ..+..+...+...|++++|...+.+..+..   ..+.  
T Consensus        77 ~l~~~~~~~~~~~~y~~A~~~~~~~l~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~  154 (293)
T 2qfc_A           77 QFKDQVIMLCKQKRYKEIYNKVWNELKKE--EYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQN  154 (293)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTC--CCCHHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHTTCCCSSCTTHH
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHhccc--cCChhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCchHHH
Confidence            45567888899999999999999877655  2221      113445566777899999999999987532   1222  


Q ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHHc-CCccCchhhHHHHhhHHHHhhhcccccccccccCCHHHHHHHHHHHHHc
Q 048743          415 STTYKSLLTAYYKVKMFREAEALLKQMRKS-CLVQNLSCEMVVSERFSEVADKSASFTDTSSLMDKSDLAESLIQEMREE  493 (653)
Q Consensus       415 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-~~~p~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~  493 (653)
                      ..+|+.+...|...|++++|...|++..+. ...|+...                                         
T Consensus       155 ~~~~~~lg~~y~~~~~~~~A~~~~~kal~~~~~~~~~~~-----------------------------------------  193 (293)
T 2qfc_A          155 LYIENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEE-----------------------------------------  193 (293)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHH-----------------------------------------
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcCcccc-----------------------------------------
Confidence            458889999999999999999999988742 11222100                                         


Q ss_pred             cCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhc----CCCCC-HHHHHHHHHHHhccCCHHHH-HHHHHHHHHHhhhC
Q 048743          494 AALSTIYKLNSSIYFFCKGKMIGDALKIYRRMQEM----KIRPT-VETFYYLVYGHSSLEMYRDI-TILWGDIKRNIESG  567 (653)
Q Consensus       494 ~~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~----g~~p~-~~t~~~li~~~~~~~~~~~a-~~~~~~~~~~~~~~  567 (653)
                         ....+|+.+...|...|++++|++.+++..+.    +..+. ..+|..+...+.+.|+.++| ...++......+..
T Consensus       194 ---~~~~~~~nlg~~y~~~~~y~~Al~~~~kal~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~Ai~~~~~~Al~~~~~~  270 (293)
T 2qfc_A          194 ---FDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQLYYQRGECLRKLEYEEAEIEDAYKKASFFFDIL  270 (293)
T ss_dssp             ---HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCSSHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHT
T ss_pred             ---chHHHHHhHHHHHHHHhhHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHHh
Confidence               01246778888888999999999999887652    11111 56778888889999999999 77777765444444


Q ss_pred             CCccCHHHHHHHH
Q 048743          568 VLAVSRDLYETLL  580 (653)
Q Consensus       568 ~~~p~~~~y~~li  580 (653)
                      +-..-...|..+|
T Consensus       271 ~~~~~~~~~~~~~  283 (293)
T 2qfc_A          271 EMHAYKEALVNKI  283 (293)
T ss_dssp             TCHHHHHHHHHHH
T ss_pred             CcHhhHHHHHHHH
Confidence            4333333333333

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=98.19  E-value=0.00038  Score=66.63  Aligned_cols=223  Identities=10%  Similarity=-0.014  Sum_probs=133.6

Q ss_pred             HhcCChhhHHHHHHHHHhcCCCccHHH-HHHHHHHHHhcC--ChhhhHHHHHHhhhcCCCcccchhHHHHHHHHhh----
Q 048743          188 VRFGSSLKGQHIMELMSQTGVVADAHS-IIILAQIHEMNC--QRDELKKFKCYIDQLSTPFAHHYQQFYESLLSLH----  260 (653)
Q Consensus       188 ~~~g~~~~a~~l~~~m~~~g~~p~~~t-~~~ll~~~~~~g--~~~~a~~~~~~~~~~~~~~~~~~~~~~~~li~~~----  260 (653)
                      .+....++|+++++.+...  .|+..| |+.--.++...|  +++++.++++.+....+....    +|+.--..+    
T Consensus        44 ~~~e~s~~aL~~t~~~L~~--nP~~~taWn~R~~~L~~l~~~~~~eeL~~~~~~L~~nPk~y~----aW~~R~~iL~~~~  117 (306)
T 3dra_A           44 KAEEYSERALHITELGINE--LASHYTIWIYRFNILKNLPNRNLYDELDWCEEIALDNEKNYQ----IWNYRQLIIGQIM  117 (306)
T ss_dssp             HTTCCSHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHTCTTSCHHHHHHHHHHHHHHCTTCCH----HHHHHHHHHHHHH
T ss_pred             HcCCCCHHHHHHHHHHHHH--CcHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHCcccHH----HHHHHHHHHHHHH
Confidence            3344457999999999975  688877 676666666667  888888888877765443322    344333333    


Q ss_pred             hcc---CCHHHHHHHHHHhcccCCCCCCchhhhcccccchhccCCCcccchhhhccchhhhHHHHHHhhhhhHHHHHHhc
Q 048743          261 FKF---DDIDAAGELILDMNRYREPLPNPKLRQDAQKPYLISIGSPNLRCGLKLQIMPELLEKDSILKMEGKQELVLFRN  337 (653)
Q Consensus       261 ~~~---g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  337 (653)
                      ...   +++++++.+++++.+                                                           
T Consensus       118 ~~l~~~~~~~~EL~~~~~~l~-----------------------------------------------------------  138 (306)
T 3dra_A          118 ELNNNDFDPYREFDILEAMLS-----------------------------------------------------------  138 (306)
T ss_dssp             HHTTTCCCTHHHHHHHHHHHH-----------------------------------------------------------
T ss_pred             HhccccCCHHHHHHHHHHHHH-----------------------------------------------------------
Confidence            333   566777777766621                                                           


Q ss_pred             CCCCC-CHHHHHHHHHHHHhcCChH--HHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCC------HHHHHHHHHHHHH
Q 048743          338 GKLLH-SNRAMAKLINGYKKHGKNS--ELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGF------LEAAHDILDDMEL  408 (653)
Q Consensus       338 ~~~~p-~~~~~~~li~~~~~~~~~~--~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~------~~~a~~~~~~m~~  408 (653)
                        ..| +..+|+.-.-.+.+.|.++  ++++.++++.+.+  +.|.+.|+.-...+.+.+.      ++++++.++.+..
T Consensus       139 --~~pkny~aW~~R~~vl~~l~~~~~~~EL~~~~~~i~~d--~~N~sAW~~R~~ll~~l~~~~~~~~~~eEl~~~~~aI~  214 (306)
T 3dra_A          139 --SDPKNHHVWSYRKWLVDTFDLHNDAKELSFVDKVIDTD--LKNNSAWSHRFFLLFSKKHLATDNTIDEELNYVKDKIV  214 (306)
T ss_dssp             --HCTTCHHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHSSGGGCCHHHHHHHHHHHHHHHH
T ss_pred             --hCCCCHHHHHHHHHHHHHhcccChHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHhccccchhhhHHHHHHHHHHHHH
Confidence              112 4445655555555566666  7777777777666  6666666655555555554      6666666666655


Q ss_pred             CCCCCCHHHHHHHHHHHHHcCChHH-HHHHHHHHHHcCCccCchhhHHHHhhHHHHhhhcccccccccccCCHHHHHHHH
Q 048743          409 AGHPMDSTTYKSLLTAYYKVKMFRE-AEALLKQMRKSCLVQNLSCEMVVSERFSEVADKSASFTDTSSLMDKSDLAESLI  487 (653)
Q Consensus       409 ~g~~p~~~~~~~li~~~~~~~~~~~-a~~~~~~m~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~a~~~~  487 (653)
                      ... -|...|+.+-..+.+.|+... +..+..++.+.+                                          
T Consensus       215 ~~p-~n~SaW~y~~~ll~~~~~~~~~~~~~~~~~~~~~------------------------------------------  251 (306)
T 3dra_A          215 KCP-QNPSTWNYLLGIHERFDRSITQLEEFSLQFVDLE------------------------------------------  251 (306)
T ss_dssp             HCS-SCHHHHHHHHHHHHHTTCCGGGGHHHHHTTEEGG------------------------------------------
T ss_pred             hCC-CCccHHHHHHHHHHhcCCChHHHHHHHHHHHhcc------------------------------------------
Confidence            432 256666666656655554222 222333222211                                          


Q ss_pred             HHHHHccCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHh
Q 048743          488 QEMREEAALSTIYKLNSSIYFFCKGKMIGDALKIYRRMQE  527 (653)
Q Consensus       488 ~~m~~~~~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~  527 (653)
                          +. -..+...+..+.+.|.+.|+.++|+++++.+.+
T Consensus       252 ----~~-~~~s~~al~~la~~~~~~~~~~~A~~~~~~l~~  286 (306)
T 3dra_A          252 ----KD-QVTSSFALETLAKIYTQQKKYNESRTVYDLLKS  286 (306)
T ss_dssp             ----GT-EESCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             ----CC-CCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHh
Confidence                00 012566677777777778888888888888765

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.19  E-value=5.1e-05  Score=68.23  Aligned_cols=165  Identities=10%  Similarity=-0.075  Sum_probs=89.3

Q ss_pred             HHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCccCchhhHHHHhhHHHHhhhcccc
Q 048743          391 IQLGFLEAAHDILDDMELAGHPMDSTTYKSLLTAYYKVKMFREAEALLKQMRKSCLVQNLSCEMVVSERFSEVADKSASF  470 (653)
Q Consensus       391 ~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~l~~~~~~~~~~  470 (653)
                      ...|++++|.++++.+.. .......++..+-..+...|++++|...+++..+.....+...                  
T Consensus         3 ~~~g~~~~A~~~~~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~------------------   63 (203)
T 3gw4_A            3 FEAHDYALAERQAQALLA-HPATASGARFMLGYVYAFMDRFDEARASFQALQQQAQKSGDHT------------------   63 (203)
T ss_dssp             ----CHHHHHHHHHHHHT-STTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCHH------------------
T ss_pred             cccccHHHHHHHHHHhcC-ChHHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHHcCCcH------------------
Confidence            345777777774444432 1112455666777777777777777777776655211000000                  


Q ss_pred             cccccccCCHHHHHHHHHHHHHccCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhc----CCCC--CHHHHHHHHHHH
Q 048743          471 TDTSSLMDKSDLAESLIQEMREEAALSTIYKLNSSIYFFCKGKMIGDALKIYRRMQEM----KIRP--TVETFYYLVYGH  544 (653)
Q Consensus       471 ~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~----g~~p--~~~t~~~li~~~  544 (653)
                                                ....+++.+-..|...|++++|++.+++..+.    +-.|  ....+..+...+
T Consensus        64 --------------------------~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~  117 (203)
T 3gw4_A           64 --------------------------AEHRALHQVGMVERMAGNWDAARRCFLEERELLASLPEDPLAASANAYEVATVA  117 (203)
T ss_dssp             --------------------------HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHH
T ss_pred             --------------------------HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCccHHHHHHHHHHHHHHH
Confidence                                      02334555666666677777777776665542    1011  123455566666


Q ss_pred             hccCCHHHHHHHHHHHHHHhhhCCCcc-CHHHHHHHHHHHHhCCCHHHHHHHHHHHH
Q 048743          545 SSLEMYRDITILWGDIKRNIESGVLAV-SRDLYETLLLNFLQGGYFERVMEVIGYMK  600 (653)
Q Consensus       545 ~~~~~~~~a~~~~~~~~~~~~~~~~~p-~~~~y~~li~~~~~~g~~~~a~~~~~~m~  600 (653)
                      ...|++++|...+++..+..+..+-.. -..++..+...+...|++++|.+.+++..
T Consensus       118 ~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al  174 (203)
T 3gw4_A          118 LHFGDLAGARQEYEKSLVYAQQADDQVAIACAFRGLGDLAQQEKNLLEAQQHWLRAR  174 (203)
T ss_dssp             HHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHhCCHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHCcCHHHHHHHHHHHH
Confidence            677777777777766654433322211 12334556666777777777777766554

>3u3w_A Transcriptional activator PLCR protein; ternary complex, PLCR-PAPR7-DNA, HTH DNA-binding domain, QUO sensing; 2.40A {Bacillus thuringiensis} PDB: 2qfc_A

Probab=98.17  E-value=0.00019  Score=68.95  Aligned_cols=175  Identities=11%  Similarity=-0.007  Sum_probs=126.0

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCc----ccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCC-CC----HHH
Q 048743          347 MAKLINGYKKHGKNSELSWLLLSIKKEHHSFGES----TLCSDVIDALIQLGFLEAAHDILDDMELAGHP-MD----STT  417 (653)
Q Consensus       347 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~----~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~-p~----~~~  417 (653)
                      +...+..+...|++++|..++++........++.    ..+..+...+...|++++|...|++..+.... ++    ..+
T Consensus        78 l~~~i~~~~~~~~y~~a~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~~~~~~~  157 (293)
T 3u3w_A           78 FKDQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYI  157 (293)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHTCCCCSCTTHHHHH
T ss_pred             HHHHHHHHHHHhhHHHHHHHHHHHhccccCChHHHHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHhcccccHHHHHHH
Confidence            3445778899999999999999988755222221    12334666677778999999999999874322 23    336


Q ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHHcCC-ccCchhhHHHHhhHHHHhhhcccccccccccCCHHHHHHHHHHHHHccCC
Q 048743          418 YKSLLTAYYKVKMFREAEALLKQMRKSCL-VQNLSCEMVVSERFSEVADKSASFTDTSSLMDKSDLAESLIQEMREEAAL  496 (653)
Q Consensus       418 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~-~p~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~  496 (653)
                      |+.+...|...|++++|...|++..+.-- .|... .                                           
T Consensus       158 ~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~-~-------------------------------------------  193 (293)
T 3u3w_A          158 ENAIANIYAENGYLKKGIDLFEQILKQLEALHDNE-E-------------------------------------------  193 (293)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSSCCH-H-------------------------------------------
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccch-h-------------------------------------------
Confidence            89999999999999999999999875210 00100 0                                           


Q ss_pred             CCHHHHHHHHHHHHcCCCHHHHHHHHHHHHh----cCCCCC-HHHHHHHHHHHhccCC-HHHHHHHHHHHHHHhh
Q 048743          497 STIYKLNSSIYFFCKGKMIGDALKIYRRMQE----MKIRPT-VETFYYLVYGHSSLEM-YRDITILWGDIKRNIE  565 (653)
Q Consensus       497 p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~----~g~~p~-~~t~~~li~~~~~~~~-~~~a~~~~~~~~~~~~  565 (653)
                      ....+|..+...|.+.|++++|++.+++..+    .+..+. ..+|..+..++.+.|+ .++|.+.++......+
T Consensus       194 ~~~~~~~nlg~~y~~~~~y~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~~A~~~~~~Al~i~~  268 (293)
T 3u3w_A          194 FDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQLYYQRGECLRKLEYEEAEIEDAYKKASFFFD  268 (293)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCTTHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhCCcHHHHHHHHHHHHHHHH
Confidence            0234678888899999999999999988775    233333 5678888888999994 6999999988765443

>2vsy_A XCC0866; transferase, glycosyl transferase, GT-B, OGT, protein O-GLCN; HET: NHE; 2.10A {Xanthomonas campestris PV} PDB: 2jlb_A* 2xgm_A* 2xgo_A* 2xgs_A* 2vsn_A*

Probab=98.17  E-value=3.4e-05  Score=82.16  Aligned_cols=152  Identities=8%  Similarity=-0.049  Sum_probs=108.6

Q ss_pred             cCChhhHHHHHHHHHhcCCCcc-HHHHHHHHHHHHhcCChhhhHHHHHHhhhcCCCcccchhHHHHHHHHhhhccCCHHH
Q 048743          190 FGSSLKGQHIMELMSQTGVVAD-AHSIIILAQIHEMNCQRDELKKFKCYIDQLSTPFAHHYQQFYESLLSLHFKFDDIDA  268 (653)
Q Consensus       190 ~g~~~~a~~l~~~m~~~g~~p~-~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~  268 (653)
                      .|++++|.+.|++..+.  .|+ ...+..+...+.+.|++++|.+.++...+..+..    ...+..+..+|...|++++
T Consensus         2 ~g~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~----~~~~~~lg~~~~~~g~~~~   75 (568)
T 2vsy_A            2 TADGPRELLQLRAAVRH--RPQDFVAWLMLADAELGMGDTTAGEMAVQRGLALHPGH----PEAVARLGRVRWTQQRHAE   75 (568)
T ss_dssp             ---------------------CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTSTTC----HHHHHHHHHHHHHTTCHHH
T ss_pred             CccHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCC----HHHHHHHHHHHHHCCCHHH
Confidence            47889999999988765  454 5567888888999999999999999888764332    3468888889999999999


Q ss_pred             HHHHHHHhcccCCCCCCchhhhcccccchhccCCCcccchhhhccchhhhHHHHHHhhhhhHHHHHHhcCCCCC-CHHHH
Q 048743          269 AGELILDMNRYREPLPNPKLRQDAQKPYLISIGSPNLRCGLKLQIMPELLEKDSILKMEGKQELVLFRNGKLLH-SNRAM  347 (653)
Q Consensus       269 A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p-~~~~~  347 (653)
                      |.+.|++..+                                                             ..| +...+
T Consensus        76 A~~~~~~al~-------------------------------------------------------------~~p~~~~~~   94 (568)
T 2vsy_A           76 AAVLLQQASD-------------------------------------------------------------AAPEHPGIA   94 (568)
T ss_dssp             HHHHHHHHHH-------------------------------------------------------------HCTTCHHHH
T ss_pred             HHHHHHHHHh-------------------------------------------------------------cCCCCHHHH
Confidence            9999988732                                                             223 46688


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHc---CCHHHHHHHHHHHHHCC
Q 048743          348 AKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQL---GFLEAAHDILDDMELAG  410 (653)
Q Consensus       348 ~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~---g~~~~a~~~~~~m~~~g  410 (653)
                      ..+-.++.+.|++++|.+.|++..+..  +.+...+..+...+...   |+.++|.+.+++..+.+
T Consensus        95 ~~la~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~al~~~  158 (568)
T 2vsy_A           95 LWLGHALEDAGQAEAAAAAYTRAHQLL--PEEPYITAQLLNWRRRLCDWRALDVLSAQVRAAVAQG  158 (568)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCCTTHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHhhccccHHHHHHHHHHHHhcC
Confidence            888889999999999999999988877  67777788899999998   99999999999987764

>3rjv_A Putative SEL1 repeat protein; alpha-alpha superhelix, structural genomics, joint center FO structural genomics, JCSG; HET: MSE; 1.65A {Klebsiella pneumoniae subsp}

Probab=98.15  E-value=0.00018  Score=65.27  Aligned_cols=176  Identities=10%  Similarity=-0.064  Sum_probs=127.7

Q ss_pred             hHHHHHHHHHhcCCCccHHHHHHHHHHHHhcCChhhhHHHHHHhhhcCCCcccchhHHHHHHHHhhhccC----CHHHHH
Q 048743          195 KGQHIMELMSQTGVVADAHSIIILAQIHEMNCQRDELKKFKCYIDQLSTPFAHHYQQFYESLLSLHFKFD----DIDAAG  270 (653)
Q Consensus       195 ~a~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g----~~~~A~  270 (653)
                      +|++.|+...+.|   +...+..+-..+...++.++|.+.++...+.+.+      ..+..|-..|.. +    +.++|.
T Consensus         4 eA~~~~~~aa~~g---~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~g~~------~a~~~lg~~y~~-~g~~~~~~~A~   73 (212)
T 3rjv_A            4 EPGSQYQQQAEAG---DRRAQYYLADTWVSSGDYQKAEYWAQKAAAQGDG------DALALLAQLKIR-NPQQADYPQAR   73 (212)
T ss_dssp             CTTHHHHHHHHTT---CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCH------HHHHHHHHHTTS-STTSCCHHHHH
T ss_pred             hHHHHHHHHHHCC---CHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCH------HHHHHHHHHHHc-CCCCCCHHHHH
Confidence            4566677766654   5556666677777778888888888877765433      246667777777 6    899999


Q ss_pred             HHHHHhcccCCCCCCchhhhcccccchhccCCCcccchhhhccchhhhHHHHHHhhhhhHHHHHHhcCCCCCCHHHHHHH
Q 048743          271 ELILDMNRYREPLPNPKLRQDAQKPYLISIGSPNLRCGLKLQIMPELLEKDSILKMEGKQELVLFRNGKLLHSNRAMAKL  350 (653)
Q Consensus       271 ~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~l  350 (653)
                      +.|++..+                                                           .   -+...+..|
T Consensus        74 ~~~~~A~~-----------------------------------------------------------~---g~~~a~~~L   91 (212)
T 3rjv_A           74 QLAEKAVE-----------------------------------------------------------A---GSKSGEIVL   91 (212)
T ss_dssp             HHHHHHHH-----------------------------------------------------------T---TCHHHHHHH
T ss_pred             HHHHHHHH-----------------------------------------------------------C---CCHHHHHHH
Confidence            99988721                                                           1   134455666


Q ss_pred             HHHHHh----cCChHHHHHHHHHHHhcCCCCC--CcccHHHHHHHHHH----cCCHHHHHHHHHHHHHCCCCCCHHHHHH
Q 048743          351 INGYKK----HGKNSELSWLLLSIKKEHHSFG--ESTLCSDVIDALIQ----LGFLEAAHDILDDMELAGHPMDSTTYKS  420 (653)
Q Consensus       351 i~~~~~----~~~~~~a~~~~~~m~~~~~~~~--~~~~~~~li~~~~~----~g~~~~a~~~~~~m~~~g~~p~~~~~~~  420 (653)
                      -..|..    .+++++|...|++..+.+  +.  +...+..|-..|..    .+++++|...|++..+.  ..+...+..
T Consensus        92 g~~y~~g~g~~~d~~~A~~~~~~A~~~~--~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~--~~~~~a~~~  167 (212)
T 3rjv_A           92 ARVLVNRQAGATDVAHAITLLQDAARDS--ESDAAVDAQMLLGLIYASGVHGPEDDVKASEYFKGSSSL--SRTGYAEYW  167 (212)
T ss_dssp             HHHHTCGGGSSCCHHHHHHHHHHHTSST--TSHHHHHHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHT--SCTTHHHHH
T ss_pred             HHHHHcCCCCccCHHHHHHHHHHHHHcC--CCcchHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHc--CCCHHHHHH
Confidence            666766    789999999999988877  32  24558888888888    78999999999999876  234556777


Q ss_pred             HHHHHHHc-C-----ChHHHHHHHHHHHHcCC
Q 048743          421 LLTAYYKV-K-----MFREAEALLKQMRKSCL  446 (653)
Q Consensus       421 li~~~~~~-~-----~~~~a~~~~~~m~~~~~  446 (653)
                      |-..|... |     ++++|...|+...+.|.
T Consensus       168 Lg~~y~~g~gg~~~~d~~~A~~~~~~A~~~g~  199 (212)
T 3rjv_A          168 AGMMFQQGEKGFIEPNKQKALHWLNVSCLEGF  199 (212)
T ss_dssp             HHHHHHHCBTTTBCCCHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHcCCCCCCCCCHHHHHHHHHHHHHcCC
Confidence            77777654 3     89999999999888764

>1hh8_A P67PHOX, NCF-2, neutrophil cytosol factor 2; cell cycle, phagocyte oxidase factor, SH3 domain, repeat, TPR repeat cell cycle; HET: FLC; 1.8A {Homo sapiens} SCOP: a.118.8.1 PDB: 1wm5_A 1e96_B*

Probab=98.08  E-value=0.00018  Score=65.17  Aligned_cols=125  Identities=10%  Similarity=0.002  Sum_probs=78.8

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCccCchhhHHHHhhHHH
Q 048743          383 CSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTYKSLLTAYYKVKMFREAEALLKQMRKSCLVQNLSCEMVVSERFSE  462 (653)
Q Consensus       383 ~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~l~~  462 (653)
                      +..+...+...|++++|...|++..    .|+...|..+...|.+.|++++|...|+...+.  .|+             
T Consensus         9 ~~~~g~~~~~~~~~~~A~~~~~~a~----~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~~~-------------   69 (213)
T 1hh8_A            9 LWNEGVLAADKKDWKGALDAFSAVQ----DPHSRICFNIGCMYTILKNMTEAEKAFTRSINR--DKH-------------   69 (213)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHTSS----SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTT-------------
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHc----CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--Ccc-------------
Confidence            3444555566666666666666542    446666666666666677777776666666553  222             


Q ss_pred             HhhhcccccccccccCCHHHHHHHHHHHHHccCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcC-------------
Q 048743          463 VADKSASFTDTSSLMDKSDLAESLIQEMREEAALSTIYKLNSSIYFFCKGKMIGDALKIYRRMQEMK-------------  529 (653)
Q Consensus       463 ~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g-------------  529 (653)
                                                         +...|..+...|...|++++|++.|++..+..             
T Consensus        70 -----------------------------------~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~  114 (213)
T 1hh8_A           70 -----------------------------------LAVAYFQRGMLYYQTEKYDLAIKDLKEALIQLRGNQLIDYKILGL  114 (213)
T ss_dssp             -----------------------------------CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCSEEECGGGTB
T ss_pred             -----------------------------------chHHHHHHHHHHHHcccHHHHHHHHHHHHHhCCCccHHHHHHhcc
Confidence                                               34456666666777777777777777766532             


Q ss_pred             -CCCC-HHHHHHHHHHHhccCCHHHHHHHHHHHH
Q 048743          530 -IRPT-VETFYYLVYGHSSLEMYRDITILWGDIK  561 (653)
Q Consensus       530 -~~p~-~~t~~~li~~~~~~~~~~~a~~~~~~~~  561 (653)
                       ..|+ ...+..+..++...|++++|...|+...
T Consensus       115 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al  148 (213)
T 1hh8_A          115 QFKLFACEVLYNIAFMYAKKEEWKKAEEQLALAT  148 (213)
T ss_dssp             CCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             ccCccchHHHHHHHHHHHHccCHHHHHHHHHHHH
Confidence             1111 2566677777888888888888887765

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=98.07  E-value=4.8e-05  Score=64.59  Aligned_cols=105  Identities=10%  Similarity=0.013  Sum_probs=91.8

Q ss_pred             CCCCH-HHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHH
Q 048743          340 LLHSN-RAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTY  418 (653)
Q Consensus       340 ~~p~~-~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~  418 (653)
                      +.|+. ..+..+-..+.+.|++++|...|++.....  |.+...|..+-.+|.+.|++++|...|++..+... -++..|
T Consensus        31 l~p~~~~~~~~lg~~~~~~g~~~eA~~~~~~al~~~--P~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~P-~~~~~~  107 (151)
T 3gyz_A           31 IPDDMMDDIYSYAYDFYNKGRIEEAEVFFRFLCIYD--FYNVDYIMGLAAIYQIKEQFQQAADLYAVAFALGK-NDYTPV  107 (151)
T ss_dssp             SCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSS-SCCHHH
T ss_pred             CCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCC-CCcHHH
Confidence            44544 467788889999999999999999999988  88888899999999999999999999999987642 367888


Q ss_pred             HHHHHHHHHcCChHHHHHHHHHHHHcCCccC
Q 048743          419 KSLLTAYYKVKMFREAEALLKQMRKSCLVQN  449 (653)
Q Consensus       419 ~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~  449 (653)
                      ..+-.+|.+.|++++|...|+...+.  .|+
T Consensus       108 ~~lg~~~~~lg~~~eA~~~~~~al~l--~~~  136 (151)
T 3gyz_A          108 FHTGQCQLRLKAPLKAKECFELVIQH--SND  136 (151)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHH--CCC
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHh--CCC
Confidence            99999999999999999999999884  455

>1a17_A Serine/threonine protein phosphatase 5; hydrolase, protein-protein interactions, TPR, S helix; 2.45A {Homo sapiens} SCOP: a.118.8.1 PDB: 2bug_A

Probab=98.07  E-value=0.00011  Score=63.43  Aligned_cols=97  Identities=10%  Similarity=-0.049  Sum_probs=82.0

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 048743          345 RAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTYKSLLTA  424 (653)
Q Consensus       345 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~  424 (653)
                      ..+..+...+...|++++|...|++.....  +.+..+|..+...+...|++++|...+++..+.. +.+...|..+..+
T Consensus        14 ~~~~~~a~~~~~~~~~~~A~~~~~~al~~~--~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~a~~   90 (166)
T 1a17_A           14 EELKTQANDYFKAKDYENAIKFYSQAIELN--PSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAAS   90 (166)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHHhC--CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHHHHHH
Confidence            456777888889999999999999988877  6677778889999999999999999999987753 3467788888889


Q ss_pred             HHHcCChHHHHHHHHHHHHc
Q 048743          425 YYKVKMFREAEALLKQMRKS  444 (653)
Q Consensus       425 ~~~~~~~~~a~~~~~~m~~~  444 (653)
                      +...|++++|...|++..+.
T Consensus        91 ~~~~~~~~~A~~~~~~a~~~  110 (166)
T 1a17_A           91 NMALGKFRAALRDYETVVKV  110 (166)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHhccHHHHHHHHHHHHHh
Confidence            99999999999999888774

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=98.03  E-value=9.7e-05  Score=60.60  Aligned_cols=106  Identities=13%  Similarity=0.014  Sum_probs=92.7

Q ss_pred             CCCCH-HHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHH
Q 048743          340 LLHSN-RAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTY  418 (653)
Q Consensus       340 ~~p~~-~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~  418 (653)
                      +.|+. ..+...-..|.+.|++++|+..|++..+..  |.+..+|..+..+|.+.|++++|...|++..+.. +.+...|
T Consensus         8 inP~~a~~~~~~G~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~   84 (126)
T 4gco_A            8 INPELAQEEKNKGNEYFKKGDYPTAMRHYNEAVKRD--PENAILYSNRAACLTKLMEFQRALDDCDTCIRLD-SKFIKGY   84 (126)
T ss_dssp             CCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHH
T ss_pred             HCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhh-hhhhHHH
Confidence            44544 467788899999999999999999999887  8888889999999999999999999999998753 3468899


Q ss_pred             HHHHHHHHHcCChHHHHHHHHHHHHcCCccCc
Q 048743          419 KSLLTAYYKVKMFREAEALLKQMRKSCLVQNL  450 (653)
Q Consensus       419 ~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~  450 (653)
                      ..+-.+|...|++++|...|++..+  +.|+.
T Consensus        85 ~~lg~~~~~~~~~~~A~~~~~~al~--l~P~~  114 (126)
T 4gco_A           85 IRKAACLVAMREWSKAQRAYEDALQ--VDPSN  114 (126)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHH--HCTTC
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHH--HCcCC
Confidence            9999999999999999999999987  45764

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=98.03  E-value=0.014  Score=60.19  Aligned_cols=358  Identities=9%  Similarity=-0.028  Sum_probs=197.9

Q ss_pred             CChhhHHHHHHHHHhcCCCccHHHHHHHHHHHHhcCC-hhhhHHHHHHhhhcCCCcccchhHHHHHHHHhhhc----cCC
Q 048743          191 GSSLKGQHIMELMSQTGVVADAHSIIILAQIHEMNCQ-RDELKKFKCYIDQLSTPFAHHYQQFYESLLSLHFK----FDD  265 (653)
Q Consensus       191 g~~~~a~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~-~~~a~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~----~g~  265 (653)
                      |+++.|.++|+.-...  .|+...|..-+....+.++ .+.+.++|+.....-.++. ....+|...+..+..    .++
T Consensus        28 ~~~e~~~~iferal~~--~ps~~LW~~Y~~f~~~~~~~~~~i~~~fe~al~~vg~d~-~s~~iW~~Yi~f~~~~~~~~~~  104 (493)
T 2uy1_A           28 KDYRSLESLFGRCLKK--SYNLDLWMLYIEYVRKVSQKKFKLYEVYEFTLGQFENYW-DSYGLYKEYIEEEGKIEDEQTR  104 (493)
T ss_dssp             TCHHHHHHHHHHHSTT--CCCHHHHHHHHHHHHHHC----CTHHHHHHHHHHSTTCT-TCHHHHHHHHHHTSSCSSHHHH
T ss_pred             CCHHHHHHHHHHHhcc--CCCHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHcCCCc-ccHHHHHHHHHHHHhchhhhHH
Confidence            8899999999998874  5888888887777777663 4567777877765421111 122468887776543    467


Q ss_pred             HHHHHHHHHHhcccCCCCCCchhhhcccccchhccCCCcccchhhhccchhhhHHHHHHhhhhhHHHHHHhcCCCCCCHH
Q 048743          266 IDAAGELILDMNRYREPLPNPKLRQDAQKPYLISIGSPNLRCGLKLQIMPELLEKDSILKMEGKQELVLFRNGKLLHSNR  345 (653)
Q Consensus       266 ~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~  345 (653)
                      ++.+.++|++....    |....                   .             ..-..+.     .++..   .+..
T Consensus       105 ~~~vR~iy~rAL~~----P~~~~-------------------~-------------~lw~~Y~-----~fE~~---~~~~  140 (493)
T 2uy1_A          105 IEKIRNGYMRALQT----PMGSL-------------------S-------------ELWKDFE-----NFELE---LNKI  140 (493)
T ss_dssp             HHHHHHHHHHHHTS----CCTTH-------------------H-------------HHHHHHH-----HHHHH---HCHH
T ss_pred             HHHHHHHHHHHHhC----hhhhH-------------------H-------------HHHHHHH-----HHHHH---hccc
Confidence            88899999988431    10000                   0             0000000     00000   0111


Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcC-------CHHHHHHHHHHHHHCCCCCCHHHH
Q 048743          346 AMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLG-------FLEAAHDILDDMELAGHPMDSTTY  418 (653)
Q Consensus       346 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g-------~~~~a~~~~~~m~~~g~~p~~~~~  418 (653)
                      +...++....  +.+..|..+++++...- ...+...|...+..-...+       ..+.+..+|++.... ++-+...|
T Consensus       141 ~~~~~~~~~~--~~y~~ar~~y~~~~~~~-~~~s~~~W~~y~~~E~~~~~~~~~~~~~~Rv~~~ye~al~~-~p~~~~lW  216 (493)
T 2uy1_A          141 TGKKIVGDTL--PIFQSSFQRYQQIQPLI-RGWSVKNAARLIDLEMENGMKLGGRPHESRMHFIHNYILDS-FYYAEEVY  216 (493)
T ss_dssp             HHHHHHHHHH--HHHHHHHHHHHHHHHHH-HTCSHHHHHHHHHHHHTCTTCCCHHHHHHHHHHHHHHHHHH-TTTCHHHH
T ss_pred             cHHHHHHHHh--HHHHHHHHHHHHHHHHH-hhccHHHHHHHHHHHhcCCccCcchhhHHHHHHHHHHHHHc-CCCCHHHH
Confidence            1111121111  22333444444433211 0011223544444322111       134567788888764 34467778


Q ss_pred             HHHHHHHHHcCChHHHHHHHHHHHHcCCccCch-hhHHHHhhHHHHhhhcccccccccccCCHHHHHHHHHHHHHc----
Q 048743          419 KSLLTAYYKVKMFREAEALLKQMRKSCLVQNLS-CEMVVSERFSEVADKSASFTDTSSLMDKSDLAESLIQEMREE----  493 (653)
Q Consensus       419 ~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~-~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~----  493 (653)
                      ...+.-+.+.|+++.|..+|++....   |... ..+..    ....              ..++.   ++.+.+.    
T Consensus       217 ~~ya~~~~~~~~~~~ar~i~erAi~~---P~~~~l~~~y----~~~~--------------e~~~~---~~~l~~~~~~~  272 (493)
T 2uy1_A          217 FFYSEYLIGIGQKEKAKKVVERGIEM---SDGMFLSLYY----GLVM--------------DEEAV---YGDLKRKYSMG  272 (493)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHH---CCSSHHHHHH----HHHT--------------TCTHH---HHHHHHHTC--
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHhC---CCcHHHHHHH----Hhhc--------------chhHH---HHHHHHHHHhh
Confidence            87787788888999999999988876   5541 11110    0000              00011   1111110    


Q ss_pred             -----cCCC---CHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhc-cCCHHHHHHHHHHHHHHh
Q 048743          494 -----AALS---TIYKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRPTVETFYYLVYGHSS-LEMYRDITILWGDIKRNI  564 (653)
Q Consensus       494 -----~~~p---~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~-~~~~~~a~~~~~~~~~~~  564 (653)
                           +..+   ....|-..+..+.+.+..+.|..+|++. .. ..++...|......-.. .++.+.|..+|+...+. 
T Consensus       273 ~~~~~~~~~~~~~~~lw~~y~~~~~r~~~~~~AR~i~~~A-~~-~~~~~~v~i~~A~lE~~~~~d~~~ar~ife~al~~-  349 (493)
T 2uy1_A          273 EAESAEKVFSKELDLLRINHLNYVLKKRGLELFRKLFIEL-GN-EGVGPHVFIYCAFIEYYATGSRATPYNIFSSGLLK-  349 (493)
T ss_dssp             --------CHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHH-TT-SCCCHHHHHHHHHHHHHHHCCSHHHHHHHHHHHHH-
T ss_pred             ccchhhhhcccccHHHHHHHHHHHHHcCCHHHHHHHHHHh-hC-CCCChHHHHHHHHHHHHHCCChHHHHHHHHHHHHH-
Confidence                 0001   2356777788777788899999999988 32 12234444322222122 33699999999988743 


Q ss_pred             hhCCCccCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCCHHhHHHHH--HHhhhhhHHhhhhhHHHHHH
Q 048743          565 ESGVLAVSRDLYETLLLNFLQGGYFERVMEVIGYMKKQNMYVDKLMYKSEF--LKHHKHLYRRLKVSNARTEA  635 (653)
Q Consensus       565 ~~~~~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~l~--~~~~~~~~~~~~~~~~~~~~  635 (653)
                        .+  -+...+...++-....|+.+.|..+|+...     .....|...+  ...+|+.+.+..+.+...+.
T Consensus       350 --~~--~~~~~~~~yid~e~~~~~~~~aR~l~er~~-----k~~~lw~~~~~fE~~~G~~~~~r~v~~~~~~~  413 (493)
T 2uy1_A          350 --HP--DSTLLKEEFFLFLLRIGDEENARALFKRLE-----KTSRMWDSMIEYEFMVGSMELFRELVDQKMDA  413 (493)
T ss_dssp             --CT--TCHHHHHHHHHHHHHHTCHHHHHHHHHHSC-----CBHHHHHHHHHHHHHHSCHHHHHHHHHHHHHH
T ss_pred             --CC--CCHHHHHHHHHHHHHcCCHHHHHHHHHHHH-----HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence              22  234456667777788999999999999873     2455566555  45668887777766666653

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.03  E-value=0.00053  Score=70.00  Aligned_cols=173  Identities=9%  Similarity=-0.021  Sum_probs=111.9

Q ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHHcC-CccCchhhHHHHhhHHHHhhhcccccccccccCCHHHHHHHHHHHHH----
Q 048743          418 YKSLLTAYYKVKMFREAEALLKQMRKSC-LVQNLSCEMVVSERFSEVADKSASFTDTSSLMDKSDLAESLIQEMRE----  492 (653)
Q Consensus       418 ~~~li~~~~~~~~~~~a~~~~~~m~~~~-~~p~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~----  492 (653)
                      +..+...|...|++++|.+.+....+.- -.++..........+..          .+...|+.+.|..++.....    
T Consensus        58 l~~l~~~y~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~l~~----------~~~~~~~~~~a~~~~~~~~~~~~~  127 (434)
T 4b4t_Q           58 ILELGQLYVTMGAKDKLREFIPHSTEYMMQFAKSKTVKVLKTLIEK----------FEQVPDSLDDQIFVCEKSIEFAKR  127 (434)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHTHHHHHTSCHHHHHHHHHHHHHH----------HCSCCSCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccchHHHHHHHHHHHH----------HHhCCCCHHHHHHHHHHHHHHHHH
Confidence            4566777777777777777777665421 11111111111111111          13346778888888766553    


Q ss_pred             ccCCC-CHHHHHHHHHHHHcCCCHHHHHHHHHHHHhc--CC--CCC-HHHHHHHHHHHhccCCHHHHHHHHHHHHHHhhh
Q 048743          493 EAALS-TIYKLNSSIYFFCKGKMIGDALKIYRRMQEM--KI--RPT-VETFYYLVYGHSSLEMYRDITILWGDIKRNIES  566 (653)
Q Consensus       493 ~~~~p-~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~--g~--~p~-~~t~~~li~~~~~~~~~~~a~~~~~~~~~~~~~  566 (653)
                      .+..+ -..++..+...|...|++++|..++++....  +.  .|. ...|..+++.|...|++++|..+++........
T Consensus       128 ~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~  207 (434)
T 4b4t_Q          128 EKRVFLKHSLSIKLATLHYQKKQYKDSLALINDLLREFKKLDDKPSLVDVHLLESKVYHKLRNLAKSKASLTAARTAANS  207 (434)
T ss_dssp             SSCCSSHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSSCSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHH
T ss_pred             hCccHHHHHHHHHHHHHHHHccChHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHhhc
Confidence            22222 3457788999999999999999999987752  21  222 357888889999999999999999887654333


Q ss_pred             CCCccC--HHHHHHHHHHHHhCCCHHHHHHHHHHHH
Q 048743          567 GVLAVS--RDLYETLLLNFLQGGYFERVMEVIGYMK  600 (653)
Q Consensus       567 ~~~~p~--~~~y~~li~~~~~~g~~~~a~~~~~~m~  600 (653)
                      ....+.  ...+..+...+...|++++|...|.+..
T Consensus       208 ~~~~~~~~~~~~~~~g~~~~~~~~y~~A~~~~~~a~  243 (434)
T 4b4t_Q          208 IYCPTQTVAELDLMSGILHCEDKDYKTAFSYFFESF  243 (434)
T ss_dssp             SCCCHHHHHHHHHHHHHHTTSSSCHHHHHHHHHHHH
T ss_pred             CCCchHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHH
Confidence            332222  3456667777888999999988876664

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.00  E-value=0.00013  Score=65.42  Aligned_cols=167  Identities=6%  Similarity=-0.093  Sum_probs=111.4

Q ss_pred             HHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHH----CCCCC-CHHHHHHHHHHHHHc
Q 048743          354 YKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMEL----AGHPM-DSTTYKSLLTAYYKV  428 (653)
Q Consensus       354 ~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~----~g~~p-~~~~~~~li~~~~~~  428 (653)
                      ....|++++|.++++.+....  .....++..+...+...|++++|...+++..+    .+..| ...++..+-..+...
T Consensus         2 ~~~~g~~~~A~~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~   79 (203)
T 3gw4_A            2 AFEAHDYALAERQAQALLAHP--ATASGARFMLGYVYAFMDRFDEARASFQALQQQAQKSGDHTAEHRALHQVGMVERMA   79 (203)
T ss_dssp             -----CHHHHHHHHHHHHTST--TTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHT
T ss_pred             ccccccHHHHHHHHHHhcCCh--HHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHc
Confidence            346899999999665554422  34556688999999999999999999998765    22222 345677888889999


Q ss_pred             CChHHHHHHHHHHHHcCC-ccCchhhHHHHhhHHHHhhhcccccccccccCCHHHHHHHHHHHHHccCCCCHHHHHHHHH
Q 048743          429 KMFREAEALLKQMRKSCL-VQNLSCEMVVSERFSEVADKSASFTDTSSLMDKSDLAESLIQEMREEAALSTIYKLNSSIY  507 (653)
Q Consensus       429 ~~~~~a~~~~~~m~~~~~-~p~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~y~~li~  507 (653)
                      |++++|...+++..+..- .++...                                            .....+..+..
T Consensus        80 g~~~~A~~~~~~al~~~~~~~~~~~--------------------------------------------~~~~~~~~lg~  115 (203)
T 3gw4_A           80 GNWDAARRCFLEERELLASLPEDPL--------------------------------------------AASANAYEVAT  115 (203)
T ss_dssp             TCHHHHHHHHHHHHHHHHHSCCCHH--------------------------------------------HHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHHHHcCccHH--------------------------------------------HHHHHHHHHHH
Confidence            999999999988765310 111100                                            01234666777


Q ss_pred             HHHcCCCHHHHHHHHHHHHhcC---CCCC--HHHHHHHHHHHhccCCHHHHHHHHHHHHHHhhh
Q 048743          508 FFCKGKMIGDALKIYRRMQEMK---IRPT--VETFYYLVYGHSSLEMYRDITILWGDIKRNIES  566 (653)
Q Consensus       508 ~~~~~g~~~~a~~~~~~m~~~g---~~p~--~~t~~~li~~~~~~~~~~~a~~~~~~~~~~~~~  566 (653)
                      .+...|++++|...+++.....   -.|.  ..++..+...+...|++++|...+++..+..+.
T Consensus       116 ~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~  179 (203)
T 3gw4_A          116 VALHFGDLAGARQEYEKSLVYAQQADDQVAIACAFRGLGDLAQQEKNLLEAQQHWLRARDIFAE  179 (203)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHhCCHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHH
Confidence            7788888888888888776421   1111  234567777888889999998888777654333

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.00  E-value=0.00015  Score=58.85  Aligned_cols=96  Identities=19%  Similarity=0.166  Sum_probs=59.1

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 048743          345 RAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTYKSLLTA  424 (653)
Q Consensus       345 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~  424 (653)
                      ..|..+...+...|++++|.+.++++....  +.+..++..+...+.+.|++++|...|+++.+.. +.+..++..+...
T Consensus        10 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~   86 (125)
T 1na0_A           10 EAWYNLGNAYYKQGDYDEAIEYYQKALELD--PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNA   86 (125)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHC--cCcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-CccHHHHHHHHHH
Confidence            345555666666666666666666666554  4445556666666666666666666666665542 2345566666666


Q ss_pred             HHHcCChHHHHHHHHHHHH
Q 048743          425 YYKVKMFREAEALLKQMRK  443 (653)
Q Consensus       425 ~~~~~~~~~a~~~~~~m~~  443 (653)
                      +...|++++|...|+++.+
T Consensus        87 ~~~~~~~~~A~~~~~~~~~  105 (125)
T 1na0_A           87 YYKQGDYDEAIEYYQKALE  105 (125)
T ss_dssp             HHHTTCHHHHHHHHHHHHH
T ss_pred             HHHhcCHHHHHHHHHHHHH
Confidence            6666666666666666655

>1a17_A Serine/threonine protein phosphatase 5; hydrolase, protein-protein interactions, TPR, S helix; 2.45A {Homo sapiens} SCOP: a.118.8.1 PDB: 2bug_A

Probab=97.98  E-value=0.00017  Score=62.12  Aligned_cols=130  Identities=12%  Similarity=-0.086  Sum_probs=104.7

Q ss_pred             HHHHHHHHhhhccCCHHHHHHHHHHhcccCCCCCCchhhhcccccchhccCCCcccchhhhccchhhhHHHHHHhhhhhH
Q 048743          251 QFYESLLSLHFKFDDIDAAGELILDMNRYREPLPNPKLRQDAQKPYLISIGSPNLRCGLKLQIMPELLEKDSILKMEGKQ  330 (653)
Q Consensus       251 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  330 (653)
                      ..+..+...+...|++++|...|++..+.                                                   
T Consensus        14 ~~~~~~a~~~~~~~~~~~A~~~~~~al~~---------------------------------------------------   42 (166)
T 1a17_A           14 EELKTQANDYFKAKDYENAIKFYSQAIEL---------------------------------------------------   42 (166)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH---------------------------------------------------
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHHh---------------------------------------------------
Confidence            35777888889999999999999988320                                                   


Q ss_pred             HHHHHhcCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCC
Q 048743          331 ELVLFRNGKLLHSNRAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAG  410 (653)
Q Consensus       331 ~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g  410 (653)
                               .+.+...+..+...+...|++++|...+++.....  +.+...|..+...+.+.|++++|...|++..+..
T Consensus        43 ---------~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~  111 (166)
T 1a17_A           43 ---------NPSNAIYYGNRSLAYLRTECYGYALGDATRAIELD--KKYIKGYYRRAASNMALGKFRAALRDYETVVKVK  111 (166)
T ss_dssp             ---------STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS
T ss_pred             ---------CCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--cccHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC
Confidence                     11245678888899999999999999999998887  7777789999999999999999999999998753


Q ss_pred             CCCCHHHHHH--HHHHHHHcCChHHHHHHHHHHHH
Q 048743          411 HPMDSTTYKS--LLTAYYKVKMFREAEALLKQMRK  443 (653)
Q Consensus       411 ~~p~~~~~~~--li~~~~~~~~~~~a~~~~~~m~~  443 (653)
                      . .+...+..  +...+.+.|++++|...+.....
T Consensus       112 p-~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~  145 (166)
T 1a17_A          112 P-HDKDAKMKYQECNKIVKQKAFERAIAGDEHKRS  145 (166)
T ss_dssp             T-TCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             C-CCHHHHHHHHHHHHHHHHHHHHHHHHcccchHH
Confidence            2 24555533  44447788999999999887654

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=97.96  E-value=0.0039  Score=64.45  Aligned_cols=341  Identities=11%  Similarity=0.015  Sum_probs=178.3

Q ss_pred             hHHHHHHHHHHHHhccchhHHHHHHHHhhhhcCCCCchhHHHHHHHhhccCCcchhhhHHHHHHHHHhccC-CchhHHHH
Q 048743           18 SREVLLRKLESASKNHQVGEAWETFNDFQRLHGIPERHVVNRFITDLCYSAEPHWLQKACDLVLKIQKGKA-DLLQLDLL   96 (653)
Q Consensus        18 ~~~~~~~~i~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~t~   96 (653)
                      .+.+|.+.+..+-. |+.+.+.++|+.....  .|+...|...+.-..+.+..  .+....+|+.....-| ...+...|
T Consensus        14 aR~vyer~l~~~P~-~~~e~~~~iferal~~--~ps~~LW~~Y~~f~~~~~~~--~~~i~~~fe~al~~vg~d~~s~~iW   88 (493)
T 2uy1_A           14 PSAIMEHARRLYMS-KDYRSLESLFGRCLKK--SYNLDLWMLYIEYVRKVSQK--KFKLYEVYEFTLGQFENYWDSYGLY   88 (493)
T ss_dssp             HHHHHHHHHHHHHT-TCHHHHHHHHHHHSTT--CCCHHHHHHHHHHHHHHC------CTHHHHHHHHHHSTTCTTCHHHH
T ss_pred             HHHHHHHHHHHCCC-CCHHHHHHHHHHHhcc--CCCHHHHHHHHHHHHHhCch--HHHHHHHHHHHHHHcCCCcccHHHH
Confidence            34567777766654 8899999999998873  57777887777776665532  3455666766554433 22356777


Q ss_pred             HHHHHHHH----hcCCCchHHHHHHHHHcCccCCCchhHHHHHHHHhhccccccc-------------------------
Q 048743           97 AKLSLSLA----RAQMPVPASMILRLMLGRENLPCSDLLLLVFVHMVKTEIGTCL-------------------------  147 (653)
Q Consensus        97 ~~li~~~~----~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~-------------------------  147 (653)
                      ...+..+.    ..|+.+.+..+|++........-...|......- .. .+...                         
T Consensus        89 ~~Yi~f~~~~~~~~~~~~~vR~iy~rAL~~P~~~~~~lw~~Y~~fE-~~-~~~~~~~~~~~~~~~~y~~ar~~y~~~~~~  166 (493)
T 2uy1_A           89 KEYIEEEGKIEDEQTRIEKIRNGYMRALQTPMGSLSELWKDFENFE-LE-LNKITGKKIVGDTLPIFQSSFQRYQQIQPL  166 (493)
T ss_dssp             HHHHHHTSSCSSHHHHHHHHHHHHHHHHTSCCTTHHHHHHHHHHHH-HH-HCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhchhhhHHHHHHHHHHHHHHhChhhhHHHHHHHHHHHH-HH-hccccHHHHHHHHhHHHHHHHHHHHHHHHH
Confidence            77776554    2456778889999988732111111222111100 00 00000                         


Q ss_pred             -------chHHHHHHHHHhh-------hhhhhhcCCccCC---CCchhhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCc
Q 048743          148 -------ASNFLIQLCDVFL-------HLSAEKSNGAELI---KPDTMIFNLVLHACVRFGSSLKGQHIMELMSQTGVVA  210 (653)
Q Consensus       148 -------~~~~l~~~~~~~~-------~~~~a~~~~~~~~---~~~~~~yn~li~~~~~~g~~~~a~~l~~~m~~~g~~p  210 (653)
                             .+...++.....+       ..+.+..+|++.+   +-+...|-..+.-+.+.|+++.|.++|++....   |
T Consensus       167 ~~~~s~~~W~~y~~~E~~~~~~~~~~~~~~Rv~~~ye~al~~~p~~~~lW~~ya~~~~~~~~~~~ar~i~erAi~~---P  243 (493)
T 2uy1_A          167 IRGWSVKNAARLIDLEMENGMKLGGRPHESRMHFIHNYILDSFYYAEEVYFFYSEYLIGIGQKEKAKKVVERGIEM---S  243 (493)
T ss_dssp             HHTCSHHHHHHHHHHHHTCTTCCCHHHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---C
T ss_pred             HhhccHHHHHHHHHHHhcCCccCcchhhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhC---C
Confidence                   0000000000000       0000111222111   122334444445555566666666666666654   4


Q ss_pred             cHHHHHHHHHHHHhcCChhhhHHHHHHhhhcCC---------CcccchhHHHHHHHHhhhccCCHHHHHHHHHHhcccCC
Q 048743          211 DAHSIIILAQIHEMNCQRDELKKFKCYIDQLST---------PFAHHYQQFYESLLSLHFKFDDIDAAGELILDMNRYRE  281 (653)
Q Consensus       211 ~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~---------~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~  281 (653)
                      +....-.   .++...+.++   +++.+.+...         ........+|-..+....+.++++.|..+|++. +   
T Consensus       244 ~~~~l~~---~y~~~~e~~~---~~~~l~~~~~~~~~~~~~~~~~~~~~~lw~~y~~~~~r~~~~~~AR~i~~~A-~---  313 (493)
T 2uy1_A          244 DGMFLSL---YYGLVMDEEA---VYGDLKRKYSMGEAESAEKVFSKELDLLRINHLNYVLKKRGLELFRKLFIEL-G---  313 (493)
T ss_dssp             CSSHHHH---HHHHHTTCTH---HHHHHHHHTC----------CHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHH-T---
T ss_pred             CcHHHHH---HHHhhcchhH---HHHHHHHHHHhhccchhhhhcccccHHHHHHHHHHHHHcCCHHHHHHHHHHh-h---
Confidence            3332111   1111111111   1111111100         000111234555555555556666666666655 1   


Q ss_pred             CCCCchhhhcccccchhccCCCcccchhhhccchhhhHHHHHHhhhhhHHHHHHhcCCCCCCHHHHH--HHHHHHHhcCC
Q 048743          282 PLPNPKLRQDAQKPYLISIGSPNLRCGLKLQIMPELLEKDSILKMEGKQELVLFRNGKLLHSNRAMA--KLINGYKKHGK  359 (653)
Q Consensus       282 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~--~li~~~~~~~~  359 (653)
                                                                             ..+  .+...|.  +.+.... .++
T Consensus       314 -------------------------------------------------------~~~--~~~~v~i~~A~lE~~~-~~d  335 (493)
T 2uy1_A          314 -------------------------------------------------------NEG--VGPHVFIYCAFIEYYA-TGS  335 (493)
T ss_dssp             -------------------------------------------------------TSC--CCHHHHHHHHHHHHHH-HCC
T ss_pred             -------------------------------------------------------CCC--CChHHHHHHHHHHHHH-CCC
Confidence                                                                   011  1233332  3333322 346


Q ss_pred             hHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHH
Q 048743          360 NSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTYKSLLTAYYKVKMFREAEALLK  439 (653)
Q Consensus       360 ~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~a~~~~~  439 (653)
                      .+.|..+|+...+..  +.+...|...++...+.|+.+.|..+|++..     .....|...+.--...|+.+.+..+++
T Consensus       336 ~~~ar~ife~al~~~--~~~~~~~~~yid~e~~~~~~~~aR~l~er~~-----k~~~lw~~~~~fE~~~G~~~~~r~v~~  408 (493)
T 2uy1_A          336 RATPYNIFSSGLLKH--PDSTLLKEEFFLFLLRIGDEENARALFKRLE-----KTSRMWDSMIEYEFMVGSMELFRELVD  408 (493)
T ss_dssp             SHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHTCHHHHHHHHHHSC-----CBHHHHHHHHHHHHHHSCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH-----HHHHHHHHHHHHHHHCCCHHHHHHHHH
Confidence            999999999988765  4444556777888888999999999999873     257778888877778899999999888


Q ss_pred             HHHH
Q 048743          440 QMRK  443 (653)
Q Consensus       440 ~m~~  443 (653)
                      +..+
T Consensus       409 ~~~~  412 (493)
T 2uy1_A          409 QKMD  412 (493)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            8875

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=97.94  E-value=0.00017  Score=58.38  Aligned_cols=80  Identities=16%  Similarity=0.087  Sum_probs=49.8

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 048743          343 SNRAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTYKSLL  422 (653)
Q Consensus       343 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li  422 (653)
                      +..++..+...+.+.|++++|...++++....  +.+..++..+...+...|++++|...|+++.+.. +.+...+..+.
T Consensus        42 ~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~  118 (125)
T 1na0_A           42 NAEAWYNLGNAYYKQGDYDEAIEYYQKALELD--PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAKQNLG  118 (125)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC--CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCcHHHHHHHH
Confidence            45566666677777777777777777766655  5555556677777777777777777777766542 12344444444


Q ss_pred             HHH
Q 048743          423 TAY  425 (653)
Q Consensus       423 ~~~  425 (653)
                      ..+
T Consensus       119 ~~~  121 (125)
T 1na0_A          119 NAK  121 (125)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            433

>3q7a_A Farnesyltransferase alpha subunit; protein prenyltransferase, transferase-transferase inhibitor; HET: SUC 3FX FPP 778; 2.00A {Cryptococcus neoformans} PDB: 3q73_A* 3q78_A* 3q79_A* 3q75_A* 3q7f_A* 3sfx_A* 3sfy_A*

Probab=97.94  E-value=0.0047  Score=59.76  Aligned_cols=241  Identities=10%  Similarity=-0.032  Sum_probs=162.4

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcC-CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 048743          347 MAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLG-FLEAAHDILDDMELAGHPMDSTTYKSLLTAY  425 (653)
Q Consensus       347 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g-~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~  425 (653)
                      ++.+-....+.+..++|+++++++...+  |.+.++|+.--..+...| ++++++.+++.+..... -+..+|+.--..+
T Consensus        57 ~~~~r~~~~~~e~se~AL~lt~~~L~~n--P~~ytaWn~R~~iL~~l~~~l~eEL~~~~~~L~~nP-Kny~aW~hR~wlL  133 (349)
T 3q7a_A           57 MDYFRAIAAKEEKSERALELTEIIVRMN--PAHYTVWQYRFSLLTSLNKSLEDELRLMNEFAVQNL-KSYQVWHHRLLLL  133 (349)
T ss_dssp             HHHHHHHHHTTCCSHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTTC-CCHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCCCHHHHHHHHHHHHhC--chhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhCC-CcHHHHHHHHHHH
Confidence            3344444445556678999999999998  888888999888888888 59999999999998654 4788898888777


Q ss_pred             HHc-C-ChHHHHHHHHHHHHcCCccCchhhHHHHhhHHHHhhhcccccccccccCCHHHHHHHHHHHHHccCCCCHHHHH
Q 048743          426 YKV-K-MFREAEALLKQMRKSCLVQNLSCEMVVSERFSEVADKSASFTDTSSLMDKSDLAESLIQEMREEAALSTIYKLN  503 (653)
Q Consensus       426 ~~~-~-~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~y~  503 (653)
                      .+. + ++++++.+++.+.+  ..|..+..-.....+.........     .....+.++.+.++++.+... -|...|+
T Consensus       134 ~~l~~~~~~~EL~~~~k~L~--~dpkNy~AW~~R~wvl~~l~~~~~-----~~~~~~~eELe~~~k~I~~dp-~N~SAW~  205 (349)
T 3q7a_A          134 DRISPQDPVSEIEYIHGSLL--PDPKNYHTWAYLHWLYSHFSTLGR-----ISEAQWGSELDWCNEMLRVDG-RNNSAWG  205 (349)
T ss_dssp             HHHCCSCCHHHHHHHHHHTS--SCTTCHHHHHHHHHHHHHHHHTTC-----CCHHHHHHHHHHHHHHHHHCT-TCHHHHH
T ss_pred             HHhcCCChHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHHhccccc-----cchhhHHHHHHHHHHHHHhCC-CCHHHHH
Confidence            777 7 89999999999976  345542221111111111110000     001123488888999888762 2888898


Q ss_pred             HHHHHHHcCCC-------HHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCCH--------------------HHHHHH
Q 048743          504 SSIYFFCKGKM-------IGDALKIYRRMQEMKIRPTVETFYYLVYGHSSLEMY--------------------RDITIL  556 (653)
Q Consensus       504 ~li~~~~~~g~-------~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~--------------------~~a~~~  556 (653)
                      -.-..+.+.++       ++++++.+++++.... -|...|+.+-..+.+.|+.                    ......
T Consensus       206 ~R~~lL~~l~~~~~~~~~~~eELe~~~~aI~~~P-~n~SaW~Ylr~Ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  284 (349)
T 3q7a_A          206 WRWYLRVSRPGAETSSRSLQDELIYILKSIHLIP-HNVSAWNYLRGFLKHFSLPLVPILPAILPYTASKLNPDIETVEAF  284 (349)
T ss_dssp             HHHHHHTTSTTCCCCHHHHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCCSGGGHHHHGGGTC-------------
T ss_pred             HHHHHHHhccccccchHHHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHhcCCCcccccccccccccccccccchhHHHH
Confidence            88888888776       7899999999887532 2566676655556555543                    122222


Q ss_pred             HHHHHHHhhhC----CCccCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhC
Q 048743          557 WGDIKRNIESG----VLAVSRDLYETLLLNFLQGGYFERVMEVIGYMKKQ  602 (653)
Q Consensus       557 ~~~~~~~~~~~----~~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~  602 (653)
                      ...+.   ...    .-.++......+++.|...|+.++|.++++.+.+.
T Consensus       285 ~~~~~---~~~~~~~~~~~s~~al~~l~d~~~~~~~~~~a~~~~~~l~~~  331 (349)
T 3q7a_A          285 GFPMP---SDPLPEDTPLPVPLALEYLADSFIEQNRVDDAAKVFEKLSSE  331 (349)
T ss_dssp             -CCCC---C-CCCSSCCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             HHHHH---hcccccccCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHhh
Confidence            21121   111    11467888899999999999999999999998643

>2c2l_A CHIP, carboxy terminus of HSP70-interacting protein; chaperone, E3 ligase, ubiquitinylation, TPR, heat-shock protein complex; 3.3A {Mus musculus} SCOP: a.118.8.1 g.44.1.2

Probab=97.92  E-value=0.00016  Score=68.90  Aligned_cols=190  Identities=9%  Similarity=-0.070  Sum_probs=129.3

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 048743          343 SNRAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTYKSLL  422 (653)
Q Consensus       343 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li  422 (653)
                      +...+..+-..+.+.|++++|...|++.....  |.+...|..+...|.+.|++++|...+++..+.. +-+...+..+.
T Consensus         3 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg   79 (281)
T 2c2l_A            3 SAQELKEQGNRLFVGRKYPEAAACYGRAITRN--PLVAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLG   79 (281)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSC-TTCHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCCHHHHHHHH
Confidence            44567788889999999999999999999887  7788889999999999999999999999998753 34678899999


Q ss_pred             HHHHHcCChHHHHHHHHHHHHcCCccCc---hhhHHHHhhHHHHhhhcccccccccccCCHHHHHHHHHHHHHccCCCCH
Q 048743          423 TAYYKVKMFREAEALLKQMRKSCLVQNL---SCEMVVSERFSEVADKSASFTDTSSLMDKSDLAESLIQEMREEAALSTI  499 (653)
Q Consensus       423 ~~~~~~~~~~~a~~~~~~m~~~~~~p~~---~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~p~~  499 (653)
                      .+|...|++++|...|+...+.  .|+.   ....+.. .+                  ....+ ..+.........++.
T Consensus        80 ~~~~~~g~~~~A~~~~~~al~l--~p~~~~~~~~~~~~-~~------------------~~~~~-~~~~~~~~~~~~~~~  137 (281)
T 2c2l_A           80 QCQLEMESYDEAIANLQRAYSL--AKEQRLNFGDDIPS-AL------------------RIAKK-KRWNSIEERRIHQES  137 (281)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH--HHHTTCCCCSHHHH-HH------------------HHHHH-HHHHHHHHTCCCCCC
T ss_pred             HHHHHcCCHHHHHHHHHHHHHh--CccchhhHHHHHHH-HH------------------HHHHH-HHHHHHHHHHHhhhH
Confidence            9999999999999999998763  3432   1111111 00                  00111 112223333333344


Q ss_pred             HHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHH-HHhcc-CCHHHHHHHHHHHH
Q 048743          500 YKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRPTVETFYYLVY-GHSSL-EMYRDITILWGDIK  561 (653)
Q Consensus       500 ~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~-~~~~~-~~~~~a~~~~~~~~  561 (653)
                      .....+-. + ..|+.++|++.+++..+.  .|+......-+. .+.+. +.+++|.++|..+.
T Consensus       138 ~i~~~l~~-l-~~~~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~~~~~~~a~~~f~~a~  197 (281)
T 2c2l_A          138 ELHSYLTR-L-IAAERERELEECQRNHEG--HEDDGHIRAQQACIEAKHDKYMADMDELFSQVD  197 (281)
T ss_dssp             HHHHHHHH-H-HHHHHHHHHTTTSGGGTT--TSCHHHHTHHHHHHHHHHHHHHHHHHHHHHHSS
T ss_pred             HHHHHHHH-H-HHHHHHHHHHHHHhhhcc--ccchhhhhhHHHHHHHHHHHHHHHHHHHHHhhh
Confidence            44433322 2 368889998888876653  566543333333 33333 56778888887654

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=97.90  E-value=0.00027  Score=58.09  Aligned_cols=101  Identities=12%  Similarity=0.002  Sum_probs=87.6

Q ss_pred             CCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHH
Q 048743          341 LHSNRAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTYKS  420 (653)
Q Consensus       341 ~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~  420 (653)
                      ..+...|..+...+.+.|++++|...|++..+..  +.+...+..+...+...|++++|...+++..+.. +.+...+..
T Consensus        13 ~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~--~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~   89 (133)
T 2lni_A           13 PDLALMVKNKGNECFQKGDYPQAMKHYTEAIKRN--PKDAKLYSNRAACYTKLLEFQLALKDCEECIQLE-PTFIKGYTR   89 (133)
T ss_dssp             SCHHHHHHHHHHHHHHTTCSHHHHHHHHHHHTTC--TTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHC-TTCHHHHHH
T ss_pred             cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC--CCcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCchHHHHH
Confidence            3455688899999999999999999999998876  6677778999999999999999999999988753 346788889


Q ss_pred             HHHHHHHcCChHHHHHHHHHHHHc
Q 048743          421 LLTAYYKVKMFREAEALLKQMRKS  444 (653)
Q Consensus       421 li~~~~~~~~~~~a~~~~~~m~~~  444 (653)
                      +..++.+.|++++|...|++..+.
T Consensus        90 la~~~~~~~~~~~A~~~~~~~~~~  113 (133)
T 2lni_A           90 KAAALEAMKDYTKAMDVYQKALDL  113 (133)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhHHHHHHHHHHHHHh
Confidence            999999999999999999998774

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=97.89  E-value=0.00029  Score=57.62  Aligned_cols=99  Identities=14%  Similarity=0.010  Sum_probs=83.2

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 048743          343 SNRAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTYKSLL  422 (653)
Q Consensus       343 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li  422 (653)
                      +...+..+...+...|++++|...|++.....  +.+...|..+...+...|++++|...+++..+.. +.+...+..+.
T Consensus        11 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~   87 (131)
T 2vyi_A           11 EAERLKTEGNEQMKVENFEAAVHFYGKAIELN--PANAVYFCNRAAAYSKLGNYAGAVQDCERAICID-PAYSKAYGRMG   87 (131)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHccCHHHHHHHHHHHHHcC--CCCHHHHHHHHHHHHHhhchHHHHHHHHHHHhcC-ccCHHHHHHHH
Confidence            34567788888899999999999999988876  6677778889999999999999999999987753 33577888888


Q ss_pred             HHHHHcCChHHHHHHHHHHHHc
Q 048743          423 TAYYKVKMFREAEALLKQMRKS  444 (653)
Q Consensus       423 ~~~~~~~~~~~a~~~~~~m~~~  444 (653)
                      ..+...|++++|...|++..+.
T Consensus        88 ~~~~~~~~~~~A~~~~~~~~~~  109 (131)
T 2vyi_A           88 LALSSLNKHVEAVAYYKKALEL  109 (131)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHhCCHHHHHHHHHHHHhc
Confidence            8999999999999999888774

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=97.89  E-value=0.00024  Score=58.10  Aligned_cols=119  Identities=13%  Similarity=-0.050  Sum_probs=97.8

Q ss_pred             hHHHHHHHHhhhccCCHHHHHHHHHHhcccCCCCCCchhhhcccccchhccCCCcccchhhhccchhhhHHHHHHhhhhh
Q 048743          250 QQFYESLLSLHFKFDDIDAAGELILDMNRYREPLPNPKLRQDAQKPYLISIGSPNLRCGLKLQIMPELLEKDSILKMEGK  329 (653)
Q Consensus       250 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  329 (653)
                      ...+..+...+...|++++|...|++....                                                  
T Consensus        12 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--------------------------------------------------   41 (131)
T 2vyi_A           12 AERLKTEGNEQMKVENFEAAVHFYGKAIEL--------------------------------------------------   41 (131)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--------------------------------------------------
T ss_pred             hHHHHHHHHHHHHccCHHHHHHHHHHHHHc--------------------------------------------------
Confidence            446788888889999999999999988320                                                  


Q ss_pred             HHHHHHhcCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHC
Q 048743          330 QELVLFRNGKLLHSNRAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELA  409 (653)
Q Consensus       330 ~~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  409 (653)
                                .+.+...+..+...+...|++++|...+++.....  +.+...+..+...+.+.|++++|...|++..+.
T Consensus        42 ----------~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~  109 (131)
T 2vyi_A           42 ----------NPANAVYFCNRAAAYSKLGNYAGAVQDCERAICID--PAYSKAYGRMGLALSSLNKHVEAVAYYKKALEL  109 (131)
T ss_dssp             ----------CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             ----------CCCCHHHHHHHHHHHHHhhchHHHHHHHHHHHhcC--ccCHHHHHHHHHHHHHhCCHHHHHHHHHHHHhc
Confidence                      11245678888999999999999999999998876  677777999999999999999999999999876


Q ss_pred             CCCCCHHHHHHHHHHHHHcCCh
Q 048743          410 GHPMDSTTYKSLLTAYYKVKMF  431 (653)
Q Consensus       410 g~~p~~~~~~~li~~~~~~~~~  431 (653)
                      . +.+...+..+..++.+.|++
T Consensus       110 ~-p~~~~~~~~l~~~~~~~~~~  130 (131)
T 2vyi_A          110 D-PDNETYKSNLKIAELKLREA  130 (131)
T ss_dssp             S-TTCHHHHHHHHHHHHHHTTC
T ss_pred             C-ccchHHHHHHHHHHHHHhcC
Confidence            3 23677788888888877764

>2e2e_A Formate-dependent nitrite reductase complex NRFG; TPR, cytochrome C biogenesis, O157:H7 EDL933, formate- nitrite reductase complex, lyase; 2.05A {Escherichia coli}

Probab=97.88  E-value=0.00011  Score=64.34  Aligned_cols=121  Identities=10%  Similarity=0.035  Sum_probs=83.0

Q ss_pred             HhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH-HHHcCCh--
Q 048743          355 KKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTYKSLLTA-YYKVKMF--  431 (653)
Q Consensus       355 ~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~-~~~~~~~--  431 (653)
                      ...|++++|...+++.....  |.+...|..+...|...|++++|...|++..+.. +.+...+..+..+ +...|++  
T Consensus        21 ~~~~~~~~A~~~~~~al~~~--p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~l~~~~~~~~~   97 (177)
T 2e2e_A           21 ASQQNPEAQLQALQDKIRAN--PQNSEQWALLGEYYLWQNDYSNSLLAYRQALQLR-GENAELYAALATVLYYQASQHMT   97 (177)
T ss_dssp             C-----CCCCHHHHHHHHHC--CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH-CSCHHHHHHHHHHHHHHTTTCCC
T ss_pred             hhccCHHHHHHHHHHHHHhC--CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhcCCcch
Confidence            34677788888888777766  6666678888888888888888888888876643 2356666666666 6677776  


Q ss_pred             HHHHHHHHHHHHcCCccCchhhHHHHhhHHHHhhhcccccccccccCCHHHHHHHHHHHHHccCCCCHHHHHHHHHHHHc
Q 048743          432 REAEALLKQMRKSCLVQNLSCEMVVSERFSEVADKSASFTDTSSLMDKSDLAESLIQEMREEAALSTIYKLNSSIYFFCK  511 (653)
Q Consensus       432 ~~a~~~~~~m~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~y~~li~~~~~  511 (653)
                      ++|...|+...+.  .|+                                                +...|..+...|..
T Consensus        98 ~~A~~~~~~al~~--~p~------------------------------------------------~~~~~~~la~~~~~  127 (177)
T 2e2e_A           98 AQTRAMIDKALAL--DSN------------------------------------------------EITALMLLASDAFM  127 (177)
T ss_dssp             HHHHHHHHHHHHH--CTT------------------------------------------------CHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHh--CCC------------------------------------------------cHHHHHHHHHHHHH
Confidence            7777777776653  233                                                34556667777788


Q ss_pred             CCCHHHHHHHHHHHHhc
Q 048743          512 GKMIGDALKIYRRMQEM  528 (653)
Q Consensus       512 ~g~~~~a~~~~~~m~~~  528 (653)
                      .|++++|...|++..+.
T Consensus       128 ~g~~~~A~~~~~~al~~  144 (177)
T 2e2e_A          128 QANYAQAIELWQKVMDL  144 (177)
T ss_dssp             TTCHHHHHHHHHHHHHT
T ss_pred             cccHHHHHHHHHHHHhh
Confidence            88888888888887764

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=97.88  E-value=0.00024  Score=60.28  Aligned_cols=102  Identities=10%  Similarity=-0.087  Sum_probs=85.3

Q ss_pred             hHHHHHHHHhhhccCCHHHHHHHHHHhcccCCCCCCchhhhcccccchhccCCCcccchhhhccchhhhHHHHHHhhhhh
Q 048743          250 QQFYESLLSLHFKFDDIDAAGELILDMNRYREPLPNPKLRQDAQKPYLISIGSPNLRCGLKLQIMPELLEKDSILKMEGK  329 (653)
Q Consensus       250 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  329 (653)
                      ...+..+-..+.+.|++++|...|++...                                                   
T Consensus        36 ~~~~~~lg~~~~~~g~~~eA~~~~~~al~---------------------------------------------------   64 (151)
T 3gyz_A           36 MDDIYSYAYDFYNKGRIEEAEVFFRFLCI---------------------------------------------------   64 (151)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHH---------------------------------------------------
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHH---------------------------------------------------
Confidence            34577778888899999999999998832                                                   


Q ss_pred             HHHHHHhcCCCCC-CHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 048743          330 QELVLFRNGKLLH-SNRAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMEL  408 (653)
Q Consensus       330 ~~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  408 (653)
                                ..| +...|..+-.+|...|++++|+..|++..+..  |.+...|..+-.+|.+.|++++|...|++..+
T Consensus        65 ----------~~P~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~--P~~~~~~~~lg~~~~~lg~~~eA~~~~~~al~  132 (151)
T 3gyz_A           65 ----------YDFYNVDYIMGLAAIYQIKEQFQQAADLYAVAFALG--KNDYTPVFHTGQCQLRLKAPLKAKECFELVIQ  132 (151)
T ss_dssp             ----------HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--SSCCHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             ----------hCCCCHHHHHHHHHHHHHHccHHHHHHHHHHHHhhC--CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence                      234 45678889999999999999999999999888  77888899999999999999999999999987


Q ss_pred             CCCCCCHH
Q 048743          409 AGHPMDST  416 (653)
Q Consensus       409 ~g~~p~~~  416 (653)
                      ..  |+..
T Consensus       133 l~--~~~~  138 (151)
T 3gyz_A          133 HS--NDEK  138 (151)
T ss_dssp             HC--CCHH
T ss_pred             hC--CCHH
Confidence            53  5543

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=97.87  E-value=0.00031  Score=57.75  Aligned_cols=120  Identities=8%  Similarity=-0.154  Sum_probs=95.8

Q ss_pred             ccchhHHHHHHHHhhhccCCHHHHHHHHHHhcccCCCCCCchhhhcccccchhccCCCcccchhhhccchhhhHHHHHHh
Q 048743          246 AHHYQQFYESLLSLHFKFDDIDAAGELILDMNRYREPLPNPKLRQDAQKPYLISIGSPNLRCGLKLQIMPELLEKDSILK  325 (653)
Q Consensus       246 ~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  325 (653)
                      ...+...+..+...+.+.|++++|...|++..+                                               
T Consensus        12 ~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~-----------------------------------------------   44 (133)
T 2lni_A           12 NPDLALMVKNKGNECFQKGDYPQAMKHYTEAIK-----------------------------------------------   44 (133)
T ss_dssp             SSCHHHHHHHHHHHHHHTTCSHHHHHHHHHHHT-----------------------------------------------
T ss_pred             CcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHH-----------------------------------------------
Confidence            344556788899999999999999999998832                                               


Q ss_pred             hhhhHHHHHHhcCCCCC-CHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHH
Q 048743          326 MEGKQELVLFRNGKLLH-SNRAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILD  404 (653)
Q Consensus       326 ~~~~~~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~  404 (653)
                                    ..| +...+..+...+...|++++|...+++..+..  +.+...+..+...+.+.|++++|...|+
T Consensus        45 --------------~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~la~~~~~~~~~~~A~~~~~  108 (133)
T 2lni_A           45 --------------RNPKDAKLYSNRAACYTKLLEFQLALKDCEECIQLE--PTFIKGYTRKAAALEAMKDYTKAMDVYQ  108 (133)
T ss_dssp             --------------TCTTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             --------------cCCCcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC--CCchHHHHHHHHHHHHHhhHHHHHHHHH
Confidence                          122 45678888899999999999999999998877  6777789999999999999999999999


Q ss_pred             HHHHCCCCCCHHHHHHHHHHHHHcC
Q 048743          405 DMELAGHPMDSTTYKSLLTAYYKVK  429 (653)
Q Consensus       405 ~m~~~g~~p~~~~~~~li~~~~~~~  429 (653)
                      +..+... -+...+..+..++...|
T Consensus       109 ~~~~~~p-~~~~~~~~l~~~~~~~~  132 (133)
T 2lni_A          109 KALDLDS-SCKEAADGYQRCMMAQY  132 (133)
T ss_dssp             HHHHHCG-GGTHHHHHHHHHHHHHT
T ss_pred             HHHHhCC-CchHHHHHHHHHHHHhc
Confidence            9877532 23455666666665544

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=97.85  E-value=0.00039  Score=65.03  Aligned_cols=191  Identities=10%  Similarity=-0.144  Sum_probs=130.8

Q ss_pred             hcCChhhHHHHHHHHHhcCCCccHHH-HHHH-------HHHHHhcCChhhhHHHHHHhhhcCCCcc--------------
Q 048743          189 RFGSSLKGQHIMELMSQTGVVADAHS-IIIL-------AQIHEMNCQRDELKKFKCYIDQLSTPFA--------------  246 (653)
Q Consensus       189 ~~g~~~~a~~l~~~m~~~g~~p~~~t-~~~l-------l~~~~~~g~~~~a~~~~~~~~~~~~~~~--------------  246 (653)
                      ..++...|.+.|.+..+.  .|+..- |.-+       ...+.+.++..++...+..-....+...              
T Consensus        18 ~~~d~~~A~~~F~~a~~~--dP~~~Daw~g~~a~g~~~~~~L~~~~r~~~a~~~~~~~l~l~p~~l~a~~~~~g~y~~~~   95 (282)
T 4f3v_A           18 LPMSEARSLDLFTEITNY--DESACDAWIGRIRCGDTDRVTLFRAWYSRRNFGQLSGSVQISMSTLNARIAIGGLYGDIT   95 (282)
T ss_dssp             TTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHTTCCCHHHHHHHHHTGGGTTHHHHTTTCCGGGGCCEEECCTTTCCCE
T ss_pred             cCCCHHHHHHHHHHHHHh--ChhhhHHHHhHHHccCCcHHHHHHHHHHHHHHHHHHHHhcCChhhhhhhhccCCcccccc
Confidence            589999999999999976  454433 5555       4455555555555444444333211000              


Q ss_pred             ---cchhHHHHHHHHhhhccCCHHHHHHHHHHhcccCCCCCCchhhhcccccchhccCCCcccchhhhccchhhhHHHHH
Q 048743          247 ---HHYQQFYESLLSLHFKFDDIDAAGELILDMNRYREPLPNPKLRQDAQKPYLISIGSPNLRCGLKLQIMPELLEKDSI  323 (653)
Q Consensus       247 ---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  323 (653)
                         ..-..++-.+...+...|++++|.++|+.+..                                             
T Consensus        96 ~~v~~r~dl~LayA~~L~~~g~y~eA~~~l~~~~~---------------------------------------------  130 (282)
T 4f3v_A           96 YPVTSPLAITMGFAACEAAQGNYADAMEALEAAPV---------------------------------------------  130 (282)
T ss_dssp             EECSSHHHHHHHHHHHHHHHTCHHHHHHHHTSSCC---------------------------------------------
T ss_pred             cccCCHhHHHHHHHHHHHHCCCHHHHHHHHHHHHh---------------------------------------------
Confidence               00122345567778889999999999988821                                             


Q ss_pred             HhhhhhHHHHHHhcCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCC--CcccHHHHHHHHHHcCCHHHHHH
Q 048743          324 LKMEGKQELVLFRNGKLLHSNRAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFG--ESTLCSDVIDALIQLGFLEAAHD  401 (653)
Q Consensus       324 ~~~~~~~~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~--~~~~~~~li~~~~~~g~~~~a~~  401 (653)
                                      ..|+......+-..+.+.+++++|+..|+......  .+  ....+..+-.++.+.|++++|+.
T Consensus       131 ----------------~~p~~~~~~~~a~l~~~~~r~~dA~~~l~~a~~~~--d~~~~~~a~~~LG~al~~LG~~~eAl~  192 (282)
T 4f3v_A          131 ----------------AGSEHLVAWMKAVVYGAAERWTDVIDQVKSAGKWP--DKFLAGAAGVAHGVAAANLALFTEAER  192 (282)
T ss_dssp             ----------------TTCHHHHHHHHHHHHHHTTCHHHHHHHHTTGGGCS--CHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             ----------------cCCchHHHHHHHHHHHHcCCHHHHHHHHHHhhccC--CcccHHHHHHHHHHHHHHCCCHHHHHH
Confidence                            22443344455568889999999999998554322  11  12247888899999999999999


Q ss_pred             HHHHHHHCCCCCC--HHHHHHHHHHHHHcCChHHHHHHHHHHHHc
Q 048743          402 ILDDMELAGHPMD--STTYKSLLTAYYKVKMFREAEALLKQMRKS  444 (653)
Q Consensus       402 ~~~~m~~~g~~p~--~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  444 (653)
                      .|++.......|.  .......-.++.+.|+.++|..+|+++...
T Consensus       193 ~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a~  237 (282)
T 4f3v_A          193 RLTEANDSPAGEACARAIAWYLAMARRSQGNESAAVALLEWLQTT  237 (282)
T ss_dssp             HHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHhcCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence            9999886443253  345666777899999999999999999885

>2e2e_A Formate-dependent nitrite reductase complex NRFG; TPR, cytochrome C biogenesis, O157:H7 EDL933, formate- nitrite reductase complex, lyase; 2.05A {Escherichia coli}

Probab=97.85  E-value=0.00028  Score=61.80  Aligned_cols=122  Identities=7%  Similarity=-0.006  Sum_probs=96.9

Q ss_pred             ccccCCHHHHHHHHHHHHHccCCC-CHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHH-HhccCCH-
Q 048743          474 SSLMDKSDLAESLIQEMREEAALS-TIYKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRPTVETFYYLVYG-HSSLEMY-  550 (653)
Q Consensus       474 ~~~~~~~~~a~~~~~~m~~~~~~p-~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~-~~~~~~~-  550 (653)
                      +...|++++|...+++..+..  | +...|..+...|...|++++|+..|++..+.. +.+...+..+..+ +...|++ 
T Consensus        20 ~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~l~~~~~~~~   96 (177)
T 2e2e_A           20 FASQQNPEAQLQALQDKIRAN--PQNSEQWALLGEYYLWQNDYSNSLLAYRQALQLR-GENAELYAALATVLYYQASQHM   96 (177)
T ss_dssp             CC-----CCCCHHHHHHHHHC--CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH-CSCHHHHHHHHHHHHHHTTTCC
T ss_pred             hhhccCHHHHHHHHHHHHHhC--CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhcCCcc
Confidence            456789999999999888765  4 77889999999999999999999999998753 2356677777888 7789998 


Q ss_pred             -HHHHHHHHHHHHHhhhCCCccCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhCC
Q 048743          551 -RDITILWGDIKRNIESGVLAVSRDLYETLLLNFLQGGYFERVMEVIGYMKKQN  603 (653)
Q Consensus       551 -~~a~~~~~~~~~~~~~~~~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g  603 (653)
                       ++|...++.+.+.     -+.+...+..+...|...|++++|...+++..+..
T Consensus        97 ~~~A~~~~~~al~~-----~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~  145 (177)
T 2e2e_A           97 TAQTRAMIDKALAL-----DSNEITALMLLASDAFMQANYAQAIELWQKVMDLN  145 (177)
T ss_dssp             CHHHHHHHHHHHHH-----CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTC
T ss_pred             hHHHHHHHHHHHHh-----CCCcHHHHHHHHHHHHHcccHHHHHHHHHHHHhhC
Confidence             9999999988743     12356778888999999999999999999998653

>1p5q_A FKBP52, FK506-binding protein 4; isomerase; 2.80A {Homo sapiens} SCOP: a.118.8.1 d.26.1.1 PDB: 1qz2_A

Probab=97.85  E-value=0.0002  Score=70.32  Aligned_cols=145  Identities=12%  Similarity=-0.076  Sum_probs=109.8

Q ss_pred             hHHHHHHHHhhhccCCHHHHHHHHHHhcccCCCCCCchhhhcccccchhccCCCcccchhhhccchhhhHHHHHHhhhhh
Q 048743          250 QQFYESLLSLHFKFDDIDAAGELILDMNRYREPLPNPKLRQDAQKPYLISIGSPNLRCGLKLQIMPELLEKDSILKMEGK  329 (653)
Q Consensus       250 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  329 (653)
                      ...+..+-..|.+.|++++|...|++..+.....+..                   .        .+..           
T Consensus       147 a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~p~~~~~-------------------~--------~~~~-----------  188 (336)
T 1p5q_A          147 STIVKERGTVYFKEGKYKQALLQYKKIVSWLEYESSF-------------------S--------NEEA-----------  188 (336)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCC-------------------C--------SHHH-----------
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHhhccccC-------------------C--------hHHH-----------
Confidence            3468888889999999999999999884311100000                   0        0000           


Q ss_pred             HHHHHHhcCCCCC-CHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 048743          330 QELVLFRNGKLLH-SNRAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMEL  408 (653)
Q Consensus       330 ~~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  408 (653)
                              ....| ....|..+-.+|.+.|++++|+..+++..+..  |.+...|..+..+|...|++++|...|++..+
T Consensus       189 --------~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~--p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~  258 (336)
T 1p5q_A          189 --------QKAQALRLASHLNLAMCHLKLQAFSAAIESCNKALELD--SNNEKGLSRRGEAHLAVNDFELARADFQKVLQ  258 (336)
T ss_dssp             --------HHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             --------HHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence                    00000 13578889999999999999999999999987  78888899999999999999999999999987


Q ss_pred             CCCCCCHHHHHHHHHHHHHcCChHHH-HHHHHHHHH
Q 048743          409 AGHPMDSTTYKSLLTAYYKVKMFREA-EALLKQMRK  443 (653)
Q Consensus       409 ~g~~p~~~~~~~li~~~~~~~~~~~a-~~~~~~m~~  443 (653)
                      .. +-+...+..+..++.+.|++++| ..+|+.|..
T Consensus       259 l~-P~~~~a~~~l~~~~~~~~~~~~a~~~~~~~~~~  293 (336)
T 1p5q_A          259 LY-PNNKAAKTQLAVCQQRIRRQLAREKKLYANMFE  293 (336)
T ss_dssp             HC-SSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HC-CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            53 33678889999999999999988 456777764

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=97.80  E-value=0.00067  Score=58.48  Aligned_cols=103  Identities=14%  Similarity=0.019  Sum_probs=90.8

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 048743          343 SNRAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTYKSLL  422 (653)
Q Consensus       343 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li  422 (653)
                      +...|..+-..+.+.|++++|+..|++..+..  +.+...|..+..+|.+.|++++|...|++..+.. +-+...|..+.
T Consensus        10 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg   86 (164)
T 3sz7_A           10 ESDKLKSEGNAAMARKEYSKAIDLYTQALSIA--PANPIYLSNRAAAYSASGQHEKAAEDAELATVVD-PKYSKAWSRLG   86 (164)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CcCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHH
Confidence            44577888899999999999999999999887  7788889999999999999999999999998764 33688999999


Q ss_pred             HHHHHcCChHHHHHHHHHHHHcCCccCc
Q 048743          423 TAYYKVKMFREAEALLKQMRKSCLVQNL  450 (653)
Q Consensus       423 ~~~~~~~~~~~a~~~~~~m~~~~~~p~~  450 (653)
                      .+|...|++++|...|++..+.  .|+.
T Consensus        87 ~~~~~~g~~~~A~~~~~~al~~--~p~~  112 (164)
T 3sz7_A           87 LARFDMADYKGAKEAYEKGIEA--EGNG  112 (164)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH--HSSS
T ss_pred             HHHHHccCHHHHHHHHHHHHHh--CCCc
Confidence            9999999999999999999874  4554

>2vgx_A Chaperone SYCD; alternative dimer assembly, tetratricopeptide repeat, type III secretion; HET: MLY; 1.95A {Yersinia enterocolitica} SCOP: k.38.1.1 PDB: 2vgx_B* 2vgy_A*

Probab=97.80  E-value=0.00026  Score=59.94  Aligned_cols=97  Identities=9%  Similarity=-0.032  Sum_probs=86.2

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 048743          345 RAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTYKSLLTA  424 (653)
Q Consensus       345 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~  424 (653)
                      ..+..+-..+.+.|++++|...|++.....  |.+...|..+..+|...|++++|...|++..... +.+...|..+-.+
T Consensus        22 ~~~~~~g~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~~~~~lg~~   98 (148)
T 2vgx_A           22 EQLYSLAFNQYQSGXYEDAHXVFQALCVLD--HYDSRFFLGLGACRQAMGQYDLAIHSYSYGAVMD-IXEPRFPFHAAEC   98 (148)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHHcC--cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCchHHHHHHHH
Confidence            466778888999999999999999999887  8888889999999999999999999999998754 2367788889999


Q ss_pred             HHHcCChHHHHHHHHHHHHc
Q 048743          425 YYKVKMFREAEALLKQMRKS  444 (653)
Q Consensus       425 ~~~~~~~~~a~~~~~~m~~~  444 (653)
                      |...|++++|...|+...+.
T Consensus        99 ~~~~g~~~~A~~~~~~al~~  118 (148)
T 2vgx_A           99 LLQXGELAEAESGLFLAQEL  118 (148)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHH
Confidence            99999999999999998873

>3upv_A Heat shock protein STI1; TPR-fold, adaptor protein for HSP70 and HSP90, C-terminal PA HSP70, peptide binding protein; 1.60A {Saccharomyces cerevisiae}

Probab=97.80  E-value=0.00036  Score=57.02  Aligned_cols=97  Identities=16%  Similarity=0.009  Sum_probs=86.6

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 048743          345 RAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTYKSLLTA  424 (653)
Q Consensus       345 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~  424 (653)
                      ..|..+-..+.+.|++++|...|++..+..  |.+...|..+..+|.+.|++++|...|++..+.. +-+...|..+..+
T Consensus         5 ~~~~~~g~~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~   81 (126)
T 3upv_A            5 EEARLEGKEYFTKSDWPNAVKAYTEMIKRA--PEDARGYSNRAAALAKLMSFPEAIADCNKAIEKD-PNFVRAYIRKATA   81 (126)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHhC--CCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCcHHHHHHHHHH
Confidence            456778888999999999999999999887  7788889999999999999999999999998764 3367889999999


Q ss_pred             HHHcCChHHHHHHHHHHHHc
Q 048743          425 YYKVKMFREAEALLKQMRKS  444 (653)
Q Consensus       425 ~~~~~~~~~a~~~~~~m~~~  444 (653)
                      +...|++++|...|++..+.
T Consensus        82 ~~~~~~~~~A~~~~~~al~~  101 (126)
T 3upv_A           82 QIAVKEYASALETLDAARTK  101 (126)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHhCHHHHHHHHHHHHHh
Confidence            99999999999999998874

>3q49_B STIP1 homology and U box-containing protein 1; E3 ubiquitin ligase, ligase-chaperone complex; 1.54A {Mus musculus} PDB: 3q47_B 3q4a_B*

Probab=97.78  E-value=0.00051  Score=56.91  Aligned_cols=100  Identities=11%  Similarity=-0.098  Sum_probs=89.6

Q ss_pred             CCHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHH
Q 048743          342 HSNRAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTYKSL  421 (653)
Q Consensus       342 p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~l  421 (653)
                      .+...|..+-..+...|++++|...|++.....  |.+...|..+...+...|++++|...|++..+.. +.+...|..+
T Consensus         7 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l   83 (137)
T 3q49_B            7 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRN--PLVAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFL   83 (137)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHhCcHHHHHHHHHHHHhhC--cCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-chhHHHHHHH
Confidence            466788899999999999999999999998887  7777889999999999999999999999998764 3368889999


Q ss_pred             HHHHHHcCChHHHHHHHHHHHHc
Q 048743          422 LTAYYKVKMFREAEALLKQMRKS  444 (653)
Q Consensus       422 i~~~~~~~~~~~a~~~~~~m~~~  444 (653)
                      ..+|...|++++|...|+...+.
T Consensus        84 ~~~~~~~~~~~~A~~~~~~a~~~  106 (137)
T 3q49_B           84 GQCQLEMESYDEAIANLQRAYSL  106 (137)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhHHHHHHHHHHHHHH
Confidence            99999999999999999998874

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=97.78  E-value=0.0003  Score=58.99  Aligned_cols=97  Identities=11%  Similarity=-0.023  Sum_probs=85.6

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 048743          345 RAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTYKSLLTA  424 (653)
Q Consensus       345 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~  424 (653)
                      ..+..+-..+.+.|++++|...|++.....  |.+...|..+..+|.+.|++++|...|++..+.. +-+...|..+..+
T Consensus        19 ~~~~~~a~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~   95 (142)
T 2xcb_A           19 EQLYALGFNQYQAGKWDDAQKIFQALCMLD--HYDARYFLGLGACRQSLGLYEQALQSYSYGALMD-INEPRFPFHAAEC   95 (142)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccHHHHHHHHHHHHHhC--CccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCcHHHHHHHHH
Confidence            355667778889999999999999999888  8888889999999999999999999999998764 3366788889999


Q ss_pred             HHHcCChHHHHHHHHHHHHc
Q 048743          425 YYKVKMFREAEALLKQMRKS  444 (653)
Q Consensus       425 ~~~~~~~~~a~~~~~~m~~~  444 (653)
                      |...|++++|...|+...+.
T Consensus        96 ~~~~g~~~~A~~~~~~al~~  115 (142)
T 2xcb_A           96 HLQLGDLDGAESGFYSARAL  115 (142)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHh
Confidence            99999999999999998874

>1p5q_A FKBP52, FK506-binding protein 4; isomerase; 2.80A {Homo sapiens} SCOP: a.118.8.1 d.26.1.1 PDB: 1qz2_A

Probab=97.77  E-value=0.00052  Score=67.34  Aligned_cols=97  Identities=14%  Similarity=-0.007  Sum_probs=74.4

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCC---------------cccHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 048743          344 NRAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGE---------------STLCSDVIDALIQLGFLEAAHDILDDMEL  408 (653)
Q Consensus       344 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~---------------~~~~~~li~~~~~~g~~~~a~~~~~~m~~  408 (653)
                      ...|..+-..+.+.|++++|...|++.....  +.+               ...|..+..+|.+.|++++|...|++..+
T Consensus       147 a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~--p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~  224 (336)
T 1p5q_A          147 STIVKERGTVYFKEGKYKQALLQYKKIVSWL--EYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAFSAAIESCNKALE  224 (336)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHT--TTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHh--hccccCChHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            3467788888889999999999999988876  444               35577777888888888888888888776


Q ss_pred             CCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHH
Q 048743          409 AGHPMDSTTYKSLLTAYYKVKMFREAEALLKQMRK  443 (653)
Q Consensus       409 ~g~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  443 (653)
                      .. +.+...|..+-.+|...|++++|...|++..+
T Consensus       225 ~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~  258 (336)
T 1p5q_A          225 LD-SNNEKGLSRRGEAHLAVNDFELARADFQKVLQ  258 (336)
T ss_dssp             HC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             hC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            53 23667777777778888888888888777766

>2c2l_A CHIP, carboxy terminus of HSP70-interacting protein; chaperone, E3 ligase, ubiquitinylation, TPR, heat-shock protein complex; 3.3A {Mus musculus} SCOP: a.118.8.1 g.44.1.2

Probab=97.77  E-value=0.00038  Score=66.34  Aligned_cols=96  Identities=7%  Similarity=-0.237  Sum_probs=81.5

Q ss_pred             chhhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCc-cHHHHHHHHHHHHhcCChhhhHHHHHHhhhcCCCcccchhHHHH
Q 048743          176 DTMIFNLVLHACVRFGSSLKGQHIMELMSQTGVVA-DAHSIIILAQIHEMNCQRDELKKFKCYIDQLSTPFAHHYQQFYE  254 (653)
Q Consensus       176 ~~~~yn~li~~~~~~g~~~~a~~l~~~m~~~g~~p-~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~  254 (653)
                      +...+..+...+.+.|++++|...|+...+.  .| +...|..+..++.+.|++++|.+.++...+..+..    ...+.
T Consensus         3 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~~----~~~~~   76 (281)
T 2c2l_A            3 SAQELKEQGNRLFVGRKYPEAAACYGRAITR--NPLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQS----VKAHF   76 (281)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCTTC----HHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCC----HHHHH
Confidence            4567778888999999999999999999876  45 55668889999999999999999999988765333    34688


Q ss_pred             HHHHhhhccCCHHHHHHHHHHhc
Q 048743          255 SLLSLHFKFDDIDAAGELILDMN  277 (653)
Q Consensus       255 ~li~~~~~~g~~~~A~~~~~~m~  277 (653)
                      .+..+|...|++++|...|++..
T Consensus        77 ~lg~~~~~~g~~~~A~~~~~~al   99 (281)
T 2c2l_A           77 FLGQCQLEMESYDEAIANLQRAY   99 (281)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHH
Confidence            99999999999999999999873

>1elw_A TPR1-domain of HOP; HOP, TPR-domain, peptide-complex, helical repeat, HSP70, protein binding, chaperone; 1.60A {Homo sapiens} SCOP: a.118.8.1

Probab=97.73  E-value=0.00049  Score=54.94  Aligned_cols=102  Identities=16%  Similarity=-0.038  Sum_probs=88.1

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 048743          344 NRAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTYKSLLT  423 (653)
Q Consensus       344 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~  423 (653)
                      ...+..+...+...|++++|...|++.....  |.+...+..+...+...|++++|...+++..+.. +.+...+..+..
T Consensus         4 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~   80 (118)
T 1elw_A            4 VNELKEKGNKALSVGNIDDALQCYSEAIKLD--PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK-PDWGKGYSRKAA   80 (118)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcccHHHHHHHHHHHHHHC--CCcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhC-cccHHHHHHHHH
Confidence            3467788889999999999999999998877  7777789999999999999999999999998753 336788999999


Q ss_pred             HHHHcCChHHHHHHHHHHHHcCCccCc
Q 048743          424 AYYKVKMFREAEALLKQMRKSCLVQNL  450 (653)
Q Consensus       424 ~~~~~~~~~~a~~~~~~m~~~~~~p~~  450 (653)
                      ++...|++++|...++...+.  .|+.
T Consensus        81 ~~~~~~~~~~A~~~~~~~~~~--~~~~  105 (118)
T 1elw_A           81 ALEFLNRFEEAKRTYEEGLKH--EANN  105 (118)
T ss_dssp             HHHHTTCHHHHHHHHHHHHTT--CTTC
T ss_pred             HHHHHhhHHHHHHHHHHHHHc--CCCC
Confidence            999999999999999998763  4543

>3q7a_A Farnesyltransferase alpha subunit; protein prenyltransferase, transferase-transferase inhibitor; HET: SUC 3FX FPP 778; 2.00A {Cryptococcus neoformans} PDB: 3q73_A* 3q78_A* 3q79_A* 3q75_A* 3q7f_A* 3sfx_A* 3sfy_A*

Probab=97.73  E-value=0.0083  Score=58.02  Aligned_cols=182  Identities=7%  Similarity=-0.134  Sum_probs=130.0

Q ss_pred             HHHHHHHHHhcCChhhHHHHHHHHHhcCCCccHHH-HHHHHHHHHhcC-ChhhhHHHHHHhhhcCCCcccchhHHHHHHH
Q 048743          180 FNLVLHACVRFGSSLKGQHIMELMSQTGVVADAHS-IIILAQIHEMNC-QRDELKKFKCYIDQLSTPFAHHYQQFYESLL  257 (653)
Q Consensus       180 yn~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t-~~~ll~~~~~~g-~~~~a~~~~~~~~~~~~~~~~~~~~~~~~li  257 (653)
                      ++.+-....+.+..++|+++++.+...  .|+..| |+.--..+...| .++++.++++.+....+..-    .+|+---
T Consensus        57 ~~~~r~~~~~~e~se~AL~lt~~~L~~--nP~~ytaWn~R~~iL~~l~~~l~eEL~~~~~~L~~nPKny----~aW~hR~  130 (349)
T 3q7a_A           57 MDYFRAIAAKEEKSERALELTEIIVRM--NPAHYTVWQYRFSLLTSLNKSLEDELRLMNEFAVQNLKSY----QVWHHRL  130 (349)
T ss_dssp             HHHHHHHHHTTCCSHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTTCCCH----HHHHHHH
T ss_pred             HHHHHHHHHhCCCCHHHHHHHHHHHHh--CchhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhCCCcH----HHHHHHH
Confidence            334334444556668999999999975  677777 776666666677 59999999999887654332    2576666


Q ss_pred             Hhhhcc-C-CHHHHHHHHHHhcccCCCCCCchhhhcccccchhccCCCcccchhhhccchhhhHHHHHHhhhhhHHHHHH
Q 048743          258 SLHFKF-D-DIDAAGELILDMNRYREPLPNPKLRQDAQKPYLISIGSPNLRCGLKLQIMPELLEKDSILKMEGKQELVLF  335 (653)
Q Consensus       258 ~~~~~~-g-~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  335 (653)
                      ..+.+. + ++++++++++++.+                                                         
T Consensus       131 wlL~~l~~~~~~~EL~~~~k~L~---------------------------------------------------------  153 (349)
T 3q7a_A          131 LLLDRISPQDPVSEIEYIHGSLL---------------------------------------------------------  153 (349)
T ss_dssp             HHHHHHCCSCCHHHHHHHHHHTS---------------------------------------------------------
T ss_pred             HHHHHhcCCChHHHHHHHHHHHH---------------------------------------------------------
Confidence            666655 6 88999999999832                                                         


Q ss_pred             hcCCCCC-CHHHHHHHHHHHHhcCChH--------HHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCC-------HHHH
Q 048743          336 RNGKLLH-SNRAMAKLINGYKKHGKNS--------ELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGF-------LEAA  399 (653)
Q Consensus       336 ~~~~~~p-~~~~~~~li~~~~~~~~~~--------~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~-------~~~a  399 (653)
                          ..| +...|+.-.-.+.+.|.++        ++++.++++.+..  +.|...|+.....+.+.++       ++++
T Consensus       154 ----~dpkNy~AW~~R~wvl~~l~~~~~~~~~~~~eELe~~~k~I~~d--p~N~SAW~~R~~lL~~l~~~~~~~~~~~eE  227 (349)
T 3q7a_A          154 ----PDPKNYHTWAYLHWLYSHFSTLGRISEAQWGSELDWCNEMLRVD--GRNNSAWGWRWYLRVSRPGAETSSRSLQDE  227 (349)
T ss_dssp             ----SCTTCHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHTTSTTCCCCHHHHHHH
T ss_pred             ----hCCCCHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHhccccccchHHHHHH
Confidence                222 4456655444444444444        8999999999988  8888889998888888776       6888


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCh
Q 048743          400 HDILDDMELAGHPMDSTTYKSLLTAYYKVKMF  431 (653)
Q Consensus       400 ~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~  431 (653)
                      ++.+++...... -|...|+-+-..+.+.|+.
T Consensus       228 Le~~~~aI~~~P-~n~SaW~Ylr~Ll~~~~~~  258 (349)
T 3q7a_A          228 LIYILKSIHLIP-HNVSAWNYLRGFLKHFSLP  258 (349)
T ss_dssp             HHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCC
T ss_pred             HHHHHHHHHhCC-CCHHHHHHHHHHHHhcCCC
Confidence            888888877543 3788888777777666653

>2fbn_A 70 kDa peptidylprolyl isomerase, putative; sulfur SAD, PFL2275C, TPR-containing domain, structural genomics; 1.63A {Plasmodium falciparum} SCOP: a.118.8.1

Probab=97.72  E-value=7.5e-05  Score=66.98  Aligned_cols=98  Identities=17%  Similarity=0.076  Sum_probs=73.2

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 048743          345 RAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTYKSLLTA  424 (653)
Q Consensus       345 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~  424 (653)
                      ..|..+-.+|.+.|++++|+..+++.....  +.+...|..+..+|...|++++|...|++..+.. +-+...+..+..+
T Consensus        89 ~~~~~la~~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~  165 (198)
T 2fbn_A           89 SCNLNLATCYNKNKDYPKAIDHASKVLKID--KNNVKALYKLGVANMYFGFLEEAKENLYKAASLN-PNNLDIRNSYELC  165 (198)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHhC--cccHHHHHHHHHHHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHH
Confidence            567788888999999999999999998887  7777889999999999999999999999987753 2366778888888


Q ss_pred             HHHcCChHHHH-HHHHHHHHcC
Q 048743          425 YYKVKMFREAE-ALLKQMRKSC  445 (653)
Q Consensus       425 ~~~~~~~~~a~-~~~~~m~~~~  445 (653)
                      +...++.+++. ..|..|...+
T Consensus       166 ~~~~~~~~~~~~~~~~~~f~~~  187 (198)
T 2fbn_A          166 VNKLKEARKKDKLTFGGMFDKG  187 (198)
T ss_dssp             HHHHHHHHC-------------
T ss_pred             HHHHHHHHHHHHHHHHHHhccc
Confidence            88877777766 5566665543

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=97.71  E-value=0.00057  Score=55.90  Aligned_cols=109  Identities=12%  Similarity=-0.045  Sum_probs=89.4

Q ss_pred             ccchHHHHHHHHHHHHhccchhHHHHHHHHhhhhcCCCCchhHHHHHHHhhccCCcchhhhHHHHHHHHHhccCCchhHH
Q 048743           15 EGSSREVLLRKLESASKNHQVGEAWETFNDFQRLHGIPERHVVNRFITDLCYSAEPHWLQKACDLVLKIQKGKADLLQLD   94 (653)
Q Consensus        15 ~~p~~~~~~~~i~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~   94 (653)
                      ++-..+.+...-..+.+.|++++|++.|+...+. ...++..|..+-.++...|+   .++|+..+.+..+..+.  +..
T Consensus         9 nP~~a~~~~~~G~~~~~~g~~~~A~~~~~~al~~-~p~~~~~~~~~~~~~~~~~~---~~~A~~~~~~al~~~p~--~~~   82 (126)
T 4gco_A            9 NPELAQEEKNKGNEYFKKGDYPTAMRHYNEAVKR-DPENAILYSNRAACLTKLME---FQRALDDCDTCIRLDSK--FIK   82 (126)
T ss_dssp             CHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHTTC---HHHHHHHHHHHHHHCTT--CHH
T ss_pred             CHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-CCCCHHHHHHHhhHHHhhcc---HHHHHHHHHHHHHhhhh--hhH
Confidence            3345677888888999999999999999998874 22345688888888888888   79999999998776654  677


Q ss_pred             HHHHHHHHHHhcCCCchHHHHHHHHHcCccCCCchhH
Q 048743           95 LLAKLSLSLARAQMPVPASMILRLMLGRENLPCSDLL  131 (653)
Q Consensus        95 t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~  131 (653)
                      .|..+..+|...|++++|++.|++..+.  .|+....
T Consensus        83 a~~~lg~~~~~~~~~~~A~~~~~~al~l--~P~~~~a  117 (126)
T 4gco_A           83 GYIRKAACLVAMREWSKAQRAYEDALQV--DPSNEEA  117 (126)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHH--CcCCHHH
Confidence            8999999999999999999999999875  5665443

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=97.69  E-value=0.0003  Score=55.67  Aligned_cols=97  Identities=15%  Similarity=-0.089  Sum_probs=85.2

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCC--CHHHHHHHH
Q 048743          345 RAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPM--DSTTYKSLL  422 (653)
Q Consensus       345 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p--~~~~~~~li  422 (653)
                      ..+..+...+.+.|++++|...|++..+..  +.+...|..+...+...|++++|...|++..+.. +.  +...+..+.
T Consensus         7 ~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~~l~   83 (112)
T 2kck_A            7 EEYYLEGVLQYDAGNYTESIDLFEKAIQLD--PEESKYWLMKGKALYNLERYEEAVDCYNYVINVI-EDEYNKDVWAAKA   83 (112)
T ss_dssp             TGGGGHHHHHHSSCCHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTS-CCTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHHHhC--cCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-cccchHHHHHHHH
Confidence            356677888899999999999999998877  6777779999999999999999999999998763 23  578899999


Q ss_pred             HHHHHc-CChHHHHHHHHHHHHc
Q 048743          423 TAYYKV-KMFREAEALLKQMRKS  444 (653)
Q Consensus       423 ~~~~~~-~~~~~a~~~~~~m~~~  444 (653)
                      ..+.+. |++++|.+.++...+.
T Consensus        84 ~~~~~~~~~~~~A~~~~~~~~~~  106 (112)
T 2kck_A           84 DALRYIEGKEVEAEIAEARAKLE  106 (112)
T ss_dssp             HHHTTCSSCSHHHHHHHHHHGGG
T ss_pred             HHHHHHhCCHHHHHHHHHHHhhc
Confidence            999999 9999999999999875

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.68  E-value=0.0052  Score=62.50  Aligned_cols=206  Identities=8%  Similarity=-0.045  Sum_probs=137.7

Q ss_pred             HHHHHhcCChHHHHHHHHHHHhcCCCCCCcc---------------cHHHHHHHHHHcCCHHHHHHHHHHHHHCC-CCCC
Q 048743          351 INGYKKHGKNSELSWLLLSIKKEHHSFGEST---------------LCSDVIDALIQLGFLEAAHDILDDMELAG-HPMD  414 (653)
Q Consensus       351 i~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~---------------~~~~li~~~~~~g~~~~a~~~~~~m~~~g-~~p~  414 (653)
                      ...+.+.|++++|++.|.++.+......+..               .+..+...|.+.|++++|.+.+......- ..++
T Consensus        11 a~~l~~~~~y~eA~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~al~~l~~~y~~~~~~~~a~~~~~~~~~~~~~~~~   90 (434)
T 4b4t_Q           11 ARRLVNEKQYNEAEQVYLSLLDKDSSQSSAAAGASVDDKRRNEQETSILELGQLYVTMGAKDKLREFIPHSTEYMMQFAK   90 (434)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHSCCCSSSBSSSSSBCSHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHTHHHHHTSCH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHhhCcccchhHHHHHHHHHHhhhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccc
Confidence            3456789999999999999887652222211               26778999999999999999998875421 1122


Q ss_pred             HH----HHHHHHHHHHHcCChHHHHHHHHHHHHc----CCccCchhhHHHHhhHHHHhhhcccccccccccCCHHHHHHH
Q 048743          415 ST----TYKSLLTAYYKVKMFREAEALLKQMRKS----CLVQNLSCEMVVSERFSEVADKSASFTDTSSLMDKSDLAESL  486 (653)
Q Consensus       415 ~~----~~~~li~~~~~~~~~~~a~~~~~~m~~~----~~~p~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~a~~~  486 (653)
                      ..    +.+.+-..+...|++++|..+++.....    +..+..  ..+. ..+.          ..|...|++++|..+
T Consensus        91 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~--~~~~-~~la----------~~~~~~g~~~~A~~~  157 (434)
T 4b4t_Q           91 SKTVKVLKTLIEKFEQVPDSLDDQIFVCEKSIEFAKREKRVFLK--HSLS-IKLA----------TLHYQKKQYKDSLAL  157 (434)
T ss_dssp             HHHHHHHHHHHHHHCSCCSCHHHHHHHHHHHHHHHHHSSCCSSH--HHHH-HHHH----------HHHHHHTCHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhCccHHH--HHHH-HHHH----------HHHHHccChHHHHHH
Confidence            21    2222333344568899999999887652    111111  0111 0111          234458999999999


Q ss_pred             HHHHHHccC----CC-CHHHHHHHHHHHHcCCCHHHHHHHHHHHHhc--CCC-C-C--HHHHHHHHHHHhccCCHHHHHH
Q 048743          487 IQEMREEAA----LS-TIYKLNSSIYFFCKGKMIGDALKIYRRMQEM--KIR-P-T--VETFYYLVYGHSSLEMYRDITI  555 (653)
Q Consensus       487 ~~~m~~~~~----~p-~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~--g~~-p-~--~~t~~~li~~~~~~~~~~~a~~  555 (653)
                      +++....-.    .| ...+|..++..|...|++++|..++++....  .+. | .  ...+..+...+...+++++|..
T Consensus       158 l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~g~~~~~~~~y~~A~~  237 (434)
T 4b4t_Q          158 INDLLREFKKLDDKPSLVDVHLLESKVYHKLRNLAKSKASLTAARTAANSIYCPTQTVAELDLMSGILHCEDKDYKTAFS  237 (434)
T ss_dssp             HHHHHHHHTTSSCSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHTTSSSCHHHHHH
T ss_pred             HHHHHHHHHhcccchhHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHhhcCCCchHHHHHHHHHHHHHHHHHHhHHHHHH
Confidence            988764321    22 4567899999999999999999999987652  122 2 1  2456677778889999999999


Q ss_pred             HHHHHHHHhhhCCC
Q 048743          556 LWGDIKRNIESGVL  569 (653)
Q Consensus       556 ~~~~~~~~~~~~~~  569 (653)
                      .|.+..+.....+.
T Consensus       238 ~~~~a~~~~~~~~~  251 (434)
T 4b4t_Q          238 YFFESFESYHNLTT  251 (434)
T ss_dssp             HHHHHHHHHHHTTT
T ss_pred             HHHHHHHHhhhhhh
Confidence            99887765444443

>3dss_A Geranylgeranyl transferase type-2 subunit alpha; protein prenylation, metal-binding, prenyltransferase, zinc, phosphoprotein; 1.80A {Rattus norvegicus} PDB: 3dst_A* 3dsu_A* 3dsv_A* 3dsw_A* 3dsx_A* 3hxb_A* 3hxc_A* 3hxd_A* 3hxe_A* 3hxf_A* 3pz1_A* 3pz2_A* 3pz3_A* 3c72_A* 4gtv_A* 4gts_A* 4ehm_A* 4gtt_A*

Probab=97.68  E-value=0.021  Score=54.97  Aligned_cols=87  Identities=14%  Similarity=0.071  Sum_probs=53.1

Q ss_pred             HHhcCChH-HHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCC----------HHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 048743          354 YKKHGKNS-ELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGF----------LEAAHDILDDMELAGHPMDSTTYKSLL  422 (653)
Q Consensus       354 ~~~~~~~~-~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~----------~~~a~~~~~~m~~~g~~p~~~~~~~li  422 (653)
                      ..+.|.++ +|+.++..+...+  |.+.++|+.--..+...+.          +++++.+++.+.... +-+..+|+.--
T Consensus        39 ~~~~~e~s~eaL~~t~~~L~~n--P~~ytaWn~Rr~iL~~l~~~~~~~~~~~~l~~EL~~~~~~L~~~-PKny~aW~hR~  115 (331)
T 3dss_A           39 KRQAGELDESVLELTSQILGAN--PDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN-PKSYGTWHHRC  115 (331)
T ss_dssp             HHHTTCCSHHHHHHHHHHHTTC--TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             HHHcCCCCHHHHHHHHHHHHHC--chhHHHHHHHHHHHHHhcccccchhhhHHHHHHHHHHHHHHHhC-CCCHHHHHHHH
Confidence            34556654 7889998888877  7666666654333333322          456666666666543 23666666666


Q ss_pred             HHHHHcCC--hHHHHHHHHHHHH
Q 048743          423 TAYYKVKM--FREAEALLKQMRK  443 (653)
Q Consensus       423 ~~~~~~~~--~~~a~~~~~~m~~  443 (653)
                      ..+.+.++  +++++.+++.+.+
T Consensus       116 wlL~~l~~~~~~~EL~~~~k~l~  138 (331)
T 3dss_A          116 WLLSRLPEPNWARELELCARFLE  138 (331)
T ss_dssp             HHHHHCSSCCHHHHHHHHHHHHH
T ss_pred             HHHhccCcccHHHHHHHHHHHHH
Confidence            66666553  5666666666655

>4gcn_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; HET: PGE; 1.85A {Caenorhabditis elegans}

Probab=97.68  E-value=0.00036  Score=57.18  Aligned_cols=98  Identities=10%  Similarity=-0.029  Sum_probs=83.1

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCC--CCCC----HHHH
Q 048743          345 RAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAG--HPMD----STTY  418 (653)
Q Consensus       345 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g--~~p~----~~~~  418 (653)
                      ..+..+-..+.+.|++++|+..|++..+..  |.+...|..+-.+|.+.|++++|+..|++..+..  ..++    ..+|
T Consensus         9 ~a~~~lG~~~~~~~~~~~A~~~y~~Al~~~--p~~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~   86 (127)
T 4gcn_A            9 IAEKDLGNAAYKQKDFEKAHVHYDKAIELD--PSNITFYNNKAAVYFEEKKFAECVQFCEKAVEVGRETRADYKLIAKAM   86 (127)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCCHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhCcccchhhHHHHHHH
Confidence            356788889999999999999999999887  8888889999999999999999999999986532  1222    2467


Q ss_pred             HHHHHHHHHcCChHHHHHHHHHHHHc
Q 048743          419 KSLLTAYYKVKMFREAEALLKQMRKS  444 (653)
Q Consensus       419 ~~li~~~~~~~~~~~a~~~~~~m~~~  444 (653)
                      ..+-.++...|++++|.+.|++..+.
T Consensus        87 ~~lg~~~~~~~~~~~A~~~~~kal~~  112 (127)
T 4gcn_A           87 SRAGNAFQKQNDLSLAVQWFHRSLSE  112 (127)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            77888899999999999999998774

>3q49_B STIP1 homology and U box-containing protein 1; E3 ubiquitin ligase, ligase-chaperone complex; 1.54A {Mus musculus} PDB: 3q47_B 3q4a_B*

Probab=97.66  E-value=0.002  Score=53.14  Aligned_cols=94  Identities=9%  Similarity=-0.097  Sum_probs=37.1

Q ss_pred             HHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHHhhhCCCccCHHHHHHH
Q 048743          500 YKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRPTVETFYYLVYGHSSLEMYRDITILWGDIKRNIESGVLAVSRDLYETL  579 (653)
Q Consensus       500 ~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~p~~~~y~~l  579 (653)
                      ..|..+...+...|++++|+..|++..... +.+...|..+..++...|++++|...++...+.     -+.+...|..+
T Consensus        10 ~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~-----~p~~~~~~~~l   83 (137)
T 3q49_B           10 QELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALEL-----DGQSVKAHFFL   83 (137)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-----CTTCHHHHHHH
T ss_pred             HHHHHHHHHHHHhCcHHHHHHHHHHHHhhC-cCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh-----CchhHHHHHHH
Confidence            333444444444444444444444443321 112333344444444444444444444433321     01123334444


Q ss_pred             HHHHHhCCCHHHHHHHHHHH
Q 048743          580 LLNFLQGGYFERVMEVIGYM  599 (653)
Q Consensus       580 i~~~~~~g~~~~a~~~~~~m  599 (653)
                      ..++...|++++|.+.|++.
T Consensus        84 ~~~~~~~~~~~~A~~~~~~a  103 (137)
T 3q49_B           84 GQCQLEMESYDEAIANLQRA  103 (137)
T ss_dssp             HHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHhhHHHHHHHHHHH
Confidence            44444444444444444433

>2vgx_A Chaperone SYCD; alternative dimer assembly, tetratricopeptide repeat, type III secretion; HET: MLY; 1.95A {Yersinia enterocolitica} SCOP: k.38.1.1 PDB: 2vgx_B* 2vgy_A*

Probab=97.66  E-value=0.00043  Score=58.56  Aligned_cols=108  Identities=9%  Similarity=-0.130  Sum_probs=89.4

Q ss_pred             hcccccccchHHHHHHHHHHHHhccchhHHHHHHHHhhhhcCCCCchhHHHHHHHhhccCCcchhhhHHHHHHHHHhccC
Q 048743            9 QEKLSWEGSSREVLLRKLESASKNHQVGEAWETFNDFQRLHGIPERHVVNRFITDLCYSAEPHWLQKACDLVLKIQKGKA   88 (653)
Q Consensus         9 ~~~l~~~~p~~~~~~~~i~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~a~~~~~~~~~~~~   88 (653)
                      ...+...+.+...+..+...+.+.|++++|...|+...+. ...++..|..+-.++...|+   .++|+..|.+.....|
T Consensus        11 ~~al~~~p~~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~-~p~~~~~~~~lg~~~~~~g~---~~~A~~~~~~al~l~p   86 (148)
T 2vgx_A           11 AMLNEISSDTLEQLYSLAFNQYQSGXYEDAHXVFQALCVL-DHYDSRFFLGLGACRQAMGQ---YDLAIHSYSYGAVMDI   86 (148)
T ss_dssp             HHHTTCCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHTTC---HHHHHHHHHHHHHHST
T ss_pred             HHHHcCCHhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHc-CcccHHHHHHHHHHHHHHhh---HHHHHHHHHHHHhcCC
Confidence            3556666677888888899999999999999999998773 22345577777788888888   7999999999877665


Q ss_pred             CchhHHHHHHHHHHHHhcCCCchHHHHHHHHHcC
Q 048743           89 DLLQLDLLAKLSLSLARAQMPVPASMILRLMLGR  122 (653)
Q Consensus        89 ~~~~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~  122 (653)
                      .  +...|..+..+|...|++++|++.|+...+.
T Consensus        87 ~--~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~  118 (148)
T 2vgx_A           87 X--EPRFPFHAAECLLQXGELAEAESGLFLAQEL  118 (148)
T ss_dssp             T--CTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             C--CchHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            4  6678888999999999999999999998775

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=97.65  E-value=0.0005  Score=54.35  Aligned_cols=102  Identities=6%  Similarity=-0.037  Sum_probs=80.2

Q ss_pred             CHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHHhhhCCCccCHHHHH
Q 048743          498 TIYKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRPTVETFYYLVYGHSSLEMYRDITILWGDIKRNIESGVLAVSRDLYE  577 (653)
Q Consensus       498 ~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~p~~~~y~  577 (653)
                      +...|..+...+...|++++|+..|++..+.. +.+...+..+...+...|++++|...++...+.   ..-..+...+.
T Consensus         5 ~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~---~~~~~~~~~~~   80 (112)
T 2kck_A            5 NPEEYYLEGVLQYDAGNYTESIDLFEKAIQLD-PEESKYWLMKGKALYNLERYEEAVDCYNYVINV---IEDEYNKDVWA   80 (112)
T ss_dssp             STTGGGGHHHHHHSSCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT---SCCTTCHHHHH
T ss_pred             cHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHh---CcccchHHHHH
Confidence            45567778888899999999999999988753 235677888888899999999999999887632   11011577888


Q ss_pred             HHHHHHHhC-CCHHHHHHHHHHHHhCC
Q 048743          578 TLLLNFLQG-GYFERVMEVIGYMKKQN  603 (653)
Q Consensus       578 ~li~~~~~~-g~~~~a~~~~~~m~~~g  603 (653)
                      .+...+... |++++|.+.+++..+..
T Consensus        81 ~l~~~~~~~~~~~~~A~~~~~~~~~~~  107 (112)
T 2kck_A           81 AKADALRYIEGKEVEAEIAEARAKLEH  107 (112)
T ss_dssp             HHHHHHTTCSSCSHHHHHHHHHHGGGC
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHHhhcc
Confidence            888899999 99999999999887554

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=97.65  E-value=0.0013  Score=55.97  Aligned_cols=100  Identities=9%  Similarity=-0.068  Sum_probs=62.1

Q ss_pred             HHHHHHHHHHcCCCHHHHHHHHHHHHhcCC-CCC----HHHHHHHHHHHhccCCHHHHHHHHHHHHHHhhhCCCcc-CHH
Q 048743          501 KLNSSIYFFCKGKMIGDALKIYRRMQEMKI-RPT----VETFYYLVYGHSSLEMYRDITILWGDIKRNIESGVLAV-SRD  574 (653)
Q Consensus       501 ~y~~li~~~~~~g~~~~a~~~~~~m~~~g~-~p~----~~t~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~p-~~~  574 (653)
                      ++..+...|...|++++|.+.+++..+..- .++    ...+..+...+...|++++|..+++...+..+..+..+ ...
T Consensus        51 ~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~  130 (164)
T 3ro3_A           51 AYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGR  130 (164)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCcHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHccchHhHHH
Confidence            455666666777777777777776654210 011    33555666677777777777777777665443333222 234


Q ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHHH
Q 048743          575 LYETLLLNFLQGGYFERVMEVIGYMK  600 (653)
Q Consensus       575 ~y~~li~~~~~~g~~~~a~~~~~~m~  600 (653)
                      .+..+...+...|++++|.+.+++..
T Consensus       131 ~~~~la~~~~~~g~~~~A~~~~~~a~  156 (164)
T 3ro3_A          131 ACWSLGNAYTALGNHDQAMHFAEKHL  156 (164)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHH
Confidence            56667777778888888888777654

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=97.63  E-value=0.0011  Score=62.06  Aligned_cols=93  Identities=6%  Similarity=-0.092  Sum_probs=48.9

Q ss_pred             HHHHHHHHHhcCChhhHHHHHHHHHhcCCCccHHHHHHHHHHHHhcCChhhhHHHHHHhhhcCCCcccchhHHHHHHHHh
Q 048743          180 FNLVLHACVRFGSSLKGQHIMELMSQTGVVADAHSIIILAQIHEMNCQRDELKKFKCYIDQLSTPFAHHYQQFYESLLSL  259 (653)
Q Consensus       180 yn~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~li~~  259 (653)
                      +-.+...+...|++++|.++|+.+...+  |+....-.+...+.+.+++++++..++......++..  ...++..|-.+
T Consensus       105 ~LayA~~L~~~g~y~eA~~~l~~~~~~~--p~~~~~~~~a~l~~~~~r~~dA~~~l~~a~~~~d~~~--~~~a~~~LG~a  180 (282)
T 4f3v_A          105 TMGFAACEAAQGNYADAMEALEAAPVAG--SEHLVAWMKAVVYGAAERWTDVIDQVKSAGKWPDKFL--AGAAGVAHGVA  180 (282)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHTSSCCTT--CHHHHHHHHHHHHHHTTCHHHHHHHHTTGGGCSCHHH--HHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHhcC--CchHHHHHHHHHHHHcCCHHHHHHHHHHhhccCCccc--HHHHHHHHHHH
Confidence            3455677888999999999998887643  5444322333345555555555555543322211110  01133344444


Q ss_pred             hhccCCHHHHHHHHHHh
Q 048743          260 HFKFDDIDAAGELILDM  276 (653)
Q Consensus       260 ~~~~g~~~~A~~~~~~m  276 (653)
                      +...|++++|+..|++.
T Consensus       181 l~~LG~~~eAl~~l~~a  197 (282)
T 4f3v_A          181 AANLALFTEAERRLTEA  197 (282)
T ss_dssp             HHHTTCHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHH
Confidence            44445555555554444

>4gcn_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; HET: PGE; 1.85A {Caenorhabditis elegans}

Probab=97.63  E-value=0.0018  Score=52.98  Aligned_cols=110  Identities=6%  Similarity=-0.087  Sum_probs=83.1

Q ss_pred             HHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHHhhhCCCc-c-CHHHH
Q 048743          499 IYKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRPTVETFYYLVYGHSSLEMYRDITILWGDIKRNIESGVLA-V-SRDLY  576 (653)
Q Consensus       499 ~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-p-~~~~y  576 (653)
                      ...+..+-..+.+.|++++|++.|++.++.. +-+...|..+-.+|...|++++|++.++...+.-...... + -..+|
T Consensus         8 A~a~~~lG~~~~~~~~~~~A~~~y~~Al~~~-p~~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~   86 (127)
T 4gcn_A            8 AIAEKDLGNAAYKQKDFEKAHVHYDKAIELD-PSNITFYNNKAAVYFEEKKFAECVQFCEKAVEVGRETRADYKLIAKAM   86 (127)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhCcccchhhHHHHHHH
Confidence            3457778888999999999999999988753 2246778889999999999999999999876442221111 1 12467


Q ss_pred             HHHHHHHHhCCCHHHHHHHHHHHHhCCCCCCHHhH
Q 048743          577 ETLLLNFLQGGYFERVMEVIGYMKKQNMYVDKLMY  611 (653)
Q Consensus       577 ~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~  611 (653)
                      ..+-.++...|++++|++.|++..+.  .||..+.
T Consensus        87 ~~lg~~~~~~~~~~~A~~~~~kal~~--~~~~~~~  119 (127)
T 4gcn_A           87 SRAGNAFQKQNDLSLAVQWFHRSLSE--FRDPELV  119 (127)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHH--SCCHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHhh--CcCHHHH
Confidence            77888899999999999999988753  4665443

>1elr_A TPR2A-domain of HOP; HOP, TPR-domain, peptide-complex, helical repeat, protein binding, chaperone; 1.90A {Homo sapiens} SCOP: a.118.8.1 PDB: 3esk_A 3fwv_A

Probab=97.62  E-value=0.00065  Score=55.44  Aligned_cols=109  Identities=11%  Similarity=-0.002  Sum_probs=86.3

Q ss_pred             HHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHHhhhCCCccC----HH
Q 048743          499 IYKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRPTVETFYYLVYGHSSLEMYRDITILWGDIKRNIESGVLAVS----RD  574 (653)
Q Consensus       499 ~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~p~----~~  574 (653)
                      ...|..+...+...|++++|...|++..... +.+...+..+...+...|++++|..+++.........  .++    ..
T Consensus         4 ~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~--~~~~~~~~~   80 (131)
T 1elr_A            4 ALKEKELGNDAYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGREN--REDYRQIAK   80 (131)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHS--TTCHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhcccc--chhHHHHHH
Confidence            4567888888999999999999999998763 3467778888999999999999999999887542221  122    66


Q ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCCHHhHH
Q 048743          575 LYETLLLNFLQGGYFERVMEVIGYMKKQNMYVDKLMYK  612 (653)
Q Consensus       575 ~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~  612 (653)
                      .|..+...+...|++++|.+.|++..+.  .|+.....
T Consensus        81 ~~~~la~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~  116 (131)
T 1elr_A           81 AYARIGNSYFKEEKYKDAIHFYNKSLAE--HRTPDVLK  116 (131)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCCHHHHH
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHHh--CCCHHHHH
Confidence            7888889999999999999999999864  35544443

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=97.61  E-value=0.00054  Score=55.55  Aligned_cols=94  Identities=10%  Similarity=-0.120  Sum_probs=83.4

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 048743          347 MAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTYKSLLTAYY  426 (653)
Q Consensus       347 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~  426 (653)
                      +..+-..+.+.|++++|...|++..+..  |.+...|..+-.++...|++++|...|++..+... -+...+..+..++.
T Consensus        20 ~~~~g~~~~~~g~~~~A~~~~~~al~~~--P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P-~~~~~~~~la~~~~   96 (121)
T 1hxi_A           20 PMEEGLSMLKLANLAEAALAFEAVCQKE--PEREEAWRSLGLTQAENEKDGLAIIALNHARMLDP-KDIAVHAALAVSHT   96 (121)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHH
Confidence            4456677889999999999999999988  88888899999999999999999999999987642 36778899999999


Q ss_pred             HcCChHHHHHHHHHHHH
Q 048743          427 KVKMFREAEALLKQMRK  443 (653)
Q Consensus       427 ~~~~~~~a~~~~~~m~~  443 (653)
                      +.|++++|...|++..+
T Consensus        97 ~~g~~~~A~~~~~~al~  113 (121)
T 1hxi_A           97 NEHNANAALASLRAWLL  113 (121)
T ss_dssp             HHHHHHHHHHHHHHHHC
T ss_pred             HcCCHHHHHHHHHHHHH
Confidence            99999999999999876

>1elw_A TPR1-domain of HOP; HOP, TPR-domain, peptide-complex, helical repeat, HSP70, protein binding, chaperone; 1.60A {Homo sapiens} SCOP: a.118.8.1

Probab=97.59  E-value=0.0029  Score=50.24  Aligned_cols=99  Identities=11%  Similarity=-0.091  Sum_probs=81.6

Q ss_pred             CHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHHhhhCCCccCHHHHH
Q 048743          498 TIYKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRPTVETFYYLVYGHSSLEMYRDITILWGDIKRNIESGVLAVSRDLYE  577 (653)
Q Consensus       498 ~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~p~~~~y~  577 (653)
                      +...|..+...+...|++++|.+.|++..... +.+...+..+...+...|++++|...++...+.     .+.+...+.
T Consensus         3 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~-----~~~~~~~~~   76 (118)
T 1elw_A            3 QVNELKEKGNKALSVGNIDDALQCYSEAIKLD-PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDL-----KPDWGKGYS   76 (118)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH-----CTTCHHHHH
T ss_pred             hHHHHHHHHHHHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHhhccHHHHHHHHHHHHHh-----CcccHHHHH
Confidence            34567788888999999999999999988753 236777888888999999999999999888643     223577888


Q ss_pred             HHHHHHHhCCCHHHHHHHHHHHHhC
Q 048743          578 TLLLNFLQGGYFERVMEVIGYMKKQ  602 (653)
Q Consensus       578 ~li~~~~~~g~~~~a~~~~~~m~~~  602 (653)
                      .+...+...|++++|.+.+++..+.
T Consensus        77 ~~a~~~~~~~~~~~A~~~~~~~~~~  101 (118)
T 1elw_A           77 RKAAALEFLNRFEEAKRTYEEGLKH  101 (118)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHhhHHHHHHHHHHHHHc
Confidence            8889999999999999999998854

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=97.59  E-value=0.002  Score=55.37  Aligned_cols=99  Identities=10%  Similarity=-0.103  Sum_probs=82.4

Q ss_pred             CHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHHhhhCCCccCHHHHH
Q 048743          498 TIYKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRPTVETFYYLVYGHSSLEMYRDITILWGDIKRNIESGVLAVSRDLYE  577 (653)
Q Consensus       498 ~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~p~~~~y~  577 (653)
                      +...|..+...|.+.|++++|++.|++..+.. +-+...|..+..+|...|++++|+..++...+.     -+.+...|.
T Consensus        10 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~-----~p~~~~~~~   83 (164)
T 3sz7_A           10 ESDKLKSEGNAAMARKEYSKAIDLYTQALSIA-PANPIYLSNRAAAYSASGQHEKAAEDAELATVV-----DPKYSKAWS   83 (164)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-----CTTCHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CcCHHHHHHHHHHHHHccCHHHHHHHHHHHHHh-----CCCCHHHHH
Confidence            55678888888999999999999999988753 226778888999999999999999999888743     123577888


Q ss_pred             HHHHHHHhCCCHHHHHHHHHHHHhC
Q 048743          578 TLLLNFLQGGYFERVMEVIGYMKKQ  602 (653)
Q Consensus       578 ~li~~~~~~g~~~~a~~~~~~m~~~  602 (653)
                      .+..+|...|++++|.+.|++..+.
T Consensus        84 ~lg~~~~~~g~~~~A~~~~~~al~~  108 (164)
T 3sz7_A           84 RLGLARFDMADYKGAKEAYEKGIEA  108 (164)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHccCHHHHHHHHHHHHHh
Confidence            8999999999999999999988754

>3dss_A Geranylgeranyl transferase type-2 subunit alpha; protein prenylation, metal-binding, prenyltransferase, zinc, phosphoprotein; 1.80A {Rattus norvegicus} PDB: 3dst_A* 3dsu_A* 3dsv_A* 3dsw_A* 3dsx_A* 3hxb_A* 3hxc_A* 3hxd_A* 3hxe_A* 3hxf_A* 3pz1_A* 3pz2_A* 3pz3_A* 3c72_A* 4gtv_A* 4gts_A* 4ehm_A* 4gtt_A*

Probab=97.56  E-value=0.042  Score=52.83  Aligned_cols=203  Identities=10%  Similarity=-0.067  Sum_probs=119.2

Q ss_pred             hhhHHHHHHH---HHhcCChh-hHHHHHHHHHhcCCCccHHH-HHH---HHHHHHhcC-------ChhhhHHHHHHhhhc
Q 048743          177 TMIFNLVLHA---CVRFGSSL-KGQHIMELMSQTGVVADAHS-III---LAQIHEMNC-------QRDELKKFKCYIDQL  241 (653)
Q Consensus       177 ~~~yn~li~~---~~~~g~~~-~a~~l~~~m~~~g~~p~~~t-~~~---ll~~~~~~g-------~~~~a~~~~~~~~~~  241 (653)
                      +..|..+.+.   ..+.|.++ +|+++++.+...  .|+..| |+.   ++....+..       .++++..+++.+...
T Consensus        26 i~~y~~~~~~~~~~~~~~e~s~eaL~~t~~~L~~--nP~~ytaWn~Rr~iL~~l~~~~~~~~~~~~l~~EL~~~~~~L~~  103 (331)
T 3dss_A           26 LKLYQSATQAVFQKRQAGELDESVLELTSQILGA--NPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRV  103 (331)
T ss_dssp             HHHHHHHHHHHHHHHHTTCCSHHHHHHHHHHHTT--CTTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHH--CchhHHHHHHHHHHHHHhcccccchhhhHHHHHHHHHHHHHHHh
Confidence            3445555443   34566664 899999999974  688877 543   333333211       145666666666554


Q ss_pred             CCCcccchhHHHHHHHHhhhccC--CHHHHHHHHHHhcccCCCCCCchhhhcccccchhccCCCcccchhhhccchhhhH
Q 048743          242 STPFAHHYQQFYESLLSLHFKFD--DIDAAGELILDMNRYREPLPNPKLRQDAQKPYLISIGSPNLRCGLKLQIMPELLE  319 (653)
Q Consensus       242 ~~~~~~~~~~~~~~li~~~~~~g--~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  319 (653)
                      .+...    .+|+---.++.+.|  ++++++.+++++.+.                                        
T Consensus       104 ~PKny----~aW~hR~wlL~~l~~~~~~~EL~~~~k~l~~----------------------------------------  139 (331)
T 3dss_A          104 NPKSY----GTWHHRCWLLSRLPEPNWARELELCARFLEA----------------------------------------  139 (331)
T ss_dssp             CTTCH----HHHHHHHHHHHHCSSCCHHHHHHHHHHHHHH----------------------------------------
T ss_pred             CCCCH----HHHHHHHHHHhccCcccHHHHHHHHHHHHHh----------------------------------------
Confidence            33222    24655555555555  467777777777320                                        


Q ss_pred             HHHHHhhhhhHHHHHHhcCCCCCCHHHHHHHHHHHHhcCC-hHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHc-----
Q 048743          320 KDSILKMEGKQELVLFRNGKLLHSNRAMAKLINGYKKHGK-NSELSWLLLSIKKEHHSFGESTLCSDVIDALIQL-----  393 (653)
Q Consensus       320 ~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~li~~~~~~~~-~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~-----  393 (653)
                                          -+-+...|+.-.-.+...|. ++++++.+.++.+..  |.|...|+.....+.+.     
T Consensus       140 --------------------dprNy~AW~~R~~vl~~l~~~~~eel~~~~~~I~~~--p~N~SAW~~R~~ll~~l~~~~~  197 (331)
T 3dss_A          140 --------------------DERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRN--FSNYSSWHYRSCLLPQLHPQPD  197 (331)
T ss_dssp             --------------------CTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC--SCCHHHHHHHHHHHHHHSCCC-
T ss_pred             --------------------CCCCHHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHhhhccc
Confidence                                11244566665555666666 477888888877777  77777777766666554     


Q ss_pred             ---------CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHc-----------CChHHHHHHHHHHHHcCCccCc
Q 048743          394 ---------GFLEAAHDILDDMELAGHPMDSTTYKSLLTAYYKV-----------KMFREAEALLKQMRKSCLVQNL  450 (653)
Q Consensus       394 ---------g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~-----------~~~~~a~~~~~~m~~~~~~p~~  450 (653)
                               +.++++++.+....... +-|...|+-+-..+.+.           +.++++++.++++.+  +.|+.
T Consensus       198 ~~~~~~~~~~~~~eEle~~~~ai~~~-P~d~SaW~Y~r~ll~~~~~~~~~~~~~~~~l~~el~~~~elle--~~pd~  271 (331)
T 3dss_A          198 SGPQGRLPENVLLKELELVQNAFFTD-PNDQSAWFYHRWLLGAGSGRCELSVEKSTVLQSELESCKELQE--LEPEN  271 (331)
T ss_dssp             -----CCCHHHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHSSSCGGGCCHHHHHHHHHHHHHHHHHHH--HCTTC
T ss_pred             cccccccchHHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhccCccccchHHHHHHHHHHHHHHHHHh--hCccc
Confidence                     34667777777776543 23666666544444443           235566666666655  34554

>2fbn_A 70 kDa peptidylprolyl isomerase, putative; sulfur SAD, PFL2275C, TPR-containing domain, structural genomics; 1.63A {Plasmodium falciparum} SCOP: a.118.8.1

Probab=97.54  E-value=0.0013  Score=58.68  Aligned_cols=96  Identities=10%  Similarity=-0.061  Sum_probs=71.7

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCc----------------ccHHHHHHHHHHcCCHHHHHHHHHHHHHC
Q 048743          346 AMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGES----------------TLCSDVIDALIQLGFLEAAHDILDDMELA  409 (653)
Q Consensus       346 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~----------------~~~~~li~~~~~~g~~~~a~~~~~~m~~~  409 (653)
                      .+..+-..+.+.|++++|...|++.....  +.+.                .+|..+..+|.+.|++++|...+++..+.
T Consensus        40 ~~~~~g~~~~~~~~~~~A~~~~~~al~~~--~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~  117 (198)
T 2fbn_A           40 DIKEEGNEFFKKNEINEAIVKYKEALDFF--IHTEEWDDQILLDKKKNIEISCNLNLATCYNKNKDYPKAIDHASKVLKI  117 (198)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTT--TTCTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHH--hcccccchhhHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh
Confidence            46677778888999999999999888755  3332                45777777778888888888888877665


Q ss_pred             CCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHc
Q 048743          410 GHPMDSTTYKSLLTAYYKVKMFREAEALLKQMRKS  444 (653)
Q Consensus       410 g~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  444 (653)
                      . +.+...|..+..+|...|++++|...|+...+.
T Consensus       118 ~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~  151 (198)
T 2fbn_A          118 D-KNNVKALYKLGVANMYFGFLEEAKENLYKAASL  151 (198)
T ss_dssp             S-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             C-cccHHHHHHHHHHHHHcccHHHHHHHHHHHHHH
Confidence            2 335667777777788888888888888777663

>1elr_A TPR2A-domain of HOP; HOP, TPR-domain, peptide-complex, helical repeat, protein binding, chaperone; 1.90A {Homo sapiens} SCOP: a.118.8.1 PDB: 3esk_A 3fwv_A

Probab=97.54  E-value=0.00085  Score=54.71  Aligned_cols=99  Identities=12%  Similarity=0.095  Sum_probs=85.2

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCC--CCC----HHHH
Q 048743          345 RAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGH--PMD----STTY  418 (653)
Q Consensus       345 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~--~p~----~~~~  418 (653)
                      ..|..+...+...|++++|...|++.....  +.+...+..+...+...|++++|...+++..+...  .++    ..+|
T Consensus         5 ~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~   82 (131)
T 1elr_A            5 LKEKELGNDAYKKKDFDTALKHYDKAKELD--PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAY   82 (131)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHhcC--CccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHHHH
Confidence            457788889999999999999999998877  67777799999999999999999999999876432  222    7788


Q ss_pred             HHHHHHHHHcCChHHHHHHHHHHHHcC
Q 048743          419 KSLLTAYYKVKMFREAEALLKQMRKSC  445 (653)
Q Consensus       419 ~~li~~~~~~~~~~~a~~~~~~m~~~~  445 (653)
                      ..+..++.+.|++++|...|+...+..
T Consensus        83 ~~la~~~~~~~~~~~A~~~~~~~~~~~  109 (131)
T 1elr_A           83 ARIGNSYFKEEKYKDAIHFYNKSLAEH  109 (131)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHHHhC
Confidence            889999999999999999999998853

>3upv_A Heat shock protein STI1; TPR-fold, adaptor protein for HSP70 and HSP90, C-terminal PA HSP70, peptide binding protein; 1.60A {Saccharomyces cerevisiae}

Probab=97.51  E-value=0.0024  Score=51.94  Aligned_cols=98  Identities=7%  Similarity=-0.028  Sum_probs=78.3

Q ss_pred             HHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHHhhhCCCccCHHHHHH
Q 048743          499 IYKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRPTVETFYYLVYGHSSLEMYRDITILWGDIKRNIESGVLAVSRDLYET  578 (653)
Q Consensus       499 ~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~p~~~~y~~  578 (653)
                      ...|..+-..+.+.|++++|++.|++..+.. +.+...|..+..++...|++++|...++...+.     -+.+...|..
T Consensus         4 a~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~-----~p~~~~~~~~   77 (126)
T 3upv_A            4 AEEARLEGKEYFTKSDWPNAVKAYTEMIKRA-PEDARGYSNRAAALAKLMSFPEAIADCNKAIEK-----DPNFVRAYIR   77 (126)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-----CTTCHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHh-----CCCcHHHHHH
Confidence            3456777788889999999999999888753 235778888888999999999999999887633     1235677888


Q ss_pred             HHHHHHhCCCHHHHHHHHHHHHhC
Q 048743          579 LLLNFLQGGYFERVMEVIGYMKKQ  602 (653)
Q Consensus       579 li~~~~~~g~~~~a~~~~~~m~~~  602 (653)
                      +..++...|++++|.+.|++..+.
T Consensus        78 lg~~~~~~~~~~~A~~~~~~al~~  101 (126)
T 3upv_A           78 KATAQIAVKEYASALETLDAARTK  101 (126)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCHHHHHHHHHHHHHh
Confidence            888899999999999999888644

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=97.51  E-value=0.00079  Score=56.37  Aligned_cols=107  Identities=7%  Similarity=-0.202  Sum_probs=88.0

Q ss_pred             cccccccchHHHHHHHHHHHHhccchhHHHHHHHHhhhhcCCCCchhHHHHHHHhhccCCcchhhhHHHHHHHHHhccCC
Q 048743           10 EKLSWEGSSREVLLRKLESASKNHQVGEAWETFNDFQRLHGIPERHVVNRFITDLCYSAEPHWLQKACDLVLKIQKGKAD   89 (653)
Q Consensus        10 ~~l~~~~p~~~~~~~~i~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~a~~~~~~~~~~~~~   89 (653)
                      +.+...+.+...+..+...+.+.|++++|...|+...+. ...++..|..+-.++...|+   .++|...|.+.....|.
T Consensus         9 ~al~~~p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~-~p~~~~~~~~lg~~~~~~g~---~~~A~~~~~~al~~~p~   84 (142)
T 2xcb_A            9 MLRGLSEDTLEQLYALGFNQYQAGKWDDAQKIFQALCML-DHYDARYFLGLGACRQSLGL---YEQALQSYSYGALMDIN   84 (142)
T ss_dssp             CCTTCCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHTTC---HHHHHHHHHHHHHHCTT
T ss_pred             HHHcCCHHHHHHHHHHHHHHHHHccHHHHHHHHHHHHHh-CCccHHHHHHHHHHHHHHhh---HHHHHHHHHHHHhcCCC
Confidence            455566667778888888999999999999999998873 22344577777788888888   79999999998877665


Q ss_pred             chhHHHHHHHHHHHHhcCCCchHHHHHHHHHcC
Q 048743           90 LLQLDLLAKLSLSLARAQMPVPASMILRLMLGR  122 (653)
Q Consensus        90 ~~~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~  122 (653)
                        +...+..+..+|...|++++|+..|+...+.
T Consensus        85 --~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~  115 (142)
T 2xcb_A           85 --EPRFPFHAAECHLQLGDLDGAESGFYSARAL  115 (142)
T ss_dssp             --CTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             --CcHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence              5667888899999999999999999998775

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=97.50  E-value=0.0036  Score=50.93  Aligned_cols=98  Identities=15%  Similarity=0.012  Sum_probs=81.1

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCc---ccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCC---HHHHHHH
Q 048743          348 AKLINGYKKHGKNSELSWLLLSIKKEHHSFGES---TLCSDVIDALIQLGFLEAAHDILDDMELAGHPMD---STTYKSL  421 (653)
Q Consensus       348 ~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~---~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~---~~~~~~l  421 (653)
                      ..+...+.+.|++++|...|++..+..  |.+.   ..+..+...+.+.|++++|...|++..+... .+   ...+..+
T Consensus         6 ~~~a~~~~~~~~~~~A~~~~~~~~~~~--p~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~p-~~~~~~~~~~~l   82 (129)
T 2xev_A            6 YNVAFDALKNGKYDDASQLFLSFLELY--PNGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRYP-THDKAAGGLLKL   82 (129)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHC--SSSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TSTTHHHHHHHH
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHHHHHC--CCCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHCC-CCcccHHHHHHH
Confidence            345667888999999999999998876  5555   4678888999999999999999999987542 23   6678888


Q ss_pred             HHHHHHcCChHHHHHHHHHHHHcCCccCc
Q 048743          422 LTAYYKVKMFREAEALLKQMRKSCLVQNL  450 (653)
Q Consensus       422 i~~~~~~~~~~~a~~~~~~m~~~~~~p~~  450 (653)
                      ..++...|++++|...|+...+.  .|+.
T Consensus        83 a~~~~~~g~~~~A~~~~~~~~~~--~p~~  109 (129)
T 2xev_A           83 GLSQYGEGKNTEAQQTLQQVATQ--YPGS  109 (129)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHH--STTS
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHH--CCCC
Confidence            89999999999999999999875  3554

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=97.47  E-value=0.0024  Score=53.37  Aligned_cols=61  Identities=15%  Similarity=-0.076  Sum_probs=30.2

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 048743          346 AMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMEL  408 (653)
Q Consensus       346 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  408 (653)
                      .|..+...+...|++++|...+++.....  +.+...|..+...|...|++++|...|++..+
T Consensus        67 ~~~~~a~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~  127 (148)
T 2dba_A           67 LHRNRAACHLKLEDYDKAETEASKAIEKD--GGDVKALYRRSQALEKLGRLDQAVLDLQRCVS  127 (148)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHT--SCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccHHHHHHHHHHHHhhC--ccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            44444445555555555555555544443  33344444455555555555555555555443

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=97.46  E-value=0.002  Score=53.88  Aligned_cols=103  Identities=13%  Similarity=-0.063  Sum_probs=88.1

Q ss_pred             CCHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCC---cccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHH
Q 048743          342 HSNRAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGE---STLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTY  418 (653)
Q Consensus       342 p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~---~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~  418 (653)
                      .+...+..+...+...|++++|...|++..+..  +.+   ...|..+...|...|++++|...+++..+.. +.+...+
T Consensus        26 ~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~  102 (148)
T 2dba_A           26 SSVEQLRKEGNELFKCGDYGGALAAYTQALGLD--ATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKD-GGDVKAL  102 (148)
T ss_dssp             CCHHHHHHHHHHHHTTTCHHHHHHHHHHHHTSC--CCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-SCCHHHH
T ss_pred             HHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHc--ccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhC-ccCHHHH
Confidence            356788889999999999999999999998866  544   5668889999999999999999999987753 3367888


Q ss_pred             HHHHHHHHHcCChHHHHHHHHHHHHcCCccC
Q 048743          419 KSLLTAYYKVKMFREAEALLKQMRKSCLVQN  449 (653)
Q Consensus       419 ~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~  449 (653)
                      ..+..++...|++++|...|++..+.  .|+
T Consensus       103 ~~~a~~~~~~~~~~~A~~~~~~al~~--~p~  131 (148)
T 2dba_A          103 YRRSQALEKLGRLDQAVLDLQRCVSL--EPK  131 (148)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHH--CSS
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHc--CCC
Confidence            89999999999999999999999874  454

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=97.26  E-value=0.0046  Score=50.30  Aligned_cols=96  Identities=13%  Similarity=0.081  Sum_probs=73.1

Q ss_pred             HHHHHHHcCCCHHHHHHHHHHHHhcCCCCCH----HHHHHHHHHHhccCCHHHHHHHHHHHHHHhhhCCCccC----HHH
Q 048743          504 SSIYFFCKGKMIGDALKIYRRMQEMKIRPTV----ETFYYLVYGHSSLEMYRDITILWGDIKRNIESGVLAVS----RDL  575 (653)
Q Consensus       504 ~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~----~t~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~p~----~~~  575 (653)
                      .+...+...|++++|.+.|++..+..  |+.    ..+..+..++...|++++|...++.+.+.      .|+    ...
T Consensus         7 ~~a~~~~~~~~~~~A~~~~~~~~~~~--p~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~------~p~~~~~~~~   78 (129)
T 2xev_A            7 NVAFDALKNGKYDDASQLFLSFLELY--PNGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSR------YPTHDKAAGG   78 (129)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHC--SSSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH------CTTSTTHHHH
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHHHC--CCCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHH------CCCCcccHHH
Confidence            45566778999999999999888753  332    46777788889999999999999887633      232    556


Q ss_pred             HHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCCHH
Q 048743          576 YETLLLNFLQGGYFERVMEVIGYMKKQNMYVDKL  609 (653)
Q Consensus       576 y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~  609 (653)
                      +..+..++...|++++|...|++..+..  |+..
T Consensus        79 ~~~la~~~~~~g~~~~A~~~~~~~~~~~--p~~~  110 (129)
T 2xev_A           79 LLKLGLSQYGEGKNTEAQQTLQQVATQY--PGSD  110 (129)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHS--TTSH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHC--CCCh
Confidence            7778888999999999999999987653  5543

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=97.24  E-value=0.0042  Score=52.65  Aligned_cols=136  Identities=6%  Similarity=-0.167  Sum_probs=93.7

Q ss_pred             HHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCC-CC----HHHHHHHHHHHhccCCHHHHHHHHHHHHHHhhhCCCcc-C
Q 048743          499 IYKLNSSIYFFCKGKMIGDALKIYRRMQEMKIR-PT----VETFYYLVYGHSSLEMYRDITILWGDIKRNIESGVLAV-S  572 (653)
Q Consensus       499 ~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~-p~----~~t~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~p-~  572 (653)
                      ..++..+...|...|++++|++.+++..+.... ++    ..++..+...+...|++++|..+++...+..+..+-.+ .
T Consensus         9 ~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~   88 (164)
T 3ro3_A            9 GRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERIAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVE   88 (164)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCcHHH
Confidence            456788888899999999999999988763111 12    14677888899999999999999999876654443332 2


Q ss_pred             HHHHHHHHHHHHhCCCHHHHHHHHHHHHhC----CCCCC-HHhHHHHH--HHhhhhhHHhhhhhHHHHH
Q 048743          573 RDLYETLLLNFLQGGYFERVMEVIGYMKKQ----NMYVD-KLMYKSEF--LKHHKHLYRRLKVSNARTE  634 (653)
Q Consensus       573 ~~~y~~li~~~~~~g~~~~a~~~~~~m~~~----g~~p~-~~t~~~l~--~~~~~~~~~~~~~~~~~~~  634 (653)
                      ...+..+...+...|++++|.+.+++..+.    +..+. ...+..+.  ....|+.+.|.+..+...+
T Consensus        89 ~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~  157 (164)
T 3ro3_A           89 AQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLE  157 (164)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHccchHhHHHHHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence            456777888899999999999999887543    22111 11222222  3445667666665555443

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=97.20  E-value=0.002  Score=52.10  Aligned_cols=94  Identities=11%  Similarity=-0.096  Sum_probs=80.4

Q ss_pred             HHHHHHhhhccCCHHHHHHHHHHhcccCCCCCCchhhhcccccchhccCCCcccchhhhccchhhhHHHHHHhhhhhHHH
Q 048743          253 YESLLSLHFKFDDIDAAGELILDMNRYREPLPNPKLRQDAQKPYLISIGSPNLRCGLKLQIMPELLEKDSILKMEGKQEL  332 (653)
Q Consensus       253 ~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  332 (653)
                      +..+...+.+.|++++|...|++..+                                                      
T Consensus        20 ~~~~g~~~~~~g~~~~A~~~~~~al~------------------------------------------------------   45 (121)
T 1hxi_A           20 PMEEGLSMLKLANLAEAALAFEAVCQ------------------------------------------------------   45 (121)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHH------------------------------------------------------
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHH------------------------------------------------------
Confidence            45566778889999999999998832                                                      


Q ss_pred             HHHhcCCCCC-CHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHC
Q 048743          333 VLFRNGKLLH-SNRAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELA  409 (653)
Q Consensus       333 ~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  409 (653)
                             ..| +...|..+-.++...|++++|+..|++..+..  |.+...+..+...|.+.|++++|...|++..+.
T Consensus        46 -------~~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~--P~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  114 (121)
T 1hxi_A           46 -------KEPEREEAWRSLGLTQAENEKDGLAIIALNHARMLD--PKDIAVHAALAVSHTNEHNANAALASLRAWLLS  114 (121)
T ss_dssp             -------HSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHHHHHHHHHHHHHHHC-
T ss_pred             -------HCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence                   234 55678888899999999999999999999988  778888999999999999999999999998764

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=97.20  E-value=0.00076  Score=54.21  Aligned_cols=84  Identities=8%  Similarity=-0.171  Sum_probs=54.0

Q ss_pred             cCCHHHHHHHHHHHHHccC-CC-CHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCCHHHHH
Q 048743          477 MDKSDLAESLIQEMREEAA-LS-TIYKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRPTVETFYYLVYGHSSLEMYRDIT  554 (653)
Q Consensus       477 ~~~~~~a~~~~~~m~~~~~-~p-~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~  554 (653)
                      .|++++|...|++..+.+. .| +...|..+...|...|++++|++.|++..+... -+...+..+..++...|++++|.
T Consensus         3 ~g~~~~A~~~~~~al~~~~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~l~~~~~~~g~~~~A~   81 (117)
T 3k9i_A            3 LGLEAQAVPYYEKAIASGLQGKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQFP-NHQALRVFYAMVLYNLGRYEQGV   81 (117)
T ss_dssp             ----CCCHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHH
T ss_pred             CCcHHHHHHHHHHHHHcCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CchHHHHHHHHHHHHcCCHHHHH
Confidence            4667777777777766431 13 556677777777777777777777777776532 23556666777777777777777


Q ss_pred             HHHHHHH
Q 048743          555 ILWGDIK  561 (653)
Q Consensus       555 ~~~~~~~  561 (653)
                      ..++...
T Consensus        82 ~~~~~al   88 (117)
T 3k9i_A           82 ELLLKII   88 (117)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            7777665

>1wao_1 Serine/threonine protein phosphatase 5; hydrolase, protein-protein interactions, TPR, super-helix,; 2.9A {Homo sapiens} SCOP: a.118.8.1 d.159.1.3

Probab=97.17  E-value=0.0014  Score=67.72  Aligned_cols=90  Identities=11%  Similarity=-0.055  Sum_probs=76.6

Q ss_pred             HHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCh
Q 048743          352 NGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTYKSLLTAYYKVKMF  431 (653)
Q Consensus       352 ~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~  431 (653)
                      ..+.+.|++++|.+.|++..+..  |.+..+|..+..+|.+.|++++|...+++..+.. +-+..+|..+..+|.+.|++
T Consensus        14 ~~~~~~g~~~~A~~~~~~Al~~~--p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~~~~~lg~~~~~~g~~   90 (477)
T 1wao_1           14 NDYFKAKDYENAIKFYSQAIELN--PSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNMALGKF   90 (477)
T ss_dssp             SSTTTTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHHTCH
T ss_pred             HHHHHhCCHHHHHHHHHHHHHhC--CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCH
Confidence            34567899999999999988877  7777889999999999999999999999988863 33677888888999999999


Q ss_pred             HHHHHHHHHHHHc
Q 048743          432 REAEALLKQMRKS  444 (653)
Q Consensus       432 ~~a~~~~~~m~~~  444 (653)
                      ++|...|++..+.
T Consensus        91 ~eA~~~~~~al~~  103 (477)
T 1wao_1           91 RAALRDYETVVKV  103 (477)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHh
Confidence            9999999988774

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=97.14  E-value=0.0034  Score=53.79  Aligned_cols=103  Identities=13%  Similarity=0.027  Sum_probs=85.2

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHhc--------CC--------CCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 048743          345 RAMAKLINGYKKHGKNSELSWLLLSIKKE--------HH--------SFGESTLCSDVIDALIQLGFLEAAHDILDDMEL  408 (653)
Q Consensus       345 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~--------~~--------~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  408 (653)
                      ..+...-..+.+.|++++|+..|.+....        ..        .+.+...|..+..+|.+.|++++|...+++..+
T Consensus        12 ~~~~~~G~~~~~~~~~~~A~~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~~~A~~~~~~al~   91 (162)
T 3rkv_A           12 EALRQKGNELFVQKDYKEAIDAYRDALTRLDTLILREKPGEPEWVELDRKNIPLYANMSQCYLNIGDLHEAEETSSEVLK   91 (162)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSCTTSHHHHHHHHTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHh
Confidence            45677888899999999999999997765        10        133445688999999999999999999999987


Q ss_pred             CCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCccCc
Q 048743          409 AGHPMDSTTYKSLLTAYYKVKMFREAEALLKQMRKSCLVQNL  450 (653)
Q Consensus       409 ~g~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~  450 (653)
                      .. +.+...|..+-.+|...|++++|...|+...+.  .|+.
T Consensus        92 ~~-p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l--~p~~  130 (162)
T 3rkv_A           92 RE-ETNEKALFRRAKARIAAWKLDEAEEDLKLLLRN--HPAA  130 (162)
T ss_dssp             HS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CGGG
T ss_pred             cC-CcchHHHHHHHHHHHHHhcHHHHHHHHHHHHhc--CCCC
Confidence            64 347889999999999999999999999998874  4653

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=97.13  E-value=0.00072  Score=54.38  Aligned_cols=88  Identities=9%  Similarity=-0.027  Sum_probs=69.5

Q ss_pred             hcCChHHHHHHHHHHHhcCC-CCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHH
Q 048743          356 KHGKNSELSWLLLSIKKEHH-SFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTYKSLLTAYYKVKMFREA  434 (653)
Q Consensus       356 ~~~~~~~a~~~~~~m~~~~~-~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~a  434 (653)
                      ..|++++|+..|++..+.+. .|.+...|..+...|.+.|++++|...|++..+... -+...+..+..++.+.|++++|
T Consensus         2 ~~g~~~~A~~~~~~al~~~~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~l~~~~~~~g~~~~A   80 (117)
T 3k9i_A            2 VLGLEAQAVPYYEKAIASGLQGKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQFP-NHQALRVFYAMVLYNLGRYEQG   80 (117)
T ss_dssp             -----CCCHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHH
T ss_pred             CCCcHHHHHHHHHHHHHcCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CchHHHHHHHHHHHHcCCHHHH
Confidence            46888999999999887621 144556688899999999999999999999987643 3678888899999999999999


Q ss_pred             HHHHHHHHHc
Q 048743          435 EALLKQMRKS  444 (653)
Q Consensus       435 ~~~~~~m~~~  444 (653)
                      ...|++..+.
T Consensus        81 ~~~~~~al~~   90 (117)
T 3k9i_A           81 VELLLKIIAE   90 (117)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHh
Confidence            9999998874

>1wao_1 Serine/threonine protein phosphatase 5; hydrolase, protein-protein interactions, TPR, super-helix,; 2.9A {Homo sapiens} SCOP: a.118.8.1 d.159.1.3

Probab=97.11  E-value=0.0025  Score=65.81  Aligned_cols=118  Identities=12%  Similarity=0.076  Sum_probs=91.3

Q ss_pred             ccccccCCHHHHHHHHHHHHHccCCC-CHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCCH
Q 048743          472 DTSSLMDKSDLAESLIQEMREEAALS-TIYKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRPTVETFYYLVYGHSSLEMY  550 (653)
Q Consensus       472 ~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~  550 (653)
                      ..|...|++++|...+++..+..  | +...|..+..+|.+.|++++|++.+++..+.. +-+...|..+..+|...|++
T Consensus        14 ~~~~~~g~~~~A~~~~~~Al~~~--p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~~~~~lg~~~~~~g~~   90 (477)
T 1wao_1           14 NDYFKAKDYENAIKFYSQAIELN--PSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNMALGKF   90 (477)
T ss_dssp             SSTTTTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHHTCH
T ss_pred             HHHHHhCCHHHHHHHHHHHHHhC--CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCH
Confidence            45667899999999999988764  5 68899999999999999999999999998863 23567888999999999999


Q ss_pred             HHHHHHHHHHHHHhhhCCCccCHHHHHHHHHH--HHhCCCHHHHHHHHH
Q 048743          551 RDITILWGDIKRNIESGVLAVSRDLYETLLLN--FLQGGYFERVMEVIG  597 (653)
Q Consensus       551 ~~a~~~~~~~~~~~~~~~~~p~~~~y~~li~~--~~~~g~~~~a~~~~~  597 (653)
                      ++|.+.++...+.   ..-  +...+..+..+  +.+.|++++|++.++
T Consensus        91 ~eA~~~~~~al~~---~p~--~~~~~~~l~~~~~~~~~g~~~~A~~~~~  134 (477)
T 1wao_1           91 RAALRDYETVVKV---KPH--DKDAKMKYQECNKIVKQKAFERAIAGDE  134 (477)
T ss_dssp             HHHHHHHHHHHHH---STT--CTTHHHHHHHHHHHHHHHHHCCC-----
T ss_pred             HHHHHHHHHHHHh---CCC--CHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence            9999999988743   111  22344444444  888899999999988

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=97.09  E-value=0.0029  Score=64.93  Aligned_cols=127  Identities=9%  Similarity=-0.110  Sum_probs=96.0

Q ss_pred             ccCCHHHHHHHHHHHHHcc---C---CC-CHHHHHHHHHHHHcCCCHHHHHHHHHHHHhc-----C-CCCC-HHHHHHHH
Q 048743          476 LMDKSDLAESLIQEMREEA---A---LS-TIYKLNSSIYFFCKGKMIGDALKIYRRMQEM-----K-IRPT-VETFYYLV  541 (653)
Q Consensus       476 ~~~~~~~a~~~~~~m~~~~---~---~p-~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~-----g-~~p~-~~t~~~li  541 (653)
                      ..|++++|+.++++..+..   +   .| ...+++.|...|...|++++|+.++++..+.     | -.|+ ..+++.|.
T Consensus       321 ~qg~~~eA~~l~~~aL~~~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nLa  400 (490)
T 3n71_A          321 SEGLYHEVVKLCRECLEKQEPVFADTNLYVLRLLSIASEVLSYLQAYEEASHYARRMVDGYMKLYHHNNAQLGMAVMRAG  400 (490)
T ss_dssp             TTTCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHHHHH
T ss_pred             hCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHH
Confidence            3799999999998776421   1   22 4567999999999999999999999988752     2 2233 35788999


Q ss_pred             HHHhccCCHHHHHHHHHHHHHHhhh-CC-Ccc-CHHHHHHHHHHHHhCCCHHHHHHHHHHHHhC
Q 048743          542 YGHSSLEMYRDITILWGDIKRNIES-GV-LAV-SRDLYETLLLNFLQGGYFERVMEVIGYMKKQ  602 (653)
Q Consensus       542 ~~~~~~~~~~~a~~~~~~~~~~~~~-~~-~~p-~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~  602 (653)
                      ..|...|++++|+.+++......+. .| -.| ...+.+.+-.++...|.+++|+.++..+++.
T Consensus       401 ~~~~~~G~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~~~~~l~~~~~e~~~~~~ae~~~~~~~~~  464 (490)
T 3n71_A          401 LTNWHAGHIEVGHGMICKAYAILLVTHGPSHPITKDLEAMRMQTEMELRMFRQNEFMYHKMREA  464 (490)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            9999999999999999987654322 12 122 3445666777788899999999999999764

>1kt0_A FKBP51, 51 kDa FK506-binding protein; FKBP-like ppiase, TPR repeats, isomerase; 2.70A {Homo sapiens} SCOP: a.118.8.1 d.26.1.1 d.26.1.1 PDB: 1kt1_A 3o5d_A

Probab=97.09  E-value=0.0041  Score=63.81  Aligned_cols=145  Identities=12%  Similarity=-0.057  Sum_probs=104.0

Q ss_pred             hHHHHHHHHhhhccCCHHHHHHHHHHhcccCCCCCCchhhhcccccchhccCCCcccchhhhccchhhhHHHHHHhhhhh
Q 048743          250 QQFYESLLSLHFKFDDIDAAGELILDMNRYREPLPNPKLRQDAQKPYLISIGSPNLRCGLKLQIMPELLEKDSILKMEGK  329 (653)
Q Consensus       250 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  329 (653)
                      ...|..+-..|.+.|++++|...|++..+.....+.                  ..         .+...          
T Consensus       268 a~~~~~~G~~~~~~g~~~~A~~~y~~Al~~~p~~~~------------------~~---------~~~~~----------  310 (457)
T 1kt0_A          268 AAIVKEKGTVYFKGGKYMQAVIQYGKIVSWLEMEYG------------------LS---------EKESK----------  310 (457)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTCCS------------------CC---------HHHHH----------
T ss_pred             HHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhccccc------------------CC---------hHHHH----------
Confidence            346788889999999999999999988431100000                  00         00000          


Q ss_pred             HHHHHHhcCCCCC-CHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 048743          330 QELVLFRNGKLLH-SNRAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMEL  408 (653)
Q Consensus       330 ~~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  408 (653)
                       .        ..+ ....|..+-.+|.+.|++++|+..+++..+..  |.+...|..+-.+|...|++++|...|++..+
T Consensus       311 -~--------~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~--p~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~  379 (457)
T 1kt0_A          311 -A--------SESFLLAAFLNLAMCYLKLREYTKAVECCDKALGLD--SANEKGLYRRGEAQLLMNEFESAKGDFEKVLE  379 (457)
T ss_dssp             -H--------HHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             -H--------HHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC--CccHHHHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence             0        000 13577888899999999999999999999987  77888899999999999999999999999987


Q ss_pred             CCCCCCHHHHHHHHHHHHHcCChHHHHH-HHHHHHH
Q 048743          409 AGHPMDSTTYKSLLTAYYKVKMFREAEA-LLKQMRK  443 (653)
Q Consensus       409 ~g~~p~~~~~~~li~~~~~~~~~~~a~~-~~~~m~~  443 (653)
                      .. +-+...+..+..++.+.++.+++.. ++..|..
T Consensus       380 l~-P~~~~a~~~l~~~~~~~~~~~~a~~~~~~~~f~  414 (457)
T 1kt0_A          380 VN-PQNKAARLQISMCQKKAKEHNERDRRIYANMFK  414 (457)
T ss_dssp             TC-----CHHHHHHHHHHHHHHHHHHHHHHHHHC--
T ss_pred             hC-CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            53 2355678888888988898887764 4555543

>1kt0_A FKBP51, 51 kDa FK506-binding protein; FKBP-like ppiase, TPR repeats, isomerase; 2.70A {Homo sapiens} SCOP: a.118.8.1 d.26.1.1 d.26.1.1 PDB: 1kt1_A 3o5d_A

Probab=96.99  E-value=0.018  Score=59.01  Aligned_cols=106  Identities=10%  Similarity=-0.063  Sum_probs=81.7

Q ss_pred             CHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCC--------------HHHHHHHHHHHhccCCHHHHHHHHHHHHHH
Q 048743          498 TIYKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRPT--------------VETFYYLVYGHSSLEMYRDITILWGDIKRN  563 (653)
Q Consensus       498 ~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~--------------~~t~~~li~~~~~~~~~~~a~~~~~~~~~~  563 (653)
                      ....|..+-..|.+.|++++|+..|++..+..-...              ...|..+..+|.+.|++++|+..++...+.
T Consensus       267 ~a~~~~~~G~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~  346 (457)
T 1kt0_A          267 QAAIVKEKGTVYFKGGKYMQAVIQYGKIVSWLEMEYGLSEKESKASESFLLAAFLNLAMCYLKLREYTKAVECCDKALGL  346 (457)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhcccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhc
Confidence            455678888889999999999999999887421111              478888889999999999999999988743


Q ss_pred             hhhCCCccCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCCHHh
Q 048743          564 IESGVLAVSRDLYETLLLNFLQGGYFERVMEVIGYMKKQNMYVDKLM  610 (653)
Q Consensus       564 ~~~~~~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t  610 (653)
                           -+.+...|..+..+|...|++++|...|++..+.  .|+...
T Consensus       347 -----~p~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l--~P~~~~  386 (457)
T 1kt0_A          347 -----DSANEKGLYRRGEAQLLMNEFESAKGDFEKVLEV--NPQNKA  386 (457)
T ss_dssp             -----STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT--C----C
T ss_pred             -----CCccHHHHHHHHHHHHHccCHHHHHHHHHHHHHh--CCCCHH
Confidence                 1236778888999999999999999999998854  455433

>1ihg_A Cyclophilin 40; ppiase immunophilin tetratricopeptide, isomerase; 1.80A {Bos taurus} SCOP: a.118.8.1 b.62.1.1 PDB: 1iip_A

Probab=96.96  E-value=0.0072  Score=59.89  Aligned_cols=96  Identities=10%  Similarity=0.017  Sum_probs=76.4

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHh----------------cCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHC
Q 048743          346 AMAKLINGYKKHGKNSELSWLLLSIKK----------------EHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELA  409 (653)
Q Consensus       346 ~~~~li~~~~~~~~~~~a~~~~~~m~~----------------~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  409 (653)
                      .+..+-..+.+.|++++|+..|++..+                ..  +.+..+|..+..+|.+.|++++|...+++..+.
T Consensus       225 ~~~~~g~~~~~~g~~~~Ai~~y~kAl~~~~~~~~~~~~~~~~~~~--~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~  302 (370)
T 1ihg_A          225 DLKNIGNTFFKSQNWEMAIKKYTKVLRYVEGSRAAAEDADGAKLQ--PVALSCVLNIGACKLKMSDWQGAVDSCLEALEI  302 (370)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHSCHHHHGGGH--HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHHhhcCccccChHHHHHHH--HHHHHHHHHHHHHHHhccCHHHHHHHHHHHHHh
Confidence            467788888999999999999998776                22  444556888888888888999988888888875


Q ss_pred             CCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHc
Q 048743          410 GHPMDSTTYKSLLTAYYKVKMFREAEALLKQMRKS  444 (653)
Q Consensus       410 g~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  444 (653)
                      . +-+...|..+-.+|...|++++|...|++..+.
T Consensus       303 ~-p~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l  336 (370)
T 1ihg_A          303 D-PSNTKALYRRAQGWQGLKEYDQALADLKKAQEI  336 (370)
T ss_dssp             C-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             C-chhHHHHHHHHHHHHHccCHHHHHHHHHHHHHh
Confidence            3 236778888888888888888888888888763

>2hr2_A Hypothetical protein; alpha-alpha superhelix fold, structural genomics, joint CENT structural genomics, JCSG, protein structure initiative; 2.54A {Chlorobium tepidum} SCOP: a.118.8.8

Probab=96.93  E-value=0.0071  Score=50.84  Aligned_cols=112  Identities=14%  Similarity=0.003  Sum_probs=82.1

Q ss_pred             HHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCC-C-----CH-----HHHHHHHHHHhccCCHHHHHHHHHHHHHHh-hhC
Q 048743          500 YKLNSSIYFFCKGKMIGDALKIYRRMQEMKIR-P-----TV-----ETFYYLVYGHSSLEMYRDITILWGDIKRNI-ESG  567 (653)
Q Consensus       500 ~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~-p-----~~-----~t~~~li~~~~~~~~~~~a~~~~~~~~~~~-~~~  567 (653)
                      ..+...-..+.+.|++++|++.|++.++.... |     +.     ..|..+-.++.+.|++++|+..++...+.. +..
T Consensus        12 ~~~~~~G~~l~~~g~~eeAi~~Y~kAL~l~p~~~~~~a~~~~~~~a~a~~n~g~al~~Lgr~~eAl~~~~kAL~l~n~~~   91 (159)
T 2hr2_A           12 YLALSDAQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRG   91 (159)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCCcchhhhhhccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccc
Confidence            34556666778899999999999998874222 1     22     388889999999999999999999887421 122


Q ss_pred             CCccCH-HHH----HHHHHHHHhCCCHHHHHHHHHHHHh-----CCCCCCHHhH
Q 048743          568 VLAVSR-DLY----ETLLLNFLQGGYFERVMEVIGYMKK-----QNMYVDKLMY  611 (653)
Q Consensus       568 ~~~p~~-~~y----~~li~~~~~~g~~~~a~~~~~~m~~-----~g~~p~~~t~  611 (653)
                      .+.|+. ..|    ...-.++...|++++|+..|++..+     .|+.+.....
T Consensus        92 e~~pd~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAlel~p~d~~~~~~~~~~  145 (159)
T 2hr2_A           92 ELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVEMIEERKGETPGKERM  145 (159)
T ss_dssp             CTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHCCSCCTTHHHH
T ss_pred             cCCCchHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHHhcCCCcHHHHHHHHHH
Confidence            336643 466    7788899999999999999998853     3555554433

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=96.91  E-value=0.029  Score=47.75  Aligned_cols=110  Identities=6%  Similarity=-0.012  Sum_probs=83.9

Q ss_pred             HHHHHHHHHHHHcCCCHHHHHHHHHHHHhc-------CC---------CC-CHHHHHHHHHHHhccCCHHHHHHHHHHHH
Q 048743          499 IYKLNSSIYFFCKGKMIGDALKIYRRMQEM-------KI---------RP-TVETFYYLVYGHSSLEMYRDITILWGDIK  561 (653)
Q Consensus       499 ~~~y~~li~~~~~~g~~~~a~~~~~~m~~~-------g~---------~p-~~~t~~~li~~~~~~~~~~~a~~~~~~~~  561 (653)
                      ...+...-..+.+.|++++|+..|.+....       .-         .| +...|..+..+|.+.|++++|+..++...
T Consensus        11 a~~~~~~G~~~~~~~~~~~A~~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~~~A~~~~~~al   90 (162)
T 3rkv_A           11 VEALRQKGNELFVQKDYKEAIDAYRDALTRLDTLILREKPGEPEWVELDRKNIPLYANMSQCYLNIGDLHEAEETSSEVL   90 (162)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSCTTSHHHHHHHHTHHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHH
Confidence            345666777888899999999999988764       00         12 23578888889999999999999999887


Q ss_pred             HHhhhCCCccCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCCHH-hHHHHH
Q 048743          562 RNIESGVLAVSRDLYETLLLNFLQGGYFERVMEVIGYMKKQNMYVDKL-MYKSEF  615 (653)
Q Consensus       562 ~~~~~~~~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~-t~~~l~  615 (653)
                      +.     -+.+...|..+..+|...|++++|...|++..+.  .|+.. .....+
T Consensus        91 ~~-----~p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l--~p~~~~~~~~~l  138 (162)
T 3rkv_A           91 KR-----EETNEKALFRRAKARIAAWKLDEAEEDLKLLLRN--HPAAASVVAREM  138 (162)
T ss_dssp             HH-----STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CGGGHHHHHHHH
T ss_pred             hc-----CCcchHHHHHHHHHHHHHhcHHHHHHHHHHHHhc--CCCCHHHHHHHH
Confidence            43     2335778888999999999999999999998754  56654 444333

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=96.85  E-value=0.0034  Score=61.49  Aligned_cols=95  Identities=13%  Similarity=0.053  Sum_probs=55.6

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCC-CHHHHHHHHHH
Q 048743          346 AMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPM-DSTTYKSLLTA  424 (653)
Q Consensus       346 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p-~~~~~~~li~~  424 (653)
                      .|..+-.+|.+.|++++|+..+++..+..  +.+...|..+..+|...|++++|...|++..+.  .| +...+..+...
T Consensus       232 ~~~nla~~~~~~g~~~~A~~~~~~al~~~--p~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l--~p~~~~a~~~L~~l  307 (338)
T 2if4_A          232 CHLNIAACLIKLKRYDEAIGHCNIVLTEE--EKNPKALFRRGKAKAELGQMDSARDDFRKAQKY--APDDKAIRRELRAL  307 (338)
T ss_dssp             HHHHHHHHHHTTTCCHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC-----------------
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--CCCCHHHHHHHHHH
Confidence            67888889999999999999999998887  778888999999999999999999999998664  23 34445544444


Q ss_pred             -HHHcCChHHHHHHHHHHHHc
Q 048743          425 -YYKVKMFREAEALLKQMRKS  444 (653)
Q Consensus       425 -~~~~~~~~~a~~~~~~m~~~  444 (653)
                       ....+..+++..+|..|...
T Consensus       308 ~~~~~~~~~~a~~~~~~~l~~  328 (338)
T 2if4_A          308 AEQEKALYQKQKEMYKGIFKG  328 (338)
T ss_dssp             ---------------------
T ss_pred             HHHHHHHHHHHHHHHHHhhCC
Confidence             23446677888888888653

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=96.78  E-value=0.0053  Score=48.24  Aligned_cols=90  Identities=17%  Similarity=-0.044  Sum_probs=70.0

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCC-------H
Q 048743          343 SNRAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMD-------S  415 (653)
Q Consensus       343 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~-------~  415 (653)
                      +...|..+-..+.+.|++++|...|++..+..  |.+...|..+..++.+.|++++|...|++..+..  |+       .
T Consensus         3 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~~   78 (111)
T 2l6j_A            3 QFEKQKEQGNSLFKQGLYREAVHCYDQLITAQ--PQNPVGYSNKAMALIKLGEYTQAIQMCQQGLRYT--STAEHVAIRS   78 (111)
T ss_dssp             HHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSC--SSTTSHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--CCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC--CCccHHHHHH
Confidence            44567788889999999999999999998887  7777889999999999999999999999988753  44       4


Q ss_pred             HHHHHHHHHHHHcCChHHHHH
Q 048743          416 TTYKSLLTAYYKVKMFREAEA  436 (653)
Q Consensus       416 ~~~~~li~~~~~~~~~~~a~~  436 (653)
                      ..+..+..++...|+++.|..
T Consensus        79 ~~~~~~~~~~~~~~~~~~a~~   99 (111)
T 2l6j_A           79 KLQYRLELAQGAVGSVQIPVV   99 (111)
T ss_dssp             HHHHHHHHHHHHHHCCCCCSS
T ss_pred             HHHHHHHHHHHHHHhHhhhHh
Confidence            455555555555555554443

>2hr2_A Hypothetical protein; alpha-alpha superhelix fold, structural genomics, joint CENT structural genomics, JCSG, protein structure initiative; 2.54A {Chlorobium tepidum} SCOP: a.118.8.8

Probab=96.77  E-value=0.018  Score=48.35  Aligned_cols=96  Identities=14%  Similarity=-0.032  Sum_probs=79.6

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCC-------Ccc-----cHHHHHHHHHHcCCHHHHHHHHHHHHHC----
Q 048743          346 AMAKLINGYKKHGKNSELSWLLLSIKKEHHSFG-------EST-----LCSDVIDALIQLGFLEAAHDILDDMELA----  409 (653)
Q Consensus       346 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~-------~~~-----~~~~li~~~~~~g~~~~a~~~~~~m~~~----  409 (653)
                      .+...-..+.+.|++++|+..|++..+..  |.       +..     .|+.+-.++.+.|++++|+..+++.++.    
T Consensus        13 ~~~~~G~~l~~~g~~eeAi~~Y~kAL~l~--p~~~~~~a~~~~~~~a~a~~n~g~al~~Lgr~~eAl~~~~kAL~l~n~~   90 (159)
T 2hr2_A           13 LALSDAQRQLVAGEYDEAAANCRRAMEIS--HTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRR   90 (159)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHH--TTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHhhC--CCCcchhhhhhccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhcc
Confidence            45567777889999999999999988766  33       222     6999999999999999999999998874    


Q ss_pred             -CCCCC-HHHH----HHHHHHHHHcCChHHHHHHHHHHHH
Q 048743          410 -GHPMD-STTY----KSLLTAYYKVKMFREAEALLKQMRK  443 (653)
Q Consensus       410 -g~~p~-~~~~----~~li~~~~~~~~~~~a~~~~~~m~~  443 (653)
                       .+.|+ ...|    ...-.++...|++++|+..|++..+
T Consensus        91 ~e~~pd~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAle  130 (159)
T 2hr2_A           91 GELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVE  130 (159)
T ss_dssp             CCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             ccCCCchHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHHh
Confidence             12454 4577    8888999999999999999999887

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=96.77  E-value=0.013  Score=60.20  Aligned_cols=92  Identities=5%  Similarity=-0.092  Sum_probs=70.8

Q ss_pred             HHHhcCChhhHHHHHHHHHhcC------CCccH-HHHHHHHHHHHhcCChhhhHHHHHHhhhc----CCCcccchhHHHH
Q 048743          186 ACVRFGSSLKGQHIMELMSQTG------VVADA-HSIIILAQIHEMNCQRDELKKFKCYIDQL----STPFAHHYQQFYE  254 (653)
Q Consensus       186 ~~~~~g~~~~a~~l~~~m~~~g------~~p~~-~t~~~ll~~~~~~g~~~~a~~~~~~~~~~----~~~~~~~~~~~~~  254 (653)
                      .+...|++++|..++++..+..      -.|+. .+++.|...|...|++++|..+++.....    -.++-..-..+++
T Consensus       318 ~~~~qg~~~eA~~l~~~aL~~~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~  397 (490)
T 3n71_A          318 KARSEGLYHEVVKLCRECLEKQEPVFADTNLYVLRLLSIASEVLSYLQAYEEASHYARRMVDGYMKLYHHNNAQLGMAVM  397 (490)
T ss_dssp             HHHTTTCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHH
T ss_pred             HHHhCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHH
Confidence            3557899999999998877531      23444 34889999999999999999988887654    1122222245899


Q ss_pred             HHHHhhhccCCHHHHHHHHHHhc
Q 048743          255 SLLSLHFKFDDIDAAGELILDMN  277 (653)
Q Consensus       255 ~li~~~~~~g~~~~A~~~~~~m~  277 (653)
                      .|-..|...|++++|..++++..
T Consensus       398 nLa~~~~~~G~~~eA~~~~~~Al  420 (490)
T 3n71_A          398 RAGLTNWHAGHIEVGHGMICKAY  420 (490)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHH
Confidence            99999999999999999998873

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=96.71  E-value=0.0095  Score=47.32  Aligned_cols=81  Identities=12%  Similarity=-0.065  Sum_probs=65.8

Q ss_pred             HHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHH
Q 048743          361 SELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTYKSLLTAYYKVKMFREAEALLKQ  440 (653)
Q Consensus       361 ~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~a~~~~~~  440 (653)
                      +.|+..|++..+..  |.+...+..+...|...|++++|...|++..+.. +.+...|..+..+|...|++++|...|+.
T Consensus         2 ~~a~~~~~~al~~~--p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~   78 (115)
T 2kat_A            2 QAITERLEAMLAQG--TDNMLLRFTLGKTYAEHEQFDAALPHLRAALDFD-PTYSVAWKWLGKTLQGQGDRAGARQAWES   78 (115)
T ss_dssp             CCHHHHHHHHHTTT--CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHhC--CCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            35677788777766  7777778888999999999999999999987753 23577888888899999999999999988


Q ss_pred             HHHc
Q 048743          441 MRKS  444 (653)
Q Consensus       441 m~~~  444 (653)
                      ..+.
T Consensus        79 al~~   82 (115)
T 2kat_A           79 GLAA   82 (115)
T ss_dssp             HHHH
T ss_pred             HHHh
Confidence            8763

>1ihg_A Cyclophilin 40; ppiase immunophilin tetratricopeptide, isomerase; 1.80A {Bos taurus} SCOP: a.118.8.1 b.62.1.1 PDB: 1iip_A

Probab=96.70  E-value=0.013  Score=58.01  Aligned_cols=90  Identities=13%  Similarity=-0.014  Sum_probs=75.3

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 048743          344 NRAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTYKSLLT  423 (653)
Q Consensus       344 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~  423 (653)
                      ...|..+-.+|.+.|++++|+..+++..+..  +.+...|..+..+|...|++++|...|++..+.. +-+...+..+..
T Consensus       273 ~~~~~nla~~~~~~g~~~~A~~~~~~al~~~--p~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l~-P~~~~~~~~l~~  349 (370)
T 1ihg_A          273 LSCVLNIGACKLKMSDWQGAVDSCLEALEID--PSNTKALYRRAQGWQGLKEYDQALADLKKAQEIA-PEDKAIQAELLK  349 (370)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccCHHHHHHHHHHHHHhC--chhHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHH
Confidence            3578888899999999999999999999877  7778889999999999999999999999998753 236677777777


Q ss_pred             HHHHcCChHHHHH
Q 048743          424 AYYKVKMFREAEA  436 (653)
Q Consensus       424 ~~~~~~~~~~a~~  436 (653)
                      ++...++.+++.+
T Consensus       350 ~~~~~~~~~~a~k  362 (370)
T 1ihg_A          350 VKQKIKAQKDKEK  362 (370)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH
Confidence            7777777776654

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=96.69  E-value=0.0013  Score=51.97  Aligned_cols=92  Identities=11%  Similarity=0.009  Sum_probs=61.4

Q ss_pred             CHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHHhhhCCCccC-----
Q 048743          498 TIYKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRPTVETFYYLVYGHSSLEMYRDITILWGDIKRNIESGVLAVS-----  572 (653)
Q Consensus       498 ~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~p~-----  572 (653)
                      +...|..+...+...|++++|++.|++..+.. +.+...+..+..++...|++++|...++...      ...|+     
T Consensus         3 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al------~~~p~~~~~~   75 (111)
T 2l6j_A            3 QFEKQKEQGNSLFKQGLYREAVHCYDQLITAQ-PQNPVGYSNKAMALIKLGEYTQAIQMCQQGL------RYTSTAEHVA   75 (111)
T ss_dssp             HHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHH------TSCSSTTSHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhcCHHHHHHHHHHHH------HhCCCccHHH
Confidence            45567777778888888888888888877652 2256677777788888888888888887775      34444     


Q ss_pred             --HHHHHHHHHHHHhCCCHHHHHHHH
Q 048743          573 --RDLYETLLLNFLQGGYFERVMEVI  596 (653)
Q Consensus       573 --~~~y~~li~~~~~~g~~~~a~~~~  596 (653)
                        ...+..+..++...|+.+.|.+.+
T Consensus        76 ~~~~~~~~~~~~~~~~~~~~~a~~~~  101 (111)
T 2l6j_A           76 IRSKLQYRLELAQGAVGSVQIPVVEV  101 (111)
T ss_dssp             HHHHHHHHHHHHHHHHHCCCCCSSSS
T ss_pred             HHHHHHHHHHHHHHHHHhHhhhHhHH
Confidence              344444555555555554444433

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=96.65  E-value=0.018  Score=43.00  Aligned_cols=81  Identities=17%  Similarity=0.089  Sum_probs=59.7

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 048743          344 NRAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTYKSLLT  423 (653)
Q Consensus       344 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~  423 (653)
                      ...+..+-..+...|++++|...|++..+..  +.+...+..+...+.+.|++++|...|++..+.. +.+...+..+-.
T Consensus         9 ~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~l~~   85 (91)
T 1na3_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALELD--PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAKQNLGN   85 (91)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHhcC--CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCHHHHHHHHH
Confidence            3466777778888888888888888887776  6666678888888888888888888888887643 234556665555


Q ss_pred             HHHH
Q 048743          424 AYYK  427 (653)
Q Consensus       424 ~~~~  427 (653)
                      ++.+
T Consensus        86 ~~~~   89 (91)
T 1na3_A           86 AKQK   89 (91)
T ss_dssp             HHHH
T ss_pred             HHHh
Confidence            5544

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=96.50  E-value=0.0094  Score=58.30  Aligned_cols=84  Identities=7%  Similarity=-0.103  Sum_probs=51.7

Q ss_pred             ccccCCHHHHHHHHHHHHHccCCCCHH------------------HHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCHH
Q 048743          474 SSLMDKSDLAESLIQEMREEAALSTIY------------------KLNSSIYFFCKGKMIGDALKIYRRMQEMKIRPTVE  535 (653)
Q Consensus       474 ~~~~~~~~~a~~~~~~m~~~~~~p~~~------------------~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~  535 (653)
                      +.+.|+++.|...|++.....  |+..                  .|+.+..+|.+.|++++|+..+++..+.. +-+..
T Consensus       189 ~~~~g~~~~A~~~y~~Al~~~--p~~~~~~~~~~~~~~~~~l~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~-p~~~~  265 (338)
T 2if4_A          189 LFKEEKLEEAMQQYEMAIAYM--GDDFMFQLYGKYQDMALAVKNPCHLNIAACLIKLKRYDEAIGHCNIVLTEE-EKNPK  265 (338)
T ss_dssp             TCSSSCCHHHHHHHHHHHHHS--CHHHHHTCCHHHHHHHHHHHTHHHHHHHHHHHTTTCCHHHHHHHHHHHHHC-TTCHH
T ss_pred             HHhcCCHHHHHHHHHHHHHHh--ccchhhhhcccHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHH
Confidence            456899999999999877643  4332                  45555556666666666666666655532 12345


Q ss_pred             HHHHHHHHHhccCCHHHHHHHHHHH
Q 048743          536 TFYYLVYGHSSLEMYRDITILWGDI  560 (653)
Q Consensus       536 t~~~li~~~~~~~~~~~a~~~~~~~  560 (653)
                      .|..+..+|...|++++|...|+..
T Consensus       266 a~~~lg~a~~~~g~~~~A~~~l~~a  290 (338)
T 2if4_A          266 ALFRRGKAKAELGQMDSARDDFRKA  290 (338)
T ss_dssp             HHHHHHHHHHTTTCHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            5555556666666666666666544

>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=96.46  E-value=0.18  Score=52.83  Aligned_cols=173  Identities=8%  Similarity=-0.030  Sum_probs=111.9

Q ss_pred             ChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCC----------HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHc
Q 048743          359 KNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGF----------LEAAHDILDDMELAGHPMDSTTYKSLLTAYYKV  428 (653)
Q Consensus       359 ~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~----------~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~  428 (653)
                      .-++|++.++++....  |.+..+|+.--..+.+.|+          +++++..++.+.+... -+..+|+.--.++.+.
T Consensus        44 ~~eeal~~~~~~l~~n--P~~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~~p-K~y~aW~hR~w~l~~l  120 (567)
T 1dce_A           44 LDESVLELTSQILGAN--PDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVNP-KSYGTWHHRCWLLSRL  120 (567)
T ss_dssp             CSHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHTC
T ss_pred             CCHHHHHHHHHHHHHC--chhHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHc
Confidence            3467788888888877  7777777776666666665          7777777777776533 3666777666666666


Q ss_pred             C--ChHHHHHHHHHHHHcCCccCchhhHHHHhhHHHHhhhcccccccccccCCHHHHHHHHHHHHHccCCCCHHHHHHHH
Q 048743          429 K--MFREAEALLKQMRKSCLVQNLSCEMVVSERFSEVADKSASFTDTSSLMDKSDLAESLIQEMREEAALSTIYKLNSSI  506 (653)
Q Consensus       429 ~--~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~y~~li  506 (653)
                      +  +++++++.++.+.+.  .|.                                                |...|+.--
T Consensus       121 ~~~~~~~el~~~~k~l~~--d~~------------------------------------------------N~~aW~~R~  150 (567)
T 1dce_A          121 PEPNWARELELCARFLEA--DER------------------------------------------------NFHCWDYRR  150 (567)
T ss_dssp             SSCCHHHHHHHHHHHHHH--CTT------------------------------------------------CHHHHHHHH
T ss_pred             ccccHHHHHHHHHHHHhh--ccc------------------------------------------------cccHHHHHH
Confidence            6  456677666666653  232                                                555566665


Q ss_pred             HHHHcCC-CHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhcc--------------CCHHHHHHHHHHHHHHhhhCCCcc
Q 048743          507 YFFCKGK-MIGDALKIYRRMQEMKIRPTVETFYYLVYGHSSL--------------EMYRDITILWGDIKRNIESGVLAV  571 (653)
Q Consensus       507 ~~~~~~g-~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~--------------~~~~~a~~~~~~~~~~~~~~~~~p  571 (653)
                      ..+.+.| .++++++.+.++++.... |...|+.....+.+.              +.++++.++++.....     -+-
T Consensus       151 ~~l~~l~~~~~~el~~~~~~I~~~p~-n~saW~~r~~ll~~l~~~~~~~~~~~~~~~~~~eel~~~~~ai~~-----~P~  224 (567)
T 1dce_A          151 FVAAQAAVAPAEELAFTDSLITRNFS-NYSSWHYRSCLLPQLHPQPDSGPQGRLPENVLLKELELVQNAFFT-----DPN  224 (567)
T ss_dssp             HHHHHTCCCHHHHHHHHHTTTTTTCC-CHHHHHHHHHHHHHHSCCCCSSSCCSSCHHHHHHHHHHHHHHHHH-----CSS
T ss_pred             HHHHHcCCChHHHHHHHHHHHHHCCC-CccHHHHHHHHHHhhcccccccccccccHHHHHHHHHHHHHHHhh-----CCC
Confidence            5666666 778888888877765432 556666555554442              4567888888776632     123


Q ss_pred             CHHHHHHHHHHHHhCCCHH
Q 048743          572 SRDLYETLLLNFLQGGYFE  590 (653)
Q Consensus       572 ~~~~y~~li~~~~~~g~~~  590 (653)
                      |...|+..-..+.+.++.+
T Consensus       225 ~~saW~y~~~ll~~~~~~~  243 (567)
T 1dce_A          225 DQSAWFYHRWLLGRAEPHD  243 (567)
T ss_dssp             CSHHHHHHHHHHSCCCCCS
T ss_pred             CccHHHHHHHHHhcCCCcc
Confidence            5667777666666666633

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=96.32  E-value=0.032  Score=44.17  Aligned_cols=78  Identities=8%  Similarity=0.006  Sum_probs=59.6

Q ss_pred             HHHHHHHHHHHccCCC-CHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHH
Q 048743          482 LAESLIQEMREEAALS-TIYKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRPTVETFYYLVYGHSSLEMYRDITILWGDI  560 (653)
Q Consensus       482 ~a~~~~~~m~~~~~~p-~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~~  560 (653)
                      .|...|++..+..  | +...|..+...|...|++++|+..|++..+.. +.+...|..+..++...|++++|...|+..
T Consensus         3 ~a~~~~~~al~~~--p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~a   79 (115)
T 2kat_A            3 AITERLEAMLAQG--TDNMLLRFTLGKTYAEHEQFDAALPHLRAALDFD-PTYSVAWKWLGKTLQGQGDRAGARQAWESG   79 (115)
T ss_dssp             CHHHHHHHHHTTT--CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhC--CCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            3555666665543  4 67788888888899999999999999888753 234667788888888999999999888877


Q ss_pred             HH
Q 048743          561 KR  562 (653)
Q Consensus       561 ~~  562 (653)
                      .+
T Consensus        80 l~   81 (115)
T 2kat_A           80 LA   81 (115)
T ss_dssp             HH
T ss_pred             HH
Confidence            63

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=96.22  E-value=0.026  Score=43.48  Aligned_cols=62  Identities=13%  Similarity=-0.068  Sum_probs=36.4

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHH
Q 048743          344 NRAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDME  407 (653)
Q Consensus       344 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~  407 (653)
                      ...+..+-..|.+.|++++|+..|++..+..  |.+...|..+..+|.+.|++++|...|++..
T Consensus         7 ~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al   68 (100)
T 3ma5_A            7 PFTRYALAQEHLKHDNASRALALFEELVETD--PDYVGTYYHLGKLYERLDRTDDAIDTYAQGI   68 (100)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            3445555556666666666666666665555  4444556666666666666666666665544

>1klx_A Cysteine rich protein B; structural genomics, helix-turn-helix, right handed super helix, modular structure', hydrolase; 1.95A {Helicobacter pylori} SCOP: a.118.18.1

Probab=96.20  E-value=0.1  Score=42.92  Aligned_cols=49  Identities=10%  Similarity=-0.105  Sum_probs=27.4

Q ss_pred             CCHHHHHHHHHHHHHccCCCCHHHHHHHHHHHHc----CCCHHHHHHHHHHHHhcC
Q 048743          478 DKSDLAESLIQEMREEAALSTIYKLNSSIYFFCK----GKMIGDALKIYRRMQEMK  529 (653)
Q Consensus       478 ~~~~~a~~~~~~m~~~~~~p~~~~y~~li~~~~~----~g~~~~a~~~~~~m~~~g  529 (653)
                      ++.++|...|++..+.|   +...+..|-..|..    .++.++|.++|++..+.|
T Consensus        75 ~d~~~A~~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g  127 (138)
T 1klx_A           75 KDLRKAAQYYSKACGLN---DQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLG  127 (138)
T ss_dssp             CCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT
T ss_pred             ccHHHHHHHHHHHHcCC---CHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHHCC
Confidence            34444444444444443   34445555555555    566777777777666654

>1klx_A Cysteine rich protein B; structural genomics, helix-turn-helix, right handed super helix, modular structure', hydrolase; 1.95A {Helicobacter pylori} SCOP: a.118.18.1

Probab=96.13  E-value=0.13  Score=42.34  Aligned_cols=114  Identities=6%  Similarity=-0.158  Sum_probs=90.0

Q ss_pred             cCCHHHHHHHHHHHHHccCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhc----cCCHHH
Q 048743          477 MDKSDLAESLIQEMREEAALSTIYKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRPTVETFYYLVYGHSS----LEMYRD  552 (653)
Q Consensus       477 ~~~~~~a~~~~~~m~~~~~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~----~~~~~~  552 (653)
                      .++.++|...|++..+.|. |+..    |-..|...+.+++|+++|++..+.|   +...+..|-..|..    .+++++
T Consensus         8 ~~d~~~A~~~~~~aa~~g~-~~a~----lg~~y~~g~~~~~A~~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~   79 (138)
T 1klx_A            8 KKDLKKAIQYYVKACELNE-MFGC----LSLVSNSQINKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKKDLRK   79 (138)
T ss_dssp             HHHHHHHHHHHHHHHHTTC-TTHH----HHHHTCTTSCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHH
T ss_pred             ccCHHHHHHHHHHHHcCCC-Hhhh----HHHHHHcCCCHHHHHHHHHHHHcCC---CHHHHHHHHHHHHcCCCCCccHHH
Confidence            4678899999999998883 3333    6666667778999999999998875   56677777777777    789999


Q ss_pred             HHHHHHHHHHHhhhCCCccCHHHHHHHHHHHHh----CCCHHHHHHHHHHHHhCCCC
Q 048743          553 ITILWGDIKRNIESGVLAVSRDLYETLLLNFLQ----GGYFERVMEVIGYMKKQNMY  605 (653)
Q Consensus       553 a~~~~~~~~~~~~~~~~~p~~~~y~~li~~~~~----~g~~~~a~~~~~~m~~~g~~  605 (653)
                      |.++|+...+    .   -+...+..|-..|..    .++.++|.+.|++..+.|..
T Consensus        80 A~~~~~~Aa~----~---g~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g~~  129 (138)
T 1klx_A           80 AAQYYSKACG----L---NDQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLGSE  129 (138)
T ss_dssp             HHHHHHHHHH----T---TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHc----C---CCHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHHCCCH
Confidence            9999987752    2   346677778888888    89999999999999888753

>3ly7_A Transcriptional activator CADC; alpha/beta domain, alpha domain, DNA-binding, transcription regulation, transmembrane; 1.80A {Escherichia coli} PDB: 3lya_A 3ly8_A 3ly9_A

Probab=96.09  E-value=0.21  Score=48.28  Aligned_cols=86  Identities=7%  Similarity=-0.134  Sum_probs=63.6

Q ss_pred             CHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHHhhhCCCccCHHHHH
Q 048743          498 TIYKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRPTVETFYYLVYGHSSLEMYRDITILWGDIKRNIESGVLAVSRDLYE  577 (653)
Q Consensus       498 ~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~p~~~~y~  577 (653)
                      +..+|.++...+...|++++|...+++....+  |+...|..+-..+.-.|++++|.+.++...      .+.|...+|.
T Consensus       276 ~a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln--~s~~a~~llG~~~~~~G~~~eA~e~~~~Al------rL~P~~~t~~  347 (372)
T 3ly7_A          276 LSIIYQIKAVSALVKGKTDESYQAINTGIDLE--MSWLNYVLLGKVYEMKGMNREAADAYLTAF------NLRPGANTLY  347 (372)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHTTCHHHHHHHHHHHH------HHSCSHHHHH
T ss_pred             CHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcC--CCHHHHHHHHHHHHHCCCHHHHHHHHHHHH------hcCCCcChHH
Confidence            77788887777777799999999999888875  787777777788888999999998888776      3567777765


Q ss_pred             HHHHHHHhCCCHHHH
Q 048743          578 TLLLNFLQGGYFERV  592 (653)
Q Consensus       578 ~li~~~~~~g~~~~a  592 (653)
                       +...+.-.-+++..
T Consensus       348 -~~~~l~F~sn~~~i  361 (372)
T 3ly7_A          348 -WIENGIFQTSVPYV  361 (372)
T ss_dssp             -HHHHSSSCCCHHHH
T ss_pred             -HHhCceeecchhhh
Confidence             34444444444443

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=95.94  E-value=0.034  Score=42.76  Aligned_cols=64  Identities=16%  Similarity=0.064  Sum_probs=52.7

Q ss_pred             CHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHH
Q 048743          498 TIYKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRPTVETFYYLVYGHSSLEMYRDITILWGDIKR  562 (653)
Q Consensus       498 ~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~~~~  562 (653)
                      +...|..+...|...|++++|++.|++..+... -+...|..+..+|...|++++|...++...+
T Consensus         6 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p-~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~   69 (100)
T 3ma5_A            6 DPFTRYALAQEHLKHDNASRALALFEELVETDP-DYVGTYYHLGKLYERLDRTDDAIDTYAQGIE   69 (100)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHST-TCTHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CcHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            667788888899999999999999999887532 2456788888899999999999998887653

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=95.90  E-value=0.41  Score=52.87  Aligned_cols=45  Identities=18%  Similarity=0.018  Sum_probs=22.5

Q ss_pred             HhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHH
Q 048743          355 KKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDM  406 (653)
Q Consensus       355 ~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m  406 (653)
                      ...|++++|.++.+.+       .+...|..+...+.+.|+++.|.+.|..+
T Consensus       663 l~~~~~~~A~~~~~~~-------~~~~~W~~la~~al~~~~~~~A~~~y~~~  707 (814)
T 3mkq_A          663 LKVGQLTLARDLLTDE-------SAEMKWRALGDASLQRFNFKLAIEAFTNA  707 (814)
T ss_dssp             HHHTCHHHHHHHHTTC-------CCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             hhcCCHHHHHHHHHhh-------CcHhHHHHHHHHHHHcCCHHHHHHHHHHc
Confidence            3455555555553322       22233555555555555555555555544

>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=95.89  E-value=0.14  Score=53.72  Aligned_cols=173  Identities=9%  Similarity=-0.087  Sum_probs=104.9

Q ss_pred             hcCC-hhhHHHHHHHHHhcCCCccHHH-HHHHHHHHHhcCC----------hhhhHHHHHHhhhcCCCcccchhHHHHHH
Q 048743          189 RFGS-SLKGQHIMELMSQTGVVADAHS-IIILAQIHEMNCQ----------RDELKKFKCYIDQLSTPFAHHYQQFYESL  256 (653)
Q Consensus       189 ~~g~-~~~a~~l~~~m~~~g~~p~~~t-~~~ll~~~~~~g~----------~~~a~~~~~~~~~~~~~~~~~~~~~~~~l  256 (653)
                      +.|. .++|++.++.+.+.  .|+.+| |+.--.++...|+          ++++.++++.+.+..+..-    .+|+--
T Consensus        40 ~~~~~~eeal~~~~~~l~~--nP~~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~~pK~y----~aW~hR  113 (567)
T 1dce_A           40 QAGELDESVLELTSQILGA--NPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVNPKSY----GTWHHR  113 (567)
T ss_dssp             HTTCCSHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHCTTCH----HHHHHH
T ss_pred             HcCCCCHHHHHHHHHHHHH--CchhHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHhCCCCH----HHHHHH
Confidence            4444 46889999999975  677776 5544444444444          6667777777666543222    246665


Q ss_pred             HHhhhccC--CHHHHHHHHHHhcccCCCCCCchhhhcccccchhccCCCcccchhhhccchhhhHHHHHHhhhhhHHHHH
Q 048743          257 LSLHFKFD--DIDAAGELILDMNRYREPLPNPKLRQDAQKPYLISIGSPNLRCGLKLQIMPELLEKDSILKMEGKQELVL  334 (653)
Q Consensus       257 i~~~~~~g--~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  334 (653)
                      -.++.+.|  +++++.++++++.+.                                                       
T Consensus       114 ~w~l~~l~~~~~~~el~~~~k~l~~-------------------------------------------------------  138 (567)
T 1dce_A          114 CWLLSRLPEPNWARELELCARFLEA-------------------------------------------------------  138 (567)
T ss_dssp             HHHHHTCSSCCHHHHHHHHHHHHHH-------------------------------------------------------
T ss_pred             HHHHHHcccccHHHHHHHHHHHHhh-------------------------------------------------------
Confidence            66666666  557777777777320                                                       


Q ss_pred             HhcCCCCCCHHHHHHHHHHHHhcC-ChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHc--------------CCHHHH
Q 048743          335 FRNGKLLHSNRAMAKLINGYKKHG-KNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQL--------------GFLEAA  399 (653)
Q Consensus       335 ~~~~~~~p~~~~~~~li~~~~~~~-~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~--------------g~~~~a  399 (653)
                           -+-+...|+.--..+.+.| .++++++.+.++.+..  +.+...|+.....+.+.              +.++++
T Consensus       139 -----d~~N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~~--p~n~saW~~r~~ll~~l~~~~~~~~~~~~~~~~~~ee  211 (567)
T 1dce_A          139 -----DERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRN--FSNYSSWHYRSCLLPQLHPQPDSGPQGRLPENVLLKE  211 (567)
T ss_dssp             -----CTTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTT--CCCHHHHHHHHHHHHHHSCCCCSSSCCSSCHHHHHHH
T ss_pred             -----ccccccHHHHHHHHHHHcCCChHHHHHHHHHHHHHC--CCCccHHHHHHHHHHhhcccccccccccccHHHHHHH
Confidence                 1124456666555566666 6777777777777666  66666677666666553              345666


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHHHcCC
Q 048743          400 HDILDDMELAGHPMDSTTYKSLLTAYYKVKM  430 (653)
Q Consensus       400 ~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~  430 (653)
                      ++.++...... +-|...|+-+-..+.+.++
T Consensus       212 l~~~~~ai~~~-P~~~saW~y~~~ll~~~~~  241 (567)
T 1dce_A          212 LELVQNAFFTD-PNDQSAWFYHRWLLGRAEP  241 (567)
T ss_dssp             HHHHHHHHHHC-SSCSHHHHHHHHHHSCCCC
T ss_pred             HHHHHHHHhhC-CCCccHHHHHHHHHhcCCC
Confidence            66666665542 2255666665555555554

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=95.80  E-value=0.12  Score=38.23  Aligned_cols=82  Identities=11%  Similarity=0.042  Sum_probs=54.9

Q ss_pred             CHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHHhhhCCCccCHHHHH
Q 048743          498 TIYKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRPTVETFYYLVYGHSSLEMYRDITILWGDIKRNIESGVLAVSRDLYE  577 (653)
Q Consensus       498 ~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~p~~~~y~  577 (653)
                      +...|..+...+...|++++|+..|++..+.. +.+...+..+...+...|++++|...++...+.     -+.+...+.
T Consensus         8 ~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~-----~p~~~~~~~   81 (91)
T 1na3_A            8 SAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALEL-----DPNNAEAKQ   81 (91)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-----CTTCHHHHH
T ss_pred             cHHHHHHHHHHHHHccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhc-----CCCCHHHHH
Confidence            34567777777888888888888888877653 224566777777888888888888888776532     122344555


Q ss_pred             HHHHHHHh
Q 048743          578 TLLLNFLQ  585 (653)
Q Consensus       578 ~li~~~~~  585 (653)
                      .+...+.+
T Consensus        82 ~l~~~~~~   89 (91)
T 1na3_A           82 NLGNAKQK   89 (91)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHh
Confidence            55444443

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=95.72  E-value=0.093  Score=58.17  Aligned_cols=155  Identities=14%  Similarity=0.093  Sum_probs=107.3

Q ss_pred             HHHHhcCChhhHHH-HHHHHHhcCCCccHHHHHHHHHHHHhcCChhhhHHHHHHhhhcCCCcccchhHHHHHHHHhhhcc
Q 048743          185 HACVRFGSSLKGQH-IMELMSQTGVVADAHSIIILAQIHEMNCQRDELKKFKCYIDQLSTPFAHHYQQFYESLLSLHFKF  263 (653)
Q Consensus       185 ~~~~~~g~~~~a~~-l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~  263 (653)
                      ......+++++|.+ ++..      .|+......++..+.+.|..+.|.++.+.-               ..-.......
T Consensus       607 ~~~~~~~~~~~a~~~~l~~------i~~~~~~~~~~~~l~~~~~~~~a~~~~~~~---------------~~~f~~~l~~  665 (814)
T 3mkq_A          607 QTLTLRGEIEEAIENVLPN------VEGKDSLTKIARFLEGQEYYEEALNISPDQ---------------DQKFELALKV  665 (814)
T ss_dssp             HHHHHTTCHHHHHHHTGGG------CCCHHHHHHHHHHHHHTTCHHHHHHHCCCH---------------HHHHHHHHHH
T ss_pred             hHHHHhCCHHHHHHHHHhc------CCchHHHHHHHHHHHhCCChHHheecCCCc---------------chheehhhhc
Confidence            34456788888876 5422      121122266777778888888887665321               1112334567


Q ss_pred             CCHHHHHHHHHHhcccCCCCCCchhhhcccccchhccCCCcccchhhhccchhhhHHHHHHhhhhhHHHHHHhcCCCCCC
Q 048743          264 DDIDAAGELILDMNRYREPLPNPKLRQDAQKPYLISIGSPNLRCGLKLQIMPELLEKDSILKMEGKQELVLFRNGKLLHS  343 (653)
Q Consensus       264 g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~  343 (653)
                      |++++|.++.+.+                                                                 .+
T Consensus       666 ~~~~~A~~~~~~~-----------------------------------------------------------------~~  680 (814)
T 3mkq_A          666 GQLTLARDLLTDE-----------------------------------------------------------------SA  680 (814)
T ss_dssp             TCHHHHHHHHTTC-----------------------------------------------------------------CC
T ss_pred             CCHHHHHHHHHhh-----------------------------------------------------------------Cc
Confidence            9999998887666                                                                 45


Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 048743          344 NRAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTYKSLLT  423 (653)
Q Consensus       344 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~  423 (653)
                      ...|..+-..+.+.++++.|++.|.++..          |..+...+...|+.+...++-+.....|-      ++....
T Consensus       681 ~~~W~~la~~al~~~~~~~A~~~y~~~~d----------~~~l~~l~~~~~~~~~~~~~~~~a~~~~~------~~~A~~  744 (814)
T 3mkq_A          681 EMKWRALGDASLQRFNFKLAIEAFTNAHD----------LESLFLLHSSFNNKEGLVTLAKDAETTGK------FNLAFN  744 (814)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHTC----------HHHHHHHHHHTTCHHHHHHHHHHHHHTTC------HHHHHH
T ss_pred             HhHHHHHHHHHHHcCCHHHHHHHHHHccC----------hhhhHHHHHHcCCHHHHHHHHHHHHHcCc------hHHHHH
Confidence            66899999999999999999999998753          77777778888888887777666655542      244555


Q ss_pred             HHHHcCChHHHHHHHHHH
Q 048743          424 AYYKVKMFREAEALLKQM  441 (653)
Q Consensus       424 ~~~~~~~~~~a~~~~~~m  441 (653)
                      +|.+.|++++|.+++.++
T Consensus       745 ~~~~~g~~~~a~~~~~~~  762 (814)
T 3mkq_A          745 AYWIAGDIQGAKDLLIKS  762 (814)
T ss_dssp             HHHHHTCHHHHHHHHHHT
T ss_pred             HHHHcCCHHHHHHHHHHc
Confidence            677788888888887554

>3qww_A SET and MYND domain-containing protein 2; methyltransferase, HSP90, transferase-transferase inhibitor; HET: SFG; 1.80A {Mus musculus} PDB: 3qwv_A* 3s7d_A* 3s7b_A* 3s7f_A* 3s7j_A* 3tg4_A* 3tg5_A* 3rib_A*

Probab=95.46  E-value=0.12  Score=51.86  Aligned_cols=90  Identities=10%  Similarity=-0.014  Sum_probs=64.3

Q ss_pred             cCCCHHHHHHHHHHHHh---cCCCCC----HHHHHHHHHHHhccCCHHHHHHHHHHHHHHhhh-C-CCcc-CHHHHHHHH
Q 048743          511 KGKMIGDALKIYRRMQE---MKIRPT----VETFYYLVYGHSSLEMYRDITILWGDIKRNIES-G-VLAV-SRDLYETLL  580 (653)
Q Consensus       511 ~~g~~~~a~~~~~~m~~---~g~~p~----~~t~~~li~~~~~~~~~~~a~~~~~~~~~~~~~-~-~~~p-~~~~y~~li  580 (653)
                      ..|++++|+.++++..+   .-+.|+    ..+++.|..+|...|++++|..+++......+. . .-.| ...+|+.|.
T Consensus       310 ~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nLa  389 (433)
T 3qww_A          310 HYKSPSELLEICELSQEKMSSVFEDSNVYMLHMMYQAMGVCLYMQDWEGALKYGQKIIKPYSKHYPVYSLNVASMWLKLG  389 (433)
T ss_dssp             TTSCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHHHH
T ss_pred             hccCHHHHHHHHHHHHHHhhCccChhchHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHH
Confidence            35778888888887665   223333    357888888888888888888888876644221 1 2223 345688899


Q ss_pred             HHHHhCCCHHHHHHHHHHHH
Q 048743          581 LNFLQGGYFERVMEVIGYMK  600 (653)
Q Consensus       581 ~~~~~~g~~~~a~~~~~~m~  600 (653)
                      ..|..+|++++|+.++++..
T Consensus       390 ~~~~~qg~~~eA~~~~~~Al  409 (433)
T 3qww_A          390 RLYMGLENKAAGEKALKKAI  409 (433)
T ss_dssp             HHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHhccCHHHHHHHHHHHH
Confidence            99999999999999988775

>3qwp_A SET and MYND domain-containing protein 3; SMYD3,SET and MYND domain, zinc finger MYND domain-containin 1, structural genomics; HET: SAM; 1.53A {Homo sapiens} PDB: 3mek_A* 3oxg_A* 3oxf_A* 3pdn_A* 3oxl_A* 3ru0_A*

Probab=95.41  E-value=0.1  Score=52.50  Aligned_cols=95  Identities=7%  Similarity=-0.052  Sum_probs=73.0

Q ss_pred             HHHHHcCCCHHHHHHHHHHHHhc---CCCCC----HHHHHHHHHHHhccCCHHHHHHHHHHHHHHhhh--CCCcc-CHHH
Q 048743          506 IYFFCKGKMIGDALKIYRRMQEM---KIRPT----VETFYYLVYGHSSLEMYRDITILWGDIKRNIES--GVLAV-SRDL  575 (653)
Q Consensus       506 i~~~~~~g~~~~a~~~~~~m~~~---g~~p~----~~t~~~li~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~p-~~~~  575 (653)
                      +..+.+.|++++|++++++..+.   -+.|+    ..+++.|..+|...|++++|+.+++......+.  +.-.| ...+
T Consensus       294 ie~~~~~g~~~~a~~~~~~~L~~~~~~lg~~h~~~~~~~~~L~~~y~~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~  373 (429)
T 3qwp_A          294 IEELKAHWKWEQVLAMCQAIISSNSERLPDINIYQLKVLDCAMDACINLGLLEEALFYGTRTMEPYRIFFPGSHPVRGVQ  373 (429)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHTCSSCCCCTTSHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHH
T ss_pred             HHHHHhhccHHHHHHHHHHHHHhccCcCCccchHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHhHHHHcCCCChHHHHH
Confidence            45566789999999999998863   23333    357889999999999999999999987654322  12233 3456


Q ss_pred             HHHHHHHHHhCCCHHHHHHHHHHHH
Q 048743          576 YETLLLNFLQGGYFERVMEVIGYMK  600 (653)
Q Consensus       576 y~~li~~~~~~g~~~~a~~~~~~m~  600 (653)
                      |+.|...|..+|++++|+.++++..
T Consensus       374 l~nLa~~~~~~g~~~eA~~~~~~Al  398 (429)
T 3qwp_A          374 VMKVGKLQLHQGMFPQAMKNLRLAF  398 (429)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHH
Confidence            8889999999999999999998775

>1zu2_A Mitochondrial import receptor subunit TOM20-3; TPR, tetratricopeptide repeat like, TPR-like, transport protein; NMR {Arabidopsis thaliana} SCOP: a.118.8.1

Probab=95.34  E-value=0.033  Score=46.68  Aligned_cols=91  Identities=11%  Similarity=-0.002  Sum_probs=74.8

Q ss_pred             HhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCH----------HHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 048743          355 KKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFL----------EAAHDILDDMELAGHPMDSTTYKSLLTA  424 (653)
Q Consensus       355 ~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~----------~~a~~~~~~m~~~g~~p~~~~~~~li~~  424 (653)
                      .+.+.+++|.+.++...+..  |.+...|..+-.++...+++          ++|+..|++..+... -+..+|..+-.+
T Consensus        13 ~r~~~feeA~~~~~~Ai~l~--P~~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~ldP-~~~~A~~~LG~a   89 (158)
T 1zu2_A           13 DRILLFEQIRQDAENTYKSN--PLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLIDP-KKDEAVWCIGNA   89 (158)
T ss_dssp             HHHHHHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCT-TCHHHHHHHHHH
T ss_pred             HHHhHHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHhCc-CcHHHHHHHHHH
Confidence            45567899999999999988  88888899888888888764          599999999887542 267789999999


Q ss_pred             HHHcC-----------ChHHHHHHHHHHHHcCCccCc
Q 048743          425 YYKVK-----------MFREAEALLKQMRKSCLVQNL  450 (653)
Q Consensus       425 ~~~~~-----------~~~~a~~~~~~m~~~~~~p~~  450 (653)
                      |...|           ++++|.+.|++..+  +.|+.
T Consensus        90 y~~lg~l~P~~~~a~g~~~eA~~~~~kAl~--l~P~~  124 (158)
T 1zu2_A           90 YTSFAFLTPDETEAKHNFDLATQFFQQAVD--EQPDN  124 (158)
T ss_dssp             HHHHHHHCCCHHHHHHHHHHHHHHHHHHHH--HCTTC
T ss_pred             HHHhcccCcchhhhhccHHHHHHHHHHHHH--hCCCC
Confidence            98774           89999999999988  46764

>1zu2_A Mitochondrial import receptor subunit TOM20-3; TPR, tetratricopeptide repeat like, TPR-like, transport protein; NMR {Arabidopsis thaliana} SCOP: a.118.8.1

Probab=95.24  E-value=0.036  Score=46.44  Aligned_cols=96  Identities=8%  Similarity=-0.012  Sum_probs=66.9

Q ss_pred             ccCCHHHHHHHHHHHHHccCCC-CHHHHHHHHHHHHcCCCH----------HHHHHHHHHHHhcCCCC-CHHHHHHHHHH
Q 048743          476 LMDKSDLAESLIQEMREEAALS-TIYKLNSSIYFFCKGKMI----------GDALKIYRRMQEMKIRP-TVETFYYLVYG  543 (653)
Q Consensus       476 ~~~~~~~a~~~~~~m~~~~~~p-~~~~y~~li~~~~~~g~~----------~~a~~~~~~m~~~g~~p-~~~t~~~li~~  543 (653)
                      +.+.+++|...++...+..  | +...|+.+-.++...+++          ++|+..|++.++.  .| +...|..+-.+
T Consensus        14 r~~~feeA~~~~~~Ai~l~--P~~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~l--dP~~~~A~~~LG~a   89 (158)
T 1zu2_A           14 RILLFEQIRQDAENTYKSN--PLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLI--DPKKDEAVWCIGNA   89 (158)
T ss_dssp             HHHHHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHH
T ss_pred             HHhHHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHh--CcCcHHHHHHHHHH
Confidence            3567788888888888765  5 777888777788777654          5888888887774  44 45677788888


Q ss_pred             HhccC-----------CHHHHHHHHHHHHHHhhhCCCccCHHHHHHHHH
Q 048743          544 HSSLE-----------MYRDITILWGDIKRNIESGVLAVSRDLYETLLL  581 (653)
Q Consensus       544 ~~~~~-----------~~~~a~~~~~~~~~~~~~~~~~p~~~~y~~li~  581 (653)
                      |...|           ++++|.+.|+...      .+.|+...|...+.
T Consensus        90 y~~lg~l~P~~~~a~g~~~eA~~~~~kAl------~l~P~~~~y~~al~  132 (158)
T 1zu2_A           90 YTSFAFLTPDETEAKHNFDLATQFFQQAV------DEQPDNTHYLKSLE  132 (158)
T ss_dssp             HHHHHHHCCCHHHHHHHHHHHHHHHHHHH------HHCTTCHHHHHHHH
T ss_pred             HHHhcccCcchhhhhccHHHHHHHHHHHH------HhCCCCHHHHHHHH
Confidence            87664           6777777777665      34566555544443

>3qww_A SET and MYND domain-containing protein 2; methyltransferase, HSP90, transferase-transferase inhibitor; HET: SFG; 1.80A {Mus musculus} PDB: 3qwv_A* 3s7d_A* 3s7b_A* 3s7f_A* 3s7j_A* 3tg4_A* 3tg5_A* 3rib_A*

Probab=94.81  E-value=0.15  Score=51.19  Aligned_cols=87  Identities=9%  Similarity=-0.106  Sum_probs=69.2

Q ss_pred             cCCHHHHHHHHHHHHHc---cCCC----CHHHHHHHHHHHHcCCCHHHHHHHHHHHHhc-----C-CCCCH-HHHHHHHH
Q 048743          477 MDKSDLAESLIQEMREE---AALS----TIYKLNSSIYFFCKGKMIGDALKIYRRMQEM-----K-IRPTV-ETFYYLVY  542 (653)
Q Consensus       477 ~~~~~~a~~~~~~m~~~---~~~p----~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~-----g-~~p~~-~t~~~li~  542 (653)
                      .|++++|+.++++..+.   -+.|    ...+++.|...|...|++++|+.++++..+-     | -.|+. .+|+.|-.
T Consensus       311 ~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nLa~  390 (433)
T 3qww_A          311 YKSPSELLEICELSQEKMSSVFEDSNVYMLHMMYQAMGVCLYMQDWEGALKYGQKIIKPYSKHYPVYSLNVASMWLKLGR  390 (433)
T ss_dssp             TSCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHHHHH
T ss_pred             ccCHHHHHHHHHHHHHHhhCccChhchHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHH
Confidence            57899999999876642   2223    4567999999999999999999999998752     2 23443 56899999


Q ss_pred             HHhccCCHHHHHHHHHHHHHH
Q 048743          543 GHSSLEMYRDITILWGDIKRN  563 (653)
Q Consensus       543 ~~~~~~~~~~a~~~~~~~~~~  563 (653)
                      .|...|++++|+.++++..+-
T Consensus       391 ~~~~qg~~~eA~~~~~~Al~i  411 (433)
T 3qww_A          391 LYMGLENKAAGEKALKKAIAI  411 (433)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHhccCHHHHHHHHHHHHHH
Confidence            999999999999999887643

>3qwp_A SET and MYND domain-containing protein 3; SMYD3,SET and MYND domain, zinc finger MYND domain-containin 1, structural genomics; HET: SAM; 1.53A {Homo sapiens} PDB: 3mek_A* 3oxg_A* 3oxf_A* 3pdn_A* 3oxl_A* 3ru0_A*

Probab=94.78  E-value=0.28  Score=49.32  Aligned_cols=95  Identities=19%  Similarity=0.039  Sum_probs=73.5

Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHhcCC--CCCC----cccHHHHHHHHHHcCCHHHHHHHHHHHHHC-----C-CCCC-H
Q 048743          349 KLINGYKKHGKNSELSWLLLSIKKEHH--SFGE----STLCSDVIDALIQLGFLEAAHDILDDMELA-----G-HPMD-S  415 (653)
Q Consensus       349 ~li~~~~~~~~~~~a~~~~~~m~~~~~--~~~~----~~~~~~li~~~~~~g~~~~a~~~~~~m~~~-----g-~~p~-~  415 (653)
                      ..+..+.+.|++++|+.++++..+...  ..++    ..+++.+..+|...|++++|..++++..+-     | -.|+ .
T Consensus       292 ~~ie~~~~~g~~~~a~~~~~~~L~~~~~~lg~~h~~~~~~~~~L~~~y~~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a  371 (429)
T 3qwp_A          292 KKIEELKAHWKWEQVLAMCQAIISSNSERLPDINIYQLKVLDCAMDACINLGLLEEALFYGTRTMEPYRIFFPGSHPVRG  371 (429)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHTCSSCCCCTTSHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHSCSSCHHHH
T ss_pred             HHHHHHHhhccHHHHHHHHHHHHHhccCcCCccchHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHhHHHHcCCCChHHH
Confidence            446667789999999999998875421  1222    235888999999999999999999987541     2 2233 3


Q ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHH
Q 048743          416 TTYKSLLTAYYKVKMFREAEALLKQMRK  443 (653)
Q Consensus       416 ~~~~~li~~~~~~~~~~~a~~~~~~m~~  443 (653)
                      .+|+.|-..|...|++++|+.++++..+
T Consensus       372 ~~l~nLa~~~~~~g~~~eA~~~~~~Al~  399 (429)
T 3qwp_A          372 VQVMKVGKLQLHQGMFPQAMKNLRLAFD  399 (429)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHH
Confidence            5789999999999999999999988765

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=94.70  E-value=0.15  Score=38.72  Aligned_cols=59  Identities=12%  Similarity=-0.058  Sum_probs=45.7

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHhcCCCCCCcc-cHHHHHHHHHHcCCHHHHHHHHHHHHHCC
Q 048743          350 LINGYKKHGKNSELSWLLLSIKKEHHSFGEST-LCSDVIDALIQLGFLEAAHDILDDMELAG  410 (653)
Q Consensus       350 li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~-~~~~li~~~~~~g~~~~a~~~~~~m~~~g  410 (653)
                      ....+.+.|++++|...|++..+..  |.+.. .|..+...|...|++++|...|++..+..
T Consensus         6 ~a~~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~   65 (99)
T 2kc7_A            6 TIKELINQGDIENALQALEEFLQTE--PVGKDEAYYLMGNAYRKLGDWQKALNNYQSAIELN   65 (99)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHC--SSTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHC--CCcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC
Confidence            3455677888888888888887776  66666 67888888888888888888888887653

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=94.44  E-value=1.3  Score=37.58  Aligned_cols=83  Identities=10%  Similarity=0.119  Sum_probs=64.2

Q ss_pred             CCHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHH
Q 048743          342 HSNRAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTYKSL  421 (653)
Q Consensus       342 p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~l  421 (653)
                      -+...|..|-+...+.|+++-|++.|.+...          +..+.-.|.-.|+.++..++-+.-...|      -++..
T Consensus        32 ~~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~~D----------~~~L~~Ly~~tg~~e~L~kla~iA~~~g------~~n~a   95 (177)
T 3mkq_B           32 NDSITWERLIQEALAQGNASLAEMIYQTQHS----------FDKLSFLYLVTGDVNKLSKMQNIAQTRE------DFGSM   95 (177)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHTTC----------HHHHHHHHHHHTCHHHHHHHHHHHHHTT------CHHHH
T ss_pred             CCHHHHHHHHHHHHHcCChHHHHHHHHHhCC----------HHHHHHHHHHhCCHHHHHHHHHHHHHCc------cHHHH
Confidence            3566899999999999999999999998643          7778778888899888776665555544      24555


Q ss_pred             HHHHHHcCChHHHHHHHHH
Q 048743          422 LTAYYKVKMFREAEALLKQ  440 (653)
Q Consensus       422 i~~~~~~~~~~~a~~~~~~  440 (653)
                      ...+.-.|+++++.++|.+
T Consensus        96 f~~~l~lGdv~~~i~lL~~  114 (177)
T 3mkq_B           96 LLNTFYNNSTKERSSIFAE  114 (177)
T ss_dssp             HHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHH
Confidence            6667778999999888743

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=94.30  E-value=0.51  Score=39.04  Aligned_cols=86  Identities=10%  Similarity=0.030  Sum_probs=63.7

Q ss_pred             hHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcC---CHHHHHHHHHHHHHCCCCC--CHHHHHHHHHHHHHcCChHHH
Q 048743          360 NSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLG---FLEAAHDILDDMELAGHPM--DSTTYKSLLTAYYKVKMFREA  434 (653)
Q Consensus       360 ~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g---~~~~a~~~~~~m~~~g~~p--~~~~~~~li~~~~~~~~~~~a  434 (653)
                      ...+.+-|.+....+  +++..+.-.+--++++++   +++++..+|++..+.. .|  ....+-.|--+|.+.|++++|
T Consensus        14 l~~~~~~y~~e~~~~--~~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~-~p~~~rd~lY~LAv~~~kl~~Y~~A   90 (152)
T 1pc2_A           14 LLKFEKKFQSEKAAG--SVSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKG-SKEEQRDYVFYLAVGNYRLKEYEKA   90 (152)
T ss_dssp             HHHHHHHHHHHHHTT--CCCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHS-CHHHHHHHHHHHHHHHHHTSCHHHH
T ss_pred             HHHHHHHHHHHHccC--CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-CccchHHHHHHHHHHHHHccCHHHH
Confidence            345666666666666  456666777777888887   6668999999988764 24  345556667788999999999


Q ss_pred             HHHHHHHHHcCCccCc
Q 048743          435 EALLKQMRKSCLVQNL  450 (653)
Q Consensus       435 ~~~~~~m~~~~~~p~~  450 (653)
                      .+.++.+.+  +.|+.
T Consensus        91 ~~y~~~lL~--ieP~n  104 (152)
T 1pc2_A           91 LKYVRGLLQ--TEPQN  104 (152)
T ss_dssp             HHHHHHHHH--HCTTC
T ss_pred             HHHHHHHHh--cCCCC
Confidence            999999988  56764

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=93.69  E-value=1.2  Score=37.74  Aligned_cols=126  Identities=12%  Similarity=-0.022  Sum_probs=84.9

Q ss_pred             HhcCChhhhHHHHHHhhhcCCCcccchhHHHHHHHHhhhccCCHHHHHHHHHHhcccCCCCCCchhhhcccccchhccCC
Q 048743          223 EMNCQRDELKKFKCYIDQLSTPFAHHYQQFYESLLSLHFKFDDIDAAGELILDMNRYREPLPNPKLRQDAQKPYLISIGS  302 (653)
Q Consensus       223 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~  302 (653)
                      ...|+++.|.++.+.+..         ...|..|-+.....|+++-|.+.|.+...                        
T Consensus        16 L~lg~l~~A~e~a~~l~~---------~~~Wk~Lg~~AL~~gn~~lAe~cy~~~~D------------------------   62 (177)
T 3mkq_B           16 LEYGNLDAALDEAKKLND---------SITWERLIQEALAQGNASLAEMIYQTQHS------------------------   62 (177)
T ss_dssp             HHTTCHHHHHHHHHHHCC---------HHHHHHHHHHHHHTTCHHHHHHHHHHTTC------------------------
T ss_pred             HhcCCHHHHHHHHHHhCC---------HHHHHHHHHHHHHcCChHHHHHHHHHhCC------------------------
Confidence            345777777777665522         23588888888888999999999888831                        


Q ss_pred             CcccchhhhccchhhhHHHHHHhhhhhHHHHHHhcCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCccc
Q 048743          303 PNLRCGLKLQIMPELLEKDSILKMEGKQELVLFRNGKLLHSNRAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTL  382 (653)
Q Consensus       303 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~  382 (653)
                                                                  |..+.-.|.-.|+.++..++-+....+|      . 
T Consensus        63 --------------------------------------------~~~L~~Ly~~tg~~e~L~kla~iA~~~g------~-   91 (177)
T 3mkq_B           63 --------------------------------------------FDKLSFLYLVTGDVNKLSKMQNIAQTRE------D-   91 (177)
T ss_dssp             --------------------------------------------HHHHHHHHHHHTCHHHHHHHHHHHHHTT------C-
T ss_pred             --------------------------------------------HHHHHHHHHHhCCHHHHHHHHHHHHHCc------c-
Confidence                                                        4566666777888877776666555554      2 


Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHH
Q 048743          383 CSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTYKSLLTAYYKVKMFREAEALLKQM  441 (653)
Q Consensus       383 ~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m  441 (653)
                      ++.-...+.-.|+++++.++|.+...   .|...      -.....|..+.|.++.+.+
T Consensus        92 ~n~af~~~l~lGdv~~~i~lL~~~~r---~~eA~------~~A~t~g~~~~a~~~~~~~  141 (177)
T 3mkq_B           92 FGSMLLNTFYNNSTKERSSIFAEGGS---LPLAY------AVAKANGDEAAASAFLEQA  141 (177)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHTTC---HHHHH------HHHHHTTCHHHHHHHHHHT
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHCCC---hHHHH------HHHHHcCcHHHHHHHHHHh
Confidence            77778888888999999998865322   22111      1112356677777777665

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=93.40  E-value=0.64  Score=34.91  Aligned_cols=65  Identities=14%  Similarity=-0.074  Sum_probs=42.5

Q ss_pred             CHHHHHHHHHHHHhcCC---hHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHC
Q 048743          343 SNRAMAKLINGYKKHGK---NSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELA  409 (653)
Q Consensus       343 ~~~~~~~li~~~~~~~~---~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  409 (653)
                      +...+..+-.++...++   .++|..++++..+..  |.+......+-..+.+.|++++|...|+++.+.
T Consensus         5 ~~~~~~~~a~al~~~~~~~~~~~A~~~l~~AL~~d--p~~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~~   72 (93)
T 3bee_A            5 TATQLAAKATTLYYLHKQAMTDEVSLLLEQALQLE--PYNEAALSLIANDHFISFRFQEAIDTWVLLLDS   72 (93)
T ss_dssp             CHHHHHHHHHHHHHTTTTCCCHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTC
T ss_pred             CHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHC--cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            44455555555543333   577777777777766  666666677777777777777777777777664

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=93.26  E-value=0.61  Score=38.55  Aligned_cols=95  Identities=15%  Similarity=0.010  Sum_probs=69.9

Q ss_pred             hhHHHHHHHHhhhhcCCCCchhHHHHHHHhhccCCcchhhhHHHHHHHHHhccCCch--hHHHHHHHHHHHHhcCCCchH
Q 048743           35 VGEAWETFNDFQRLHGIPERHVVNRFITDLCYSAEPHWLQKACDLVLKIQKGKADLL--QLDLLAKLSLSLARAQMPVPA  112 (653)
Q Consensus        35 ~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~t~~~li~~~~~~g~~~~a  112 (653)
                      ...+.+-|++.... +.++..+--.+-.+++++..+..+++++.+|+++.+..  .|  ..+.+-.+..++.+.|++++|
T Consensus        14 l~~~~~~y~~e~~~-~~~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~--~p~~~rd~lY~LAv~~~kl~~Y~~A   90 (152)
T 1pc2_A           14 LLKFEKKFQSEKAA-GSVSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKG--SKEEQRDYVFYLAVGNYRLKEYEKA   90 (152)
T ss_dssp             HHHHHHHHHHHHHT-TCCCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHS--CHHHHHHHHHHHHHHHHHTSCHHHH
T ss_pred             HHHHHHHHHHHHcc-CCCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC--CccchHHHHHHHHHHHHHccCHHHH
Confidence            44555566655442 34677777777778888888777999999999998765  13  345555566788999999999


Q ss_pred             HHHHHHHHcCccCCCchhHHHH
Q 048743          113 SMILRLMLGRENLPCSDLLLLV  134 (653)
Q Consensus       113 ~~~~~~m~~~g~~p~~~~~~~l  134 (653)
                      .+.++.+.+.  .|+..-...+
T Consensus        91 ~~y~~~lL~i--eP~n~QA~~L  110 (152)
T 1pc2_A           91 LKYVRGLLQT--EPQNNQAKEL  110 (152)
T ss_dssp             HHHHHHHHHH--CTTCHHHHHH
T ss_pred             HHHHHHHHhc--CCCCHHHHHH
Confidence            9999999886  6776554444

>3ly7_A Transcriptional activator CADC; alpha/beta domain, alpha domain, DNA-binding, transcription regulation, transmembrane; 1.80A {Escherichia coli} PDB: 3lya_A 3ly8_A 3ly9_A

Probab=93.07  E-value=1.2  Score=43.01  Aligned_cols=135  Identities=6%  Similarity=-0.145  Sum_probs=89.1

Q ss_pred             CHHHHHHHHHHHHHccCCC-CHHHHHHHHHHHHc----CC-CHHHHHHHHHHHH---h-cCCCCCHHHHHHHHHHHhccC
Q 048743          479 KSDLAESLIQEMREEAALS-TIYKLNSSIYFFCK----GK-MIGDALKIYRRMQ---E-MKIRPTVETFYYLVYGHSSLE  548 (653)
Q Consensus       479 ~~~~a~~~~~~m~~~~~~p-~~~~y~~li~~~~~----~g-~~~~a~~~~~~m~---~-~g~~p~~~t~~~li~~~~~~~  548 (653)
                      ...+|..+|++..+..  | ....|..+..+|..    .+ .......+-..+.   . ..-..+..+|..+...+...|
T Consensus       214 ~~~~A~~l~e~Al~lD--P~~a~A~A~la~a~~~~~~~~~~~~~~~~~l~~a~~a~~a~~~~~~~a~~~~alal~~l~~g  291 (372)
T 3ly7_A          214 SLNRASELLGEIVQSS--PEFTYARAEKALVDIVRHSQHPLDEKQLAALNTEIDNIVTLPELNNLSIIYQIKAVSALVKG  291 (372)
T ss_dssp             HHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHTCGGGTTCHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHHhccCCCchhhHHHHHHHHHHHHhcccCCcCHHHHHHHHHHHHhCC
Confidence            4678899999988765  6 34555544444431    11 1112221111111   1 223567788888877777789


Q ss_pred             CHHHHHHHHHHHHHHhhhCCCccCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCCHHhHHHHH-HHhhhhhH
Q 048743          549 MYRDITILWGDIKRNIESGVLAVSRDLYETLLLNFLQGGYFERVMEVIGYMKKQNMYVDKLMYKSEF-LKHHKHLY  623 (653)
Q Consensus       549 ~~~~a~~~~~~~~~~~~~~~~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~l~-~~~~~~~~  623 (653)
                      ++++|...++.+...      .|+...|..+-..+.-.|++++|.+.+++...  +.|...||...- ..+..+++
T Consensus       292 d~d~A~~~l~rAl~L------n~s~~a~~llG~~~~~~G~~~eA~e~~~~Alr--L~P~~~t~~~~~~l~F~sn~~  359 (372)
T 3ly7_A          292 KTDESYQAINTGIDL------EMSWLNYVLLGKVYEMKGMNREAADAYLTAFN--LRPGANTLYWIENGIFQTSVP  359 (372)
T ss_dssp             CHHHHHHHHHHHHHH------CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HSCSHHHHHHHHHSSSCCCHH
T ss_pred             CHHHHHHHHHHHHhc------CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHh--cCCCcChHHHHhCceeecchh
Confidence            999999999988743      37888887888889999999999999988874  468877775443 22344443

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=92.97  E-value=1.1  Score=34.38  Aligned_cols=76  Identities=12%  Similarity=0.111  Sum_probs=52.4

Q ss_pred             CHHHHHHHHHHHhccCCHHHHHHHHHHHHHHhhhCC--CccCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCCHHh
Q 048743          533 TVETFYYLVYGHSSLEMYRDITILWGDIKRNIESGV--LAVSRDLYETLLLNFLQGGYFERVMEVIGYMKKQNMYVDKLM  610 (653)
Q Consensus       533 ~~~t~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t  610 (653)
                      +..-+-.|...+...|+++.|...++...+......  -.+....+..+..++.+.|++++|..++++..+  +.|+...
T Consensus         4 sa~dc~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al~--l~P~~~~   81 (104)
T 2v5f_A            4 TAEDCFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLE--LDPEHQR   81 (104)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTCHH
T ss_pred             CHHHHHHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHHHh--cCCCCHH
Confidence            444455677777788888888888887765543221  234556778888888888888888888888874  4565433

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=92.87  E-value=0.75  Score=34.51  Aligned_cols=70  Identities=11%  Similarity=-0.052  Sum_probs=55.1

Q ss_pred             CCchhHHHHHHHhhccCCcchhhhHHHHHHHHHhccCCchhHHHHHHHHHHHHhcCCCchHHHHHHHHHcCc
Q 048743           52 PERHVVNRFITDLCYSAEPHWLQKACDLVLKIQKGKADLLQLDLLAKLSLSLARAQMPVPASMILRLMLGRE  123 (653)
Q Consensus        52 ~~~~~~~~ll~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g  123 (653)
                      .++..+..+-.++...++.....+|..++.+..+.+|.  +......+-..+.+.|++++|+..++.+.+..
T Consensus         4 ~~~~~~~~~a~al~~~~~~~~~~~A~~~l~~AL~~dp~--~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~~~   73 (93)
T 3bee_A            4 VTATQLAAKATTLYYLHKQAMTDEVSLLLEQALQLEPY--NEAALSLIANDHFISFRFQEAIDTWVLLLDSN   73 (93)
T ss_dssp             CCHHHHHHHHHHHHHTTTTCCCHHHHHHHHHHHHHCTT--CHHHHHHHHHHHHHTTCHHHHHHHHHHHHTCC
T ss_pred             CCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHCcC--CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC
Confidence            35566667777776666655568999999998877765  67777788888999999999999999998874

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=92.39  E-value=3.5  Score=32.94  Aligned_cols=121  Identities=9%  Similarity=-0.054  Sum_probs=83.3

Q ss_pred             cCCHHHHHHHHHHHHHccCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHh-cC----------------CCCCHHHHHH
Q 048743          477 MDKSDLAESLIQEMREEAALSTIYKLNSSIYFFCKGKMIGDALKIYRRMQE-MK----------------IRPTVETFYY  539 (653)
Q Consensus       477 ~~~~~~a~~~~~~m~~~~~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~-~g----------------~~p~~~t~~~  539 (653)
                      .|.+++..+++.+.....   +..-||-.|--....-+-+-..++++..=. ..                ...+...++.
T Consensus        20 dG~v~qGveii~k~~~ss---ni~E~NW~ICNiiD~a~C~y~v~vLd~IGkiFDis~C~NlKrVi~C~~~~n~~se~vd~   96 (172)
T 1wy6_A           20 DGYIDEGVKIVLEITKSS---TKSEYNWFICNLLESIDCRYMFQVLDKIGSYFDLDKCQNLKSVVECGVINNTLNEHVNK   96 (172)
T ss_dssp             TTCHHHHHHHHHHHHHHS---CHHHHTHHHHHHHHHCCHHHHHHHHHHHGGGSCGGGCSCTHHHHHHHHHTTCCCHHHHH
T ss_pred             hhhHHHHHHHHHHHcCCC---CccccceeeeecchhhchhHHHHHHHHHhhhcCcHhhhcHHHHHHHHHHhcchHHHHHH
Confidence            688888888888888754   444455554444444444444444443321 00                1235566777


Q ss_pred             HHHHHhccCCHHHHHHHHHHHHHHhhhCCCccCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhCCCC
Q 048743          540 LVYGHSSLEMYRDITILWGDIKRNIESGVLAVSRDLYETLLLNFLQGGYFERVMEVIGYMKKQNMY  605 (653)
Q Consensus       540 li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~  605 (653)
                      .+..+...|+-|.-.++...+.     .+-.|+....-.+..+|.+-|+..+|.+++.+..++|++
T Consensus        97 ALd~lv~~~KkDqLdki~~~~l-----~n~~~~~~~l~kia~Ay~Klg~~r~a~eLl~~AC~kG~k  157 (172)
T 1wy6_A           97 ALDILVIQGKRDKLEEIGREIL-----KNNEVSASILVAIANALRRVGDERDATTLLIEACKKGEK  157 (172)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHC-------CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHhccHhHHHHHHHHHh-----ccCCCChHHHHHHHHHHHHhcchhhHHHHHHHHHHhhhH
Confidence            7888888888888877776643     256788888888999999999999999999999999974

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=92.27  E-value=2  Score=34.04  Aligned_cols=102  Identities=13%  Similarity=0.001  Sum_probs=71.4

Q ss_pred             HhccchhHHHHHHHHhhhhcCCCCchhHHHHHHHhhccCCcchhhhHHHHHHHHHhccCCchhHHHHHHHHHHHHhcCCC
Q 048743           30 SKNHQVGEAWETFNDFQRLHGIPERHVVNRFITDLCYSAEPHWLQKACDLVLKIQKGKADLLQLDLLAKLSLSLARAQMP  109 (653)
Q Consensus        30 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~t~~~li~~~~~~g~~  109 (653)
                      .....+..+.+-|+..... +.++..+--.+-.++.++..+....+++.++.++.+.....-..+-.-.|.-++.|.|++
T Consensus        12 ~~~~~l~~~~~~y~~e~~~-~~~s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~~~p~~~Rd~lY~LAvg~yklg~Y   90 (126)
T 1nzn_A           12 VSVEDLLKFEKKFQSEKAA-GSVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYRLKEY   90 (126)
T ss_dssp             HHHHHHHHHHHHHHHHHHH-SCCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHHHHTTCH
T ss_pred             CCHHHHHHHHHHHHHHhcc-CCCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHhhhH
Confidence            3444555566666665443 447777666677788889988888999999999877531111344455566799999999


Q ss_pred             chHHHHHHHHHcCccCCCchhHHHH
Q 048743          110 VPASMILRLMLGRENLPCSDLLLLV  134 (653)
Q Consensus       110 ~~a~~~~~~m~~~g~~p~~~~~~~l  134 (653)
                      +.|.+.++.+.+.  .|+..-...|
T Consensus        91 ~~A~~~~~~lL~~--eP~n~QA~~L  113 (126)
T 1nzn_A           91 EKALKYVRGLLQT--EPQNNQAKEL  113 (126)
T ss_dssp             HHHHHHHHHHHHH--CTTCHHHHHH
T ss_pred             HHHHHHHHHHHHh--CCCCHHHHHH
Confidence            9999999999886  6765544433

>4h7y_A Dual specificity protein kinase TTK; mitotic checkpoint kinase, chromosome instability, cancer, tetratricopeptide repeat (TPR) motif; 1.80A {Homo sapiens} PDB: 4h7x_A

Probab=92.24  E-value=2.5  Score=34.54  Aligned_cols=110  Identities=14%  Similarity=0.051  Sum_probs=67.7

Q ss_pred             CHHHHHHHHHHHHHcCCh------HHHHHHHHHHHHcCCccCch-hhHHHHhhHHHHhhhcccccccccccCCHHHHHHH
Q 048743          414 DSTTYKSLLTAYYKVKMF------REAEALLKQMRKSCLVQNLS-CEMVVSERFSEVADKSASFTDTSSLMDKSDLAESL  486 (653)
Q Consensus       414 ~~~~~~~li~~~~~~~~~------~~a~~~~~~m~~~~~~p~~~-~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~a~~~  486 (653)
                      |..+|-..+...-+.|++      ++..++|++.... ++|+.. ..--+..+...+..        +...+++++|.++
T Consensus        12 ~yd~W~~yl~llE~~g~p~~d~~l~rlrd~YerAia~-~Pp~k~~~wrrYI~LWIrYA~--------~~ei~D~d~aR~v   82 (161)
T 4h7y_A           12 NPEDWLSLLLKLEKNSVPLSDALLNKLIGRYSQAIEA-LPPDKYGQNESFARIQVRFAE--------LKAIQEPDDARDY   82 (161)
T ss_dssp             SHHHHHHHHHHHHHHTCSCCHHHHHHHHHHHHHHHHH-SCGGGGTTCHHHHHHHHHHHH--------HHHHHCGGGCHHH
T ss_pred             CHHHHHHHHHHHHHcCCCchhhHHHHHHHHHHHHHHc-CCccccccHHHHHHHHHHHHH--------HHHhcCHHHHHHH
Confidence            667777777777777877      7777888877664 666531 00000000011111        1124688888888


Q ss_pred             HHHHHHccCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCC
Q 048743          487 IQEMREEAALSTIYKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRPT  533 (653)
Q Consensus       487 ~~~m~~~~~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~  533 (653)
                      |+.+.+.+-.- ...|-.....=.+.|++.+|.+++...+..+.+|.
T Consensus        83 y~~a~~~hKkF-AKiwi~~AqFEiRqgnl~kARkILg~AiG~~~k~~  128 (161)
T 4h7y_A           83 FQMARANCKKF-AFVHISFAQFELSQGNVKKSKQLLQKAVERGAVPL  128 (161)
T ss_dssp             HHHHHHHCTTB-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCBCH
T ss_pred             HHHHHHHhHHH-HHHHHHHHHHHHHcccHHHHHHHHHHHhccCCCcH
Confidence            88886542222 56666666666788888888888888877665554

>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} PDB: 3lvh_A

Probab=91.81  E-value=0.16  Score=50.44  Aligned_cols=218  Identities=15%  Similarity=0.068  Sum_probs=111.7

Q ss_pred             HHHHHHHHHHhccchhHHHHHHHHhhhhcCCCCchhHHHHHHHhhccCCcchhhhHHHHHHHHHhccCCchhHHHHHHHH
Q 048743           21 VLLRKLESASKNHQVGEAWETFNDFQRLHGIPERHVVNRFITDLCYSAEPHWLQKACDLVLKIQKGKADLLQLDLLAKLS  100 (653)
Q Consensus        21 ~~~~~i~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~t~~~li  100 (653)
                      ++..+-++..+.+++.+|+.-|=.      ..++..|..++.+..++|.   .++-+..+ .|.+...  -++..=+.|+
T Consensus        56 VWs~LgkAqL~~~~v~eAIdsyIk------A~Dps~y~eVi~~A~~~~~---~edLv~yL-~MaRk~~--ke~~IDteLi  123 (624)
T 3lvg_A           56 VWSQLAKAQLQKGMVKEAIDSYIK------ADDPSSYMEVVQAANTSGN---WEELVKYL-QMARKKA--RESYVETELI  123 (624)
T ss_dssp             CSSSHHHHTTTSSSCTTTTTSSCC------CSCCCSSSHHHHHTTTSSC---CTTHHHHH-HTTSTTC--CSTTTTHHHH
T ss_pred             HHHHHHHHHHccCchHHHHHHHHh------CCChHHHHHHHHHHHhCCC---HHHHHHHH-HHHHHHh--cccccHHHHH
Confidence            556677777777777777665432      3566777788888888877   45555555 4433332  2344445778


Q ss_pred             HHHHhcCCCchHHHHHHHHHcCccCCCchhHHHHHHHHhhcccc------------cccchHHHHHHHHHhhhhhhhhcC
Q 048743          101 LSLARAQMPVPASMILRLMLGRENLPCSDLLLLVFVHMVKTEIG------------TCLASNFLIQLCDVFLHLSAEKSN  168 (653)
Q Consensus       101 ~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~------------~~~~~~~l~~~~~~~~~~~~a~~~  168 (653)
                      .+|++.++..+-.+.+       -.||..-...+=..|...+.-            .......++..-.-.+.++.|++ 
T Consensus       124 ~ayAk~~rL~elEefl-------~~~N~A~iq~VGDrcf~e~lYeAAKilys~isN~akLAstLV~L~~yq~AVdaArK-  195 (624)
T 3lvg_A          124 FALAKTNRLAELEEFI-------NGPNNAHIQQVGDRCYDEKMYDAAKLLYNNVSNFGRLASTLVHLGEYQAAVDGARK-  195 (624)
T ss_dssp             HHHHTSCSSSTTTSTT-------SCCSSSCTHHHHHHHHHSCCSTTSSTTGGGSCCCTTTSSSSSSCSGGGSSTTTTTT-
T ss_pred             HHHHhhCcHHHHHHHH-------cCCCcccHHHHHHHHHHccCHHHHHHHHHhCccHHHHHHHHHHHHHHHHHHHHHHh-
Confidence            8888888876644433       134444333332333322210            00001111111111112222222 


Q ss_pred             CccCCCCchhhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCccHHHHHHHHHHHHhcCChhhhHHHHHHhhhcCCCcccc
Q 048743          169 GAELIKPDTMIFNLVLHACVRFGSSLKGQHIMELMSQTGVVADAHSIIILAQIHEMNCQRDELKKFKCYIDQLSTPFAHH  248 (653)
Q Consensus       169 ~~~~~~~~~~~yn~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~  248 (653)
                           .-++.||-.+-.+|...+.+.-|.-.--.+.-   .||.  ...++..|...|-+++...+++.-.....    .
T Consensus       196 -----Ans~ktWKeV~~ACvd~~EfrLAqicGLniIv---hade--L~elv~~YE~~G~f~ELIsLlEaglglEr----A  261 (624)
T 3lvg_A          196 -----ANSTRTWKEVCFACVDGKEFRLAQMCGLHIVV---HADE--LEELINYYQDRGYFEELITMLEAALGLER----A  261 (624)
T ss_dssp             -----CCSSCSHHHHTHHHHHSCTTTTTTHHHHHHHC---CSSC--CSGGGSSSSTTCCCTTSTTTHHHHTTSTT----C
T ss_pred             -----cCChhHHHHHHHHHhCchHHHHHHHhcchhcc---cHHH--HHHHHHHHHhCCCHHHHHHHHHHHhCCCc----h
Confidence                 23566777777777777777666554433332   2221  22345556667777777776665543221    1


Q ss_pred             hhHHHHHHHHhhhccCCHHHHHHHH
Q 048743          249 YQQFYESLLSLHFKFDDIDAAGELI  273 (653)
Q Consensus       249 ~~~~~~~li~~~~~~g~~~~A~~~~  273 (653)
                      ..-+|+-|--.|++- ++++-.+.+
T Consensus       262 HmGmFTELaILYsKY-~PeKlmEHl  285 (624)
T 3lvg_A          262 HMGMFTELAILYSKF-KPQKMREHL  285 (624)
T ss_dssp             CHHHHHHHHHHHHSS-CTTHHHHHH
T ss_pred             hHHHHHHHHHHHHhc-CHHHHHHHH
Confidence            223566666666654 334433333

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=91.28  E-value=4.8  Score=32.20  Aligned_cols=79  Identities=9%  Similarity=-0.066  Sum_probs=48.1

Q ss_pred             cCCHHHHHHHHHHHHHccCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCCHHHHHHH
Q 048743          477 MDKSDLAESLIQEMREEAALSTIYKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRPTVETFYYLVYGHSSLEMYRDITIL  556 (653)
Q Consensus       477 ~~~~~~a~~~~~~m~~~~~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~  556 (653)
                      +|++......+-.+..     +....+..++.+...|+-++-.+++.++.. +.+|++.....+-.+|.+.|+..+|.++
T Consensus        74 C~NlKrVi~C~~~~n~-----~se~vd~ALd~lv~~~KkDqLdki~~~~l~-n~~~~~~~l~kia~Ay~Klg~~r~a~eL  147 (172)
T 1wy6_A           74 CQNLKSVVECGVINNT-----LNEHVNKALDILVIQGKRDKLEEIGREILK-NNEVSASILVAIANALRRVGDERDATTL  147 (172)
T ss_dssp             CSCTHHHHHHHHHTTC-----CCHHHHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             hhcHHHHHHHHHHhcc-----hHHHHHHHHHHHHHhccHhHHHHHHHHHhc-cCCCChHHHHHHHHHHHHhcchhhHHHH
Confidence            5555555555444332     344556666677777777777777776433 3456666666777777777777777776


Q ss_pred             HHHHH
Q 048743          557 WGDIK  561 (653)
Q Consensus       557 ~~~~~  561 (653)
                      +.+.-
T Consensus       148 l~~AC  152 (172)
T 1wy6_A          148 LIEAC  152 (172)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            65543

>3u64_A Protein TP_0956; tetratrico peptide repeat, protein-prote interaction, syphilis, lipoprotein, transport protein; 2.30A {Treponema pallidum subsp} PDB: 4di3_A 4di4_A*

Probab=91.09  E-value=0.75  Score=42.61  Aligned_cols=75  Identities=13%  Similarity=0.009  Sum_probs=57.4

Q ss_pred             CCCC---HHHHHHHHHHHHhc-----CChHHHHHHHHHHHhcCCCCC-CcccHHHHHHHHHHc-CCHHHHHHHHHHHHHC
Q 048743          340 LLHS---NRAMAKLINGYKKH-----GKNSELSWLLLSIKKEHHSFG-ESTLCSDVIDALIQL-GFLEAAHDILDDMELA  409 (653)
Q Consensus       340 ~~p~---~~~~~~li~~~~~~-----~~~~~a~~~~~~m~~~~~~~~-~~~~~~~li~~~~~~-g~~~~a~~~~~~m~~~  409 (653)
                      +.|+   ...|..+...|.+.     |+.++|.+.|++..+-+  |. +..++......++.. |+.+.+.+.+++....
T Consensus       192 LDP~~~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~Ln--P~~~id~~v~YA~~l~~~~gd~~~a~~~L~kAL~a  269 (301)
T 3u64_A          192 LWPSYQEGAVWNVLTKFYAAAPESFGGGMEKAHTAFEHLTRYC--SAHDPDHHITYADALCIPLNNRAGFDEALDRALAI  269 (301)
T ss_dssp             HCTTHHHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHHHC--CTTCSHHHHHHHHHTTTTTTCHHHHHHHHHHHHHC
T ss_pred             hCCCcccCHHHHHHHHHHHhCCCccCCCHHHHHHHHHHHHHhC--CCCCchHHHHHHHHHHHhcCCHHHHHHHHHHHHcC
Confidence            4455   45777888888884     89999999999988877  54 367778888888884 8899999999998887


Q ss_pred             CCC--CCHH
Q 048743          410 GHP--MDST  416 (653)
Q Consensus       410 g~~--p~~~  416 (653)
                      ...  |+..
T Consensus       270 ~p~~~P~~~  278 (301)
T 3u64_A          270 DPESVPHNK  278 (301)
T ss_dssp             CGGGCSSCH
T ss_pred             CCCCCCChh
Confidence            655  5544

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=90.23  E-value=1.3  Score=33.97  Aligned_cols=64  Identities=9%  Similarity=-0.119  Sum_probs=52.0

Q ss_pred             CHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcC------CCCCHHHHHHHHHHHhccCCHHHHHHHHHHHH
Q 048743          498 TIYKLNSSIYFFCKGKMIGDALKIYRRMQEMK------IRPTVETFYYLVYGHSSLEMYRDITILWGDIK  561 (653)
Q Consensus       498 ~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g------~~p~~~t~~~li~~~~~~~~~~~a~~~~~~~~  561 (653)
                      +..-+-.|-..+.+.|+++.|...|+...+.-      -.+....+..|..++.+.|+++.|..+++.+.
T Consensus         4 sa~dc~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al   73 (104)
T 2v5f_A            4 TAEDCFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLL   73 (104)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHHH
Confidence            44456678888899999999999999887631      12346678899999999999999999998886

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=89.67  E-value=2.6  Score=31.37  Aligned_cols=63  Identities=11%  Similarity=0.084  Sum_probs=44.7

Q ss_pred             HHHHHHhccchhHHHHHHHHhhhhcCCC-Cch-hHHHHHHHhhccCCcchhhhHHHHHHHHHhccCCchh
Q 048743           25 KLESASKNHQVGEAWETFNDFQRLHGIP-ERH-VVNRFITDLCYSAEPHWLQKACDLVLKIQKGKADLLQ   92 (653)
Q Consensus        25 ~i~~~~~~~~~~~A~~~~~~~~~~~~~~-~~~-~~~~ll~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~   92 (653)
                      ....+.+.|++++|.+.|+...+.  .| +.. .+..+-..+...|+   .++|...|.+..+..+..+.
T Consensus         6 ~a~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~lg~~~~~~~~---~~~A~~~~~~al~~~p~~~~   70 (99)
T 2kc7_A            6 TIKELINQGDIENALQALEEFLQT--EPVGKDEAYYLMGNAYRKLGD---WQKALNNYQSAIELNPDSPA   70 (99)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHH--CSSTHHHHHHHHHHHHHHHTC---HHHHHHHHHHHHHHCTTSTH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHH--CCCcHHHHHHHHHHHHHHcCC---HHHHHHHHHHHHhcCCCcHH
Confidence            345667888999999999888774  23 334 66666677777777   78888888888776655333

>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=89.49  E-value=19  Score=36.15  Aligned_cols=98  Identities=13%  Similarity=0.015  Sum_probs=63.7

Q ss_pred             HHHHHHHHcCCCHHHHHHHHHHHHhc--CCCCC---HHHHHHHHHHHhccCCHHHHHHHHHHHHHHhhhCCCccCH--HH
Q 048743          503 NSSIYFFCKGKMIGDALKIYRRMQEM--KIRPT---VETFYYLVYGHSSLEMYRDITILWGDIKRNIESGVLAVSR--DL  575 (653)
Q Consensus       503 ~~li~~~~~~g~~~~a~~~~~~m~~~--g~~p~---~~t~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~p~~--~~  575 (653)
                      ..|...|...|++.+|.+++.++...  |.-..   ...|...++.|...+++..|..+...+..........|+.  ..
T Consensus       141 ~~La~i~e~~g~~~eA~~iL~~l~~Et~~~~~~~~kve~~l~q~rl~l~~~d~~~a~~~~~ki~~~~~~~~~~~~lk~~~  220 (445)
T 4b4t_P          141 KDLVEIKKEEGKIDEAADILCELQVETYGSMEMSEKIQFILEQMELSILKGDYSQATVLSRKILKKTFKNPKYESLKLEY  220 (445)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHHCSSSCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSSCCHHHHHHH
T ss_pred             HHHHHHHHHccCHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhcccCCcHHHHHHH
Confidence            45667777788888888888887642  22211   2356667777888888888888887765333333333332  34


Q ss_pred             HHHHHHHHHhCCCHHHHHHHHHHHH
Q 048743          576 YETLLLNFLQGGYFERVMEVIGYMK  600 (653)
Q Consensus       576 y~~li~~~~~~g~~~~a~~~~~~m~  600 (653)
                      |...+..+...+++.+|.+.|.+.-
T Consensus       221 ~~~~~~~~~~e~~y~~a~~~y~e~~  245 (445)
T 4b4t_P          221 YNLLVKISLHKREYLEVAQYLQEIY  245 (445)
T ss_dssp             HHHHHHHHHHHCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            5666777777888888877776663

>3u64_A Protein TP_0956; tetratrico peptide repeat, protein-prote interaction, syphilis, lipoprotein, transport protein; 2.30A {Treponema pallidum subsp} PDB: 4di3_A 4di4_A*

Probab=89.26  E-value=8  Score=35.82  Aligned_cols=109  Identities=8%  Similarity=-0.061  Sum_probs=76.3

Q ss_pred             cCCHHHHHHHHHHHHHccCCCC---HHHHHHHHHHHHc-----CCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhcc-
Q 048743          477 MDKSDLAESLIQEMREEAALST---IYKLNSSIYFFCK-----GKMIGDALKIYRRMQEMKIRPTVETFYYLVYGHSSL-  547 (653)
Q Consensus       477 ~~~~~~a~~~~~~m~~~~~~p~---~~~y~~li~~~~~-----~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~-  547 (653)
                      .+....|..++++..+..  |+   -..|..+...|.+     .|+.++|.+.|++..+.+-.-+..++....+.++.. 
T Consensus       176 l~~l~~A~a~lerAleLD--P~~~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~LnP~~~id~~v~YA~~l~~~~  253 (301)
T 3u64_A          176 PDTVHAAVMMLERACDLW--PSYQEGAVWNVLTKFYAAAPESFGGGMEKAHTAFEHLTRYCSAHDPDHHITYADALCIPL  253 (301)
T ss_dssp             HHHHHHHHHHHHHHHHHC--TTHHHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHHHCCTTCSHHHHHHHHHTTTTT
T ss_pred             HHhHHHHHHHHHHHHHhC--CCcccCHHHHHHHHHHHhCCCccCCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHhc
Confidence            345667788888877765  64   5578888888888     499999999999988853222366777788888884 


Q ss_pred             CCHHHHHHHHHHHHHHhhhCCCc--cCHHHHHHHHHHHHhCCCHHHHHHHHHHH
Q 048743          548 EMYRDITILWGDIKRNIESGVLA--VSRDLYETLLLNFLQGGYFERVMEVIGYM  599 (653)
Q Consensus       548 ~~~~~a~~~~~~~~~~~~~~~~~--p~~~~y~~li~~~~~~g~~~~a~~~~~~m  599 (653)
                      |+.+++.++++...+    ....  |+....|..-        -++|..++++.
T Consensus       254 gd~~~a~~~L~kAL~----a~p~~~P~~~lan~~~--------q~eA~~LL~~~  295 (301)
T 3u64_A          254 NNRAGFDEALDRALA----IDPESVPHNKLLVILS--------QKRARWLKAHV  295 (301)
T ss_dssp             TCHHHHHHHHHHHHH----CCGGGCSSCHHHHHHH--------HHHHHHHHHTH
T ss_pred             CCHHHHHHHHHHHHc----CCCCCCCChhHHHHHH--------HHHHHHHHHHh
Confidence            999999999988763    2344  6655555433        34555555544

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=88.87  E-value=3.3  Score=32.83  Aligned_cols=90  Identities=10%  Similarity=0.047  Sum_probs=62.3

Q ss_pred             hcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHH---HHHHHHHHHHCCCCC--CHHHHHHHHHHHHHcCC
Q 048743          356 KHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEA---AHDILDDMELAGHPM--DSTTYKSLLTAYYKVKM  430 (653)
Q Consensus       356 ~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~---a~~~~~~m~~~g~~p--~~~~~~~li~~~~~~~~  430 (653)
                      ....+..+.+-|.+....+  +++..+--.+.-+++++.+...   +..++.++.+.+ .|  .....-.|.-++.+.|+
T Consensus        13 ~~~~l~~~~~~y~~e~~~~--~~s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~~-~p~~~Rd~lY~LAvg~yklg~   89 (126)
T 1nzn_A           13 SVEDLLKFEKKFQSEKAAG--SVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKG-SKEEQRDYVFYLAVGNYRLKE   89 (126)
T ss_dssp             HHHHHHHHHHHHHHHHHHS--CCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTS-CHHHHHHHHHHHHHHHHHTTC
T ss_pred             CHHHHHHHHHHHHHHhccC--CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-CcchHHHHHHHHHHHHHHhhh
Confidence            3344555666666666656  3555555666667777776655   888999887764 23  33344556678999999


Q ss_pred             hHHHHHHHHHHHHcCCccCc
Q 048743          431 FREAEALLKQMRKSCLVQNL  450 (653)
Q Consensus       431 ~~~a~~~~~~m~~~~~~p~~  450 (653)
                      +++|.+.++.+.+  +.|+.
T Consensus        90 Y~~A~~~~~~lL~--~eP~n  107 (126)
T 1nzn_A           90 YEKALKYVRGLLQ--TEPQN  107 (126)
T ss_dssp             HHHHHHHHHHHHH--HCTTC
T ss_pred             HHHHHHHHHHHHH--hCCCC
Confidence            9999999999988  46764

>2ff4_A Probable regulatory protein EMBR; winged-helix, tetratricopeptide repeat, beta-sandwich, trans; HET: DNA TPO; 1.90A {Mycobacterium tuberculosis} SCOP: a.4.6.1 a.118.8.3 b.26.1.2 PDB: 2fez_A*

Probab=87.10  E-value=2  Score=42.41  Aligned_cols=72  Identities=15%  Similarity=0.015  Sum_probs=59.6

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHH-----CCCCCCHHHHHH
Q 048743          347 MAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMEL-----AGHPMDSTTYKS  420 (653)
Q Consensus       347 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~-----~g~~p~~~~~~~  420 (653)
                      ...++.++...|++++|...+..+....  |.+...|..+|.+|.+.|+..+|++.|+.+.+     .|+.|+..+-..
T Consensus       174 ~~~~~~~~l~~g~~~~a~~~l~~~~~~~--P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~~L~~eLG~~P~~~l~~l  250 (388)
T 2ff4_A          174 HTAKAEAEIACGRASAVIAELEALTFEH--PYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTLRAL  250 (388)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCCHHHHHH
Confidence            3467778888999999999999988887  77887899999999999999999999988743     588888775443

>4h7y_A Dual specificity protein kinase TTK; mitotic checkpoint kinase, chromosome instability, cancer, tetratricopeptide repeat (TPR) motif; 1.80A {Homo sapiens} PDB: 4h7x_A

Probab=86.74  E-value=5.3  Score=32.65  Aligned_cols=111  Identities=10%  Similarity=0.031  Sum_probs=75.6

Q ss_pred             CHHHHHHHHHHHHcCCCH------HHHHHHHHHHHhcCCCCCHH----HHHHHHH---HHhccCCHHHHHHHHHHHHHHh
Q 048743          498 TIYKLNSSIYFFCKGKMI------GDALKIYRRMQEMKIRPTVE----TFYYLVY---GHSSLEMYRDITILWGDIKRNI  564 (653)
Q Consensus       498 ~~~~y~~li~~~~~~g~~------~~a~~~~~~m~~~g~~p~~~----t~~~li~---~~~~~~~~~~a~~~~~~~~~~~  564 (653)
                      |..+|=..+.-.-+.|+.      ++..++|++.... ++|+..    .|..|--   .+...+++++|.++|+.+.+. 
T Consensus        12 ~yd~W~~yl~llE~~g~p~~d~~l~rlrd~YerAia~-~Pp~k~~~wrrYI~LWIrYA~~~ei~D~d~aR~vy~~a~~~-   89 (161)
T 4h7y_A           12 NPEDWLSLLLKLEKNSVPLSDALLNKLIGRYSQAIEA-LPPDKYGQNESFARIQVRFAELKAIQEPDDARDYFQMARAN-   89 (161)
T ss_dssp             SHHHHHHHHHHHHHHTCSCCHHHHHHHHHHHHHHHHH-SCGGGGTTCHHHHHHHHHHHHHHHHHCGGGCHHHHHHHHHH-
T ss_pred             CHHHHHHHHHHHHHcCCCchhhHHHHHHHHHHHHHHc-CCccccccHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHH-
Confidence            555666666666666766      7778888877663 566531    1111111   123448999999999999754 


Q ss_pred             hhCCCccCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCCHHhHHHHH
Q 048743          565 ESGVLAVSRDLYETLLLNFLQGGYFERVMEVIGYMKKQNMYVDKLMYKSEF  615 (653)
Q Consensus       565 ~~~~~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~l~  615 (653)
                       ..++   ...|-...+--.++|+.+.|.+++......+-+| .....+.+
T Consensus        90 -hKkF---AKiwi~~AqFEiRqgnl~kARkILg~AiG~~~k~-~~~le~a~  135 (161)
T 4h7y_A           90 -CKKF---AFVHISFAQFELSQGNVKKSKQLLQKAVERGAVP-LEMLEIAL  135 (161)
T ss_dssp             -CTTB---HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCBC-HHHHHHHH
T ss_pred             -hHHH---HHHHHHHHHHHHHcccHHHHHHHHHHHhccCCCc-HHHHHHHH
Confidence             3344   7777777777889999999999999999877555 44556666

>3o48_A Mitochondria fission 1 protein; tetratricopeptide repeat fold, TPR, scaffold, peroxisome, membrane fission, protein binding; 1.75A {Saccharomyces cerevisiae} PDB: 2pqr_A 2pqn_A 3uux_A

Probab=85.67  E-value=10  Score=30.27  Aligned_cols=83  Identities=8%  Similarity=-0.040  Sum_probs=62.9

Q ss_pred             cCCCCchhHHHHHHHhhccCCcchhhhHHHHHHHHHhccCCchhHHHHHHHHHHHHhcCCCchHHHHHHHHHcCccCCCc
Q 048743           49 HGIPERHVVNRFITDLCYSAEPHWLQKACDLVLKIQKGKADLLQLDLLAKLSLSLARAQMPVPASMILRLMLGRENLPCS  128 (653)
Q Consensus        49 ~~~~~~~~~~~ll~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~  128 (653)
                      ++.|++.+-=.+-.++.++.......+++.++.++.+..+. -..+.+-.|..++.|.|+++.|.+..+.+.+.  .|+.
T Consensus        35 ~~~vs~qt~F~yAw~Lv~S~~~~d~~~GI~LLe~l~~~~~~-~~Rd~LYyLAvg~yklgdY~~Ar~y~d~lL~~--eP~N  111 (134)
T 3o48_A           35 GPTATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAES-RRRECLYYLTIGCYKLGEYSMAKRYVDTLFEH--ERNN  111 (134)
T ss_dssp             GGGSCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGG-GHHHHHHHHHHHHHHHTCHHHHHHHHHHHHTT--CTTC
T ss_pred             CCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcc-hhHHHHHHHHHHHHHhhhHHHHHHHHHHHHhh--CCCC
Confidence            45677766555666788888887899999999999876532 23455566677999999999999999999886  6776


Q ss_pred             hhHHHH
Q 048743          129 DLLLLV  134 (653)
Q Consensus       129 ~~~~~l  134 (653)
                      .-...|
T Consensus       112 ~QA~~L  117 (134)
T 3o48_A          112 KQVGAL  117 (134)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            655544

>2ff4_A Probable regulatory protein EMBR; winged-helix, tetratricopeptide repeat, beta-sandwich, trans; HET: DNA TPO; 1.90A {Mycobacterium tuberculosis} SCOP: a.4.6.1 a.118.8.3 b.26.1.2 PDB: 2fez_A*

Probab=85.31  E-value=4.1  Score=40.11  Aligned_cols=76  Identities=5%  Similarity=-0.117  Sum_probs=61.8

Q ss_pred             HHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHHh-hhCCCccCHHHHH
Q 048743          501 KLNSSIYFFCKGKMIGDALKIYRRMQEMKIRPTVETFYYLVYGHSSLEMYRDITILWGDIKRNI-ESGVLAVSRDLYE  577 (653)
Q Consensus       501 ~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~p~~~~y~  577 (653)
                      +...++..+...|++++|+..+...... -+.+...+..+|.++.+.|+..+|.+.|+.+.+.+ ++.|+.|+..+-.
T Consensus       173 a~~~~~~~~l~~g~~~~a~~~l~~~~~~-~P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~~L~~eLG~~P~~~l~~  249 (388)
T 2ff4_A          173 AHTAKAEAEIACGRASAVIAELEALTFE-HPYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTLRA  249 (388)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH-STTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Confidence            3456778888999999999998888765 25578899999999999999999999999887654 4568999887644

>1v54_E Cytochrome C oxidase polypeptide VA; oxidoreductase; HET: FME TPO HEA TGL PGV CHD CDL PEK PSC DMU; 1.80A {Bos taurus} SCOP: a.118.11.1 PDB: 1oco_E* 1occ_E* 1ocz_E* 1ocr_E* 1v55_E* 2dyr_E* 2dys_E* 2eij_E* 2eik_E* 2eil_E* 2eim_E* 2ein_E* 2occ_E* 2ybb_P* 2zxw_E* 3abk_E* 3abl_E* 3abm_E* 3ag1_E* 3ag2_E* ...

Probab=84.46  E-value=6.4  Score=29.53  Aligned_cols=63  Identities=8%  Similarity=0.078  Sum_probs=43.3

Q ss_pred             CHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHHhhhCCCccCHHHHHHHHH
Q 048743          514 MIGDALKIYRRMQEMKIRPTVETFYYLVYGHSSLEMYRDITILWGDIKRNIESGVLAVSRDLYETLLL  581 (653)
Q Consensus       514 ~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~p~~~~y~~li~  581 (653)
                      +.-++.+-++.+....+.|+.....+.+++|.+.+++..|.++|+.++..     ..+...+|..+++
T Consensus        25 D~~e~rrglN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~iK~K-----~~~~~~iY~~~lq   87 (109)
T 1v54_E           25 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK-----AGPHKEIYPYVIQ   87 (109)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-----TTTCTTHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHH-----hcCchhhHHHHHH
Confidence            45566666777777778888888888888888888888888888777532     1122345666654

>1n11_A Ankyrin; clathrin, BAND 3, anion exchanger, structural protein; 2.70A {Homo sapiens} SCOP: d.211.1.1

Probab=82.08  E-value=7  Score=39.10  Aligned_cols=114  Identities=11%  Similarity=0.045  Sum_probs=58.3

Q ss_pred             HHHHHHhhhhhhhhcCCccCCCCchhh--HHHHHHHHHhcCChhhHHHHHHHHHhcCCCccHHH--HHHHHHHHHhcCCh
Q 048743          153 IQLCDVFLHLSAEKSNGAELIKPDTMI--FNLVLHACVRFGSSLKGQHIMELMSQTGVVADAHS--IIILAQIHEMNCQR  228 (653)
Q Consensus       153 ~~~~~~~~~~~~a~~~~~~~~~~~~~~--yn~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t--~~~ll~~~~~~g~~  228 (653)
                      +......|+++.++.+++.+..|+...  ..+.+...++.|+.+-+..+++    .|..++...  -.+.+...+..|..
T Consensus        18 L~~Aa~~g~~~~v~~Ll~~g~~~~~~~~~~~t~L~~A~~~g~~~~v~~Ll~----~g~~~~~~~~~g~t~L~~A~~~g~~   93 (437)
T 1n11_A           18 LHVASFMGHLPIVKNLLQRGASPNVSNVKVETPLHMAARAGHTEVAKYLLQ----NKAKVNAKAKDDQTPLHCAARIGHT   93 (437)
T ss_dssp             HHHHHHHTCHHHHHHHHHTTCCSCCSSSCCCCHHHHHHHHTCHHHHHHHHH----HTCCSSCCCTTSCCHHHHHHHHTCH
T ss_pred             HHHHHHCCCHHHHHHHHHcCCCCCCCCCCCCCHHHHHHHcCCHHHHHHHHh----CCCCCCCCCCCCCCHHHHHHHCCCH
Confidence            344445566666666666666555432  2244555667777665555443    454443322  12345555667777


Q ss_pred             hhhHHHHHHhhhcCCCcccchhHHHHHHHHhhhccCCHHHHHHHHHH
Q 048743          229 DELKKFKCYIDQLSTPFAHHYQQFYESLLSLHFKFDDIDAAGELILD  275 (653)
Q Consensus       229 ~~a~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~  275 (653)
                      +-++-+++.-......+..     ..+.+...+..|+.+-+..+++.
T Consensus        94 ~~v~~Ll~~ga~~~~~~~~-----g~t~L~~A~~~g~~~~v~~Ll~~  135 (437)
T 1n11_A           94 NMVKLLLENNANPNLATTA-----GHTPLHIAAREGHVETVLALLEK  135 (437)
T ss_dssp             HHHHHHHHHTCCTTCCCTT-----CCCHHHHHHHHTCHHHHHHHHHT
T ss_pred             HHHHHHHhCCCCCCCCCCC-----CCcHHHHHHHcCCHHHHHHHHhC
Confidence            7666665542221111111     12233444566777766666543

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=81.57  E-value=7.8  Score=32.30  Aligned_cols=100  Identities=6%  Similarity=0.001  Sum_probs=63.3

Q ss_pred             HHHHHHHHHcCCCHHHHHHHHHHHHh-cCCCCCH-------HHHHHHHHHHhccCCHHHHHHHHHHHHHHhhhC------
Q 048743          502 LNSSIYFFCKGKMIGDALKIYRRMQE-MKIRPTV-------ETFYYLVYGHSSLEMYRDITILWGDIKRNIESG------  567 (653)
Q Consensus       502 y~~li~~~~~~g~~~~a~~~~~~m~~-~g~~p~~-------~t~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~------  567 (653)
                      +-.-++.+...|.++.|+-+.+.+.. .+..|+.       .++..+.+++...+++..|...|+...+..+.-      
T Consensus        23 l~dqik~L~d~~LY~sA~~La~lLlSl~~~~~~~~sp~~~~~~l~~ladalf~~~eyrrA~~~y~qALq~~k~l~k~~s~  102 (167)
T 3ffl_A           23 VIDHVRDMAAAGLHSNVRLLSSLLLTLSNNNPELFSPPQKYQLLVYHADSLFHDKEYRNAVSKYTMALQQKKALSKTSKV  102 (167)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSTTSSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHCC------
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHHHhhcCCcccccHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHhcCCCc
Confidence            34455666778888888777766554 2223332       255667778888888888888888765432211      


Q ss_pred             --------------CCccCHHHHHHHHHHHHhCCCHHHHHHHHHHHHh
Q 048743          568 --------------VLAVSRDLYETLLLNFLQGGYFERVMEVIGYMKK  601 (653)
Q Consensus       568 --------------~~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~  601 (653)
                                    ....+...--.+-.+|...|++++|+.+++....
T Consensus       103 ~~~~~~~ss~p~s~~~~~e~Elkykia~C~~~l~~~~~Ai~~Le~Ip~  150 (167)
T 3ffl_A          103 RPSTGNSASTPQSQCLPSEIEVKYKLAECYTVLKQDKDAIAILDGIPS  150 (167)
T ss_dssp             --------------CCCCHHHHHHHHHHHHHHTTCHHHHHHHHHTSCG
T ss_pred             cccccccCCCcccccccchHHHHHHHHHHHHHHCCHHHHHHHHhcCCc
Confidence                          0111122323367789999999999999885543

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=80.51  E-value=42  Score=36.00  Aligned_cols=118  Identities=14%  Similarity=0.095  Sum_probs=73.2

Q ss_pred             cCC-HHHHHHHHHHHHHccCCCCHHHHHHHHHHHHcCCC-HHHHHHHHHHHHhc------CCCCCHH------HH-HHHH
Q 048743          477 MDK-SDLAESLIQEMREEAALSTIYKLNSSIYFFCKGKM-IGDALKIYRRMQEM------KIRPTVE------TF-YYLV  541 (653)
Q Consensus       477 ~~~-~~~a~~~~~~m~~~~~~p~~~~y~~li~~~~~~g~-~~~a~~~~~~m~~~------g~~p~~~------t~-~~li  541 (653)
                      .++ .+.|..+|+++....-.-++....++|..+...++ --+|.+++++..+.      ...+...      .+ ..|+
T Consensus       261 t~~~~~~a~~~le~L~~~~p~~~~~~~~~~i~~~~~~~~~Ev~av~ll~~~l~~~~~~~~~l~~~~~~~~~~~~~~~~LL  340 (754)
T 4gns_B          261 TPSLVDFTIDYLKGLTKKDPIHDIYYKTAMITILDHIETKELDMITILNETLDPLLSLLNDLPPRDADSARLMNCMSDLL  340 (754)
T ss_dssp             CGGGHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHTTCGGGHHHHHHHHHHHHHHHHHHHHTCSSCCHHHHHHHHHHHHHH
T ss_pred             cccHHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHhhhhhhhhcccccccccccCcchHHH
Confidence            344 58899999999887621122223334443333332 22455555554421      1222211      00 1122


Q ss_pred             H----HHhccCCHHHHHHHHHHHHHHhhhCCCcc-CHHHHHHHHHHHHhCCCHHHHHHHHHHHH
Q 048743          542 Y----GHSSLEMYRDITILWGDIKRNIESGVLAV-SRDLYETLLLNFLQGGYFERVMEVIGYMK  600 (653)
Q Consensus       542 ~----~~~~~~~~~~a~~~~~~~~~~~~~~~~~p-~~~~y~~li~~~~~~g~~~~a~~~~~~m~  600 (653)
                      .    -|...|+++.|+++-+...      ...| +-.+|..|..+|...|+++.|+-.++.+.
T Consensus       341 ~~Qa~FLl~K~~~elAL~~Ak~AV------~~aPseF~tW~~La~vYi~l~d~e~ALLtLNScP  398 (754)
T 4gns_B          341 NIQTNFLLNRGDYELALGVSNTST------ELALDSFESWYNLARCHIKKEEYEKALFAINSMP  398 (754)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHH------HHCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHSC
T ss_pred             HHHHHHHhccCcHHHHHHHHHHHH------hcCchhhHHHHHHHHHHHHhccHHHHHHHHhcCC
Confidence            2    3556899999999987775      3344 57899999999999999999999999884

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

No hit with e-value below 0.005

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	653
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.79
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.77
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.4
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.32
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	98.86
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	98.85
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	98.66
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	98.64
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	98.59
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	98.55
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	98.52
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	98.45
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.24
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	98.18
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	98.15
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.14
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	97.94
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	97.88
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	97.86
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	97.85
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	97.85
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	97.8
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	97.68
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	97.64
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	97.63
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	97.62
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	97.59
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	97.52
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	97.42
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	97.26
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	97.2
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	97.12
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	97.04
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	97.04
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	96.88
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	96.87
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	96.82
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	96.78
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	96.7
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	96.57
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	96.56
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	96.48
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	96.42
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	96.28
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	96.24
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	96.23
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	95.99
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	95.87
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	95.71
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	95.68
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	95.41
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	95.13
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	93.8
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	93.78
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	88.93
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	87.86
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	86.92
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	86.29
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	81.01
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	80.4

>d1w3ba_ a.118.8.1 (A:) O-GlcNAc transferase p110 subunit, OGT {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: O-GlcNAc transferase p110 subunit, OGT
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.79  E-value=3e-15  Score=149.53  Aligned_cols=379  Identities=13%  Similarity=-0.016  Sum_probs=215.3

Q ss_pred             HHHHHhccchhHHHHHHHHhhhhcCCCC-chhHHHHHHHhhccCCcchhhhHHHHHHHHHhccCCchhHHHHHHHHHHHH
Q 048743           26 LESASKNHQVGEAWETFNDFQRLHGIPE-RHVVNRFITDLCYSAEPHWLQKACDLVLKIQKGKADLLQLDLLAKLSLSLA  104 (653)
Q Consensus        26 i~~~~~~~~~~~A~~~~~~~~~~~~~~~-~~~~~~ll~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~t~~~li~~~~  104 (653)
                      ...+.+.|++++|.+.|+++.+.  .|+ +..+..+...+...|+   .++|...+.+..+..|.  +..+|..+...|.
T Consensus         6 a~~~~~~G~~~~A~~~~~~~l~~--~p~~~~~~~~la~~~~~~~~---~~~A~~~~~~al~~~p~--~~~a~~~l~~~~~   78 (388)
T d1w3ba_           6 AHREYQAGDFEAAERHCMQLWRQ--EPDNTGVLLLLSSIHFQCRR---LDRSAHFSTLAIKQNPL--LAEAYSNLGNVYK   78 (388)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTC---HHHHHHHHHHHHHHCTT--CHHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCC---HHHHHHHHHHHHHhCCC--CHHHHHHHHHHhh
Confidence            34566788888888888887763  343 4566777777777777   78888888887766554  5667888888888


Q ss_pred             hcCCCchHHHHHHHHHcCccCCCchhHHHHHHHHhhcccccccchHHHHHHHHHhhhhhhhhcCCccCCCCchhhHHHHH
Q 048743          105 RAQMPVPASMILRLMLGRENLPCSDLLLLVFVHMVKTEIGTCLASNFLIQLCDVFLHLSAEKSNGAELIKPDTMIFNLVL  184 (653)
Q Consensus       105 ~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~yn~li  184 (653)
                      +.|++++|++.+....+..  |......                                                ....
T Consensus        79 ~~g~~~~A~~~~~~~~~~~--~~~~~~~------------------------------------------------~~~~  108 (388)
T d1w3ba_          79 ERGQLQEAIEHYRHALRLK--PDFIDGY------------------------------------------------INLA  108 (388)
T ss_dssp             HHTCHHHHHHHHHHHHHHC--TTCHHHH------------------------------------------------HHHH
T ss_pred             hhccccccccccccccccc--ccccccc------------------------------------------------cccc
Confidence            8888888888888776642  1111111                                                1111


Q ss_pred             HHHHhcCChhhHHHHHHHHHhcCCCccHHHHHHHHHHHHhcCChhhhHHHHHHhhhcCCCcccchhHHHHHHHHhhhccC
Q 048743          185 HACVRFGSSLKGQHIMELMSQTGVVADAHSIIILAQIHEMNCQRDELKKFKCYIDQLSTPFAHHYQQFYESLLSLHFKFD  264 (653)
Q Consensus       185 ~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g  264 (653)
                      ......+....+............ ................+....+...+.......+.    +...+..+...+...|
T Consensus       109 ~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~l~~~~~~~~  183 (388)
T d1w3ba_         109 AALVAAGDMEGAVQAYVSALQYNP-DLYCVRSDLGNLLKALGRLEEAKACYLKAIETQPN----FAVAWSNLGCVFNAQG  183 (388)
T ss_dssp             HHHHHHSCSSHHHHHHHHHHHHCT-TCTHHHHHHHHHHHTTSCHHHHHHHHHHHHHHCTT----CHHHHHHHHHHHHTTT
T ss_pred             cccccccccccccccccccccccc-ccccccccccccccccchhhhhHHHHHHhhccCcc----hhHHHHhhcccccccC
Confidence            111122222222222222222111 11111112222222223333333322222221111    1123455555566666


Q ss_pred             CHHHHHHHHHHhcccCCCCCCchhhhcccccchhccCCCcccchhhhccchhhhHHHHHHhhhhhHHHHHHhcCCCCC-C
Q 048743          265 DIDAAGELILDMNRYREPLPNPKLRQDAQKPYLISIGSPNLRCGLKLQIMPELLEKDSILKMEGKQELVLFRNGKLLH-S  343 (653)
Q Consensus       265 ~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p-~  343 (653)
                      ++++|...+++..+                                                             ..| +
T Consensus       184 ~~~~A~~~~~~al~-------------------------------------------------------------~~p~~  202 (388)
T d1w3ba_         184 EIWLAIHHFEKAVT-------------------------------------------------------------LDPNF  202 (388)
T ss_dssp             CHHHHHHHHHHHHH-------------------------------------------------------------HCTTC
T ss_pred             cHHHHHHHHHHHHH-------------------------------------------------------------hCccc
Confidence            66666666665521                                                             112 2


Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 048743          344 NRAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTYKSLLT  423 (653)
Q Consensus       344 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~  423 (653)
                      ...|..+...+...|++++|...+++.....  +.+...+..+...+.+.|++++|...|++..+.. +-+..+|..+..
T Consensus       203 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~  279 (388)
T d1w3ba_         203 LDAYINLGNVLKEARIFDRAVAAYLRALSLS--PNHAVVHGNLACVYYEQGLIDLAIDTYRRAIELQ-PHFPDAYCNLAN  279 (388)
T ss_dssp             HHHHHHHHHHHHTTTCTTHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTC-SSCHHHHHHHHH
T ss_pred             HHHHHHHhhhhhccccHHHHHHHHHHhHHHh--hhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHH
Confidence            3355666666667777777777777766655  4455556666667777777777777777766542 224556666666


Q ss_pred             HHHHcCChHHHHHHHHHHHHcCCccCchhhHHHHhhHHHHhhhcccccccccccCCHHHHHHHHHHHHHccCCCCHHHHH
Q 048743          424 AYYKVKMFREAEALLKQMRKSCLVQNLSCEMVVSERFSEVADKSASFTDTSSLMDKSDLAESLIQEMREEAALSTIYKLN  503 (653)
Q Consensus       424 ~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~y~  503 (653)
                      .+...|++++|...++.....  .|+                                                +...+.
T Consensus       280 ~~~~~~~~~~A~~~~~~~~~~--~~~------------------------------------------------~~~~~~  309 (388)
T d1w3ba_         280 ALKEKGSVAEAEDCYNTALRL--CPT------------------------------------------------HADSLN  309 (388)
T ss_dssp             HHHHHSCHHHHHHHHHHHHHH--CTT------------------------------------------------CHHHHH
T ss_pred             HHHHcCCHHHHHHHHHhhhcc--CCc------------------------------------------------cchhhh
Confidence            777777777777666665542  222                                                344555


Q ss_pred             HHHHHHHcCCCHHHHHHHHHHHHhcCCCCC-HHHHHHHHHHHhccCCHHHHHHHHHHHHHHhhhCCCcc-CHHHHHHHHH
Q 048743          504 SSIYFFCKGKMIGDALKIYRRMQEMKIRPT-VETFYYLVYGHSSLEMYRDITILWGDIKRNIESGVLAV-SRDLYETLLL  581 (653)
Q Consensus       504 ~li~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~t~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~p-~~~~y~~li~  581 (653)
                      .+...+...|++++|++.|++..+.  .|+ ..++..+..++...|++++|...|++..      .+.| +...|..+..
T Consensus       310 ~l~~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al------~l~P~~~~a~~~lg~  381 (388)
T d1w3ba_         310 NLANIKREQGNIEEAVRLYRKALEV--FPEFAAAHSNLASVLQQQGKLQEALMHYKEAI------RISPTFADAYSNMGN  381 (388)
T ss_dssp             HHHHHHHTTTCHHHHHHHHHHHTTS--CTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHH------TTCTTCHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH------HhCCCCHHHHHHHHH
Confidence            6666667777777777777776553  343 4556666677777777777777776665      3444 3556666666


Q ss_pred             HHHhCCC
Q 048743          582 NFLQGGY  588 (653)
Q Consensus       582 ~~~~~g~  588 (653)
                      +|.+.||
T Consensus       382 ~~~~~~D  388 (388)
T d1w3ba_         382 TLKEMQD  388 (388)
T ss_dssp             HHHHTCC
T ss_pred             HHHHcCC
Confidence            6666554

>d1w3ba_ a.118.8.1 (A:) O-GlcNAc transferase p110 subunit, OGT {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: O-GlcNAc transferase p110 subunit, OGT
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.77  E-value=1e-14  Score=145.46  Aligned_cols=368  Identities=9%  Similarity=-0.043  Sum_probs=227.6

Q ss_pred             hhccCCcchhhhHHHHHHHHHhccCCchhHHHHHHHHHHHHhcCCCchHHHHHHHHHcCccCCCchhHHHHHHHHhhccc
Q 048743           64 LCYSAEPHWLQKACDLVLKIQKGKADLLQLDLLAKLSLSLARAQMPVPASMILRLMLGRENLPCSDLLLLVFVHMVKTEI  143 (653)
Q Consensus        64 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~  143 (653)
                      +.+.|+   +++|.+.+.++.+..|.  +...+..+...|.+.|++++|+..|++..+..                    
T Consensus         9 ~~~~G~---~~~A~~~~~~~l~~~p~--~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~--------------------   63 (388)
T d1w3ba_           9 EYQAGD---FEAAERHCMQLWRQEPD--NTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQN--------------------   63 (388)
T ss_dssp             HHHHTC---HHHHHHHHHHHHHHCTT--CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--------------------
T ss_pred             HHHcCC---HHHHHHHHHHHHHhCCC--CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--------------------
Confidence            334555   67788888777665543  45667777777777888888887777664421                    


Q ss_pred             ccccchHHHHHHHHHhhhhhhhhcCCccCCCCchhhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCccHHHHHHHHHHHH
Q 048743          144 GTCLASNFLIQLCDVFLHLSAEKSNGAELIKPDTMIFNLVLHACVRFGSSLKGQHIMELMSQTGVVADAHSIIILAQIHE  223 (653)
Q Consensus       144 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~yn~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~ll~~~~  223 (653)
                                                    +-+..+|..+...|.+.|++++|.+.+....+.... +............
T Consensus        64 ------------------------------p~~~~a~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~~~~~~~  112 (388)
T d1w3ba_          64 ------------------------------PLLAEAYSNLGNVYKERGQLQEAIEHYRHALRLKPD-FIDGYINLAAALV  112 (388)
T ss_dssp             ------------------------------TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHH
T ss_pred             ------------------------------CCCHHHHHHHHHHhhhhccccccccccccccccccc-ccccccccccccc
Confidence                                          123456666777778888888888888877765422 2222333333333


Q ss_pred             hcCChhhhHHHHHHhhhcCCCcccchhHHHHHHHHhhhccCCHHHHHHHHHHhcccCCCCCCchhhhcccccchhccCCC
Q 048743          224 MNCQRDELKKFKCYIDQLSTPFAHHYQQFYESLLSLHFKFDDIDAAGELILDMNRYREPLPNPKLRQDAQKPYLISIGSP  303 (653)
Q Consensus       224 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~  303 (653)
                      ..+.....................    ............+....+...+.....                         
T Consensus       113 ~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~-------------------------  163 (388)
T d1w3ba_         113 AAGDMEGAVQAYVSALQYNPDLYC----VRSDLGNLLKALGRLEEAKACYLKAIE-------------------------  163 (388)
T ss_dssp             HHSCSSHHHHHHHHHHHHCTTCTH----HHHHHHHHHHTTSCHHHHHHHHHHHHH-------------------------
T ss_pred             cccccccccccccccccccccccc----ccccccccccccchhhhhHHHHHHhhc-------------------------
Confidence            334443333333332222211111    233333334444455555444444311                         


Q ss_pred             cccchhhhccchhhhHHHHHHhhhhhHHHHHHhcCCCCC-CHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCccc
Q 048743          304 NLRCGLKLQIMPELLEKDSILKMEGKQELVLFRNGKLLH-SNRAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTL  382 (653)
Q Consensus       304 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~  382 (653)
                                                          ..| +...+..+...+...|++++|...+++.....  |.+...
T Consensus       164 ------------------------------------~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~--p~~~~~  205 (388)
T d1w3ba_         164 ------------------------------------TQPNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLD--PNFLDA  205 (388)
T ss_dssp             ------------------------------------HCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC--TTCHHH
T ss_pred             ------------------------------------cCcchhHHHHhhcccccccCcHHHHHHHHHHHHHhC--cccHHH
Confidence                                                112 22344455555556666666666666655544  444455


Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCccCchhhHHHHhhHHH
Q 048743          383 CSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTYKSLLTAYYKVKMFREAEALLKQMRKSCLVQNLSCEMVVSERFSE  462 (653)
Q Consensus       383 ~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~l~~  462 (653)
                      |..+...+...|++++|...+.+...... .+...+..+...+.+.|++++|...|++..+.  .|+             
T Consensus       206 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~--~p~-------------  269 (388)
T d1w3ba_         206 YINLGNVLKEARIFDRAVAAYLRALSLSP-NHAVVHGNLACVYYEQGLIDLAIDTYRRAIEL--QPH-------------  269 (388)
T ss_dssp             HHHHHHHHHTTTCTTHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT--CSS-------------
T ss_pred             HHHHhhhhhccccHHHHHHHHHHhHHHhh-hHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCC-------------
Confidence            55566666666666666666665554322 24445555555555566666666555555442  232             


Q ss_pred             HhhhcccccccccccCCHHHHHHHHHHHHHccCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHH
Q 048743          463 VADKSASFTDTSSLMDKSDLAESLIQEMREEAALSTIYKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRPTVETFYYLVY  542 (653)
Q Consensus       463 ~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~  542 (653)
                                                         +..+|..+...|...|++++|++.++..... .+.+...+..+..
T Consensus       270 -----------------------------------~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~-~~~~~~~~~~l~~  313 (388)
T d1w3ba_         270 -----------------------------------FPDAYCNLANALKEKGSVAEAEDCYNTALRL-CPTHADSLNNLAN  313 (388)
T ss_dssp             -----------------------------------CHHHHHHHHHHHHHHSCHHHHHHHHHHHHHH-CTTCHHHHHHHHH
T ss_pred             -----------------------------------CHHHHHHHHHHHHHcCCHHHHHHHHHhhhcc-CCccchhhhHHHH
Confidence                                               5567888899999999999999999988775 3456778889999


Q ss_pred             HHhccCCHHHHHHHHHHHHHHhhhCCCcc-CHHHHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCC-HHhHHHH
Q 048743          543 GHSSLEMYRDITILWGDIKRNIESGVLAV-SRDLYETLLLNFLQGGYFERVMEVIGYMKKQNMYVD-KLMYKSE  614 (653)
Q Consensus       543 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~p-~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~t~~~l  614 (653)
                      .+...|++++|+..++...      .+.| +..++..+...|.+.|++++|.+.|++..+  +.|+ ...|..+
T Consensus       314 ~~~~~~~~~~A~~~~~~al------~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~--l~P~~~~a~~~l  379 (388)
T d1w3ba_         314 IKREQGNIEEAVRLYRKAL------EVFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIR--ISPTFADAYSNM  379 (388)
T ss_dssp             HHHTTTCHHHHHHHHHHHT------TSCTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHT--TCTTCHHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHH------HhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--hCCCCHHHHHHH
Confidence            9999999999999998775      3445 567788899999999999999999999884  4675 3344433

>d1fcha_ a.118.8.1 (A:) Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.40  E-value=3.7e-11  Score=116.21  Aligned_cols=241  Identities=7%  Similarity=-0.104  Sum_probs=181.7

Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHc
Q 048743          349 KLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTYKSLLTAYYKV  428 (653)
Q Consensus       349 ~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~  428 (653)
                      ..-..+.+.|++++|...|+++.+..  |.+...|..+...|...|+++.|...|.+..+.. +-+...|..+...|...
T Consensus        24 ~~g~~~~~~g~~~~A~~~~~~al~~~--P~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~  100 (323)
T d1fcha_          24 EEGLRRLQEGDLPNAVLLFEAAVQQD--PKHMEAWQYLGTTQAENEQELLAISALRRCLELK-PDNQTALMALAVSFTNE  100 (323)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHSC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHcCChHHHHHHHHhhhccc-ccccccccccccccccc
Confidence            34556789999999999999999988  8888889999999999999999999999988753 23678888899999999


Q ss_pred             CChHHHHHHHHHHHHcCCccCchhhH--HHHhhHHHHhhhcccccccccccCCHHHHHHHHHHHHHccC-CCCHHHHHHH
Q 048743          429 KMFREAEALLKQMRKSCLVQNLSCEM--VVSERFSEVADKSASFTDTSSLMDKSDLAESLIQEMREEAA-LSTIYKLNSS  505 (653)
Q Consensus       429 ~~~~~a~~~~~~m~~~~~~p~~~~~~--~~~~~l~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~-~p~~~~y~~l  505 (653)
                      |++++|.+.++.....  .|+.....  ...................+...+...+|...|.+..+... .++..++..+
T Consensus       101 ~~~~~A~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~p~~~~~~~~~~l  178 (323)
T d1fcha_         101 SLQRQACEILRDWLRY--TPAYAHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGL  178 (323)
T ss_dssp             TCHHHHHHHHHHHHHT--STTTGGGCC---------------CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHH
T ss_pred             ccccccccchhhHHHh--ccchHHHHHhhhhhhhhcccccchhhHHHHHHhhHHHHHHHHHHHHHHHhhcccccccchhh
Confidence            9999999999998773  34321100  00000000000000011112234567778888887765442 2367788899


Q ss_pred             HHHHHcCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHHhhhCCCcc-CHHHHHHHHHHHH
Q 048743          506 IYFFCKGKMIGDALKIYRRMQEMKIRPTVETFYYLVYGHSSLEMYRDITILWGDIKRNIESGVLAV-SRDLYETLLLNFL  584 (653)
Q Consensus       506 i~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~p-~~~~y~~li~~~~  584 (653)
                      ...+...|++++|+..|++..... +-+...|..+...+...|++++|.+.++...+.      .| +...|..+..+|.
T Consensus       179 ~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~------~p~~~~a~~~lg~~~~  251 (323)
T d1fcha_         179 GVLFNLSGEYDKAVDCFTAALSVR-PNDYLLWNKLGATLANGNQSEEAVAAYRRALEL------QPGYIRSRYNLGISCI  251 (323)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH------CTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhhcccccccccc-cccccchhhhhhcccccccchhHHHHHHHHHHH------hhccHHHHHHHHHHHH
Confidence            999999999999999999988753 224677888999999999999999999988643      33 5667888999999


Q ss_pred             hCCCHHHHHHHHHHHHh
Q 048743          585 QGGYFERVMEVIGYMKK  601 (653)
Q Consensus       585 ~~g~~~~a~~~~~~m~~  601 (653)
                      +.|++++|++.|++..+
T Consensus       252 ~~g~~~~A~~~~~~al~  268 (323)
T d1fcha_         252 NLGAHREAVEHFLEALN  268 (323)
T ss_dssp             HHTCHHHHHHHHHHHHH
T ss_pred             HCCCHHHHHHHHHHHHH
Confidence            99999999999998764

>d1fcha_ a.118.8.1 (A:) Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.32  E-value=5.1e-10  Score=107.98  Aligned_cols=263  Identities=12%  Similarity=-0.047  Sum_probs=172.8

Q ss_pred             hhhhcCCccCCCCchhhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCcc-HHHHHHHHHHHHhcCChhhhHHHHHHhhhc
Q 048743          163 SAEKSNGAELIKPDTMIFNLVLHACVRFGSSLKGQHIMELMSQTGVVAD-AHSIIILAQIHEMNCQRDELKKFKCYIDQL  241 (653)
Q Consensus       163 ~~a~~~~~~~~~~~~~~yn~li~~~~~~g~~~~a~~l~~~m~~~g~~p~-~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~  241 (653)
                      +++.++-+..+..+....-..-..+.+.|++++|...|+...+.  .|+ ..+|..+..++...|+++.|...+....+.
T Consensus         5 ~~~~~~~~~n~~~~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~--~P~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~   82 (323)
T d1fcha_           5 DKGYQFEEENPLRDHPQPFEEGLRRLQEGDLPNAVLLFEAAVQQ--DPKHMEAWQYLGTTQAENEQELLAISALRRCLEL   82 (323)
T ss_dssp             HCCCCCCSSCTTTTCSSHHHHHHHHHHTTCHHHHHHHHHHHHHS--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHhHhhcccCCCcchHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCChHHHHHHHHhhhcc
Confidence            33444444433333333324556688999999999999999976  465 456888999999999999999999998876


Q ss_pred             CCCcccchhHHHHHHHHhhhccCCHHHHHHHHHHhcccCCCCCCchhhhcccccchhccCCCcccchhhhccchhhhHHH
Q 048743          242 STPFAHHYQQFYESLLSLHFKFDDIDAAGELILDMNRYREPLPNPKLRQDAQKPYLISIGSPNLRCGLKLQIMPELLEKD  321 (653)
Q Consensus       242 ~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  321 (653)
                      .+..    ...+..+..+|...|++++|.+.+++...........           .   ...                 
T Consensus        83 ~p~~----~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~-----------~---~~~-----------------  127 (323)
T d1fcha_          83 KPDN----QTALMALAVSFTNESLQRQACEILRDWLRYTPAYAHL-----------V---TPA-----------------  127 (323)
T ss_dssp             CTTC----HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSTTTGGG-----------C---C-------------------
T ss_pred             cccc----ccccccccccccccccccccccchhhHHHhccchHHH-----------H---Hhh-----------------
Confidence            5332    3468889999999999999999999884311110000           0   000                 


Q ss_pred             HHHhhhhhHHHHHHhcCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHH
Q 048743          322 SILKMEGKQELVLFRNGKLLHSNRAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHD  401 (653)
Q Consensus       322 ~~~~~~~~~~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~  401 (653)
                                    .......+.......+..+...+.+.+|...|.+.........+..++..+...+...|++++|..
T Consensus       128 --------------~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~p~~~~~~~~~~l~~~~~~~~~~~~A~~  193 (323)
T d1fcha_         128 --------------EEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVD  193 (323)
T ss_dssp             ---------------------------CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             --------------hhhhhhcccccchhhHHHHHHhhHHHHHHHHHHHHHHHhhcccccccchhhHHHHHHHHHHhhhhc
Confidence                          000000011111122233444566677777777766655223344556777778888888888888


Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCccCchhhHHHHhhHHHHhhhcccccccccccCCHH
Q 048743          402 ILDDMELAGHPMDSTTYKSLLTAYYKVKMFREAEALLKQMRKSCLVQNLSCEMVVSERFSEVADKSASFTDTSSLMDKSD  481 (653)
Q Consensus       402 ~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~  481 (653)
                      .|++..... +-+..+|..+...|.+.|++++|.+.|++..+.  .|+                                
T Consensus       194 ~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~--------------------------------  238 (323)
T d1fcha_         194 CFTAALSVR-PNDYLLWNKLGATLANGNQSEEAVAAYRRALEL--QPG--------------------------------  238 (323)
T ss_dssp             HHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTT--------------------------------
T ss_pred             ccccccccc-cccccchhhhhhcccccccchhHHHHHHHHHHH--hhc--------------------------------
Confidence            888876643 225667777788888888888888888777653  343                                


Q ss_pred             HHHHHHHHHHHccCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHh
Q 048743          482 LAESLIQEMREEAALSTIYKLNSSIYFFCKGKMIGDALKIYRRMQE  527 (653)
Q Consensus       482 ~a~~~~~~m~~~~~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~  527 (653)
                                      +..+|..+..+|.+.|++++|++.|++.++
T Consensus       239 ----------------~~~a~~~lg~~~~~~g~~~~A~~~~~~al~  268 (323)
T d1fcha_         239 ----------------YIRSRYNLGISCINLGAHREAVEHFLEALN  268 (323)
T ss_dssp             ----------------CHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             ----------------cHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence                            345667777888888888888888887765

>d1hz4a_ a.118.8.2 (A:) Transcription factor MalT domain III {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Transcription factor MalT domain III
domain: Transcription factor MalT domain III
species: Escherichia coli [TaxId: 562]

Probab=98.86  E-value=1.1e-06  Score=84.83  Aligned_cols=310  Identities=10%  Similarity=-0.037  Sum_probs=192.3

Q ss_pred             HHHHHHhcCChhhHHHHHHHHHhcCCCccH------HHHHHHHHHHHhcCChhhhHHHHHHhhhcCC--CcccchhHHHH
Q 048743          183 VLHACVRFGSSLKGQHIMELMSQTGVVADA------HSIIILAQIHEMNCQRDELKKFKCYIDQLST--PFAHHYQQFYE  254 (653)
Q Consensus       183 li~~~~~~g~~~~a~~l~~~m~~~g~~p~~------~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~--~~~~~~~~~~~  254 (653)
                      .-..+...|++++|.+++++..+.  .|+.      ..+..+..++...|++++|...++.......  +........+.
T Consensus        18 rA~~~~~~g~~~~A~~~~~~aL~~--~~~~~~~~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~   95 (366)
T d1hz4a_          18 RAQVAINDGNPDEAERLAKLALEE--LPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLI   95 (366)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHT--CCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHhh--CcCCCcHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhcchHHHHHHHH
Confidence            345677899999999999998764  3332      3466677888999999999999988765421  22222344667


Q ss_pred             HHHHhhhccCCHHHHHHHHHHhcccCCCCCCchhhhcccccchhccCCCcccchhhhccchhhhHHHHHHhhhhhHHHHH
Q 048743          255 SLLSLHFKFDDIDAAGELILDMNRYREPLPNPKLRQDAQKPYLISIGSPNLRCGLKLQIMPELLEKDSILKMEGKQELVL  334 (653)
Q Consensus       255 ~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  334 (653)
                      .+...+...|++..|...+.+......                                                     
T Consensus        96 ~~~~~~~~~~~~~~a~~~~~~al~~~~-----------------------------------------------------  122 (366)
T d1hz4a_          96 QQSEILFAQGFLQTAWETQEKAFQLIN-----------------------------------------------------  122 (366)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHH-----------------------------------------------------
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhH-----------------------------------------------------
Confidence            778888999999999999887621000                                                     


Q ss_pred             HhcCCCCCCH-HHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCC---CcccHHHHHHHHHHcCCHHHHHHHHHHHHH--
Q 048743          335 FRNGKLLHSN-RAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFG---ESTLCSDVIDALIQLGFLEAAHDILDDMEL--  408 (653)
Q Consensus       335 ~~~~~~~p~~-~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~---~~~~~~~li~~~~~~g~~~~a~~~~~~m~~--  408 (653)
                      .......+.. ..+..+-..+...|+++.+...+...........   ....+..+...+...++...+...+.+...  
T Consensus       123 ~~~~~~~~~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~a~~~~  202 (366)
T d1hz4a_         123 EQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAMLIQCSLARGDLDNARSQLNRLENLL  202 (366)
T ss_dssp             HTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH
T ss_pred             hcccchhhHHHHHHHHHHHHHHHhcchhhhHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHH
Confidence            0001111222 2455666778889999999999888766442111   122345556667777888888877776533  


Q ss_pred             --CCCCCC--HHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCccCchhhHHHHhhHHHHhhhcccccccccccCCHHHHH
Q 048743          409 --AGHPMD--STTYKSLLTAYYKVKMFREAEALLKQMRKSCLVQNLSCEMVVSERFSEVADKSASFTDTSSLMDKSDLAE  484 (653)
Q Consensus       409 --~g~~p~--~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~a~  484 (653)
                        .+..+.  ...+..+...+...|++++|...++...+.  .|....                                
T Consensus       203 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~--------------------------------  248 (366)
T d1hz4a_         203 GNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKP--EFANNH--------------------------------  248 (366)
T ss_dssp             TTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCC--CCTTCG--------------------------------
T ss_pred             HHhcccCchHHHHHHHHHHHHHhcccHHHHHHHHHHHHHh--ccccch--------------------------------
Confidence              111111  223455566677778888888777665432  121100                                


Q ss_pred             HHHHHHHHccCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHh----cCCCCC-HHHHHHHHHHHhccCCHHHHHHHHHH
Q 048743          485 SLIQEMREEAALSTIYKLNSSIYFFCKGKMIGDALKIYRRMQE----MKIRPT-VETFYYLVYGHSSLEMYRDITILWGD  559 (653)
Q Consensus       485 ~~~~~m~~~~~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~----~g~~p~-~~t~~~li~~~~~~~~~~~a~~~~~~  559 (653)
                                  .....+..+...+...|++++|...+++...    .+..|+ ..++..+-..|...|++++|.+.+++
T Consensus       249 ------------~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~  316 (366)
T d1hz4a_         249 ------------FLQGQWRNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLD  316 (366)
T ss_dssp             ------------GGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             ------------HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhcccChHHHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence                        1233455667777888888888888887763    244444 34566777788888888888888887


Q ss_pred             HHHHhhhCCCcc----CHHHHHHHHHHHHhCCCHHHHH
Q 048743          560 IKRNIESGVLAV----SRDLYETLLLNFLQGGYFERVM  593 (653)
Q Consensus       560 ~~~~~~~~~~~p----~~~~y~~li~~~~~~g~~~~a~  593 (653)
                      ..+.....|...    ....+..++..+...++.+++.
T Consensus       317 Al~l~~~~~~~~~~~~~~~~~~~~~~~l~~~~~l~e~e  354 (366)
T d1hz4a_         317 ALKLANRTGFISHFVIEGEAMAQQLRQLIQLNTLPELE  354 (366)
T ss_dssp             HHHHHHHHCCCHHHHTTHHHHHHHHHHHHHTTCSCHHH
T ss_pred             HHHHhhhcCcHHHHHHHHHHHHHHHHHHHhcCCChHHH
Confidence            665433333221    1223334445555555554443

>d1hz4a_ a.118.8.2 (A:) Transcription factor MalT domain III {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Transcription factor MalT domain III
domain: Transcription factor MalT domain III
species: Escherichia coli [TaxId: 562]

Probab=98.85  E-value=8.1e-07  Score=85.81  Aligned_cols=287  Identities=10%  Similarity=-0.035  Sum_probs=193.3

Q ss_pred             HHHHHHHhcCChhhhHHHHHHhhhcCCCcc-cchhHHHHHHHHhhhccCCHHHHHHHHHHhcccCCCCCCchhhhccccc
Q 048743          217 ILAQIHEMNCQRDELKKFKCYIDQLSTPFA-HHYQQFYESLLSLHFKFDDIDAAGELILDMNRYREPLPNPKLRQDAQKP  295 (653)
Q Consensus       217 ~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~-~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~  295 (653)
                      .....+...|++++|.++++......+... .....+++.+-.+|...|++++|...|++..+..               
T Consensus        17 lrA~~~~~~g~~~~A~~~~~~aL~~~~~~~~~~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~---------------   81 (366)
T d1hz4a_          17 LRAQVAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMA---------------   81 (366)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH---------------
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHhhCcCCCcHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHH---------------
Confidence            445667789999999999998876543221 1123467788899999999999999999873200               


Q ss_pred             chhccCCCcccchhhhccchhhhHHHHHHhhhhhHHHHHHhcCCCCC-CHHHHHHHHHHHHhcCChHHHHHHHHHHHhcC
Q 048743          296 YLISIGSPNLRCGLKLQIMPELLEKDSILKMEGKQELVLFRNGKLLH-SNRAMAKLINGYKKHGKNSELSWLLLSIKKEH  374 (653)
Q Consensus       296 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~  374 (653)
                                                              ...+..+ ....+..+...+...|++..+...+.+.....
T Consensus        82 ----------------------------------------~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~  121 (366)
T d1hz4a_          82 ----------------------------------------RQHDVWHYALWSLIQQSEILFAQGFLQTAWETQEKAFQLI  121 (366)
T ss_dssp             ----------------------------------------HHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             ----------------------------------------HhhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence                                                    0010111 12345667778888999999998888754321


Q ss_pred             ---CCCCC---cccHHHHHHHHHHcCCHHHHHHHHHHHHHC----CCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHc
Q 048743          375 ---HSFGE---STLCSDVIDALIQLGFLEAAHDILDDMELA----GHPMDSTTYKSLLTAYYKVKMFREAEALLKQMRKS  444 (653)
Q Consensus       375 ---~~~~~---~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----g~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  444 (653)
                         .....   ...+..+...+...|+++.+...+......    +......++..+...+...+.+..+...+......
T Consensus       122 ~~~~~~~~~~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~a~~~  201 (366)
T d1hz4a_         122 NEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAMLIQCSLARGDLDNARSQLNRLENL  201 (366)
T ss_dssp             HHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HhcccchhhHHHHHHHHHHHHHHHhcchhhhHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHH
Confidence               01111   123455667788889999998888887553    22223445566666777778888887777666542


Q ss_pred             CCccCchhhHHHHhhHHHHhhhcccccccccccCCHHHHHHHHHHHHHccCCCCHHHHHHHHHHHHcCCCHHHHHHHHHH
Q 048743          445 CLVQNLSCEMVVSERFSEVADKSASFTDTSSLMDKSDLAESLIQEMREEAALSTIYKLNSSIYFFCKGKMIGDALKIYRR  524 (653)
Q Consensus       445 ~~~p~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~y~~li~~~~~~g~~~~a~~~~~~  524 (653)
                      .-.......                                           .....+..+...+...|++++|...+++
T Consensus       202 ~~~~~~~~~-------------------------------------------~~~~~~~~~~~~~~~~~~~~~a~~~~~~  238 (366)
T d1hz4a_         202 LGNGKYHSD-------------------------------------------WISNANKVRVIYWQMTGDKAAAANWLRH  238 (366)
T ss_dssp             HTTSCCCHH-------------------------------------------HHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHhcccCc-------------------------------------------hHHHHHHHHHHHHHhcccHHHHHHHHHH
Confidence            111110000                                           0223456667778889999999999988


Q ss_pred             HHhcCCCCC---HHHHHHHHHHHhccCCHHHHHHHHHHHHHHhhhCCCccC-HHHHHHHHHHHHhCCCHHHHHHHHHHHH
Q 048743          525 MQEMKIRPT---VETFYYLVYGHSSLEMYRDITILWGDIKRNIESGVLAVS-RDLYETLLLNFLQGGYFERVMEVIGYMK  600 (653)
Q Consensus       525 m~~~g~~p~---~~t~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~p~-~~~y~~li~~~~~~g~~~~a~~~~~~m~  600 (653)
                      ........+   ...+..+..++...|++++|...++......+..+..|+ ...+..+...|.+.|++++|.+.+++..
T Consensus       239 ~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~Al  318 (366)
T d1hz4a_         239 TAKPEFANNHFLQGQWRNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDAL  318 (366)
T ss_dssp             SCCCCCTTCGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHhccccchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhcccChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            765432222   345566788899999999999999988766666666664 4567778888999999999999998875


Q ss_pred             h
Q 048743          601 K  601 (653)
Q Consensus       601 ~  601 (653)
                      +
T Consensus       319 ~  319 (366)
T d1hz4a_         319 K  319 (366)
T ss_dssp             H
T ss_pred             H
Confidence            3

>d2onda1 a.118.8.7 (A:242-549) Cleavage stimulation factor 77 kDa subunit CSTF3 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: HAT/Suf repeat
domain: Cleavage stimulation factor 77 kDa subunit CSTF3
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.66  E-value=5e-06  Score=78.53  Aligned_cols=188  Identities=12%  Similarity=0.060  Sum_probs=125.0

Q ss_pred             CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCccCchhhHHHHhhHHHHhhhcccccccc
Q 048743          395 FLEAAHDILDDMELAGHPMDSTTYKSLLTAYYKVKMFREAEALLKQMRKSCLVQNLSCEMVVSERFSEVADKSASFTDTS  474 (653)
Q Consensus       395 ~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~~~  474 (653)
                      ..++|..+|++..+...+.+...|...+..+.+.|+++.|..+|+.+.+.  .|.....+ ....+ .          ..
T Consensus        79 ~~~~a~~i~~ral~~~~p~~~~l~~~ya~~~~~~~~~~~a~~i~~~~l~~--~~~~~~~~-w~~~~-~----------~~  144 (308)
T d2onda1          79 FSDEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAI--EDIDPTLV-YIQYM-K----------FA  144 (308)
T ss_dssp             HHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTS--SSSCTHHH-HHHHH-H----------HH
T ss_pred             chHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHH--hcCChHHH-HHHHH-H----------HH
Confidence            45778888888876655556677777788888888888888888888763  34321111 11111 1          11


Q ss_pred             cccCCHHHHHHHHHHHHHccCCCCHHHHHHHHHH-HHcCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCCHHHH
Q 048743          475 SLMDKSDLAESLIQEMREEAALSTIYKLNSSIYF-FCKGKMIGDALKIYRRMQEMKIRPTVETFYYLVYGHSSLEMYRDI  553 (653)
Q Consensus       475 ~~~~~~~~a~~~~~~m~~~~~~p~~~~y~~li~~-~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a  553 (653)
                      .+.|+.+.|..+|+...+.+.. +...|-..... +...|+.+.|..+|+.+... .+-+...+...++.+...|+++.|
T Consensus       145 ~~~~~~~~ar~i~~~al~~~~~-~~~~~~~~a~~e~~~~~~~~~a~~i~e~~l~~-~p~~~~~w~~y~~~~~~~g~~~~a  222 (308)
T d2onda1         145 RRAEGIKSGRMIFKKAREDART-RHHVYVTAALMEYYCSKDKSVAFKIFELGLKK-YGDIPEYVLAYIDYLSHLNEDNNT  222 (308)
T ss_dssp             HHHHCHHHHHHHHHHHHTSTTC-CTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHH-HTTCHHHHHHHHHHHHTTCCHHHH
T ss_pred             HHcCChHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHhccCHHHHHHHHHHHHHh-hhhhHHHHHHHHHHHHHcCChHHH
Confidence            2356788888888887765421 33333333322 33467888888888888875 334566788888888888888888


Q ss_pred             HHHHHHHHHHhhhCCCcc--CHHHHHHHHHHHHhCCCHHHHHHHHHHHHh
Q 048743          554 TILWGDIKRNIESGVLAV--SRDLYETLLLNFLQGGYFERVMEVIGYMKK  601 (653)
Q Consensus       554 ~~~~~~~~~~~~~~~~~p--~~~~y~~li~~~~~~g~~~~a~~~~~~m~~  601 (653)
                      ..+|+...+   .....|  ....|...+.--...|+.+.+.++++++.+
T Consensus       223 R~~fe~ai~---~~~~~~~~~~~iw~~~~~fE~~~G~~~~~~~~~~r~~~  269 (308)
T d2onda1         223 RVLFERVLT---SGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRRFT  269 (308)
T ss_dssp             HHHHHHHHH---SSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHH---hCCCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            888887652   233343  355788888777788998888888887754

>d2h6fa1 a.118.6.1 (A:55-369) Protein farnesyltransferase alpha-subunit {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Protein prenylyltransferase
family: Protein prenylyltransferase
domain: Protein farnesyltransferase alpha-subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.64  E-value=3.4e-06  Score=79.84  Aligned_cols=100  Identities=5%  Similarity=-0.095  Sum_probs=86.3

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcC-CHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 048743          345 RAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLG-FLEAAHDILDDMELAGHPMDSTTYKSLLT  423 (653)
Q Consensus       345 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g-~~~~a~~~~~~m~~~g~~p~~~~~~~li~  423 (653)
                      ..|+.+-..+.+.+.+++|+++++++.+..  |.+...|+.....+...| ++++|+..++...+... -+..+|+.+-.
T Consensus        44 ~a~~~~~~~~~~~e~~~~Al~~~~~ai~ln--P~~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~p-~~~~a~~~~~~  120 (315)
T d2h6fa1          44 DVYDYFRAVLQRDERSERAFKLTRDAIELN--AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQP-KNYQVWHHRRV  120 (315)
T ss_dssp             HHHHHHHHHHHHTCCCHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCT-TCHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCchHHHHHHHHHHHHHC--CCChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHHH-hhhhHHHHHhH
Confidence            366777778888999999999999999998  888888999999988876 59999999999987643 37889999999


Q ss_pred             HHHHcCChHHHHHHHHHHHHcCCccC
Q 048743          424 AYYKVKMFREAEALLKQMRKSCLVQN  449 (653)
Q Consensus       424 ~~~~~~~~~~a~~~~~~m~~~~~~p~  449 (653)
                      .+.+.|++++|+..++.+.+  +.|+
T Consensus       121 ~~~~l~~~~eAl~~~~kal~--~dp~  144 (315)
T d2h6fa1         121 LVEWLRDPSQELEFIADILN--QDAK  144 (315)
T ss_dssp             HHHHHTCCTTHHHHHHHHHH--HCTT
T ss_pred             HHHhhccHHHHHHHHhhhhh--hhhc
Confidence            99999999999999999987  3455

>d2h6fa1 a.118.6.1 (A:55-369) Protein farnesyltransferase alpha-subunit {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Protein prenylyltransferase
family: Protein prenylyltransferase
domain: Protein farnesyltransferase alpha-subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.59  E-value=3.4e-06  Score=79.83  Aligned_cols=135  Identities=11%  Similarity=-0.011  Sum_probs=114.0

Q ss_pred             hHHHHHHHHhhhccCCHHHHHHHHHHhcccCCCCCCchhhhcccccchhccCCCcccchhhhccchhhhHHHHHHhhhhh
Q 048743          250 QQFYESLLSLHFKFDDIDAAGELILDMNRYREPLPNPKLRQDAQKPYLISIGSPNLRCGLKLQIMPELLEKDSILKMEGK  329 (653)
Q Consensus       250 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  329 (653)
                      ..+++.+-..+.+.+..++|++++++..+                                                   
T Consensus        43 ~~a~~~~~~~~~~~e~~~~Al~~~~~ai~---------------------------------------------------   71 (315)
T d2h6fa1          43 RDVYDYFRAVLQRDERSERAFKLTRDAIE---------------------------------------------------   71 (315)
T ss_dssp             HHHHHHHHHHHHHTCCCHHHHHHHHHHHH---------------------------------------------------
T ss_pred             HHHHHHHHHHHHhCCchHHHHHHHHHHHH---------------------------------------------------
Confidence            44677777788889999999999999843                                                   


Q ss_pred             HHHHHHhcCCCCCCH-HHHHHHHHHHHhcC-ChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHH
Q 048743          330 QELVLFRNGKLLHSN-RAMAKLINGYKKHG-KNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDME  407 (653)
Q Consensus       330 ~~~~~~~~~~~~p~~-~~~~~li~~~~~~~-~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~  407 (653)
                                +.|+. ..|+..-.++...| ++++|+..++...+..  |.+..+|..+...+.+.|++++|+..+.++.
T Consensus        72 ----------lnP~~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~--p~~~~a~~~~~~~~~~l~~~~eAl~~~~kal  139 (315)
T d2h6fa1          72 ----------LNAANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQ--PKNYQVWHHRRVLVEWLRDPSQELEFIADIL  139 (315)
T ss_dssp             ----------HCTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHTCCTTHHHHHHHHH
T ss_pred             ----------HCCCChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHH--HhhhhHHHHHhHHHHhhccHHHHHHHHhhhh
Confidence                      44644 47788888888766 5899999999999888  8888889999999999999999999999998


Q ss_pred             HCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCccCc
Q 048743          408 LAGHPMDSTTYKSLLTAYYKVKMFREAEALLKQMRKSCLVQNL  450 (653)
Q Consensus       408 ~~g~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~  450 (653)
                      +.. +-+...|..+...+.+.|++++|+..++...+.  .|+.
T Consensus       140 ~~d-p~n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~--~p~n  179 (315)
T d2h6fa1         140 NQD-AKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKE--DVRN  179 (315)
T ss_dssp             HHC-TTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHH--CTTC
T ss_pred             hhh-hcchHHHHHHHHHHHHHHhhHHHHHHHHHHHHH--CCcc
Confidence            853 347899999999999999999999999999884  4553

>d1xnfa_ a.118.8.1 (A:) Lipoprotein NlpI {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Lipoprotein NlpI
species: Escherichia coli [TaxId: 562]

Probab=98.55  E-value=3.8e-06  Score=77.04  Aligned_cols=203  Identities=12%  Similarity=-0.120  Sum_probs=129.3

Q ss_pred             hHHHHHHHHhhhccCCHHHHHHHHHHhcccCCCCCCchhhhcccccchhccCCCcccchhhhccchhhhHHHHHHhhhhh
Q 048743          250 QQFYESLLSLHFKFDDIDAAGELILDMNRYREPLPNPKLRQDAQKPYLISIGSPNLRCGLKLQIMPELLEKDSILKMEGK  329 (653)
Q Consensus       250 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  329 (653)
                      ..+|..+-.+|.+.|++++|...|++..+                                                   
T Consensus        37 a~~~~~~G~~y~~~g~~~~A~~~~~~al~---------------------------------------------------   65 (259)
T d1xnfa_          37 AQLLYERGVLYDSLGLRALARNDFSQALA---------------------------------------------------   65 (259)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHH---------------------------------------------------
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHhhc---------------------------------------------------
Confidence            34567777888888999999999988732                                                   


Q ss_pred             HHHHHHhcCCCCC-CHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 048743          330 QELVLFRNGKLLH-SNRAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMEL  408 (653)
Q Consensus       330 ~~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  408 (653)
                                +.| +..+|+.+-.++.+.|++++|+..|++..+..  |.+..+|..+...|...|+++.|...|+...+
T Consensus        66 ----------l~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~--p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~  133 (259)
T d1xnfa_          66 ----------IRPDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLELD--PTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQ  133 (259)
T ss_dssp             ----------HCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             ----------cCCCCHHHHhhhchHHHHHHHHHHhhhhhhHHHHHH--hhhhhhHHHHHHHHHHHhhHHHHHHHHHHHHh
Confidence                      223 34578888889999999999999999988877  66777788888899999999999999998877


Q ss_pred             CCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCccCchhhHHHHhhHHHHhhhcccccccccccCCHHHHHHHHH
Q 048743          409 AGHPMDSTTYKSLLTAYYKVKMFREAEALLKQMRKSCLVQNLSCEMVVSERFSEVADKSASFTDTSSLMDKSDLAESLIQ  488 (653)
Q Consensus       409 ~g~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~a~~~~~  488 (653)
                      .. +.+......+..++.+.+..+.+..+.......  .+......+....+..           ....+..+.+...+.
T Consensus       134 ~~-p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~-----------~~~~~~~~~~~~~~~  199 (259)
T d1xnfa_         134 DD-PNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEKS--DKEQWGWNIVEFYLGN-----------ISEQTLMERLKADAT  199 (259)
T ss_dssp             HC-TTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHHS--CCCSTHHHHHHHHTTS-----------SCHHHHHHHHHHHCC
T ss_pred             hc-cccHHHHHHHHHHHHHhhhHHHHHHHHHHhhcc--chhhhhhhHHHHHHHH-----------HHHHHHHHHHHHHHH
Confidence            53 234544444455556666655555555555442  2222111111100000           001112222222222


Q ss_pred             HHHHccCCC-CHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCC
Q 048743          489 EMREEAALS-TIYKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRPT  533 (653)
Q Consensus       489 ~m~~~~~~p-~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~  533 (653)
                      .....  .| ...+|..+-..|...|++++|.+.|+..+..  .|+
T Consensus       200 ~~~~~--~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~  241 (259)
T d1xnfa_         200 DNTSL--AEHLSETNFYLGKYYLSLGDLDSATALFKLAVAN--NVH  241 (259)
T ss_dssp             SHHHH--HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT--CCT
T ss_pred             Hhhhc--CcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHc--CCC
Confidence            11111  12 2345667888888999999999999988764  454

>d2onda1 a.118.8.7 (A:242-549) Cleavage stimulation factor 77 kDa subunit CSTF3 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: HAT/Suf repeat
domain: Cleavage stimulation factor 77 kDa subunit CSTF3
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.52  E-value=1.3e-05  Score=75.63  Aligned_cols=189  Identities=9%  Similarity=-0.020  Sum_probs=142.8

Q ss_pred             CChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHH
Q 048743          358 GKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTYKSLLTAYYKVKMFREAEAL  437 (653)
Q Consensus       358 ~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~a~~~  437 (653)
                      +..++|..+|++..+.. .|.+...|...+..+.+.|+++.|..+|+++.+.........|...+..+.+.|+.+.|.++
T Consensus        78 ~~~~~a~~i~~ral~~~-~p~~~~l~~~ya~~~~~~~~~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~~~~~ar~i  156 (308)
T d2onda1          78 LFSDEAANIYERAISTL-LKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMI  156 (308)
T ss_dssp             HHHHHHHHHHHHHHTTT-TTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHH
T ss_pred             cchHHHHHHHHHHHHHc-CCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHcCChHHHHHH
Confidence            34577888888877643 35555568888888899999999999999998764433456788999999999999999999


Q ss_pred             HHHHHHcCCccCchhhHHHHhhHHHHhhhcccccccccccCCHHHHHHHHHHHHHccCCC-CHHHHHHHHHHHHcCCCHH
Q 048743          438 LKQMRKSCLVQNLSCEMVVSERFSEVADKSASFTDTSSLMDKSDLAESLIQEMREEAALS-TIYKLNSSIYFFCKGKMIG  516 (653)
Q Consensus       438 ~~~m~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~~y~~li~~~~~~g~~~  516 (653)
                      |+...+.  .|+.....+..+.+.            +...|+.+.|..+|+.+.+..  | +...|...++.+.+.|+++
T Consensus       157 ~~~al~~--~~~~~~~~~~~a~~e------------~~~~~~~~~a~~i~e~~l~~~--p~~~~~w~~y~~~~~~~g~~~  220 (308)
T d2onda1         157 FKKARED--ARTRHHVYVTAALME------------YYCSKDKSVAFKIFELGLKKY--GDIPEYVLAYIDYLSHLNEDN  220 (308)
T ss_dssp             HHHHHTS--TTCCTHHHHHHHHHH------------HHTSCCHHHHHHHHHHHHHHH--TTCHHHHHHHHHHHHTTCCHH
T ss_pred             HHHHHHh--CCCcHHHHHHHHHHH------------HHhccCHHHHHHHHHHHHHhh--hhhHHHHHHHHHHHHHcCChH
Confidence            9998764  344322222221111            122588999999999998764  4 6788999999999999999


Q ss_pred             HHHHHHHHHHhcC-CCCC--HHHHHHHHHHHhccCCHHHHHHHHHHHHHH
Q 048743          517 DALKIYRRMQEMK-IRPT--VETFYYLVYGHSSLEMYRDITILWGDIKRN  563 (653)
Q Consensus       517 ~a~~~~~~m~~~g-~~p~--~~t~~~li~~~~~~~~~~~a~~~~~~~~~~  563 (653)
                      +|..+|++..... ..|+  ...|...+.--...|+.+.+..+.+.+.+.
T Consensus       221 ~aR~~fe~ai~~~~~~~~~~~~iw~~~~~fE~~~G~~~~~~~~~~r~~~~  270 (308)
T d2onda1         221 NTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRRFTA  270 (308)
T ss_dssp             HHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            9999999988753 4443  346777787777889999999988877644

>d1xnfa_ a.118.8.1 (A:) Lipoprotein NlpI {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Lipoprotein NlpI
species: Escherichia coli [TaxId: 562]

Probab=98.45  E-value=6.4e-06  Score=75.44  Aligned_cols=97  Identities=12%  Similarity=-0.087  Sum_probs=81.7

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 048743          345 RAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTYKSLLTA  424 (653)
Q Consensus       345 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~  424 (653)
                      .+|..+-..|.+.|++++|...|++..+..  |.+..+|+.+..+|.+.|++++|...|++..+... -+..++..+..+
T Consensus        38 ~~~~~~G~~y~~~g~~~~A~~~~~~al~l~--p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~p-~~~~a~~~lg~~  114 (259)
T d1xnfa_          38 QLLYERGVLYDSLGLRALARNDFSQALAIR--PDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLELDP-TYNYAHLNRGIA  114 (259)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCTHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHhhccC--CCCHHHHhhhchHHHHHHHHHHhhhhhhHHHHHHh-hhhhhHHHHHHH
Confidence            366777788889999999999999998877  78888899999999999999999999999887532 246678888888


Q ss_pred             HHHcCChHHHHHHHHHHHHc
Q 048743          425 YYKVKMFREAEALLKQMRKS  444 (653)
Q Consensus       425 ~~~~~~~~~a~~~~~~m~~~  444 (653)
                      |...|++++|...|+...+.
T Consensus       115 ~~~~g~~~~A~~~~~~al~~  134 (259)
T d1xnfa_         115 LYYGGRDKLAQDDLLAFYQD  134 (259)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHhhHHHHHHHHHHHHhh
Confidence            89999999999999888764

>d1qqea_ a.118.8.1 (A:) Vesicular transport protein sec17 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Vesicular transport protein sec17
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=98.24  E-value=2.5e-05  Score=72.77  Aligned_cols=199  Identities=7%  Similarity=-0.029  Sum_probs=111.4

Q ss_pred             HHHHHhcCChHHHHHHHHHHHhcCC----CCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHC----CC-CCCHHHHHHH
Q 048743          351 INGYKKHGKNSELSWLLLSIKKEHH----SFGESTLCSDVIDALIQLGFLEAAHDILDDMELA----GH-PMDSTTYKSL  421 (653)
Q Consensus       351 i~~~~~~~~~~~a~~~~~~m~~~~~----~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----g~-~p~~~~~~~l  421 (653)
                      ...|...|++++|.+.|.+...-..    .+.-..+|..+...|.+.|++++|.+.+++..+.    |. .....++..+
T Consensus        44 a~~y~~~~~~~~A~~~y~kA~~~~~~~~~~~~~a~~~~~~g~~y~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l  123 (290)
T d1qqea_          44 ATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFEL  123 (290)
T ss_dssp             HHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHCcCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCCcHHHHHHHHHhhHHhhhcccchhHHHHHHHH
Confidence            3456666777777777666544210    1111234666677777777777777776654331    10 0012233344


Q ss_pred             HHHHHH-cCChHHHHHHHHHHHHcCCccCchhhHHHHhhHHHHhhhcccccccccccCCHHHHHHHHHHHHHccCCC-CH
Q 048743          422 LTAYYK-VKMFREAEALLKQMRKSCLVQNLSCEMVVSERFSEVADKSASFTDTSSLMDKSDLAESLIQEMREEAALS-TI  499 (653)
Q Consensus       422 i~~~~~-~~~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~p-~~  499 (653)
                      ...|.. .|++++|...+++..+.-  +                                           ..+..+ ..
T Consensus       124 ~~~~~~~~~~~~~A~~~~~~A~~l~--~-------------------------------------------~~~~~~~~~  158 (290)
T d1qqea_         124 GEILENDLHDYAKAIDCYELAGEWY--A-------------------------------------------QDQSVALSN  158 (290)
T ss_dssp             HHHHHHTTCCHHHHHHHHHHHHHHH--H-------------------------------------------HTTCHHHHH
T ss_pred             HHhHhhHHHHHHHHHHHHHHHHHHH--H-------------------------------------------hcCchhhhh
Confidence            444433 366666666665554310  0                                           000001 23


Q ss_pred             HHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCC-----CH-HHHHHHHHHHhccCCHHHHHHHHHHHHHHhhhCCCccC-
Q 048743          500 YKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRP-----TV-ETFYYLVYGHSSLEMYRDITILWGDIKRNIESGVLAVS-  572 (653)
Q Consensus       500 ~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p-----~~-~t~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~p~-  572 (653)
                      .+|..+...|...|++++|++.|++........     .. ..+...+..+...|+++.|...++...      .+.|+ 
T Consensus       159 ~~~~~la~~~~~~g~y~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~d~~~A~~~~~~~~------~~~~~~  232 (290)
T d1qqea_         159 KCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQEGQ------SEDPNF  232 (290)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHGGG------CC----
T ss_pred             hHHHHHHHHHHHcChHHHHHHHHHHHHHhCccchhhhhhHHHHHHHHHHHHHHhccHHHHHHHHHHHH------HhCCCc
Confidence            457778888999999999999999987642221     11 123344456677899999998887664      23321 


Q ss_pred             -----HHHHHHHHHHHHh--CCCHHHHHHHHHHHH
Q 048743          573 -----RDLYETLLLNFLQ--GGYFERVMEVIGYMK  600 (653)
Q Consensus       573 -----~~~y~~li~~~~~--~g~~~~a~~~~~~m~  600 (653)
                           ......++.++-.  .+.+++|+..|+++.
T Consensus       233 ~~sre~~~l~~l~~a~~~~d~e~~~eai~~y~~~~  267 (290)
T d1qqea_         233 ADSRESNFLKSLIDAVNEGDSEQLSEHCKEFDNFM  267 (290)
T ss_dssp             -----HHHHHHHHHHHHTTCTTTHHHHHHHHTTSS
T ss_pred             cchHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHh
Confidence                 2344556666654  345788888876554

>d1dcea1 a.118.6.1 (A:1-241,A:351-443) Rab geranylgeranyltransferase alpha-subunit, N-terminal domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Protein prenylyltransferase
family: Protein prenylyltransferase
domain: Rab geranylgeranyltransferase alpha-subunit, N-terminal domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=98.18  E-value=9.8e-06  Score=77.45  Aligned_cols=33  Identities=6%  Similarity=-0.134  Sum_probs=21.7

Q ss_pred             HHHHHHHHHhcCChhhHHHHHHHHHhcCCCccHHH
Q 048743          180 FNLVLHACVRFGSSLKGQHIMELMSQTGVVADAHS  214 (653)
Q Consensus       180 yn~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t  214 (653)
                      ++.++....+.+..++|+++++...+.  .|+..+
T Consensus        32 ~~~~~~~~~~~~~~~~al~~~~~~l~~--~P~~~~   64 (334)
T d1dcea1          32 TQAVFQKRQAGELDESVLELTSQILGA--NPDFAT   64 (334)
T ss_dssp             HHHHHHHHHTTCCSHHHHHHHHHHHHH--CTTCHH
T ss_pred             HHHHHHHHhcccccHHHHHHHHHHHHH--CCCcHH
Confidence            334444333444558999999998874  688766

>d1dcea1 a.118.6.1 (A:1-241,A:351-443) Rab geranylgeranyltransferase alpha-subunit, N-terminal domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Protein prenylyltransferase
family: Protein prenylyltransferase
domain: Rab geranylgeranyltransferase alpha-subunit, N-terminal domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=98.15  E-value=4.5e-06  Score=79.88  Aligned_cols=259  Identities=10%  Similarity=-0.028  Sum_probs=167.1

Q ss_pred             hcCCCchHHHHHHHHHcCccCCCchhH-HH---HHHHHhhcccccccchHHHHHHHHHhhhhhhhhcCCccC---CCCch
Q 048743          105 RAQMPVPASMILRLMLGRENLPCSDLL-LL---VFVHMVKTEIGTCLASNFLIQLCDVFLHLSAEKSNGAEL---IKPDT  177 (653)
Q Consensus       105 ~~g~~~~a~~~~~~m~~~g~~p~~~~~-~~---li~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~---~~~~~  177 (653)
                      +....++|+++++...+.  .|+..+. +.   ++..+...+           ......+.++.+..+++..   .+.+.
T Consensus        41 ~~~~~~~al~~~~~~l~~--~P~~~~a~~~r~~~l~~l~~~~-----------~~~~~~~~~~~al~~~~~~l~~~pk~~  107 (334)
T d1dcea1          41 AGELDESVLELTSQILGA--NPDFATLWNCRREVLQHLETEK-----------SPEESAALVKAELGFLESCLRVNPKSY  107 (334)
T ss_dssp             TTCCSHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHTTS-----------CHHHHHHHHHHHHHHHHHHHHHCTTCH
T ss_pred             cccccHHHHHHHHHHHHH--CCCcHHHHHHHHHHHHHHhhhc-----------chHHHHHHHHHHHHHHHHHHHhCCCcH
Confidence            334446788888877654  5666542 11   111111111           1112223344444444422   23455


Q ss_pred             hhHHHHHHHHHhcC--ChhhHHHHHHHHHhcCCCccHHHHH-HHHHHHHhcCChhhhHHHHHHhhhcCCCcccchhHHHH
Q 048743          178 MIFNLVLHACVRFG--SSLKGQHIMELMSQTGVVADAHSII-ILAQIHEMNCQRDELKKFKCYIDQLSTPFAHHYQQFYE  254 (653)
Q Consensus       178 ~~yn~li~~~~~~g--~~~~a~~l~~~m~~~g~~p~~~t~~-~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~  254 (653)
                      ..|..+..++...+  ++++|...++.+.+.. .++...+. .....+...+..+.|.+.++......+.+    ...|+
T Consensus       108 ~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~-~~~~~~~~~~~~~~~~~~~~~~~Al~~~~~~i~~~p~~----~~a~~  182 (334)
T d1dcea1         108 GTWHHRCWLLSRLPEPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFSN----YSSWH  182 (334)
T ss_dssp             HHHHHHHHHHHTCSSCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTCCC----HHHHH
T ss_pred             HHHHHhhHHHHHhccccHHHHHHHHHHHHhhC-chhhhhhhhHHHHHHHhccccHHHHHHHHHHHHcCCCC----HHHHH
Confidence            66777777766655  5789999999988753 22344443 44466667899999999888887765433    34688


Q ss_pred             HHHHhhhccCCHHHHHHHHHHhcccCCCCCCchhhhcccccchhccCCCcccchhhhccchhhhHHHHHHhhhhhHHHHH
Q 048743          255 SLLSLHFKFDDIDAAGELILDMNRYREPLPNPKLRQDAQKPYLISIGSPNLRCGLKLQIMPELLEKDSILKMEGKQELVL  334 (653)
Q Consensus       255 ~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  334 (653)
                      .+-.++.+.|++++|...+....+                                                        
T Consensus       183 ~l~~~~~~~~~~~~A~~~~~~~~~--------------------------------------------------------  206 (334)
T d1dcea1         183 YRSCLLPQLHPQPDSGPQGRLPEN--------------------------------------------------------  206 (334)
T ss_dssp             HHHHHHHHHSCCCCSSSCCSSCHH--------------------------------------------------------
T ss_pred             HHHHHHHHhcCHHHHHHHHHHhHH--------------------------------------------------------
Confidence            888888888888776544433310                                                        


Q ss_pred             HhcCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCC
Q 048743          335 FRNGKLLHSNRAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMD  414 (653)
Q Consensus       335 ~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~  414 (653)
                           +.|.   ...+...+...+..+++...+.......  +++...+..+...+...|+.+.|...+.+..+... -+
T Consensus       207 -----~~~~---~~~~~~~~~~l~~~~~a~~~~~~~l~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p-~~  275 (334)
T d1dcea1         207 -----VLLK---ELELVQNAFFTDPNDQSAWFYHRWLLGR--AEPLFRCELSVEKSTVLQSELESCKELQELEPENK-WC  275 (334)
T ss_dssp             -----HHHH---HHHHHHHHHHHCSSCSHHHHHHHHHHSC--CCCSSSCCCCHHHHHHHHHHHHHHHHHHHHCTTCH-HH
T ss_pred             -----hHHH---HHHHHHHHHHhcchhHHHHHHHHHHHhC--cchhhHHHHHHHHHHHHhhHHHHHHHHHHHHhhCc-hH
Confidence                 0011   1123344556677788888888877766  66666688888888899999999999998876532 24


Q ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCccCc
Q 048743          415 STTYKSLLTAYYKVKMFREAEALLKQMRKSCLVQNL  450 (653)
Q Consensus       415 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~  450 (653)
                      ..+|..+..++...|++++|.+.|+...+  +.|+.
T Consensus       276 ~~~~~~l~~~~~~~~~~~eA~~~~~~ai~--ldP~~  309 (334)
T d1dcea1         276 LLTIILLMRALDPLLYEKETLQYFSTLKA--VDPMR  309 (334)
T ss_dssp             HHHHHHHHHHHCTGGGHHHHHHHHHHHHH--HCGGG
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHH--HCccc
Confidence            56778888899999999999999999987  46764

>d1hh8a_ a.118.8.1 (A:) Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Neutrophil cytosolic factor 2 (NCF-2, p67-phox)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.14  E-value=5.8e-05  Score=65.07  Aligned_cols=106  Identities=10%  Similarity=-0.089  Sum_probs=87.5

Q ss_pred             CCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCC--------
Q 048743          340 LLHSNRAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGH--------  411 (653)
Q Consensus       340 ~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~--------  411 (653)
                      ..|+..+|..+-.+|...|++++|++.|++..+.+  |.....|..+-.+|.+.|++++|...|++.....-        
T Consensus        32 ~~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ld--p~~~~a~~~~g~~~~~~g~~~~A~~~~~kAl~~~~~n~~~~~~  109 (192)
T d1hh8a_          32 QDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD--KHLAVAYFQRGMLYYQTEKYDLAIKDLKEALIQLRGNQLIDYK  109 (192)
T ss_dssp             SSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCSEEECG
T ss_pred             CCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHHh--hhhhhhHHHHHHHHHhhccHHHHHHHHHHHHHhCccCchHHHH
Confidence            44677788899999999999999999999999988  88888899999999999999999999998765311        


Q ss_pred             ------CCC-HHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCc
Q 048743          412 ------PMD-STTYKSLLTAYYKVKMFREAEALLKQMRKSCLV  447 (653)
Q Consensus       412 ------~p~-~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~  447 (653)
                            .++ ..++..+-.++.+.|++++|.+.|....+....
T Consensus       110 ~~~~~~~~~~~e~~~n~a~~~~~~~~~~~A~~~l~~A~~~~~~  152 (192)
T d1hh8a_         110 ILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMKSE  152 (192)
T ss_dssp             GGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCS
T ss_pred             HhhhhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCC
Confidence                  111 245666777899999999999999988764433

>d1qqea_ a.118.8.1 (A:) Vesicular transport protein sec17 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Vesicular transport protein sec17
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.94  E-value=0.00028  Score=65.35  Aligned_cols=208  Identities=12%  Similarity=-0.045  Sum_probs=139.5

Q ss_pred             hHHHHHHHHHhcCChhhHHHHHHHHHhc----CCCccH-HHHHHHHHHHHhcCChhhhHHHHHHhhhcC--CCcccchhH
Q 048743          179 IFNLVLHACVRFGSSLKGQHIMELMSQT----GVVADA-HSIIILAQIHEMNCQRDELKKFKCYIDQLS--TPFAHHYQQ  251 (653)
Q Consensus       179 ~yn~li~~~~~~g~~~~a~~l~~~m~~~----g~~p~~-~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~--~~~~~~~~~  251 (653)
                      .|......|...|++++|.+.|.+..+.    +-.|+. .+|..+..+|.+.|++++|.+.++......  .........
T Consensus        39 ~y~~aa~~y~~~~~~~~A~~~y~kA~~~~~~~~~~~~~a~~~~~~g~~y~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~  118 (290)
T d1qqea_          39 LCVQAATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGAN  118 (290)
T ss_dssp             HHHHHHHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCCcHHHHHHHHHhhHHhhhcccchhHHH
Confidence            4777788899999999999999988763    222332 458889999999999999999988765541  122222344


Q ss_pred             HHHHHHHhhh-ccCCHHHHHHHHHHhcccCCCCCCchhhhcccccchhccCCCcccchhhhccchhhhHHHHHHhhhhhH
Q 048743          252 FYESLLSLHF-KFDDIDAAGELILDMNRYREPLPNPKLRQDAQKPYLISIGSPNLRCGLKLQIMPELLEKDSILKMEGKQ  330 (653)
Q Consensus       252 ~~~~li~~~~-~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  330 (653)
                      ++..+...|- ..|++++|.+.+++..+.                                                   
T Consensus       119 ~~~~l~~~~~~~~~~~~~A~~~~~~A~~l---------------------------------------------------  147 (290)
T d1qqea_         119 FKFELGEILENDLHDYAKAIDCYELAGEW---------------------------------------------------  147 (290)
T ss_dssp             HHHHHHHHHHHTTCCHHHHHHHHHHHHHH---------------------------------------------------
T ss_pred             HHHHHHHhHhhHHHHHHHHHHHHHHHHHH---------------------------------------------------
Confidence            5677777774 469999999999887210                                                   


Q ss_pred             HHHHHhcCCCCC-CHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcc-----cHHHHHHHHHHcCCHHHHHHHHH
Q 048743          331 ELVLFRNGKLLH-SNRAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGEST-----LCSDVIDALIQLGFLEAAHDILD  404 (653)
Q Consensus       331 ~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~-----~~~~li~~~~~~g~~~~a~~~~~  404 (653)
                          ....+..+ -..+|..+...+...|++++|...|++........+...     .+...+..+...|+++.|...++
T Consensus       148 ----~~~~~~~~~~~~~~~~la~~~~~~g~y~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~d~~~A~~~~~  223 (290)
T d1qqea_         148 ----YAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQ  223 (290)
T ss_dssp             ----HHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             ----HHhcCchhhhhhHHHHHHHHHHHcChHHHHHHHHHHHHHhCccchhhhhhHHHHHHHHHHHHHHhccHHHHHHHHH
Confidence                00111111 123678889999999999999999999877652111111     13444556677899999999999


Q ss_pred             HHHHCCCC-CC---HHHHHHHHHHHHHc--CChHHHHHHHHHH
Q 048743          405 DMELAGHP-MD---STTYKSLLTAYYKV--KMFREAEALLKQM  441 (653)
Q Consensus       405 ~m~~~g~~-p~---~~~~~~li~~~~~~--~~~~~a~~~~~~m  441 (653)
                      +..+.... ++   ......++.++...  +.+++|+..|+.+
T Consensus       224 ~~~~~~~~~~~sre~~~l~~l~~a~~~~d~e~~~eai~~y~~~  266 (290)
T d1qqea_         224 EGQSEDPNFADSRESNFLKSLIDAVNEGDSEQLSEHCKEFDNF  266 (290)
T ss_dssp             GGGCC---------HHHHHHHHHHHHTTCTTTHHHHHHHHTTS
T ss_pred             HHHHhCCCccchHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHH
Confidence            98765311 11   23456677776552  4577777777544

>d2c2la1 a.118.8.1 (A:24-224) STIP1 homology and U box-containing protein 1, STUB1 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: STIP1 homology and U box-containing protein 1, STUB1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=97.88  E-value=9.6e-05  Score=64.20  Aligned_cols=99  Identities=11%  Similarity=-0.092  Sum_probs=89.0

Q ss_pred             CCHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHH
Q 048743          342 HSNRAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTYKSL  421 (653)
Q Consensus       342 p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~l  421 (653)
                      |+...+...-..+.+.|++++|+..|.+.....  |.+...|..+..+|.+.|+++.|...|.+..+.. +-+..+|..+
T Consensus         2 ~~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~~--p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l~-p~~~~a~~~l   78 (201)
T d2c2la1           2 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRN--PLVAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFL   78 (201)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSC-TTCHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCCHHHHHhHHHHHhhhhhhhhhhHHHHHHHHhC-CCcHHHHHHH
Confidence            677777788899999999999999999998887  8888889999999999999999999999998653 2267889999


Q ss_pred             HHHHHHcCChHHHHHHHHHHHH
Q 048743          422 LTAYYKVKMFREAEALLKQMRK  443 (653)
Q Consensus       422 i~~~~~~~~~~~a~~~~~~m~~  443 (653)
                      ..+|.+.|++++|+..|+...+
T Consensus        79 g~~~~~l~~~~~A~~~~~~al~  100 (201)
T d2c2la1          79 GQCQLEMESYDEAIANLQRAYS  100 (201)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHH
Confidence            9999999999999999998876

>d1hh8a_ a.118.8.1 (A:) Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Neutrophil cytosolic factor 2 (NCF-2, p67-phox)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.86  E-value=0.00018  Score=61.89  Aligned_cols=128  Identities=7%  Similarity=-0.041  Sum_probs=100.0

Q ss_pred             ccCCHHHHHHHHHHHHHccCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCCHHHHHH
Q 048743          476 LMDKSDLAESLIQEMREEAALSTIYKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRPTVETFYYLVYGHSSLEMYRDITI  555 (653)
Q Consensus       476 ~~~~~~~a~~~~~~m~~~~~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~  555 (653)
                      ..|+++.|.+.|.++.    .|+..+|..+-..|...|++++|++.|++.++.. +-+...|..+-.++.+.|++++|..
T Consensus        17 ~~~d~~~Al~~~~~i~----~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ld-p~~~~a~~~~g~~~~~~g~~~~A~~   91 (192)
T d1hh8a_          17 DKKDWKGALDAFSAVQ----DPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQRGMLYYQTEKYDLAIK   91 (192)
T ss_dssp             HTTCHHHHHHHHHTSS----SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HCCCHHHHHHHHHhcC----CCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHHh-hhhhhhHHHHHHHHHhhccHHHHHH
Confidence            4799999999998753    3688889999999999999999999999999854 2246788899999999999999999


Q ss_pred             HHHHHHHHhhhCCC----------ccC-HHHHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCCH
Q 048743          556 LWGDIKRNIESGVL----------AVS-RDLYETLLLNFLQGGYFERVMEVIGYMKKQNMYVDK  608 (653)
Q Consensus       556 ~~~~~~~~~~~~~~----------~p~-~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~  608 (653)
                      .|+......+....          .++ ..++..+-.++.+.|++++|.+.++...+....|+.
T Consensus        92 ~~~kAl~~~~~n~~~~~~~~~~~~~~~~~e~~~n~a~~~~~~~~~~~A~~~l~~A~~~~~~~~~  155 (192)
T d1hh8a_          92 DLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMKSEPRH  155 (192)
T ss_dssp             HHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCSGGG
T ss_pred             HHHHHHHhCccCchHHHHHhhhhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCcch
Confidence            99987643222111          111 345556777899999999999999988855544433

>d1a17a_ a.118.8.1 (A:) Protein phosphatase 5 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Protein phosphatase 5
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.85  E-value=0.00029  Score=58.40  Aligned_cols=99  Identities=10%  Similarity=-0.065  Sum_probs=87.5

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 048743          347 MAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTYKSLLTAYY  426 (653)
Q Consensus       347 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~  426 (653)
                      +...-..|.+.|++++|...|.+..+..  |.+...|..+...|...|++++|...|++..+.. +-+..+|..+..+|.
T Consensus        13 l~~~gn~~~~~~~y~~A~~~~~~al~~~--p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~-p~~~~a~~~~g~~~~   89 (159)
T d1a17a_          13 LKTQANDYFKAKDYENAIKFYSQAIELN--PSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNM   89 (159)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHhhhccccc--hhhhhhhhhhHHHHHhccccchHHHHHHHHHHHc-ccchHHHHHHHHHHH
Confidence            3455667889999999999999999988  8888899999999999999999999999998764 346789999999999


Q ss_pred             HcCChHHHHHHHHHHHHcCCccCc
Q 048743          427 KVKMFREAEALLKQMRKSCLVQNL  450 (653)
Q Consensus       427 ~~~~~~~a~~~~~~m~~~~~~p~~  450 (653)
                      ..|++++|...+++..+.  .|+.
T Consensus        90 ~~g~~~eA~~~~~~a~~~--~p~~  111 (159)
T d1a17a_          90 ALGKFRAALRDYETVVKV--KPHD  111 (159)
T ss_dssp             HTTCHHHHHHHHHHHHHH--STTC
T ss_pred             HcCCHHHHHHHHHHHHHc--CCCC
Confidence            999999999999999884  4654

>d1elwa_ a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Hop
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.85  E-value=9.8e-05  Score=57.62  Aligned_cols=97  Identities=16%  Similarity=-0.048  Sum_probs=86.6

Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHc
Q 048743          349 KLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTYKSLLTAYYKV  428 (653)
Q Consensus       349 ~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~  428 (653)
                      .--+.+.+.|++++|+..|.+..+..  |.+...|..+-.+|.+.|++++|+..+....+.. +.+...|..+..++...
T Consensus         8 ~~g~~~~~~g~~~eAi~~~~~al~~~--p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~g~~~~~~   84 (117)
T d1elwa_           8 EKGNKALSVGNIDDALQCYSEAIKLD--PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK-PDWGKGYSRKAAALEFL   84 (117)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhcC--CcchhhhhcccccccccccccccchhhhhHHHhc-cchhhHHHHHHHHHHHc
Confidence            34566888999999999999999988  8888889999999999999999999999998864 45888999999999999


Q ss_pred             CChHHHHHHHHHHHHcCCccCc
Q 048743          429 KMFREAEALLKQMRKSCLVQNL  450 (653)
Q Consensus       429 ~~~~~a~~~~~~m~~~~~~p~~  450 (653)
                      |++++|...|+...+  +.|+.
T Consensus        85 ~~~~~A~~~~~~a~~--~~p~~  104 (117)
T d1elwa_          85 NRFEEAKRTYEEGLK--HEANN  104 (117)
T ss_dssp             TCHHHHHHHHHHHHT--TCTTC
T ss_pred             cCHHHHHHHHHHHHH--hCCCC
Confidence            999999999999987  45664

>d1nzna_ a.118.8.1 (A:) Mitochondria fission protein Fis1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondria fission protein Fis1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.80  E-value=8.7e-05  Score=58.22  Aligned_cols=112  Identities=13%  Similarity=-0.012  Sum_probs=88.7

Q ss_pred             HHHHHHHHHhccchhHHHHHHHHhhhhcCCCCchhHHHHHHHhhccCCcchhhhHHHHHHHHHhccCCchhHHHHHHHHH
Q 048743           22 LLRKLESASKNHQVGEAWETFNDFQRLHGIPERHVVNRFITDLCYSAEPHWLQKACDLVLKIQKGKADLLQLDLLAKLSL  101 (653)
Q Consensus        22 ~~~~i~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~t~~~li~  101 (653)
                      +..++..+...+++++|.+.|+..... ...++.++..+-.++.++++.+..++|+.++++.....+......+|..+..
T Consensus         2 ~~~l~n~~~~~~~l~~Ae~~Y~~aL~~-~p~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg~   80 (122)
T d1nzna_           2 MEAVLNELVSVEDLLKFEKKFQSEKAA-GSVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAV   80 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHH-SCCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHhcCHHHHHHHHHHHHHHHhh-CCCCHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHHHHHHHHHH
Confidence            356778888999999999999998883 3345567888888888888877788999999998765443223567888899


Q ss_pred             HHHhcCCCchHHHHHHHHHcCccCCCchhHHHHHH
Q 048743          102 SLARAQMPVPASMILRLMLGRENLPCSDLLLLVFV  136 (653)
Q Consensus       102 ~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~  136 (653)
                      +|.+.|++++|++.|++..+.  .|+..-...+..
T Consensus        81 ~y~~~g~~~~A~~~~~~aL~~--~P~~~~A~~l~~  113 (122)
T d1nzna_          81 GNYRLKEYEKALKYVRGLLQT--EPQNNQAKELER  113 (122)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHH
T ss_pred             HHHHHhhhHHHHHHHHHHHHh--CcCCHHHHHHHH
Confidence            999999999999999999885  688766555533

>d1nzna_ a.118.8.1 (A:) Mitochondria fission protein Fis1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondria fission protein Fis1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.68  E-value=0.00014  Score=56.90  Aligned_cols=99  Identities=10%  Similarity=0.073  Sum_probs=83.2

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCC---HHHHHHHHHHHHHCCCCCC-HHHHHHHHH
Q 048743          348 AKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGF---LEAAHDILDDMELAGHPMD-STTYKSLLT  423 (653)
Q Consensus       348 ~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~---~~~a~~~~~~m~~~g~~p~-~~~~~~li~  423 (653)
                      ..+++.+...+++++|.+.|++....+  |.+..++..+..++.+.++   +++|..+|++.......|+ ..+|..+-.
T Consensus         3 ~~l~n~~~~~~~l~~Ae~~Y~~aL~~~--p~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg~   80 (122)
T d1nzna_           3 EAVLNELVSVEDLLKFEKKFQSEKAAG--SVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAV   80 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHS--CCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHH
T ss_pred             HHHHHHhcCHHHHHHHHHHHHHHHhhC--CCCHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHHHHHHHHHH
Confidence            467888899999999999999999988  8888888999999987655   4579999999987654444 247788889


Q ss_pred             HHHHcCChHHHHHHHHHHHHcCCccCc
Q 048743          424 AYYKVKMFREAEALLKQMRKSCLVQNL  450 (653)
Q Consensus       424 ~~~~~~~~~~a~~~~~~m~~~~~~p~~  450 (653)
                      +|.+.|++++|...|++..+  +.|+.
T Consensus        81 ~y~~~g~~~~A~~~~~~aL~--~~P~~  105 (122)
T d1nzna_          81 GNYRLKEYEKALKYVRGLLQ--TEPQN  105 (122)
T ss_dssp             HHHHTTCHHHHHHHHHHHHH--HCTTC
T ss_pred             HHHHHhhhHHHHHHHHHHHH--hCcCC
Confidence            99999999999999999998  45765

>d1elwa_ a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Hop
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.64  E-value=0.00038  Score=54.06  Aligned_cols=86  Identities=10%  Similarity=-0.117  Sum_probs=41.7

Q ss_pred             HHcCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHHhhhCCCccCHHHHHHHHHHHHhCCC
Q 048743          509 FCKGKMIGDALKIYRRMQEMKIRPTVETFYYLVYGHSSLEMYRDITILWGDIKRNIESGVLAVSRDLYETLLLNFLQGGY  588 (653)
Q Consensus       509 ~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~p~~~~y~~li~~~~~~g~  588 (653)
                      +.+.|++++|+.+|++.++.. +-+...|..+-.++...|++++|+..+....+.     -+.+...|..+..++...|+
T Consensus        13 ~~~~g~~~eAi~~~~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~-----~p~~~~~~~~~g~~~~~~~~   86 (117)
T d1elwa_          13 ALSVGNIDDALQCYSEAIKLD-PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDL-----KPDWGKGYSRKAAALEFLNR   86 (117)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH-----CTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHcCCHHHHHHHHHHHHhcC-CcchhhhhcccccccccccccccchhhhhHHHh-----ccchhhHHHHHHHHHHHccC
Confidence            344555555555555554431 123344555555555555555555555544421     12244445555555555555


Q ss_pred             HHHHHHHHHHHH
Q 048743          589 FERVMEVIGYMK  600 (653)
Q Consensus       589 ~~~a~~~~~~m~  600 (653)
                      +++|+..|++..
T Consensus        87 ~~~A~~~~~~a~   98 (117)
T d1elwa_          87 FEEAKRTYEEGL   98 (117)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            555555555555

>d2c2la1 a.118.8.1 (A:24-224) STIP1 homology and U box-containing protein 1, STUB1 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: STIP1 homology and U box-containing protein 1, STUB1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=97.63  E-value=0.00043  Score=59.85  Aligned_cols=86  Identities=14%  Similarity=0.062  Sum_probs=63.6

Q ss_pred             cccccCCHHHHHHHHHHHHHccCCC-CHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCC-HHHHHHHHHHHhccCCH
Q 048743          473 TSSLMDKSDLAESLIQEMREEAALS-TIYKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRPT-VETFYYLVYGHSSLEMY  550 (653)
Q Consensus       473 ~~~~~~~~~~a~~~~~~m~~~~~~p-~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~t~~~li~~~~~~~~~  550 (653)
                      .|.+.|++++|...|++..+..  | +...|+.+..+|.+.|++++|+..|++.++.  .|+ ..+|..+..+|...|++
T Consensus        13 ~~~~~g~~~~Ai~~~~kal~~~--p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l--~p~~~~a~~~lg~~~~~l~~~   88 (201)
T d2c2la1          13 RLFVGRKYPEAAACYGRAITRN--PLVAVYYTNRALCYLKMQQPEQALADCRRALEL--DGQSVKAHFFLGQCQLEMESY   88 (201)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC--SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS--CTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC--CCCHHHHHhHHHHHhhhhhhhhhhHHHHHHHHh--CCCcHHHHHHHHHHHHHCCCH
Confidence            4566788888888887777654  5 6777777888888888888888888877653  453 55677777788888888


Q ss_pred             HHHHHHHHHHHH
Q 048743          551 RDITILWGDIKR  562 (653)
Q Consensus       551 ~~a~~~~~~~~~  562 (653)
                      ++|...|+....
T Consensus        89 ~~A~~~~~~al~  100 (201)
T d2c2la1          89 DEAIANLQRAYS  100 (201)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            888888877653

>d1hxia_ a.118.8.1 (A:) Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor) {Trypanosoma brucei [TaxId: 5691]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor)
species: Trypanosoma brucei [TaxId: 5691]

Probab=97.62  E-value=0.0003  Score=54.19  Aligned_cols=90  Identities=11%  Similarity=-0.066  Sum_probs=80.3

Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHc
Q 048743          349 KLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTYKSLLTAYYKV  428 (653)
Q Consensus       349 ~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~  428 (653)
                      .+-..+.+.|++++|...|++.....  |.+...|..+...+.+.|++++|...|++..+.. +-+...|..+...|...
T Consensus        21 ~~g~~~~~~g~~~~A~~~~~~al~~~--p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~la~~y~~~   97 (112)
T d1hxia_          21 EEGLSMLKLANLAEAALAFEAVCQKE--PEREEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSHTNE   97 (112)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhhHHHHHHHhhhcccc--cccchhhhhhhhhhhhhhhHHHhhcccccccccc-cccccchHHHHHHHHHC
Confidence            34556888999999999999999988  8888889999999999999999999999998754 34688999999999999


Q ss_pred             CChHHHHHHHHHH
Q 048743          429 KMFREAEALLKQM  441 (653)
Q Consensus       429 ~~~~~a~~~~~~m  441 (653)
                      |++++|.+.|++.
T Consensus        98 g~~~~A~~~l~~~  110 (112)
T d1hxia_          98 HNANAALASLRAW  110 (112)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHH
Confidence            9999999999875

>d1a17a_ a.118.8.1 (A:) Protein phosphatase 5 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Protein phosphatase 5
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.59  E-value=0.0005  Score=56.86  Aligned_cols=81  Identities=12%  Similarity=0.126  Sum_probs=36.1

Q ss_pred             cCCHHHHHHHHHHHHHccCCC-CHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCCHHHHHH
Q 048743          477 MDKSDLAESLIQEMREEAALS-TIYKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRPTVETFYYLVYGHSSLEMYRDITI  555 (653)
Q Consensus       477 ~~~~~~a~~~~~~m~~~~~~p-~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~  555 (653)
                      .|++++|...|++..+..  | +...|..+..+|...|++++|++.|++.++.. +-+...|..+..++...|++++|..
T Consensus        23 ~~~y~~A~~~~~~al~~~--p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~-p~~~~a~~~~g~~~~~~g~~~eA~~   99 (159)
T d1a17a_          23 AKDYENAIKFYSQAIELN--PSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNMALGKFRAALR   99 (159)
T ss_dssp             TTCHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             cCCHHHHHHHhhhccccc--hhhhhhhhhhHHHHHhccccchHHHHHHHHHHHc-ccchHHHHHHHHHHHHcCCHHHHHH
Confidence            444444444444444433  3 44444444444444444444444444444431 1122344444444444444444444


Q ss_pred             HHHHH
Q 048743          556 LWGDI  560 (653)
Q Consensus       556 ~~~~~  560 (653)
                      .++..
T Consensus       100 ~~~~a  104 (159)
T d1a17a_         100 DYETV  104 (159)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            44444

>d1p5qa1 a.118.8.1 (A:258-427) FKBP52 (FKBP4), C-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: FKBP52 (FKBP4), C-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.52  E-value=0.0017  Score=54.11  Aligned_cols=106  Identities=11%  Similarity=0.069  Sum_probs=79.4

Q ss_pred             HHHHHHHHHcCCCHHHHHHHHHHHHhcC-CCC-------------CHHHHHHHHHHHhccCCHHHHHHHHHHHHHHhhhC
Q 048743          502 LNSSIYFFCKGKMIGDALKIYRRMQEMK-IRP-------------TVETFYYLVYGHSSLEMYRDITILWGDIKRNIESG  567 (653)
Q Consensus       502 y~~li~~~~~~g~~~~a~~~~~~m~~~g-~~p-------------~~~t~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~  567 (653)
                      +...-..+.+.|++++|++.|.+.+..- ..+             -..+|+.+..+|.+.|++++|+..++...+.    
T Consensus        16 l~~~G~~~~~~~~~~~Ai~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~y~k~~~~~~A~~~~~~al~~----   91 (170)
T d1p5qa1          16 VKERGTVYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAFSAAIESCNKALEL----   91 (170)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH----
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHhhhccccchHHHhhhchhHHHHHHHHHHHHHhhhhcccccchhhhhhhc----
Confidence            3344456777888888888888877531 111             1245677888899999999999999988743    


Q ss_pred             CCcc-CHHHHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCCHHhHHHHH
Q 048743          568 VLAV-SRDLYETLLLNFLQGGYFERVMEVIGYMKKQNMYVDKLMYKSEF  615 (653)
Q Consensus       568 ~~~p-~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~l~  615 (653)
                        .| +...|..+..+|...|++++|...|++..+  +.|+.......+
T Consensus        92 --~p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~--l~P~n~~~~~~l  136 (170)
T d1p5qa1          92 --DSNNEKGLSRRGEAHLAVNDFELARADFQKVLQ--LYPNNKAAKTQL  136 (170)
T ss_dssp             --CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCSSCHHHHHHH
T ss_pred             --cccchhhhHHHHHHHHHhhhHHHHHHHHHHHHH--hCCCCHHHHHHH
Confidence              34 788899999999999999999999999986  456554444444

>d1b89a_ a.118.1.3 (A:) Clathrin heavy chain proximal leg segment {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: Clathrin heavy chain proximal leg segment
domain: Clathrin heavy chain proximal leg segment
species: Cow (Bos taurus) [TaxId: 9913]

Probab=97.42  E-value=0.047  Score=50.31  Aligned_cols=55  Identities=13%  Similarity=0.029  Sum_probs=25.4

Q ss_pred             ccHHHHHHHHHHHHhcCChhhhHHHHHHhhhcCCCcccchhHHHHHHHHhhhccCCHHHHHHHHHHh
Q 048743          210 ADAHSIIILAQIHEMNCQRDELKKFKCYIDQLSTPFAHHYQQFYESLLSLHFKFDDIDAAGELILDM  276 (653)
Q Consensus       210 p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m  276 (653)
                      ||..--..+.+.|.+.|.++.|..++..+..            |..++..|.+.+++..|.+++.+.
T Consensus        12 ~n~~d~~~i~~~c~~~~lye~A~~lY~~~~d------------~~rl~~~~v~l~~~~~avd~~~k~   66 (336)
T d1b89a_          12 PNNAHIQQVGDRCYDEKMYDAAKLLYNNVSN------------FGRLASTLVHLGEYQAAVDGARKA   66 (336)
T ss_dssp             C----------------CTTTHHHHHHHTTC------------HHHHHHHHHTTTCHHHHHHHHHHH
T ss_pred             CCcCCHHHHHHHHHHCCCHHHHHHHHHhCCC------------HHHHHHHHHhhccHHHHHHHHHHc
Confidence            3433344555666666666666666665544            566666677777777777766655

>d1hxia_ a.118.8.1 (A:) Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor) {Trypanosoma brucei [TaxId: 5691]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor)
species: Trypanosoma brucei [TaxId: 5691]

Probab=97.26  E-value=0.0015  Score=50.01  Aligned_cols=88  Identities=9%  Similarity=-0.023  Sum_probs=69.4

Q ss_pred             HHHHHHcCCCHHHHHHHHHHHHhcCCCC-CHHHHHHHHHHHhccCCHHHHHHHHHHHHHHhhhCCCccCHHHHHHHHHHH
Q 048743          505 SIYFFCKGKMIGDALKIYRRMQEMKIRP-TVETFYYLVYGHSSLEMYRDITILWGDIKRNIESGVLAVSRDLYETLLLNF  583 (653)
Q Consensus       505 li~~~~~~g~~~~a~~~~~~m~~~g~~p-~~~t~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~p~~~~y~~li~~~  583 (653)
                      +-..+.+.|++++|+..|++.+...  | +...|..+..++.+.|++++|+..++...+.     -+.+...|..+...|
T Consensus        22 ~g~~~~~~g~~~~A~~~~~~al~~~--p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~-----~p~~~~a~~~la~~y   94 (112)
T d1hxia_          22 EGLSMLKLANLAEAALAFEAVCQKE--PEREEAWRSLGLTQAENEKDGLAIIALNHARML-----DPKDIAVHAALAVSH   94 (112)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-----CTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHhhhHHHHHHHhhhcccc--cccchhhhhhhhhhhhhhhHHHhhccccccccc-----ccccccchHHHHHHH
Confidence            3455677899999999999888753  4 5777888888889999999999998887632     223577788888889


Q ss_pred             HhCCCHHHHHHHHHHH
Q 048743          584 LQGGYFERVMEVIGYM  599 (653)
Q Consensus       584 ~~~g~~~~a~~~~~~m  599 (653)
                      ...|++++|.+.+++.
T Consensus        95 ~~~g~~~~A~~~l~~~  110 (112)
T d1hxia_          95 TNEHNANAALASLRAW  110 (112)
T ss_dssp             HHHHHHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHH
Confidence            9999999999888875

>d1elra_ a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Hop
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.20  E-value=0.0013  Score=51.92  Aligned_cols=96  Identities=13%  Similarity=0.114  Sum_probs=79.9

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCC--CCCC----HHHHHH
Q 048743          347 MAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAG--HPMD----STTYKS  420 (653)
Q Consensus       347 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g--~~p~----~~~~~~  420 (653)
                      +-.+-..+.+.|++++|+..|.+..+.+  |.+..+|..+-.+|.+.|+++.|...+++..+..  ....    ..+|..
T Consensus         7 ~k~~G~~~~~~~~y~~Ai~~y~~al~~~--p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~~~~~~~~~~~a~~~~~   84 (128)
T d1elra_           7 EKELGNDAYKKKDFDTALKHYDKAKELD--PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYAR   84 (128)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhC--cccHHHHHhHHHHHHHcCchHHHHHHHHHHHHhCcccHHHHHHHHHHHHH
Confidence            4456778999999999999999999988  8888889999999999999999999999986521  1111    246777


Q ss_pred             HHHHHHHcCChHHHHHHHHHHHHc
Q 048743          421 LLTAYYKVKMFREAEALLKQMRKS  444 (653)
Q Consensus       421 li~~~~~~~~~~~a~~~~~~m~~~  444 (653)
                      +-..+...+++++|...|+.....
T Consensus        85 lg~~~~~~~~~~~A~~~~~kal~~  108 (128)
T d1elra_          85 IGNSYFKEEKYKDAIHFYNKSLAE  108 (128)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHhc
Confidence            888889999999999999887764

>d2ff4a2 a.118.8.3 (A:105-283) Probable regulatory protein EmbR, middle domain {Mycobacterium tuberculosis [TaxId: 1773]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: BTAD-like
domain: Probable regulatory protein EmbR, middle domain
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=97.12  E-value=0.0087  Score=50.00  Aligned_cols=124  Identities=7%  Similarity=-0.011  Sum_probs=82.0

Q ss_pred             HHHHHcCChHHHHHHHHHHHHcCCccCchhhHHHHhhHHHHhhhcccccccccccCCHHHHHHHHHHHHHccCCCCHHHH
Q 048743          423 TAYYKVKMFREAEALLKQMRKSCLVQNLSCEMVVSERFSEVADKSASFTDTSSLMDKSDLAESLIQEMREEAALSTIYKL  502 (653)
Q Consensus       423 ~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~y  502 (653)
                      ......|++++|.+.|......  .+.....-                      ....+.+...-..+...    ....+
T Consensus        19 ~~~~~~g~~e~A~~~~~~AL~l--~rG~~l~~----------------------~~~~~w~~~~r~~l~~~----~~~a~   70 (179)
T d2ff4a2          19 VHAAAAGRFEQASRHLSAALRE--WRGPVLDD----------------------LRDFQFVEPFATALVED----KVLAH   70 (179)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHTT--CCSSTTGG----------------------GTTSTTHHHHHHHHHHH----HHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHhh--Cccccccc----------------------CcchHHHHHHHHHHHHH----HHHHH
Confidence            4667889999999998888763  22210000                      00111111111122221    23467


Q ss_pred             HHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHHh-hhCCCccCHHH
Q 048743          503 NSSIYFFCKGKMIGDALKIYRRMQEMKIRPTVETFYYLVYGHSSLEMYRDITILWGDIKRNI-ESGVLAVSRDL  575 (653)
Q Consensus       503 ~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~p~~~~  575 (653)
                      ..+...+.+.|++++|+..++.+.+.. +-+...|..++.+|...|+.++|++.|+.+.+.+ ++.|+.|+..+
T Consensus        71 ~~la~~~~~~g~~~~Al~~~~~al~~~-P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~~~l  143 (179)
T d2ff4a2          71 TAKAEAEIACGRASAVIAELEALTFEH-PYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTL  143 (179)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHH
T ss_pred             HHHHHHHHHCCCchHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcCHHH
Confidence            778888899999999999999988753 3467788899999999999999999988876544 34578887655

>d2ff4a2 a.118.8.3 (A:105-283) Probable regulatory protein EmbR, middle domain {Mycobacterium tuberculosis [TaxId: 1773]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: BTAD-like
domain: Probable regulatory protein EmbR, middle domain
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=97.04  E-value=0.0039  Score=52.26  Aligned_cols=111  Identities=9%  Similarity=-0.090  Sum_probs=86.0

Q ss_pred             ccchHHHHHH---HHHHHHhccchhHHHHHHHHhhhhc-CCC-----Cc---------------hhHHHHHHHhhccCCc
Q 048743           15 EGSSREVLLR---KLESASKNHQVGEAWETFNDFQRLH-GIP-----ER---------------HVVNRFITDLCYSAEP   70 (653)
Q Consensus        15 ~~p~~~~~~~---~i~~~~~~~~~~~A~~~~~~~~~~~-~~~-----~~---------------~~~~~ll~~~~~~~~~   70 (653)
                      ..-|...|..   .-..+...|++++|.+.|....... +.+     ..               ..+..+...+...|+ 
T Consensus         4 ~~~D~~~f~~~~~~g~~~~~~g~~e~A~~~~~~AL~l~rG~~l~~~~~~~w~~~~r~~l~~~~~~a~~~la~~~~~~g~-   82 (179)
T d2ff4a2           4 NTCDLGRFVAEKTAGVHAAAAGRFEQASRHLSAALREWRGPVLDDLRDFQFVEPFATALVEDKVLAHTAKAEAEIACGR-   82 (179)
T ss_dssp             GGBHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCSSTTGGGTTSTTHHHHHHHHHHHHHHHHHHHHHHHHHTTC-
T ss_pred             hhccHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCcccccccCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHCCC-
Confidence            3344444444   4467788899999999999977631 111     11               245677788888888 


Q ss_pred             chhhhHHHHHHHHHhccCCchhHHHHHHHHHHHHhcCCCchHHHHHHHHHc-----CccCCCchh
Q 048743           71 HWLQKACDLVLKIQKGKADLLQLDLLAKLSLSLARAQMPVPASMILRLMLG-----RENLPCSDL  130 (653)
Q Consensus        71 ~~~~~a~~~~~~~~~~~~~~~~~~t~~~li~~~~~~g~~~~a~~~~~~m~~-----~g~~p~~~~  130 (653)
                        .++|+..+.+....+|.  +...|..++.+|.+.|+..+|++.|+++.+     .|+.|+..+
T Consensus        83 --~~~Al~~~~~al~~~P~--~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~~~l  143 (179)
T d2ff4a2          83 --ASAVIAELEALTFEHPY--REPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTL  143 (179)
T ss_dssp             --HHHHHHHHHHHHHHSTT--CHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHH
T ss_pred             --chHHHHHHHHHHHhCCc--cHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcCHHH
Confidence              79999999999887765  899999999999999999999999999854     689998765

>d2fbna1 a.118.8.1 (A:22-174) Putative 70 kda peptidylprolyl isomerase PFL2275c {Plasmodium falciparum [TaxId: 5833]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Putative 70 kda peptidylprolyl isomerase PFL2275c
species: Plasmodium falciparum [TaxId: 5833]

Probab=97.04  E-value=0.011  Score=47.93  Aligned_cols=104  Identities=12%  Similarity=0.020  Sum_probs=77.9

Q ss_pred             HHHHHHcCCCHHHHHHHHHHHHhcC----CCCC-----------HHHHHHHHHHHhccCCHHHHHHHHHHHHHHhhhCCC
Q 048743          505 SIYFFCKGKMIGDALKIYRRMQEMK----IRPT-----------VETFYYLVYGHSSLEMYRDITILWGDIKRNIESGVL  569 (653)
Q Consensus       505 li~~~~~~g~~~~a~~~~~~m~~~g----~~p~-----------~~t~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~  569 (653)
                      --..+.+.|++.+|+..|.+....-    ..++           ..+|..+..+|.+.|++++|++.++...+.     -
T Consensus        23 ~G~~~f~~~~y~~A~~~Y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~Nla~~~~~l~~~~~Al~~~~~al~~-----~   97 (153)
T d2fbna1          23 EGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEISCNLNLATCYNKNKDYPKAIDHASKVLKI-----D   97 (153)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-----S
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHhhCcchhhhhhHHHHHhhhhHHHHHHhhHHHHHHHhcccchhhhhhhccccc-----c
Confidence            3345677899999999888877521    1111           236777888899999999999999988733     2


Q ss_pred             ccCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCCHHhHHHHH
Q 048743          570 AVSRDLYETLLLNFLQGGYFERVMEVIGYMKKQNMYVDKLMYKSEF  615 (653)
Q Consensus       570 ~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~l~  615 (653)
                      +.+...|..+..++...|++++|...|+...+.  .|+.......+
T Consensus        98 p~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~l--~P~n~~~~~~l  141 (153)
T d2fbna1          98 KNNVKALYKLGVANMYFGFLEEAKENLYKAASL--NPNNLDIRNSY  141 (153)
T ss_dssp             TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--STTCHHHHHHH
T ss_pred             chhhhhhHHhHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHH
Confidence            347789999999999999999999999998854  47655544333

>d1b89a_ a.118.1.3 (A:) Clathrin heavy chain proximal leg segment {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: Clathrin heavy chain proximal leg segment
domain: Clathrin heavy chain proximal leg segment
species: Cow (Bos taurus) [TaxId: 9913]

Probab=96.88  E-value=0.16  Score=46.53  Aligned_cols=121  Identities=11%  Similarity=0.029  Sum_probs=72.9

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHH
Q 048743          348 AKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTYKSLLTAYYK  427 (653)
Q Consensus       348 ~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~  427 (653)
                      ..++..|.+.|++++|..++-.      .+++..-....+..+.+..+++...++.....+.    ++...+.++.....
T Consensus       178 ~elv~Ly~~~~~~~~A~~~~i~------~~~~~~~~~~f~e~~~k~~N~e~~~~~i~~yL~~----~p~~i~~lL~~v~~  247 (336)
T d1b89a_         178 AELVFLYDKYEEYDNAIITMMN------HPTDAWKEGQFKDIITKVANVELYYRAIQFYLEF----KPLLLNDLLMVLSP  247 (336)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHH------STTTTCCHHHHHHHHHHCSSTHHHHHHHHHHHHH----CGGGHHHHHHHHGG
T ss_pred             HHHHHHHHhcCCHHHHHHHHHH------cchhhhhHHHHHHHHHccCChHHHHHHHHHHHHc----CHHHHHHHHHHhcc
Confidence            3455566677777777666433      1344444666777777888877777776666553    23444666666655


Q ss_pred             cCChHHHHHHHHHHHHcCCccCchhhHHHHhhHHHHhhhcccccccccccCCHHHHHHHHHHHHHccCCCCHHHHHHHHH
Q 048743          428 VKMFREAEALLKQMRKSCLVQNLSCEMVVSERFSEVADKSASFTDTSSLMDKSDLAESLIQEMREEAALSTIYKLNSSIY  507 (653)
Q Consensus       428 ~~~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~y~~li~  507 (653)
                      .-++..+.+.++   +                                 .+++......++...+.|   +..+.+++..
T Consensus       248 ~~d~~r~V~~~~---k---------------------------------~~~l~li~p~Le~v~~~n---~~~vn~al~~  288 (336)
T d1b89a_         248 RLDHTRAVNYFS---K---------------------------------VKQLPLVKPYLRSVQNHN---NKSVNESLNN  288 (336)
T ss_dssp             GCCHHHHHHHHH---H---------------------------------TTCTTTTHHHHHHHHTTC---CHHHHHHHHH
T ss_pred             CCCHHHHHHHHH---h---------------------------------cCCcHHHHHHHHHHHHcC---hHHHHHHHHH
Confidence            555555544442   2                                 233334445555555544   3467889999


Q ss_pred             HHHcCCCHHH
Q 048743          508 FFCKGKMIGD  517 (653)
Q Consensus       508 ~~~~~g~~~~  517 (653)
                      .|...++++.
T Consensus       289 lyie~~d~~~  298 (336)
T d1b89a_         289 LFITEEDYQA  298 (336)
T ss_dssp             HHHHTTCHHH
T ss_pred             HHhCcchhHH
Confidence            9999988655

>d1p5qa1 a.118.8.1 (A:258-427) FKBP52 (FKBP4), C-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: FKBP52 (FKBP4), C-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.87  E-value=0.024  Score=46.80  Aligned_cols=82  Identities=10%  Similarity=-0.116  Sum_probs=65.3

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 048743          346 AMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTYKSLLTAY  425 (653)
Q Consensus       346 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~  425 (653)
                      +|+.+-.+|.+.|++++|+..++......  |.+...|..+..+|...|+++.|...|++..+... -|......+-...
T Consensus        64 ~~~nla~~y~k~~~~~~A~~~~~~al~~~--p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~P-~n~~~~~~l~~~~  140 (170)
T d1p5qa1          64 SHLNLAMCHLKLQAFSAAIESCNKALELD--SNNEKGLSRRGEAHLAVNDFELARADFQKVLQLYP-NNKAAKTQLAVCQ  140 (170)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCS-SCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhhcccccchhhhhhhcc--ccchhhhHHHHHHHHHhhhHHHHHHHHHHHHHhCC-CCHHHHHHHHHHH
Confidence            56778888999999999999999999988  88888899999999999999999999999987532 1555555554444


Q ss_pred             HHcCC
Q 048743          426 YKVKM  430 (653)
Q Consensus       426 ~~~~~  430 (653)
                      .+.+.
T Consensus       141 ~~~~~  145 (170)
T d1p5qa1         141 QRIRR  145 (170)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            43333

>d1kt1a1 a.118.8.1 (A:254-421) FKBP51, C-terminal domain {Monkey (Saimiri boliviensis) [TaxId: 27679]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: FKBP51, C-terminal domain
species: Monkey (Saimiri boliviensis) [TaxId: 27679]

Probab=96.82  E-value=0.048  Score=44.74  Aligned_cols=107  Identities=11%  Similarity=0.007  Sum_probs=78.5

Q ss_pred             HHHHHHHHHcCCCHHHHHHHHHHHHh---cCCCCC-----------HHHHHHHHHHHhccCCHHHHHHHHHHHHHHhhhC
Q 048743          502 LNSSIYFFCKGKMIGDALKIYRRMQE---MKIRPT-----------VETFYYLVYGHSSLEMYRDITILWGDIKRNIESG  567 (653)
Q Consensus       502 y~~li~~~~~~g~~~~a~~~~~~m~~---~g~~p~-----------~~t~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~  567 (653)
                      +.-.-..+.+.|++++|+..|.+.+.   ....++           ...|+.+-.+|.+.|++++|+..++...+.    
T Consensus        18 ~~e~G~~~~~~~~~~~A~~~Y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~Nla~~~~~l~~~~~Ai~~~~~al~l----   93 (168)
T d1kt1a1          18 VKEKGTVYFKGGKYVQAVIQYGKIVSWLEMEYGLSEKESKASESFLLAAFLNLAMCYLKLREYTKAVECCDKALGL----   93 (168)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH----
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhccchhhhhhcchhHHHHHHhHHHHHHHhhhcccchhhhhhhhhc----
Confidence            33344566778999999999887664   111111           134566777889999999999999988743    


Q ss_pred             CCccCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCCHHhHHHHH
Q 048743          568 VLAVSRDLYETLLLNFLQGGYFERVMEVIGYMKKQNMYVDKLMYKSEF  615 (653)
Q Consensus       568 ~~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~l~  615 (653)
                       -+.+...|..+..++...|++++|.+.|++..+  +.|+.......+
T Consensus        94 -~p~~~~a~~~~~~~~~~l~~~~~A~~~~~~al~--l~P~n~~~~~~l  138 (168)
T d1kt1a1          94 -DSANEKGLYRRGEAQLLMNEFESAKGDFEKVLE--VNPQNKAARLQI  138 (168)
T ss_dssp             -CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--SCTTCHHHHHHH
T ss_pred             -ccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--hCCCCHHHHHHH
Confidence             244778899999999999999999999999985  456655544444

>d1elra_ a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Hop
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.78  E-value=0.021  Score=44.52  Aligned_cols=100  Identities=10%  Similarity=-0.024  Sum_probs=71.1

Q ss_pred             HHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHHhhhC-CCccC-HHHHHHH
Q 048743          502 LNSSIYFFCKGKMIGDALKIYRRMQEMKIRPTVETFYYLVYGHSSLEMYRDITILWGDIKRNIESG-VLAVS-RDLYETL  579 (653)
Q Consensus       502 y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~p~-~~~y~~l  579 (653)
                      +..+-..|.+.|++++|++.|.+.++.+ +-+...|..+-.+|.+.|++++|++.++.+.+.-... ...+. ..+|..+
T Consensus         7 ~k~~G~~~~~~~~y~~Ai~~y~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~~~~~~~~~~~a~~~~~l   85 (128)
T d1elra_           7 EKELGNDAYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYARI   85 (128)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHhHHHHHHHcCchHHHHHHHHHHHHhCcccHHHHHHHHHHHHHH
Confidence            3445566788899999999998888763 2357778888888889999999998888876431111 11111 2467777


Q ss_pred             HHHHHhCCCHHHHHHHHHHHHhC
Q 048743          580 LLNFLQGGYFERVMEVIGYMKKQ  602 (653)
Q Consensus       580 i~~~~~~g~~~~a~~~~~~m~~~  602 (653)
                      -..+...+++++|++.|+.-...
T Consensus        86 g~~~~~~~~~~~A~~~~~kal~~  108 (128)
T d1elra_          86 GNSYFKEEKYKDAIHFYNKSLAE  108 (128)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHhCCHHHHHHHHHHHHhc
Confidence            77888888999999988776643

>d1ouva_ a.118.18.1 (A:) Cysteine rich protein C (HcpC) {Helicobacter pylori [TaxId: 210]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: HCP-like
family: HCP-like
domain: Cysteine rich protein C (HcpC)
species: Helicobacter pylori [TaxId: 210]

Probab=96.70  E-value=0.18  Score=44.58  Aligned_cols=230  Identities=10%  Similarity=-0.069  Sum_probs=140.7

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHH----cCCHHHHHHHHHHHHHCCCCCCHHHHH
Q 048743          344 NRAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQ----LGFLEAAHDILDDMELAGHPMDSTTYK  419 (653)
Q Consensus       344 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~----~g~~~~a~~~~~~m~~~g~~p~~~~~~  419 (653)
                      +..+..|-..+.+.+++++|++.|++..+.|    +...+..|-..|..    ..+...|...+..-.+.+   +.....
T Consensus         2 p~~~~~lG~~~~~~~d~~~A~~~~~kAa~~g----~~~A~~~Lg~~y~~G~~~~~d~~~a~~~~~~a~~~~---~~~a~~   74 (265)
T d1ouva_           2 PKELVGLGAKSYKEKDFTQAKKYFEKACDLK----ENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNGCH   74 (265)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT----CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHCC----CHHHHHHHHHHHHcCCCcchhHHHHHHhhccccccc---ccchhh
Confidence            3455566667778899999999999988766    33445556666665    568888999888887765   344444


Q ss_pred             HHHHHHHH----cCChHHHHHHHHHHHHcCCccCchhhHHHHhhHHHHhhhcccccccccccCCHHHHHHHHHHHHHccC
Q 048743          420 SLLTAYYK----VKMFREAEALLKQMRKSCLVQNLSCEMVVSERFSEVADKSASFTDTSSLMDKSDLAESLIQEMREEAA  495 (653)
Q Consensus       420 ~li~~~~~----~~~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~  495 (653)
                      .+...+..    ..+.+.|...++...+.|.....  ..+.....           +..........+...+......+ 
T Consensus        75 ~l~~~~~~~~~~~~~~~~a~~~~~~a~~~g~~~a~--~~l~~~~~-----------~~~~~~~~~~~a~~~~~~~~~~~-  140 (265)
T d1ouva_          75 LLGNLYYSGQGVSQNTNKALQYYSKACDLKYAEGC--ASLGGIYH-----------DGKVVTRDFKKAVEYFTKACDLN-  140 (265)
T ss_dssp             HHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHH--HHHHHHHH-----------HCSSSCCCHHHHHHHHHHHHHTT-
T ss_pred             ccccccccccccchhhHHHHHHHhhhhhhhhhhHH--Hhhccccc-----------CCCcccchhHHHHHHhhhhhccc-
Confidence            44444433    45678888888887776543221  11100000           11122455666777777666643 


Q ss_pred             CCCHHHHHHHHHHHHc----CCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhc----cCCHHHHHHHHHHHHHHhhhC
Q 048743          496 LSTIYKLNSSIYFFCK----GKMIGDALKIYRRMQEMKIRPTVETFYYLVYGHSS----LEMYRDITILWGDIKRNIESG  567 (653)
Q Consensus       496 ~p~~~~y~~li~~~~~----~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~----~~~~~~a~~~~~~~~~~~~~~  567 (653)
                        +...+..|...|..    ..+...+..+++...+.|   +......+-..+..    ..+.+.|..+|....+    .
T Consensus       141 --~~~~~~~L~~~~~~~~~~~~~~~~~~~~~~~a~~~g---~~~A~~~lg~~y~~g~~~~~d~~~A~~~~~~aa~----~  211 (265)
T d1ouva_         141 --DGDGCTILGSLYDAGRGTPKDLKKALASYDKACDLK---DSPGCFNAGNMYHHGEGATKNFKEALARYSKACE----L  211 (265)
T ss_dssp             --CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHH----T
T ss_pred             --ccchhhhhhhhhccCCCcccccccchhhhhcccccc---ccccccchhhhcccCcccccchhhhhhhHhhhhc----c
Confidence              56667777777764    445677777777766654   34444444333333    5578888888866642    2


Q ss_pred             CCccCHHHHHHHHHHHHh----CCCHHHHHHHHHHHHhCCCCC
Q 048743          568 VLAVSRDLYETLLLNFLQ----GGYFERVMEVIGYMKKQNMYV  606 (653)
Q Consensus       568 ~~~p~~~~y~~li~~~~~----~g~~~~a~~~~~~m~~~g~~p  606 (653)
                      |   +...+..|-..|.+    ..+.++|.+.|++..+.|..+
T Consensus       212 g---~~~a~~~LG~~y~~G~g~~~n~~~A~~~~~kAa~~g~~~  251 (265)
T d1ouva_         212 E---NGGGCFNLGAMQYNGEGVTRNEKQAIENFKKGCKLGAKG  251 (265)
T ss_dssp             T---CHHHHHHHHHHHHTTSSSSCCSTTHHHHHHHHHHHTCHH
T ss_pred             c---CHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHCcCHH
Confidence            3   34455555555554    336777888888777777543

>d1ouva_ a.118.18.1 (A:) Cysteine rich protein C (HcpC) {Helicobacter pylori [TaxId: 210]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: HCP-like
family: HCP-like
domain: Cysteine rich protein C (HcpC)
species: Helicobacter pylori [TaxId: 210]

Probab=96.57  E-value=0.22  Score=43.95  Aligned_cols=63  Identities=6%  Similarity=-0.068  Sum_probs=39.0

Q ss_pred             hhhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCccHHHHHHHHHHHHh----cCChhhhHHHHHHhhhcC
Q 048743          177 TMIFNLVLHACVRFGSSLKGQHIMELMSQTGVVADAHSIIILAQIHEM----NCQRDELKKFKCYIDQLS  242 (653)
Q Consensus       177 ~~~yn~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~ll~~~~~----~g~~~~a~~~~~~~~~~~  242 (653)
                      ...+..|-..+-+.+|+++|++.|+...+.|   |...+..|-..+..    ..+...+...+......+
T Consensus         2 p~~~~~lG~~~~~~~d~~~A~~~~~kAa~~g---~~~A~~~Lg~~y~~G~~~~~d~~~a~~~~~~a~~~~   68 (265)
T d1ouva_           2 PKELVGLGAKSYKEKDFTQAKKYFEKACDLK---ENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN   68 (265)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCcchhHHHHHHhhccccccc
Confidence            3455556666777889999999999888776   33444444444443    345555555555554443

>d2fbna1 a.118.8.1 (A:22-174) Putative 70 kda peptidylprolyl isomerase PFL2275c {Plasmodium falciparum [TaxId: 5833]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Putative 70 kda peptidylprolyl isomerase PFL2275c
species: Plasmodium falciparum [TaxId: 5833]

Probab=96.56  E-value=0.025  Score=45.63  Aligned_cols=102  Identities=12%  Similarity=-0.057  Sum_probs=81.1

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCC---C-----------cccHHHHHHHHHHcCCHHHHHHHHHHHHHCCC
Q 048743          346 AMAKLINGYKKHGKNSELSWLLLSIKKEHHSFG---E-----------STLCSDVIDALIQLGFLEAAHDILDDMELAGH  411 (653)
Q Consensus       346 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~---~-----------~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~  411 (653)
                      .+..--..+.+.|++.+|+..|.+....-....   +           ..+|+.+..+|.+.|++++|++.+....+.. 
T Consensus        19 ~~~~~G~~~f~~~~y~~A~~~Y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~Nla~~~~~l~~~~~Al~~~~~al~~~-   97 (153)
T d2fbna1          19 DIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEISCNLNLATCYNKNKDYPKAIDHASKVLKID-   97 (153)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhhCcchhhhhhHHHHHhhhhHHHHHHhhHHHHHHHhcccchhhhhhhcccccc-
Confidence            344556678899999999999998765331111   1           2346778888999999999999999998764 


Q ss_pred             CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCccCc
Q 048743          412 PMDSTTYKSLLTAYYKVKMFREAEALLKQMRKSCLVQNL  450 (653)
Q Consensus       412 ~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~  450 (653)
                      +.+..+|..+..++...|++++|...|+...+  +.|+.
T Consensus        98 p~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~--l~P~n  134 (153)
T d2fbna1          98 KNNVKALYKLGVANMYFGFLEEAKENLYKAAS--LNPNN  134 (153)
T ss_dssp             TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH--HSTTC
T ss_pred             chhhhhhHHhHHHHHHcCCHHHHHHHHHHHHH--hCCCC
Confidence            45889999999999999999999999999988  45664

>d1kt1a1 a.118.8.1 (A:254-421) FKBP51, C-terminal domain {Monkey (Saimiri boliviensis) [TaxId: 27679]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: FKBP51, C-terminal domain
species: Monkey (Saimiri boliviensis) [TaxId: 27679]

Probab=96.48  E-value=0.12  Score=42.27  Aligned_cols=95  Identities=13%  Similarity=0.011  Sum_probs=71.5

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 048743          346 AMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTYKSLLTAY  425 (653)
Q Consensus       346 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~  425 (653)
                      .|+.+-.+|.+.|++++|+..++......  |.+...|..+..+|...|++++|...|.+..+.. +.+......+-...
T Consensus        66 ~~~Nla~~~~~l~~~~~Ai~~~~~al~l~--p~~~~a~~~~~~~~~~l~~~~~A~~~~~~al~l~-P~n~~~~~~l~~~~  142 (168)
T d1kt1a1          66 AFLNLAMCYLKLREYTKAVECCDKALGLD--SANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVN-PQNKAARLQIFMCQ  142 (168)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHH
T ss_pred             HHHhHHHHHHHhhhcccchhhhhhhhhcc--cchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHH
Confidence            46667778899999999999999999887  8888889999999999999999999999998753 23555555544444


Q ss_pred             HHcCChH-HHHHHHHHHHH
Q 048743          426 YKVKMFR-EAEALLKQMRK  443 (653)
Q Consensus       426 ~~~~~~~-~a~~~~~~m~~  443 (653)
                      .+.+... ...++|..|.+
T Consensus       143 ~~~~~~~e~~kk~~~~~f~  161 (168)
T d1kt1a1         143 KKAKEHNERDRRTYANMFK  161 (168)
T ss_dssp             HHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHhHHHHHHHHHHHHHh
Confidence            4444333 34555555544

>d1ihga1 a.118.8.1 (A:197-365) Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Cyclophilin 40
species: Cow (Bos taurus) [TaxId: 9913]

Probab=96.42  E-value=0.023  Score=46.81  Aligned_cols=78  Identities=10%  Similarity=-0.095  Sum_probs=58.1

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 048743          345 RAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTYKSLLTA  424 (653)
Q Consensus       345 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~  424 (653)
                      ..|..+-.++.+.|++++|+..+.+..+..  |.+...|..+..+|.+.|+++.|...|++..+... .+...+..+..+
T Consensus        78 ~~~~nla~~~~~~~~~~~Ai~~~~~al~~~--p~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l~p-~n~~~~~~l~~~  154 (169)
T d1ihga1          78 SCVLNIGACKLKMSDWQGAVDSCLEALEID--PSNTKALYRRAQGWQGLKEYDQALADLKKAQEIAP-EDKAIQAELLKV  154 (169)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHTTC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhcccchhhhhhhhhhhhh--hhhhhHHHhHHHHHHHccCHHHHHHHHHHHHHhCC-CCHHHHHHHHHH
Confidence            356667778888888888888888888877  77777788888888888888888888888877532 244445544444


Q ss_pred             H
Q 048743          425 Y  425 (653)
Q Consensus       425 ~  425 (653)
                      .
T Consensus       155 ~  155 (169)
T d1ihga1         155 K  155 (169)
T ss_dssp             H
T ss_pred             H
Confidence            3

>d1ihga1 a.118.8.1 (A:197-365) Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Cyclophilin 40
species: Cow (Bos taurus) [TaxId: 9913]

Probab=96.28  E-value=0.07  Score=43.71  Aligned_cols=64  Identities=11%  Similarity=0.004  Sum_probs=49.5

Q ss_pred             CHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHH
Q 048743          498 TIYKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRPTVETFYYLVYGHSSLEMYRDITILWGDIKR  562 (653)
Q Consensus       498 ~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~~~~  562 (653)
                      +...|+.+-.+|.+.|++++|+..+.+.++.. +-+...|..+..++...|++++|+..|+...+
T Consensus        76 ~~~~~~nla~~~~~~~~~~~Ai~~~~~al~~~-p~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~  139 (169)
T d1ihga1          76 ALSCVLNIGACKLKMSDWQGAVDSCLEALEID-PSNTKALYRRAQGWQGLKEYDQALADLKKAQE  139 (169)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhhcccchhhhhhhhhhhhh-hhhhhHHHhHHHHHHHccCHHHHHHHHHHHHH
Confidence            45567777788888888888888888887753 23566788888888888888888888887763

>d2hr2a1 a.118.8.8 (A:2-157) Hypothetical protein CT2138 {Chlorobium tepidum [TaxId: 1097]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: CT2138-like
domain: Hypothetical protein CT2138
species: Chlorobium tepidum [TaxId: 1097]

Probab=96.24  E-value=0.033  Score=45.11  Aligned_cols=101  Identities=12%  Similarity=-0.060  Sum_probs=74.2

Q ss_pred             HHHHHH--HHHHHcCCCHHHHHHHHHHHHhcC-CCCC----------HHHHHHHHHHHhccCCHHHHHHHHHHHHHHhhh
Q 048743          500 YKLNSS--IYFFCKGKMIGDALKIYRRMQEMK-IRPT----------VETFYYLVYGHSSLEMYRDITILWGDIKRNIES  566 (653)
Q Consensus       500 ~~y~~l--i~~~~~~g~~~~a~~~~~~m~~~g-~~p~----------~~t~~~li~~~~~~~~~~~a~~~~~~~~~~~~~  566 (653)
                      .+|..+  ...+...|++++|++.|++.++.. -.|+          ...|+.+-.+|...|++++|...++...+....
T Consensus         8 ~a~~~l~~g~~~~~~g~y~~Ai~~y~~Al~i~~~~~~~~~~~~~~~~a~~~~nlg~~~~~lg~~~~A~~~~~~al~~~~~   87 (156)
T d2hr2a1           8 GAYLALSDAQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNR   87 (156)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhChhhhhhhhcccchhHHHHHHHHHHHHHHcCccchhhHhhhhhhhcccc
Confidence            355655  445567899999999999998621 1122          357888999999999999999999987754321


Q ss_pred             -CCCccC-----HHHHHHHHHHHHhCCCHHHHHHHHHHHH
Q 048743          567 -GVLAVS-----RDLYETLLLNFLQGGYFERVMEVIGYMK  600 (653)
Q Consensus       567 -~~~~p~-----~~~y~~li~~~~~~g~~~~a~~~~~~m~  600 (653)
                       ....++     ...|+.+-.+|...|++++|++.|++..
T Consensus        88 ~~~~~~~~~~~~~~a~~~~g~~~~~lg~~eeA~~~~~~Al  127 (156)
T d2hr2a1          88 RGELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVV  127 (156)
T ss_dssp             HCCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             cccccccccchhHHHHhhhHHHHHHHHHHHHHHHHHHHHH
Confidence             122222     2356678889999999999999998875

>d1zbpa1 e.61.1.1 (A:2-265) Hypothetical protein VPA1032 {Vibrio parahaemolyticus [TaxId: 670]}

class: Multi-domain proteins (alpha and beta)
fold: ImpE-like
superfamily: ImpE-like
family: ImpE-like
domain: Hypothetical protein VPA1032
species: Vibrio parahaemolyticus [TaxId: 670]

Probab=96.23  E-value=0.0033  Score=56.47  Aligned_cols=103  Identities=9%  Similarity=-0.073  Sum_probs=67.5

Q ss_pred             CCC-CHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHH
Q 048743          340 LLH-SNRAMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTY  418 (653)
Q Consensus       340 ~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~  418 (653)
                      ..| +...+..+...++..|++++|.+.|+...+..  |.+...+..+...+...+..+++..-...-...+-+++...+
T Consensus        25 ~~P~d~~ar~~La~lL~~~G~~e~A~~~l~~a~~l~--P~~~~~~~~l~~ll~a~~~~~~a~~~~~~~~~~~~p~~~~~~  102 (264)
T d1zbpa1          25 ASPKDASLRSSFIELLCIDGDFERADEQLMQSIKLF--PEYLPGASQLRHLVKAAQARKDFAQGAATAKVLGENEELTKS  102 (264)
T ss_dssp             TCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--GGGHHHHHHHHHHHHHHHHHHHHTTSCCCEECCCSCHHHHHH
T ss_pred             HCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CCcHHHHHHHHHHHHhccccHHHHHHhhhhhcccCchHHHHH
Confidence            334 55688999999999999999999999999877  655555555544444333333322211111111222333445


Q ss_pred             HHHHHHHHHcCChHHHHHHHHHHHHc
Q 048743          419 KSLLTAYYKVKMFREAEALLKQMRKS  444 (653)
Q Consensus       419 ~~li~~~~~~~~~~~a~~~~~~m~~~  444 (653)
                      ......+.+.|+.++|..+++...+.
T Consensus       103 l~~a~~~~~~gd~~~A~~~~~~a~e~  128 (264)
T d1zbpa1         103 LVSFNLSMVSQDYEQVSELALQIEEL  128 (264)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCCHHHHHHHHHHHHhc
Confidence            55567788899999999999998874

>d1zu2a1 a.118.8.1 (A:1-145) Mitochondrial import receptor subunit tom20-3 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondrial import receptor subunit tom20-3
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=95.99  E-value=0.013  Score=46.98  Aligned_cols=116  Identities=9%  Similarity=0.003  Sum_probs=74.4

Q ss_pred             ccccCCHHHHHHHHHHHHHccCCC-CHHHHHHHHHHHHcC----------CCHHHHHHHHHHHHhcCCCCCHHHHHHHHH
Q 048743          474 SSLMDKSDLAESLIQEMREEAALS-TIYKLNSSIYFFCKG----------KMIGDALKIYRRMQEMKIRPTVETFYYLVY  542 (653)
Q Consensus       474 ~~~~~~~~~a~~~~~~m~~~~~~p-~~~~y~~li~~~~~~----------g~~~~a~~~~~~m~~~g~~p~~~t~~~li~  542 (653)
                      |-+.+.+++|...|+...+..  | +..+|..+-.+|...          +.+++|++.|++.++.. +-+..+|..+..
T Consensus         7 ~~r~~~fe~A~~~~e~al~~~--P~~~~~~~~~g~~l~~~~~~~~~~e~~~~~~~Ai~~~~kAl~l~-P~~~~a~~~lG~   83 (145)
T d1zu2a1           7 FDRILLFEQIRQDAENTYKSN--PLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLID-PKKDEAVWCIGN   83 (145)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             HHHHccHHHHHHHHHHHHhhC--CcchHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHhc-chhhHHHhhHHH
Confidence            334677899999999988766  6 777777777777643          44578888888888743 224567777777


Q ss_pred             HHhccCC-----------HHHHHHHHHHHHHHhhhCCCccCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhCCC
Q 048743          543 GHSSLEM-----------YRDITILWGDIKRNIESGVLAVSRDLYETLLLNFLQGGYFERVMEVIGYMKKQNM  604 (653)
Q Consensus       543 ~~~~~~~-----------~~~a~~~~~~~~~~~~~~~~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~  604 (653)
                      +|...|+           +++|.+.|+...      .+.|+...|..-+..+      .+|.+++.+..+.|+
T Consensus        84 ~y~~~g~~~~~~~~~~~~~~~A~~~~~kal------~l~P~~~~~~~~L~~~------~ka~~~~~e~~k~~~  144 (145)
T d1zu2a1          84 AYTSFAFLTPDETEAKHNFDLATQFFQQAV------DEQPDNTHYLKSLEMT------AKAPQLHAEAYKQGL  144 (145)
T ss_dssp             HHHHHHHHCCCHHHHHHHHHHHHHHHHHHH------HHCTTCHHHHHHHHHH------HTHHHHHHHHHHSSS
T ss_pred             HHHHcccchhhHHHHHHhHHHhhhhhhccc------ccCCCHHHHHHHHHHH------HHHHHHHHHHHHHhc
Confidence            7766543           355555555554      3556655555444333      345566666555553

>d1zbpa1 e.61.1.1 (A:2-265) Hypothetical protein VPA1032 {Vibrio parahaemolyticus [TaxId: 670]}

class: Multi-domain proteins (alpha and beta)
fold: ImpE-like
superfamily: ImpE-like
family: ImpE-like
domain: Hypothetical protein VPA1032
species: Vibrio parahaemolyticus [TaxId: 670]

Probab=95.87  E-value=0.01  Score=53.06  Aligned_cols=119  Identities=11%  Similarity=-0.076  Sum_probs=78.9

Q ss_pred             ccCCHHHHHHHHHHHHHccCCC-CHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCHH-HHHHHHHHHhccCCHHHH
Q 048743          476 LMDKSDLAESLIQEMREEAALS-TIYKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRPTVE-TFYYLVYGHSSLEMYRDI  553 (653)
Q Consensus       476 ~~~~~~~a~~~~~~m~~~~~~p-~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~-t~~~li~~~~~~~~~~~a  553 (653)
                      +.|++++|...+++..+..  | |...+..+...|+..|++++|.+.|+...+.  .|+.. .+..+...+...+..+++
T Consensus         8 ~~G~l~eAl~~l~~al~~~--P~d~~ar~~La~lL~~~G~~e~A~~~l~~a~~l--~P~~~~~~~~l~~ll~a~~~~~~a   83 (264)
T d1zbpa1           8 SEGQLQQALELLIEAIKAS--PKDASLRSSFIELLCIDGDFERADEQLMQSIKL--FPEYLPGASQLRHLVKAAQARKDF   83 (264)
T ss_dssp             TTTCHHHHHHHHHHHHHTC--TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CGGGHHHHHHHHHHHHHHHHHHHH
T ss_pred             HCCCHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHhccccHHH
Confidence            4799999999999998876  6 8899999999999999999999999999875  45533 333333333322222222


Q ss_pred             HHHHHHHHHHhhhCCCccCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhC
Q 048743          554 TILWGDIKRNIESGVLAVSRDLYETLLLNFLQGGYFERVMEVIGYMKKQ  602 (653)
Q Consensus       554 ~~~~~~~~~~~~~~~~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~  602 (653)
                      .....    .....+-.++...+......+.+.|+.++|.+++++..+.
T Consensus        84 ~~~~~----~~~~~~~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a~e~  128 (264)
T d1zbpa1          84 AQGAA----TAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEEL  128 (264)
T ss_dssp             TTSCC----CEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHhh----hhhcccCchHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhc
Confidence            11100    0000011122333444556678899999999999988654

>d1zu2a1 a.118.8.1 (A:1-145) Mitochondrial import receptor subunit tom20-3 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondrial import receptor subunit tom20-3
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=95.71  E-value=0.017  Score=46.22  Aligned_cols=92  Identities=12%  Similarity=0.074  Sum_probs=71.2

Q ss_pred             HHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHc----------CCHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 048743          354 YKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQL----------GFLEAAHDILDDMELAGHPMDSTTYKSLLT  423 (653)
Q Consensus       354 ~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~----------g~~~~a~~~~~~m~~~g~~p~~~~~~~li~  423 (653)
                      |-+.+.+++|+..|+...+..  |.+..++..+-.+|...          +.+++|...|++..+.. +-+..+|..+-.
T Consensus         7 ~~r~~~fe~A~~~~e~al~~~--P~~~~~~~~~g~~l~~~~~~~~~~e~~~~~~~Ai~~~~kAl~l~-P~~~~a~~~lG~   83 (145)
T d1zu2a1           7 FDRILLFEQIRQDAENTYKSN--PLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLID-PKKDEAVWCIGN   83 (145)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             HHHHccHHHHHHHHHHHHhhC--CcchHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHhc-chhhHHHhhHHH
Confidence            445667999999999999988  88888888888887754          44578999999988753 336778888888


Q ss_pred             HHHHcCC-----------hHHHHHHHHHHHHcCCccCc
Q 048743          424 AYYKVKM-----------FREAEALLKQMRKSCLVQNL  450 (653)
Q Consensus       424 ~~~~~~~-----------~~~a~~~~~~m~~~~~~p~~  450 (653)
                      +|...|+           +++|.+.|+...+  +.|+.
T Consensus        84 ~y~~~g~~~~~~~~~~~~~~~A~~~~~kal~--l~P~~  119 (145)
T d1zu2a1          84 AYTSFAFLTPDETEAKHNFDLATQFFQQAVD--EQPDN  119 (145)
T ss_dssp             HHHHHHHHCCCHHHHHHHHHHHHHHHHHHHH--HCTTC
T ss_pred             HHHHcccchhhHHHHHHhHHHhhhhhhcccc--cCCCH
Confidence            8876543           6788888888876  45765

>d2hr2a1 a.118.8.8 (A:2-157) Hypothetical protein CT2138 {Chlorobium tepidum [TaxId: 1097]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: CT2138-like
domain: Hypothetical protein CT2138
species: Chlorobium tepidum [TaxId: 1097]

Probab=95.68  E-value=0.092  Score=42.26  Aligned_cols=98  Identities=16%  Similarity=0.008  Sum_probs=73.6

Q ss_pred             HHHHH--HHHHHhcCChHHHHHHHHHHHhcCCCCCC----------cccHHHHHHHHHHcCCHHHHHHHHHHHHHC----
Q 048743          346 AMAKL--INGYKKHGKNSELSWLLLSIKKEHHSFGE----------STLCSDVIDALIQLGFLEAAHDILDDMELA----  409 (653)
Q Consensus       346 ~~~~l--i~~~~~~~~~~~a~~~~~~m~~~~~~~~~----------~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----  409 (653)
                      +|..+  ...+.+.|++++|+..|++..+.....++          ...|+.+..+|.+.|++++|...+++..+.    
T Consensus         9 a~~~l~~g~~~~~~g~y~~Ai~~y~~Al~i~~~~~~~~~~~~~~~~a~~~~nlg~~~~~lg~~~~A~~~~~~al~~~~~~   88 (156)
T d2hr2a1           9 AYLALSDAQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRR   88 (156)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhChhhhhhhhcccchhHHHHHHHHHHHHHHcCccchhhHhhhhhhhccccc
Confidence            45555  55667889999999999998764422222          245888999999999999999999887542    


Q ss_pred             -CCCCC-----HHHHHHHHHHHHHcCChHHHHHHHHHHHH
Q 048743          410 -GHPMD-----STTYKSLLTAYYKVKMFREAEALLKQMRK  443 (653)
Q Consensus       410 -g~~p~-----~~~~~~li~~~~~~~~~~~a~~~~~~m~~  443 (653)
                       ...++     ...|+.+-.+|...|++++|...|++..+
T Consensus        89 ~~~~~~~~~~~~~a~~~~g~~~~~lg~~eeA~~~~~~Al~  128 (156)
T d2hr2a1          89 GELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVE  128 (156)
T ss_dssp             CCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             ccccccccchhHHHHhhhHHHHHHHHHHHHHHHHHHHHHH
Confidence             12222     23567788899999999999999999876

>d1ya0a1 a.118.8.1 (A:1-497) SMG-7 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: SMG-7
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.41  E-value=0.026  Score=56.04  Aligned_cols=101  Identities=10%  Similarity=-0.095  Sum_probs=57.3

Q ss_pred             cccCCHHHHHHHHHHHHHccCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCC-HHHHHHHHHHHhccCCHHHH
Q 048743          475 SLMDKSDLAESLIQEMREEAALSTIYKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRPT-VETFYYLVYGHSSLEMYRDI  553 (653)
Q Consensus       475 ~~~~~~~~a~~~~~~m~~~~~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~t~~~li~~~~~~~~~~~a  553 (653)
                      .+.|+.+.|...+.......   ...++..+-..+...|++++|+..|++..+.  .|+ ..+|+.|...+...|+..+|
T Consensus       131 ~~~~~~~~A~~~~~~al~~~---~~~~~~~LG~l~~~~~~~~~A~~~y~~A~~l--~P~~~~~~~~Lg~~~~~~~~~~~A  205 (497)
T d1ya0a1         131 NKQTHTSAIVKPQSSSCSYI---CQHCLVHLGDIARYRNQTSQAESYYRHAAQL--VPSNGQPYNQLAILASSKGDHLTT  205 (497)
T ss_dssp             ------------CCHHHHHH---HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTBSHHHHHHHHHHHHTTCHHHH
T ss_pred             HhCCCHHHHHHHHHHHhCCC---HHHHHHHHHHHHHHcccHHHHHHHHHHHHHH--CCCchHHHHHHHHHHHHcCCHHHH
Confidence            34566666666655544322   1245666777777778888888888877764  344 45777777777788888888


Q ss_pred             HHHHHHHHHHhhhCCCccCHHHHHHHHHHHHh
Q 048743          554 TILWGDIKRNIESGVLAVSRDLYETLLLNFLQ  585 (653)
Q Consensus       554 ~~~~~~~~~~~~~~~~~p~~~~y~~li~~~~~  585 (653)
                      ...|....     .--.|-..++..|...+.+
T Consensus       206 ~~~y~ral-----~~~~~~~~a~~nL~~~~~~  232 (497)
T d1ya0a1         206 IFYYCRSI-----AVKFPFPAASTNLQKALSK  232 (497)
T ss_dssp             HHHHHHHH-----SSSBCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHH-----hCCCCCHHHHHHHHHHHHH
Confidence            77776654     1234556666666666554

>d1ya0a1 a.118.8.1 (A:1-497) SMG-7 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: SMG-7
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.13  E-value=0.051  Score=53.78  Aligned_cols=81  Identities=7%  Similarity=-0.166  Sum_probs=60.6

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 048743          346 AMAKLINGYKKHGKNSELSWLLLSIKKEHHSFGESTLCSDVIDALIQLGFLEAAHDILDDMELAGHPMDSTTYKSLLTAY  425 (653)
Q Consensus       346 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~  425 (653)
                      ++..+-..+...|++++|...|++..+..  |.+...|+.|...+...|+..+|...|.+-.... +|-..++..|...+
T Consensus       154 ~~~~LG~l~~~~~~~~~A~~~y~~A~~l~--P~~~~~~~~Lg~~~~~~~~~~~A~~~y~ral~~~-~~~~~a~~nL~~~~  230 (497)
T d1ya0a1         154 CLVHLGDIARYRNQTSQAESYYRHAAQLV--PSNGQPYNQLAILASSKGDHLTTIFYYCRSIAVK-FPFPAASTNLQKAL  230 (497)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTBSHHHHHHHHHHHHTTCHHHHHHHHHHHHSSS-BCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcccHHHHHHHHHHHHHHC--CCchHHHHHHHHHHHHcCCHHHHHHHHHHHHhCC-CCCHHHHHHHHHHH
Confidence            45667777778888888888888887776  7777778888888888888888888888776653 35677777777776


Q ss_pred             HHcC
Q 048743          426 YKVK  429 (653)
Q Consensus       426 ~~~~  429 (653)
                      .+..
T Consensus       231 ~~~~  234 (497)
T d1ya0a1         231 SKAL  234 (497)
T ss_dssp             HHHT
T ss_pred             HHhh
Confidence            6543

>d1tjca_ a.118.8.1 (A:) Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Prolyl 4-hydroxylase alpha-1 subunit, P4HA1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.80  E-value=0.39  Score=34.42  Aligned_cols=70  Identities=10%  Similarity=0.134  Sum_probs=46.8

Q ss_pred             HHHHHHHHhccCCHHHHHHHHHHHHHHhhhC-CCccC-HHHHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCCH
Q 048743          537 FYYLVYGHSSLEMYRDITILWGDIKRNIESG-VLAVS-RDLYETLLLNFLQGGYFERVMEVIGYMKKQNMYVDK  608 (653)
Q Consensus       537 ~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~p~-~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~  608 (653)
                      +-.+...+.+.|++++|...|++..+..... ...++ ..+++.+-.++.+.|++++|++.+++..+.  .|+.
T Consensus         8 c~~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l--~P~~   79 (95)
T d1tjca_           8 SFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLEL--DPEH   79 (95)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTC
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHHh--CcCC
Confidence            3355667777888888888887776543322 11222 456777888888888888888888887743  4653

>d1tjca_ a.118.8.1 (A:) Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Prolyl 4-hydroxylase alpha-1 subunit, P4HA1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.78  E-value=0.18  Score=36.28  Aligned_cols=63  Identities=10%  Similarity=-0.029  Sum_probs=35.6

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHhcCC-----CCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHC
Q 048743          347 MAKLINGYKKHGKNSELSWLLLSIKKEHH-----SFGESTLCSDVIDALIQLGFLEAAHDILDDMELA  409 (653)
Q Consensus       347 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~-----~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  409 (653)
                      +..+-..+.+.|++++|...|++..+...     .+....+++.+..++.+.|++++|...+++..+.
T Consensus         8 c~~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l   75 (95)
T d1tjca_           8 SFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLEL   75 (95)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHHh
Confidence            34555666667777777777666543220     0111223556666666666666666666666553

>d2pqrb1 a.118.8.1 (B:5-128) Mitochondria fission protein Fis1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondria fission protein Fis1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=88.93  E-value=1.9  Score=32.19  Aligned_cols=81  Identities=9%  Similarity=-0.029  Sum_probs=57.3

Q ss_pred             CCCchhHHHHHHHhhccCCcchhhhHHHHHHHHHhccCCchhHHHHHHHHHHHHhcCCCchHHHHHHHHHcCccCCCchh
Q 048743           51 IPERHVVNRFITDLCYSAEPHWLQKACDLVLKIQKGKADLLQLDLLAKLSLSLARAQMPVPASMILRLMLGRENLPCSDL  130 (653)
Q Consensus        51 ~~~~~~~~~ll~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~  130 (653)
                      .+...+-=..-.++.++.....+++++.+|+++.+..+.. ..+.+-.|..+|.+.|++++|.+.++.+.+.  .|+..-
T Consensus        32 ~~s~qt~F~YAw~Lv~S~~~~d~~~gI~lLe~~~~~~p~~-~rd~lY~Lav~yyklgdy~~A~~~~~~~L~i--eP~n~q  108 (124)
T d2pqrb1          32 TATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESR-RRECLYYLTIGCYKLGEYSMAKRYVDTLFEH--ERNNKQ  108 (124)
T ss_dssp             GSCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGG-HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CTTCHH
T ss_pred             CCCcchHHHHHHHHHcCCcHHHHHHHHHHHHHHHhcCchh-HHHHHHHHHHHHHHHhhHHHHHHHHHHHHcc--CCCcHH
Confidence            3444443344455667777777999999999987654321 2345566677899999999999999999875  677655


Q ss_pred             HHHH
Q 048743          131 LLLV  134 (653)
Q Consensus       131 ~~~l  134 (653)
                      ...+
T Consensus       109 A~~L  112 (124)
T d2pqrb1         109 VGAL  112 (124)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            4444

>d1wy6a1 a.118.20.1 (A:7-167) Hypothetical protein ST1625 {Archaeon Sulfolobus tokodaii [TaxId: 111955]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Hypothetical protein ST1625
family: Hypothetical protein ST1625
domain: Hypothetical protein ST1625
species: Archaeon Sulfolobus tokodaii [TaxId: 111955]

Probab=87.86  E-value=4  Score=30.23  Aligned_cols=60  Identities=12%  Similarity=0.044  Sum_probs=34.8

Q ss_pred             HHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHH
Q 048743          500 YKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRPTVETFYYLVYGHSSLEMYRDITILWGDI  560 (653)
Q Consensus       500 ~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~~  560 (653)
                      ..++..++.+...|+-++-.++++++.+ +-+|++.....+..+|.+.|...++.+++.+.
T Consensus        87 e~vdlALd~lv~~~kkd~Ld~i~~~l~k-n~~i~~~~llkia~A~kkig~~re~nell~~A  146 (161)
T d1wy6a1          87 EHVNKALDILVIQGKRDKLEEIGREILK-NNEVSASILVAIANALRRVGDERDATTLLIEA  146 (161)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHh-cCCCCHHHHHHHHHHHHHhcchhhHHHHHHHH
Confidence            3455556666666666666666666544 33555555566666666666666666665544

>d1klxa_ a.118.18.1 (A:) Cysteine rich protein B (HcpB) {Helicobacter pylori [TaxId: 210]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: HCP-like
family: HCP-like
domain: Cysteine rich protein B (HcpB)
species: Helicobacter pylori [TaxId: 210]

Probab=86.92  E-value=4  Score=30.80  Aligned_cols=49  Identities=10%  Similarity=-0.105  Sum_probs=24.0

Q ss_pred             CCHHHHHHHHHHHHHccCCCCHHHHHHHHHHHHc----CCCHHHHHHHHHHHHhcC
Q 048743          478 DKSDLAESLIQEMREEAALSTIYKLNSSIYFFCK----GKMIGDALKIYRRMQEMK  529 (653)
Q Consensus       478 ~~~~~a~~~~~~m~~~~~~p~~~~y~~li~~~~~----~g~~~~a~~~~~~m~~~g  529 (653)
                      .+.++|...|+...+.|   ++.....|-..|..    ..+.++|.++|++..+.|
T Consensus        73 ~d~~~A~~~~~~aa~~g---~~~a~~~Lg~~y~~G~gv~~d~~~A~~~~~~Aa~~G  125 (133)
T d1klxa_          73 KDLRKAAQYYSKACGLN---DQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLG  125 (133)
T ss_dssp             CCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT
T ss_pred             hhhHHHHHHHhhhhccC---cchHHHHHHHHHHcCCccCCCHHHHHHHHHHHHHCC
Confidence            34555555555555544   22333333333332    345666666666655544

>d1wy6a1 a.118.20.1 (A:7-167) Hypothetical protein ST1625 {Archaeon Sulfolobus tokodaii [TaxId: 111955]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Hypothetical protein ST1625
family: Hypothetical protein ST1625
domain: Hypothetical protein ST1625
species: Archaeon Sulfolobus tokodaii [TaxId: 111955]

Probab=86.29  E-value=5  Score=29.71  Aligned_cols=121  Identities=9%  Similarity=-0.032  Sum_probs=82.4

Q ss_pred             cCCHHHHHHHHHHHHHccCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHh-cCC----------------CCCHHHHHH
Q 048743          477 MDKSDLAESLIQEMREEAALSTIYKLNSSIYFFCKGKMIGDALKIYRRMQE-MKI----------------RPTVETFYY  539 (653)
Q Consensus       477 ~~~~~~a~~~~~~m~~~~~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~-~g~----------------~p~~~t~~~  539 (653)
                      .|.+++..+++.+.....   +..-||-+|--....-+-+-..++++..=. ..+                .-+...++.
T Consensus        15 dG~ve~Gveii~k~~~ss---~~~E~NW~ICNiidt~dC~~v~~~Ld~IG~~FDls~C~Nlk~vv~C~~~~n~~se~vdl   91 (161)
T d1wy6a1          15 DGYIDEGVKIVLEITKSS---TKSEYNWFICNLLESIDCRYMFQVLDKIGSYFDLDKCQNLKSVVECGVINNTLNEHVNK   91 (161)
T ss_dssp             TTCHHHHHHHHHHHHHHS---CHHHHTHHHHHHHHHCCHHHHHHHHHHHGGGSCGGGCSCTHHHHHHHHHTTCCCHHHHH
T ss_pred             hhhHHhHHHHHHHHcccC---CccccceeeeecccccchHHHHHHHHHHhhhcCchhhhcHHHHHHHHHHhcchHHHHHH
Confidence            688889999998888753   455566666555555555555555554422 111                123445666


Q ss_pred             HHHHHhccCCHHHHHHHHHHHHHHhhhCCCccCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhCCCC
Q 048743          540 LVYGHSSLEMYRDITILWGDIKRNIESGVLAVSRDLYETLLLNFLQGGYFERVMEVIGYMKKQNMY  605 (653)
Q Consensus       540 li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~  605 (653)
                      .++....+|+-+.-.++...+.   +  .-.|++...-.+..+|.+-|...++.+++.+..++|++
T Consensus        92 ALd~lv~~~kkd~Ld~i~~~l~---k--n~~i~~~~llkia~A~kkig~~re~nell~~ACe~G~K  152 (161)
T d1wy6a1          92 ALDILVIQGKRDKLEEIGREIL---K--NNEVSASILVAIANALRRVGDERDATTLLIEACKKGEK  152 (161)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHC-------CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHhccHHHHHHHHHHHH---h--cCCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHHhHH
Confidence            6777777888777777776654   2  34566777777888999999999999999999988874

>d1v54e_ a.118.11.1 (E:) Cytochrome c oxidase subunit E {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Cytochrome c oxidase subunit E
family: Cytochrome c oxidase subunit E
domain: Cytochrome c oxidase subunit E
species: Cow (Bos taurus) [TaxId: 9913]

Probab=81.01  E-value=7  Score=27.34  Aligned_cols=48  Identities=8%  Similarity=0.002  Sum_probs=36.2

Q ss_pred             CHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHH
Q 048743          514 MIGDALKIYRRMQEMKIRPTVETFYYLVYGHSSLEMYRDITILWGDIK  561 (653)
Q Consensus       514 ~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~~~  561 (653)
                      +.-++.+-++.+......|+.....+-+++|.+.+++..|.++|+.++
T Consensus        21 D~we~rrgmN~l~~~DlVPeP~Ii~aALrAcRRvND~alAVR~lE~vK   68 (105)
T d1v54e_          21 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVK   68 (105)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            455566666776677778888888888888888888888888887665

>d1klxa_ a.118.18.1 (A:) Cysteine rich protein B (HcpB) {Helicobacter pylori [TaxId: 210]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: HCP-like
family: HCP-like
domain: Cysteine rich protein B (HcpB)
species: Helicobacter pylori [TaxId: 210]

Probab=80.40  E-value=9.5  Score=28.50  Aligned_cols=112  Identities=7%  Similarity=-0.093  Sum_probs=70.8

Q ss_pred             CCHHHHHHHHHHHHHccCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhc----cCCHHHH
Q 048743          478 DKSDLAESLIQEMREEAALSTIYKLNSSIYFFCKGKMIGDALKIYRRMQEMKIRPTVETFYYLVYGHSS----LEMYRDI  553 (653)
Q Consensus       478 ~~~~~a~~~~~~m~~~~~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~----~~~~~~a  553 (653)
                      .+.++|...|.+-.+.|.   ...+..|.  .....+.++|++++++..+.|   +......|-..|..    ..+.++|
T Consensus         7 kd~~~A~~~~~kaa~~g~---~~a~~~l~--~~~~~~~~~a~~~~~~aa~~g---~~~a~~~Lg~~y~~g~~~~~d~~~A   78 (133)
T d1klxa_           7 KDLKKAIQYYVKACELNE---MFGCLSLV--SNSQINKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKKDLRKA   78 (133)
T ss_dssp             HHHHHHHHHHHHHHHTTC---TTHHHHHH--TCTTSCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHH
T ss_pred             cCHHHHHHHHHHHHHCCC---hhhhhhhc--cccccCHHHHHHHHhhhhccc---chhhhhhHHHhhhhccccchhhHHH
Confidence            467889999988888773   22333332  234567889999999888776   33333334333332    4577888


Q ss_pred             HHHHHHHHHHhhhCCCccCHHHHHHHHHHHHh----CCCHHHHHHHHHHHHhCCC
Q 048743          554 TILWGDIKRNIESGVLAVSRDLYETLLLNFLQ----GGYFERVMEVIGYMKKQNM  604 (653)
Q Consensus       554 ~~~~~~~~~~~~~~~~~p~~~~y~~li~~~~~----~g~~~~a~~~~~~m~~~g~  604 (653)
                      .++|+...    +.+   +......|-..|..    ..+.++|.++|+...+.|.
T Consensus        79 ~~~~~~aa----~~g---~~~a~~~Lg~~y~~G~gv~~d~~~A~~~~~~Aa~~G~  126 (133)
T d1klxa_          79 AQYYSKAC----GLN---DQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLGS  126 (133)
T ss_dssp             HHHHHHHH----HTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC
T ss_pred             HHHHhhhh----ccC---cchHHHHHHHHHHcCCccCCCHHHHHHHHHHHHHCCC
Confidence            88887664    223   23344445445554    4578888888888877775